Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 282 of 438
Found at i:88246462 original size:40 final size:39
Alignment explanation
Indices: 88246407--88246648 Score: 243
Period size: 40 Copynumber: 6.1 Consensus size: 39
88246397 CCTCATAATT
*
88246407 CTAGCACGAATGCTCTTCGAGGTTTCA-CCCGAATATATCA
1 CTAGCACGAATGCTCTTCGAGG-TT-AGCCCGGATATATCA
**
88246447 CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGGATATATCA
* * *
88246487 CTAGCACGAATGCTCTTCGGAAGTTAGTCCGGTTATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGGATATATCA
* ** *
88246527 CTAGCACGAATGCTCTTTGGAACTTAGTCCGGATATATCA
1 CTAGCACGAATGCTC-TTCGAGGTTAGCCCGGATATATCA
* ** * *
88246567 GTAGCACGAATGCTCTTCGGAACTTAGTCCGGTTATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGGATATATCA
* ** *
88246607 CTAGCACGAATGCTTTTCGGAACTTAGTCCGGATATATCA
1 CTAGCACGAATGCTCTTC-GAGGTTAGCCCGGATATATCA
88246647 CT
1 CT
88246649 CTCAATTCTC
Statistics
Matches: 183, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 176 0.96
41 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (39 bp):
CTAGCACGAATGCTCTTCGAGGTTAGCCCGGATATATCA
Found at i:88246540 original size:80 final size:80
Alignment explanation
Indices: 88246440--88246648 Score: 373
Period size: 80 Copynumber: 2.6 Consensus size: 80
88246430 TTCACCCGAA
*
88246440 TATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTC
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAATGCTCTTC
*
88246505 GGAAGTTAGTCCGGT
66 GGAACTTAGTCCGGT
* *
88246520 TATATCACTAGCACGAATGCTCTTTGGAACTTAGTCCGGATATATCAGTAGCACGAATGCTCTTC
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAATGCTCTTC
88246585 GGAACTTAGTCCGGT
66 GGAACTTAGTCCGGT
*
88246600 TATATCACTAGCACGAATGCTTTTCGGAACTTAGTCCGGATATATCACT
1 TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATATCACT
88246649 CTCAATTCTC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 122 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (80 bp):
TATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAATGCTCTTC
GGAACTTAGTCCGGT
Found at i:88248606 original size:37 final size:37
Alignment explanation
Indices: 88248559--88248641 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
88248549 AACCTTTAGT
* * * *
88248559 TCGGGGCTTACTCGGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
*
88248596 TCGGGTCTTACCCGGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
88248633 TCGGGTCTT
1 TCGGGTCTT
88248642 TAGAGCTCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.25
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
Found at i:88248828 original size:47 final size:47
Alignment explanation
Indices: 88248759--88249666 Score: 1519
Period size: 47 Copynumber: 19.3 Consensus size: 47
88248749 CCCTTCGGGA
* * * * *
88248759 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88248806 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88248853 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88248900 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
88248947 CTTATCTCATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88248994 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88249041 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88249088 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88249135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88249182 CTTATCACTTATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88249229 CTTGTCACTTATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88249276 CTTATCACTTATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88249323 CTTGTCACTTATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88249370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATGAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88249417 CTTCTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88249464 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88249511 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88249558 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
88249605 CTTATCACATATATGCACTTCCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88249652 CTTATCACATATATA
1 CTTATCACATATATA
88249667 TATCTCATAC
Statistics
Matches: 821, Mismatches: 40, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 821 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88248837 original size:25 final size:25
Alignment explanation
Indices: 88248809--88248887 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
88248799 ACTCGGCCTT
*
88248809 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
88248834 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
88248856 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
88248881 ATCACAT
1 ATCACAT
88248888 GGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:88256255 original size:10 final size:10
Alignment explanation
Indices: 88256240--88256279 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
88256230 CTGTTTTGTA
88256240 CATGATATGC
1 CATGATATGC
*
88256250 CATGATGTGC
1 CATGATATGC
88256260 ACATGATATGC
1 -CATGATATGC
88256271 CATGATATG
1 CATGATATG
88256280 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:88256396 original size:24 final size:25
Alignment explanation
Indices: 88256324--88256401 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
88256314 GGAGGAAGTG
**
88256324 AAAAAGGGCTTTGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTATT
* * *
88256349 GAAAAGGGCTTTACCCTAGTTTATT
1 AAAAAGGGCTTTGCCCCAGTTTATT
*
88256374 AAAAAGGGTTTTGCCCCAG-TTATT
1 AAAAAGGGCTTTGCCCCAGTTTATT
88256398 AAAA
1 AAAA
88256402 GAGGCTAGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 9 0.20
25 35 0.80
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATT
Found at i:88264135 original size:10 final size:10
Alignment explanation
Indices: 88264120--88264159 Score: 71
Period size: 10 Copynumber: 3.9 Consensus size: 10
88264110 CTATTTTGTA
88264120 CATGATATGC
1 CATGATATGC
88264130 CATGATATGC
1 CATGATATGC
88264140 ACATGATATGC
1 -CATGATATGC
88264151 CATGATATG
1 CATGATATG
88264160 TTCATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 19 0.66
11 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:88264145 original size:21 final size:21
Alignment explanation
Indices: 88264119--88264159 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
88264109 ACTATTTTGT
88264119 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
88264140 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
88264160 TTCATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:88264287 original size:24 final size:25
Alignment explanation
Indices: 88264204--88264274 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
88264194 GGAGGAAGTG
88264204 AAAAAGGGCTTTGCCCCAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTACC
* * *
88264229 GAAAAGGGCTTTGCCCTAGTTTATC
1 AAAAAGGGCTTTGCCCCAGTTTACC
88264254 AAAAAGGGCTTTGCCCCAGTT
1 AAAAAGGGCTTTGCCCCAGTT
88264275 ACTAAAAGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTACC
Found at i:88264527 original size:30 final size:31
Alignment explanation
Indices: 88264491--88264573 Score: 143
Period size: 30 Copynumber: 2.7 Consensus size: 31
88264481 CGTTTACAAT
*
88264491 AAAGGCTTCAGCCCAGTGATATGAATAATG-
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
88264521 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
88264552 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
88264574 TTGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 34 0.67
31 17 0.33
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:88266343 original size:13 final size:13
Alignment explanation
Indices: 88266325--88266349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88266315 CTAGCACACG
88266325 GTCGTGTGACTTT
1 GTCGTGTGACTTT
88266338 GTCGTGTGACTT
1 GTCGTGTGACTT
88266350 CAATTTCTTC
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:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (13 bp):
GTCGTGTGACTTT
Found at i:88273229 original size:40 final size:39
Alignment explanation
Indices: 88273184--88273313 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
88273174 CGGAACATAA
88273184 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
88273224 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
88273264 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
88273304 CCGGATATAA
1 CCGGATATAA
88273314 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:88273328 original size:40 final size:40
Alignment explanation
Indices: 88273200--88273351 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
88273190 ATAACCATGT
* * *
88273200 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
88273240 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88273280 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88273320 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
88273352 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:88273334 original size:80 final size:80
Alignment explanation
Indices: 88273200--88273349 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
88273190 ATAACCATGT
*
88273200 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
88273264 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
88273280 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
88273343 CCCGGAT
64 CCCGGAT
88273350 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:88275910 original size:29 final size:30
Alignment explanation
Indices: 88275850--88275920 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
88275840 TTAATAGGGC
* *
88275850 TTATCAGGCACTATGTGCCATTGATTACAA
1 TTATCAGGCACTATGTACCAGTGATTACAA
* *
88275880 TTATCAGGTACTTTGTACCAGTG-TTACAA
1 TTATCAGGCACTATGTACCAGTGATTACAA
*
88275909 TTATTAGGCACT
1 TTATCAGGCACT
88275921 CTATTGTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 16 0.46
30 19 0.54
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (30 bp):
TTATCAGGCACTATGTACCAGTGATTACAA
Found at i:88283315 original size:20 final size:19
Alignment explanation
Indices: 88283292--88283353 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
88283282 AACTCATTCA
88283292 TATAACCAGTAGTTCATCCG
1 TATAA-CAGTAGTTCATCCG
* * **
88283312 TATAAATAGGAGTTCATAAG
1 TAT-AACAGTAGTTCATCCG
*
88283332 TAATAACAGTAATTCATCCG
1 T-ATAACAGTAGTTCATCCG
88283352 TA
1 TA
88283354 GTAATTATGC
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.03
20 26 0.84
21 4 0.13
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (19 bp):
TATAACAGTAGTTCATCCG
Found at i:88283528 original size:23 final size:24
Alignment explanation
Indices: 88283470--88283598 Score: 92
Period size: 23 Copynumber: 5.5 Consensus size: 24
88283460 CAGCCATGAT
*
88283470 CGGTAAGCTCCTTAT-GAGCTGATGAA
1 CGGTAAGCT-C-TATCGAGCTGA-AAA
* *
88283496 CAGTAAGCTCTATTGAGCT-AAAA
1 CGGTAAGCTCTATCGAGCTGAAAA
*
88283519 CGGTAAGCTCTATCGAGCTGAATA
1 CGGTAAGCTCTATCGAGCTGAAAA
88283543 --GTAAGCTC-ATACGAGCTG-AAA
1 CGGTAAGCTCTAT-CGAGCTGAAAA
* *
88283564 CGATAAGCTCCAAT-GAGCTGAAAA
1 CGGTAAGCT-CTATCGAGCTGAAAA
**
88283588 TAGTAAGCTCT
1 CGGTAAGCTCT
88283599 TAGGAGCTAA
Statistics
Matches: 84, Mismatches: 11, Indels: 19
0.74 0.10 0.17
Matches are distributed among these distances:
21 4 0.05
22 15 0.18
23 32 0.38
24 17 0.20
25 8 0.10
26 8 0.10
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (24 bp):
CGGTAAGCTCTATCGAGCTGAAAA
Found at i:88283559 original size:45 final size:43
Alignment explanation
Indices: 88283492--88283633 Score: 124
Period size: 45 Copynumber: 3.0 Consensus size: 43
88283482 TATGAGCTGA
* *
88283492 TGAACAGTAAGCTCTATTGAGCTAAAACGGTAAGCTCTATCGAGC
1 TGAATAGTAAGCTCTA-CGAGCTAAAACGGTAAGCTC-ATCGAGC
* *
88283537 TGAATAGTAAGCTCATACGAGCTGAAACGATAAGCTCCAAT-GAGC
1 TGAATAGTAAGCTC-TACGAGCTAAAACGGTAAGCT-C-ATCGAGC
*
88283582 TGAAAATAGTAAGCTCTTAGGAGCTAATATATCGGTAAGCTCATACGAGC
1 TG--AATAGTAAGCTC-TACGAGCTAA-A-A-CGGTAAGCTCAT-CGAGC
88283632 TG
1 TG
88283634 TGGTGAGTCC
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
45 35 0.44
46 5 0.06
47 20 0.25
48 3 0.04
49 2 0.03
50 14 0.18
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (43 bp):
TGAATAGTAAGCTCTACGAGCTAAAACGGTAAGCTCATCGAGC
Found at i:88285454 original size:68 final size:67
Alignment explanation
Indices: 88285287--88285462 Score: 148
Period size: 68 Copynumber: 2.6 Consensus size: 67
88285277 TAGTACCACT
* * * * *
88285287 CATGCGACCTAGCT-GAT-T-TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACAT-G-AT
*
88285349 CACG
64 CACA
* * *
88285353 CATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATCCCAT-A
1 CATGCGACCTAGCTACATATATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACATGA
88285416 TCACA
63 TCACA
*
88285421 CATGTGACCTAGCTACTATATAGTATCTCGTAGC-CTTCTTGT
1 CATGCGACCTAGCTAC-ATATA-TATCTCGTAGCTC-TCTTGT
88285463 ACACATGATG
Statistics
Matches: 91, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
66 14 0.15
67 3 0.03
68 33 0.36
69 8 0.09
70 5 0.05
71 28 0.31
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (67 bp):
CATGCGACCTAGCTACATATATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACATGATCA
CA
Found at i:88287396 original size:40 final size:40
Alignment explanation
Indices: 88287341--88287420 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
88287331 TTCACATATG
*
88287341 CATCAAGTAAGCATAGGTGAGCTCATCATACTATATTCTT
1 CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
88287381 CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
1 CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
88287421 TCAAGACATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.33
Consensus pattern (40 bp):
CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
Found at i:88287765 original size:59 final size:58
Alignment explanation
Indices: 88287610--88287767 Score: 149
Period size: 57 Copynumber: 2.7 Consensus size: 58
88287600 CCTCATAACA
* * * *
88287610 TATAACAGGATTACCAGTCCAGGCTAAATCCCTTTTGTAATATATAGTTAAAAGAGCT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATAGTTAAAAGAGAT
* * * * * *** * * *
88287668 CA-ATTAGGATTACTAGTCCAAGCTAAATCATAACTGTAACATAT-GTTCGAGAGGGAAT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATAGTT-AAAAGAG-AT
88287726 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACA
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACA
88287768 ATGCAGAACC
Statistics
Matches: 74, Mismatches: 23, Indels: 5
0.73 0.23 0.05
Matches are distributed among these distances:
56 3 0.04
57 36 0.49
58 3 0.04
59 32 0.43
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (58 bp):
TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATAGTTAAAAGAGAT
Found at i:88297975 original size:22 final size:23
Alignment explanation
Indices: 88297957--88298004 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
88297947 CTTAACAACA
*
88297957 AAAATCCATA-GCCAAAACATAC
1 AAAATCAATATGCCAAAACATAC
88297979 AAAATCAATATGCCAAAATCAT-C
1 AAAATCAATATGCCAAAA-CATAC
88298002 AAA
1 AAA
88298005 TTTACATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 11 0.48
24 3 0.13
ACGTcount: A:0.56, C:0.23, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAATCAATATGCCAAAACATAC
Found at i:88316133 original size:221 final size:221
Alignment explanation
Indices: 88315750--88316190 Score: 873
Period size: 221 Copynumber: 2.0 Consensus size: 221
88315740 CTTAAGTGTG
88315750 GGGATATTTGATAAACCATAATATATACATATATTTTAACCCATGTTTAACATATTTATGAATAA
1 GGGATATTTGATAAACCATAATATATACATATATTTTAACCCATGTTTAACATATTTATGAATAA
88315815 TTTTTCCTTATTTTCATAGAAGTCGATGCTCTTAATCCCTTAAATTCATGTTTTATACTTAGGCG
66 TTTTTCCTTATTTTCATAGAAGTCGATGCTCTTAATCCCTTAAATTCATGTTTTATACTTAGGCG
88315880 AGCATAGGAAGGCAAAAAGAGTAAGAAATGGGCCAAAAATAGACAAAATGGGCCTAACTTAGTGT
131 AGCATAGGAAGGCAAAAAGAGTAAGAAATGGGCCAAAAATAGACAAAATGGGCCTAACTTAGTGT
88315945 TTCACACGGCTCAGGCACTTCCACAA
196 TTCACACGGCTCAGGCACTTCCACAA
88315971 GGGATATTTGATAAACCATAATATATACATATATTTTAACCCATGTTTAACATATTTATGAATAA
1 GGGATATTTGATAAACCATAATATATACATATATTTTAACCCATGTTTAACATATTTATGAATAA
88316036 TTTTTCCTTATTTTCATAGAAGTCGATGCTCTTAATCCCTTAAATTCATGTTTTATACTTAGGCG
66 TTTTTCCTTATTTTCATAGAAGTCGATGCTCTTAATCCCTTAAATTCATGTTTTATACTTAGGCG
88316101 AGCATAGGAAGGCAAAAAGAGTAAGAAATGGGCCAAAAATAGACAAAATGGGCCTAACTTAGTGT
131 AGCATAGGAAGGCAAAAAGAGTAAGAAATGGGCCAAAAATAGACAAAATGGGCCTAACTTAGTGT
*
88316166 TTCACACGGCTCAGGCACTTTCACA
196 TTCACACGGCTCAGGCACTTCCACA
88316191 CGGGTAAACC
Statistics
Matches: 219, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 219 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (221 bp):
GGGATATTTGATAAACCATAATATATACATATATTTTAACCCATGTTTAACATATTTATGAATAA
TTTTTCCTTATTTTCATAGAAGTCGATGCTCTTAATCCCTTAAATTCATGTTTTATACTTAGGCG
AGCATAGGAAGGCAAAAAGAGTAAGAAATGGGCCAAAAATAGACAAAATGGGCCTAACTTAGTGT
TTCACACGGCTCAGGCACTTCCACAA
Found at i:88319195 original size:43 final size:43
Alignment explanation
Indices: 88319148--88319252 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
88319138 CCTAGATTTA
* * * *
88319148 GTCTTACATGTTATCACATATCGATGCCACTATCCCAGATAAG
1 GTCTTACATGTAATCACATAACGATGCCAATATCCCAGACAAG
* * * * * *
88319191 GTCTTACACGAAATCATATAACGATGCTAATGTCCCAGACATG
1 GTCTTACATGTAATCACATAACGATGCCAATATCCCAGACAAG
*
88319234 GTCTTACATGTAAACACAT
1 GTCTTACATGTAATCACAT
88319253 CTCGGTAATC
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
GTCTTACATGTAATCACATAACGATGCCAATATCCCAGACAAG
Found at i:88321000 original size:40 final size:39
Alignment explanation
Indices: 88320955--88321084 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
88320945 CGGAATATAA
88320955 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
88320995 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
88321035 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
88321075 CCGGATATAA
1 CCGGATATAA
88321085 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:88321099 original size:40 final size:40
Alignment explanation
Indices: 88320971--88321122 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
88320961 ATAACCATGT
* * *
88320971 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
88321011 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88321051 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88321091 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
88321123 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:88321105 original size:80 final size:80
Alignment explanation
Indices: 88320971--88321120 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
88320961 ATAACCATGT
*
88320971 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
88321035 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
88321051 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
88321114 CCCGGAT
64 CCCGGAT
88321121 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:88328998 original size:40 final size:39
Alignment explanation
Indices: 88328953--88329082 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
88328943 CGGAATATAA
88328953 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
88328993 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
88329033 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
88329073 CCGGATATAA
1 CCGGATATAA
88329083 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:88329097 original size:40 final size:40
Alignment explanation
Indices: 88328969--88329120 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
88328959 ATAACCATGT
* * *
88328969 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
88329009 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88329049 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88329089 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
88329121 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:88329103 original size:80 final size:80
Alignment explanation
Indices: 88328969--88329118 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
88328959 ATAACCATGT
*
88328969 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
88329033 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
88329049 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
88329112 CCCGGAT
64 CCCGGAT
88329119 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:88333222 original size:40 final size:39
Alignment explanation
Indices: 88333177--88333306 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
88333167 CGGAACATAA
88333177 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
88333217 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
88333257 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
88333297 CCGGATATAA
1 CCGGATATAA
88333307 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:88333321 original size:40 final size:40
Alignment explanation
Indices: 88333193--88333344 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
88333183 ATAACCATGT
* * *
88333193 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
88333233 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88333273 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
88333313 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
88333345 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:88333327 original size:80 final size:80
Alignment explanation
Indices: 88333193--88333342 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
88333183 ATAACCATGT
*
88333193 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
88333257 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
88333273 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
88333336 CCCGGAT
64 CCCGGAT
88333343 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:88341118 original size:30 final size:30
Alignment explanation
Indices: 88341084--88341144 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
88341074 TCCTTAACTC
*
88341084 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGACAAAATTACAATTTTGCCCCT
* * * *
88341114 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTGACAAAATTACAATTTTGCCCCT
88341144 A
1 A
88341145 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGACAAAATTACAATTTTGCCCCT
Found at i:88345660 original size:43 final size:43
Alignment explanation
Indices: 88345541--88345663 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 43
88345531 AGCTCGTACA
* * *
88345541 ATGCCA-TATCCCAGATATGGTCTTAC-TGTTATCACATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *
88345582 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCATATAAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAATCACAT-ATCG
* *
88345625 ATGCTAGTGTCCCATG-CATGGTCTTACATGTAATCACAT
1 ATGCCACTGTCCCA-GACATGGTCTTACATGTAATCACAT
88345664 CTCGGTAATC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 6 0.09
42 17 0.26
43 39 0.60
44 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:88349585 original size:43 final size:42
Alignment explanation
Indices: 88349429--88349601 Score: 156
Period size: 43 Copynumber: 4.1 Consensus size: 42
88349419 TAGGTACGAG
*
88349429 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGT
* ** * *
88349471 ATTGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGT
1 A-TGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGT
* * *
88349514 AT-T-ATAATTTCGTGTAAGATCC-TGTTTGGGACAGTGGCATTGAT
1 ATGTGATAA---CATGTAAGA-CCATGTCTGGGACATTGGCATTG-T
* * *
88349558 ATGTGATAACATGTAAGACCATATTTGGGATA-TGGCATTGT
1 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGT
88349599 ATG
1 ATG
88349602 AGCTTATGTG
Statistics
Matches: 109, Mismatches: 13, Indels: 19
0.77 0.09 0.13
Matches are distributed among these distances:
40 3 0.03
41 5 0.05
42 12 0.11
43 79 0.72
44 5 0.05
45 1 0.01
46 4 0.04
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (42 bp):
ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:88356661 original size:43 final size:43
Alignment explanation
Indices: 88356613--88356759 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 43
88356603 ATCGAGATGC
* * *
88356613 GATTACATCTAAGACCATTTCTGGGACATTGGCATTGTTTTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTTTGT
* * * *
88356656 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTTTGT
* * * * * * *
88356699 GATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTTTGT
*
88356742 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
88356760 ATCTAGGATA
Statistics
Matches: 84, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTTTGT
Found at i:88356769 original size:43 final size:43
Alignment explanation
Indices: 88356603--88356767 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
88356593 ACATTAGGTT
* * * * *
88356603 ATCGAGATGCGATTACATCTAAGACCATTTCTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTAGGACATTGGC
* * * *
88356646 ATTGTTTTGTGATTACGTGTAAGACCATGTCTAGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTAGGACATTGGC
* * * * * * *
88356689 ATCG-TATTATGATTTCGTGTAAGACCCTGTCTGGGATAGTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATGTCTAGGACATTGGC
* *
88356732 ATCGATATGTGATAACATGTAAGACCATATCTAGGA
1 ATCGATATGTGATTACATGTAAGACCATGTCTAGGA
88356768 TATGGTATTG
Statistics
Matches: 96, Mismatches: 24, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
42 1 0.01
43 93 0.97
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTAGGACATTGGC
Found at i:88357166 original size:33 final size:33
Alignment explanation
Indices: 88357121--88357186 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
88357111 TTGGACTCGT
88357121 GGATTGTAGGAAACGTCATCACACTATCGATCA
1 GGATTGTAGGAAACGTCATCACACTATCGATCA
*
88357154 GGATTGTGGGAAACGTCATCACACTATCGATCA
1 GGATTGTAGGAAACGTCATCACACTATCGATCA
88357187 ACTTGTTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (33 bp):
GGATTGTAGGAAACGTCATCACACTATCGATCA
Found at i:88363451 original size:26 final size:26
Alignment explanation
Indices: 88363409--88363464 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
88363399 AATTTTTATA
88363409 TTTTCCCAGATCAATTTTAATGTATG
1 TTTTCCCAGATCAATTTTAATGTATG
* *
88363435 TTTTCCCATATCGATTTTAATGTATG
1 TTTTCCCAGATCAATTTTAATGTATG
88363461 TTTT
1 TTTT
88363465 GGACCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (26 bp):
TTTTCCCAGATCAATTTTAATGTATG
Found at i:88364108 original size:96 final size:96
Alignment explanation
Indices: 88363944--88364137 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
88363934 ACTGCCCCAA
88363944 TATACCATGATCTCCTCTGTCCCATGCTCGGTCAAAGGGAGAAGTGCCACAAGGTATGGCACCCG
1 TATACCATGATCTCCTCTGTCCCATGCTCGGTCAAAGGGAGAAGTGCCACAAGGTATGGCACCCG
88364009 TGAGAATTGGTAAGGGCCCAGTTGATAAACT
66 TGAGAATTGGTAAGGGCCCAGTTGATAAACT
88364040 TATACCATGATCTCCTCTGTCCCATGCTCGGTCAAAGGGAGAAGTGCCACAAGGTATGGCACCCG
1 TATACCATGATCTCCTCTGTCCCATGCTCGGTCAAAGGGAGAAGTGCCACAAGGTATGGCACCCG
88364105 TGAGAATTGGTAAGGGCCCAGTTGATAAACT
66 TGAGAATTGGTAAGGGCCCAGTTGATAAACT
88364136 TA
1 TA
88364138 GGAAATACGA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (96 bp):
TATACCATGATCTCCTCTGTCCCATGCTCGGTCAAAGGGAGAAGTGCCACAAGGTATGGCACCCG
TGAGAATTGGTAAGGGCCCAGTTGATAAACT
Found at i:88366097 original size:93 final size:93
Alignment explanation
Indices: 88365969--88366140 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
88365959 GCCCATAAGT
* *
88365969 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88366034 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
88366062 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88366127 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
88366141 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88366136 original size:46 final size:46
Alignment explanation
Indices: 88365961--88366136 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
88365951 TGTAACCCGC
* * *
88365961 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88366007 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
88366053 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88366100 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88366137 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:88370668 original size:39 final size:39
Alignment explanation
Indices: 88370613--88370802 Score: 290
Period size: 39 Copynumber: 4.8 Consensus size: 39
88370603 CGGATGATAA
88370613 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
88370652 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
88370691 TCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAT
* *
88370731 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
* *
88370771 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88370803 AGCTATATCC
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 73 0.53
40 65 0.47
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:88370765 original size:79 final size:79
Alignment explanation
Indices: 88370609--88370795 Score: 295
Period size: 79 Copynumber: 2.4 Consensus size: 79
88370599 TATTCGGATG
* * *
88370609 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACAAATCCGGGCTAAGTCCCGAAGGCAT
*
88370674 TTGTGCGAGTTACT
66 TGGTGCGAGTTACT
**
88370688 A-ATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CAAATCCGGGCTAAGTCCCGAAGGCA
88370752 TTGGTGCGAGTTACT
65 TTGGTGCGAGTTACT
*
88370767 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
88370796 AGCGAGTAGC
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 33 0.34
79 40 0.41
80 24 0.25
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACAAATCCGGGCTAAGTCCCGAAGGCAT
TGGTGCGAGTTACT
Found at i:88370826 original size:79 final size:78
Alignment explanation
Indices: 88370609--88370828 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 78
88370599 TATTCGGATG
*
88370609 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-TCCGGCTAAGTCCCGAAGGCAT
*
88370674 TTGTGCGAGTTACT
65 TGGTGCGAGTTACT
** * *
88370688 A-ATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATCC-GGCTAAGTCCCGAAGGCA
88370752 TTGGTGCGAGTTACT
64 TTGGTGCGAGTTACT
* * * * *
88370767 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA-ATCCGGCTAAGTCCCGAAGG
88370829 TACGTGATTT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 35 0.29
79 54 0.45
80 32 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCGGCTAAGTCCCGAAGGCATT
GGTGCGAGTTACT
Found at i:88377929 original size:40 final size:40
Alignment explanation
Indices: 88377767--88377922 Score: 235
Period size: 40 Copynumber: 3.9 Consensus size: 40
88377757 TATTCGGATG
88377767 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
88377807 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
88377847 A-AATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
88377887 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88377923 AGCTATATCC
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:88381918 original size:46 final size:46
Alignment explanation
Indices: 88381850--88382019 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 46
88381840 TGTAACCCGC
* * * *
88381850 CCATAAGTGAACTTGGAATCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
88381896 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * **
88381942 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
88381989 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
88382020 TTCGATGCCC
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 65 0.65
47 35 0.35
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:88394873 original size:46 final size:44
Alignment explanation
Indices: 88394783--88394954 Score: 134
Period size: 46 Copynumber: 3.8 Consensus size: 44
88394773 ATTGAGACGA
* * * *
88394783 GAGCTAGTGTAAGACATGTCTGGGGCATGCATCATCCTCGAGAT
1 GAGCTAGTGTAAGACATGTTTGGGACATGCATCATACTCAAGAT
*
88394827 GCAAGCTAGTGTAAGACATGTTTGGGATATGCATCA-ACTACAAGAT
1 G--AGCTAGTGTAAGACATGTTTGGGACATGCATCATACT-CAAGAT
* * * *
88394873 GTG-TCAGTGTAAGACCATGTTTGGGACATGGCATC-GACTTGATGGAT
1 GAGCT-AGTGTAAGA-CATGTTTGGGACAT-GCATCATAC-TCA-AGAT
* *
88394920 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATC
88394955 GATATTATAT
Statistics
Matches: 106, Mismatches: 12, Indels: 17
0.79 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 15 0.14
46 44 0.42
47 35 0.33
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTTTGGGACATGCATCATACTCAAGAT
Found at i:88394934 original size:47 final size:46
Alignment explanation
Indices: 88394735--88394956 Score: 170
Period size: 47 Copynumber: 4.8 Consensus size: 46
88394725 CACATTGTGA
* * * *
88394735 GAGCCAGTGTAAAACCATGTTTGGGACATGCCATTGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGAC-TTGAG--GAT
* * * *
88394783 GAGCTAGTGTAAGA-CATGTCTGGGGCAT-GCATC-ATCCTCGA-GAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGA--CTTGAGGAT
* * * ** *
88394827 GCAAGCTAGTGTAAGA-CATGTTTGGGATAT-GCATCAACTACAAGAT
1 G--AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGGAT
* *
88394873 GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGA-GGAT
*
88394920 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGA
88394957 TATTATATTC
Statistics
Matches: 140, Mismatches: 24, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 11 0.08
45 16 0.11
46 48 0.34
47 51 0.36
48 12 0.09
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGGAT
Found at i:88399073 original size:29 final size:29
Alignment explanation
Indices: 88399039--88399141 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
88399029 TAATCAGCCG
** *
88399039 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
88399068 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
88399097 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
88399126 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
88399142 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:88407157 original size:29 final size:29
Alignment explanation
Indices: 88407123--88407225 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
88407113 TAATCAGCCG
** *
88407123 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
88407152 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
88407181 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
88407210 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
88407226 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:88413839 original size:29 final size:29
Alignment explanation
Indices: 88413805--88413907 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
88413795 TAATCAGCCG
** *
88413805 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
88413834 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
88413863 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
88413892 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
88413908 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:88421915 original size:29 final size:29
Alignment explanation
Indices: 88421881--88421983 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
88421871 TAATCAGCCG
** *
88421881 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
88421910 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
88421939 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
88421968 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
88421984 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:88424158 original size:40 final size:40
Alignment explanation
Indices: 88424042--88424257 Score: 298
Period size: 39 Copynumber: 5.5 Consensus size: 40
88424032 CGGATGATAA
* *
88424042 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
88424082 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
88424121 CCGGGCTAAGTCCCGAAGGCATTTGTGATAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
88424161 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
88424200 ACGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
88424240 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
88424258 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 84 0.52
40 74 0.46
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88424238 original size:79 final size:79
Alignment explanation
Indices: 88424038--88424257 Score: 297
Period size: 79 Copynumber: 2.8 Consensus size: 79
88424028 TATCCGGATG
88424038 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGT-CCGAAGG
1 ATAA-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGG
88424100 CATTTGTGCGAGTGACT
63 CATTTGTGCGAGTGACT
* * *
88424117 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGATAGTTA-CTATATCCGGGCTAGGTCCCGAAGGC
1 ATA-ACGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAGCTATATCCGGGCTAAGTCCCGAAGGC
*
88424181 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTGACT
* * *
88424197 ATAACGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGCTAAGTCCCGAAGG
88424258 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 16 0.13
79 81 0.65
80 28 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTGACT
Found at i:88429107 original size:5 final size:5
Alignment explanation
Indices: 88429091--88429121 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
88429081 TCTTTCTTAC
88429091 ATTTT CATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT
88429122 GAGTCTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:88438042 original size:40 final size:39
Alignment explanation
Indices: 88437874--88438044 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
88437864 AGAAATTGAA
* *
88437874 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
88437914 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
88437954 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
88437994 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
88438034 TGATATCCGGG
1 TGATATCCGGG
88438045 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:88443298 original size:27 final size:27
Alignment explanation
Indices: 88443214--88443367 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
88443204 GACGAGAATG
* * *
88443214 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
88443243 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
88443272 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
* **
88443299 GCACCAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
88443327 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
88443354 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
88443368 GATTCACTAT
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
27 42 0.40
28 22 0.21
29 40 0.38
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:88443335 original size:55 final size:55
Alignment explanation
Indices: 88443264--88443367 Score: 199
Period size: 55 Copynumber: 1.9 Consensus size: 55
88443254 GCGAGCTCAA
88443264 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACCAAGTGTGCGAATTTG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACCAAGTGTGCGAATTTG
*
88443319 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACCAAGTGTGCG
88443368 GATTCACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (55 bp):
ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACCAAGTGTGCGAATTTG
Found at i:88456689 original size:17 final size:16
Alignment explanation
Indices: 88456664--88456699 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
88456654 ATGGTATATT
88456664 TTGACCATGAATATGAA
1 TTGACCATGAAT-TGAA
*
88456681 TTGAGCATGAATTGAA
1 TTGACCATGAATTGAA
88456697 TTG
1 TTG
88456700 GTAGTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.33
Consensus pattern (16 bp):
TTGACCATGAATTGAA
Found at i:88457870 original size:67 final size:61
Alignment explanation
Indices: 88457759--88457943 Score: 196
Period size: 61 Copynumber: 2.9 Consensus size: 61
88457749 CTTGTATATA
* *
88457759 GTCTTACACCTCATACCCCATGTGTT-ATGTCCTGGTGGAGTCTATTGGTTACCATAGTAGAGCT
1 GTCTTACACCTCATACCCCATGT-TTAATGT-CTGGTGGACTCTATTGGTTGCCATAGT-----T
88457823 ATG
59 ATG
* * *
88457826 G-CTTTACACCTTATACCCCATGTTTAATATCTTGGTGGACTCTATTTGTTGCCATA-TTATG
1 GTC-TTACACCTCATACCCCATGTTTAATGTC-TGGTGGACTCTATTGGTTGCCATAGTTATG
**
88457887 GTCTTACACCTCATACCCCATGTTTAATGTACAAGTGGACTCTATTGGTTGCCATAG
1 GTCTTACACCTCATACCCCATGTTTAATGT-CTGGTGGACTCTATTGGTTGCCATAG
88457944 CCAAGCTATA
Statistics
Matches: 102, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
61 51 0.50
62 2 0.02
66 5 0.05
67 44 0.43
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (61 bp):
GTCTTACACCTCATACCCCATGTTTAATGTCTGGTGGACTCTATTGGTTGCCATAGTTATG
Found at i:88457925 original size:61 final size:62
Alignment explanation
Indices: 88457752--88457971 Score: 205
Period size: 67 Copynumber: 3.4 Consensus size: 62
88457742 CGGTTTCCTT
* * *
88457752 GTATATAGTCTTACACCTCATACCCCATGTGTT-ATGTCCTGGTGGAGTCTATTGGTTACCATA
1 GTATATGGTCTTACACCTCATACCCCATGT-TTAATGT-CTGGTGGACTCTATTGGTTGCCATA
* * *
88457815 GTAGAGCTATGG-CTTTACACCTTATACCCCATGTTTAATATCTTGGTGGACTCTATTTGTTGCC
1 GT--A--TATGGTC-TTACACCTCATACCCCATGTTTAATGTC-TGGTGGACTCTATTGGTTGCC
88457879 ATA
60 ATA
**
88457882 -T-TATGGTCTTACACCTCATACCCCATGTTTAATGTACAAGTGGACTCTATTGGTTGCCATA
1 GTATATGGTCTTACACCTCATACCCCATGTTTAATGT-CTGGTGGACTCTATTGGTTGCCATA
* *
88457943 GCCAAGCTATAGTCTTACACCTCATACCC
1 G--TA--TATGGTCTTACACCTCATACCC
88457972 TATTACAGGC
Statistics
Matches: 129, Mismatches: 13, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
61 51 0.40
62 2 0.02
63 2 0.02
65 1 0.01
66 5 0.04
67 68 0.53
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (62 bp):
GTATATGGTCTTACACCTCATACCCCATGTTTAATGTCTGGTGGACTCTATTGGTTGCCATA
Found at i:88467563 original size:13 final size:13
Alignment explanation
Indices: 88467545--88467570 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88467535 AGAGGACGAC
88467545 GCACACGGGCGTG
1 GCACACGGGCGTG
88467558 GCACACGGGCGTG
1 GCACACGGGCGTG
88467571 TCCCTGCCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.46, T:0.08
Consensus pattern (13 bp):
GCACACGGGCGTG
Found at i:88471226 original size:46 final size:46
Alignment explanation
Indices: 88471174--88471264 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
88471164 TATATATACA
* * *
88471174 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
88471220 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
88471265 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:88471309 original size:47 final size:47
Alignment explanation
Indices: 88471278--88471663 Score: 529
Period size: 47 Copynumber: 8.2 Consensus size: 47
88471268 CACTTCCACG
* *
88471278 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCTTGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
88471325 TTTATCACATTGGCCATACGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
88471372 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
88471419 TTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
88471466 TTCATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * * *
88471513 TTCATCACATTTGCCATTGGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
** * * *
88471560 TTCATCACATTTTCCATTCGGCCTTAGCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * * **
88471607 TTCATCACATTTGCCATTCGGCCTTAGCTCATATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
88471654 TCCATCACAT
1 TTCATCACAT
88471664 AAAATCCTAA
Statistics
Matches: 310, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 310 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:88471449 original size:22 final size:22
Alignment explanation
Indices: 88471375--88471450 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
88471365 GTTCATATTC
88471375 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
88471397 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
88471421 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
88471444 ATCACAT
1 ATCACAT
88471451 ATATACATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 13 0.32
23 11 0.27
24 11 0.27
25 6 0.15
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:88471568 original size:23 final size:23
Alignment explanation
Indices: 88471495--88471568 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
88471485 GGTCTTATCA
88471495 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
** **
88471518 CACATTTGCCATTGGGC-C-TTAGCA-
1 CACAAATG-CA-TGTTCACATT--CAT
88471542 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
88471565 CACA
1 CACA
88471569 TTTTCCATTC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 11 0.31
25 5 0.14
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (23 bp):
CACAAATGCATGTTCACATTCAT
Found at i:88475424 original size:46 final size:46
Alignment explanation
Indices: 88475357--88475526 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 46
88475347 TGTAACCCGC
*
88475357 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGCTCGCAT
* * *
88475403 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GCGCTCGCAT
* *** * *
88475449 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGAGCGCTCGCAT
88475496 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
88475527 TTCGGATGCC
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 33 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGCTCGCAT
Found at i:88475477 original size:93 final size:93
Alignment explanation
Indices: 88475365--88475536 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
88475355 GCCCATAAGT
* * *
88475365 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
88475430 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
88475458 GAACTCGGACTCAACTCAACGAGTTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88475523 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
88475537 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88475551 original size:46 final size:45
Alignment explanation
Indices: 88475408--88475551 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
88475398 CGCATCCATA
* * * *
88475408 AGTGAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
88475456 --TCGAACTCGGACTCAACTCAACGAGTTCGAACGCTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
88475501 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
88475547 AGTGA
1 AGTGA
88475552 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
43 4 0.05
46 37 0.50
47 29 0.39
48 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:88478570 original size:7 final size:7
Alignment explanation
Indices: 88478558--88478596 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
88478548 TTCAAACTAC
88478558 TTTTTAT
1 TTTTTAT
88478565 TTTTTAT
1 TTTTTAT
88478572 TTTTTA-
1 TTTTTAT
88478578 TTTTTA-
1 TTTTTAT
88478584 TTTTTAT
1 TTTTTAT
88478591 TTTTTA
1 TTTTTA
88478597 GCATATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:88478574 original size:6 final size:6
Alignment explanation
Indices: 88478558--88478594 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
88478548 TTCAAACTAC
88478558 TTTTTA TTTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
88478595 TAGCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:88478581 original size:13 final size:13
Alignment explanation
Indices: 88478558--88478596 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
88478548 TTCAAACTAC
88478558 TTTTTATTTTTTA
1 TTTTTATTTTTTA
88478571 TTTTT-TATTTTTA
1 TTTTTAT-TTTTTA
88478584 TTTTTATTTTTTA
1 TTTTTATTTTTTA
88478597 GCATATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:88490664 original size:28 final size:28
Alignment explanation
Indices: 88490597--88490697 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
88490587 GACAAGATTG
* * * *
88490597 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
*
88490627 GCACTCAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
88490655 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
88490684 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
88490698 GATTCACTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.05
28 23 0.37
29 19 0.31
30 17 0.27
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:88490690 original size:29 final size:28
Alignment explanation
Indices: 88490626--88490697 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
88490616 AAAATTGTAC
* *
88490626 AGCACTCAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
88490654 AGCACTAAGTGTGCGAG-TTGAATACATAT
1 AGCACTAAGTGTGCGAGTTTG-AT-CATAT
88490683 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
88490698 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.08
28 18 0.45
29 19 0.47
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:88497556 original size:29 final size:29
Alignment explanation
Indices: 88497517--88497595 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
88497507 CTTAATAATC
*
88497517 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
88497547 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
88497576 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
88497596 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:88505200 original size:16 final size:16
Alignment explanation
Indices: 88505175--88505212 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
88505165 GTAGATTGGC
*
88505175 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATACCG
*
88505191 AAAAGTCAAAATACCG
1 AAAAGCCAAAATACCG
88505207 AAAAGC
1 AAAAGC
88505213 TGAAAGTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.55, C:0.21, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATACCG
Found at i:88505472 original size:28 final size:28
Alignment explanation
Indices: 88505440--88505570 Score: 124
Period size: 28 Copynumber: 4.6 Consensus size: 28
88505430 TATGATGTGA
*
88505440 ATTGGGCCGGATGGGCCATATAAATGAG
1 ATTGGGCCTGATGGGCCATATAAATGAG
* * * * *
88505468 ATTGGGCCTAATAGGACATATGAATGTAA
1 ATTGGGCCTGATGGGCCATATAAATG-AG
*
88505497 ATTGGGCCTGAT-GGCCATATGAACGTGA-
1 ATTGGGCCTGATGGGCCATAT-AA-ATGAG
* *
88505525 ATTGGGTCAGATGGGCCATATAAATGAG
1 ATTGGGCCTGATGGGCCATATAAATGAG
88505553 ATTGGGCCT-AGTGGGCCA
1 ATTGGGCCTGA-TGGGCCA
88505571 CATGCAGGTA
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
27 4 0.05
28 54 0.66
29 22 0.27
30 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (28 bp):
ATTGGGCCTGATGGGCCATATAAATGAG
Found at i:88506920 original size:14 final size:14
Alignment explanation
Indices: 88506897--88506926 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88506887 TGTATTCATG
*
88506897 ATGTTTATAAGTTT
1 ATGTTAATAAGTTT
88506911 ATGTTAATAAGTTT
1 ATGTTAATAAGTTT
88506925 AT
1 AT
88506927 TTGTATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
ATGTTAATAAGTTT
Found at i:88507238 original size:232 final size:232
Alignment explanation
Indices: 88506832--88507281 Score: 830
Period size: 232 Copynumber: 1.9 Consensus size: 232
88506822 TTCGAGAACA
*
88506832 TATGAATTATAGGTAAATCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
1 TATGAATTATAGGTAAACCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
*
88506897 ATGTTTATAAGTTTATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
66 ATGTTTATAAGTATATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
88506962 CTATGTATATTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTC-AGGGATCGTCGAGGAT
131 CTATGTATATTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTCGA-GGATCGTCGAGGAT
88507026 CATCACCACACTATCGAACCTTATAATTCATATGTTAG
195 CATCACCACACTATCGAACCTTATAATTCATATGTTAG
*
88507064 TATGAATTATAGGTAAACCATGTGATATATGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
1 TATGAATTATAGGTAAACCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
*
88507129 ATGTTTATAAGTATATGTTGATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
66 ATGTTTATAAGTATATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
*
88507194 CTATGTATGTTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTCGAGGATCGTCGAGGATC
131 CTATGTATATTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTCGAGGATCGTCGAGGATC
*
88507259 ATCACCACACTATTGAACCTTAT
196 ATCACCACACTATCGAACCTTAT
88507282 TTTGGTACTT
Statistics
Matches: 211, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
232 210 1.00
233 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (232 bp):
TATGAATTATAGGTAAACCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
ATGTTTATAAGTATATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
CTATGTATATTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTCGAGGATCGTCGAGGATC
ATCACCACACTATCGAACCTTATAATTCATATGTTAG
Found at i:88507399 original size:34 final size:34
Alignment explanation
Indices: 88507361--88507429 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
88507351 TTGTGATGTA
88507361 TATATTTAGCCATGTGATATGGCTAGTTTGTTTT
1 TATATTTAGCCATGTGATATGGCTAGTTTGTTTT
88507395 TATATTTAGCCATGTGATATGGCTAGTTTGTTTT
1 TATATTTAGCCATGTGATATGGCTAGTTTGTTTT
88507429 T
1 T
88507430 GAACTTATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.51
Consensus pattern (34 bp):
TATATTTAGCCATGTGATATGGCTAGTTTGTTTT
Found at i:88507825 original size:21 final size:22
Alignment explanation
Indices: 88507799--88507839 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
88507789 GACACGAGCG
*
88507799 TGTGTCTC-AGCCGTGTGTGCC
1 TGTGTCTCTACCCGTGTGTGCC
88507820 TGTGTCTCTACCCGTGTGTG
1 TGTGTCTCTACCCGTGTGTG
88507840 ACACACGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.05, C:0.27, G:0.32, T:0.37
Consensus pattern (22 bp):
TGTGTCTCTACCCGTGTGTGCC
Found at i:88508133 original size:21 final size:21
Alignment explanation
Indices: 88508092--88508134 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
88508082 ATACTTCTTT
*
88508092 GAAAAATGTTTTAAGTTTTTG
1 GAAAAATGTTTTAAGTGTTTG
*
88508113 GAAAAAT-TTTGTACGTGTTTG
1 GAAAAATGTTT-TAAGTGTTTG
88508134 G
1 G
88508135 TTTAGTCCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.44
Consensus pattern (21 bp):
GAAAAATGTTTTAAGTGTTTG
Found at i:88510317 original size:40 final size:41
Alignment explanation
Indices: 88510226--88510335 Score: 138
Period size: 40 Copynumber: 2.7 Consensus size: 41
88510216 ATAACCACGT
* *
88510226 GCACGAATGCCTTTGGGTCTTAGCCCGGA-TAGAACGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
*
88510266 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-CCG-CTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTA
*
88510306 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
88510336 ATAATTTCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
39 2 0.03
40 56 0.89
41 2 0.03
42 3 0.05
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (41 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTA
Found at i:88513425 original size:26 final size:26
Alignment explanation
Indices: 88513395--88513481 Score: 106
Period size: 26 Copynumber: 3.3 Consensus size: 26
88513385 AGCTATGACT
88513395 AGTAAGCTCCTCCTTAGCTGATAGAC
1 AGTAAGCTCCTCCTTAGCTGATAGAC
* *
88513421 AGTAAGCTCCTCCTGAGCTGATGGAC
1 AGTAAGCTCCTCCTTAGCTGATAGAC
* *
88513447 AGTAAGCT-CT-ATTGAGCTGATATATC
1 AGTAAGCTCCTCCTT-AGCTGATAGA-C
88513473 AGTAAGCTC
1 AGTAAGCTC
88513482 ATACGAGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
24 1 0.02
25 10 0.19
26 41 0.79
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGTAAGCTCCTCCTTAGCTGATAGAC
Found at i:88513489 original size:26 final size:24
Alignment explanation
Indices: 88513410--88513491 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 24
88513400 GCTCCTCCTT
*
88513410 AGCTGATAGACAGTAAGCTCCTCCTG
1 AGCTGATAGACAGTAAGCT-CTAC-G
* *
88513436 AGCTGATGGACAGTAAGCTCTATTG
1 AGCTGATAGACAGTAAGCTCTA-CG
*
88513461 AGCTGATATATCAGTAAGCTCATACG
1 AGCTGATAGA-CAGTAAGCTC-TACG
88513487 AGCTG
1 AGCTG
88513492 TGGTGAGTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 11 0.23
26 34 0.72
27 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AGCTGATAGACAGTAAGCTCTACG
Found at i:88518878 original size:8 final size:8
Alignment explanation
Indices: 88518860--88518895 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
88518850 TGACAAAAGA
88518860 AAAATGCCG
1 AAAA-GCCG
88518869 AAAAGCCG
1 AAAAGCCG
*
88518877 AAATGCCG
1 AAAAGCCG
88518885 AAAAGCCG
1 AAAAGCCG
88518893 AAA
1 AAA
88518896 GTTTGGCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:88518882 original size:16 final size:16
Alignment explanation
Indices: 88518861--88518895 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
88518851 GACAAAAGAA
88518861 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
88518877 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
88518893 AAA
1 AAA
88518896 GTTTGGCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.23, G:0.23, T:0.06
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:88519147 original size:29 final size:28
Alignment explanation
Indices: 88519106--88519166 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
88519096 GTGAGCATGA
88519106 ATATAAGGTGATTTGGGCCTAACGGGCC
1 ATATAAGGTGATTTGGGCCTAACGGGCC
*
88519134 ATATCAAGGTGATTTGGGCCTAATGGGCC
1 ATAT-AAGGTGATTTGGGCCTAACGGGCC
88519163 ATAT
1 ATAT
88519167 GAATATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCCTAACGGGCC
Found at i:88519179 original size:29 final size:29
Alignment explanation
Indices: 88519118--88519199 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
88519108 ATAAGGTGAT
* * ** *
88519118 TTGGGCCTAACGGGCCATATCAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
88519147 TTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
88519176 TTGGGCCTGATAGTCCATATGAAT
1 TTGGGCCTAATGGGCCATATGAAT
88519200 GAGATGGGCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:88525896 original size:16 final size:17
Alignment explanation
Indices: 88525877--88525912 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
88525867 GTAACGCCTT
88525877 AAAAATCCCGAAACC-C
1 AAAAATCCCGAAACCTC
*
88525893 AAAAATCCTGAAACCTC
1 AAAAATCCCGAAACCTC
88525910 AAA
1 AAA
88525913 CTTTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.53, C:0.31, G:0.06, T:0.11
Consensus pattern (17 bp):
AAAAATCCCGAAACCTC
Found at i:88526493 original size:33 final size:33
Alignment explanation
Indices: 88526456--88526529 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
88526446 CTTGCTACCG
88526456 AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
1 AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
* **
88526489 AAAACCCTATTCTCTTCAAGATCTAAAAAGCTG
1 AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
88526522 AAAACCCT
1 AAAACCCT
88526530 TGCTTCCTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (33 bp):
AAAACCCTATTCTCTTCAAGATCCAAAAAGCCA
Found at i:88527501 original size:58 final size:57
Alignment explanation
Indices: 88527433--88527543 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 57
88527423 TGAATGTGAC
* *
88527433 TGGGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAAATACAGGTGATT
* **
88527491 TGGGCCTAATGGGCCATATGAATATGATTGGGTTTAATGGGCCAAATACAGGT
1 TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAAATACAGGT
88527544 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 23 0.48
58 25 0.52
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (57 bp):
TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:88527530 original size:28 final size:29
Alignment explanation
Indices: 88527420--88527534 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
88527410 GTAAGCACGA
*
88527420 ATATGAATGTGA-CTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
88527448 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
88527477 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* **
88527506 ATATGAATATGA-TTGGGTTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
88527534 A
1 A
88527535 AATACAGGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 27 0.35
29 49 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:88532027 original size:58 final size:57
Alignment explanation
Indices: 88531955--88532065 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
88531945 TGAATGTGAC
* *
88531955 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATGGGCCAAATACAGGTGATT
* * *
88532013 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAAATACAGGT
88532066 ATGTGAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.50
58 24 0.50
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:88532052 original size:28 final size:29
Alignment explanation
Indices: 88531942--88532056 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
88531932 GTAAGCATGA
* *
88531942 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
88531970 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
88531999 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
88532028 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
88532056 A
1 A
88532057 AATACAGGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 28 0.36
29 48 0.62
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:88537583 original size:33 final size:33
Alignment explanation
Indices: 88537537--88537603 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
88537527 ATTTGAAAAG
88537537 TTATCAAAGTATGAAAATTTTTCCATGGATGAA
1 TTATCAAAGTATGAAAATTTTTCCATGGATGAA
*
88537570 TTATCAAATTATGAAAATTTTTCCATGGATGAA
1 TTATCAAAGTATGAAAATTTTTCCATGGATGAA
88537603 T
1 T
88537604 ATGCTGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (33 bp):
TTATCAAAGTATGAAAATTTTTCCATGGATGAA
Found at i:88545007 original size:15 final size:17
Alignment explanation
Indices: 88544989--88545020 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
88544979 TAGCATAATT
88544989 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
88545004 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
88545021 CAAGTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:88547578 original size:15 final size:15
Alignment explanation
Indices: 88547558--88547588 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88547548 CACAACATCT
88547558 GCAACAATTATTATG
1 GCAACAATTATTATG
*
88547573 GCAACAATTGTTATG
1 GCAACAATTATTATG
88547588 G
1 G
88547589 TAACTCTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (15 bp):
GCAACAATTATTATG
Found at i:88551310 original size:43 final size:42
Alignment explanation
Indices: 88551262--88551442 Score: 127
Period size: 44 Copynumber: 4.2 Consensus size: 42
88551252 TTTCAGACGT
**
88551262 GGTCTTACATGTAATCAAATATTC-ATGCCATTGTCCTAGACAA
1 GGTCTTACATGTAATCAAATA--CGATGCCAACGTCCTAGACAA
* * **
88551305 GGTCTTACATGAAATTAAATACGATGCCAACGTCCTAGACGT
1 GGTCTTACATGTAATCAAATACGATGCCAACGTCCTAGACAA
* * * * * *
88551347 GGTCTTACACGTAAATTATAAGT-CGATGCCAACATCCCAAACAT
1 GGTCTTACATGT-AATCA-AA-TACGATGCCAACGTCCTAGACAA
* **
88551391 GGTCTTACATGTAAATCATAAGT-CGATG-CAACGTCGTAGACGT
1 GGTCTTACATGT-AATCA-AA-TACGATGCCAACGTCCTAGACAA
88551434 GGTCTTACA
1 GGTCTTACA
88551443 CAAAAACACA
Statistics
Matches: 115, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 25 0.22
43 43 0.37
44 45 0.39
45 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCCAACGTCCTAGACAA
Found at i:88551394 original size:44 final size:44
Alignment explanation
Indices: 88551305--88551419 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
88551295 TCCTAGACAA
* * * *
88551305 GGTCTTACATG-AAATTA-AA-TACGATGCCAACGTCCTAGACGT
1 GGTCTTACATGTAAATTATAAGT-CGATGCCAACATCCCAAACAT
*
88551347 GGTCTTACACGTAAATTATAAGTCGATGCCAACATCCCAAACAT
1 GGTCTTACATGTAAATTATAAGTCGATGCCAACATCCCAAACAT
*
88551391 GGTCTTACATGTAAATCATAAGTCGATGC
1 GGTCTTACATGTAAATTATAAGTCGATGC
88551420 AACGTCGTAG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
42 10 0.16
43 6 0.10
44 46 0.73
45 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (44 bp):
GGTCTTACATGTAAATTATAAGTCGATGCCAACATCCCAAACAT
Found at i:88555112 original size:21 final size:21
Alignment explanation
Indices: 88555088--88555135 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
88555078 GTTGAGAACA
* *
88555088 AAGTTGTTGCTGTAGAAGAGG
1 AAGTTGTTGCTGAAGAAGAAG
88555109 AAGTTGTTGCTGAAGAAGAAG
1 AAGTTGTTGCTGAAGAAGAAG
88555130 AAGTTG
1 AAGTTG
88555136 CTGAAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.35, T:0.27
Consensus pattern (21 bp):
AAGTTGTTGCTGAAGAAGAAG
Found at i:88555123 original size:18 final size:18
Alignment explanation
Indices: 88555088--88555142 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
88555078 GTTGAGAACA
*
88555088 AAGTTGTTGCTGTAGAAGAGG
1 AAGTTGTTGC--T-GAAGAAG
88555109 AAGTTGTTGCTGAAGAAG
1 AAGTTGTTGCTGAAGAAG
**
88555127 AAGAAGTTGCTGAAGA
1 AAGTTGTTGCTGAAGA
88555143 TGAAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.65
19 1 0.03
21 10 0.32
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.25
Consensus pattern (18 bp):
AAGTTGTTGCTGAAGAAG
Found at i:88558413 original size:64 final size:64
Alignment explanation
Indices: 88558338--88558458 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
88558328 CATTAATTAG
* * *
88558338 ATATGTACTTACCATACA-TGCAATATTAAATCATTTAAAATATG-GTACATATTGCATAATTTG
1 ATATGAACTTACCATACACT-CAATATTAAAGCATTAAAAATA-GAGTACATATTGCATAATTTG
88558401 C
64 C
*
88558402 ATATGAACTTACCATACACTCAATATTTAAGCATTAAAAATAGAGTACATATTGCAT
1 ATATGAACTTACCATACACTCAATATTAAAGCATTAAAAATAGAGTACATATTGCAT
88558459 TCCTCACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.02
64 49 0.96
65 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (64 bp):
ATATGAACTTACCATACACTCAATATTAAAGCATTAAAAATAGAGTACATATTGCATAATTTGC
Found at i:88558474 original size:64 final size:64
Alignment explanation
Indices: 88558344--88558478 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 64
88558334 TTAGATATGT
* * * ** *
88558344 ACTTACCATACATGCAATATTAAATCATTTAAAATATGGTACATATTGCATAATTTGCATATGA
1 ACTTACCATACATGCAATATTAAAGCATTAAAAATATGGTACATATTGCATAACTCACATACGA
* **
88558408 ACTTACCATACACT-CAATATTTAAGCATTAAAAATA-GAGTACATATTGCATTCCTCACATACG
1 ACTTACCATACA-TGCAATATTAAAGCATTAAAAATATG-GTACATATTGCATAACTCACATACG
88558471 A
64 A
88558472 ACTTACC
1 ACTTACC
88558479 TCGATACCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
63 1 0.02
64 58 0.97
65 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (64 bp):
ACTTACCATACATGCAATATTAAAGCATTAAAAATATGGTACATATTGCATAACTCACATACGA
Found at i:88562497 original size:43 final size:42
Alignment explanation
Indices: 88562436--88562544 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
88562426 AATGCCAACA
*
88562436 TCCCAGAC-GTGGTTTTACATGTAATCAAATATCGATGCT-ACTG
1 TCCCAGACAG-GGTCTTACATGTAATCAAATA-CGATGCTGA-TG
* * * *
88562479 TCCCAGACAGGGTCTTACACGAAATTAAATACGATGTTGATG
1 TCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTGATG
*
88562521 TCCCAGACATGGTCTTACATGTAA
1 TCCCAGACAGGGTCTTACATGTAA
88562545 ATCATAAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 29 0.52
43 26 0.46
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (42 bp):
TCCCAGACAGGGTCTTACATGTAATCAAATACGATGCTGATG
Found at i:88563803 original size:15 final size:15
Alignment explanation
Indices: 88563783--88563814 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
88563773 ATAATATTAA
88563783 AATATTTTTAACTCG
1 AATATTTTTAACTCG
88563798 AATATTTTTAACTCG
1 AATATTTTTAACTCG
88563813 AA
1 AA
88563815 CTTGTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
AATATTTTTAACTCG
Found at i:88565939 original size:42 final size:41
Alignment explanation
Indices: 88565875--88566030 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 41
88565865 ACTGAGATTA
*
88565875 CGTGTAAGACCATATCTAGGATATGGCATCGATATGATAATT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGA-AATT
* * *
88565917 CGTGTAAGACCATATCTGGGATATGGCATTGATATTAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGA-AATT
* * *
88565959 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATT
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAAATT
*
88566001 ACATGTAAGACCATATCTGGGATATGGCAT
1 -CGTGTAAGACCATATCTGGGATATGGCAT
88566031 GGTATGGTAC
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 66 0.67
43 32 0.33
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAAATT
Found at i:88566017 original size:85 final size:84
Alignment explanation
Indices: 88565875--88566030 Score: 242
Period size: 85 Copynumber: 1.8 Consensus size: 84
88565865 ACTGAGATTA
* *
88565875 CGTGTAAGACCATATCTAGGATATGGCATCGATATGATAATTCGTGTAAGACCATATCTGGGATA
1 CGTGTAAGACCATAGCTAGGATATGGCATCGATATGATAATTCATGTAAGACCATATCTGGGATA
88565940 TGGCATTGATATTAGACTT
66 TGGCATTGATATTAGACTT
* * *
88565959 CGTGTAAGACCATAGCTGGGCTATTGGCATCGATATGA-GATTACATGTAAGACCATATCTGGGA
1 CGTGTAAGACCATAGCTAGGATA-TGGCATCGATATGATAATT-CATGTAAGACCATATCTGGGA
88566023 TATGGCAT
64 TATGGCAT
88566031 GGTATGGTAC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 23 0.35
85 42 0.65
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (84 bp):
CGTGTAAGACCATAGCTAGGATATGGCATCGATATGATAATTCATGTAAGACCATATCTGGGATA
TGGCATTGATATTAGACTT
Found at i:88568840 original size:40 final size:41
Alignment explanation
Indices: 88568780--88568914 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 41
88568770 GATATCCAGG
* *
88568780 CTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTACGTCC-GA
1 CTAAGTCCCGAAGGCATTTGTGCTAAGCGACTACATCCGGA
* *
88568820 CTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTACATCCGGA
* * * * *
88568860 CTAAGTCCCGAAGGCATTTATGCT-AGTGACCATATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCTAAGCGACTACATCCGGA
*
88568900 CTAAGACCCGAAGGC
1 CTAAGTCCCGAAGGC
88568915 CTTGTGCGAG
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 12 0.14
40 71 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (41 bp):
CTAAGTCCCGAAGGCATTTGTGCTAAGCGACTACATCCGGA
Found at i:88571272 original size:2 final size:2
Alignment explanation
Indices: 88571267--88571292 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88571257 TTTTCTTTTA
88571267 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
88571293 GTGTCGTATG
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:88572368 original size:29 final size:29
Alignment explanation
Indices: 88572273--88572358 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 29
88572263 GCGTGACTGC
* *
88572273 AAATGTGTTTTGTGCCTAA-TGGCCATAT
1 AAATGTGATTTGGGCCTAATTGGCCATAT
* *
88572301 AAATGTGATTTGGGCCTAATGGGTCATAT
1 AAATGTGATTTGGGCCTAATTGGCCATAT
*
88572330 AAATGTGATTTGGGCCTCATTGGCCATAT
1 AAATGTGATTTGGGCCTAATTGGCCATAT
88572359 GAAAGAGATT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 17 0.34
29 33 0.66
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (29 bp):
AAATGTGATTTGGGCCTAATTGGCCATAT
Found at i:88572387 original size:57 final size:57
Alignment explanation
Indices: 88572273--88572380 Score: 130
Period size: 57 Copynumber: 1.9 Consensus size: 57
88572263 GCGTGACTGC
* * * *
88572273 AAATGTGTTTTGTGCCTAATGGCCATATAAATGTGATTTGGGCCTAATGGGTCATAT
1 AAATGTGATTTGGGCCTAATGGCCATATAAATGAGATTTAGGCCTAATGGGTCATAT
* *
88572330 AAATGTGATTTGGGCCTCATTGGCCATATGAAA-GAGA-TTAGGCCTAGTGGG
1 AAATGTGATTTGGGCCT-AATGGCCATAT-AAATGAGATTTAGGCCTAATGGG
88572381 CTATATATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
57 27 0.63
58 13 0.30
59 3 0.07
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (57 bp):
AAATGTGATTTGGGCCTAATGGCCATATAAATGAGATTTAGGCCTAATGGGTCATAT
Found at i:88575167 original size:54 final size:54
Alignment explanation
Indices: 88575061--88575371 Score: 326
Period size: 54 Copynumber: 5.8 Consensus size: 54
88575051 TTAGTTTAGG
* *
88575061 AAATTACCAAAATACCCTTGGTTTA-CAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * *
88575114 AAATTACTAGAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * *
88575168 AAATTACCAAAATACCAC-TGGTTTGTACAATTATC-AAATACCCCTAGTTTGT-
1 AAATTACCAAAATACC-CTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* *
88575220 AAATTACCAAAATACCCCTGGTTTATAAAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * * ** * *
88575274 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAG-TTTGTA
*** * ** * *
88575328 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
88575372 TTGATTTATA
Statistics
Matches: 220, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
51 1 0.00
52 31 0.14
53 61 0.28
54 124 0.56
55 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:88575331 original size:81 final size:80
Alignment explanation
Indices: 88575061--88575428 Score: 316
Period size: 81 Copynumber: 4.6 Consensus size: 80
88575051 TTAGTTTAGG
* * * * * *
88575061 AAATTACCAAAATACCCTTGGTTTA-CAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGA
1 AAATTACCAAAATACCCCTGATTTATAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
88575125 ATACCCTTGGTTTAT
66 ATACCCCTGATTTAT
* * * * * * *
88575140 AAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGTTTGTACAATTATC-A
1 -AAATTACCAAAATACCCCTGATTTATAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAA
*
88575204 AATACCCCT-AGTTTGT
65 AATACCCCTGA-TTTAT
* *
88575220 AAATTACCAAAATACCCCTGGTTTATAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGATTTATAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAA
*
88575285 ATACCCCTGATTTGT
66 ATACCCCTGATTTAT
** * * ** **
88575300 GAAATTACTGAAATA-CCCTCGACTTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACC
1 -AAATTACCAAAATACCCCT-GATTTATAAAATTATCAAAATACCCCT-GGTTTGTAAAATTACC
* *
88575363 AAAGTACCCTTGATTTAT
63 AAAATACCCCTGATTTAT
**** * *
88575381 AGAATTACCGTTTTA-CCCTCGATTTACAAAATTATTAAAATACCCCTG
1 A-AATTACCAAAATACCCCT-GATTTATAAAATTATCAAAATACCCCTG
88575429 TAGGGTAGAA
Statistics
Matches: 239, Mismatches: 40, Indels: 17
0.81 0.14 0.06
Matches are distributed among these distances:
79 55 0.23
80 58 0.24
81 122 0.51
82 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGATTTATAAAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAA
ATACCCCTGATTTAT
Found at i:88575386 original size:27 final size:27
Alignment explanation
Indices: 88575061--88575389 Score: 296
Period size: 27 Copynumber: 12.3 Consensus size: 27
88575051 TTAGTTTAGG
* *
88575061 AAATTACCAAAATACCCTTG-GTT-TA
1 AAATTACCAAAATACCCCTGATTTGTA
*
88575086 CAAATTACCAAAATACCCCTGGTTTGTA
1 -AAATTACCAAAATACCCCTGATTTGTA
* * * * *
88575114 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
88575141 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
88575168 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
88575195 CAATTATC-AAATACCCCT-AGTTTGT-
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
88575220 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
88575247 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
88575274 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** *
88575301 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** *
88575328 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * *
88575355 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
88575382 GAATTACC
1 AAATTACC
88575390 GTTTTACCCT
Statistics
Matches: 254, Mismatches: 39, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.02
26 51 0.20
27 191 0.75
28 6 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:88575440 original size:27 final size:27
Alignment explanation
Indices: 88575418--88575820 Score: 513
Period size: 27 Copynumber: 15.0 Consensus size: 27
88575408 AAAATTATTA
*
88575418 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
88575445 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * **
88575472 AAATACCCTTGTAGGGTAGAAATATGG
1 AAATACCCCTGTAGGGTAGAATTACCG
*** * *
88575499 AAATACATTTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
88575526 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
88575553 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
88575580 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
88575607 AAATACCCCTGTAGGATAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
88575634 AAATACCCCTATAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
88575661 AAATACCCCTATA-GGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
88575687 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
88575714 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
88575741 AAATACCCCCGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
88575768 AAATACCCCTGTAGGGTAGAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
88575794 AAGATACCCTTGTGGGGTAAAATTACC
1 AA-ATACCCCTGTAGGGTAGAATTACC
88575821 ATTTTACCCC
Statistics
Matches: 338, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.07
27 314 0.93
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:88576142 original size:27 final size:26
Alignment explanation
Indices: 88576104--88576222 Score: 157
Period size: 27 Copynumber: 4.5 Consensus size: 26
88576094 TATATATATA
* *
88576104 TATCTGTCCTGGTGGCTATGCCACAAT
1 TATCTGTTCTGGTGGCTCTGCCAC-AT
*
88576131 TATCTGATCTGGTGGCTCTGCCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
88576157 ATATCTGTTCTGGTGGCTCTGCCACGAT
1 -TATCTGTTCTGGTGGCTCTGCCAC-AT
* * *
88576185 TATCTGTTCTGGTGACTTTGTCACAT
1 TATCTGTTCTGGTGGCTCTGCCACAT
88576211 TATCTGTTCTGG
1 TATCTGTTCTGG
88576223 CAACCATGCT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
26 16 0.19
27 65 0.78
28 2 0.02
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.39
Consensus pattern (26 bp):
TATCTGTTCTGGTGGCTCTGCCACAT
Done.