Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 38 of 318
Found at i:10553611 original size:38 final size:37
Alignment explanation
Indices: 10553520--10553611 Score: 89
Period size: 39 Copynumber: 2.4 Consensus size: 37
10553510 GTATGGGTAG
10553520 GGGGAAGAGG-GAGGGACGAAAAAGAGAAAGAAAGGA
1 GGGGAAGAGGAGAGGGACGAAAAAGAGAAAGAAAGGA
** * * *
10553556 AAGGAGGAGGAATGAGGGAGGAGAAA-AGAAAGAAAGGGA
1 GGGGAAGAGG-A-GAGGGACGAAAAAGAGAAAGAAA-GGA
10553595 GGGGAAAGAGGAGAGGG
1 GGGG-AAGAGGAGAGGG
10553612 GTGGTCGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
36 7 0.16
38 14 0.33
39 17 0.40
40 5 0.12
ACGTcount: A:0.48, C:0.01, G:0.50, T:0.01
Consensus pattern (37 bp):
GGGGAAGAGGAGAGGGACGAAAAAGAGAAAGAAAGGA
Found at i:10571925 original size:2 final size:2
Alignment explanation
Indices: 10571918--10571952 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10571908 ACCAGAACAG
*
10571918 AT AT AT AT AT AT AT AT AT -T TT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10571953 GTGTGGCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:10575491 original size:93 final size:93
Alignment explanation
Indices: 10575379--10575550 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10575369 CGCCCATAAG
* *
10575379 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10575444 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10575472 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10575537 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10575551 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10575547 original size:46 final size:46
Alignment explanation
Indices: 10575372--10575547 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10575362 TGTAACCCGC
* * *
10575372 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10575418 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10575468 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10575511 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10575548 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10583209 original size:28 final size:28
Alignment explanation
Indices: 10583145--10583244 Score: 130
Period size: 27 Copynumber: 3.5 Consensus size: 28
10583135 CATGAAATTG
* * *
10583145 GCACTAAGTGTGCGGGTTTAAAATTTGTACA
1 GCACTAAGTGTGCGAGTTT--GA-TTGTATA
10583176 GCACTAAGTGTGCGAGTTTGATTGTATA
1 GCACTAAGTGTGCGAGTTTGATTGTATA
*
10583204 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTGTATA
10583231 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
10583245 GACTCACTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 24 0.37
28 22 0.34
29 1 0.02
31 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTGTATA
Found at i:10583255 original size:27 final size:27
Alignment explanation
Indices: 10583175--10583256 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
10583165 AAATTTGTAC
* * * *
10583175 AGCACTAAGTGTGCGAGTTTGATTGTAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
10583203 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
10583230 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
10583257 GTTTTGAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 31 0.63
28 17 0.35
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:10585652 original size:40 final size:38
Alignment explanation
Indices: 10585522--10585669 Score: 111
Period size: 40 Copynumber: 3.8 Consensus size: 38
10585512 TGAGAAATTG
* * *
10585522 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * * *
10585562 AAT-TATAACCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
10585599 AGTGGCTACATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
10585639 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
10585670 CTTGGTGCGG
Statistics
Matches: 84, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
37 4 0.05
38 2 0.02
39 3 0.04
40 75 0.89
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:10589349 original size:93 final size:93
Alignment explanation
Indices: 10589220--10589391 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
10589210 CGCCCATAAG
* * *
10589220 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
10589285 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
10589313 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10589378 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
10589392 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:10589388 original size:46 final size:46
Alignment explanation
Indices: 10589213--10589388 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
10589203 TGTAACCCGC
* * * * *
10589213 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10589259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10589309 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10589352 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10589389 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10589407 original size:46 final size:44
Alignment explanation
Indices: 10589264--10589407 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
10589254 CGCATCCATA
10589264 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
10589311 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
10589357 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
10589403 AGTGA
1 AGTGA
10589408 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 32 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:10594039 original size:40 final size:40
Alignment explanation
Indices: 10593931--10594040 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
10593921 ATTGAATGAT
* * * * *
10593931 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
10593971 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
10594011 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
10594041 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:10594055 original size:40 final size:39
Alignment explanation
Indices: 10593931--10594080 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
10593921 ATTGAATGAT
* * * * * * *
10593931 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
10593971 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
10594011 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
10594051 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
10594081 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:10602080 original size:39 final size:39
Alignment explanation
Indices: 10601973--10602080 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
10601963 ATTGAATGAT
* * * * *
10601973 ATCCGGGCTAAGTCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCGAAGGCATTTGTGCTAGTAACTAC
* * *
10602012 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGA-CCGAAGGCATTTGTGCTAGTAACTAC
10602052 ATCCGGGCTAAGACCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCGAAGGCATTTGTGC
10602081 AAATTGTGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 26 0.45
40 32 0.55
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCGAAGGCATTTGTGCTAGTAACTAC
Found at i:10605044 original size:40 final size:40
Alignment explanation
Indices: 10604999--10605166 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
10604989 CGGAATATAA
10604999 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
10605039 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
10605079 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
10605119 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
10605159 CCGGATAT
1 CCGGATAT
10605167 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:10613919 original size:42 final size:42
Alignment explanation
Indices: 10613862--10614034 Score: 161
Period size: 42 Copynumber: 4.1 Consensus size: 42
10613852 ACATTAGGGT
* *
10613862 TATGAG-TTTACGTGTAAGACCATATCTGAGATATGGCATTGT
1 TATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATTGA
* * * * * *
10613904 TATGAGATTTTGTGTAAGACTATGTCTGGGACATGGTATCGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATTGA
* * * *
10613946 TATGAGAATT-GTGTAAGACCATATTTGGGCTATAGGCAATGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATAT-GGCATTGA
** * * *
10613988 TATGAGATCCCATGTAAGACCATATCTGGGATATGGAATTGG
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATTGA
10614030 TATGA
1 TATGA
10614035 TTCTATGTGT
Statistics
Matches: 102, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
41 18 0.18
42 61 0.60
43 23 0.23
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATTGA
Found at i:10615776 original size:22 final size:22
Alignment explanation
Indices: 10615748--10615798 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
10615738 CACCTACTTG
10615748 ATTCTAACGGATT-ACTGCATT
1 ATTCTAACGGATTGACTGCATT
* *
10615769 AATTCTAACGGCTTGGCTGCATT
1 -ATTCTAACGGATTGACTGCATT
10615792 ATTCTAA
1 ATTCTAA
10615799 AAAGTGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (22 bp):
ATTCTAACGGATTGACTGCATT
Found at i:10617165 original size:15 final size:15
Alignment explanation
Indices: 10617145--10617176 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10617135 ACTGTGTATC
*
10617145 AATTTAATGAAATAG
1 AATTTAATCAAATAG
10617160 AATTTAATCAAATAG
1 AATTTAATCAAATAG
10617175 AA
1 AA
10617177 AGCACTTTGT
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:0.56, C:0.03, G:0.09, T:0.31
Consensus pattern (15 bp):
AATTTAATCAAATAG
Found at i:10618579 original size:4 final size:4
Alignment explanation
Indices: 10618570--10618608 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
10618560 AAAAATCAAA
10618570 AAAT AAAT AAA- AAAT AAAT CAAAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT --AAAT AAAT AAAT AAAT AA
10618609 CCAAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
6 4 0.12
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:10618581 original size:10 final size:10
Alignment explanation
Indices: 10618568--10618601 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10618558 CAAAAAATCA
10618568 AAAAATAAAT
1 AAAAATAAAT
10618578 AAAAAATAAAT
1 -AAAAATAAAT
*
10618589 CAAAATAAAT
1 AAAAATAAAT
10618599 AAA
1 AAA
10618602 TAAATAACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:10618593 original size:21 final size:21
Alignment explanation
Indices: 10618569--10618618 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
10618559 AAAAAATCAA
*
10618569 AAAATAAATAAA-AAATAAATC
1 AAAATAAATAAATAAAT-AACC
10618590 AAAATAAATAAATAAATAACC
1 AAAATAAATAAATAAATAACC
10618611 AAAATAAA
1 AAAATAAA
10618619 GTCCAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAATAAATAAATAAATAACC
Found at i:10620431 original size:2 final size:2
Alignment explanation
Indices: 10620384--10620418 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10620374 ATTATATTTT
10620384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10620419 TGTTACCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10620815 original size:2 final size:2
Alignment explanation
Indices: 10620808--10620837 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10620798 ATTTTATTTC
10620808 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10620838 TTTTTTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10621710 original size:17 final size:16
Alignment explanation
Indices: 10621659--10621711 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
10621649 TTAAATAACA
10621659 ATTAAAATAAATACGAT
1 ATTAAAATAAATA-GAT
*
10621676 ATTTTAAAA-AAATGGAT
1 A--TTAAAATAAATAGAT
10621693 ATTAAAATAATATAGAT
1 ATTAAAATAA-ATAGAT
10621710 AT
1 AT
10621712 AAAGAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 12 0.40
18 4 0.13
19 6 0.20
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (16 bp):
ATTAAAATAAATAGAT
Found at i:10623873 original size:78 final size:78
Alignment explanation
Indices: 10623727--10624019 Score: 399
Period size: 78 Copynumber: 3.8 Consensus size: 78
10623717 ATGTAAACAC
* * * * *
10623727 ATGAAAGTCAGATCTGCTATGTTTTTGACCTGCTCCCTGTCTAATACAGAGATGCCAAATCATTT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
10623792 TGGATCTACTTCA
66 TGGATCTACTTCA
* * * * *
10623805 AAGAAGGTC-GAATTTGTTATGTCTTTTATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATC
1 ATGAAGGTCAG-ATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
10623869 TTGGATCTGCTTCA
65 TTGGATCTACTTCA
* * *
10623883 ATGAAGGTCAGATCTGCTGTCTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
10623948 TGGATCTACTTCA
66 TGGATCTACTTCA
* * * **
10623961 ATGAAGGTCAGATCTGCTATGTCTTTGATCTACTCTCCGTCGAATATGGAGATGCCAAA
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
10624020 CCTGTTTCTT
Statistics
Matches: 185, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
77 1 0.01
78 183 0.99
79 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTACTTCA
Found at i:10627589 original size:18 final size:18
Alignment explanation
Indices: 10627566--10627608 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10627556 TGCAATTTAG
10627566 AAAGAAT-TTTAAAGGTCA
1 AAAGAATATTTAAAGGT-A
**
10627584 AAAGAATATTTATCGGTA
1 AAAGAATATTTAAAGGTA
10627602 AAAGAAT
1 AAAGAAT
10627609 GAAAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (18 bp):
AAAGAATATTTAAAGGTA
Found at i:10631410 original size:17 final size:16
Alignment explanation
Indices: 10631359--10631411 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
10631349 TTAAATAACA
10631359 ATTAAAATAAATACGAT
1 ATTAAAATAAATA-GAT
*
10631376 ATTTTAAAA-AAATGGAT
1 A--TTAAAATAAATAGAT
10631393 ATTAAAATAATATAGAT
1 ATTAAAATAA-ATAGAT
10631410 AT
1 AT
10631412 AAAGAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 12 0.40
18 4 0.13
19 6 0.20
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (16 bp):
ATTAAAATAAATAGAT
Found at i:10633099 original size:29 final size:29
Alignment explanation
Indices: 10633067--10633129 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
10633057 TGAGGGTGCT
10633067 AACCCTTCCTCATGCGTAACCGACTCCTG
1 AACCCTTCCTCATGCGTAACCGACTCCTG
*
10633096 AACCCTTCCTCATGCGTAATCGACTCCTG
1 AACCCTTCCTCATGCGTAACCGACTCCTG
10633125 AACCC
1 AACCC
10633130 CTTTTTTTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.22, C:0.41, G:0.13, T:0.24
Consensus pattern (29 bp):
AACCCTTCCTCATGCGTAACCGACTCCTG
Found at i:10633292 original size:3 final size:3
Alignment explanation
Indices: 10633277--10633336 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
10633267 CTAAAACGCT
* * * * * *
10633277 TTA TTA TTT TTA TTA TTA CTA TTA CTG TTA -CA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10633324 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
10633337 ATTTTTCTTT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10633435 original size:81 final size:74
Alignment explanation
Indices: 10633316--10633465 Score: 165
Period size: 78 Copynumber: 1.9 Consensus size: 74
10633306 ACATTATTAC
** * *
10633316 TATTATTATTATTATTATTATATTTTTCTTTTTGTATTTACTTATACGTTGTTATTATTATTATA
1 TATTATTATTACCATTATTATATTTTTCTTTTTGTATTTA-TT-TAC-TTGTCATTATTATCATA
10633381 TTAATTAATTGAA
63 TT-ATTAATTGAA
* * * *
10633394 TATTATTATTACCATTATTATTTTCCTTTTTTATTTTTATTTATTTACTTGTCATTATTGTCATA
1 TATTATTATTACCATTATTATATT--TTTCTT-TTTGTATTTATTTACTTGTCATTATTATCATA
10633459 TTATTAA
63 TTATTAA
10633466 ATTAATTAGT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
77 5 0.08
78 37 0.61
79 3 0.05
80 7 0.11
81 9 0.15
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (74 bp):
TATTATTATTACCATTATTATATTTTTCTTTTTGTATTTATTTACTTGTCATTATTATCATATTA
TTAATTGAA
Found at i:10633841 original size:16 final size:18
Alignment explanation
Indices: 10633811--10633848 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10633801 GTCTTTCTCG
*
10633811 TTATTTTTTTAACGCAT-
1 TTATTTTGTTAACGCATA
10633828 TTATTTTGTT-ACGCATA
1 TTATTTTGTTAACGCATA
10633845 TTAT
1 TTAT
10633849 CGTCGTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.58
Consensus pattern (18 bp):
TTATTTTGTTAACGCATA
Found at i:10640250 original size:2 final size:2
Alignment explanation
Indices: 10640245--10640272 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10640235 ACAAAAAAAG
10640245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10640273 GAAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10640667 original size:2 final size:2
Alignment explanation
Indices: 10640662--10640698 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10640652 ATAGGTAACA
10640662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10640699 AAAATATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10642484 original size:4 final size:4
Alignment explanation
Indices: 10642475--10642513 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
10642465 TTTATTTTGG
10642475 TTAT TTAT TTAT TTATT TTGAT TTAT TT-T TTAT TTAT TT
1 TTAT TTAT TTAT TTA-T TT-AT TTAT TTAT TTAT TTAT TT
10642514 TTTGATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.09
4 22 0.69
5 6 0.19
6 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:10642491 original size:21 final size:21
Alignment explanation
Indices: 10642465--10642514 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
10642455 TAATTTGGAC
10642465 TTTATTTTG-GTTATTTATTTA
1 TTTATTTTGAGTTATTT-TTTA
*
10642486 TTTATTTTGATTTATTTTTTA
1 TTTATTTTGAGTTATTTTTTA
10642507 TTTATTTT
1 TTTATTTT
10642515 TTGATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (21 bp):
TTTATTTTGAGTTATTTTTTA
Found at i:10642515 original size:10 final size:10
Alignment explanation
Indices: 10642482--10642515 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10642472 TGGTTATTTA
10642482 TTTATTTATT
1 TTTATTTATT
*
10642492 TTGATTTATTT
1 TTTATTTA-TT
10642503 TTTATTTATT
1 TTTATTTATT
10642513 TTT
1 TTT
10642516 TGATTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTATTTATT
Found at i:10643697 original size:15 final size:15
Alignment explanation
Indices: 10643659--10643714 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
10643649 CTTACCTTTG
10643659 TTTATTTATTTATTATA
1 TTTATTTA--TATTATA
10643676 TTTATTTATATTA-A
1 TTTATTTATATTATA
*
10643690 TTTGATTTGATTTTATA
1 TTT-ATTT-ATATTATA
*
10643707 ATTATTTA
1 TTTATTTA
10643715 GACATACCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.12
15 10 0.29
16 9 0.26
17 11 0.32
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTATTTATATTATA
Found at i:10643926 original size:15 final size:15
Alignment explanation
Indices: 10643906--10643937 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10643896 ACAAAGTGCT
*
10643906 TTCTATTTGATTAAA
1 TTCTATTTCATTAAA
10643921 TTCTATTTCATTAAA
1 TTCTATTTCATTAAA
10643936 TT
1 TT
10643938 GATACACAGT
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:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (15 bp):
TTCTATTTCATTAAA
Found at i:10645321 original size:23 final size:22
Alignment explanation
Indices: 10645286--10645336 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
10645276 ATGTCACTTT
10645286 TTAGAA-TAATGCAGCCAAGCCG
1 TTAGAATTAATGCAG-CAAGCCG
* *
10645308 TTAGAATTAATGCAGTAATCCG
1 TTAGAATTAATGCAGCAAGCCG
10645330 TTAGAAT
1 TTAGAAT
10645337 CAAGTAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (22 bp):
TTAGAATTAATGCAGCAAGCCG
Found at i:10647207 original size:42 final size:41
Alignment explanation
Indices: 10647050--10647224 Score: 145
Period size: 42 Copynumber: 4.2 Consensus size: 41
10647040 ACACATAGAA
* * ***
10647050 TCATACCAATTCCATATCCCAGATATGGTCTTACATGGGATC
1 TCATAACAATGCCATATCCCAGATATGGTCTTACA-CAAATC
* * * * *
10647092 TCATATCATTGCCTATAGCCCAAATATGGTCTTACACAATTC
1 TCATAACAATGCC-ATATCCCAGATATGGTCTTACACAAATC
* * * * * *
10647134 TCATATCGATACCATGTCCCAGACATAGTCTTACACAAAATC
1 TCATAACAATGCCATATCCCAGATATGGTCTTACAC-AAATC
*
10647176 TCATAACAATGCCATATCTCAGATATGGTCTTACACGTAAA-C
1 TCATAACAATGCCATATCCCAGATATGGTCTTACAC--AAATC
10647218 TCATAAC
1 TCATAAC
10647225 CCTAATGTCA
Statistics
Matches: 104, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
41 18 0.17
42 63 0.61
43 23 0.22
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (41 bp):
TCATAACAATGCCATATCCCAGATATGGTCTTACACAAATC
Found at i:10655695 original size:40 final size:40
Alignment explanation
Indices: 10655650--10655816 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
10655640 CGGAATATAA
10655650 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
10655690 CCGGATGGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
10655730 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
10655770 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
10655809 CCGGATAT
1 CCGGATAT
10655817 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:10657080 original size:57 final size:58
Alignment explanation
Indices: 10657004--10657123 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 58
10656994 AATCCTCCCC
*
10657004 TTTTCCCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTT-T
1 TTTTTCCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAACAAATTTTTCTTTCT
*** * *
10657061 TTTTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACACATTTTTTTTTCT
1 TTTTTCCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTCTTTCT
10657119 TTTTT
1 TTTTT
10657124 TTTTTCATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
57 44 0.81
58 10 0.19
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (58 bp):
TTTTTCCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTCTTTCT
Found at i:10658888 original size:30 final size:30
Alignment explanation
Indices: 10658852--10658952 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
10658842 GACAAGATTG
* * *
10658852 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
10658882 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
10658910 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
10658939 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
10658953 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:10658964 original size:29 final size:28
Alignment explanation
Indices: 10658881--10658956 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
10658871 AAAATTGTAC
* *
10658881 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
10658909 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
10658938 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
10658957 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:10666771 original size:30 final size:30
Alignment explanation
Indices: 10666735--10666835 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
10666725 GACAAGATTG
* * *
10666735 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
10666765 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
10666793 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
10666822 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
10666836 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:10666847 original size:29 final size:28
Alignment explanation
Indices: 10666764--10666839 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
10666754 AAAATTGTAC
* *
10666764 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
10666792 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
10666821 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
10666840 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:10668948 original size:28 final size:28
Alignment explanation
Indices: 10668908--10668981 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
10668898 GTTCAAATTG
* *
10668908 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
10668936 TATAGCACTAAGTGTGCGAGTTCGACTA
1 TATAGCACTAAGTGTGCGAGTTCGACTA
10668964 T-TAAGCACTAAGTGTGCG
1 TAT-AGCACTAAGTGTGCG
10668982 GGCTTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCGAGTTCGACTA
Found at i:10676501 original size:2 final size:2
Alignment explanation
Indices: 10676477--10676524 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
10676467 GAGAATATGA
* * *
10676477 AT AT AT CT AT AT CT AT AT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10676519 AT AT AT
1 AT AT AT
10676525 GAAGAATGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10682205 original size:23 final size:23
Alignment explanation
Indices: 10682123--10682209 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
10682113 CTTGATCAGT
*
10682123 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
10682145 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
10682165 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
10682188 ATATGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
10682210 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:10683679 original size:16 final size:17
Alignment explanation
Indices: 10683644--10683679 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
10683634 CCTAATTCTC
10683644 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
10683660 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
10683675 CCTTC
1 CCTTC
10683680 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:10685660 original size:27 final size:26
Alignment explanation
Indices: 10685626--10685736 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 26
10685616 GCATGGCTGT
* *
10685626 CAGAACAGATAATGTGACAGAGACAC
1 CAGAACAGATAATGTGGCAGAGCCAC
* *
10685652 CAGATACAGATAATCTTGGCAAAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
*
10685680 CAGAACAGATATATGTGGTAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
*
10685707 CAGATCAGATAATTGTGGC-GTAGCCAC
1 CAGAACAGATAA-TGTGGCAG-AGCCAC
10685734 CAG
1 CAG
10685737 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.08
27 50 0.70
28 15 0.21
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:10685690 original size:54 final size:54
Alignment explanation
Indices: 10685626--10685736 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
10685616 GCATGGCTGT
10685626 CAGAACAGATA-ATGTGACAGAGACACCAGATACAGATAATCT-TGGCAAAGCCAC
1 CAGAACAGATATATGTGACAGAGACACCAGAT-CAGATAAT-TGTGGCAAAGCCAC
** * **
10685680 CAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCGTAGCCAC
1 CAGAACAGATATATGTGACAGAGACACCAGATCAGATAATTGTGGCAAAGCCAC
10685734 CAG
1 CAG
10685737 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.64
55 17 0.34
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CAGAACAGATATATGTGACAGAGACACCAGATCAGATAATTGTGGCAAAGCCAC
Found at i:10690766 original size:33 final size:33
Alignment explanation
Indices: 10690729--10690794 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10690719 ATGGTAACTC
10690729 CATCAGATCTTCAGGGAAAATCCTACCTTGAGT
1 CATCAGATCTTCAGGGAAAATCCTACCTTGAGT
10690762 CATCAGATCTTCAGGGAAAATCCTACCTTGAGT
1 CATCAGATCTTCAGGGAAAATCCTACCTTGAGT
10690795 TTCTATGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (33 bp):
CATCAGATCTTCAGGGAAAATCCTACCTTGAGT
Found at i:10693506 original size:27 final size:26
Alignment explanation
Indices: 10693471--10693565 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 26
10693461 AGCATGGCTG
*
10693471 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
10693497 CCAGATACAGATAATCGT-AGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGA-CAGAGCCA
*
10693525 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
*
10693552 CCAGATCAGATAAT
1 CCAGAACAGATAAT
10693566 TGTAGCGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
26 7 0.12
27 37 0.63
28 15 0.25
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:10693577 original size:27 final size:26
Alignment explanation
Indices: 10693495--10693582 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 26
10693485 GTGACAGAGT
* *
10693495 CACCAGATACAGATAATCGTAGTAGAGC
1 CACCAGAT-CAGATAATTGTAG-CGAGC
* *
10693523 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAAT-TGTAGC-GAGC
10693550 CACCAGATCAGATAATTGTAGCGTAGC
1 CACCAGATCAGATAATTGTAGCG-AGC
10693577 CACCAG
1 CACCAG
10693583 GAGCTTCCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
26 3 0.06
27 38 0.76
28 9 0.18
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CACCAGATCAGATAATTGTAGCGAGC
Found at i:10697363 original size:21 final size:21
Alignment explanation
Indices: 10697339--10697408 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
10697329 TGATCTGAAC
*
10697339 TCATTGAGCTGTGGTCTGAGT
1 TCATTGAGATGTGGTCTGAGT
* * *
10697360 TCA-TGATATATGTGACATCTGAGC
1 TCATTG--AGATGTG--GTCTGAGT
*
10697384 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGATGTGGTCTGAGT
10697405 TCAT
1 TCAT
10697409 GATGTATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.36
22 5 0.14
23 5 0.14
24 9 0.25
25 2 0.06
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (21 bp):
TCATTGAGATGTGGTCTGAGT
Found at i:10697387 original size:45 final size:45
Alignment explanation
Indices: 10697331--10697418 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
10697321 GAACTATGTG
10697331 ATCTGAACTCATTGAGCTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGCTGTGGTCTGAGTTCATGATATATGTGAC
* * *
10697376 ATCTGAGCTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTCATTGAGCTGTGGTCTGAGTTCATGATATATGTG
10697419 GCACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTGAGCTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:10697783 original size:2 final size:2
Alignment explanation
Indices: 10697776--10697801 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10697766 TGTGGTGAGA
10697776 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10697802 GAAGAATGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10700671 original size:79 final size:82
Alignment explanation
Indices: 10700531--10700715 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
10700521 TCGAATGATG
* * *
10700531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
10700595 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
10700611 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
10700673 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
10700691 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10700716 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:10700723 original size:40 final size:40
Alignment explanation
Indices: 10700532--10700723 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
10700522 CGAATGATGT
* * * * *
10700532 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
10700572 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
10700612 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
10700651 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
10700691 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
10700724 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:10700746 original size:79 final size:79
Alignment explanation
Indices: 10700531--10700748 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
10700521 TCGAATGATG
* * * * ** *
10700531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
10700594 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
10700611 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
10700676 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
10700691 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
10700749 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:10708709 original size:79 final size:82
Alignment explanation
Indices: 10708569--10708753 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
10708559 TCGAATGATG
* * *
10708569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
10708633 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
10708649 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
10708711 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
10708729 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10708754 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:10708761 original size:40 final size:40
Alignment explanation
Indices: 10708570--10708761 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
10708560 CGAATGATGT
* * * * *
10708570 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
10708610 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
10708650 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
10708689 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
10708729 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
10708762 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:10708784 original size:79 final size:79
Alignment explanation
Indices: 10708569--10708786 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
10708559 TCGAATGATG
* * * * ** *
10708569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
10708632 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
10708649 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
10708714 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
10708729 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
10708787 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:10716544 original size:28 final size:28
Alignment explanation
Indices: 10716512--10716570 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
10716502 ATATACGTCC
10716512 GGATAGACCAAATTC-GAAGTTAGAGCAA
1 GGATAGACCAAATTCTG-AGTTAGAGCAA
*
10716540 GGATAGACCAAATTCTGAGTTAGAGCGA
1 GGATAGACCAAATTCTGAGTTAGAGCAA
10716568 GGA
1 GGA
10716571 AAGAGAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.19
Consensus pattern (28 bp):
GGATAGACCAAATTCTGAGTTAGAGCAA
Found at i:10717108 original size:32 final size:32
Alignment explanation
Indices: 10717049--10717109 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
10717039 TTACTTAGGT
*
10717049 GACTAAATTATAGATTAAAAGAAAAGTGAAGG
1 GACTAAATTATAGATTAAAACAAAAGTGAAGG
* *
10717081 GACTAAATTAGTA-ATTAAACCATAAGTGA
1 GACTAAATTA-TAGATTAAAACAAAAGTGA
10717110 CAAATGTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.51, C:0.07, G:0.18, T:0.25
Consensus pattern (32 bp):
GACTAAATTATAGATTAAAACAAAAGTGAAGG
Found at i:10719357 original size:86 final size:86
Alignment explanation
Indices: 10719212--10719376 Score: 303
Period size: 86 Copynumber: 1.9 Consensus size: 86
10719202 CACACAACTT
* * *
10719212 ACACATGGGCATGTGGATAGGCCGTGTGTCCCCTGCATTTTAAAATTTTTAAAACAGAATGCCCA
1 ACACATGGGCACGTGGATAGGCCGTGTGTCCCCTACATTTTAAAATTGTTAAAACAGAATGCCCA
10719277 GGAATCTCCACACGGGCAGAG
66 GGAATCTCCACACGGGCAGAG
10719298 ACACATGGGCACGTGGATAGGCCGTGTGTCCCCTACATTTTAAAATTGTTAAAACAGAATGCCCA
1 ACACATGGGCACGTGGATAGGCCGTGTGTCCCCTACATTTTAAAATTGTTAAAACAGAATGCCCA
10719363 GGAATCTCCACACG
66 GGAATCTCCACACG
10719377 AGCATGTGTC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (86 bp):
ACACATGGGCACGTGGATAGGCCGTGTGTCCCCTACATTTTAAAATTGTTAAAACAGAATGCCCA
GGAATCTCCACACGGGCAGAG
Found at i:10720034 original size:45 final size:46
Alignment explanation
Indices: 10719970--10720057 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
10719960 CTCTAATAAT
* *
10719970 AACTCTTCTGAGTTGCCTGTTAAGCTC-AATGAGCTTCCTATTCTA
1 AACTCTTATGAGTTGCCTGTTAAGCTCGAATAAGCTTCCTATTCTA
* * *
10720015 AACTCTTATGAGTTTCCTGTTTAGCTCGGATAAGCTTCCTATT
1 AACTCTTATGAGTTGCCTGTTAAGCTCGAATAAGCTTCCTATT
10720058 ATATGGCTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 24 0.65
46 13 0.35
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.40
Consensus pattern (46 bp):
AACTCTTATGAGTTGCCTGTTAAGCTCGAATAAGCTTCCTATTCTA
Found at i:10722830 original size:26 final size:26
Alignment explanation
Indices: 10722794--10722858 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
10722784 TTACATCGTC
*
10722794 GCTCACACGAGCTGTGAAATGGATCT
1 GCTCACACGAGCTGTGAAATGGACCT
*
10722820 GCTCACACGAGCTGTGAAATGGGCCT
1 GCTCACACGAGCTGTGAAATGGACCT
10722846 GCTCACACGAGCT
1 GCTCACACGAGCT
10722859 ATGGGTCAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (26 bp):
GCTCACACGAGCTGTGAAATGGACCT
Found at i:10735901 original size:43 final size:43
Alignment explanation
Indices: 10735853--10735999 Score: 167
Period size: 43 Copynumber: 3.4 Consensus size: 43
10735843 TCTAAGATGA
10735853 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTATAC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTATAC
* * *
10735896 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTA-ATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTATA-C
* * *
10735939 GATTACGTGTAAGACGCA-GTTTGGGACAGTGGCATCGA-TATGA-
1 GATTACATGTAAGAC-CATGTCTGGGACATTGGCATC-ATTAT-AC
*
10735982 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
10736000 ATATGAGATA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
42 3 0.03
43 83 0.93
44 2 0.02
45 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTATAC
Found at i:10744001 original size:48 final size:46
Alignment explanation
Indices: 10743903--10744124 Score: 182
Period size: 44 Copynumber: 4.7 Consensus size: 46
10743893 CATTACTTGT
* * * **
10743903 GTGCCAGTGTAAGGCATGTCTGCGACATGCATCGACCACATTATG-A
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCG-GCACAAGATGAA
*
10743949 GTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATG-A
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCACA-AGATGAA
* * **
10743997 GTGCCAGTGTAAGACATGTCTGGGACATGCATCTGC-TAAGA-GTT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAAGATGAA
* * * *
10744041 GTGCTAGTGTAAGACATGTCTGAGACATGCATCAGCACATATATAGAA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACA-AGAT-GAA
* * * *
10744089 GAGCTAGCGTAAGACCATGTTTGGGACATGGCATCG
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
10744125 ACAACTTATC
Statistics
Matches: 146, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.01
44 36 0.25
45 3 0.02
46 21 0.14
47 32 0.22
48 36 0.25
49 12 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAAGATGAA
Found at i:10744060 original size:44 final size:46
Alignment explanation
Indices: 10743903--10744073 Score: 188
Period size: 44 Copynumber: 3.7 Consensus size: 46
10743893 CATTACTTGT
* * * * **
10743903 GTGCCAGTGTAAGGCATGTCTGCGACATGCATCGACCACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCG-GCATAGAGATGA
10743949 GTGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATAGAGATGA
* *
10743997 GTGCCAGTGTAAGACATGTCTGGGACATGCATCTGC-TA-AGA-GTT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATG-A
* *
10744041 GTGCTAGTGTAAGACATGTCTGAGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
10744074 AGCACATATA
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.01
44 34 0.31
45 2 0.02
46 19 0.17
47 32 0.29
48 23 0.21
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGATGA
Found at i:10744959 original size:55 final size:55
Alignment explanation
Indices: 10744900--10745023 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 55
10744890 TTAAAATTAG
**
10744900 TGTTGTACACGGGTGGGCCACACAGGCATGTGTCATGGCCGTGTTTTAAAGTCAA
1 TGTTGTACACGGGCAGGCCACACAGGCATGTGTCATGGCCGTGTTTTAAAGTCAA
* * *
10744955 TGTTGTACATGGGCAGGCCACACAGGCGTGTGTCATGGCCGTGTTTTAAAGTCAG
1 TGTTGTACACGGGCAGGCCACACAGGCATGTGTCATGGCCGTGTTTTAAAGTCAA
*
10745010 TGTTGCACACGGGC
1 TGTTGTACACGGGC
10745024 TAAGGGCACG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.27
Consensus pattern (55 bp):
TGTTGTACACGGGCAGGCCACACAGGCATGTGTCATGGCCGTGTTTTAAAGTCAA
Found at i:10751402 original size:47 final size:45
Alignment explanation
Indices: 10751290--10751508 Score: 246
Period size: 47 Copynumber: 4.8 Consensus size: 45
10751280 GATTACTTGT
**
10751290 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-AAGATGA
* * *
10751336 GTGCCAGTGTAAGACCATGTTTGGGACATAGCATCGGCGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTA-AGATGA
* *
10751384 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-T-AAGATGA
* *
10751431 -TAGCCAGTGTAAGACATGTTTGGGACATGCATCAG-CTAAGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTAAGATG-A
* *
10751475 GTGCTAGTGTAAGACATATCTGGGACATGCATCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCA
10751509 ACACGTATAT
Statistics
Matches: 150, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 32 0.21
45 2 0.01
46 24 0.16
47 64 0.43
48 27 0.18
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTAAGATGA
Found at i:10751451 original size:94 final size:91
Alignment explanation
Indices: 10751290--10751508 Score: 291
Period size: 94 Copynumber: 2.4 Consensus size: 91
10751280 GATTACTTGT
**
10751290 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACGATGAGTGCCAGTGTAAGACCATG
*
10751355 TTTGGGACATAGCATCGGCGT-AGAGATGA
66 TTTGGGACAT-GCATCAGC-TAAGAG-T-A
* *
10751384 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGACGATGA-TAGCCAGTGTAAGA-CA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCACGATGAGT-GCCAGTGTAAGACCA
*
10751447 TGTTTGGGACATGCATCAGCTAAGAGTT
64 TGTTTGGGACATGCATCAGCTAAGAGTA
* *
10751475 GTGCTAGTGTAAGACATATCTGGGACATGCATCA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCA
10751509 ACACGTATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
91 31 0.27
92 2 0.02
93 11 0.10
94 51 0.45
95 18 0.16
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACGATGAGTGCCAGTGTAAGACCATG
TTTGGGACATGCATCAGCTAAGAGTA
Found at i:10753081 original size:33 final size:33
Alignment explanation
Indices: 10753036--10753103 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
10753026 CTAATACTAC
* *
10753036 TGTGACAGCCCT-ATTTAAACCCTAGTCGGAAAG
1 TGTGACACCCCTAATGT-AACCCTAGTCGGAAAG
*
10753069 TGTGACACCCCTAATGTGACCCTAGTCGGAAAG
1 TGTGACACCCCTAATGTAACCCTAGTCGGAAAG
10753102 TG
1 TG
10753104 GTTTCGGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (33 bp):
TGTGACACCCCTAATGTAACCCTAGTCGGAAAG
Found at i:10755375 original size:40 final size:40
Alignment explanation
Indices: 10755269--10755452 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
10755259 TGCTGGAAAT
* * * * * **
10755269 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
10755309 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
10755349 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
10755387 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
10755428 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
10755453 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:10763176 original size:40 final size:40
Alignment explanation
Indices: 10763070--10763253 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
10763060 TGCTGGAAAT
* * * * * **
10763070 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
10763110 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
10763150 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
10763188 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
10763229 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
10763254 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:10767130 original size:48 final size:48
Alignment explanation
Indices: 10767059--10767635 Score: 960
Period size: 48 Copynumber: 12.0 Consensus size: 48
10767049 CAAGATAAAT
* * *
10767059 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGATATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
10767107 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
10767155 ATATGTATATGTGGTAAAGCCTAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
10767203 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
10767251 ATA-ATATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
10767298 ATATGTATATGAGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
10767346 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
10767394 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
10767442 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
10767490 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
10767538 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
10767586 ATATGTATAAT-TGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTAT-ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
10767634 AT
1 AT
10767636 GTGTGTATAT
Statistics
Matches: 501, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 45 0.09
48 454 0.91
49 2 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:10767831 original size:37 final size:37
Alignment explanation
Indices: 10767776--10767878 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
10767766 GGAAATATAT
*
10767776 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
10767813 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
10767850 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
10767879 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:10769569 original size:2 final size:2
Alignment explanation
Indices: 10769562--10769587 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10769552 TTTATTGAGT
10769562 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10769588 CATTCGGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10770463 original size:28 final size:28
Alignment explanation
Indices: 10770419--10770490 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
10770409 TGAAAAAGCT
*
10770419 AGCACTATGTGTACGAATTTATTAACCG
1 AGCACTATGTGTGCGAATTTATTAACCG
10770447 AGCACTATGTGTGCGAATTTATTAACCG
1 AGCACTATGTGTGCGAATTTATTAACCG
10770475 AGCACTATGTGTGCGA
1 AGCACTATGTGTGCGA
10770491 GATCGGTTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (28 bp):
AGCACTATGTGTGCGAATTTATTAACCG
Found at i:10787429 original size:17 final size:17
Alignment explanation
Indices: 10787407--10787441 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10787397 TATATACATA
10787407 CATTTATCTTATTT-TAT
1 CATTTATC-TATTTATAT
10787424 CATTTATCTATTTATAT
1 CATTTATCTATTTATAT
10787441 C
1 C
10787442 CTTTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (17 bp):
CATTTATCTATTTATAT
Found at i:10787489 original size:3 final size:3
Alignment explanation
Indices: 10787476--10787541 Score: 64
Period size: 3 Copynumber: 22.7 Consensus size: 3
10787466 GCTTTTTTAT
* * * * *
10787476 TTA TT- TTA TTA TTA -TA TTA TTA TTA TTA ATA TCA TCA TCA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10787522 TTA TTA ATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
10787542 CTTAAATTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 4 0.07
3 51 0.93
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:10787640 original size:16 final size:16
Alignment explanation
Indices: 10787607--10787637 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10787597 CAAATTTTTA
10787607 GTTTGTTATTCTTATT
1 GTTTGTTATTCTTATT
10787623 GTTTGTTATT-TTATT
1 GTTTGTTATTCTTATT
10787638 TGTGGCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.71
Consensus pattern (16 bp):
GTTTGTTATTCTTATT
Found at i:10798317 original size:66 final size:68
Alignment explanation
Indices: 10798241--10798427 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
10798231 TAGTACCACT
*
10798241 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
10798303 CACG
65 CACG
10798307 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
10798372 ATCACG
63 ATCACG
10798378 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
10798428 GATACGTCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:10798352 original size:71 final size:71
Alignment explanation
Indices: 10798264--10798427 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
10798254 CGATTTGTCT
10798264 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10798329 CTTTCA
66 CTTTCA
10798335 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
10798400 CTTTCA
66 CTTTCA
10798406 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
10798428 GATACGTCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:10798465 original size:71 final size:70
Alignment explanation
Indices: 10798264--10798461 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
10798254 CGATTTGTCT
* * *
10798264 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACGT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
10798329 CTTTCA
65 CTTTCA
* * *
10798335 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACGT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
10798400 CTTTCA
65 CTTTCA
* *
10798406 CGTAGCTCTCTTGTCTACATGG-GATACGT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACGTACTTCGAATCACGCATGCGACCTAGCTAC
10798462 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACGTACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:10804181 original size:17 final size:17
Alignment explanation
Indices: 10804159--10804193 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10804149 TATATACATA
10804159 CATTTATCTTATTT-TAT
1 CATTTATC-TATTTATAT
10804176 CATTTATCTATTTATAT
1 CATTTATCTATTTATAT
10804193 C
1 C
10804194 CTTTTAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (17 bp):
CATTTATCTATTTATAT
Found at i:10804386 original size:16 final size:15
Alignment explanation
Indices: 10804365--10804394 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10804355 AAATTTTTAG
10804365 TTTGTTATTCTTATTA
1 TTTGTTATT-TTATTA
10804381 TTTGTTATTTTATT
1 TTTGTTATTTTATT
10804395 TCTGCCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.73
Consensus pattern (15 bp):
TTTGTTATTTTATTA
Found at i:10806063 original size:15 final size:15
Alignment explanation
Indices: 10806029--10806076 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
10806019 GATTTGTTTG
* *
10806029 GTTTTGCTCTATCCT
1 GTTTTGCTCTGTTCT
*
10806044 ATTTTGCTCTGTTCT
1 GTTTTGCTCTGTTCT
*
10806059 GTTTTGCTTTGTTCT
1 GTTTTGCTCTGTTCT
10806074 GTT
1 GTT
10806077 GTACTACCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.04, C:0.19, G:0.17, T:0.60
Consensus pattern (15 bp):
GTTTTGCTCTGTTCT
Found at i:10807485 original size:20 final size:20
Alignment explanation
Indices: 10807460--10807504 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10807450 AGGGACTAAA
* *
10807460 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
10807480 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
10807500 ATGAA
1 ATGAA
10807505 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:10811143 original size:30 final size:30
Alignment explanation
Indices: 10811109--10811172 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
10811099 TACAATAAAA
10811109 TATAAATATAAATCTATGTTTTTAAATTGT
1 TATAAATATAAATCTATGTTTTTAAATTGT
10811139 TATAAATATAAATCTATGTTTTTAAATTGT
1 TATAAATATAAATCTATGTTTTTAAATTGT
10811169 TATA
1 TATA
10811173 GTACAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (30 bp):
TATAAATATAAATCTATGTTTTTAAATTGT
Found at i:10821947 original size:17 final size:17
Alignment explanation
Indices: 10821925--10821957 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10821915 AAACATTCTA
10821925 TAACATGAGTATAATCT
1 TAACATGAGTATAATCT
*
10821942 TAACATGAGTTTAATC
1 TAACATGAGTATAATC
10821958 CAAGATCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TAACATGAGTATAATCT
Found at i:10830166 original size:17 final size:18
Alignment explanation
Indices: 10830144--10830177 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10830134 ACAACTTCTA
*
10830144 TTAAAT-TATAGTTATTT
1 TTAAATGTATAATTATTT
10830161 TTAAATGTATAATTATT
1 TTAAATGTATAATTATT
10830178 ACAATTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTAAATGTATAATTATTT
Found at i:10833066 original size:40 final size:40
Alignment explanation
Indices: 10833022--10833100 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
10833012 ATTGTTAAAG
10833022 AGAGAATTTAGGTCCAAATCCTAAATATACCAATATTAAT
1 AGAGAATTTAGGTCCAAATCCTAAATATACCAATATTAAT
* *
10833062 AGAGAATTTAGGTCCAAATTCTAAATATACCAATGTTAA
1 AGAGAATTTAGGTCCAAATCCTAAATATACCAATATTAA
10833101 GAGGGGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (40 bp):
AGAGAATTTAGGTCCAAATCCTAAATATACCAATATTAAT
Found at i:10835739 original size:32 final size:32
Alignment explanation
Indices: 10835695--10835773 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
10835685 TAGGCCATTT
* * * *
10835695 TGGGCCACGTGGGCCATACGGGCAAGGCAATT
1 TGGGCCATGTGGGCCACACAGGCAAGGCAATA
** *
10835727 TGGGCTGTGTGGGCCACACAGGCATGGCAATA
1 TGGGCCATGTGGGCCACACAGGCAAGGCAATA
10835759 TGGGCCATGTGGGCC
1 TGGGCCATGTGGGCC
10835774 TAATCGTACA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.39, T:0.18
Consensus pattern (32 bp):
TGGGCCATGTGGGCCACACAGGCAAGGCAATA
Found at i:10840168 original size:15 final size:16
Alignment explanation
Indices: 10840150--10840187 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
10840140 AATTGGAAAG
10840150 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
10840165 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
10840181 ATGAAAA
1 ATGAAAA
10840188 AGAAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:10847713 original size:14 final size:14
Alignment explanation
Indices: 10847691--10847724 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10847681 TTATATATAT
*
10847691 TTTTGAGTTTTAGG
1 TTTTAAGTTTTAGG
*
10847705 TTTTAAGTTTTGGG
1 TTTTAAGTTTTAGG
10847719 TTTTAA
1 TTTTAA
10847725 ATCTTACGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.59
Consensus pattern (14 bp):
TTTTAAGTTTTAGG
Found at i:10863500 original size:13 final size:13
Alignment explanation
Indices: 10863478--10863510 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10863468 AAAGCGTTTT
10863478 TTAT-TAAACTAA
1 TTATCTAAACTAA
10863490 TTATCTAAACTAA
1 TTATCTAAACTAA
*
10863503 TTAACTAA
1 TTATCTAA
10863511 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:10866425 original size:5 final size:5
Alignment explanation
Indices: 10866415--10866499 Score: 56
Period size: 6 Copynumber: 17.0 Consensus size: 5
10866405 ATATGTCTTG
* *
10866415 TAAAA TAAAA T--AA TCAAAT TGAAA TGAAAA TAAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA T-AAAA TAAAA T-AAAA T-AAAA T-AAAA TAAAA
10866462 TAAAAA TAAAA T-AAA T-AAA T-AAA T-AAA TAAGAA TAAAA
1 T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA
10866500 AGATAGGAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
3 3 0.04
4 16 0.24
5 22 0.32
6 27 0.40
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:10866445 original size:6 final size:6
Alignment explanation
Indices: 10866436--10866500 Score: 62
Period size: 6 Copynumber: 10.5 Consensus size: 6
10866426 AATCAAATTG
*
10866436 AAATGA AAATAA AAATAA AAAT-A AAATAA AAAT-A AAATAAA TAAATAAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA -AAAT-AA
*
10866485 TAAATAA GAATAA AAA
1 -AAATAA AAATAA AAA
10866501 GATAGGAGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
5 10 0.19
6 27 0.52
7 3 0.06
8 12 0.23
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:10866461 original size:11 final size:11
Alignment explanation
Indices: 10866416--10866476 Score: 68
Period size: 11 Copynumber: 5.2 Consensus size: 11
10866406 TATGTCTTGT
10866416 AAAATAAAATA
1 AAAATAAAATA
* *
10866427 ATCAAATTGAAATG
1 A--AAA-TAAAATA
10866441 AAAATAAAAATA
1 AAAAT-AAAATA
10866453 AAAATAAAATA
1 AAAATAAAATA
10866464 AAAATAAAATA
1 AAAATAAAATA
10866475 AA
1 AA
10866477 TAAATAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 21 0.50
12 12 0.29
13 3 0.07
14 6 0.14
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:10868793 original size:40 final size:40
Alignment explanation
Indices: 10868748--10868915 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
10868738 CGGAATATAA
10868748 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
10868788 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
10868828 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
10868868 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
10868908 CCGGATAT
1 CCGGATAT
10868916 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:10876789 original size:40 final size:40
Alignment explanation
Indices: 10876744--10876910 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
10876734 CGGAATATAA
10876744 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
10876784 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
10876824 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
10876864 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
10876903 CCGGATAT
1 CCGGATAT
10876911 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:10883061 original size:16 final size:16
Alignment explanation
Indices: 10883042--10883072 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10883032 CTTCTTCACT
10883042 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
10883058 TACTTACTTACTTAA
1 TACTCACTTACTTAA
10883073 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:10883078 original size:20 final size:20
Alignment explanation
Indices: 10883039--10883078 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10883029 AAACTTCTTC
* *
10883039 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
10883059 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
10883079 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:10883466 original size:55 final size:53
Alignment explanation
Indices: 10883264--10883515 Score: 180
Period size: 55 Copynumber: 4.8 Consensus size: 53
10883254 AAACGGGTAC
* * * * *
10883264 CTTACCATTGCCATGACTTGTCATGGTCTTACATGTTATCC-T---TT-TGAAA
1 CTTACCAATGCTATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATG-AA
* * *
10883313 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCTATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAA
* * * *
10883366 CTCACCAATG-TCATGCCTTGGCATGGTCTTACAT-AGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCT-ATGTCTTGACATGGTCTTACATGA-TATCC-TTGCCTTAT-G-AA
* *
10883421 CTTATCAATGCTATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCTATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATG-AA
* * * * * *
10883474 CCATACTAATTGCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCTATGTCTTGACATGGTCTTACATGATATC
10883516 TTTAAACCCT
Statistics
Matches: 163, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
49 38 0.23
50 1 0.01
52 2 0.01
53 45 0.28
54 8 0.05
55 65 0.40
56 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCTATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAA
Found at i:10883468 original size:108 final size:109
Alignment explanation
Indices: 10883311--10883509 Score: 287
Period size: 108 Copynumber: 1.8 Consensus size: 109
10883301 ATCCTTTTGA
* *
10883311 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTC-ACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAAC-CAACCAA
*
10883374 -TGTCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATAGT
64 TTGCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATAGT
* * * *
10883419 AACTTATCAATGCTATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCATACTAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCA-ACCAAT
10883484 TGCCATGCCTTGGCATGGTCTTACAT
65 TGCCATGCCTTGGCATGGTCTTACAT
10883510 GGTATCTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
107 2 0.03
108 49 0.61
109 4 0.05
110 25 0.31
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCAACCAATT
GCCATGCCTTGGCATGGTCTTACATAGGACCTTTGCCTTATAGT
Found at i:10894786 original size:46 final size:47
Alignment explanation
Indices: 10894728--10894865 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 47
10894718 CACATTGTCA
* * *
10894728 CACATCACATACCGAAGCCATAGCCCTGCCATGGTCTTACAC-GAAT
1 CACATAACATACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAT
* * * *
10894774 CACATAACATACCGATGCCATATCCCAGATATGGTCTTATACGGAAT
1 CACATAACATACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAT
*
10894821 CACATTATCACATCACACCGATGCCATAGCCCA-ACTATGGTCTTA
1 CACA-TA--ACAT---ACCGAAGCCATAGCCCAGAC-ATGGTCTTA
10894866 TACAGGAACT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
46 35 0.47
47 8 0.11
48 2 0.03
50 4 0.05
52 1 0.01
53 25 0.33
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (47 bp):
CACATAACATACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAT
Found at i:10894911 original size:52 final size:52
Alignment explanation
Indices: 10894784--10894938 Score: 188
Period size: 52 Copynumber: 3.0 Consensus size: 52
10894774 CACATAACAT
*
10894784 ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCAC
1 ACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACA-TATCACATCAC
* * * **
10894837 ACCGATGCCATAGCCCAACTATGGTCTTATACAGGAACTC-GA-ATCACATTGC
1 ACCGATGCCATATCCCAGCTATGGTCTTATAC-GGAA-TCACATATCACATCAC
* * *
10894889 ACCGATGCCATATCCCAGCTATGGTCTTATATGGAAGCACTTATCACATC
1 ACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACATATCACATC
10894939 TTTTCCGTCA
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
50 1 0.01
51 4 0.05
52 44 0.52
53 29 0.34
54 5 0.06
55 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (52 bp):
ACCGATGCCATATCCCAGCTATGGTCTTATACGGAATCACATATCACATCAC
Found at i:10895106 original size:21 final size:23
Alignment explanation
Indices: 10895071--10895112 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
10895061 AATATACTTA
10895071 AAAACCATAAAATTT-TCATAAC
1 AAAACCATAAAATTTGTCATAAC
*
10895093 AAAA-CATTAAATTTGTCATA
1 AAAACCATAAAATTTGTCATA
10895113 TGAACTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAACCATAAAATTTGTCATAAC
Found at i:10901672 original size:40 final size:39
Alignment explanation
Indices: 10901507--10901690 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
10901497 AAATTGAATG
* * *
10901507 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
10901547 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
10901587 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
10901627 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
10901666 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
10901691 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:10901715 original size:80 final size:81
Alignment explanation
Indices: 10901547--10901735 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
10901537 GCTGGAAATT
* * * *
10901547 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
10901612 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
10901628 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
10901691 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
10901707 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
10901736 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:10909791 original size:40 final size:39
Alignment explanation
Indices: 10909626--10909809 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
10909616 AAATTGAATG
* * *
10909626 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
10909666 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
10909706 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
10909746 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
10909785 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
10909810 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:10909834 original size:80 final size:81
Alignment explanation
Indices: 10909666--10909854 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
10909656 GCTGGAAATT
* * * *
10909666 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
10909731 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
10909747 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
10909810 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
10909826 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
10909855 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:10913937 original size:46 final size:46
Alignment explanation
Indices: 10913857--10913953 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
10913847 CACATTGTCA
* * * *
10913857 CACATCACATACCGAAGCCATAGCCCTGCCATGGTTTTACACGAAT
1 CACATAACATACCGAAGCCATAGCCCAGACATGGTCTTACACGAAT
* * * * *
10913903 CACATAACATACCGATGCCATATCCCAGATATGGTCTTATAGGAAT
1 CACATAACATACCGAAGCCATAGCCCAGACATGGTCTTACACGAAT
10913949 CACAT
1 CACAT
10913954 TATCACATCA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (46 bp):
CACATAACATACCGAAGCCATAGCCCAGACATGGTCTTACACGAAT
Found at i:10914061 original size:51 final size:51
Alignment explanation
Indices: 10913913--10914064 Score: 166
Period size: 51 Copynumber: 3.0 Consensus size: 51
10913903 CACATAACAT
* *
10913913 ACCGATGCCATATCCCAGATATGGTCTTATAGGAATCACATTATCACATCAC
1 ACCGATGCCATATCCCAGCTATGGTCTTATAGGACTCACA-TATCACATCAC
* * * **
10913965 ACCGATGCCATAGCCCAACTAT-GTCTTATACGGGAACTC-GA-ATCACATTGC
1 ACCGATGCCATATCCCAGCTATGGTCTTATA--GG-ACTCACATATCACATCAC
* *
10914016 ACCGATGCCATATCCCAGCTATGGTCTTATTGGACGCACATATCACATC
1 ACCGATGCCATATCCCAGCTATGGTCTTATAGGACTCACATATCACATC
10914065 TTTTCCGTCA
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
49 3 0.04
50 3 0.04
51 43 0.53
52 26 0.32
53 3 0.04
54 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (51 bp):
ACCGATGCCATATCCCAGCTATGGTCTTATAGGACTCACATATCACATCAC
Found at i:10926134 original size:64 final size:64
Alignment explanation
Indices: 10926033--10926160 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
10926023 TCATTCATAA
* * *
10926033 CACATCTAGTTAGGAGTATTTGATTCATTTCGATCATAGCATCCTAATTATTTGATATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
10926097 CACATTTAGTTAAGAGCATTTGGTTCATTTCGATCATAGTATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
10926161 AGATACATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (64 bp):
CACATCTAGTTAAGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:10926590 original size:89 final size:89
Alignment explanation
Indices: 10926494--10926658 Score: 233
Period size: 89 Copynumber: 1.9 Consensus size: 89
10926484 TGAAGATACA
* ** * *
10926494 AGTCTTATCTTCTTGAAGTTACAGGAAGCTTACTGACAAA-TTATAGATCTTATCTCCATGTATC
1 AGTCTTATCTTCCTGAAGTTACAGGAAGCAGACT-AAAAATTTACAGATCTTATCTCCATGTATC
10926558 AGCTATAGAGCAGATTTTAGCCACT
65 AGCTATAGAGCAGATTTTAGCCACT
** *
10926583 AGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCA
*
10926648 GCTATGGAGCA
66 GCTATAGAGCA
10926659 TATCGAAAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
88 4 0.06
89 62 0.94
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (89 bp):
AGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCA
GCTATAGAGCAGATTTTAGCCACT
Found at i:10926767 original size:134 final size:133
Alignment explanation
Indices: 10926583--10928156 Score: 1680
Period size: 134 Copynumber: 11.8 Consensus size: 133
10926573 TTTAGCCACT
* *
10926583 AGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTAAAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-GAAATTTACAGATCTTATCTCCATGTATCG
* * * *
10926648 GCTATGGAGCATATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAAACTAAAGA
65 GCTATGGAGCAGATC-AAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA
*
10926713 TAGCA
129 CAGCA
* * ** *
10926718 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAAATCTTATCTTTATATATCGG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTTACAGATCTTATCTCCATGTATCGG
*** * * * * * ** *
10926783 CTATGGAGCAGATCAGAAATGGTGAGTCTTATCTTCATGTA-TCAGCTATGGAGCAGATTTTAGC
66 CTATGGAGCAGATCA-AAATGACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAGATTGAAGA
*
10926847 CA-CT
129 CAGCA
* *
10926851 AGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTGAAAATTTACAAATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAATTTACAGATCTTATCTCCATGTATCG
* * * *
10926916 GCTATGGAGCAGATCGAAAATAACAAGTATTATCTCCCTGAAGTTGCAATAGAGCAGACTGAAGA
65 GCTATGGAGCAGATC-AAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA
*
10926981 TAGCA
129 CAGCA
* *
10926986 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCAG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTTACAGATCTTATCTCCATGTATCGG
* * * * * * ** *
10927051 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTA-TCTGCTATGGAGTAGATTTTAGC
66 CTATGGAGCAGATCA-AAATGACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAGATTGAAGA
*
10927115 CA-CT
129 CAGCA
* *
10927119 AGTCTTATCTTCCTGAAGTTGCAGGAAGCGGACTAAAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACT-GAAATTTACAGATCTTATCTCCATGTATCG
* * * *
10927184 GCTATGGAGCACATGAAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
65 GCTATGGAGCAGAT-CAAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA
*
10927249 TAGCA
129 CAGCA
* ** * *
10927254 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTTTATATATTGG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTTACAGATCTTATCTCCATGTATCGG
* ** * * * * * ** *
10927319 CTATGGAGCTGATCAAAAATGATGAGTCTTATCTTCATGTA-TCAGCTATGGAGCAGATTTTAGC
66 CTATGGAGCAGATC-AAAATGACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAGATTGAAGA
*
10927383 CA-CT
129 CAGCA
*
10927387 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCTATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAATTTACAGATCTTATCTCCATGTATCG
* * * * ** **
10927452 GCTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTA-TCTGTTATGGAGCAGATTTTAG
65 GCTATGGAGCAGATCA-AAATGACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAGATTGAAG
* *
10927516 CCAG-T
128 ACAGCA
*
10927521 AGTCTTATCTTCCTGAAGTTGCAGGAAGTAGACTGAAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAATTTACAGATCTTATCTCCATGTATCG
* * * *
10927586 GCTATGGAACAGATGGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
65 GCTATGGAGCAGAT-CAAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA
*
10927651 TAGCA
129 CAGCA
* * * * *
10927656 AGTCTTATCTTTCTAAAGTTGCAAGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATTGG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTTACAGATCTTATCTCCATGTATCGG
* * * * * * ** *
10927721 CTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTA-TCTGCTATGGATCAGATTTTAGC
66 CTATGGAGCAGATCA-AAATGACAAGTCTTATCTCCCTGAAGT-TGCAATGGAGCAGATTGAAGA
*
10927785 CA-CT
129 CAGCA
* *
10927789 AGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTG-AAATTTACAGATCTTATCTCCATGTATCG
* * * *
10927854 GCTATGGAGCAGATTGAAAATAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
65 GCTATGGAGCAGA-TCAAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA
10927919 CAGCA
129 CAGCA
* * * *
10927924 AGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTAAAAATTACAGATCTTATCTCTATGTATCGG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTTACAGATCTTATCTCCATGTATCGG
*** ** * * * * *
10927989 CTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCT-AAGGTAGCAA-GAGAGCAGGTTGAAGA
66 CTATGGAGCAGATCAAAATGACAAGTCTTATCTCCCTGAA-GTTGCAATG-GAGCAGATTGAAGA
*
10928052 TA-CA
129 CAGCA
* * ** * *
10928056 GGTCTTATCTTCCTGAAGTTGCAAGAAGCAGACTGAAAAGTATAGATCTTATCTCCATGTATTGG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTTACAGATCTTATCTCCATGTATCGG
* * *
10928121 CTATGGACCAGATCAGAAATGGCAAATCTTATCTCC
66 CTATGGAGCAGATCA-AAATGACAAGTCTTATCTCC
10928157 ATGTATCGAC
Statistics
Matches: 1196, Mismatches: 214, Indels: 60
0.81 0.15 0.04
Matches are distributed among these distances:
132 74 0.06
133 192 0.16
134 755 0.63
135 175 0.15
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (133 bp):
AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAATTTACAGATCTTATCTCCATGTATCGG
CTATGGAGCAGATCAAAATGACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACA
GCA
Done.