Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 87 of 172
Found at i:24816585 original size:87 final size:88
Alignment explanation
Indices: 24816483--24816651 Score: 313
Period size: 87 Copynumber: 1.9 Consensus size: 88
24816473 TTATAAGACA
24816483 TTTTTTTATAAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAA
1 TTTTTTTATAAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAA
*
24816548 AAA-TGATATAACCTAAGACGTT
66 AAAGGGATATAACCTAAGACGTT
*
24816570 TTTTTTTATAAATGATATATATTATAATTTTCATATTATTTTTTACTCAATTTATGTATTATAAA
1 TTTTTTTATAAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAA
24816635 AAAGGGATATAACCTAA
66 AAAGGGATATAACCTAA
24816652 CATAAGTCTT
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
87 67 0.85
88 12 0.15
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (88 bp):
TTTTTTTATAAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAA
AAAGGGATATAACCTAAGACGTT
Found at i:24816683 original size:87 final size:87
Alignment explanation
Indices: 24816492--24816670 Score: 250
Period size: 87 Copynumber: 2.0 Consensus size: 87
24816482 ATTTTTTTAT
*
24816492 AAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAAAAATGATAT
1 AAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAAAAAGGATAT
* *** * * *
24816557 AACCTAAGACGTTTTTTTTTAT
66 AACCTAACACAAGTCTTTCTAC
*
24816579 AAATGATATATATTATAATTTTCATATTATTTTTTACTCAATTTATGTATTATAAAAAAGGGATA
1 AAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAAAAA-GGATA
* *
24816644 TAACCTAACATAAGTCTTTCTCC
65 TAACCTAACACAAGTCTTTCTAC
24816667 AAAT
1 AAAT
24816671 TAAGTTTATA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
87 58 0.73
88 22 0.28
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (87 bp):
AAATGATATATATTATAATTTTAATATTATTTTTTACTCAATTTATGTATTATAAAAAAGGATAT
AACCTAACACAAGTCTTTCTAC
Found at i:24823081 original size:33 final size:33
Alignment explanation
Indices: 24823035--24823097 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
24823025 TATTGCCATA
24823035 TGAATAGGCCATCTACAAATACTTCAGATAAGT
1 TGAATAGGCCATCTACAAATACTTCAGATAAGT
*
24823068 TGAATAGGTCATCTACAAATACTTCAGATA
1 TGAATAGGCCATCTACAAATACTTCAGATA
24823098 GGCAAGCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (33 bp):
TGAATAGGCCATCTACAAATACTTCAGATAAGT
Found at i:24829825 original size:6 final size:6
Alignment explanation
Indices: 24829814--24829839 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24829804 AGGGAGCGGA
24829814 ATGTCC ATGTCC ATGTCC ATGTCC AT
1 ATGTCC ATGTCC ATGTCC ATGTCC AT
24829840 AGGAAGGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (6 bp):
ATGTCC
Found at i:24830314 original size:22 final size:22
Alignment explanation
Indices: 24830289--24830360 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
24830279 CTTGAATTTT
24830289 TTTTAAATATTATTTAATAAAA
1 TTTTAAATATTATTTAATAAAA
*
24830311 TTTTAAAGTATT-TTTCATAAATA
1 TTTTAAA-TATTATTTAATAAA-A
* *
24830334 TTTCAAAAATTAATTTAAATAATAA
1 TTTTAAATATT-ATTT-AATAA-AA
24830359 TT
1 TT
24830361 ATTTTTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 18 0.45
23 11 0.28
24 3 0.08
25 7 0.17
26 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (22 bp):
TTTTAAATATTATTTAATAAAA
Found at i:24832361 original size:171 final size:173
Alignment explanation
Indices: 24832075--24832428 Score: 676
Period size: 171 Copynumber: 2.1 Consensus size: 173
24832065 AAGTTTGATT
24832075 TATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTAT
1 TATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTAT
24832140 ATATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTAT-AAAAATT
66 ATATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATT
24832204 CTTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAA
131 CTTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAA
24832247 TATTTATTCAGTCAATATT-AAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTAT
1 TATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTAT
*
24832311 ATATTAAAATATTTTTGTTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATT
66 ATATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATT
24832376 CTTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAA
131 CTTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAA
*
24832419 TACTTATTCA
1 TATTTATTCA
24832429 AAACTAATTT
Statistics
Matches: 179, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
171 101 0.56
172 78 0.44
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (173 bp):
TATTTATTCAGTCAATATTAAAAAAAATTGAATAAATAGTTTTTAATTTAATTTGAATTAATTAT
ATATTAAAATATTTTTATTTAATTTTATTTATAAATCTATATATAGCATATTAGTATAAAAAATT
CTTAAATATTGATACAAACTTTGAATCGATTCAAGTAAAAAAA
Found at i:24832661 original size:16 final size:15
Alignment explanation
Indices: 24832623--24832663 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
24832613 TTTCACCAAA
24832623 AAAATTTTAATTTTG
1 AAAATTTTAATTTTG
* *
24832638 AAAGTTTTATATTTTT
1 AAAATTTTA-ATTTTG
24832654 AAAATTTTAA
1 AAAATTTTAA
24832664 ATAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
AAAATTTTAATTTTG
Found at i:24834303 original size:68 final size:68
Alignment explanation
Indices: 24834150--24834305 Score: 178
Period size: 68 Copynumber: 2.3 Consensus size: 68
24834140 TTTTTTTATG
* *
24834150 TTTCATTAAAAAGTTAATTTTAATCTCATATTGATAAGAGAATACTCTCATGTACACTTATTCAT
1 TTTCATTAAAAAGTTAATTTTAATCTCATATTAATAAGAGAATACTCTCATGTACACTTATTCAC
*
24834215 TAT
66 TAA
* * *
24834218 TTTTATTAAAAAGTTAATTTTAATCAT-ATATTAACT-AGAGAATACT-TCTATGCCT-TACTTC
1 TTTCATTAAAAAGTTAATTTTAATC-TCATATTAA-TAAGAGAATACTCTC-ATG--TACACTTA
24834279 TTCACTAA
61 TTCACTAA
24834287 TTTCATTAAAAA-TTAATTT
1 TTTCATTAAAAAGTTAATTT
24834306 AGTTCTTTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
67 2 0.03
68 50 0.66
69 23 0.30
70 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (68 bp):
TTTCATTAAAAAGTTAATTTTAATCTCATATTAATAAGAGAATACTCTCATGTACACTTATTCAC
TAA
Found at i:24834512 original size:93 final size:92
Alignment explanation
Indices: 24834313--24834602 Score: 289
Period size: 93 Copynumber: 3.1 Consensus size: 92
24834303 TTTAGTTCTT
* * * * * * * * *** *
24834313 TTAAAAAGTTAATTTTAATCACATATTGAGTAGAGAACAATCTCAT-GCTCATGCTTATCCTATA
1 TTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCACATATCTCACATTTATCTTATA
*
24834377 AAAAAGTG-TCAATTTCTT-TATTTTCA
66 AATAAGTGAT-AATTTCTTATATTTTCA
* * * * *
24834403 TTAAAAATTTAATTTTAATCTCACATTACCTATAAAACATTCACATATCTCACATTTATCTTATA
1 TTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCACATATCTCACATTTATCTTATA
24834468 AATAAGTGATAATTTCTTCATATTTTCA
66 AATAAGTGATAATTTCTT-ATATTTTCA
* * * * *
24834496 TTAAAAAGTTAATTTTAATCCCACATTAATTAGAAAACACTCTCATATCTGACATTTACCTCATA
1 TTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCACATATCTCACATTTATCTTATA
* * *
24834561 AATAAGTGACAATTTGTTTACTAATTTCA
66 AATAAGTGATAATTT-CTTA-TATTTTCA
24834590 TTAAAAAGTTAAT
1 TTAAAAAGTTAAT
24834603 CTTTGTACCT
Statistics
Matches: 165, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
90 36 0.22
91 28 0.17
92 1 0.01
93 78 0.47
94 22 0.13
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (92 bp):
TTAAAAAGTTAATTTTAATCCCACATTAACTAGAAAACACTCACATATCTCACATTTATCTTATA
AATAAGTGATAATTTCTTATATTTTCA
Found at i:24834684 original size:21 final size:22
Alignment explanation
Indices: 24834658--24834700 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24834648 ACTATTTTTA
*
24834658 TTAAAAA-TTACTTTTAATCCC
1 TTAAAAATTTAATTTTAATCCC
24834679 TTAAAAATTTAATTTTAATCCC
1 TTAAAAATTTAATTTTAATCCC
24834701 ACATTGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAATTTAATTTTAATCCC
Found at i:24837924 original size:44 final size:45
Alignment explanation
Indices: 24837859--24837990 Score: 196
Period size: 45 Copynumber: 3.0 Consensus size: 45
24837849 TTGATGTGCT
* *
24837859 TTTA-CATGATGCCATAACATCTTTCAGTTATGGTCTTACTTAT-
1 TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCATC
* *
24837902 TTTATCTTGATGCCATAGCATCTTTCAGTTGTGGTCTTACTCATC
1 TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCATC
* *
24837947 TTTATCATGATGCCATAGCATCTTTTAGCTATGGTCTTACTCAT
1 TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCAT
24837991 ATTGACATAT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 4 0.05
44 35 0.44
45 40 0.51
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (45 bp):
TTTATCATGATGCCATAGCATCTTTCAGTTATGGTCTTACTCATC
Found at i:24839216 original size:15 final size:16
Alignment explanation
Indices: 24839189--24839219 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24839179 AAATTATTTA
24839189 AATTTACTTATTAAAT
1 AATTTACTTATTAAAT
24839205 AATTTA-TTATTAAAT
1 AATTTACTTATTAAAT
24839220 TTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTACTTATTAAAT
Found at i:24839592 original size:20 final size:19
Alignment explanation
Indices: 24839563--24839601 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24839553 CAATAAGGAC
*
24839563 AATAAATACAATTAAATTTT
1 AATAAATAC-AGTAAATTTT
*
24839583 AATAATTACAGTAAATTTT
1 AATAAATACAGTAAATTTT
24839602 GAACAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (19 bp):
AATAAATACAGTAAATTTT
Found at i:24843750 original size:21 final size:21
Alignment explanation
Indices: 24843726--24843771 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
24843716 TAATATTGCG
24843726 AAAA-AAATTTATATTA-TTTAT
1 AAAAGAAATTT-T-TTATTTTAT
*
24843747 AAAAGATATTTTTTATTTTAT
1 AAAAGAAATTTTTTATTTTAT
24843768 AAAA
1 AAAA
24843772 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 3 0.14
21 14 0.64
22 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAAAGAAATTTTTTATTTTAT
Found at i:24846053 original size:16 final size:16
Alignment explanation
Indices: 24846032--24846075 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
24846022 GGACAACACC
**
24846032 GGCACAAAGCCTGCTA
1 GGCACAAAGCCCACTA
*
24846048 GGCACAAAGCCCATTA
1 GGCACAAAGCCCACTA
24846064 GGCACAAAGCCC
1 GGCACAAAGCCC
24846076 GATAAATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (16 bp):
GGCACAAAGCCCACTA
Found at i:24848375 original size:29 final size:28
Alignment explanation
Indices: 24848331--24848387 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
24848321 TATGATTTTA
*
24848331 AAATTTTGAAACATTATAAAGTTTTAAT
1 AAATTTTGAAACATTATAAAGTTCTAAT
*
24848359 AAATTTT-AAACAAATTATAATGTTCTAAT
1 AAATTTTGAAAC--ATTATAAAGTTCTAAT
24848388 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 14 0.56
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (28 bp):
AAATTTTGAAACATTATAAAGTTCTAAT
Found at i:24850123 original size:3 final size:3
Alignment explanation
Indices: 24850110--24850181 Score: 65
Period size: 3 Copynumber: 23.0 Consensus size: 3
24850100 TGTACATGAA
* * * *
24850110 AAT AAT AAAT AAT AAA AAT AAT AAAT AAG AAT AAG AAT AAT AAAC AAGT
1 AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AA-T
24850159 AAT AAT AAT AA- AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
24850182 GTAAAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
2 2 0.04
3 44 0.79
4 10 0.18
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:24850129 original size:16 final size:16
Alignment explanation
Indices: 24850108--24850177 Score: 68
Period size: 16 Copynumber: 4.1 Consensus size: 16
24850098 TATGTACATG
24850108 AAAATAATAAATAATA
1 AAAATAATAAATAATA
24850124 AAAATAATAAATAAGAATA
1 AAAATAATAAAT---AATA
* *
24850143 AGAATAATAAACAAGTA
1 AAAATAATAAATAA-TA
*
24850160 ATAATAATAAAATAATA
1 AAAATAAT-AAATAATA
24850177 A
1 A
24850178 TAATGTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
16 14 0.31
17 12 0.27
18 5 0.11
19 14 0.31
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (16 bp):
AAAATAATAAATAATA
Found at i:24850164 original size:14 final size:14
Alignment explanation
Indices: 24850108--24850181 Score: 71
Period size: 14 Copynumber: 5.0 Consensus size: 14
24850098 TATGTACATG
24850108 AAAATAATAAATAAT
1 AAAATAAT-AATAAT
24850123 -AAA-AATAATAAAT
1 AAAATAATAAT-AAT
*
24850136 AAGAATAAGAATAAT
1 AA-AATAATAATAAT
24850151 AAACAAGTAATAATAAT
1 -AA-AA-TAATAATAAT
24850168 AAAATAATAATAAT
1 AAAATAATAATAAT
24850182 GTAAAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
12 3 0.06
13 6 0.12
14 14 0.28
15 7 0.14
16 11 0.22
17 9 0.18
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:24872078 original size:33 final size:34
Alignment explanation
Indices: 24872030--24872126 Score: 126
Period size: 33 Copynumber: 2.9 Consensus size: 34
24872020 GTTTAAAATT
*
24872030 TTTTAAAAAAATTAATTAAATTAGGTTTTAAGGG
1 TTTTAAGAAAATTAATTAAATTAGGTTTTAAGGG
* *
24872064 -TTTAAGTAAGTTAATTAAATTAGGTTTT-AGGG
1 TTTTAAGAAAATTAATTAAATTAGGTTTTAAGGG
* *
24872096 TTTTTAAGAAAATTAATTGAATTAGGGTTTA
1 -TTTTAAGAAAATTAATTAAATTAGGTTTTA
24872127 GGTTTTTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
32 4 0.08
33 25 0.47
34 24 0.45
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (34 bp):
TTTTAAGAAAATTAATTAAATTAGGTTTTAAGGG
Found at i:24872112 original size:34 final size:34
Alignment explanation
Indices: 24872029--24872134 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
24872019 GGTTTAAAAT
*
24872029 TTTTTAAAAAAATTAATTAAATTAGGTTTTAAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGTTTT-AGGG
* *
24872064 --TTTAAGTAAGTTAATTAAATTAGGTTTTAGGG
1 TTTTTAAGAAAATTAATTAAATTAGGTTTTAGGG
* * *
24872096 TTTTTAAGAAAATTAATTGAATTAGGGTTTAGGT
1 TTTTTAAGAAAATTAATTAAATTAGGTTTTAGGG
24872130 TTTTT
1 TTTTT
24872135 TAAAAATAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
32 4 0.07
33 25 0.41
34 32 0.52
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (34 bp):
TTTTTAAGAAAATTAATTAAATTAGGTTTTAGGG
Found at i:24872557 original size:125 final size:124
Alignment explanation
Indices: 24872225--24872612 Score: 462
Period size: 124 Copynumber: 3.1 Consensus size: 124
24872215 GAAGAATTTT
* * *
24872225 TTTTTCTACAGTAGTTTCTGAAAAATAATTTTGAGAAGACGATTCCGAAAAATTAATGTCAAAAA
1 TTTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAA
* * * *
24872290 CGCTTCAAGCAGTATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGTTC
66 C-ATTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
* * * * * * *
24872350 -TTTTATACAGTAG-TTCCAGAAAAATAA-TTAGAGAAAAC-ATTTCTAAAAAAAATACTATCAA
1 TTTTTCTACAGTAGTTTCTA-AAAAATAATTTTGAGAAGACGA-TTCT-GAAAAAATAATGTCAA
* * * *
24872411 AAACACTTCAAACAGGATGCACTGTCAACAAAATTACT-AAAAAAGCTCTCACATGGATGTTC
63 AAACA-TTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
* * *
24872473 TTTTTCTACAATAGTTTCTAAAAAAGTAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTAAAAAA-TAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAA
* * *
24872538 ACATTCCAAACAGGATGCACTATCAGCAAAATTACTGAAACAAGCTCCCACGTGGACGCTC
65 ACATT-CAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
24872599 TTTTTCTACAGTAG
1 TTTTTCTACAGTAG
24872613 CTCCTATTTG
Statistics
Matches: 217, Mismatches: 35, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
122 1 0.00
123 36 0.17
124 82 0.38
125 53 0.24
126 45 0.21
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTTCTAAAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAA
CATTCAAACAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGTTC
Found at i:24874073 original size:26 final size:26
Alignment explanation
Indices: 24874044--24874097 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
24874034 AGCAGAAAGC
24874044 ATTAGAAAAGATGCATAGTGGGTGAG
1 ATTAGAAAAGATGCATAGTGGGTGAG
24874070 ATTAGAAAAGATGCATAGTGGGTGAG
1 ATTAGAAAAGATGCATAGTGGGTGAG
24874096 AT
1 AT
24874098 GCTTCACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.24
Consensus pattern (26 bp):
ATTAGAAAAGATGCATAGTGGGTGAG
Found at i:24874860 original size:6 final size:6
Alignment explanation
Indices: 24874851--24874877 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24874841 TCTTCCATTT
24874851 CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCC
24874878 CATCCTTGAT
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:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTTC
Found at i:24882057 original size:15 final size:15
Alignment explanation
Indices: 24882034--24882065 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24882024 TATGTGTATG
24882034 AGAAGGTTGTTTTTT
1 AGAAGGTTGTTTTTT
*
24882049 AGAATGTTGTTTTTT
1 AGAAGGTTGTTTTTT
24882064 AG
1 AG
24882066 GAGTATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (15 bp):
AGAAGGTTGTTTTTT
Found at i:24884630 original size:162 final size:160
Alignment explanation
Indices: 24884332--24884699 Score: 365
Period size: 162 Copynumber: 2.3 Consensus size: 160
24884322 GTTAATGTAG
* *
24884332 GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACACTTATTTATAGGATAAGTGTGA
1 GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACAC-TATTTATAAGATAAATGTGA
* * * *
24884397 GCATGAAAGTGTTCTCTGGCCAAGGTGGGATTAAAATTAACTTTTTAATGAAAATAATGAAGAAA
65 GCATCAAAGTGTTCTCTAGCCAAGATAGGATTAAAATTAACTTTTTAAT-AAAATAATGAAGAAA
24884462 TGAGCTATGGAGTATTTTTTTAGTCAATGTGA
129 TGAGCTATGGAGTATTTTTTTAGTCAATGTGA
* * **
24884494 GATTAAAATTAACTTTTTAATAAAAAT-GTTGAAGAAATTTCCAC-ATTTAATAAGATAAATGTG
1 GATTAAAATTAACATTTTAATAAAAATAG-TGAAAAAATTGACACTATTT-ATAAGATAAATGTG
* * *
24884557 AG-ATACAAGAGTGTTCTCTAGTCAATATAGGATTAAAATTAA-TTCTTTAAT-AAA-AATGGAG
64 AGCAT-CAA-AGTGTTCTCTAGCCAAGATAGGATTAAAATTAACTT-TTTAATAAAATAATGAAG
* * * * * *
24884618 AATAGGTGAGCTATGAAAGT-GTTCTCTAATTAATGT-A
126 AA-A--TGAGCTATG-GAGTATTTTTTTAGTCAATGTGA
* * * *
24884655 GGATTAAAAATAACATTTTGATAAAAATAATGAAGAAATTGACAC
1 -GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACAC
24884700 ATTAAAAATA
Statistics
Matches: 170, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
159 8 0.05
160 10 0.06
161 20 0.12
162 129 0.76
163 3 0.02
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (160 bp):
GATTAAAATTAACATTTTAATAAAAATAGTGAAAAAATTGACACTATTTATAAGATAAATGTGAG
CATCAAAGTGTTCTCTAGCCAAGATAGGATTAAAATTAACTTTTTAATAAAATAATGAAGAAATG
AGCTATGGAGTATTTTTTTAGTCAATGTGA
Found at i:24885878 original size:19 final size:19
Alignment explanation
Indices: 24885836--24885875 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
24885826 ACGTGCCCAT
24885836 AAAATATAATAAAATATTA
1 AAAATATAATAAAATATTA
24885855 AAAATA-AAT-AAATATTA
1 AAAATATAATAAAATATTA
24885872 AAAA
1 AAAA
24885876 AATTATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 12 0.57
18 3 0.14
19 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATATAATAAAATATTA
Found at i:24887949 original size:15 final size:15
Alignment explanation
Indices: 24887898--24887959 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
24887888 CCTTTTTTTA
*
24887898 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
24887912 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
24887928 CTATTATTATTAATG
1 TTATTATTATTAATG
*
24887943 TTATTATTATTATTG
1 TTATTATTATTAATG
24887958 TT
1 TT
24887960 TCTACATTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:24887956 original size:30 final size:30
Alignment explanation
Indices: 24887899--24887957 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
24887889 CTTTTTTTAT
* * *
24887899 TATTATTATTTAGTTCATTGTTTTTATTGC
1 TATTATTATTAAGTTCATTATTATTATTGC
24887929 TATTATTATTAATGTT-ATTATTATTATTG
1 TATTATTATTAA-GTTCATTATTATTATTG
24887958 TTTCTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (30 bp):
TATTATTATTAAGTTCATTATTATTATTGC
Found at i:24890021 original size:3 final size:3
Alignment explanation
Indices: 24890015--24890044 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24890005 GAATCAGAGG
24890015 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24890045 GAAATTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24890756 original size:29 final size:30
Alignment explanation
Indices: 24890692--24890748 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
24890682 GTGGAGAAGA
* *
24890692 AAAAAACATAAACATATTGGGTTATTTACG
1 AAAAAACATAAAAATATTGGGTAATTTACG
*
24890722 CAAAAA-ATAAAAATATTGGGTAATTTA
1 AAAAAACATAAAAATATTGGGTAATTTA
24890749 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAAAACATAAAAATATTGGGTAATTTACG
Found at i:24899033 original size:50 final size:50
Alignment explanation
Indices: 24898918--24899166 Score: 327
Period size: 50 Copynumber: 4.8 Consensus size: 50
24898908 GATCATAACA
* ** *
24898918 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
24898969 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
24899019 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
24899069 TGCCAACGGCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
24899124 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24899167 TTACCCAAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
50 95 0.54
51 34 0.19
53 5 0.03
55 2 0.01
56 39 0.22
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24899282 original size:13 final size:13
Alignment explanation
Indices: 24899261--24899292 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
24899251 GCTTGGATCA
*
24899261 TCATCAAATAAAT
1 TCATAAAATAAAT
24899274 TCATAAAATAAAT
1 TCATAAAATAAAT
24899287 TCATAA
1 TCATAA
24899293 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:24899539 original size:30 final size:30
Alignment explanation
Indices: 24899504--24899561 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24899494 CCTCGACTCT
*
24899504 AACTTTTTCAAAATTATAATTTTACCCCTA
1 AACTTTTGCAAAATTATAATTTTACCCCTA
* * *
24899534 AACTTTTGCATAATTATATTTTTGCCCC
1 AACTTTTGCAAAATTATAATTTTACCCC
24899562 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.45
Consensus pattern (30 bp):
AACTTTTGCAAAATTATAATTTTACCCCTA
Found at i:24903915 original size:15 final size:15
Alignment explanation
Indices: 24903895--24903924 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24903885 AGGTTCAATC
*
24903895 GTAAGACACCTTCAT
1 GTAAGAAACCTTCAT
24903910 GTAAGAAACCTTCAT
1 GTAAGAAACCTTCAT
24903925 TTATGCAAAT
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:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (15 bp):
GTAAGAAACCTTCAT
Found at i:24906601 original size:34 final size:35
Alignment explanation
Indices: 24906557--24906623 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24906547 CAGTAAAATG
* *
24906557 TTTTCCGTAAAATGATTT-TTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
24906591 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
24906624 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:24906627 original size:14 final size:15
Alignment explanation
Indices: 24906551--24906627 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
24906541 GATTGCCAGT
* *
24906551 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
24906565 AAAATGATTTT-TGG
1 AAAATGATTTTCTGG
*
24906579 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
24906599 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
24906614 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
24906628 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 4 0.08
20 8 0.16
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:24908160 original size:21 final size:21
Alignment explanation
Indices: 24908118--24908160 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
24908108 TATAAACAAA
*
24908118 AAATGCTCGTAACAACAGCAC
1 AAATGCTCGTAACAACAACAC
*
24908139 AAATGCTCGTAACAGCAACAC
1 AAATGCTCGTAACAACAACAC
24908160 A
1 A
24908161 TAACAATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (21 bp):
AAATGCTCGTAACAACAACAC
Found at i:24912438 original size:24 final size:24
Alignment explanation
Indices: 24912380--24912444 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
24912370 TTTCCTTAAT
* *
24912380 ATAAAGTTT-AAAAACATACCTTA
1 ATAAAGTTTCTAAAACATACCCTA
* *
24912403 ATAAAG-TCCTAAAACATGCCCTA
1 ATAAAGTTTCTAAAACATACCCTA
24912426 ATAAAGTTTCT-AAACATAC
1 ATAAAGTTTCTAAAACATAC
24912445 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 1 0.03
23 30 0.88
24 3 0.09
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (24 bp):
ATAAAGTTTCTAAAACATACCCTA
Found at i:24917766 original size:47 final size:49
Alignment explanation
Indices: 24917697--24917796 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 49
24917687 AGTCAACTTA
* *
24917697 ATTTCAAAAATAGAGTTAAAAAA-TC-AATGTGTTCATTTCTTTTATAT
1 ATTTCAAAAATAGAATCAAAAAATTCTAATGTGTTCATTTCTTTTATAT
* *
24917744 ATTTCACAAATAGAATCAAAAAATTCTAATGTGTTGATTTCTTTTATAT
1 ATTTCAAAAATAGAATCAAAAAATTCTAATGTGTTCATTTCTTTTATAT
24917793 ATTT
1 ATTT
24917797 AATCTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
47 20 0.43
48 2 0.04
49 25 0.53
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (49 bp):
ATTTCAAAAATAGAATCAAAAAATTCTAATGTGTTCATTTCTTTTATAT
Found at i:24922301 original size:46 final size:44
Alignment explanation
Indices: 24922242--24922356 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
24922232 ACAGGACAGA
* *
24922242 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
24922288 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
24922332 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
24922357 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:24922337 original size:44 final size:45
Alignment explanation
Indices: 24922242--24922375 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
24922232 ACAGGACAGA
* *
24922242 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
24922288 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
24922332 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
24922376 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:24931149 original size:16 final size:16
Alignment explanation
Indices: 24931128--24931165 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
24931118 ATGTTCTTAG
*
24931128 GGTTTTGTTTAGGAAA
1 GGTTTTGCTTAGGAAA
24931144 GGTTTTGCTTAGGAAA
1 GGTTTTGCTTAGGAAA
*
24931160 TGTTTT
1 GGTTTT
24931166 TTGGATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (16 bp):
GGTTTTGCTTAGGAAA
Found at i:24931835 original size:7 final size:7
Alignment explanation
Indices: 24931820--24931849 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
24931810 AATTTTTTTG
*
24931820 TTATTTT
1 TTATATT
24931827 TTATATT
1 TTATATT
24931834 TTATATT
1 TTATATT
24931841 TTATATT
1 TTATATT
24931848 TT
1 TT
24931850 TATCATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTATATT
Found at i:24931842 original size:25 final size:25
Alignment explanation
Indices: 24931821--24931867 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
24931811 ATTTTTTTGT
24931821 TATTTTT-T-ATA-TTTTATATTTTA
1 TATTTTTATCATATTTTTAT-TTTTA
24931844 TATTTTTATCATATTTTTATTTTT
1 TATTTTTATCATATTTTTATTTTT
24931868 TAGCAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 7 0.33
26 6 0.29
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (25 bp):
TATTTTTATCATATTTTTATTTTTA
Found at i:24932304 original size:24 final size:24
Alignment explanation
Indices: 24932272--24932320 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24932262 AAAAATTAAC
24932272 TTCCTCATTCGAACAACCATTTGA
1 TTCCTCATTCGAACAACCATTTGA
24932296 TTCCTCATTCGAACAACCATTTGA
1 TTCCTCATTCGAACAACCATTTGA
24932320 T
1 T
24932321 CAAAGATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (24 bp):
TTCCTCATTCGAACAACCATTTGA
Found at i:24938153 original size:12 final size:12
Alignment explanation
Indices: 24938133--24938196 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
24938123 TATTGTGCAT
24938133 TTTATTTATTTTA
1 TTTA-TTATTTTA
24938146 TTTATTATTTTA
1 TTTATTATTTTA
***
24938158 -TT-TTATTGCC
1 TTTATTATTTTA
24938168 TTTATTA-TTTA
1 TTTATTATTTTA
24938179 TTTATTAATTTT-
1 TTTATT-ATTTTA
24938191 TTTATT
1 TTTATT
24938197 TGCAGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
10 5 0.12
11 11 0.27
12 18 0.44
13 7 0.17
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:24938162 original size:22 final size:22
Alignment explanation
Indices: 24938131--24938181 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
24938121 TTTATTGTGC
**
24938131 ATTTTA-TTTATTTTATTTATT
1 ATTTTATTTTATTGCATTTATT
*
24938152 ATTTTATTTTATTGCCTTTATT
1 ATTTTATTTTATTGCATTTATT
24938174 A-TTTATTT
1 ATTTTATTT
24938182 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTTATTTTATTGCATTTATT
Found at i:24940610 original size:20 final size:19
Alignment explanation
Indices: 24940587--24940631 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
24940577 ACTAAACCAA
*
24940587 CCCAAACATTAAACCCTCAG
1 CCCAAA-ATTAAACCCTAAG
* *
24940607 CCCAAATTTTAACCCTAAG
1 CCCAAAATTAAACCCTAAG
24940626 CCCAAA
1 CCCAAA
24940632 TGGCCCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.40, C:0.38, G:0.04, T:0.18
Consensus pattern (19 bp):
CCCAAAATTAAACCCTAAG
Found at i:24941923 original size:15 final size:15
Alignment explanation
Indices: 24941884--24941925 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
24941874 CATTTTTTTA
*
24941884 TTTATTTCATTTAAT
1 TTTATTTTATTTAAT
24941899 TTTATTTTATTT-AT
1 TTTATTTTATTTAAT
*
24941913 TTTCTTATTATTT
1 TTTATT-TTATTT
24941926 TAATATCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTATTTAAT
Found at i:24942428 original size:108 final size:108
Alignment explanation
Indices: 24942305--24942718 Score: 643
Period size: 108 Copynumber: 3.8 Consensus size: 108
24942295 TATCCAAATA
*
24942305 AAAATTTCAAAATAAGGCAATATTTTGCATTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACATTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
24942370 GTTTCGGTTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
66 GTTTCGATTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
* * * *
24942413 AAAATTTCAAAATAAGGTAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCGTAACGTGCTGA
1 AAAATTTCAAAATAAGGCAATATTTTACATTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
24942478 GTTTCGGTTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
66 GTTTCGATTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
* ** * *
24942521 AAAATTTCAAAATAAGGCAACATTTTATGTTTGAAAGTTCGAGAAAGCGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACATTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
24942586 GTTTCGATATTTTCGTTTGACCAAATAGCT-AATATATCCTTTT
66 GTTTCGAT-TTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
* * *
24942629 AAAATTTCAAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACATGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACATTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
24942694 GTTTCGATTTCTCG-TTGAACCAAAT
66 GTTTCGATTTTTCGTTTG-ACCAAAT
24942719 TGCCAAATAT
Statistics
Matches: 281, Mismatches: 23, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 3 0.01
107 12 0.04
108 245 0.87
109 21 0.07
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (108 bp):
AAAATTTCAAAATAAGGCAATATTTTACATTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTTTCGTTTGACCAAATAGCTAAAAATATCCTTTT
Found at i:24964562 original size:13 final size:13
Alignment explanation
Indices: 24964544--24964568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24964534 TCAAACGATT
24964544 AAATTTTCACACG
1 AAATTTTCACACG
24964557 AAATTTTCACAC
1 AAATTTTCACAC
24964569 ATATAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:24965707 original size:37 final size:36
Alignment explanation
Indices: 24965660--24965804 Score: 134
Period size: 37 Copynumber: 3.9 Consensus size: 36
24965650 GATATATAGT
24965660 TCTTCAAAGCACTTGGCATGTTATCGGTTGAATTAGC
1 TCTTC-AAGCACTTGGCATGTTATCGGTTGAATTAGC
* ** *
24965697 TCTTCGAAGCATTTGGCATGTTGCCAGTT-ATATTAGC
1 TCTTC-AAGCACTTGGCATGTTATCGGTTGA-ATTAGC
*
24965734 TCTTCAGAGCACTTGGCGAT-TTATCGGTTGGATTAGC
1 TCTTCA-AGCACTTGGC-ATGTTATCGGTTGAATTAGC
* ** *
24965771 TCTTATAAGCGTTTGGCATGTT-TCGGTTGGATTA
1 TCTT-CAAGCACTTGGCATGTTATCGGTTGAATTA
24965805 CATGTGTACT
Statistics
Matches: 89, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
36 16 0.18
37 70 0.79
38 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (36 bp):
TCTTCAAGCACTTGGCATGTTATCGGTTGAATTAGC
Found at i:24965786 original size:74 final size:75
Alignment explanation
Indices: 24965651--24965792 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
24965641 TATGGGGAGG
* *
24965651 ATATATAGTTCTTCAAAGCACTTGGCATGTTATCGGTTGAATTAGCTCTTCGAAGCATTTGGCAT
1 ATATATAGCTCTTCAAAGCACTTGGCATGTTATCGGTTGAATTAGCTCTTAGAAGCATTTGGCAT
24965716 GTTGCCAGTT
66 GTTGCCAGTT
* * * *
24965726 ATAT-TAGCTCTTCAGAGCACTTGGCGAT-TTATCGGTTGGATTAGCTCTTATAAGCGTTTGGCA
1 ATATATAGCTCTTCAAAGCACTTGGC-ATGTTATCGGTTGAATTAGCTCTTAGAAGCATTTGGCA
24965789 TGTT
65 TGTT
24965793 TCGGTTGGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 54 0.90
75 6 0.10
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (75 bp):
ATATATAGCTCTTCAAAGCACTTGGCATGTTATCGGTTGAATTAGCTCTTAGAAGCATTTGGCAT
GTTGCCAGTT
Found at i:24966634 original size:66 final size:66
Alignment explanation
Indices: 24966553--24966676 Score: 185
Period size: 66 Copynumber: 1.9 Consensus size: 66
24966543 GTCATCCTCC
* * *
24966553 TTGTTTTGCTATATTTTTTGATGTCCTCCTCTCGGTTTAATTACCCCTTTTAGGGGCCATGTCTC
1 TTGTTTTACTATATTTTTTAATGTCCTCCTCTCGGTTTAATAACCCCTTTTAGGGGCCATGTCTC
24966618 T
66 T
* * * *
24966619 TTGTTTTACTCTATTTTTTAATGTCCTCCTTTCGGTTTAATAACCTCTTTTGGGGGCC
1 TTGTTTTACTATATTTTTTAATGTCCTCCTCTCGGTTTAATAACCCCTTTTAGGGGCC
24966677 CTGTTTGAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.13, C:0.22, G:0.16, T:0.49
Consensus pattern (66 bp):
TTGTTTTACTATATTTTTTAATGTCCTCCTCTCGGTTTAATAACCCCTTTTAGGGGCCATGTCTC
T
Found at i:24968532 original size:30 final size:31
Alignment explanation
Indices: 24968498--24968558 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
24968488 TTTTTTTATA
*
24968498 AATATTAAATTT-ATATATCAACTTTGGTTT
1 AATATGAAATTTGATATATCAACTTTGGTTT
* * *
24968528 AATATGCAATTTGATATATGAATTTTGGTTT
1 AATATGAAATTTGATATATCAACTTTGGTTT
24968559 GGTGCAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (31 bp):
AATATGAAATTTGATATATCAACTTTGGTTT
Found at i:24971712 original size:6 final size:6
Alignment explanation
Indices: 24971695--24971732 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
24971685 ACCCTTCTTC
*
24971695 TCCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
24971733 GGGTTGCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:24971732 original size:18 final size:18
Alignment explanation
Indices: 24971697--24971732 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24971687 CCTTCTTCTC
24971697 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
24971715 CCCTTTCCCCTTCCCCTT
1 CCCTTTCCCCTTCCCCTT
24971733 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTTCCCCTT
Found at i:24971851 original size:25 final size:26
Alignment explanation
Indices: 24971795--24971851 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
24971785 GTATGGCTTC
*
24971795 TTCTCCTTCTTCCGTTCTTCATTCCT
1 TTCTTCTTCTTCCGTTCTTCATTCCT
* *
24971821 TT-TTCTTCTTCTGTTCTTCA-TCTT
1 TTCTTCTTCTTCCGTTCTTCATTCCT
24971845 TTCTTCT
1 TTCTTCT
24971852 CAGCATATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 20 0.74
26 2 0.07
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.61
Consensus pattern (26 bp):
TTCTTCTTCTTCCGTTCTTCATTCCT
Found at i:24975529 original size:16 final size:16
Alignment explanation
Indices: 24975500--24975551 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 16
24975490 AATATATGAA
*
24975500 AAAAATTTA-AAATAT
1 AAAAATTTATTAATAT
24975515 AAAAATTTATTAATATGT
1 AAAAATTTATTAATA--T
24975533 ATATAAATTTATTAATAT
1 A-A-AAATTTATTAATAT
24975551 A
1 A
24975552 TGTAAAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 9 0.29
16 4 0.13
18 4 0.13
19 1 0.03
20 13 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
AAAAATTTATTAATAT
Found at i:24975555 original size:22 final size:20
Alignment explanation
Indices: 24975512--24975550 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24975502 AAATTTAAAA
24975512 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
24975532 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
24975551 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:24975958 original size:21 final size:21
Alignment explanation
Indices: 24975932--24975987 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
24975922 CACTGCTGTT
*
24975932 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
24975953 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
24975974 ACTAATCTCACCGC
1 TCTAATCTCACCGC
24975988 CACCGCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:24977294 original size:21 final size:21
Alignment explanation
Indices: 24977243--24977297 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
24977233 ACCATTGTTT
*
24977243 CTAATCTCACCGCTACAATAT
1 CTAATCTCACCGCTACAATAA
* *
24977264 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAATAA
*
24977285 CTAATATCACCGC
1 CTAATCTCACCGC
24977298 CACCACTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.36, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:24981882 original size:27 final size:27
Alignment explanation
Indices: 24981828--24981888 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
24981818 AATTAGAAAT
** *
24981828 ATATATTTATGTGATTTTTTTGTGGAA
1 ATATATTTATGTGATTTAATTATGGAA
*
24981855 ATATATTTATGTGATTTGAATTATGAAA
1 ATATATTTATGTGATTT-AATTATGGAA
*
24981883 AGATAT
1 ATATAT
24981889 AATTTCTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (27 bp):
ATATATTTATGTGATTTAATTATGGAA
Found at i:24987588 original size:14 final size:14
Alignment explanation
Indices: 24987569--24987597 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24987559 CGCAACAATT
24987569 GGTATCAGAGCCAA
1 GGTATCAGAGCCAA
24987583 GGTATCAGAGCCAA
1 GGTATCAGAGCCAA
24987597 G
1 G
24987598 ACACTATTGA
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:0.21, G:0.31, T:0.14
Consensus pattern (14 bp):
GGTATCAGAGCCAA
Found at i:24990464 original size:24 final size:21
Alignment explanation
Indices: 24990404--24990471 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
24990394 CAGAAGGAGT
*
24990404 GAGTAGTACTTCGCAGCAGGTG
1 GAGT-GTACTCCGCAGCAGGTG
24990426 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
24990447 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
24990468 GAGT
1 GAGT
24990472 TTGAGCAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 41 0.91
22 4 0.09
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (21 bp):
GAGTGTACTCCGCAGCAGGTG
Found at i:24995916 original size:34 final size:33
Alignment explanation
Indices: 24995878--24995984 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 33
24995868 GTTTTTCCAT
24995878 TATTTTGCTGTCATTTTTATTATTATGTTACTAC
1 TATTTTGCTGTCATTTTTATTATTATGTT-CTAC
* * * *
24995912 TATTTT-AT-T-ATTATTATTATTA--TTCCAT
1 TATTTTGCTGTCATTTTTATTATTATGTTCTAC
* * *
24995940 TATTTTGCTATCATTTTCACTATTATGTTGCTAC
1 TATTTTGCTGTCATTTTTATTATTATGTT-CTAC
*
24995974 TATTTTACTGT
1 TATTTTGCTGT
24995985 TATTATTTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
28 8 0.15
29 3 0.05
30 1 0.02
31 22 0.40
32 1 0.02
33 3 0.05
34 17 0.31
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (33 bp):
TATTTTGCTGTCATTTTTATTATTATGTTCTAC
Found at i:24995964 original size:23 final size:22
Alignment explanation
Indices: 24995938--24995988 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
24995928 TTATTATTCC
24995938 ATTATTTTGCTA-TCATTTTCACT
1 ATTATTTTGCTACT-ATTTT-ACT
*
24995961 ATTATGTTGCTACTATTTTACT
1 ATTATTTTGCTACTATTTTACT
*
24995983 GTTATT
1 ATTATT
24995989 ATTTGGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.29
23 16 0.67
24 1 0.04
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.57
Consensus pattern (22 bp):
ATTATTTTGCTACTATTTTACT
Found at i:24995974 original size:62 final size:62
Alignment explanation
Indices: 24995872--24995991 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
24995862 GCTGCTGTTT
* * * *
24995872 TTCCATTATTTTGCTGTCATTTTTATTATTATGTTACTACTATTTTATTATTATTATTATTA
1 TTCCATTATTTTGCTATCATTTTCACTATTATGTTACTACTATTTTACTATTATTATTATTA
* *
24995934 TTCCATTATTTTGCTATCATTTTCACTATTATGTTGCTACTATTTTACTGTTATTATT
1 TTCCATTATTTTGCTATCATTTTCACTATTATGTTACTACTATTTTACTATTATTATT
24995992 TGGATATTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.23, C:0.12, G:0.06, T:0.59
Consensus pattern (62 bp):
TTCCATTATTTTGCTATCATTTTCACTATTATGTTACTACTATTTTACTATTATTATTATTA
Found at i:24998221 original size:20 final size:21
Alignment explanation
Indices: 24998196--24998252 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
24998186 CCAAAAATCA
24998196 AAAGTATCGATACTCTT-AAC
1 AAAGTATCGATACTCTTAAAC
24998216 AAAGTATCGA-AGC-CTTAAAC
1 AAAGTATCGATA-CTCTTAAAC
*
24998236 AAAGTATCGATATTCTT
1 AAAGTATCGATACTCTT
24998253 GTCTGGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.12
20 24 0.75
21 4 0.12
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (21 bp):
AAAGTATCGATACTCTTAAAC
Found at i:25000987 original size:41 final size:41
Alignment explanation
Indices: 25000930--25001031 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
25000920 GCATAGCGCT
*
25000930 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
25000971 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
25001012 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
25001032 TACTGAATCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 3 0.05
41 54 0.95
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:25008603 original size:41 final size:41
Alignment explanation
Indices: 25008546--25008647 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
25008536 GCATAGCGCT
*
25008546 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
* *
25008587 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
25008628 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
25008648 TACTGAATCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 3 0.05
41 54 0.95
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTATATGTC
Found at i:25012969 original size:3 final size:3
Alignment explanation
Indices: 25012961--25013064 Score: 190
Period size: 3 Copynumber: 34.3 Consensus size: 3
25012951 TGGGTCGAGG
*
25012961 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
25013009 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
25013057 GAAA GAA G
1 G-AA GAA G
25013065 GAAAAAAAAG
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
3 95 0.97
4 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:25013127 original size:54 final size:57
Alignment explanation
Indices: 25013039--25013155 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 57
25013029 AGAAGAAGAA
* * * *
25013039 GAAGAAGAAGAAGAAGAAGAAAGAAGGAAAAAAAAGAATGTCAAAAAAATTTGG-GGG
1 GAAGAAGAAGAAAAAGAAGAAAGAA-GAAAAAAAACAACGACAAAAAAATTTGGAGGG
* *
25013096 GAAGAAGAAGAAAAAGAAGAAAG-A-AAAAAAAACAACGACAGAAAATTTTGGAGGG
1 GAAGAAGAAGAAAAAGAAGAAAGAAGAAAAAAAACAACGACAAAAAAATTTGGAGGG
25013151 GAAGA
1 GAAGA
25013156 GTCAAAAGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 22 0.42
55 8 0.15
56 1 0.02
57 22 0.42
ACGTcount: A:0.61, C:0.03, G:0.28, T:0.08
Consensus pattern (57 bp):
GAAGAAGAAGAAAAAGAAGAAAGAAGAAAAAAAACAACGACAAAAAAATTTGGAGGG
Found at i:25017352 original size:15 final size:15
Alignment explanation
Indices: 25017332--25017370 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
25017322 ATGTATTTTA
*
25017332 TATTATTATTGCTAT
1 TATTATTATTCCTAT
25017347 TATTATTATTCCTAT
1 TATTATTATTCCTAT
*
25017362 TATTTTTAT
1 TATTATTAT
25017371 ATCTTTATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (15 bp):
TATTATTATTCCTAT
Found at i:25017545 original size:19 final size:19
Alignment explanation
Indices: 25017523--25017559 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25017513 ACACTTGTTT
25017523 TAAAATTATGTATTATTAC
1 TAAAATTATGTATTATTAC
* *
25017542 TAAAATTTTGTTTTATTA
1 TAAAATTATGTATTATTA
25017560 TGATATGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (19 bp):
TAAAATTATGTATTATTAC
Found at i:25018277 original size:16 final size:16
Alignment explanation
Indices: 25018258--25018310 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
25018248 TTGGTTCGCA
*
25018258 GTAATGGAATGGAGGC
1 GTAATGGAATAGAGGC
*
25018274 GTAATGGAATAGAAGC
1 GTAATGGAATAGAGGC
25018290 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
25018306 GTAAT
1 GTAAT
25018311 AGCAATTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:25018344 original size:45 final size:44
Alignment explanation
Indices: 25018293--25018379 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 44
25018283 TAGAAGCGTA
25018293 ATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAATGTG
1 ATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAATGTG
* *
25018338 ATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATG
1 ATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAATG
25018380 GAATGGAGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 20 0.51
ACGTcount: A:0.29, C:0.06, G:0.30, T:0.36
Consensus pattern (44 bp):
ATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAATGTG
Found at i:25018386 original size:44 final size:46
Alignment explanation
Indices: 25018292--25018386 Score: 135
Period size: 44 Copynumber: 2.1 Consensus size: 46
25018282 ATAGAAGCGT
25018292 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGTG
1 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGTG
* *
25018338 -ATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAATG-G
1 AATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAATGTG
25018381 AATGGA
1 AATGGA
25018387 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
43 2 0.04
44 23 0.51
45 20 0.44
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGTG
Found at i:25018562 original size:18 final size:17
Alignment explanation
Indices: 25018540--25018574 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25018530 TAATTATTAA
*
25018540 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25018558 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25018575 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25018667 original size:16 final size:14
Alignment explanation
Indices: 25018637--25018688 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
25018627 CTATAAAATA
25018637 TAATTTAAAATAAT
1 TAATTTAAAATAAT
25018651 TAATATTAAATATAAT
1 TAAT-TTAAA-ATAAT
* *
25018667 TTAGTTAAAAT-AT
1 TAATTTAAAATAAT
25018680 ATAATTTAA
1 -TAATTTAA
25018689 TAAAATTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 12 0.39
15 10 0.32
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TAATTTAAAATAAT
Found at i:25018740 original size:117 final size:120
Alignment explanation
Indices: 25018534--25018754 Score: 369
Period size: 117 Copynumber: 1.9 Consensus size: 120
25018524 TTAACATAAT
*
25018534 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTC-TAATAATCAATATTCTTATAT
25018599 GAATTTACTAAAATCATAATATATAATACTAT-AAAATATAATTTAAAATAATTAA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
*
25018654 TATTAAATATAATTTAGTTAAAATATATAATTTAATAAAATTC-AAT-AT-AATTATTCTTATAT
1 TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAA-TATTCTTATAT
*
25018716 GAATTTACTAAAATCATATTATATAATACTATGAAAATA
65 GAATTTACTAAAATCATAATATATAATACTATGAAAATA
25018755 ATATATAATC
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
116 2 0.02
117 44 0.46
118 9 0.09
120 41 0.43
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTAATAATCAATATTCTTATATG
AATTTACTAAAATCATAATATATAATACTATGAAAATATAATTTAAAATAATTAA
Found at i:25021466 original size:46 final size:46
Alignment explanation
Indices: 25021399--25021491 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
25021389 CCTTAAAGAA
* *
25021399 CAAAGACTTGCAATCAGAAACTATTAGGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTT
*
25021445 CAAAGACTTGCAATCAAAAACTATGATGCTTCACAGAATAAACTTT
1 CAAAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTT
25021491 C
1 C
25021492 TCAGATACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (46 bp):
CAAAGACTTGCAATCAAAAACTATGAGGCTTCACAGAATAAACTTT
Found at i:25025016 original size:17 final size:17
Alignment explanation
Indices: 25024994--25025035 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
25024984 TGGAAATGAT
*
25024994 GGAAAAAGAAAAGGAAA
1 GGAAAAAGAAAAAGAAA
25025011 GGAAAAAGAAAAAGAAA
1 GGAAAAAGAAAAAGAAA
*
25025028 AGAAAAAG
1 GGAAAAAG
25025036 GAGAAGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGAAA
Found at i:25025023 original size:7 final size:6
Alignment explanation
Indices: 25024995--25025035 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
25024985 GGAAATGATG
* *
25024995 GAAAAA G-AAAA GGAAAG GAAAAA GAAAAA G-AAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
25025036 GAGAAGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:25027443 original size:45 final size:45
Alignment explanation
Indices: 25027299--25027882 Score: 687
Period size: 45 Copynumber: 13.0 Consensus size: 45
25027289 TTGGTTGAAA
* *
25027299 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * * * * *
25027344 ATACCAG-CCTTATC-T-C---ATTGAGCAGCAGTAGAGTA-AGTTGAAA
1 ATAGCAGATCTTGTCTTCCTGTACTG-GCAGC-G-A-AGTAGA-TCGAAG
* * * * *
25027387 ATAGCAAATCTTATCTTTCTGTACTGGCAGCAAAATAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * *
25027432 ATAGCAGATCTTGTCTTCCTGTAGTGGCAGTGAAGTAGATCGAAT
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * *
25027477 ATAGTAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGATCGATG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * *
25027522 ATAGTAGATCTTATCTTCTTGTACTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
*
25027567 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * * *
25027612 ATAACAGATATTGTCTTCCTGTACTGGCAACGAAATAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* *
25027657 ATAGCAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * **
25027702 ATAGCAGATCTTGTGTTCCTGTACTGGTAGTAAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* *
25027747 ATGGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * ** *
25027792 ATAGCAGATCTTGTCTTCCTGTATTGGCATCGAAGTAGATAAAAA
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
* * *
25027837 ATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
25027882 A
1 A
25027883 CATTAGCCTT
Statistics
Matches: 456, Mismatches: 71, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.01
40 5 0.01
41 1 0.00
42 3 0.01
43 14 0.03
44 11 0.02
45 407 0.89
46 3 0.01
48 5 0.01
49 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
Found at i:25027912 original size:44 final size:44
Alignment explanation
Indices: 25027864--25028008 Score: 118
Period size: 44 Copynumber: 3.3 Consensus size: 44
25027854 CCTATACTGG
25027864 CAGCGAAGCAGATCGAAGACATTAGCCTTGCCTCTCTGATTTTA
1 CAGCGAAGCAGATCGAAGACATTAGCCTTGCCTCTCTGATTTTA
* * ** * * **
25027908 CAGCGAAGCAGAAT-TAAGATAGCAGATCTTGCCT-TC-CAGTATTGG
1 CAGCGAAGCAG-ATCGAAGACATTAG-CCTTGCCTCTCTGA-T-TTTA
*
25027953 CAGCGAAGCAGATCGAAGACATTAGCCTTGCCTCAT-TGAGTTTA
1 CAGCGAAGCAGATCGAAGACATTAGCCTTGCCTC-TCTGATTTTA
* *
25027997 CATCGGAGCAGA
1 CAGCGAAGCAGA
25028009 CTAAAGATAG
Statistics
Matches: 74, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
43 1 0.01
44 42 0.57
45 29 0.39
46 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (44 bp):
CAGCGAAGCAGATCGAAGACATTAGCCTTGCCTCTCTGATTTTA
Found at i:25027954 original size:89 final size:89
Alignment explanation
Indices: 25027837--25028238 Score: 484
Period size: 89 Copynumber: 4.5 Consensus size: 89
25027827 TAGATAAAAA
* * * *
25027837 ATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGATCGAAGACATTAGCCTTGCCTCTCT-
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* * * *
25027901 GATTTTACAGCGAAGCAGAATTAAG
66 G-GTTTACAGCGGAGCAGACTGAAG
* * * * * *
25027926 ATAGCAGATCTTGCCTTCCAGTATTGGCAGCGAAGCAGATCGAAGACATTAGCCTTGCCT-CATT
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* *
25027990 GAGTTTACATCGGAGCAGACTAAAG
66 G-GTTTACAGCGGAGCAGACTGAAG
* * *
25028015 ATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
*
25028080 GGTTTGCAGCGGAGCAGACTGAAG
66 GGTTTACAGCGGAGCAGACTGAAG
* * ** * *
25028104 ATAGTAAATCTTGCCTTCCTGTACTGACAGCGAATTAGATCGAAGACACTAGTCTTGTCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* * *
25028169 GGTTTGCGGTGGAGCAGACTGAAG
66 GGTTTACAGCGGAGCAGACTGAAG
* * *
25028193 ATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAAATCGAAGA
1 ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGA
25028239 TGGCGAATCT
Statistics
Matches: 275, Mismatches: 36, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
88 1 0.00
89 271 0.99
90 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (89 bp):
ATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
GGTTTACAGCGGAGCAGACTGAAG
Found at i:25028052 original size:45 final size:45
Alignment explanation
Indices: 25027382--25028229 Score: 270
Period size: 45 Copynumber: 18.9 Consensus size: 45
25027372 TAGAGTAAGT
* ** * * * **
25027382 TGAAAATAGCAAATCTTATCTTTCTGTACTGGCAGCAAAATAGA-
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * *
25027426 TCGAAGATAGCAGATCTTGTCTTCCTGTAGTGGCAGTGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * *
25027471 TCGAATATAGTAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * ** * * *
25027516 TCGATGATAGTAGATCTTATCTTCTTGTACTGGCAGCGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
25027561 TCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * **
25027606 TCGAAGATAACAGATATTGTCTTCCTGTACTGGCAACGAAATAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * *
25027651 TCGAAGATAGCAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* ** ** ** *
25027696 TCGAAGATAGCAGATCTTGTGTTCCTGTACTGGTAGTAAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * *
25027741 TCGAAGATGGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * *
25027786 TCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCATCGAAGTAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * *
25027831 TAAAAAATAGCAGATCTTGCCTTCCTATACTGGCAGCGAAGCAGA-
1 T-GAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* ** ** * * *
25027876 TCGAAGACA-TTAGCCTTGCC-TCTCTG-ATTTTACAGCGAAGCAGAA
1 T-GAAGATAGCAAATCTTGCCTTC-CTGTA-CTGACAGCGAAGCAGAC
* * * * *
25027921 TTAAGATAGCAGATCTTGCCTTCCAGTATTGGCAGCGAAGCAGA-
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* ** ** * * * * *
25027965 TCGAAGACA-TTAGCCTTGCC-TCAT-TGAGTTTACATCGGAGCAGAC
1 T-GAAGATAGCAAATCTTGCCTTCCTGT-A-CTGACAGCGAAGCAGAC
* *
25028010 TAAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAT
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * ** * * *
25028055 TGAAGACA-CCAGCCTTGCCTCCCTAGGT-TTG-CAGCGGAGCAGAC
1 TGAAGATAGCAAATCTTGCCTTCCT--GTACTGACAGCGAAGCAGAC
* **
25028099 TGAAGATAGTAAATCTTGCCTTCCTGTACTGACAGCGAATTAGA-
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * * * * * * * *
25028143 TCGAAGACA-CTAGTCTTGTCTCCCTAGGT-TTG-CGGTGGAGCAGAC
1 T-GAAGATAGCAAATCTTGCCTTCCT--GTACTGACAGCGAAGCAGAC
* * *
25028188 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCA
1 TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCA
25028230 AATCGAAGAT
Statistics
Matches: 633, Mismatches: 145, Indels: 51
0.76 0.17 0.06
Matches are distributed among these distances:
42 1 0.00
43 10 0.02
44 110 0.17
45 500 0.79
46 11 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (45 bp):
TGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
Found at i:25028350 original size:44 final size:44
Alignment explanation
Indices: 25028302--25028625 Score: 144
Period size: 44 Copynumber: 7.4 Consensus size: 44
25028292 TATCTTCCTG
*
25028302 AGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTA
1 AGCAGTAGTGGAGCAGGTTGAAGATTGTAGATCCTGTCTCCCTA
** * * ** * *
25028346 AGCAGTAGTGGAGCAAATCGAAGA-CGGCGAATCTTATCTTCCC-A
1 AGCAGTAGTGGAGCAGGTTGAAGATTGTAG-ATCCTGTC-TCCCTA
* * * * **** * *
25028390 ATGTAGTAG-GGAAACAGATTTAAGCCACTAG-TCCTGCCTCCCTG
1 A-GCAGTAGTGG-AGCAGGTTGAAGATTGTAGATCCTGTCTCCCTA
* * *
25028434 AGCAGCAGTGGAGTAGGTTGAAGATTGTGGATCCTGTCTCCCTA
1 AGCAGTAGTGGAGCAGGTTGAAGATTGTAGATCCTGTCTCCCTA
* ** * * *
25028478 AGCAGTAGTGGAGCAGATCAAAGATGGT-GAATCTTATCTTCCC-A
1 AGCAGTAGTGGAGCAGGTTGAAGATTGTAG-ATCCTGTC-TCCCTA
* * ***** *
25028522 ATGTAGTAG-GGAAGCAGGTTTAAGCCACCAG-TCCTGTCTCCCTG
1 A-GCAGTAGTGG-AGCAGGTTGAAGATTGTAGATCCTGTCTCCCTA
* * *
25028566 AGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT-TTCGTCTCCCTA
1 AGCAGTAGTGGAGCAGGTTGAAGATTGTAGATCCT-GTCTCCCTA
*
25028610 AGCAGTAGTGAAGCAG
1 AGCAGTAGTGGAGCAG
25028626 ATCAAATACA
Statistics
Matches: 193, Mismatches: 70, Indels: 34
0.65 0.24 0.11
Matches are distributed among these distances:
43 44 0.23
44 110 0.57
45 37 0.19
46 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (44 bp):
AGCAGTAGTGGAGCAGGTTGAAGATTGTAGATCCTGTCTCCCTA
Found at i:25028436 original size:132 final size:132
Alignment explanation
Indices: 25028221--25028727 Score: 730
Period size: 132 Copynumber: 3.8 Consensus size: 132
25028211 CTGTACTGAC
* * * *
25028221 AGTGAAGCAAATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGGG-GGCAGATTTAATCCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* *
25028285 CCAGTCCTATCTTCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
25028350 GT
131 GT
* * * *
25028352 AGTGGAGCAAATCGAAGACGGCGAATCTTATCTTCCCAATGTAGTAGGGAAACAGATTTAAGCCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* ** *
25028417 CTAGTCCTGCCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTGGATCCTGTCTCCCTAAGCA
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
25028482 GT
131 GT
* * * * * *
25028484 AGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATGTAGTAGGGAAGCAGGTTTAAGCCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
* *
25028549 CCAGTCCTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGAT-TTCGTCTCCCTAAGC
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCT-GTCTCCCTAAGC
25028613 AGT
130 AGT
* * * * * *
25028616 AGTGAAGCAGATCAAATACAGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAACCA
1 AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
*
25028681 CCAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
66 CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG
25028728 TCATTAACTC
Statistics
Matches: 342, Mismatches: 32, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
131 47 0.14
132 295 0.86
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (132 bp):
AGTGAAGCAAATCAAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCA
CCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
GT
Found at i:25030294 original size:11 final size:10
Alignment explanation
Indices: 25030268--25030322 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
25030258 TTATAAATAC
25030268 TTTTATATCT
1 TTTTATATCT
*
25030278 TTTTATATGT
1 TTTTATATCT
*
25030288 ATTT-TATCAT
1 TTTTATATC-T
25030298 TTTTATAT-T
1 TTTTATATCT
* *
25030307 TTTTATTTAT
1 TTTTATATCT
25030317 TTTTAT
1 TTTTAT
25030323 TGAAAACTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
9 11 0.30
10 23 0.62
11 3 0.08
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATATCT
Found at i:25036211 original size:42 final size:42
Alignment explanation
Indices: 25036124--25036212 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
25036114 TGTCTTAAAT
* **
25036124 CGTGTAACTCACTGACTTAGATCACACGGCCATGTCGTAGGC
1 CGTGTAACTCACTGACTTAGATCACACGGCCATGTCGCAAAC
* *
25036166 CGTGTAACTCTCTGACTT-GATACACACGGCCGTGTCGCAAAC
1 CGTGTAACTCACTGACTTAGAT-CACACGGCCATGTCGCAAAC
25036208 CGTGT
1 CGTGT
25036213 GCCAAGCCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 3 0.07
42 38 0.93
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (42 bp):
CGTGTAACTCACTGACTTAGATCACACGGCCATGTCGCAAAC
Found at i:25040997 original size:28 final size:28
Alignment explanation
Indices: 25040957--25041010 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
25040947 GAGGAAAATA
25040957 TAACTGGTGCTAATTTGACCGACGAATG
1 TAACTGGTGCTAATTTGACCGACGAATG
25040985 TAACTGGTGCTAATTTGACCGACGAA
1 TAACTGGTGCTAATTTGACCGACGAA
25041011 AGTAGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (28 bp):
TAACTGGTGCTAATTTGACCGACGAATG
Found at i:25053996 original size:184 final size:184
Alignment explanation
Indices: 25053687--25054018 Score: 567
Period size: 184 Copynumber: 1.8 Consensus size: 184
25053677 ATTTGTTGTG
* * *
25053687 GATCCGCCACAGCTTGTTTAAGCAGCATCGTGTAGCTTACATCTTGACCCATAGCTCGTGTAAGT
1 GATCCGCCACAACTTGTTTAAGCAGCATCGTGTAGCTTACATATTGACCCATAGCTCGTGTAAGC
*
25053752 AGGCTCATGTCACAGCTCGTCTGAGCATTTCATATATGGTTACATTTCAGATACTGGCACACTTT
66 AGGCCCATGTCACAGCTCGTCTGAGCATTTCATATATGGTTACATTTCAGATACTGGCACACTTT
25053817 GTGTAAGCATGGTTTCTGAAATGTAACCATATATGAAATGCTCAGACGATTGCA
131 GTGTAAGCATGGTTTCTGAAATGTAACCATATATGAAATGCTCAGACGATTGCA
* *
25053871 GATCCGCCACAACTTGTTTAGGCAGCATCGTGTAGCTTACATATTGACCCATAGCTCGTGTGAGC
1 GATCCGCCACAACTTGTTTAAGCAGCATCGTGTAGCTTACATATTGACCCATAGCTCGTGTAAGC
* *
25053936 AGGCCCACT-TCATAGCTCGTCTGAGCATTTCATATATGGTTACATTTTAGATACTGGCACACTT
66 AGGCCCA-TGTCACAGCTCGTCTGAGCATTTCATATATGGTTACATTTCAGATACTGGCACACTT
*
25054000 TGTGTGAGCATGGTTTCTG
130 TGTGTAAGCATGGTTTCTG
25054019 TGTATCCAAC
Statistics
Matches: 138, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
184 137 0.99
185 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (184 bp):
GATCCGCCACAACTTGTTTAAGCAGCATCGTGTAGCTTACATATTGACCCATAGCTCGTGTAAGC
AGGCCCATGTCACAGCTCGTCTGAGCATTTCATATATGGTTACATTTCAGATACTGGCACACTTT
GTGTAAGCATGGTTTCTGAAATGTAACCATATATGAAATGCTCAGACGATTGCA
Found at i:25060189 original size:29 final size:29
Alignment explanation
Indices: 25060157--25060225 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
25060147 AACCATCCAT
*
25060157 TACAACCATCAATAAATTGTCTATCAAAA
1 TACAACCATCAATAAATTGTCCATCAAAA
* *
25060186 TACAACTATCAATAAATTTTCCATCAAAA
1 TACAACCATCAATAAATTGTCCATCAAAA
25060215 TACAACCATCA
1 TACAACCATCA
25060226 TAATGATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (29 bp):
TACAACCATCAATAAATTGTCCATCAAAA
Found at i:25060262 original size:31 final size:31
Alignment explanation
Indices: 25060220--25060282 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
25060210 CAAAATACAA
* * * * *
25060220 CCATCATAATGATTCGAAAAAATTAAATCAT
1 CCATCAAAATGATCCAAAAAAATAAAACCAT
25060251 CCATCAAAATGATCCAAAAAAATAAAACCAT
1 CCATCAAAATGATCCAAAAAAATAAAACCAT
25060282 C
1 C
25060283 AATCGTATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.21, G:0.05, T:0.22
Consensus pattern (31 bp):
CCATCAAAATGATCCAAAAAAATAAAACCAT
Found at i:25060283 original size:27 final size:28
Alignment explanation
Indices: 25060211--25060284 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 28
25060201 ATTTTCCATC
* * *
25060211 AAAATACAACCATCATAATGATTCGAAA
1 AAAATAAAACCATCAAAATGATTCCAAA
*
25060239 AAATTAAATCATCCATCAAAATGA-TCCAAA
1 AAAATAAA--A-CCATCAAAATGATTCCAAA
25060269 AAAATAAAACCATCAA
1 AAAATAAAACCATCAA
25060285 TCGTATGTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 7 0.18
28 7 0.18
30 13 0.34
31 11 0.29
ACGTcount: A:0.57, C:0.19, G:0.04, T:0.20
Consensus pattern (28 bp):
AAAATAAAACCATCAAAATGATTCCAAA
Found at i:25060811 original size:24 final size:24
Alignment explanation
Indices: 25060765--25060811 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
25060755 TTGAGAAGGA
* *
25060765 GCTGGTGAACCAGGAGTTGCTAGG
1 GCTGGTGAACCAGGAGCTACTAGG
* *
25060789 GCTGGTGGAGCAGGAGCTACTAG
1 GCTGGTGAACCAGGAGCTACTAG
25060812 AGCTACTCTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (24 bp):
GCTGGTGAACCAGGAGCTACTAGG
Found at i:25061323 original size:21 final size:21
Alignment explanation
Indices: 25061299--25061369 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
25061289 GAGCCTAGAT
25061299 CGTGTGGCTCAGAAACATGGC
1 CGTGTGGCTCAGAAACATGGC
* *
25061320 CGTGTGGCTCAGAAACGTGGT
1 CGTGTGGCTCAGAAACATGGC
25061341 CGTGTGGCTCAGAAACATGGC
1 CGTGTGGCTCAGAAACATGGC
*
25061362 CTTGTGGC
1 CGTGTGGC
25061370 CAAACCGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (21 bp):
CGTGTGGCTCAGAAACATGGC
Found at i:25062357 original size:13 final size:13
Alignment explanation
Indices: 25062341--25062395 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
25062331 TATATGTTTC
*
25062341 CATATAAGCATTT
1 CATATAACCATTT
25062354 CATATAACCATTT
1 CATATAACCATTT
* **
25062367 CATCTAAATATTT
1 CATATAACCATTT
* *
25062380 CATCTTACCATTT
1 CATATAACCATTT
25062393 CAT
1 CAT
25062396 TTACACATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (13 bp):
CATATAACCATTT
Found at i:25062405 original size:26 final size:26
Alignment explanation
Indices: 25062349--25062405 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
25062339 TCCATATAAG
25062349 CATTTCATATAACCATTTCATCTAAA
1 CATTTCATATAACCATTTCATCTAAA
* * * * *
25062375 TATTTCATCTTACCATTTCATTTACA
1 CATTTCATATAACCATTTCATCTAAA
25062401 CATTT
1 CATTT
25062406 AACTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATTTCATATAACCATTTCATCTAAA
Found at i:25062841 original size:20 final size:20
Alignment explanation
Indices: 25062797--25062894 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
25062787 ACCACACCAA
*
25062797 AGGCATCAAAGTTGCATAACAG
1 AGGCATCGAAG-TGCA-AACAG
**
25062819 AGGCATCGAAGTGCAGGCAG
1 AGGCATCGAAGTGCAAACAG
* *
25062839 AGGCA-CAAATGTGCAATCAG
1 AGGCATCGAA-GTGCAAACAG
*
25062859 AGGCACCGAAGTGCAAACAG
1 AGGCATCGAAGTGCAAACAG
25062879 AGGCATCGAAGTGCAA
1 AGGCATCGAAGTGCAA
25062895 TCCCATACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.69
21 7 0.11
22 10 0.15
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (20 bp):
AGGCATCGAAGTGCAAACAG
Found at i:25062860 original size:40 final size:40
Alignment explanation
Indices: 25062797--25062896 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
25062787 ACCACACCAA
* * **
25062797 AGGCATCAAAGTTGCATAACAGAGGCATCGAAGTGCAGGCAG
1 AGGCATCAAAG-TGCA-ATCAGAGGCACCGAAGTGCAAACAG
25062839 AGGCA-CAAATGTGCAATCAGAGGCACCGAAGTGCAAACAG
1 AGGCATCAAA-GTGCAATCAGAGGCACCGAAGTGCAAACAG
*
25062879 AGGCATCGAAGTGCAATC
1 AGGCATCAAAGTGCAATC
25062897 CCATACAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 34 0.67
41 11 0.22
42 6 0.12
ACGTcount: A:0.37, C:0.21, G:0.29, T:0.13
Consensus pattern (40 bp):
AGGCATCAAAGTGCAATCAGAGGCACCGAAGTGCAAACAG
Found at i:25064331 original size:20 final size:20
Alignment explanation
Indices: 25064305--25064351 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
25064295 TTTAGCTCGG
*
25064305 TTCAGCTCACATGAGTTTAA
1 TTCAGCTCACATGAGCTTAA
* *
25064325 TTTAGCTCGCATGAGCTTAA
1 TTCAGCTCACATGAGCTTAA
25064345 TTCAGCT
1 TTCAGCT
25064352 TGTTTGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (20 bp):
TTCAGCTCACATGAGCTTAA
Found at i:25067125 original size:18 final size:18
Alignment explanation
Indices: 25067102--25067159 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
25067092 TGGAGAAATG
*
25067102 AAAGAAAAAGACATTGAA
1 AAAGAAAAAGAAATTGAA
*
25067120 AAAGAAAAAGAAATTGCA
1 AAAGAAAAAGAAATTGAA
*
25067138 AAAGAAAAGGAAATTGAA
1 AAAGAAAAAGAAATTGAA
25067156 AAAG
1 AAAG
25067160 TGAGTGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.67, C:0.03, G:0.19, T:0.10
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:25067157 original size:30 final size:29
Alignment explanation
Indices: 25067123--25067203 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
25067113 CATTGAAAAA
*
25067123 GAAAAAGAAATTGCAAAAGAAAAGGAAATT
1 GAAAAAGAAATTG-AAAAGAAAAAGAAATT
** * *
25067153 GAAAAAGTGAGTGAAAAGGAAAAAGAGATT
1 GAAAAAGAAATTGAAAA-GAAAAAGAAATT
25067183 GAAAAAGAAATTGAAAGAGAA
1 GAAAAAGAAATTGAAA-AGAA
25067204 GAAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 4 0.10
30 36 0.88
31 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.25, T:0.12
Consensus pattern (29 bp):
GAAAAAGAAATTGAAAAGAAAAAGAAATT
Found at i:25067174 original size:18 final size:18
Alignment explanation
Indices: 25067153--25067192 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25067143 AAAGGAAATT
* *
25067153 GAAAAAGTGAGTGAAAAG
1 GAAAAAGAGAGTGAAAAA
*
25067171 GAAAAAGAGATTGAAAAA
1 GAAAAAGAGAGTGAAAAA
25067189 GAAA
1 GAAA
25067193 TTGAAAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (18 bp):
GAAAAAGAGAGTGAAAAA
Found at i:25068967 original size:20 final size:20
Alignment explanation
Indices: 25068944--25068982 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25068934 TCGGTTCAAC
*
25068944 TCACATGAGTTTAATTCAGT
1 TCACATGAGCTTAATTCAGT
25068964 TCACATGAGCTTAATTCAG
1 TCACATGAGCTTAATTCAG
25068983 CTCGTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
TCACATGAGCTTAATTCAGT
Found at i:25071385 original size:19 final size:18
Alignment explanation
Indices: 25071358--25071396 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
25071348 AGCCCCACCA
25071358 TTAACTCTTTCATTACAAT
1 TTAACTC-TTCATTACAAT
*
25071377 TTAATTCTTCATTACAAT
1 TTAACTCTTCATTACAAT
25071395 TT
1 TT
25071397 GGTTCCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAACTCTTCATTACAAT
Found at i:25071834 original size:13 final size:13
Alignment explanation
Indices: 25071816--25071840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25071806 ATAAATTGTA
25071816 ATATACATACATG
1 ATATACATACATG
25071829 ATATACATACAT
1 ATATACATACAT
25071841 ATCTTAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATACATACATG
Found at i:25071923 original size:24 final size:24
Alignment explanation
Indices: 25071896--25071997 Score: 106
Period size: 24 Copynumber: 4.4 Consensus size: 24
25071886 ACACATAACA
25071896 AACATACATAATAGTAATATACAT
1 AACATACATAATAGTAATATACAT
*
25071920 AACATACATAATA-TAAAATA-AT
1 AACATACATAATAGTAATATACAT
* * *
25071942 AA-ATA-GTAATATTCCATATAACA-
1 AACATACATAATAGT-AATAT-ACAT
*
25071965 AACATATATAATAGTAATATACAT
1 AACATACATAATAGTAATATACAT
25071989 AACATACAT
1 AACATACAT
25071998 GATATACAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
20 5 0.08
21 4 0.06
22 7 0.11
23 12 0.19
24 29 0.46
25 6 0.10
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (24 bp):
AACATACATAATAGTAATATACAT
Found at i:25071948 original size:38 final size:38
Alignment explanation
Indices: 25071905--25072039 Score: 115
Period size: 38 Copynumber: 3.7 Consensus size: 38
25071895 AAACATACAT
25071905 AATAGTAATATACATAACATACATAATATAAAATAATA
1 AATAGTAATATACATAACATACATAATATAAAATAATA
* * *
25071943 AATAGTAATAT---T-CCAT--ATAACA-AACAT-ATA
1 AATAGTAATATACATAACATACATAATATAAAATAATA
* *
25071973 TAATAGTAATATACATAACATACATGATATACAATAATA
1 -AATAGTAATATACATAACATACATAATATAAAATAATA
* *
25072012 AACAATAATATACCACATAACATACATA
1 AATAGTAATAT---ACATAACATACATA
25072040 CACAACAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
30 3 0.04
31 15 0.20
32 5 0.07
34 4 0.05
35 4 0.05
37 4 0.05
38 23 0.31
39 3 0.04
41 13 0.18
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.28
Consensus pattern (38 bp):
AATAGTAATATACATAACATACATAATATAAAATAATA
Found at i:25071976 original size:69 final size:69
Alignment explanation
Indices: 25071875--25072059 Score: 255
Period size: 69 Copynumber: 2.7 Consensus size: 69
25071865 ATACATAAAT
25071875 AACAATAATATA-CACATAACAAACATACATAATAGTAATATACATAACATACATAATATAAAAT
1 AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAACATACATAATATAAAAT
25071939 AATA
66 AATA
* * * * * * *
25071943 AATAGTAATATTCCATATAACAAACATATATAATAGTAATATACATAACATACATGATATACAAT
1 AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAACATACATAATATAAAAT
25072008 AATA
66 AATA
* * * * *
25072012 AACAATAATATACCACATAACATACATACACAACAATAGTATACATAA
1 AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAA
25072060 ACAGTAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
68 9 0.09
69 90 0.91
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.26
Consensus pattern (69 bp):
AACAATAATATACCACATAACAAACATACATAATAGTAATATACATAACATACATAATATAAAAT
AATA
Found at i:25072161 original size:45 final size:45
Alignment explanation
Indices: 25072111--25072215 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
25072101 ACATGTAGTA
* * *
25072111 ATATTCACAACATATATACATAATAGAGATACATCACAAACATAC
1 ATATTCACAACATACATACATAATAGACATACATAACAAACATAC
**
25072156 ATATTCACAACATACATACATAATAGACATACATAACAGGCATAC
1 ATATTCACAACATACATACATAATAGACATACATAACAAACATAC
*
25072201 ATATTCATAACATAC
1 ATATTCACAACATAC
25072216 GTAACAGACA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.25
Consensus pattern (45 bp):
ATATTCACAACATACATACATAATAGACATACATAACAAACATAC
Found at i:25072169 original size:15 final size:16
Alignment explanation
Indices: 25072144--25072173 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25072134 TAGAGATACA
25072144 TCACAAACATACATAT
1 TCACAAACATACATAT
25072160 TCAC-AACATACATA
1 TCACAAACATACATA
25072174 CATAATAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (16 bp):
TCACAAACATACATAT
Found at i:25072187 original size:13 final size:13
Alignment explanation
Indices: 25072164--25072259 Score: 88
Period size: 13 Copynumber: 7.4 Consensus size: 13
25072154 ACATATTCAC
*
25072164 AACATACATACAT
1 AACAGACATACAT
*
25072177 AATAGACATACAT
1 AACAGACATACAT
*
25072190 AACAGGCATACAT
1 AACAGACATACAT
* * *
25072203 ATTCATAACATACGT
1 A-ACA-GACATACAT
25072218 AACAGACATACAT
1 AACAGACATACAT
*
25072231 AGCAGACATA-AT
1 AACAGACATACAT
*
25072243 AATA-ACATACAT
1 AACAGACATACAT
25072255 AACAG
1 AACAG
25072260 TAATACACAT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
11 5 0.08
12 9 0.14
13 39 0.61
14 4 0.06
15 7 0.11
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.21
Consensus pattern (13 bp):
AACAGACATACAT
Found at i:25072227 original size:37 final size:37
Alignment explanation
Indices: 25072169--25072259 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 37
25072159 TTCACAACAT
* * *
25072169 ACATACATAATAGACATACATAACAGGCATACATATTCATA
1 ACATACATAACAGACATACATAGCAGACATA-ATA---ATA
*
25072210 ACATACGTAACAGACATACATAGCAGACATAATAATA
1 ACATACATAACAGACATACATAGCAGACATAATAATA
25072247 ACATACATAACAG
1 ACATACATAACAG
25072260 TAATACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
37 15 0.33
40 3 0.07
41 27 0.60
ACGTcount: A:0.51, C:0.20, G:0.09, T:0.21
Consensus pattern (37 bp):
ACATACATAACAGACATACATAGCAGACATAATAATA
Found at i:25072408 original size:30 final size:30
Alignment explanation
Indices: 25072373--25072437 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
25072363 CAACAAAAAC
* *
25072373 AAAAA-TTAGAAGTCAGATATAATACGAATA
1 AAAAATTTA-AAGTCAAATATAATACGAACA
*
25072403 AAAAATTTAAAGTCAAATATAATATGAACA
1 AAAAATTTAAAGTCAAATATAATACGAACA
25072433 AAAAA
1 AAAAA
25072438 AAGTTTGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (30 bp):
AAAAATTTAAAGTCAAATATAATACGAACA
Found at i:25078036 original size:14 final size:14
Alignment explanation
Indices: 25078017--25078043 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25078007 AAAATATCCA
25078017 TAATTACACATATT
1 TAATTACACATATT
25078031 TAATTACACATAT
1 TAATTACACATAT
25078044 CCTATGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTACACATATT
Done.