Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 232 of 235
Found at i:77570773 original size:18 final size:20
Alignment explanation
Indices: 77570701--77570774 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 20
77570691 TTATTACTCC
*
77570701 TGTATATATTATTTTATCTTTA
1 TGTATATATTATTTTA--TATA
* * *
77570723 TATATCTTTTATCTTTATATA
1 TGTATATATTAT-TTTATATA
77570744 TGTATATATTATTTTA-ATA
1 TGTATATATTATTTTATATA
77570763 TGTAT-TATTATT
1 TGTATATATTATT
77570775 CTAAAATTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 7 0.16
19 8 0.18
20 4 0.09
21 12 0.27
22 9 0.20
23 4 0.09
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (20 bp):
TGTATATATTATTTTATATA
Found at i:77571628 original size:72 final size:72
Alignment explanation
Indices: 77571511--77571653 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 72
77571501 TCTCTTCAAA
* * *
77571511 CTCAAGTTTTAAATGATCTTGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
77571576 TTTTTTT
66 TTTTTTT
77571583 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
77571648 TTTTTT
66 TTTTTT
77571654 AAATCCGAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCC
TTTTTTT
Found at i:77585803 original size:19 final size:18
Alignment explanation
Indices: 77585771--77585806 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
77585761 CAATTTAGAA
*
77585771 ACGAAAATATTAATAATG
1 ACGAAAATAATAATAATG
77585789 ACGATAAATAATAATAAT
1 ACGA-AAATAATAATAAT
77585807 AACAGCAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (18 bp):
ACGAAAATAATAATAATG
Found at i:77586033 original size:3 final size:3
Alignment explanation
Indices: 77586027--77586067 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
77586017 GAGGGGAACT
77586027 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
77586068 TTTTGAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:77586240 original size:3 final size:3
Alignment explanation
Indices: 77586227--77586264 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
77586217 AAATAAAAGC
*
77586227 TAA TGA TAA TAA TAA TTAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA T
77586265 TTAAACTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:77586246 original size:16 final size:16
Alignment explanation
Indices: 77586227--77586264 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
77586217 AAATAAAAGC
*
77586227 TAATGATAATAATAAT
1 TAATAATAATAATAAT
77586243 TAATAATAATAATAA-
1 TAATAATAATAATAAT
77586258 TAATAAT
1 TAATAAT
77586265 TTAAACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
TAATAATAATAATAAT
Found at i:77586411 original size:3 final size:3
Alignment explanation
Indices: 77586360--77586391 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
77586350 TAAAGAAACA
*
77586360 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
77586392 CCTAATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:77588447 original size:14 final size:14
Alignment explanation
Indices: 77588428--77588456 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
77588418 AATGTAAAAA
77588428 TGCATAAGCAATGT
1 TGCATAAGCAATGT
77588442 TGCATAAGCAATGT
1 TGCATAAGCAATGT
77588456 T
1 T
77588457 ATGAACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TGCATAAGCAATGT
Found at i:77588564 original size:19 final size:21
Alignment explanation
Indices: 77588525--77588564 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
77588515 AAATTTCACA
*
77588525 TATTCAAACACATATCAATGG
1 TATTCAAACACATAGCAATGG
77588546 TATTC-AACACAT-GCAATGG
1 TATTCAAACACATAGCAATGG
77588565 CATGATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (21 bp):
TATTCAAACACATAGCAATGG
Found at i:77590474 original size:4 final size:4
Alignment explanation
Indices: 77590465--77590512 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
77590455 ATGTTATGTT
* * * *
77590465 TTTA TTTA TTTA TTTA TTTA TATA TTCA TTCA TTTA TTTA TTTC TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
77590513 ATTTTTTGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:77591899 original size:17 final size:17
Alignment explanation
Indices: 77591877--77591914 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
77591867 CCTTCGTATG
77591877 TCTTTGTGAGATTTTCA
1 TCTTTGTGAGATTTTCA
77591894 TCTTTGTGAGATTTTCA
1 TCTTTGTGAGATTTTCA
77591911 TCTT
1 TCTT
77591915 CATATAGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (17 bp):
TCTTTGTGAGATTTTCA
Found at i:77598379 original size:75 final size:74
Alignment explanation
Indices: 77598240--77598385 Score: 170
Period size: 75 Copynumber: 2.0 Consensus size: 74
77598230 CTATAGTATT
* * ** * *
77598240 CAAATATATGTATATGTTCTTTGTATTGAATTTAGGTATGCCATTTATACAAGTTTATATGAGGT
1 CAAATATATGTATATGTTCTTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGAGGT
77598305 TCGATTGTG
66 TCGATTGTG
* * *
77598314 CAAATATGCATGTATATGTTC-TTGTAATGAGTTTAAGTATGAAATTTATATATGTATA-AGGGA
1 CAAATAT--ATGTATATGTTCTTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATA-GGA
77598377 GGTTCGATT
63 GGTTCGATT
77598386 ATGTATGCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
74 8 0.13
75 40 0.67
76 12 0.20
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (74 bp):
CAAATATATGTATATGTTCTTTGTAATGAATTTAAGTATGAAATTTATACAAGTATATAGGAGGT
TCGATTGTG
Found at i:77598749 original size:41 final size:41
Alignment explanation
Indices: 77598704--77598818 Score: 176
Period size: 41 Copynumber: 2.8 Consensus size: 41
77598694 TTTATTGCTA
* *
77598704 GTGAAACATTTCAGAATTTACGTCTAGCAGGCTTGATGCCG
1 GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGACGCCG
*
77598745 GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGACGCCT
1 GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGACGCCG
* * *
77598786 GTGAAACATTTAAGACTTTATGTCTAGTAGGCT
1 GTGAAACATTTCAGACTTTACGTCTAGCAGGCT
77598819 AAGTGCCAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
GTGAAACATTTCAGACTTTACGTCTAGCAGGCTTGACGCCG
Found at i:77600636 original size:44 final size:44
Alignment explanation
Indices: 77600588--77600889 Score: 261
Period size: 44 Copynumber: 6.9 Consensus size: 44
77600578 CTTTGAGTAA
*
77600588 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCT
* * *
77600632 TATCTCCCTGAAGATGCAGTGGAGTAGATTGAAGTTACAAATTT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCT
* * * * *
77600676 TATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGATACGAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCT
* * * * * * *
77600720 CATCTCCCTGAAGTTGTAGTGCAGCAAATTAAAGCTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCT
* * * * * * * * *
77600764 AATCTCTCTAAAGTTGTAGTGTAGTAGATTAAAACAACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCT
* *
77600808 TATACAT--CTGAAGTTGCAGTGGAGTAGATTGAAGCAACAAATCC
1 TAT-C-TCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCT
* * * *
77600852 TATACAT--CTGAAGCTGTAGTGGATTAGAATGAAGCTAC
1 TAT-C-TCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTAC
77600890 TTGGAAAAGA
Statistics
Matches: 218, Mismatches: 38, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
44 216 0.99
45 1 0.00
46 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCT
Found at i:77602514 original size:3 final size:3
Alignment explanation
Indices: 77602419--77602496 Score: 111
Period size: 3 Copynumber: 25.7 Consensus size: 3
77602409 TAGAATAGTA
*
77602419 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* **
77602467 ATT ATT ATG ATTT ATT ATT ACC ATT ATT AT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT AT
77602497 ACATTTATAC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
3 64 0.97
4 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:77605351 original size:32 final size:32
Alignment explanation
Indices: 77605293--77605363 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
77605283 AAATTTCAAT
* *
77605293 AAATAAAATATATATAAAATTATTAAATATTA
1 AAATAATATATATATAAAATTATTAAAAATTA
*
77605325 AAATAATATA-ATATAAATATTTTTAAAAATTA
1 AAATAATATATATATAAA-ATTATTAAAAATTA
77605357 AAA-AATA
1 AAATAATA
77605364 AAATTGGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 11 0.31
32 24 0.69
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
AAATAATATATATATAAAATTATTAAAAATTA
Found at i:77607493 original size:16 final size:16
Alignment explanation
Indices: 77607472--77607504 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
77607462 AATATATATA
77607472 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
77607488 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
77607504 T
1 T
77607505 AAAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTAAGTTTTTTATGTT
Found at i:77607546 original size:14 final size:14
Alignment explanation
Indices: 77607478--77607544 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 14
77607468 TATATTAAGT
*
77607478 TTTTTATGTTTTAAGT
1 TTTTTATG-TTTAA-A
77607494 TTTTTATGTTTAAAA
1 TTTTTATGTTT-AAA
* * *
77607509 TATATATATTT--A
1 TTTTTATGTTTAAA
77607521 TTTTTATGTTTAAA
1 TTTTTATGTTTAAA
77607535 TTTTTA-GTTT
1 TTTTTATGTTT
77607545 TAGTTTTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
12 9 0.22
13 4 0.10
14 7 0.17
15 11 0.27
16 10 0.24
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTTATGTTTAAA
Found at i:77607551 original size:27 final size:28
Alignment explanation
Indices: 77607478--77607551 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 28
77607468 TATATTAAGT
77607478 TTTTTATGTTTTAAGTTTTTTATGTTTAAAA
1 TTTTTA-GTTTT-AG-TTTTTATGTTTAAAA
* *
77607509 TATATA-TATTTA-TTTTTATGTTT-AAA
1 TTTTTAGT-TTTAGTTTTTATGTTTAAAA
77607535 TTTTTAGTTTTAGTTTT
1 TTTTTAGTTTTAGTTTT
77607552 CAATTTCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
26 11 0.31
27 16 0.44
29 2 0.06
30 3 0.08
31 4 0.11
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (28 bp):
TTTTTAGTTTTAGTTTTTATGTTTAAAA
Found at i:77607596 original size:20 final size:20
Alignment explanation
Indices: 77607573--77607613 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
77607563 CCCCTGACAG
*
77607573 TTTAAGTTTTCAATTTTATT
1 TTTAAGTTTTCAATTTCATT
*
77607593 TTTATGTTTTCAATTTCATT
1 TTTAAGTTTTCAATTTCATT
77607613 T
1 T
77607614 CCCCGACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTAAGTTTTCAATTTCATT
Found at i:77607692 original size:19 final size:19
Alignment explanation
Indices: 77607670--77607710 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
77607660 ATGTTTAATT
77607670 TTTTAGTTTAAGTTTTCAA
1 TTTTAGTTTAAGTTTTCAA
* *
77607689 TTTTATTTTTAGTTTTCAA
1 TTTTAGTTTAAGTTTTCAA
77607708 TTT
1 TTT
77607711 CATTTCCCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (19 bp):
TTTTAGTTTAAGTTTTCAA
Found at i:77607962 original size:16 final size:16
Alignment explanation
Indices: 77607941--77607980 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
77607931 GATTTTGTTA
*
77607941 TAACAATTAATATAAT
1 TAACAATTAATACAAT
77607957 TAACAATTAATACAAT
1 TAACAATTAATACAAT
*
77607973 TAATAATT
1 TAACAATT
77607981 TGATAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (16 bp):
TAACAATTAATACAAT
Found at i:77608071 original size:16 final size:16
Alignment explanation
Indices: 77608050--77608091 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
77608040 AATAATTTGA
*
77608050 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
77608066 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
77608082 TAGTTTTAAT
1 TAATTTTAAT
77608092 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:77608075 original size:22 final size:23
Alignment explanation
Indices: 77608065--77608115 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
77608055 TTACTAACAA
* * *
77608065 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATAAAAAAATTAATT
*
77608087 TTAATTTTATCAAAAAATTAATT
1 TTAATTTTATAAAAAAATTAATT
77608110 TTAATT
1 TTAATT
77608116 AAAAACGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTTTATAAAAAAATTAATT
Found at i:77608581 original size:32 final size:31
Alignment explanation
Indices: 77608536--77608621 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 31
77608526 CAACCTAGTG
* *
77608536 ACTTATATAAAAACTTTTGAATAGTTTAATA
1 ACTTAAATGAAAACTTTTGAATAGTTTAATA
* * * *
77608567 ACTTAAATTGAAAACTCTTGAATGGTTTAGTT
1 ACTTAAA-TGAAAACTTTTGAATAGTTTAATA
*
77608599 ACTTAAATGAAAACTTTTAAATA
1 ACTTAAATGAAAACTTTTGAATA
77608622 TTTCAATGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 19 0.42
32 26 0.58
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTTGAATAGTTTAATA
Found at i:77611340 original size:3 final size:3
Alignment explanation
Indices: 77611327--77611359 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
77611317 TATATGATGT
77611327 AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
77611360 TACCACTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:77612335 original size:18 final size:19
Alignment explanation
Indices: 77612289--77612348 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 19
77612279 CACATTTTAT
77612289 ATTATTTATAT--TATTGA
1 ATTATTTATATCATATTGA
*
77612306 ATTGTTTA-ATCATATTGA
1 ATTATTTATATCATATTGA
*
77612324 A-TATTTATATCAAAATTGA
1 ATTATTTATATC-ATATTGA
77612343 ATTATT
1 ATTATT
77612349 AATTATGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 2 0.06
17 12 0.34
18 10 0.29
19 7 0.20
20 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (19 bp):
ATTATTTATATCATATTGA
Found at i:77613188 original size:14 final size:15
Alignment explanation
Indices: 77613147--77613181 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
77613137 AAGAACTCGT
77613147 TGGATTACTCATTAA
1 TGGATTACTCATTAA
77613162 TGGATTACTCATTAA
1 TGGATTACTCATTAA
77613177 TGGAT
1 TGGAT
77613182 CCTCATTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (15 bp):
TGGATTACTCATTAA
Found at i:77618761 original size:19 final size:19
Alignment explanation
Indices: 77618739--77618794 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
77618729 TGAGTTGGGA
77618739 AAGAGGATAGAACAGTTAG
1 AAGAGGATAGAACAGTTAG
*
77618758 AAGAGG--A-AAGAG-T--
1 AAGAGGATAGAACAGTTAG
77618771 AAGAGGATAGAACAGTTAG
1 AAGAGGATAGAACAGTTAG
77618790 AAGAG
1 AAGAG
77618795 AAAAGAGTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 6 0.21
15 2 0.07
16 8 0.28
17 2 0.07
19 11 0.38
ACGTcount: A:0.50, C:0.04, G:0.34, T:0.12
Consensus pattern (19 bp):
AAGAGGATAGAACAGTTAG
Found at i:77618780 original size:32 final size:32
Alignment explanation
Indices: 77618739--77618802 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
77618729 TGAGTTGGGA
*
77618739 AAGAGGATAGAACAGTTAGAAGAGGAAAGAGT
1 AAGAGGATAGAACAGTTAGAAGAGAAAAGAGT
77618771 AAGAGGATAGAACAGTTAGAAGAGAAAAGAGT
1 AAGAGGATAGAACAGTTAGAAGAGAAAAGAGT
77618803 GCATTTGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.33, T:0.12
Consensus pattern (32 bp):
AAGAGGATAGAACAGTTAGAAGAGAAAAGAGT
Found at i:77634013 original size:25 final size:25
Alignment explanation
Indices: 77633982--77634029 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
77633972 GGAAGAACGT
77633982 CCACACTTTTCTGGAAAAATCATGC
1 CCACACTTTTCTGGAAAAATCATGC
*
77634007 CCACACTTTTCTGGAAAAGTCAT
1 CCACACTTTTCTGGAAAAATCAT
77634030 CAATAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (25 bp):
CCACACTTTTCTGGAAAAATCATGC
Found at i:77638133 original size:11 final size:11
Alignment explanation
Indices: 77638112--77638153 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
77638102 TAAAATTTCA
77638112 AAAATAT-AAT
1 AAAATATAAAT
77638122 AAAATATAAAT
1 AAAATATAAAT
*
77638133 ATAATATAAAAT
1 AAAATAT-AAAT
*
77638145 TAAATATAA
1 AAAATATAA
77638154 TATTCATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 7 0.26
11 11 0.41
12 9 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:77638150 original size:17 final size:18
Alignment explanation
Indices: 77638120--77638156 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
77638110 CAAAAATATA
77638120 ATAAAATATAAATATAAT
1 ATAAAATATAAATATAAT
77638138 ATAAAAT-TAAATATAAT
1 ATAAAATATAAATATAAT
77638155 AT
1 AT
77638157 TCATAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAATATAAATATAAT
Found at i:77638254 original size:21 final size:24
Alignment explanation
Indices: 77638207--77638261 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
77638197 TTATCAATAG
77638207 AATTTTTTAAAATTATTATTATTT
1 AATTTTTTAAAATTATTATTATTT
77638231 AATTTTTTAAAATT-TTA-T-TTT
1 AATTTTTTAAAATTATTATTATTT
*
77638252 AATTATTTAA
1 AATTTTTTAA
77638262 TTATATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 12 0.40
22 1 0.03
23 3 0.10
24 14 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
AATTTTTTAAAATTATTATTATTT
Found at i:77638277 original size:29 final size:25
Alignment explanation
Indices: 77638207--77638277 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 25
77638197 TTATCAATAG
77638207 AATTTTTTAAAATTA-TTATTATTT
1 AATTTTTTAAAATTATTTATTATTT
77638231 AATTTTTTAAAATTTTATTTTAATTATTT
1 AATTTTTTAAAA--TTA-TTT-ATTATTT
77638260 AATTATATTTAAAATTAT
1 AATT-T-TTTAAAATTAT
77638278 CATAACATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
24 12 0.30
26 3 0.08
28 3 0.08
29 14 0.35
30 1 0.03
31 7 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
AATTTTTTAAAATTATTTATTATTT
Found at i:77641431 original size:25 final size:25
Alignment explanation
Indices: 77641403--77641452 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
77641393 TTTCCATTTT
*
77641403 GTTTCAAAAGGACCCTGGATTGTTC
1 GTTTCAAAAGGACCCAGGATTGTTC
77641428 GTTTCAAAAGGACCCAGGATTGTTC
1 GTTTCAAAAGGACCCAGGATTGTTC
77641453 TCAAATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
GTTTCAAAAGGACCCAGGATTGTTC
Found at i:77648197 original size:50 final size:51
Alignment explanation
Indices: 77648072--77648310 Score: 211
Period size: 50 Copynumber: 4.7 Consensus size: 51
77648062 TGATAATACA
* * * ** *
77648072 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATAT-CGG
* * * * *
77648121 TGTCAATGCCATATCTCAGATATGGTCTTACATGGGA-GTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATATCGG
* * ** *
77648171 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACC-TCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATATCGG
* *
77648221 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATAGTCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATA---TC---GG
77648277 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
77648311 TGATCTCTTT
Statistics
Matches: 153, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
48 6 0.04
49 33 0.22
50 77 0.50
51 1 0.01
53 2 0.01
56 34 0.22
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATATCGG
Found at i:77653060 original size:11 final size:11
Alignment explanation
Indices: 77653044--77653068 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77653034 ATGGAAGGGT
77653044 AAAAAATAGAA
1 AAAAAATAGAA
77653055 AAAAAATAGAA
1 AAAAAATAGAA
77653066 AAA
1 AAA
77653069 TGAAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAATAGAA
Found at i:77657630 original size:15 final size:15
Alignment explanation
Indices: 77657610--77657639 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77657600 CAACGAACTA
77657610 GCAACCTTCCAAGGC
1 GCAACCTTCCAAGGC
*
77657625 GCAACCTTCCGAGGC
1 GCAACCTTCCAAGGC
77657640 CATGTTGCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.13
Consensus pattern (15 bp):
GCAACCTTCCAAGGC
Found at i:77659997 original size:17 final size:15
Alignment explanation
Indices: 77659960--77659999 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
77659950 TATATAAAAA
77659960 ATAAAAGAATAATAT
1 ATAAAAGAATAATAT
77659975 ATAAAAGAATAATAT
1 ATAAAAGAATAATAT
77659990 ATAAAA-AATA
1 ATAAAAGAATA
77660000 TACAAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (15 bp):
ATAAAAGAATAATAT
Found at i:77659999 original size:26 final size:26
Alignment explanation
Indices: 77659970--77660048 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
77659960 ATAAAAGAAT
* *
77659970 AATATATAAAAGAATAATATATAAAA
1 AATATAAAAAAGTATAATATATAAAA
*
77659996 AATATACAAACA-TATAATATATAAAA
1 AATATA-AAAAAGTATAATATATAAAA
*
77660022 TATA-AAAAAAGTATGAATAGTATAAAA
1 AATATAAAAAAGTAT-AATA-TATAAAA
77660049 TATAAATAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.09
25 4 0.09
26 26 0.59
27 10 0.23
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.27
Consensus pattern (26 bp):
AATATAAAAAAGTATAATATATAAAA
Found at i:77660742 original size:17 final size:18
Alignment explanation
Indices: 77660709--77660742 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77660699 CAAAAATAGA
*
77660709 AAATGAAAAAGGAAAAAC
1 AAATGAAAAAGAAAAAAC
77660727 AAAT-AAAAAGAAAAAA
1 AAATGAAAAAGAAAAAA
77660743 AGAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (18 bp):
AAATGAAAAAGAAAAAAC
Found at i:77662684 original size:6 final size:6
Alignment explanation
Indices: 77662675--77662718 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
77662665 AAGAAAAGAA
* *
77662675 GACGGC GACGGT GACGGT GACGGT GACGGT GACAGT GACGGT GA
1 GACGGT GACGGT GACGGT GACGGT GACGGT GACGGT GACGGT GA
77662719 TTGCTCATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.48, T:0.14
Consensus pattern (6 bp):
GACGGT
Found at i:77662852 original size:17 final size:17
Alignment explanation
Indices: 77662832--77662871 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
77662822 TGGAAGGGTA
77662832 AAAAATAGAAAAAAAAG
1 AAAAATAGAAAAAAAAG
*
77662849 AAAAAT-GAAAGAAAAG
1 AAAAATAGAAAAAAAAG
*
77662865 GAAAATA
1 AAAAATA
77662872 ATTACATCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (17 bp):
AAAAATAGAAAAAAAAG
Found at i:77663808 original size:38 final size:38
Alignment explanation
Indices: 77663757--77663832 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
77663747 TGTCAGTATT
77663757 CTATTTGGTCCTGTGATTGAATCCCGGAGTATACGATA
1 CTATTTGGTCCTGTGATTGAATCCCGGAGTATACGATA
*
77663795 CTATTTGGTCCTGTGATTGAATCCCGGAGTATGCGATA
1 CTATTTGGTCCTGTGATTGAATCCCGGAGTATACGATA
77663833 GGGAACATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (38 bp):
CTATTTGGTCCTGTGATTGAATCCCGGAGTATACGATA
Found at i:77663913 original size:5 final size:5
Alignment explanation
Indices: 77663903--77663930 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
77663893 TGTCATCATC
77663903 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
77663931 TCCTTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:77664723 original size:104 final size:104
Alignment explanation
Indices: 77664566--77664797 Score: 238
Period size: 104 Copynumber: 2.2 Consensus size: 104
77664556 GGCGTGTGCC
* * * *
77664566 CAGGCTGTGTGAGTCACATGGGCAAGGACACGGACATGTGTCCAAGCCATGTGACTCAGTGATTA
1 CAGGCCGTGTGAGCCACACGGGCAAGGACACGGACATGTGGCCAAGCCATGTGACTCAGTGATTA
* *
77664631 AGATTTAG-ACCTACAC-GGCCAGATGACACAGGCGAGTGT
66 AGATTTAGAACC-ACACAAG-CAGACGACACAGGCGAGTGT
* * * * *
77664670 CAGGCCGTGTGAGCCACACGGGCAAGGACAC-GAGCGA-GTGGCTAGGCCGTGTGACTCATTGTT
1 CAGGCCGTGTGAGCCACACGGGCAAGGACACGGA-C-ATGTGGCCAAGCCATGTGACTCAGTGAT
* * * *
77664733 TACGATTTTGAACCACACAAGCAGACGACACGGGCGTGTGT
64 TAAGATTTAGAACCACACAAGCAGACGACACAGGCGAGTGT
* * *
77664774 TAGGCCGTGTAAGCCATACGGGCA
1 CAGGCCGTGTGAGCCACACGGGCA
77664798 TGCATACGGG
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
103 2 0.02
104 99 0.93
105 5 0.05
ACGTcount: A:0.26, C:0.24, G:0.31, T:0.19
Consensus pattern (104 bp):
CAGGCCGTGTGAGCCACACGGGCAAGGACACGGACATGTGGCCAAGCCATGTGACTCAGTGATTA
AGATTTAGAACCACACAAGCAGACGACACAGGCGAGTGT
Found at i:77672574 original size:13 final size:13
Alignment explanation
Indices: 77672556--77672581 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77672546 TTGTATTATA
77672556 ATATTTTAAATGT
1 ATATTTTAAATGT
77672569 ATATTTTAAATGT
1 ATATTTTAAATGT
77672582 TTTATAATAT
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATGT
Found at i:77672904 original size:11 final size:11
Alignment explanation
Indices: 77672868--77672924 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
77672858 GTTTGAATAA
77672868 AAAAATATTAT
1 AAAAATATTAT
*
77672879 -AAAACATT-T
1 AAAAATATTAT
77672888 -AAAATATTAT
1 AAAAATATTAT
*
77672898 AAAAATAATAAT
1 AAAAAT-ATTAT
*
77672910 AAAAAAATTA-
1 AAAAATATTAT
77672920 AAAAA
1 AAAAA
77672925 AACATGTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 8 0.21
10 13 0.34
11 8 0.21
12 9 0.24
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAATATTAT
Found at i:77672995 original size:72 final size:71
Alignment explanation
Indices: 77672852--77672984 Score: 223
Period size: 72 Copynumber: 1.9 Consensus size: 71
77672842 TATATATTTT
*
77672852 AAAAATGTTTGAATAAAAAAATATTATAAAACATTTAAAATATTATAAAAATAATAATAAAAAAA
1 AAAAATGTTTGAATAAAAAAATATTATAAAACAATTAAAATATTATAAAAATAATAATAAAAAAA
77672917 TTAAAA
66 TTAAAA
*
77672923 AAAACATGTTTGAATAAACAAATATTATAAAACAATTAAAATATTAT-AAAATAAATAATAAA
1 AAAA-ATGTTTGAATAAAAAAATATTATAAAACAATTAAAATATTATAAAAAT-AATAATAAA
77672985 CAATTCAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
71 9 0.16
72 49 0.84
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (71 bp):
AAAAATGTTTGAATAAAAAAATATTATAAAACAATTAAAATATTATAAAAATAATAATAAAAAAA
TTAAAA
Found at i:77673443 original size:7 final size:7
Alignment explanation
Indices: 77673433--77673457 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
77673423 TATATTTACT
77673433 TTTTAAA
1 TTTTAAA
77673440 TTTTAAA
1 TTTTAAA
77673447 TTTTAAA
1 TTTTAAA
77673454 TTTT
1 TTTT
77673458 TAAGAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:77673444 original size:20 final size:20
Alignment explanation
Indices: 77673412--77673449 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
77673402 AATTTTAAAT
*
77673412 TTTTTATAATTTATATTTAC
1 TTTTTATAATTTAAATTTAC
77673432 TTTTTA-AATTTTAAATTT
1 TTTTTATAA-TTTAAATTT
77673450 TAAATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTATAATTTAAATTTAC
Found at i:77679297 original size:16 final size:15
Alignment explanation
Indices: 77679276--77679319 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
77679266 TCTTAAACAC
*
77679276 AAAATTATATTCATAA
1 AAAATTATAAT-ATAA
77679292 AAAATTATTAATATAA
1 AAAATTA-TAATATAA
77679308 AATAATTATAAT
1 AA-AATTATAAT
77679320 GTTTTCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTATAATATAA
Found at i:77680696 original size:11 final size:11
Alignment explanation
Indices: 77680680--77680704 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77680670 TGAAACTTAA
77680680 GTTTTTTTTTT
1 GTTTTTTTTTT
77680691 GTTTTTTTTTT
1 GTTTTTTTTTT
77680702 GTT
1 GTT
77680705 AAAAGGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:77685155 original size:22 final size:23
Alignment explanation
Indices: 77685125--77685167 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
77685115 ACACCAAAAC
*
77685125 AGGCTTTTAGCGGC-CTTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTTT
77685147 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
77685168 AACGCCGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (23 bp):
AGGCCTTTAGCGGCGCTTTTTTT
Found at i:77685315 original size:43 final size:43
Alignment explanation
Indices: 77685249--77685404 Score: 276
Period size: 43 Copynumber: 3.6 Consensus size: 43
77685239 TTTTAAAAAT
77685249 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
* * * *
77685292 AAACGCCGTTAAAGATCATGACCTTTAGCGGCGCTTCCACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
77685335 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
77685378 AAACGCCGCTAAAGAACAAGACCTTTA
1 AAACGCCGCTAAAGAACAAGACCTTTA
77685405 AATTTTACGT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.17
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTACCAC
Found at i:77685912 original size:21 final size:22
Alignment explanation
Indices: 77685895--77685939 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
77685885 TGAAACCTTA
77685895 AACCCCAAATCCC-TAACCTCT
1 AACCCCAAATCCCATAACCTCT
* *
77685916 AACCCTAAATCCCATAACCCCT
1 AACCCCAAATCCCATAACCTCT
77685938 AA
1 AA
77685940 AGCATAGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCAAATCCCATAACCTCT
Found at i:77686457 original size:114 final size:112
Alignment explanation
Indices: 77686197--77686975 Score: 1112
Period size: 114 Copynumber: 6.9 Consensus size: 112
77686187 TAAATTATTT
* *
77686197 TAAATCCCTGAGCATTAGCGGCGCTTTCTTACAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
*
77686262 GGCGCCGTTGGGCTTAGTTTTTTTTTGCGGCGTGTTCCCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAG--TTTTTTTGCGGCG-CTTCCCAAAAACGCCGC
* *
77686312 TAAAGCCCTGAGCATTAGCGGCGCTTTCATAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
*
77686377 GGCGCCGTTGGGCTTAGTCTTTTTTGCGGCGCTTCCCAAAAAACGTCGC
66 GGCGCCGTTGGGCTTAGT-TTTTTTGCGGCGCTTCCC-AAAAACGCCGC
* * * *
77686426 TAAAGCCCTGAGCATTAGTGGCGCTTTCATAAAAACGCCGCTAAATCCCTGAAAGTTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* * *
77686491 GGCACCGTTGGGCTTAGTTTTTTTTGCGGCACTTCCCCAAAAACGCCTC
66 GGCGCCGTTGGGCTTAG-TTTTTTTGCGGCGCTT-CCCAAAAACGCCGC
* *
77686540 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGTCGCTAAATCCCCAAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
*
77686605 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAGAACGCCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGC-TTCCCAAAAACGCCGC
* * * *
77686653 TAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAGCACCTCTAAATCCCCGAAAGCTCAG-AAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
77686717 GGCGCCATTGGGCATAGTTTTTTTGCGGCACTTTTCCAAAAACGCCAC
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGC-TTCCCAAAAACGCCGC
* * * * * *
77686765 GAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCACTAAATCTCTGAAAGCTTACAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* *
77686830 GGCGTCATTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAG-TTTTTTTGCGGCGC-TTCCCAAAAACGCCGC
* *
77686879 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCTGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* *
77686944 GACGCCTTTGGGCTTAG-TTTTTTGCGGCGCTT
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTT
77686976 TTTGGAAAAC
Statistics
Matches: 596, Mismatches: 61, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
111 2 0.00
112 110 0.18
113 104 0.17
114 298 0.50
115 82 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (112 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTCCCAAAAACGCCGC
Found at i:77686843 original size:339 final size:341
Alignment explanation
Indices: 77686197--77686976 Score: 1176
Period size: 339 Copynumber: 2.3 Consensus size: 341
77686187 TAAATTATTT
* *
77686197 TAAATCCCTGAGCATTAGCGGCGCTTTCTTACAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
77686262 GGCGCCGTTGGGCTTAGTTTTTTTTTGCGGCG-TGTTCCCAAAAACGCCGCTAAAGCCCTGAGCA
66 GGCGCCGTTGGGCTTAG--TTTTTTTGCGGCGCT-TTCCCAAAAACGCCGCTAAAGCCCTGAGCA
** * *
77686326 TTAGCGGCGCTTTCATAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCGTTGGGCT
128 TTAGCGGCGCTTTCATAAAAACACCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCATTGGGCA
* * * * *
77686391 TAGTCTTTTTTGCGGCGCTTCCCAAAAAACGTCGCTAAAGCCCTGAGCATTAGTGGCGCTTTCAT
193 TAGTCTTTTTTGCGGCACTTCCCAAAAAACGCCACGAAAGCCCTGAGCATTAGCGGCGCTTTCAT
* * *
77686456 AAAAACGCCGCTAAATCCCTGAAAGTTCAGAAAACGGCACCGTTGGGCTTAGTTTTTTTTGCGGC
258 AAAAACGCCACTAAATCCCTGAAAGTTCACAAAACGGCACCATTGGGCTTAGTTTTTTTTGCGGC
*
77686521 ACTTCCCCAAAAACGCCTC
323 ACTTCCCCAAAAACGCCGC
* *
77686540 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGTCGCTAAATCCCCAAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* *
77686605 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAGAACGCCGCTAAAGCCTTGAGCATTA
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
77686670 GCGGCGCTTTCTTAAAAGCACCTCTAAATCCCCGAAAGCTCAG-AAACGGCGCCATTGGGCATAG
131 GCGGCGCTTTCATAAAAACACCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCATTGGGCATAG
* *
77686734 T-TTTTTTGCGGCACTTTTCC-AAAAACGCCACGAAAGCCCTGAGCATTAGCGGCGCTTTCTTAA
196 TCTTTTTTGCGGCAC-TTCCCAAAAAACGCCACGAAAGCCCTGAGCATTAGCGGCGCTTTCATAA
* ** *
77686797 AAACGCCACTAAATCTCTGAAAGCTT-ACAAAACGGCGTCATTGGGCTTAGTTTTTTTTGCGGCG
260 AAACGCCACTAAATCCCTGAAAG-TTCACAAAACGGCACCATTGGGCTTAGTTTTTTTTGCGGCA
*
77686861 CTTTCCCAAAAACGCCGC
324 CTTCCCCAAAAACGCCGC
* *
77686879 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCTGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* *
77686944 GACGCCTTTGGGCTTAG-TTTTTTGCGGCGCTTT
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTT
77686977 TTGGAAAACG
Statistics
Matches: 399, Mismatches: 35, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
338 16 0.04
339 196 0.49
340 26 0.07
341 82 0.21
342 1 0.00
343 78 0.20
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (341 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
GCGGCGCTTTCATAAAAACACCGCTAAATCCCCGAAAGCTCAGAAAACGGCGCCATTGGGCATAG
TCTTTTTTGCGGCACTTCCCAAAAAACGCCACGAAAGCCCTGAGCATTAGCGGCGCTTTCATAAA
AACGCCACTAAATCCCTGAAAGTTCACAAAACGGCACCATTGGGCTTAGTTTTTTTTGCGGCACT
TCCCCAAAAACGCCGC
Found at i:77701266 original size:59 final size:58
Alignment explanation
Indices: 77701195--77701306 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
77701185 TTTGGTTTAG
*
77701195 GGTTTTTGCTTATATGCATGCTTTTTTATTTTCCCTACTGAAAGCTATAGTTGGCTTTT
1 GGTTTTTGCTTATATGCATGC-TTTATATTTTCCCTACTGAAAGCTATAGTTGGCTTTT
* * *
77701254 GGTTTTTGCTTATATGCATGCTTTATATTTTCTCTATTGAAAGTTATAGTTGG
1 GGTTTTTGCTTATATGCATGCTTTATATTTTCCCTACTGAAAGCTATAGTTGG
77701307 TATTTATGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 28 0.57
59 21 0.43
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (58 bp):
GGTTTTTGCTTATATGCATGCTTTATATTTTCCCTACTGAAAGCTATAGTTGGCTTTT
Found at i:77711935 original size:125 final size:125
Alignment explanation
Indices: 77711617--77711982 Score: 590
Period size: 124 Copynumber: 2.9 Consensus size: 125
77711607 GGTTCGGCAA
*** * * *
77711617 GAAATAATTTTGAGTTGACGTTTCTGATCAAATAGTATAAAACCGCTTCTAGCAAGATGCTATTT
1 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
* * *
77711682 GAGAAGAATTTGTGAAATCGCGCCGTCGTGGACTCGCTTTTGCTACAGTAGGTCATGGAT
66 GAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAT
*
77711742 GAAATAA-TTTTTTTTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTT
1 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
* *
77711806 GAGAATAATTTGTAAAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAT
66 GAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAT
77711866 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
1 GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
* *
77711931 GAGAAGAATTTGTGAAAATCGCGCCCTTGTGGACGCGCTTTAGCTACAGTAG
66 GAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
77711983 CATGTTTGGG
Statistics
Matches: 222, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
124 112 0.50
125 75 0.34
126 35 0.16
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (125 bp):
GAAATAATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTT
GAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAT
Found at i:77715026 original size:23 final size:23
Alignment explanation
Indices: 77714996--77715584 Score: 667
Period size: 23 Copynumber: 24.0 Consensus size: 23
77714986 AAAAACATTC
77714996 AATTTAATTAGGTTAGGGTTTTT
1 AATTTAATTAGGTTAGGGTTTTT
*
77715019 AATTTAATTAGGTTAGGGTTTTA
1 AATTTAATTAGGTTAGGGTTTTT
*
77715042 AATTTAATTAGGTTAGAGTTTTTTTT
1 AATTTAATTAGGTTAG-G--GTTTTT
77715068 CAATTTAATTAGGTTAGGGTTTTT
1 -AATTTAATTAGGTTAGGGTTTTT
*
77715092 AATTTAATTAGGTTAGGGTTTTA
1 AATTTAATTAGGTTAGGGTTTTT
*
77715115 AATTTAATTAGGTTAGAGTTTTTTTT
1 AATTTAATTAGGTTAG-G--GTTTTT
77715141 CAATTTAATTAGGTTAGGGTTTTT
1 -AATTTAATTAGGTTAGGGTTTTT
*
77715165 AATTTAATTAGGTTAGGGTTTTA
1 AATTTAATTAGGTTAGGGTTTTT
*
77715188 AATTTAATTAGGTTAGAGTTTTTTTT
1 AATTTAATTAGGTTAG-G--GTTTTT
77715214 CAATTTAATTAGGTTAGGGTTTTT
1 -AATTTAATTAGGTTAGGGTTTTT
*
77715238 AATTTAATTAGGTTAGGGTTTTA
1 AATTTAATTAGGTTAGGGTTTTT
*
77715261 AATTTAATTAGGTTAGAGTTTTTTTT
1 AATTTAATTAGGTTAG-G--GTTTTT
77715287 CAATTTAATTAGGTTAGGGTTTTT
1 -AATTTAATTAGGTTAGGGTTTTT
*
77715311 AATTTAATTAGGTTAGGGTTTTA
1 AATTTAATTAGGTTAGGGTTTTT
*
77715334 AATTTAATTAGGTTAGAGTTTTTTTT
1 AATTTAATTAGGTTAG-G--GTTTTT
77715360 CAATTTAATTAGGTTAGGGTTTTT
1 -AATTTAATTAGGTTAGGGTTTTT
77715384 AATTTAATTAGGTTAGGGTTTTTTTT
1 AATTTAATTAGGTTAGGG---TTTTT
77715410 CAATTTAATTAGGTTAGGGTTTTCTTTT
1 -AATTTAATTAGGTTAGGG---T-TTTT
77715438 CAA-TTAATTAGGTTAGGGTTTTCTTTT
1 -AATTTAATTAGGTTAGGG---T-TTTT
*
77715465 CAATTTAATTAGGTTAGAGTTTTCTTTT
1 -AATTTAATTAGGTTAG-G--GT-TTTT
* *
77715493 CAATTTAATTAGGTTAGAGTTTTC
1 -AATTTAATTAGGTTAGGGTTTTT
* *
77715517 AATTTAACTAGGTTAGAGTTTTT
1 AATTTAATTAGGTTAGGGTTTTT
*
77715540 AATTTAATTAGGTTAGGGTTTTC
1 AATTTAATTAGGTTAGGGTTTTT
*
77715563 AATTTAATTAGATTAGGGTTTT
1 AATTTAATTAGGTTAGGGTTTT
77715585 CTTTTCAATT
Statistics
Matches: 507, Mismatches: 30, Indels: 58
0.85 0.05 0.10
Matches are distributed among these distances:
23 270 0.53
24 33 0.07
25 1 0.00
26 30 0.06
27 129 0.25
28 43 0.08
29 1 0.00
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.52
Consensus pattern (23 bp):
AATTTAATTAGGTTAGGGTTTTT
Found at i:77715079 original size:73 final size:73
Alignment explanation
Indices: 77714993--77715606 Score: 968
Period size: 73 Copynumber: 8.3 Consensus size: 73
77714983 GGAAAAAACA
77714993 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
1 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
77715058 AGTTTTTT
66 AGTTTTTT
77715066 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
1 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
77715131 AGTTTTTT
66 AGTTTTTT
77715139 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
1 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
77715204 AGTTTTTT
66 AGTTTTTT
77715212 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
1 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
77715277 AGTTTTTT
66 AGTTTTTT
77715285 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
1 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
77715350 AGTTTTTT
66 AGTTTTTT
*
77715358 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTTTTCAATTTAATTAGG
1 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG----TTTTAAATTTAATTAGG
*
77715423 TTAGGGTTTTCTT
62 TTAGAGTTTT-TT
* *
77715436 TTCAA-TTAATTAGGTTAGGGTTTTCTTTTCAATTTAATTAGGTTAGAGTTTTCTTTTCAATTTA
1 TTCAATTTAATTAGGTTAGGG---T-TTTT-AATTTAATTAGGTTAG-G----GTTTTAAATTTA
77715500 ATTAGGTTAGAG----TT
56 ATTAGGTTAGAGTTTTTT
* * * *
77715514 TTCAATTTAACTAGGTTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTCAATTTAATTAGATTAG
1 TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
*
77715579 GGTTTTCTT
66 AGTTTT-TT
77715588 TTCAATTTAATTAGGTTAG
1 TTCAATTTAATTAGGTTAG
77715607 TAGAATTCTC
Statistics
Matches: 510, Mismatches: 10, Indels: 41
0.91 0.02 0.07
Matches are distributed among these distances:
69 21 0.04
73 337 0.66
74 36 0.07
75 4 0.01
76 1 0.00
77 40 0.08
78 14 0.03
79 13 0.03
80 1 0.00
81 4 0.01
82 16 0.03
83 23 0.05
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.52
Consensus pattern (73 bp):
TTCAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTAAATTTAATTAGGTTAG
AGTTTTTT
Found at i:77715600 original size:23 final size:24
Alignment explanation
Indices: 77715552--77715602 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 24
77715542 TTTAATTAGG
* *
77715552 TTAGGGTTTTCAATTT-AA-TTAGA
1 TTAGGGTTTTC-TTTTCAATTTATA
77715575 TTAGGGTTTTCTTTTCAATTTA-A
1 TTAGGGTTTTCTTTTCAATTTATA
77715598 TTAGG
1 TTAGG
77715603 TTAGTAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 3 0.12
23 19 0.76
24 3 0.12
ACGTcount: A:0.25, C:0.06, G:0.18, T:0.51
Consensus pattern (24 bp):
TTAGGGTTTTCTTTTCAATTTATA
Found at i:77715671 original size:25 final size:25
Alignment explanation
Indices: 77715642--77715764 Score: 141
Period size: 25 Copynumber: 5.1 Consensus size: 25
77715632 ATTCAAAAAT
77715642 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
77715667 TTCTATTTTATTACATCAAAT-AA-
1 TTCTATTTTATTACATCAAATAAAC
** * * *
77715690 TATC-A--AAATAAC-TCAAAAAAAT
1 T-TCTATTTTATTACATCAAATAAAC
77715712 TTCTATTTTTATTACATCAAATAAAC
1 TTCTA-TTTTATTACATCAAATAAAC
77715738 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
77715763 TT
1 TT
77715765 TAAAATACTC
Statistics
Matches: 81, Mismatches: 9, Indels: 16
0.76 0.08 0.15
Matches are distributed among these distances:
20 5 0.06
21 8 0.10
22 2 0.02
23 2 0.02
24 4 0.05
25 47 0.58
26 13 0.16
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:77715735 original size:71 final size:67
Alignment explanation
Indices: 77715615--77715783 Score: 250
Period size: 71 Copynumber: 2.4 Consensus size: 67
77715605 AGTAGAATTC
*
77715615 TCAAATAATATCAAAATATTCAAAAATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTA
1 TCAAATAATATCAAAATACTCAAAAATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTA
77715680 CA
66 CA
77715682 TCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTTATTACATCAAATAAACTTCTATTTT
1 TCAAATAATATCAAAAT-ACTC--AAAAATTTCTA-TTTTATTACATCAAATAAACTTCTATTTT
77715747 ATTACA
62 ATTACA
*
77715753 TCAAATAA-ACTTTAAAATACTCAAAATATTT
1 TCAAATAATA--TCAAAATACTCAAAA-ATTT
77715784 GTACAAATAA
Statistics
Matches: 93, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
67 17 0.18
68 3 0.03
69 4 0.04
70 16 0.17
71 47 0.51
72 6 0.06
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (67 bp):
TCAAATAATATCAAAATACTCAAAAATTTCTATTTTATTACATCAAATAAACTTCTATTTTATTA
CA
Found at i:77715912 original size:21 final size:21
Alignment explanation
Indices: 77715886--77715934 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
77715876 CTTTCTCTAG
77715886 CTTCCGGCGGCGG-TTGTT-GTT
1 CTTCCGGCGG-GGATT-TTGGTT
77715907 CTTCCGGCGGGGATTTTGGTT
1 CTTCCGGCGGGGATTTTGGTT
77715928 CTTCCGG
1 CTTCCGG
77715935 TACGGCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.02, C:0.24, G:0.37, T:0.37
Consensus pattern (21 bp):
CTTCCGGCGGGGATTTTGGTT
Found at i:77716213 original size:18 final size:18
Alignment explanation
Indices: 77716190--77716229 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
77716180 GACTCGGAAA
*
77716190 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
77716208 AGGATATATATAAGGGCT
1 AGGATACATATAAGGGCT
77716226 AGGA
1 AGGA
77716230 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:77716882 original size:7 final size:7
Alignment explanation
Indices: 77716872--77716896 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
77716862 TTATATACAT
77716872 AATACTA
1 AATACTA
77716879 AATACTA
1 AATACTA
77716886 AATACTA
1 AATACTA
77716893 AATA
1 AATA
77716897 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:77720622 original size:54 final size:54
Alignment explanation
Indices: 77720555--77720664 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
77720545 TCCATTCATT
*
77720555 TCAGCAGGTGTATGGTGTATGGAATTCAAAAGCTCATGGGACACAGACAAAACA
1 TCAGCAGGAGTATGGTGTATGGAATTCAAAAGCTCATGGGACACAGACAAAACA
77720609 TCAGCAGGAGTATGGTGTATGGAATTCAAAAGCTCATGGGACACAGACAAAACA
1 TCAGCAGGAGTATGGTGTATGGAATTCAAAAGCTCATGGGACACAGACAAAACA
77720663 TC
1 TC
77720665 GAAGGCACAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (54 bp):
TCAGCAGGAGTATGGTGTATGGAATTCAAAAGCTCATGGGACACAGACAAAACA
Found at i:77724750 original size:40 final size:40
Alignment explanation
Indices: 77724706--77724786 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
77724696 TCTGAATTAT
*
77724706 ATTTTGGTTGTCAAAGTTACCGAGTGCAAAGGATAAGAAA
1 ATTTTGGTTGTCAAAGTTACCGAGTGAAAAGGATAAGAAA
77724746 ATTTTGGTTGTCAAAGTTACCGAGTGAAAAGGATAAGAAA
1 ATTTTGGTTGTCAAAGTTACCGAGTGAAAAGGATAAGAAA
77724786 A
1 A
77724787 AATAAGAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.27
Consensus pattern (40 bp):
ATTTTGGTTGTCAAAGTTACCGAGTGAAAAGGATAAGAAA
Found at i:77727210 original size:16 final size:17
Alignment explanation
Indices: 77727189--77727220 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
77727179 AAATATACAA
77727189 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
77727205 TCACATAACTTCATAT
1 TCACATAACTTCATAT
77727221 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:77727447 original size:43 final size:43
Alignment explanation
Indices: 77727400--77727551 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 43
77727390 TCCCAAACGT
*
77727400 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
* * *
77727443 GGTCTTACACG-AATCAAATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
*
77727484 GGTCTTACACGTAAACACA-AGTCGATGCCGAC-GTCCCAGAC-G
1 GGTCTTACACGTAATCACATA-TCGATGCC-ACTGTCCCAGACAG
*
77727526 TGGTCTTACACGATAA-CATATATCGA
1 -GGTCTTACACG-TAATCACATATCGA
77727552 AAATCCTATG
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
41 31 0.33
42 13 0.14
43 44 0.47
44 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCACTGTCCCAGACAG
Found at i:77727522 original size:84 final size:84
Alignment explanation
Indices: 77727381--77727538 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 84
77727371 GACTCGTACA
* * *
77727381 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAC-GTGG
77727445 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
* *
77727465 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCGAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACGTG
77727528 GTCTTACACGA
64 GTCTTACACGA
77727539 TAACATATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.94
85 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAAACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACGAATCAAATACG
Found at i:77733255 original size:50 final size:50
Alignment explanation
Indices: 77733139--77733476 Score: 326
Period size: 50 Copynumber: 6.8 Consensus size: 50
77733129 ATTTCGTTTG
* * * * * * *
77733139 AGACCATAGTTGGGATATGGCACCGATATGTGA-TAGTGCGATT-CGTGTA
1 AGACCATAGCTGGGCTATGACATCGGTATGTGATTA-TGTGATTCCATGTA
* *
77733188 AGACCATAGCTGAGCTATGACATCGGTATGTGATTATGTGATTCTATGTA
1 AGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCCATGTA
* * * * * * *
77733238 AGACTATAGATGGGCTATGGA-ATCGTTATATGGTTACGTAATTCCATGTA
1 AGACCATAGCTGGGCTAT-GACATCGGTATGTGATTATGTGATTCCATGTA
* * * **
77733288 AGATCATAGCTGGGTTATGGCATCGGTATGTGATTATGTGATTCTGTGTA
1 AGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCCATGTA
* * * *
77733338 AGACCATAGCTGGGCTATGGCATCGGTATATGGTTACGTGATT-CAGTGTA
1 AGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCCA-TGTA
* *
77733388 AGACCATAGCTAGGCTACGACATCGGTATGTGATTATGTGATTCCATGTA
1 AGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCCATGTA
* * * * *
77733438 AGA-CATAGTTGGGCTATGGCATTGATTTGTGATTATGTG
1 AGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTG
77733477 CAAGACCATA
Statistics
Matches: 233, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
49 63 0.27
50 166 0.71
51 4 0.02
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (50 bp):
AGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCCATGTA
Found at i:77733312 original size:100 final size:99
Alignment explanation
Indices: 77733179--77733456 Score: 398
Period size: 100 Copynumber: 2.8 Consensus size: 99
77733169 TGATAGTGCG
*
77733179 ATTC-GTGTAAGACCATAGCTGAGCTATGACATCGGTATGTGATTATGTGATTCTATGTAAGACT
1 ATTCAGTGTAAGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCTATGTAAGAC-
*
77733243 ATAGATGGGCTATGGAATCGTTATATGGTTACGTA
65 ATAGATGGGCTATGGAATCGGTATATGGTTACGTA
* * * *
77733278 ATTCCA-TGTAAGATCATAGCTGGGTTATGGCATCGGTATGTGATTATGTGATTCTGTGTAAGAC
1 ATT-CAGTGTAAGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCTATGTAAGA-
* * *
77733342 CATAGCTGGGCTATGGCATCGGTATATGGTTACGTG
64 CATAGATGGGCTATGGAATCGGTATATGGTTACGTA
* * *
77733378 ATTCAGTGTAAGACCATAGCTAGGCTACGACATCGGTATGTGATTATGTGATTCCATGTAAGACA
1 ATTCAGTGTAAGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCTATGTAAGACA
*
77733443 TAGTTGGGCTATGG
66 TAGATGGGCTATGG
77733457 CATTGATTTG
Statistics
Matches: 158, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
99 20 0.13
100 137 0.87
101 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (99 bp):
ATTCAGTGTAAGACCATAGCTGGGCTATGACATCGGTATGTGATTATGTGATTCTATGTAAGACA
TAGATGGGCTATGGAATCGGTATATGGTTACGTA
Found at i:77733432 original size:150 final size:148
Alignment explanation
Indices: 77733143--77733476 Score: 404
Period size: 150 Copynumber: 2.2 Consensus size: 148
77733133 CGTTTGAGAC
* *
77733143 CATAGTTGGGATATGGCACCGATATGTGA-TAGTGCGATTCGTGTAAGACCATAGCTGAGCTATG
1 CATAGTTGGGATATGGCATCGATATGTGATTA-TGTGATTCGTGTAAGACCATAGCTGAGCTATG
* * * * * * *
77733207 ACATCGGTATGTGATTATGTGATTCTATGTAAGACTATAGATGGGCTATGGAATCGTTATATGGT
65 ACATCGGTATATGATTACGTGATTCTATGTAAGACCATAGATAGGCTATCGAATCGGTATATGAT
77733272 TACGTAATTCCATGTAAGA
130 TACGTAATTCCATGTAAGA
* * * *
77733291 TCATAGCTGGGTTATGGCATCGGTATGTGATTATGTGATTCTGTGTAAGACCATAGCTGGGCTAT
1 -CATAGTTGGGATATGGCATCGATATGTGATTATGTGATTC-GTGTAAGACCATAGCTGAGCTAT
* * * *
77733356 GGCATCGGTATATGGTTACGTGATTC-AGTGTAAGACCATAGCTAGGCTA-CGACATCGGTATGT
64 GACATCGGTATATGATTACGTGATTCTA-TGTAAGACCATAGATAGGCTATCGA-ATCGGTATAT
* *
77733419 GATTATGTGATTCCATGTAAGA
127 GATTACGTAATTCCATGTAAGA
* * *
77733441 CATAGTTGGGCTATGGCATTGATTTGTGATTATGTG
1 CATAGTTGGGATATGGCATCGATATGTGATTATGTG
77733477 CAAGACCATA
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
149 66 0.42
150 91 0.58
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (148 bp):
CATAGTTGGGATATGGCATCGATATGTGATTATGTGATTCGTGTAAGACCATAGCTGAGCTATGA
CATCGGTATATGATTACGTGATTCTATGTAAGACCATAGATAGGCTATCGAATCGGTATATGATT
ACGTAATTCCATGTAAGA
Found at i:77739433 original size:3 final size:3
Alignment explanation
Indices: 77739425--77739460 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
77739415 TGTTATTTGC
77739425 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
77739461 CATGCACGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:77743896 original size:83 final size:83
Alignment explanation
Indices: 77743752--77743912 Score: 268
Period size: 83 Copynumber: 1.9 Consensus size: 83
77743742 CTGCTGGACT
* * *
77743752 CAAATAAAGAAAAATGGGATTCTTATATATCTCTTTTTAGGGATTTTAGGAATTAAATAAATATA
1 CAAACAAAGAAAAATGAGATTCTTATATATCTCTTTTTAGGGATTTTAAGAATTAAATAAATATA
77743817 ATAATATTTTAAACGACC
66 ATAATATTTTAAACGACC
* * *
77743835 CAAACAAAGAAAAATGAGATTCTTATATATCTTTTTTTAGGGTTTTTAAGAATTAAATAAATATT
1 CAAACAAAGAAAAATGAGATTCTTATATATCTCTTTTTAGGGATTTTAAGAATTAAATAAATATA
77743900 ATAATATTTTAAA
66 ATAATATTTTAAA
77743913 TCAAAAATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (83 bp):
CAAACAAAGAAAAATGAGATTCTTATATATCTCTTTTTAGGGATTTTAAGAATTAAATAAATATA
ATAATATTTTAAACGACC
Found at i:77746940 original size:32 final size:32
Alignment explanation
Indices: 77746899--77746963 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
77746889 TCATGGAACT
77746899 TAGTATAGGTGATTAGGCTACCTAAGATCCCC
1 TAGTATAGGTGATTAGGCTACCTAAGATCCCC
77746931 TAGTATAGGTGATTAGGCTACCTAAGATCCCC
1 TAGTATAGGTGATTAGGCTACCTAAGATCCCC
77746963 T
1 T
77746964 TTAACACTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (32 bp):
TAGTATAGGTGATTAGGCTACCTAAGATCCCC
Found at i:77750445 original size:6 final size:6
Alignment explanation
Indices: 77750434--77750472 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
77750424 TTTTTCATGC
* * *
77750434 TTTCTT TTTCTT TTTCTT CTTCTC TTTCTC TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
77750473 TGTTTAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:77750900 original size:59 final size:59
Alignment explanation
Indices: 77750829--77750946 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
77750819 ACTAATTTAT
77750829 CCATCTTTCTAATAGAAAGGACAGAATGCAATTCAACTTTTAATATAAAAACCTCCATA
1 CCATCTTTCTAATAGAAAGGACAGAATGCAATTCAACTTTTAATATAAAAACCTCCATA
77750888 CCATCTTTCTAATAGAAAGGACAGAATGCAATTCAACTTTTAATATAAAAACCTCCATA
1 CCATCTTTCTAATAGAAAGGACAGAATGCAATTCAACTTTTAATATAAAAACCTCCATA
77750947 ATACTTTTAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (59 bp):
CCATCTTTCTAATAGAAAGGACAGAATGCAATTCAACTTTTAATATAAAAACCTCCATA
Found at i:77751633 original size:15 final size:16
Alignment explanation
Indices: 77751596--77751637 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
77751586 CTTATGTAGC
77751596 ATATTTT-AAAAATGA
1 ATATTTTAAAAAATGA
*
77751611 AAATTTTTAAAAAAT-A
1 ATA-TTTTAAAAAATGA
77751627 ATATTTTAAAA
1 ATATTTTAAAA
77751638 TTAGATGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 10 0.43
16 7 0.30
17 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
ATATTTTAAAAAATGA
Found at i:77755172 original size:38 final size:38
Alignment explanation
Indices: 77755123--77755216 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 38
77755113 AATATAAAGA
* *
77755123 ATATATAAGTATGTATATG-ATGTA-AAATATGCATAAAT
1 ATATATAAGTATGTATAAGAAT-TAGAAATATG-AAAAAT
*
77755161 ATATGTAAGTA--TATAAGAATTATGAAATATGAAAAAT
1 ATATATAAGTATGTATAAGAATTA-GAAATATGAAAAAT
*
77755198 ATATTTAAGTATGTATAAG
1 ATATATAAGTATGTATAAG
77755217 TACGTATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
36 7 0.15
37 17 0.36
38 17 0.36
39 6 0.13
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.36
Consensus pattern (38 bp):
ATATATAAGTATGTATAAGAATTAGAAATATGAAAAAT
Found at i:77757209 original size:46 final size:45
Alignment explanation
Indices: 77757157--77758015 Score: 276
Period size: 44 Copynumber: 19.5 Consensus size: 45
77757147 GCTTCGCTGA
*
77757157 CAAATACAGGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTGC
1 CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTT-CAC-GC
** * *
77757203 CAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACGC
1 CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCACGC
* * * * *
77757246 C-AATACATGAAGACAAGATCTGC-TTTCTGCGATCTA-TT-TCGC
1 CAAATACAGGAAGACAAGATCTGCAATCCT-CAATCTACTTCACGC
** * * * *
77757288 CACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CA--AATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCAC-GC
* * ** * *
77757334 C-AATACAGGAAGACCAGACCTGTTATCTTCGATCTACTTCACGC
1 CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCACGC
* * * * * *
77757378 C-AATACATGAAGACAAGATCTGC-TTTCTGCGATCTACTTCGCCC
1 CAAATACAGGAAGACAAGATCTGCAATCCT-CAATCTACTTCACGC
* ** * * * *
77757422 CCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCAC-GC
** * ** *
77757466 C-AATACAGGAAGACCGGACCTGTTA-CCTTCGATCTACTTCACGC
1 CAAATACAGGAAGACAAGATCTGCAATCC-TCAATCTACTTCACGC
* * * * * *
77757510 C-AATACATGAAGATAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCAC-GC
* * * * *
77757553 C-AATATAGGAAGATAGGATCTGCTA-CCTTCGATCTACTTCACGC
1 CAAATACAGGAAGACAAGATCTGCAATCC-TCAATCTACTTCACGC
* * * * *
77757597 C-AATACATGAAGACAAGATCTAC-TTTCTGCGATCTACTT--CGC
1 CAAATACAGGAAGACAAGATCTGCAATCCT-CAATCTACTTCACGC
** * * * *
77757639 CACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CA--AATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCAC-GC
* * ** * *
77757685 C-AATACAGGAAGACCAGACCTGTTATCTTCGATCTACTTCACGC
1 CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCACGC
* * * *
77757729 C-AATACATGAAGACAAGATCTGC-TTTCTGCGATCTACTT--CGC
1 CAAATACAGGAAGACAAGATCTGCAATCCT-CAATCTACTTCACGC
** * * * *
77757771 CACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
1 CA--AATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCAC-GC
* * ** * *
77757817 C-AATACAGGAAGACCAGACCTGTTATCTTCGATCTACTTCACGC
1 CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCACGC
* * * *
77757861 C-AATACATGAAGACAAGATCTGC-TTTCTGCGATCTACTT--CGC
1 CAAATACAGGAAGACAAGATCTGCAATCCT-CAATCTACTTCACGC
** * * ** *
77757903 CACCAATATGGGAAGACAAGATTTGC-ATCTTTGATCTACTTC-CTAC
1 CA--AATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCAC-GC
* * * * *
77757949 C-AATATAGGAAGATAGGATCTG-ATATCTTCGATCTACTTCACGC
1 CAAATACAGGAAGACAAGATCTGCA-ATCCTCAATCTACTTCACGC
*
77757993 C-AATACATGAAGACAAGATCTGC
1 CAAATACAGGAAGACAAGATCTGC
77758016 TTTCTTCGAT
Statistics
Matches: 627, Mismatches: 136, Indels: 101
0.73 0.16 0.12
Matches are distributed among these distances:
42 24 0.04
43 135 0.22
44 333 0.53
45 117 0.19
46 18 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (45 bp):
CAAATACAGGAAGACAAGATCTGCAATCCTCAATCTACTTCACGC
Found at i:77757861 original size:351 final size:353
Alignment explanation
Indices: 77757213--77758031 Score: 1290
Period size: 351 Copynumber: 2.3 Consensus size: 353
77757203 CAAATACAGG
* *
77757213 GACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGA
*
77757278 TCTATTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGG
66 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGG
77757343 AAGACCAGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGC
131 AAGACCAGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGC
*
77757408 GATCTACTTCGCCCCCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACA
196 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACA
* *
77757473 GGAAGACCGGACCTGTTACCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGC-ATCT
261 GGAAGACCAGACCTGTTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCT
* *
77757537 TCGATCCACTTC-CTACCAATATAGGAA
326 GCGATCCACTTCGCCACCAATATAGGAA
* * *
77757564 GATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGA
1 GACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGA
77757629 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGG
66 TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGG
77757694 AAGACCAGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGC
131 AAGACCAGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGC
77757759 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACA
196 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACA
* *
77757824 GGAAGACCAGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
261 GGAAGACCAGACCTGTTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCT
* *
77757889 GCGATCTACTTCGCCACCAATATGGGAA
326 GCGATCCACTTCGCCACCAATATAGGAA
* * * * * * * * *
77757917 GACAAGATTTGC-ATCTTTGATCTACTTC-CTACCAATATAGGAAGATAGGATCTGA-TATCTTC
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCT-ACTTTCTGC
* * *** * *
77757979 GATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
64 GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTT
77758032 TGCCATCAAT
Statistics
Matches: 429, Mismatches: 34, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
351 333 0.78
352 73 0.17
353 23 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (353 bp):
GACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGA
TCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACAGG
AAGACCAGACCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGC
GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATACA
GGAAGACCAGACCTGTTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCT
GCGATCCACTTCGCCACCAATATAGGAA
Found at i:77758358 original size:132 final size:132
Alignment explanation
Indices: 77757213--77758365 Score: 1410
Period size: 132 Copynumber: 8.7 Consensus size: 132
77757203 CAAATACAGG
* * * *** * *
77757213 GACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTGCG
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
* * * * * * * * * *
77757277 ATCTATTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAC
65 ATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCAC-GCCAATAC
*
77757340 AGGAA
128 ATGAA
* * * * * *** * *
77757345 GACCAGACCTG-TTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTGC
1 GACAAGATCTGCTT-TCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTC
* ** * * * * * * *
77757408 GATCTACTTCGCCCCCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATA
64 GATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCAC-GCCAATA
*
77757471 CAGGAA
127 CATGAA
** * * * * * *** *
77757477 GACCGGACCTG-TTACCTTCGATCTACTTC-ACGCCAATACATGAAGATAAGATCTGCATCTTCG
1 GACAAGATCTGCTT-TCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCG
*
77757540 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
65 ATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACAT
77757605 GAA
130 GAA
*
77757608 GACAAGATCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * * *
77757673 TCCACTTCCTACCAATACAGGAAGACCA-GACCTGTTATCTTCGATCTACTTCACGCCAATACAT
66 TCCACTTCCTACCAATATAGGAAGA-TAGGACCTGCTACCTTCGATCTACTTCACGCCAATACAT
77757737 GAA
130 GAA
77757740 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * * *
77757805 TCCACTTCCTACCAATACAGGAAGACCA-GACCTGTTATCTTCGATCTACTTCACGCCAATACAT
66 TCCACTTCCTACCAATATAGGAAGA-TAGGACCTGCTACCTTCGATCTACTTCACGCCAATACAT
77757869 GAA
130 GAA
* *
77757872 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATTTGCATCTTTGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * * *
77757937 TCTACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
77758002 AA
131 AA
* * * *
77758004 GACAAGATCTGCTTTCTTCGATCTACTTTGCCATCAATATGGGAAGACAAGATCTGGATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
77758069 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTTCTTCATGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
77758134 AA
131 AA
* *
77758136 GACAAGATCTGCTTTCTGCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
77758201 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
77758266 AA
131 AA
* * *
77758268 GACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATTTGCATCTTTGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
77758333 TCTACTTCCTACCAATATAGGAAGATAGGACCT
66 TCCACTTCCTACCAATATAGGAAGATAGGACCT
77758366 ATTTACGCCT
Statistics
Matches: 945, Mismatches: 69, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
130 22 0.02
131 61 0.06
132 861 0.91
133 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:77768376 original size:16 final size:16
Alignment explanation
Indices: 77768335--77768376 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
77768325 AAAAGAAATT
*
77768335 TGAAATAAATAATGTA
1 TGAAATAAATTATGTA
* *
77768351 TAAAAT-AATTTTGTA
1 TGAAATAAATTATGTA
77768366 TGAAATAAATT
1 TGAAATAAATT
77768377 GATTTGGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
TGAAATAAATTATGTA
Found at i:77769626 original size:38 final size:38
Alignment explanation
Indices: 77769577--77769670 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 38
77769567 AATATAAAGA
* *
77769577 ATATATAAGTATGTATATG-ATGTA-AAATATGCATAAAT
1 ATATATAAGTATGTATAAGAAT-TAGAAATATG-AAAAAT
*
77769615 ATATGTAAGTA--TATAAGAATTATGAAATATGAAAAAT
1 ATATATAAGTATGTATAAGAATTA-GAAATATGAAAAAT
*
77769652 ATATTTAAGTATGTATAAG
1 ATATATAAGTATGTATAAG
77769671 TACGTATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
36 7 0.15
37 17 0.36
38 17 0.36
39 6 0.13
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.36
Consensus pattern (38 bp):
ATATATAAGTATGTATAAGAATTAGAAATATGAAAAAT
Found at i:77771121 original size:15 final size:13
Alignment explanation
Indices: 77771100--77771151 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 13
77771090 GATAGTTTAA
77771100 AATAAATAAATAAT
1 AATAAAT-AATAAT
77771114 ATATAAATAATAAT
1 A-ATAAATAATAAT
77771128 AAT-AATAATAAT
1 AATAAATAATAAT
*
77771140 AAAAGAATAATA
1 AATA-AATAATA
77771152 CTTTAAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 11 0.32
13 2 0.06
14 15 0.44
15 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:77771125 original size:3 final size:3
Alignment explanation
Indices: 77771108--77771151 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
77771098 AAAATAAATA
*
77771108 AAT AAT ATAT AAAT AAT AAT AAT AAT AAT AAT AA- AAG AAT AAT A
1 AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
77771152 CTTTAAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 4 0.11
5 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:77771148 original size:23 final size:23
Alignment explanation
Indices: 77771108--77771151 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
77771098 AAAATAAATA
*
77771108 AATAATATATAAATAATAATAAT
1 AATAATATATAAAGAATAATAAT
77771131 AATAATA-ATAAAAGAATAATA
1 AATAATATAT-AAAGAATAATA
77771152 CTTTAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AATAATATATAAAGAATAATAAT
Found at i:77775921 original size:41 final size:41
Alignment explanation
Indices: 77775438--77775911 Score: 864
Period size: 41 Copynumber: 11.6 Consensus size: 41
77775428 TGATTCAGTA
*
77775438 CACCGGCACTT-AGCCTGCTAGACATATAGTCTAAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775479 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775520 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775561 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775602 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775643 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775684 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775725 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775766 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77775807 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* * *
77775848 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
77775889 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
77775912 GTAACGTCTG
Statistics
Matches: 425, Mismatches: 5, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
39 2 0.00
40 5 0.01
41 418 0.98
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:77783516 original size:41 final size:41
Alignment explanation
Indices: 77783361--77783506 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
77783351 TGATTCAGTA
77783361 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
77783402 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
77783443 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TACTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA--T
77783484 CACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
77783507 GTAACGTCTG
Statistics
Matches: 100, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 93 0.93
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:77785559 original size:60 final size:60
Alignment explanation
Indices: 77785455--77785598 Score: 145
Period size: 60 Copynumber: 2.4 Consensus size: 60
77785445 GAAAGACGTT
* * * * * *
77785455 TACATAATAATACTAAA-TATAAGTACTAATATATATATATACATATATTTAA-AAAATTA-A
1 TACATAATAATATTAAAGAATATGTAC-AATATATACATACACATATA-ATAAGAAAA-TACA
77785515 TACATAATAATATTAAAGAATATGTAC-ATACTATACATACACATATAATAAGAAAATACA
1 TACATAATAATATTAAAGAATATGTACAATA-TATACATACACATATAATAAGAAAATACA
77785575 TACAATATATAATATT-AAGAATAT
1 TAC-ATA-ATAATATTAAAGAATAT
77785599 ATGTATATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
59 8 0.11
60 38 0.53
61 18 0.25
62 8 0.11
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.33
Consensus pattern (60 bp):
TACATAATAATATTAAAGAATATGTACAATATATACATACACATATAATAAGAAAATACA
Found at i:77785755 original size:29 final size:26
Alignment explanation
Indices: 77785713--77785785 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 26
77785703 TGCGTGATAT
*
77785713 ATACATATATATAAAATAAATATTGAAAA
1 ATACATATACATAAAAT--ATA-TGAAAA
* *
77785742 ATACATGTACATAACATATATGAAAA
1 ATACATATACATAAAATATATGAAAA
77785768 AT--ATATACATAATAATAT
1 ATACATATACATAA-AATAT
77785786 TAAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 9 0.24
25 4 0.11
26 8 0.21
27 3 0.08
29 14 0.37
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.32
Consensus pattern (26 bp):
ATACATATACATAAAATATATGAAAA
Found at i:77786021 original size:22 final size:22
Alignment explanation
Indices: 77785972--77786021 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
77785962 AAAATATAAC
77785972 ATTAA-AAATATATATGTAATAT
1 ATTAAGAAATATATA-GTAATAT
*
77785994 A-CAAGAAATATATA-TAATAGT
1 ATTAAGAAATATATAGTAATA-T
77786015 ATTAAGA
1 ATTAAGA
77786022 CTATAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
20 5 0.22
21 4 0.17
22 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (22 bp):
ATTAAGAAATATATAGTAATAT
Found at i:77790245 original size:6 final size:6
Alignment explanation
Indices: 77790234--77790263 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
77790224 ACCACACCAA
77790234 CTGGGG CTGGGG CTGGGG CTGGGG CTGGGG
1 CTGGGG CTGGGG CTGGGG CTGGGG CTGGGG
77790264 ACCCTACCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.67, T:0.17
Consensus pattern (6 bp):
CTGGGG
Found at i:77794277 original size:2 final size:2
Alignment explanation
Indices: 77794270--77794294 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77794260 TTATTATTAT
77794270 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 T
77794295 GATGTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77794856 original size:29 final size:31
Alignment explanation
Indices: 77794802--77794866 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
77794792 TATGTTCTAT
* *
77794802 ATTTTTATAATTTTTAAAAAATTAAATTA-A
1 ATTTTTATAATTGTTAAAAAATTAAAATATA
* *
77794832 ATTTTTATAA-TGTTAGAAAGTTAAAATATA
1 ATTTTTATAATTGTTAAAAAATTAAAATATA
77794862 ATTTT
1 ATTTT
77794867 ACTTTAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (31 bp):
ATTTTTATAATTGTTAAAAAATTAAAATATA
Found at i:77794867 original size:29 final size:30
Alignment explanation
Indices: 77794799--77794867 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
77794789 ATTTATGTTC
* * *
77794799 TATATTTTTATAATTTTTAAAAAATTAAAT
1 TATAATTTTATAATTGTTAAAAAATTAAAA
* *
77794829 TA-AATTTTTATAA-TGTTAGAAAGTTAAAA
1 TATAA-TTTTATAATTGTTAAAAAATTAAAA
77794858 TATAATTTTA
1 TATAATTTTA
77794868 CTTTAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (30 bp):
TATAATTTTATAATTGTTAAAAAATTAAAA
Found at i:77796620 original size:5 final size:5
Alignment explanation
Indices: 77796610--77796640 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
77796600 GAGATGGAAT
77796610 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
77796641 ATATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:77797568 original size:9 final size:9
Alignment explanation
Indices: 77797554--77797584 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
77797544 TTGATATCCT
77797554 AATTATTCG
1 AATTATTCG
77797563 AATTATTCG
1 AATTATTCG
*
77797572 AGTTATTCG
1 AATTATTCG
77797581 AATT
1 AATT
77797585 CGAAAACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (9 bp):
AATTATTCG
Found at i:77800407 original size:14 final size:15
Alignment explanation
Indices: 77800382--77800411 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
77800372 CTAGTTTTTC
77800382 CTTTCATTTTTCTTT
1 CTTTCATTTTTCTTT
77800397 CTTTC-TTTTTCTTT
1 CTTTCATTTTTCTTT
77800411 C
1 C
77800412 CCCTGTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTCATTTTTCTTT
Found at i:77800450 original size:16 final size:16
Alignment explanation
Indices: 77800431--77800463 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
77800421 GAATAGTCTC
*
77800431 TGTTTCTTTTCTTCTT
1 TGTTTCTTTTATTCTT
77800447 TGTTTCTTTTATTCTT
1 TGTTTCTTTTATTCTT
77800463 T
1 T
77800464 TACTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTTATTCTT
Found at i:77800506 original size:3 final size:3
Alignment explanation
Indices: 77800489--77800544 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
77800479 ATGAATTAGT
* *
77800489 TAA TAA -AA TTAA TAA TAA TAA TAAA TTA TAA TAA TAA T-A TAA TTA
1 TAA TAA TAA -TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
77800534 TAA TAA TAA TA
1 TAA TAA TAA TA
77800545 TTTAATTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 36 0.80
4 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:77800545 original size:17 final size:17
Alignment explanation
Indices: 77800489--77800545 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
77800479 ATGAATTAGT
*
77800489 TAATAAAATTAATAATAA
1 TAATATAATT-ATAATAA
77800507 TAATA-AATTATAATAA
1 TAATATAATTATAATAA
77800523 TAATATAATTATAATAA
1 TAATATAATTATAATAA
77800540 TAATAT
1 TAATAT
77800546 TTAATTCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
16 12 0.32
17 21 0.55
18 5 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATATAATTATAATAA
Found at i:77800556 original size:17 final size:17
Alignment explanation
Indices: 77800495--77800556 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
77800485 TAGTTAATAA
* *
77800495 AATTAATAATAATAATA
1 AATTAATAATAATATTT
*
77800512 AATT-ATAATAATAATAT
1 AATTAATAATAAT-ATTT
77800529 AATTATAATAATAATATTT
1 AA-T-TAATAATAATATTT
*
77800548 AATTCATAA
1 AATTAATAA
77800557 ATATCTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 8 0.22
17 12 0.33
18 2 0.06
19 6 0.17
20 8 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTAATAATAATATTT
Found at i:77802636 original size:26 final size:26
Alignment explanation
Indices: 77802607--77802715 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
77802597 TGGTACAAAT
77802607 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
77802633 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77802659 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77802685 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77802711 TGATA
1 TGATA
77802716 GGCATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77806432 original size:33 final size:33
Alignment explanation
Indices: 77806369--77806432 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
77806359 TGGCATCACA
* * *
77806369 TTAGAAATTTTGGTATTTGGTTAGAGATTTTTG
1 TTAGAAATTGTGGTATTTGGTTACAAATTTTTG
* *
77806402 TTAGAGATTGTGGTATTTGGTTTCAAATTTT
1 TTAGAAATTGTGGTATTTGGTTACAAATTTT
77806433 GGTATCCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.52
Consensus pattern (33 bp):
TTAGAAATTGTGGTATTTGGTTACAAATTTTTG
Found at i:77806452 original size:19 final size:19
Alignment explanation
Indices: 77806428--77806592 Score: 71
Period size: 19 Copynumber: 8.5 Consensus size: 19
77806418 TTGGTTTCAA
77806428 ATTTTGGTATCCATTAGAG
1 ATTTTGGTATCCATTAGAG
* *
77806447 ATTTTGGTATCAATTACAG
1 ATTTTGGTATCCATTAGAG
* ** ***
77806466 ACTTCAGTATTTGGTTAGAG
1 ATTTTGGTA-TCCATTAGAG
** *
77806486 ATTTTGGTATCTGTTAGAA
1 ATTTTGGTATCCATTAGAG
* * ***
77806505 ATTTCGATATTTGTTAGAG
1 ATTTTGGTATCCATTAGAG
* * * *
77806524 ATTTCGGCATCCGTTAAAG
1 ATTTTGGTATCCATTAGAG
*
77806543 ATTTTGGCATCACATTA-AG
1 ATTTTGGTATC-CATTAGAG
* * *
77806562 CTTATTGGTATAGCATTAGAA
1 ATT-TTGGTAT-CCATTAGAG
77806583 ATTTTGGTAT
1 ATTTTGGTAT
77806593 AGGCTATTGG
Statistics
Matches: 110, Mismatches: 31, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
19 73 0.66
20 34 0.31
21 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (19 bp):
ATTTTGGTATCCATTAGAG
Found at i:77806516 original size:39 final size:38
Alignment explanation
Indices: 77806441--77806527 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 38
77806431 TTGGTATCCA
*
77806441 TTAGAGATTTTGGTATCAATTACAGACTTCAGTATTTGG
1 TTAGAGATTTTGGTATCAATTACAAACTTCAGTATTT-G
** * *
77806480 TTAGAGATTTTGGTATCTGTTAGAAATTTC-GATATTTG
1 TTAGAGATTTTGGTATCAATTACAAACTTCAG-TATTTG
77806518 TTAGAGATTT
1 TTAGAGATTT
77806528 CGGCATCCGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 12 0.29
39 30 0.71
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (38 bp):
TTAGAGATTTTGGTATCAATTACAAACTTCAGTATTTG
Found at i:77807186 original size:86 final size:86
Alignment explanation
Indices: 77807070--77807384 Score: 374
Period size: 87 Copynumber: 3.6 Consensus size: 86
77807060 TTAAGACTTG
*
77807070 CTCTCTTTTTTTTCACTCAATTGTA-CACTTGAACTGTCAAAATGCATAAAAAATGACCTCAAAA
1 CTCTCTTTTTTTTCACTCAATTG-AGTACTTGAACTGTCAAAATGCATAAAAAA-GACCTCAAAA
77807134 TTTTTCAAAAAAAAACAATTAAT
64 TTTTTCAAAAAAAAACAATTAAT
*
77807157 CTCT-TTTTTTTTCACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAGGACCTCAAAAT
1 CTCTCTTTTTTTTCACTCAATTGAGTACTTGAACTGTCAAAATGCATAAAAAA-GACCTCAAAAT
77807221 TTTTCAAAAAAAAAACAATTAAT
65 TTTTC-AAAAAAAAACAATTAAT
* * * ** * *
77807244 CTC-CTTTTTTTTCACTCAATTGGGTATTTGAACTGTCAAAATGTATTTAAAAGTCCCTCAAACT
1 CTCTCTTTTTTTTCACTCAATTGAGTACTTGAACTGTCAAAATGCATAAAAAAG-ACCTCAAAAT
*
77807308 TTTTC-AAAAAAAGCAATTAAGCCT
65 TTTTCAAAAAAAAACAATTAA---T
* *
77807332 CTGCTCTTTTTTAGT-ACT-AATT-AGGTACTTGAACTGCCAAAATGCATAAAAAA
1 CT-CTCTTTTTT-TTCACTCAATTGA-GTACTTGAACTGTCAAAATGCATAAAAAA
77807385 AGCTAGGAGC
Statistics
Matches: 198, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
85 15 0.08
86 61 0.31
87 79 0.40
88 3 0.02
89 29 0.15
90 10 0.05
91 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (86 bp):
CTCTCTTTTTTTTCACTCAATTGAGTACTTGAACTGTCAAAATGCATAAAAAAGACCTCAAAATT
TTTCAAAAAAAAACAATTAAT
Found at i:77809254 original size:19 final size:20
Alignment explanation
Indices: 77809222--77809278 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
77809212 TTATAAAGCC
*
77809222 GTAAGAAAATTATAAAAAAT
1 GTAAAAAAATTATAAAAAAT
* **
77809242 GTAAAGAAA-TATAAAATTT
1 GTAAAAAAATTATAAAAAAT
77809261 GTAAAAAAATTATAAAAA
1 GTAAAAAAATTATAAAAA
77809279 TTATCGTACC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (20 bp):
GTAAAAAAATTATAAAAAAT
Found at i:77811299 original size:91 final size:90
Alignment explanation
Indices: 77811170--77811406 Score: 276
Period size: 92 Copynumber: 2.6 Consensus size: 90
77811160 GAGTGCAAAA
* * * * *
77811170 AAAAAAAAAACAGTGACTTAATTAATTTTTTTGAAAAAGTTCGAGGGCCTTTTTGATGCATCTGG
1 AAAAAAAAAACAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATCTGA
* * *
77811235 ACAGTCCAATTATCCAATTAAGTAC
66 AAAGTCCAAGTACCCAATTAAGTAC
* * * *
77811260 AAAAAAAAAACTAGGGGCTTAATTGCTTTATTTGAAAAAGTTTGAGGGCCTTTTTTTATGCATTT
1 AAAAAAAAAAC-AGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGCC-TTTTTGATGCATCT
* * * *
77811325 TAAAAGTTCAAGTACCCAATTGAGTGC
64 GAAAAGTCCAAGTACCCAATTAAGTAC
* *
77811352 AAAAAAAAAACAAGGGCTTAATTACTTTTTTTTTGAAAAAGTTTTAGGGCCTTTT
1 AAAAAAAAAACAGGGGCTTAATTAC--TTTTTTTGAAAAAGTTTGAGGGCCTTTT
77811407 ACACCCTTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
90 11 0.09
91 44 0.36
92 46 0.37
93 22 0.18
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (90 bp):
AAAAAAAAAACAGGGGCTTAATTACTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATCTGA
AAAGTCCAAGTACCCAATTAAGTAC
Found at i:77811358 original size:92 final size:91
Alignment explanation
Indices: 77811143--77811406 Score: 287
Period size: 91 Copynumber: 2.8 Consensus size: 91
77811133 ACATTTTGGC
* * * *
77811143 AGTTCAAGTATTCAATTGAGTGCAAAAAAAAAAAAAACAGTGACTTAATTAATTTTTTTGAAAAA
1 AGTTCAAGTATCCAATTGAGTGC----AAAAAAAAAACAGGGGCTTAATTACTTTTTTTGAAAAA
* * *
77811208 GTTCGAGGGCC-TTTTTGATGCATCTGGAC
62 GTTTGAGGGCCTTTTTTGATGCATCTGAAA
* * * * * *
77811237 AGTCCAATTATCCAATTAAGTACAAAAAAAAAACTAGGGGCTTAATTGCTTTATTTGAAAAAGTT
1 AGTTCAAGTATCCAATTGAGTGCAAAAAAAAAAC-AGGGGCTTAATTACTTTTTTTGAAAAAGTT
* * *
77811302 TGAGGGCCTTTTTTTATGCATTTTAAA
65 TGAGGGCCTTTTTTGATGCATCTGAAA
* *
77811329 AGTTCAAGTACCCAATTGAGTGCAAAAAAAAAACAAGGGCTTAATTACTTTTTTTTTGAAAAAGT
1 AGTTCAAGTATCCAATTGAGTGCAAAAAAAAAACAGGGGCTTAATTAC--TTTTTTTGAAAAAGT
*
77811394 TTTAGGGCCTTTT
64 TTGAGGGCCTTTT
77811407 ACACCCTTAA
Statistics
Matches: 141, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
90 11 0.08
91 44 0.31
92 42 0.30
93 26 0.18
94 18 0.13
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (91 bp):
AGTTCAAGTATCCAATTGAGTGCAAAAAAAAAACAGGGGCTTAATTACTTTTTTTGAAAAAGTTT
GAGGGCCTTTTTTGATGCATCTGAAA
Found at i:77811600 original size:20 final size:19
Alignment explanation
Indices: 77811566--77811603 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
77811556 TTTTTGTTTA
77811566 TTTTAAAGAGGTATTATTT
1 TTTTAAAGAGGTATTATTT
*
77811585 TTTTACAAGAGTTATTATT
1 TTTTA-AAGAGGTATTATT
77811604 CATCTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.53
Consensus pattern (19 bp):
TTTTAAAGAGGTATTATTT
Found at i:77812638 original size:6 final size:6
Alignment explanation
Indices: 77812629--77812655 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
77812619 ACATCATTGC
77812629 CATTAT CATTAT CATTAT CATTAT CAT
1 CATTAT CATTAT CATTAT CATTAT CAT
77812656 AAATGAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (6 bp):
CATTAT
Found at i:77812644 original size:18 final size:18
Alignment explanation
Indices: 77812621--77812655 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77812611 CATCATCCAC
*
77812621 ATCATTGCCATTATCATT
1 ATCATTACCATTATCATT
*
77812639 ATCATTATCATTATCAT
1 ATCATTACCATTATCAT
77812656 AAATGAGACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (18 bp):
ATCATTACCATTATCATT
Found at i:77829191 original size:17 final size:15
Alignment explanation
Indices: 77829164--77829202 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
77829154 ATATAAGAAC
*
77829164 ATTTTATTATTAAATT
1 ATTTTAATATT-AATT
77829180 ATATTTAATATTAATT
1 AT-TTTAATATTAATT
77829196 ATTTTAA
1 ATTTTAA
77829203 ATTGTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAATATTAATT
Done.