Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 288 of 410
Found at i:88682877 original size:16 final size:16
Alignment explanation
Indices: 88682835--88682868 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
88682825 AAGAAATGGT
*
88682835 AAAATAAGAAGTAAATA
1 AAAATAATAA-TAAATA
88682852 AAAATAATAATAAATA
1 AAAATAATAATAAATA
88682868 A
1 A
88682869 TACTAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATAATAATAAATA
Found at i:88685208 original size:53 final size:54
Alignment explanation
Indices: 88685164--88685609 Score: 445
Period size: 53 Copynumber: 8.4 Consensus size: 54
88685154 CATGTCGTGA
*
88685164 CATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCA-CTAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATC-AATGCCATGCCTTGG
* * * **
88685217 CATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTAA
1 CATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGG
* * * *
88685272 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGTCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
* * * ***
88685326 CATGGACTTACATGATATCCTTGTC-T-T---AC-CA--AATGCCATGTTCC-AAA
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGCCATG--CCTTGG
* *
88685373 CATGGTCTTACATGGTATCCTTGTCTTAT-GAACTCAACAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
* *
88685426 CATGGTCTTACATGGTATCCTTGTCTTAT-GAACTCAACAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
* ** * *
88685479 CATGGTCTTACATGG-AACCTTTGAGTTATAGTAACTCATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGG
* * * * *
88685534 CATGGTCTTACATGATTTCTTTGCCTTATAGAACTTATCAATGGCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
*
88685588 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGGTATCCTT
88685610 ATCTTAGTGC
Statistics
Matches: 328, Mismatches: 46, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
46 8 0.02
47 23 0.07
48 4 0.01
49 3 0.01
51 2 0.01
52 10 0.03
53 99 0.30
54 90 0.27
55 85 0.26
56 4 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGG
Found at i:88685430 original size:100 final size:101
Alignment explanation
Indices: 88685163--88685549 Score: 352
Period size: 108 Copynumber: 3.7 Consensus size: 101
88685153 CCATGTCGTG
*
88685163 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTC-ACTAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCAAC-AATGCCATGCCTTGGCATGGTCTTA
* * * * **
88685227 CATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTA
65 CAT--GA---TATCCTTGT-CTTACTCA-CAATGCCATGTCCAA
* * * * * *
88685271 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGTCATGCCTTGGCATGGACTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCAACAATGCCATGCCTTGGCATGGTCTTA
88685336 CATGATATCCTTGTCTTAC-CA-AATGCCATGTTCCAA
65 CATGATATCCTTGTCTTACTCACAATGCCATG-TCCAA
*
88685372 ACATGGTCTTACATGGTATCCTTGTCTTATGAACTCAACAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCAACAATGCCATGCCTTGGCATGGTCTTAC
* **
88685437 ATGGTATCCTTGTCTTATGAACTCAACAATGCCATG-CCTTG
66 ATGATATCCTTGTC-T-T--ACTC-ACAATGCCATGTCC-AA
* * ** * * *
88685478 GCATGGTCTTACATGG-AACCTTTGAGTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCT
1 ACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AACTCAACAATGCCATGCCTTGGCATGGTCT
88685542 TACATGAT
63 TACATGAT
88685550 TTCTTTGCCT
Statistics
Matches: 234, Mismatches: 31, Indels: 28
0.80 0.11 0.10
Matches are distributed among these distances:
100 53 0.23
101 31 0.13
102 3 0.01
103 3 0.01
104 9 0.04
105 6 0.03
106 23 0.10
107 12 0.05
108 62 0.26
109 31 0.13
110 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (101 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCAACAATGCCATGCCTTGGCATGGTCTTAC
ATGATATCCTTGTCTTACTCACAATGCCATGTCCAA
Found at i:88685805 original size:44 final size:44
Alignment explanation
Indices: 88685756--88685839 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
88685746 CCTTAACCAC
* * *
88685756 CAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCTAT
1 CAATTCCTACTTAAATGCCATGGTA-CAACCATGGACTTTTCTAT
* *
88685800 CAATTCTTACTTAATTGCCATGGTACAACCATGGACTTTT
1 CAATTCCTACTTAAATGCCATGGTACAACCATGGACTTTT
88685840 AGATATCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (44 bp):
CAATTCCTACTTAAATGCCATGGTACAACCATGGACTTTTCTAT
Found at i:88687025 original size:21 final size:21
Alignment explanation
Indices: 88686986--88687027 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
88686976 AAATATAATG
88686986 GTCTAATTACTAAATAAGGAC
1 GTCTAATTACTAAATAAGGAC
88687007 GTCTAATTACTAAATAAGGAC
1 GTCTAATTACTAAATAAGGAC
88687028 CTCCACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
GTCTAATTACTAAATAAGGAC
Found at i:88687604 original size:21 final size:21
Alignment explanation
Indices: 88687570--88687622 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
88687560 GCATGTTAAA
*
88687570 TTTATTG-GTAATGTGTTGGT
1 TTTATTGTCTAATGTGTTGGT
88687590 TTTATTGTCTAATGTGTTGGT
1 TTTATTGTCTAATGTGTTGGT
*
88687611 TTTAGTGTCTAA
1 TTTATTGTCTAA
88687623 CATGTTTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.17, C:0.04, G:0.25, T:0.55
Consensus pattern (21 bp):
TTTATTGTCTAATGTGTTGGT
Found at i:88687628 original size:21 final size:21
Alignment explanation
Indices: 88687583--88687628 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
88687573 ATTGGTAATG
* **
88687583 TGTTGGTTTTATTGTCTAATG
1 TGTTGGTTTTAGTGTCTAACA
88687604 TGTTGGTTTTAGTGTCTAACA
1 TGTTGGTTTTAGTGTCTAACA
88687625 TGTT
1 TGTT
88687629 TGAGCATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.07, G:0.24, T:0.54
Consensus pattern (21 bp):
TGTTGGTTTTAGTGTCTAACA
Found at i:88697346 original size:18 final size:18
Alignment explanation
Indices: 88697325--88697363 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
88697315 TCTCTTTTTA
88697325 TTTTTAGCTTTCTTGTTC
1 TTTTTAGCTTTCTTGTTC
* *
88697343 TTTTTCGCTTTCTTTTTC
1 TTTTTAGCTTTCTTGTTC
88697361 TTT
1 TTT
88697364 CATTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.18, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTTAGCTTTCTTGTTC
Found at i:88697668 original size:102 final size:102
Alignment explanation
Indices: 88697488--88697672 Score: 298
Period size: 102 Copynumber: 1.8 Consensus size: 102
88697478 AATACAAATG
* * * *
88697488 ACTCAGAACGGAAAGACTCTTGTTGGGTATGAATGGAATGAATTACATACCAAAAACGATTCGTT
1 ACTCAGAACAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACCAAAAACGATCCGTT
*
88697553 TGAAACTGTGAGACATAGTCTTTCATAACAAACCTCA
66 TGAAACTGCGAGACATAGTCTTTCATAACAAACCTCA
* *
88697590 ACTCAGAACAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACGAAAAATGATCCGTT
1 ACTCAGAACAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACCAAAAACGATCCGTT
*
88697655 TGAATCTGCGAGACATAG
66 TGAAACTGCGAGACATAG
88697673 ACTCTTGTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 75 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (102 bp):
ACTCAGAACAGAAAGACTCTTGTTAGGTATGAATAGAATGAATTACATACCAAAAACGATCCGTT
TGAAACTGCGAGACATAGTCTTTCATAACAAACCTCA
Found at i:88698405 original size:18 final size:18
Alignment explanation
Indices: 88698382--88698416 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
88698372 TGGCCCAATT
88698382 CAGTAACAGTAAACAGTG
1 CAGTAACAGTAAACAGTG
88698400 CAGTAACAGTAAACAGT
1 CAGTAACAGTAAACAGT
88698417 ATGCAAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:88719462 original size:29 final size:29
Alignment explanation
Indices: 88719400--88719502 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
88719390 GTGACAAGAT
* * *
88719400 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
88719429 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
88719458 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
88719487 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
88719503 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:88723907 original size:17 final size:15
Alignment explanation
Indices: 88723877--88723914 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
88723867 TATAACCCTT
88723877 TCATTCCCTCATTCA
1 TCATTCCCTCATTCA
88723892 TCATTCCTCATCATTCA
1 TCATTCC-C-TCATTCA
88723909 TCATTC
1 TCATTC
88723915 TCTCTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 13 0.62
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATTCCCTCATTCA
Found at i:88727620 original size:46 final size:44
Alignment explanation
Indices: 88727561--88727675 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
88727551 ACAGGACAGA
* *
88727561 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
88727607 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
88727651 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
88727676 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:88727656 original size:44 final size:45
Alignment explanation
Indices: 88727561--88727694 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
88727551 ACAGGACAGA
* *
88727561 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
88727607 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
88727651 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
88727695 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:88730228 original size:3 final size:3
Alignment explanation
Indices: 88730220--88730245 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88730210 AAAGAAGGCT
88730220 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
88730246 CACTCAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:88730446 original size:12 final size:12
Alignment explanation
Indices: 88730431--88730459 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
88730421 ATCCACTCTC
88730431 CCTAAAATCACT
1 CCTAAAATCACT
88730443 CCTAAAATCACT
1 CCTAAAATCACT
88730455 CCTAA
1 CCTAA
88730460 GATCGCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (12 bp):
CCTAAAATCACT
Found at i:88743648 original size:6 final size:6
Alignment explanation
Indices: 88743639--88743702 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
88743629 AATAAAATTG
* * *
88743639 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
88743686 AACTAA ATAA-AA AAATA
1 AAATAA A-AATAA AAATA
88743703 GAAGGATTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 7 0.15
6 40 0.83
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:88743698 original size:17 final size:18
Alignment explanation
Indices: 88743620--88743699 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 18
88743610 ATGTCTTTCA
* *
88743620 AAATAAAATAATAAAATTG
1 AAATAAAA-AATAAAAATC
*
88743639 AAAT-GAAAATAAAAATC
1 AAATAAAAAATAAAAATC
*
88743656 AAA-AGAAAAATAAAAATA
1 AAATA-AAAAATAAAAATC
*
88743674 AAAT-AAAAATAAAACT-
1 AAATAAAAAATAAAAATC
88743690 AAATAAAAAA
1 AAATAAAAAA
88743700 ATAGAAGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.08
17 27 0.53
18 16 0.31
19 4 0.08
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (18 bp):
AAATAAAAAATAAAAATC
Found at i:88749082 original size:13 final size:13
Alignment explanation
Indices: 88749064--88749088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88749054 GGTTTGTTTA
88749064 TTAAACTAATTAT
1 TTAAACTAATTAT
88749077 TTAAACTAATTA
1 TTAAACTAATTA
88749089 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:88750498 original size:27 final size:27
Alignment explanation
Indices: 88750447--88750800 Score: 342
Period size: 27 Copynumber: 13.1 Consensus size: 27
88750437 GCCGAAATGG
* *
88750447 TGACCGAAATACCC-CGTATAGTAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
* *
88750473 TGACCGAAATACCCCCATAGAATAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
* *
88750500 TGACTGAAATACCCTCATA-ATGTATAA
1 TGACCGAAATACCCTCATAGA-GTAAAA
*
88750527 TGACCAAAATACCCTCATAGAGTAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
* * *
88750554 TGACTGAAATACCCTAATAAAGTAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
* * *
88750581 TAATCGAAATACCCTCATAGGGTAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
*
88750608 TGACCGAAATACCC-CTATAGGGTAAAA
1 TGACCGAAATACCCTC-ATAGAGTAAAA
** * *
88750635 TGATTGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
*
88750662 TGACCGAAATACCCTCATAAAGTAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
*
88750689 TGACCGAAATACCC-CTATAAAGTAAAA
1 TGACCGAAATACCCTC-ATAGAGTAAAA
* * ** *
88750716 TGACTGTAATACCCTTGTAGGGTAAAA
1 TGACCGAAATACCCTCATAGAGTAAAA
* *
88750743 TGACCGAAATATCCTTATA-AGGTAAAA
1 TGACCGAAATACCCTCATAGA-GTAAAA
* * * *
88750770 TGACTGTAATACCC-CTGTAAAGTAAAA
1 TGACCGAAATACCCTC-ATAGAGTAAAA
88750797 TGAC
1 TGAC
88750801 TGATTTTCCC
Statistics
Matches: 273, Mismatches: 45, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
26 17 0.06
27 253 0.93
28 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (27 bp):
TGACCGAAATACCCTCATAGAGTAAAA
Found at i:88750581 original size:81 final size:81
Alignment explanation
Indices: 88750447--88750803 Score: 407
Period size: 81 Copynumber: 4.4 Consensus size: 81
88750437 GCCGAAATGG
* *
88750447 TGACCGAAATACCCCGTAT--AGTAAAATGACCGAAATACCCCCATAGAA-TAAAATGACTGAAA
1 TGACCGAAATACCCC-TATAGAGTAAAATGACTGAAATACCCCCATA-AAGTAAAATGACCGAAA
* *
88750509 TACCCTCATAATGTATAA
64 TACCCTCATAAGGTAAAA
* ** * *
88750527 TGACCAAAATA-CCCTCATAGAGTAAAATGACTGAAATACCCTAATAAAGTAAAATAATCGAAAT
1 TGACCGAAATACCCCT-ATAGAGTAAAATGACTGAAATACCCCCATAAAGTAAAATGACCGAAAT
*
88750591 ACCCTCATAGGGTAAAA
65 ACCCTCATAAGGTAAAA
* * **
88750608 TGACCGAAATACCCCTATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACCGAAATA
1 TGACCGAAATACCCCTATAGAGTAAAATGACTGAAATACCCCCATAAAGTAAAATGACCGAAATA
*
88750673 CCCTCATAAAGTAAAA
66 CCCTCATAAGGTAAAA
* * *** **
88750689 TGACCGAAATACCCCTATAAAGTAAAATGACTGTAATACCCTTGTAGGGTAAAATGACCGAAATA
1 TGACCGAAATACCCCTATAGAGTAAAATGACTGAAATACCCCCATAAAGTAAAATGACCGAAATA
* *
88750754 TCCTTATAAGGTAAAA
66 CCCTCATAAGGTAAAA
* * * *
88750770 TGACTGTAATACCCCTGTAAAGTAAAATGACTGA
1 TGACCGAAATACCCCTATAGAGTAAAATGACTGA
88750804 TTTTCCCTAC
Statistics
Matches: 237, Mismatches: 35, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
78 1 0.00
79 5 0.02
80 12 0.05
81 215 0.91
82 4 0.02
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (81 bp):
TGACCGAAATACCCCTATAGAGTAAAATGACTGAAATACCCCCATAAAGTAAAATGACCGAAATA
CCCTCATAAGGTAAAA
Found at i:88751155 original size:22 final size:23
Alignment explanation
Indices: 88751130--88751172 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
88751120 TAGCCCCACA
88751130 TGGTGTATAG-GGCTAGATGGAG
1 TGGTGTATAGAGGCTAGATGGAG
* *
88751152 TGGTGTGTAGAGGCTGGATGG
1 TGGTGTATAGAGGCTAGATGG
88751173 GTAGCATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.19, C:0.05, G:0.49, T:0.28
Consensus pattern (23 bp):
TGGTGTATAGAGGCTAGATGGAG
Found at i:88761379 original size:22 final size:23
Alignment explanation
Indices: 88761334--88761375 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
88761324 AAATTTTCTC
88761334 TTTGCTTTAGTTTAATCAGTTAA
1 TTTGCTTTAGTTTAATCAGTTAA
*
88761357 TTTG-TTTAG-TTAATTAGTT
1 TTTGCTTTAGTTTAATCAGTT
88761376 TAATAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTGCTTTAGTTTAATCAGTTAA
Found at i:88761668 original size:24 final size:24
Alignment explanation
Indices: 88761641--88761691 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
88761631 CTTTAGTAGA
88761641 GTAAACTGAAACTGTAGTAAACTG
1 GTAAACTGAAACTGTAGTAAACTG
* *
88761665 GTAAACTGAAATTGTAGTAAATTG
1 GTAAACTGAAACTGTAGTAAACTG
88761689 GTA
1 GTA
88761692 GACACCGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (24 bp):
GTAAACTGAAACTGTAGTAAACTG
Found at i:88763844 original size:27 final size:27
Alignment explanation
Indices: 88763813--88763947 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
88763803 AATGGTGATC
*
88763813 GAAATACCCTTATAGGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
88763840 GAAATATCCCC-ATAGGGTAAAATGACT
1 GAAATA-CCCCTATAGGGTAAAATGACT
* *
88763867 GAAATACCCCTATAAGGAAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* * *
88763894 GTAATACCCCTGTAGGGAAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
* * *
88763921 GTAATACCCCTGTAAGGTAAAATGACT
1 GAAATACCCCTATAGGGTAAAATGACT
88763948 AATTTTCCCT
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.04
27 91 0.93
28 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAAAATGACT
Found at i:88777102 original size:37 final size:37
Alignment explanation
Indices: 88777052--88777126 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
88777042 AATGTTAATT
88777052 TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
1 TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
*
88777089 TACCCCTTTTGGAATTAATTGATAAAATACTAAAATA
1 TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
88777126 T
1 T
88777127 GCCAAGTACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
TACCCCTTTTGGAATTAATTGATAAAATACCAAAATA
Found at i:88778187 original size:70 final size:70
Alignment explanation
Indices: 88778104--88778282 Score: 175
Period size: 71 Copynumber: 2.5 Consensus size: 70
88778094 CCCCTGTGCC
* *
88778104 GCGACACAAAACTTCGAACCTA-AATAATTTGAAAAT-CTA-GTACATGTCGCGACACAGGTACC
1 GCGACACACAACTTCGAA-CTATAA-AATTTGAAAATACCAGGT-CATGTCGCGACACAGGTACC
*
88778166 CCTTTGTT
63 CCTATGTT
* * * * * * *
88778174 GCGACACTCAACTTTGAAGTATTAAAATTTGAAAATACCAGGTCCTGTTGTGACACATGTACCCC
1 GCGACACACAACTTCGAACTA-TAAAATTTGAAAATACCAGGTCATGTCGCGACACAGGTACCCC
88778239 TATGTT
65 TATGTT
* * *
88778245 GCGACACGCAACTTTGAAGTATTAAAATTTGAAAATAC
1 GCGACACACAACTTCGAACTA-TAAAATTTGAAAATAC
88778283 TAGGCTGTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
69 2 0.02
70 26 0.28
71 64 0.68
72 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (70 bp):
GCGACACACAACTTCGAACTATAAAATTTGAAAATACCAGGTCATGTCGCGACACAGGTACCCCT
ATGTT
Found at i:88778322 original size:71 final size:70
Alignment explanation
Indices: 88778155--88778300 Score: 215
Period size: 71 Copynumber: 2.1 Consensus size: 70
88778145 ACATGTCGCG
* * *
88778155 ACACAGGTACCCCTTTGTTGCGACACTCAACTTTGAAGTATTAAAATTTGAAAATACCAGGTCCT
1 ACACATGTACCCCTATGTTGCGACACGCAACTTTGAAGTATTAAAATTTGAAAATACCAGG-CCT
*
88778220 GTTGTG
65 GTTGTC
*
88778226 ACACATGTACCCCTATGTTGCGACACGCAACTTTGAAGTATTAAAATTTGAAAATACTAGG-CTG
1 ACACATGTACCCCTATGTTGCGACACGCAACTTTGAAGTATTAAAATTTGAAAATACCAGGCCTG
88778290 -TGTC
66 TTGTC
88778294 ACGACAT
1 AC-ACAT
88778301 AGGTTTCCTT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
68 5 0.07
69 7 0.10
71 57 0.83
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (70 bp):
ACACATGTACCCCTATGTTGCGACACGCAACTTTGAAGTATTAAAATTTGAAAATACCAGGCCTG
TTGTC
Found at i:88782362 original size:15 final size:14
Alignment explanation
Indices: 88782341--88782399 Score: 52
Period size: 13 Copynumber: 4.3 Consensus size: 14
88782331 ATCCCAGATG
88782341 AAGAAAAGAAAAAT
1 AAGAAAAGAAAAAT
*
88782355 GAGTAAAA-AGAAAAT
1 AAG-AAAAGA-AAAAT
*
88782370 AAGAAAAGAAAGA-
1 AAGAAAAGAAAAAT
*
88782383 AAGAAAATAAAAA-
1 AAGAAAAGAAAAAT
88782396 AAGA
1 AAGA
88782400 GATATACTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 15 0.41
14 10 0.27
15 12 0.32
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAGAAAAGAAAAAT
Found at i:88782981 original size:17 final size:17
Alignment explanation
Indices: 88782956--88782993 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
88782946 ATCTTTGCAT
88782956 TTTTCTTTTT-TCTTTTC
1 TTTTCTTTTTAT-TTTTC
*
88782973 TTTTGTTTTTATTTTTC
1 TTTTCTTTTTATTTTTC
88782990 TTTT
1 TTTT
88782994 TTGTTCGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTCTTTTTATTTTTC
Found at i:88785637 original size:17 final size:19
Alignment explanation
Indices: 88785615--88785649 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
88785605 CAATTCAAAT
88785615 TCAAATT-CA-TATTTTCA
1 TCAAATTACACTATTTTCA
88785632 TCAAATTACACTATTTTC
1 TCAAATTACACTATTTTC
88785650 CATTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (19 bp):
TCAAATTACACTATTTTCA
Found at i:88796058 original size:15 final size:16
Alignment explanation
Indices: 88796036--88796078 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
88796026 CATGGTATGT
88796036 ATGATATGCATATG-AC
1 ATGATATG-ATATGCAC
88796052 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
88796067 ATGATATG-TATG
1 ATGATATGATATG
88796079 ATATGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:88796081 original size:9 final size:9
Alignment explanation
Indices: 88796031--88796083 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
88796021 ATAAACATGG
88796031 TATGTATGA
1 TATGTATGA
88796040 TATGCATATGA
1 TATG--TATGA
*
88796051 CATGTATGA
1 TATGTATGA
*
88796060 TATGCACATGA
1 TATG--TATGA
88796071 TATGTATGA
1 TATGTATGA
88796080 TATG
1 TATG
88796084 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:88796091 original size:20 final size:20
Alignment explanation
Indices: 88796025--88796091 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
88796015 ATTTTGATAA
*
88796025 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
88796045 ATATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
88796065 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88796085 ACATGAT
1 ACATGAT
88796092 GTATTCGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88796224 original size:24 final size:24
Alignment explanation
Indices: 88796140--88796285 Score: 179
Period size: 25 Copynumber: 6.0 Consensus size: 24
88796130 GGAGGAAGTG
* *
88796140 TAAAAGGGCTTATACCCCATTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
88796164 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
88796189 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
88796214 TAAAAGGGCTTATGCCCTAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
88796238 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
88796261 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
88796286 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
23 17 0.16
24 38 0.35
25 54 0.50
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:88796282 original size:72 final size:74
Alignment explanation
Indices: 88796140--88796285 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 74
88796130 GGAGGAAGTG
* *
88796140 TAAAAGGGCTTATACCCCATTTATGATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGC
1 TAAAAGGGCTTATACCCCAATTATGATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGC
88796205 CCCAGTTAT
66 CCCAGTTAT
* * * *
88796214 TAAAAGGGCTTATGCCCTAATTATTA-AAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGG
1 TAAAAGGGCTTATACCCCAATTATGATAAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGG
88796275 CCTCCAGTTAT
65 CC-CCAGTTAT
88796286 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
71 9 0.14
72 24 0.38
73 9 0.14
74 22 0.34
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (74 bp):
TAAAAGGGCTTATACCCCAATTATGATAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGC
CCCAGTTAT
Found at i:88796517 original size:31 final size:31
Alignment explanation
Indices: 88796479--88796542 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
88796469 CGTTTACAGT
*
88796479 AAAGGCTTCGGTCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
88796510 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
88796541 AA
1 AA
88796543 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:88803042 original size:45 final size:45
Alignment explanation
Indices: 88802943--88803139 Score: 303
Period size: 45 Copynumber: 4.4 Consensus size: 45
88802933 TTGAATTCAT
* * *
88802943 TCACCGGCATT-TCGCCTGCTAGGCTC-GAAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGT-ATC
88802985 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
* *
88803030 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
*
88803075 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
88803120 TCACCGGCATTATAGCCTGC
1 TCACCGGCATTATAGCCTGC
88803140 ATAGTATCTC
Statistics
Matches: 145, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 11 0.08
43 14 0.10
44 7 0.05
45 112 0.77
46 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
Found at i:88803152 original size:28 final size:28
Alignment explanation
Indices: 88803112--88803167 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
88803102 AAAGGCCCGA
88803112 ATAGTATCTCACCGGCATTATAGCCTGC
1 ATAGTATCTCACCGGCATTATAGCCTGC
88803140 ATAGTATCTCACCGGCATTATAGCCTGC
1 ATAGTATCTCACCGGCATTATAGCCTGC
88803168 TAGGCTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (28 bp):
ATAGTATCTCACCGGCATTATAGCCTGC
Found at i:88803187 original size:73 final size:73
Alignment explanation
Indices: 88803061--88803212 Score: 268
Period size: 73 Copynumber: 2.1 Consensus size: 73
88803051 AGGCTCAAAG
*
88803061 GCCTGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCG
1 GCCTGCATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCG
88803126 GCATTATA
66 GCATTATA
***
88803134 GCCTGCATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGTTTGAATAGTATCTCACCG
1 GCCTGCATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCG
88803199 GCATTATA
66 GCATTATA
88803207 GCCTGC
1 GCCTGC
88803213 TAGGCTCAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (73 bp):
GCCTGCATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCG
GCATTATA
Found at i:88803232 original size:45 final size:45
Alignment explanation
Indices: 88803140--88803232 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
88803130 TATAGCCTGC
***
88803140 ATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGTTTGA
1 ATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
88803185 ATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 ATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
88803230 ATA
1 ATA
88803233 ATATTGTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (45 bp):
ATAGTATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
Found at i:88804099 original size:47 final size:47
Alignment explanation
Indices: 88804039--88804228 Score: 335
Period size: 47 Copynumber: 4.0 Consensus size: 47
88804029 AAAATTTTCT
* * * *
88804039 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAATTTAATAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
*
88804086 TTAACTAAATAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
88804133 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
88804180 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
88804227 TT
1 TT
88804229 TAAATTCAAC
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:88808859 original size:20 final size:20
Alignment explanation
Indices: 88808834--88808892 Score: 118
Period size: 20 Copynumber: 3.0 Consensus size: 20
88808824 TAAAAGAGTA
88808834 TGTTTTAAATAAGAGGTCAC
1 TGTTTTAAATAAGAGGTCAC
88808854 TGTTTTAAATAAGAGGTCAC
1 TGTTTTAAATAAGAGGTCAC
88808874 TGTTTTAAATAAGAGGTCA
1 TGTTTTAAATAAGAGGTCA
88808893 TCCAATAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTTTTAAATAAGAGGTCAC
Found at i:88810564 original size:29 final size:29
Alignment explanation
Indices: 88810517--88810578 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
88810507 TGTAATGTCG
88810517 TACATGAACTTTGATTTTG-TGTGATTTT
1 TACATGAACTTTGATTTTGATGTGATTTT
* *
88810545 ATACATGAAATTTTGA-TTTGATTTGATTTT
1 -TACATG-AACTTTGATTTTGATGTGATTTT
88810575 TACA
1 TACA
88810579 AATTACTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (29 bp):
TACATGAACTTTGATTTTGATGTGATTTT
Found at i:88825876 original size:58 final size:59
Alignment explanation
Indices: 88825772--88825884 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 59
88825762 AGTGATTATC
* * *
88825772 TTAATATTAAATTTAATTTAATATTTATCTACATAAACATTCTATTATTTTAATAAGAA
1 TTAATATTAAATTTAATATAATATTTATCTACATAAACATTATATTAATTTAATAAGAA
**
88825831 TTAATATTAAA-TTAATATAATATTTATCTTGAT-AACTATTATATTAATTTAATA
1 TTAATATTAAATTTAATATAATATTTATCTACATAAAC-ATTATATTAATTTAATA
88825885 TTATAGTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 3 0.06
58 34 0.71
59 11 0.23
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTTAATATAATATTTATCTACATAAACATTATATTAATTTAATAAGAA
Found at i:88828589 original size:18 final size:18
Alignment explanation
Indices: 88828538--88828590 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
88828528 CTCTCGTCCT
*
88828538 CTAAGGGAAAGTAGAAAG
1 CTAAGGGAAAGAAGAAAG
* *
88828556 TTAAGAGG-AAGCAGAAAG
1 CTAAG-GGAAAGAAGAAAG
88828574 CTAAGGGAAAGAAGAAA
1 CTAAGGGAAAGAAGAAA
88828591 CAGACTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.53, C:0.06, G:0.32, T:0.09
Consensus pattern (18 bp):
CTAAGGGAAAGAAGAAAG
Found at i:88830357 original size:17 final size:17
Alignment explanation
Indices: 88830335--88830380 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
88830325 TAGTACAATG
*
88830335 GGCCCACACACTTGTGT
1 GGCCCACACACCTGTGT
88830352 GGCCCACACACCTGTGT
1 GGCCCACACACCTGTGT
*
88830369 GGCCTACACACC
1 GGCCCACACACC
88830381 CAGATTGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.41, G:0.22, T:0.17
Consensus pattern (17 bp):
GGCCCACACACCTGTGT
Found at i:88835574 original size:37 final size:35
Alignment explanation
Indices: 88835523--88835639 Score: 102
Period size: 37 Copynumber: 3.3 Consensus size: 35
88835513 ATTCCAAAAA
88835523 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTA-TTTAATAGTTTAATATTAAATTTAATT
*
88835559 TAATACTTATCTTAATAGTATT-TTATT-AATTTAATTT
1 TAATA-TTAT-TTAATAGT-TTAATATTAAATTTAA-TT
* *
88835596 TAAAATGA-TT-AT-G-TTAATATTAAATTTAATT
1 TAATATTATTTAATAGTTTAATATTAAATTTAATT
*
88835627 TAATGTTTATTTA
1 TAAT-ATTATTTA
88835640 CATAAACATT
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
30 2 0.03
31 9 0.14
32 10 0.15
33 4 0.06
34 2 0.03
36 15 0.23
37 21 0.32
38 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (35 bp):
TAATATTATTTAATAGTTTAATATTAAATTTAATT
Found at i:88835687 original size:59 final size:59
Alignment explanation
Indices: 88835525--88835722 Score: 154
Period size: 59 Copynumber: 3.2 Consensus size: 59
88835515 TCCAAAAATA
* * * **
88835525 ATATTATTTTAAT-AG-TTTAATATTAAATTTAATTTAATACTTATCTTAAT-AGTATT
1 ATATTAATTTAATAAGATTTAATATTAAATTTAATTTAATATTTATCTTCATAAACATT
* *
88835581 TTATTAATTTAATTTTAAAATGATTATGTTAATATTAAATTTAATTTAATGTTTAT-TTACATAA
1 ATATTAATTTAA---T--AA-G---AT-TTAATATTAAATTTAATTTAATATTTATCTT-CATAA
88835645 ACATT
55 ACATT
* * * *
88835650 CTATTATTTTAATAAGATTTAATATTAAATCTT-ATTTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAAGATTTAATATTAAAT-TTAATTTAATATTTATCTTCATAAACATT
88835709 ATATTAATTTAATA
1 ATATTAATTTAATA
88835723 TTAAAGTAAT
Statistics
Matches: 112, Mismatches: 14, Indels: 29
0.72 0.09 0.19
Matches are distributed among these distances:
56 10 0.09
59 45 0.40
60 6 0.05
62 1 0.01
63 2 0.02
64 2 0.02
66 1 0.01
67 3 0.03
68 28 0.25
69 14 0.12
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (59 bp):
ATATTAATTTAATAAGATTTAATATTAAATTTAATTTAATATTTATCTTCATAAACATT
Found at i:88835722 original size:16 final size:16
Alignment explanation
Indices: 88835666--88835725 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
88835656 TTTTAATAAG
* *
88835666 ATTTAATATTAAATCTT
1 ATTTAATATTATAT-TA
* *
88835683 ATTTAATATTTATCTTG
1 ATTTAATA-TTATATTA
*
88835700 A-TAAATATTATATTA
1 ATTTAATATTATATTA
88835715 ATTTAATATTA
1 ATTTAATATTA
88835726 AAGTAATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.21
16 13 0.38
17 10 0.29
18 4 0.12
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTAATATTATATTA
Found at i:88851101 original size:20 final size:20
Alignment explanation
Indices: 88851059--88851107 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
88851049 AACTCAATAT
* *
88851059 GTATCGATATTTTTAAGAGG
1 GTATCGATAATTTTAAAAGG
* *
88851079 GTATAGATAATTTTAAAATG
1 GTATCGATAATTTTAAAAGG
88851099 GTATCGATA
1 GTATCGATA
88851108 CCAAATCAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATCGATAATTTTAAAAGG
Found at i:88864720 original size:46 final size:46
Alignment explanation
Indices: 88864670--88864845 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88864660 TGGTTGAGCA
88864670 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88864716 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
88864761 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88864809 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88864846 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88864826 original size:93 final size:93
Alignment explanation
Indices: 88864667--88864838 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88864657 GGATGGTTGA
* *
88864667 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88864732 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
88864760 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88864825 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
88864839 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88872276 original size:46 final size:45
Alignment explanation
Indices: 88872226--88872400 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
88872216 TGGTTGAGCA
88872226 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
88872272 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
88872318 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
88872364 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88872401 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 98 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:88872380 original size:92 final size:92
Alignment explanation
Indices: 88872223--88872393 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
88872213 GGATGGTTGA
* *
88872223 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88872288 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
88872315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88872380 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
88872394 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:88877621 original size:42 final size:43
Alignment explanation
Indices: 88877493--88877646 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 43
88877483 GACATAGGAT
* * *
88877493 TCGATATGTG-TTATCATGTAAGACCATGTCTGGGACGTTAGCA
1 TCGATATTTGATTAT-ATGTAAGACCCTGTCTGGGACGTTGGCA
* * * *
88877536 TTGACT-TATGATTTATGTGTCAA-ACCATGTCTGGGACGTTGGCA
1 TCGA-TATTTGA-TTATATGT-AAGACCCTGTCTGGGACGTTGGCA
88877580 TCG-TATTTGATT-TCATGTAAGACCCTGTCTGGGACAG-TGGCA
1 TCGATATTTGATTAT-ATGTAAGACCCTGTCTGGGAC-GTTGGCA
88877622 TCGATATTTGATTATATGTAAGACC
1 TCGATATTTGATTATATGTAAGACC
88877647 ACGTATAGGA
Statistics
Matches: 93, Mismatches: 8, Indels: 20
0.77 0.07 0.17
Matches are distributed among these distances:
41 3 0.03
42 27 0.29
43 30 0.32
44 27 0.29
45 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
TCGATATTTGATTATATGTAAGACCCTGTCTGGGACGTTGGCA
Found at i:88877630 original size:43 final size:42
Alignment explanation
Indices: 88877503--88877646 Score: 143
Period size: 44 Copynumber: 3.3 Consensus size: 42
88877493 TCGATATGTG
* * *
88877503 TTATCATGTAAGACCATGTCTGGGACGTTAGCATTG-ACTTATGA
1 TTAT-ATGTAAGACCCTGTCTGGGACGTTGGCATCGTA-TT-TGA
* *
88877547 TTTATGTGTCAA-ACCATGTCTGGGACGTTGGCATCGTATTTGA
1 -TTATATGT-AAGACCCTGTCTGGGACGTTGGCATCGTATTTGA
88877590 TT-TCATGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGA
1 TTAT-ATGTAAGACCCTGTCTGGGAC-GTTGGCATCG-TATTTGA
88877633 TTATATGTAAGACC
1 TTATATGTAAGACC
88877647 ACGTATAGGA
Statistics
Matches: 87, Mismatches: 5, Indels: 16
0.81 0.05 0.15
Matches are distributed among these distances:
41 3 0.03
42 26 0.30
43 23 0.26
44 28 0.32
45 7 0.08
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
TTATATGTAAGACCCTGTCTGGGACGTTGGCATCGTATTTGA
Found at i:88877664 original size:43 final size:43
Alignment explanation
Indices: 88877569--88877670 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
88877559 ACCATGTCTG
* *
88877569 GGAC-GTTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTG
1 GGACAGTTGGCATCGTATTTGATTTCATGTAAGACCCTGTATA
88877611 GGACAG-TGGCATCGATATTTGATTAT-ATGTAAGACCAC-GTATA
1 GGACAGTTGGCATCG-TATTTGATT-TCATGTAAGACC-CTGTATA
* *
88877654 GGA-TGTTGGCATTGTAT
1 GGACAGTTGGCATCGTAT
88877671 GAGATTTTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
42 16 0.31
43 33 0.65
44 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
GGACAGTTGGCATCGTATTTGATTTCATGTAAGACCCTGTATA
Found at i:88878559 original size:13 final size:13
Alignment explanation
Indices: 88878537--88878570 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
88878527 CTGAACTTCC
*
88878537 TCACATGGGCGTG
1 TCACACGGGCGTG
88878550 TCACACGGGCGTG
1 TCACACGGGCGTG
88878563 TCACACGG
1 TCACACGG
88878571 CCATGTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:88881420 original size:25 final size:25
Alignment explanation
Indices: 88881386--88881434 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
88881376 AAAGAGTACA
88881386 AACCACGGGTGCCATACCCCAATGT
1 AACCACGGGTGCCATACCCCAATGT
*
88881411 AACCACGGGTGCCATACCCTAATG
1 AACCACGGGTGCCATACCCCAATG
88881435 CAACAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.16
Consensus pattern (25 bp):
AACCACGGGTGCCATACCCCAATGT
Found at i:88885403 original size:20 final size:20
Alignment explanation
Indices: 88885375--88885419 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
88885365 TTTTTTAGCT
*
88885375 TGAGTGTTAATTCCATATTC
1 TGAGAGTTAATTCCATATTC
88885395 TGAGAGTTAATTCCATATTC
1 TGAGAGTTAATTCCATATTC
88885415 TGAGA
1 TGAGA
88885420 AGAAGCTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (20 bp):
TGAGAGTTAATTCCATATTC
Found at i:88888566 original size:34 final size:34
Alignment explanation
Indices: 88888523--88888591 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
88888513 GGTATGAGTG
*
88888523 TTCGATAAATTGTCTTTGAATCCAGATGAATGCA
1 TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
88888557 TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
1 TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
88888591 T
1 T
88888592 AAAATCTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (34 bp):
TTCGATAAATTGTCTTTGAATCCAGATAAATGCA
Found at i:88896289 original size:27 final size:27
Alignment explanation
Indices: 88896259--88896318 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
88896249 CAATTTGTAA
88896259 AATTACCAAAGTACCATTGATTTACAG
1 AATTACCAAAGTACCATTGATTTACAG
**** *
88896286 AATTACCGTTTTACCCTTGATTTACAG
1 AATTACCAAAGTACCATTGATTTACAG
88896313 AATTAC
1 AATTAC
88896319 AATTTTACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (27 bp):
AATTACCAAAGTACCATTGATTTACAG
Found at i:88896324 original size:27 final size:27
Alignment explanation
Indices: 88896270--88896354 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
88896260 ATTACCAAAG
* *
88896270 TACCATTGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACCATTT
*
88896297 TACCCTTGATTTACAGAATTACAATTT
1 TACCCTTGATTTACAGAATTACCATTT
* *
88896324 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTTGATTTACAGAATTACCATTT
88896351 TACC
1 TACC
88896355 AATTACCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACCATTT
Found at i:88896475 original size:27 final size:27
Alignment explanation
Indices: 88896355--88896460 Score: 176
Period size: 27 Copynumber: 3.9 Consensus size: 27
88896345 CCATTTTACC
88896355 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
88896382 AATTACTAAAATACTCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
88896409 AATTACCAAAATACCCCTGGCTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
*
88896436 AATTACCAAAATACCCCTGATTTGT
1 AATTACCAAAATACCCCTGGTTTGT
88896461 GAAGTTATCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:88896535 original size:27 final size:27
Alignment explanation
Indices: 88896496--88896819 Score: 337
Period size: 27 Copynumber: 12.0 Consensus size: 27
88896486 GTAAAATGTC
88896496 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
* * *
88896523 AAAATACCCCTATAGGGAAAAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
* * * * *
88896550 GAAATACTCTTGTAAGGTAAAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
* * *
88896577 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTATAGGGTAGAATTACT
88896604 GAAATACCCCTATTA-GGTAGAATTA-T
1 GAAATACCCCTA-TAGGGTAGAATTACT
* * *
88896630 CGAAATACCCCTGTAAGGTAGAATTACC
1 -GAAATACCCCTATAGGGTAGAATTACT
88896658 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
* * *
88896685 GAAATAGCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTATAGGGTAGAATTACT
* * *
88896712 GAAATACCCATGTAGGGTAGAATTACC
1 GAAATACCCCTATAGGGTAGAATTACT
** * * * *
88896739 GAAATACCTTTAGAAGGTAGAAATACC
1 GAAATACCCCTATAGGGTAGAATTACT
88896766 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
* * * * *
88896793 GAGATACCCTTGTGGGGTAAAATTACT
1 GAAATACCCCTATAGGGTAGAATTACT
88896820 ATTTTGCCCC
Statistics
Matches: 249, Mismatches: 44, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 245 0.98
28 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAGAATTACT
Found at i:88896609 original size:81 final size:81
Alignment explanation
Indices: 88896495--88896818 Score: 391
Period size: 81 Copynumber: 4.0 Consensus size: 81
88896485 TGTAAAATGT
* ** * * *
88896495 CGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGAAAAATTACTGAAATACTCT
1 CGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCT
88896560 TGTAAGGTAAAATTAC
66 TGTAAGGTAAAATTAC
* *
88896576 TGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATTA-GGTAGAATTA-TCGAAATACC
1 CGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTA-TAGGGTAGAATTACT-GAAATACC
* *
88896639 CCTGTAAGGTAGAATTAC
64 CTTGTAAGGTAAAATTAC
* * * * * *
88896657 CGAAATACCCCTATAGGGTAGAATTACTGAAATAGCCCTGTAGGGTAGAATTATTGAAATACCCA
1 CGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCT
* *
88896722 TGTAGGGTAGAATTAC
66 TGTAAGGTAAAATTAC
** * * *
88896738 CGAAATACCTTTAGAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTGAGATACCCT
1 CGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCT
**
88896803 TGTGGGGTAAAATTAC
66 TGTAAGGTAAAATTAC
88896819 TATTTTGCCC
Statistics
Matches: 208, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.01
81 202 0.97
82 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (81 bp):
CGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCT
TGTAAGGTAAAATTAC
Found at i:88896982 original size:16 final size:16
Alignment explanation
Indices: 88896961--88896991 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88896951 CAAATATGGG
*
88896961 CATGACATTTTGCATA
1 CATGACATGTTGCATA
88896977 CATGACATGTTGCAT
1 CATGACATGTTGCAT
88896992 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:88897060 original size:25 final size:25
Alignment explanation
Indices: 88897024--88897118 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
88897014 AGGAAGTGCT
* *
88897024 AAAAGGGTTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
88897049 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* * *
88897074 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
88897099 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
88897119 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:88897103 original size:50 final size:50
Alignment explanation
Indices: 88897024--88897118 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
88897014 AGGAAGTGCT
* *
88897024 AAAAGGGTTTTGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
*
88897074 AAAAGGGCTTTGCCCTAGTTTATCAAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTT
88897119 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:88897131 original size:24 final size:24
Alignment explanation
Indices: 88897024--88897131 Score: 119
Period size: 25 Copynumber: 4.4 Consensus size: 24
88897014 AGGAAGTGCT
* * *
88897024 AAAAGGGTTTTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
*
88897048 GAAAAGGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
88897073 GAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
88897098 AAAAAGGGCTTTGCCCCAG-TTATT
1 -AAAAGGGCTTTGCCCCAGTTTATC
88897122 AAAAGAGGCT
1 AAAAG-GGCT
88897132 AGGCCCCTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.07
24 8 0.11
25 62 0.83
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:88897140 original size:50 final size:50
Alignment explanation
Indices: 88897035--88897143 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
88897025 AAAGGGTTTT
* **
88897035 GCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTT
1 GCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAG
* **
88897085 GCCCTAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAG
1 GCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAG
88897134 GCCCCTAGTT
1 G-CCCTAGTT
88897144 ATATGATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
48 5 0.10
49 8 0.16
50 38 0.75
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCCTAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAG
Found at i:88899433 original size:27 final size:27
Alignment explanation
Indices: 88899414--88899678 Score: 298
Period size: 27 Copynumber: 9.8 Consensus size: 27
88899404 ATTACCAAAG
**
88899414 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
88899441 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
88899468 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
88899495 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
88899522 TATCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
88899549 TATCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
88899576 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * **
88899603 TACCTTTGATTTACAGAAATACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
88899630 TACCCTTGATTTACGGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
88899657 TACCCTC-ATTTTACAAAATTAC
1 TACCCTCGA-TTTACAGAATTAC
88899679 TAAAATACCC
Statistics
Matches: 209, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 208 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:88899832 original size:27 final size:27
Alignment explanation
Indices: 88899671--88899839 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 27
88899661 CTCATTTTAC
* * **
88899671 AAAATTACTAAAATACCCTTGGTTTAA
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
88899698 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
88899725 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
88899752 AAAATTACTAAAATACTCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
88899779 AAAATTACCAAAATACCCTTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
88899806 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
88899833 GAAATTA
1 AAAATTA
88899840 TCGAAATTCT
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
26 3 0.03
27 112 0.94
28 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:88899832 original size:54 final size:54
Alignment explanation
Indices: 88899671--88899879 Score: 206
Period size: 54 Copynumber: 3.9 Consensus size: 54
88899661 CTCATTTTAC
* ** **
88899671 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * * * *
88899725 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACTCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* *
88899779 AAAATTACCAAAATACCCTTGGCTTGTAAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * * * * * *
88899833 GAAATTATCGAAATTCTCTCGATTTGTAAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTG
88899880 TAGGGTAGAA
Statistics
Matches: 126, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 13 0.10
54 111 0.88
55 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:88899832 original size:81 final size:81
Alignment explanation
Indices: 88899671--88899839 Score: 241
Period size: 81 Copynumber: 2.1 Consensus size: 81
88899661 CTCATTTTAC
88899671 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
**
88899736 AATACCCCTGGTTTGT
66 AATACCCCTAATTTGT
* ** * * *
88899752 AAAATTACTAAAATACTCTTGGTTTGTAAAATTACCAAAATACCCTTG-GCTTGTAAAATTACCA
1 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATC-AGTAAAATTACCA
88899816 AAATACCCCTAATTTGT
65 AAATACCCCTAATTTGT
*
88899833 GAAATTA
1 AAAATTA
88899840 TCGAAATTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 77 0.99
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:88899846 original size:27 final size:27
Alignment explanation
Indices: 88899802--88899878 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
88899792 TACCCTTGGC
* *
88899802 TTGTAAAATTACCAAAATACCCCT-AAT
1 TTGT-AAATTATCGAAATACCCCTCAAT
* * *
88899829 TTGTGAAATTATCGAAAT-TCTCTCGAT
1 TTGT-AAATTATCGAAATACCCCTCAAT
*
88899856 TTGTAAAATATCGAAATACCCCT
1 TTGTAAATTATCGAAATACCCCT
88899879 GTAGGGTAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 15 0.38
27 24 0.62
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
TTGTAAATTATCGAAATACCCCTCAAT
Found at i:88899859 original size:81 final size:81
Alignment explanation
Indices: 88899671--88899864 Score: 221
Period size: 81 Copynumber: 2.4 Consensus size: 81
88899661 CTCATTTTAC
* * * **
88899671 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACTCTCGATTTGTAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
**
88899736 AATACCCCTGGTTTGT
66 AATACCCCTAATTTGT
* * * * *
88899752 AAAATTACTAAAATACTCTTGGTTTGTAAAATTACCAAAATACCCTTG-GCTTGTAAAATTACCA
1 AAAATTACTAAAATACTCTCGATTTGTAAAATTACCAAAATACCCTCGATC-AGTAAAATTACCA
88899816 AAATACCCCTAATTTGT
65 AAATACCCCTAATTTGT
* * *
88899833 GAAATTA-TCGAAATTCTCTCGATTTGTAAAAT
1 AAAATTACT-AAAATACTCTCGATTTGTAAAAT
88899865 ATCGAAATAC
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
80 2 0.02
81 96 0.98
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAAATTACTAAAATACTCTCGATTTGTAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:88899906 original size:27 final size:27
Alignment explanation
Indices: 88899868--88899967 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
88899858 GTAAAATATC
*
88899868 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAAGGTAGAATTATT
* *
88899895 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTATT
* * * *
88899922 AAAATACTCTTGTAAGGTAAAATTATT
1 GAAATACCCCTGTAAGGTAGAATTATT
*
88899949 GAAATACCTCTGTAAGGTA
1 GAAATACCCCTGTAAGGTA
88899968 TACTCTTGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (27 bp):
GAAATACCCCTGTAAGGTAGAATTATT
Found at i:88899946 original size:54 final size:54
Alignment explanation
Indices: 88899868--88900231 Score: 322
Period size: 54 Copynumber: 7.0 Consensus size: 54
88899858 GTAAAATATC
* *
88899868 GAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACT
* * * * *
88899922 AAAATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGT---A-TAC-
1 GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACT
* * * *
88899971 ----T---CTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACT
* * * *
88900018 GAAATACCCTTGTAAGGTAGAATTATCGAAATACCCTTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACT
* * ** *
88900072 GAAATACCCCTGTAAGGTAGAATTACTGAAATACCCTTGTGGGGTAGAATTATT
1 GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACT
* ** ** * * *
88900126 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCTTTATAAGGTAGAAATACC
1 GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACT
* ** * * * *
88900180 GAAATA-CCCTGTAGGGTAGAATTACCGAGATACCCTTGTGAGGTAAAATTAC
1 GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTAC
88900232 CATTTTGCCC
Statistics
Matches: 265, Mismatches: 33, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
42 37 0.14
45 2 0.01
46 3 0.01
50 3 0.01
51 2 0.01
53 40 0.15
54 178 0.67
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (54 bp):
GAAATACCCCTGTAAGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACT
Found at i:88899984 original size:42 final size:42
Alignment explanation
Indices: 88899925--88900009 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
88899915 AATTACTAAA
88899925 ATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGT
1 ATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGT
88899967 ATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGT
1 ATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGT
88900009 A
1 A
88900010 GAATTACCGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (42 bp):
ATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGT
Found at i:88900005 original size:27 final size:26
Alignment explanation
Indices: 88899974--88900232 Score: 293
Period size: 27 Copynumber: 9.7 Consensus size: 26
88899964 GGTATACTCT
* **
88899974 TGTAAGGTAAAATTATTGAAATACCTC
1 TGTAAGGTAGAATTACCGAAATACC-C
88900001 TGTAAGGTAGAATTACCGAAATACCC
1 TGTAAGGTAGAATTACCGAAATACCC
*
88900027 TTGTAAGGTAGAATTATCGAAATACCC
1 -TGTAAGGTAGAATTACCGAAATACCC
88900054 TTGTAAGGTAGAATTACCGAAATACCCC
1 -TGTAAGGTAGAATTACCGAAATA-CCC
*
88900082 TGTAAGGTAGAATTACTGAAATACCC
1 TGTAAGGTAGAATTACCGAAATACCC
** **
88900108 TTGTGGGGTAGAATTATTGAAATACCCC
1 -TGTAAGGTAGAATTACCGAAATA-CCC
* *
88900136 TGTAGGGTAGAATTACCGAAATACCTT
1 TGTAAGGTAGAATTACCGAAATACC-C
* *
88900163 TATAAGGTAGAAATACCGAAATACCC
1 TGTAAGGTAGAATTACCGAAATACCC
* *
88900189 TGTAGGGTAGAATTACCGAGATACCC
1 TGTAAGGTAGAATTACCGAAATACCC
* *
88900215 TTGTGAGGTAAAATTACC
1 -TGTAAGGTAGAATTACC
88900233 ATTTTGCCCC
Statistics
Matches: 202, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
26 28 0.14
27 168 0.83
28 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (26 bp):
TGTAAGGTAGAATTACCGAAATACCC
Found at i:88900007 original size:69 final size:69
Alignment explanation
Indices: 88899905--88900036 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 69
88899895 GAAATACCCC
* * **
88899905 TGTAGGGTAGAATTACTAAAATACTCTTGTAAGGTAAAATTATTGAAATA-CCTCTGTAAGGTAT
1 TGTAAGGTAAAATTACTAAAATACTCTTGTAAGGTAAAATTACCGAAATACCCT-TGTAAGGTAT
88899969 ACTCT
65 ACTCT
* * *
88899974 TGTAAGGTAAAATTATTGAAATAC-CTCTGTAAGGTAGAATTACCGAAATACCCTTGTAAGGTA
1 TGTAAGGTAAAATTACTAAAATACTCT-TGTAAGGTAAAATTACCGAAATACCCTTGTAAGGTA
88900037 GAATTATCGA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 2 0.04
69 49 0.91
70 3 0.06
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (69 bp):
TGTAAGGTAAAATTACTAAAATACTCTTGTAAGGTAAAATTACCGAAATACCCTTGTAAGGTATA
CTCT
Found at i:88900022 original size:123 final size:122
Alignment explanation
Indices: 88899858--88900224 Score: 324
Period size: 123 Copynumber: 2.9 Consensus size: 122
88899848 CTCTCGATTT
* ** *
88899858 GTAAAATATCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTA-CT
1 GTAAAATATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATC-
* ** *
88899922 AAAATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGTATACTCTTGTAAG
65 AAAATACCCTTGTAAGGTAAAATTACCGAAATACCCCTGTAAGGTATACTCTTGTAAG
* * *
88899980 GTAAAATTATTGAAATACCTCTGTAAGGTAGAATTACCGAAATACCCTTGTAAGGTAGAATTATC
1 GTAAAA-TATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATC
* *
88900045 GAAATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCTT
65 AAAATACCCTTGTAAGGTAAAATTACCGAAATACCCCTGTAAGGT---A-TAC-----T---CTT
**
88900110 GTGGG
118 GTAAG
* * * ** * * *
88900115 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCTTTATAAGGTAGAAATACC
1 GTA-AAATATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATC
* * * * * *
88900180 GAAATACCC-TGTAGGGTAGAATTACCGAGATACCCTTGTGAGGTA
65 AAAATACCCTTGTAAGGTAAAATTACCGAAATACCCCTGTAAGGTA
88900225 AAATTACCAT
Statistics
Matches: 204, Mismatches: 26, Indels: 21
0.81 0.10 0.08
Matches are distributed among these distances:
122 6 0.03
123 88 0.43
124 1 0.00
126 1 0.00
127 3 0.01
131 1 0.00
132 1 0.00
134 31 0.15
135 70 0.34
136 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (122 bp):
GTAAAATATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCA
AAATACCCTTGTAAGGTAAAATTACCGAAATACCCCTGTAAGGTATACTCTTGTAAG
Found at i:88900052 original size:96 final size:96
Alignment explanation
Indices: 88899878--88900063 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 96
88899868 GAAATACCCC
* * * * *
88899878 TGTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACTAAAATACTCTTGTAAGGTAAA
1 TGTAAGGTAAAATTATTGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCTTGTAAGGTAAA
*
88899943 ATTATTGAAATA-CCTCTGTAAGGTATACTCT
66 ATTATCGAAATACCCT-TGTAAGGTATACTCT
* * *
88899974 TGTAAGGTAAAATTATTGAAATACCTCTGTAAGGTAGAATTACCGAAATACCCTTGTAAGGTAGA
1 TGTAAGGTAAAATTATTGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCTTGTAAGGTAAA
88900039 ATTATCGAAATACCCTTGTAAGGTA
66 ATTATCGAAATACCCTTGTAAGGTA
88900064 GAATTACCGA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 77 0.96
97 3 0.04
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (96 bp):
TGTAAGGTAAAATTATTGAAATACCCCTGTAAGGTAGAATTACCAAAATACCCTTGTAAGGTAAA
ATTATCGAAATACCCTTGTAAGGTATACTCT
Found at i:88900107 original size:81 final size:81
Alignment explanation
Indices: 88899967--88900232 Score: 363
Period size: 81 Copynumber: 3.3 Consensus size: 81
88899957 TCTGTAAGGT
* **
88899967 ATACTCTTGTAAGGTAAAATTATTGAAATACCTCTGTAAGGTAGAATTACCGAAATACCCTTGTA
1 ATACCCTTGTAAGGTAAAATTACCGAAATACCTCTGTAAGGTAGAATTACCGAAATACCCTTGTA
*
88900032 AGGTAGAATTATCGAA
66 GGGTAGAATTATCGAA
* * * *
88900048 ATACCCTTGTAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTGAAATACCCTTGTG
1 ATACCCTTGTAAGGTAAAATTACCGAAATACCTCTGTAAGGTAGAATTACCGAAATACCCTTGTA
*
88900113 GGGTAGAATTATTGAA
66 GGGTAGAATTATCGAA
* * * * * *
88900129 ATACCCCTGTAGGGTAGAATTACCGAAATACCTTTATAAGGTAGAAATACCGAAATACCC-TGTA
1 ATACCCTTGTAAGGTAAAATTACCGAAATACCTCTGTAAGGTAGAATTACCGAAATACCCTTGTA
* *
88900193 GGGTAGAATTACCGAG
66 GGGTAGAATTATCGAA
*
88900209 ATACCCTTGTGAGGTAAAATTACC
1 ATACCCTTGTAAGGTAAAATTACC
88900233 ATTTTGCCCC
Statistics
Matches: 161, Mismatches: 24, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
80 36 0.22
81 125 0.78
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (81 bp):
ATACCCTTGTAAGGTAAAATTACCGAAATACCTCTGTAAGGTAGAATTACCGAAATACCCTTGTA
GGGTAGAATTATCGAA
Found at i:88900471 original size:25 final size:25
Alignment explanation
Indices: 88900437--88900506 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
88900427 AGGAAGTGCT
*
88900437 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
88900462 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
88900487 AAAAGGGCTTTGCCGCAGTT
1 AAAAGGGCTTTGCCCCAGTT
88900507 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:88900519 original size:24 final size:24
Alignment explanation
Indices: 88900436--88900519 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
88900426 GAGGAAGTGC
*
88900436 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
88900461 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
* *
88900485 CAAAAAGGGCTTTGCCGCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
88900509 TAAAAGAGGCT
1 TAAAAG-GGCT
88900520 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.15
25 39 0.75
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:88910940 original size:19 final size:18
Alignment explanation
Indices: 88910912--88910951 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
88910902 ACAAAATTTT
88910912 AATTAGTATTATGAGATAA
1 AATTAGTATTATGAGA-AA
* *
88910931 AATTATTATTATTAGAAA
1 AATTAGTATTATGAGAAA
88910949 AAT
1 AAT
88910952 ATTGCTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATTAGTATTATGAGAAA
Found at i:88911070 original size:15 final size:15
Alignment explanation
Indices: 88911050--88911078 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
88911040 TAATTTATAA
88911050 AATTATTATTATTAT
1 AATTATTATTATTAT
88911065 AATTATTATTATTA
1 AATTATTATTATTA
88911079 GATAGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:88913395 original size:60 final size:59
Alignment explanation
Indices: 88913318--88913454 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
88913308 AACTATGTTA
* * *
88913318 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACAGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACAGCCCAGATTAATACTG
* ** *
88913378 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACAGCCCAGATTAATACTG
88913438 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
88913455 GTTAACACTG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.76
61 15 0.23
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACAGCCCAGATTAATACTG
Found at i:88917318 original size:19 final size:19
Alignment explanation
Indices: 88917272--88917319 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
88917262 GTATATATTT
88917272 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
88917290 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
88917309 TAAGTTTTATT
1 TAAATTTTATT
88917320 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:88920650 original size:56 final size:57
Alignment explanation
Indices: 88920583--88920818 Score: 291
Period size: 56 Copynumber: 4.2 Consensus size: 57
88920573 ACCATGGCAT
* * * **
88920583 TGATATATGTGTGCGAGTAGGACCACGTTTAATACGTTAACATCGATATGTGA-TTC
1 TGATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
* * *
88920639 TGATATATGTGTGCAAGCAAGACCAAGTTTAATACTTTGGCATCGATATGTGACTTC
1 TGATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
* * *
88920696 -GATATATGTGTGCAAGTAAGACCATGTTTAACACGTTGGTATCGATATGTGA-ATC
1 TGATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
** * * *
88920751 CAATATATGTGTACGAGTAAGACCATGTTTAATACTTTGGCATCGATATGTGACTT-
1 TGATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
*
88920807 TAATATATGTGT
1 TGATATATGTGT
88920819 ATGAGTAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
55 2 0.01
56 150 0.96
57 4 0.03
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (57 bp):
TGATATATGTGTGCAAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGACTTC
Found at i:88920781 original size:112 final size:112
Alignment explanation
Indices: 88920584--88920818 Score: 326
Period size: 112 Copynumber: 2.1 Consensus size: 112
88920574 CCATGGCATT
* * * * **
88920584 GATATATGTGTGCGAGTAGGACCACGTTTAATACGTTAACATCGATATGTGATTCTGATATATGT
1 GATATATGTGTGCAAGTAAGACCACGTTTAACACGTTAACATCGATATGTGAATCCAATATATGT
*
88920649 GTGCAAGCAAGACCAAGTTTAATACTTTGGCATCGATATGTGACTTC
66 GTACAAGCAAGACCAAGTTTAATACTTTGGCATCGATATGTGACTTC
* ***
88920696 GATATATGTGTGCAAGTAAGACCATGTTTAACACGTTGGTATCGATATGTGAATCCAATATATGT
1 GATATATGTGTGCAAGTAAGACCACGTTTAACACGTTAACATCGATATGTGAATCCAATATATGT
* * * *
88920761 GTACGAGTAAGACCATGTTTAATACTTTGGCATCGATATGTGACTTT
66 GTACAAGCAAGACCAAGTTTAATACTTTGGCATCGATATGTGACTTC
*
88920808 AATATATGTGT
1 GATATATGTGT
88920819 ATGAGTAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
112 107 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (112 bp):
GATATATGTGTGCAAGTAAGACCACGTTTAACACGTTAACATCGATATGTGAATCCAATATATGT
GTACAAGCAAGACCAAGTTTAATACTTTGGCATCGATATGTGACTTC
Found at i:88920848 original size:56 final size:55
Alignment explanation
Indices: 88920585--88920856 Score: 204
Period size: 56 Copynumber: 4.9 Consensus size: 55
88920575 CATGGCATTG
* * * * ** * **
88920585 ATATATGTGTGCGAGTAGGACCACGTTTAATACGTTAACATCGATATGTGATTCTG
1 ATATATGTGTACGAGTAAGACCATGTCTAATACG-TGGCATCGATATGTGAATCCA
* * * * * * * * *
88920641 ATATATGTGTGCAAGCAAGACCAAGTTTAATACTTTGGCATCGATATGTGACTTCG
1 ATATATGTGTACGAGTAAGACCATGTCTAATAC-GTGGCATCGATATGTGAATCCA
* * * * *
88920697 ATATATGTGTGCAAGTAAGACCATGTTTAACACGTTGGTATCGATATGTGAATCCA
1 ATATATGTGTACGAGTAAGACCATGTCTAATACG-TGGCATCGATATGTGAATCCA
* * * **
88920753 ATATATGTGTACGAGTAAGACCATGTTTAATACTTTGGCATCGATATGTGACTTTA
1 ATATATGTGTACGAGTAAGACCATGTCTAATAC-GTGGCATCGATATGTGAATCCA
* * *
88920809 ATATATGTGTATGAGTAATACCCTGTCTAGGATA-GTGGCATCGATATG
1 ATATATGTGTACGAGTAAGACCATGTCTA--ATACGTGGCATCGATATG
88920857 GGATTACATG
Statistics
Matches: 180, Mismatches: 31, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
56 177 0.98
58 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (55 bp):
ATATATGTGTACGAGTAAGACCATGTCTAATACGTGGCATCGATATGTGAATCCA
Found at i:88924057 original size:25 final size:25
Alignment explanation
Indices: 88924029--88924080 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
88924019 CCGAAAGAAA
*
88924029 GATTGAATCAGTTCTAGTTGTGTGC
1 GATTGAATCAGTACTAGTTGTGTGC
88924054 GATTGAATCAGTACTAGTTGTGTGC
1 GATTGAATCAGTACTAGTTGTGTGC
88924079 GA
1 GA
88924081 GTATCCGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.29, T:0.37
Consensus pattern (25 bp):
GATTGAATCAGTACTAGTTGTGTGC
Found at i:88926479 original size:13 final size:13
Alignment explanation
Indices: 88926461--88926485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88926451 TATATTATAT
88926461 GTGTGAAAATTTC
1 GTGTGAAAATTTC
88926474 GTGTGAAAATTT
1 GTGTGAAAATTT
88926486 TATAGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:88927692 original size:56 final size:57
Alignment explanation
Indices: 88927627--88927862 Score: 320
Period size: 56 Copynumber: 4.2 Consensus size: 57
88927617 ACCATGGCAT
*
88927627 TGATATATGTGTGCAAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGA-TTC
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
* *
88927683 TGATATATGTGTGCAAGCAAGACCAAGTTTAATACGTTGGCATCGATATGTGACTTC
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
* * * * *
88927740 -GATATATGTATGCGAGTAAGACCACGTTTAATACTTTGGCAGCGATATGTGA-TTT
1 TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
* * *
88927795 TGAGT-TATGTGTACAAGTAAGACCACGTTTAATACGTTGGCATCAAAATGTGACTTC
1 TGA-TATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
*
88927852 -AATATATGTGT
1 TGATATATGTGT
88927863 ATGAGTAATA
Statistics
Matches: 156, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
55 3 0.02
56 147 0.94
57 6 0.04
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (57 bp):
TGATATATGTGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGACTTC
Found at i:88927892 original size:112 final size:111
Alignment explanation
Indices: 88927642--88927905 Score: 309
Period size: 112 Copynumber: 2.4 Consensus size: 111
88927632 TATGTGTGCA
* *
88927642 AGTAGGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATATATGTGTGCAAGCAAGACC
1 AGTAAGACCACGTTTAATACG-TGGCATCGATATGTGATTCTGATATATGTGTACAAGCAAGACC
* * * *
88927707 AAGTTTAATACGTTGGCATCGATATGTGACTTCGATATATGTATGCG
65 AAGTTTAATACGTTGGCATCAAAATGTGACTTCAATATATGTATACG
* * * *
88927754 AGTAAGACCACGTTTAATACTTTGGCAGCGATATGTGATTTTGAGT-TATGTGTACAAGTAAGAC
1 AGTAAGACCACGTTTAATAC-GTGGCATCGATATGTGATTCTGA-TATATGTGTACAAGCAAGAC
* * *
88927818 CACGTTTAATACGTTGGCATCAAAATGTGACTTCAATATATGTGTATG
64 CAAGTTTAATACGTTGGCATCAAAATGTGACTTCAATATATGTATACG
* * *
88927866 AGTAATACC-CTTTCTAGGATA-GTGGCATCGATATGGGATT
1 AGTAAGACCACGTT-TA--ATACGTGGCATCGATATGTGATT
88927906 ACATGTAAGA
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
111 3 0.02
112 122 0.95
113 1 0.01
114 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (111 bp):
AGTAAGACCACGTTTAATACGTGGCATCGATATGTGATTCTGATATATGTGTACAAGCAAGACCA
AGTTTAATACGTTGGCATCAAAATGTGACTTCAATATATGTATACG
Found at i:88931910 original size:19 final size:19
Alignment explanation
Indices: 88931874--88931912 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
88931864 TTTTCATCAT
* *
88931874 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
88931893 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
88931912 A
1 A
88931913 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:88932413 original size:55 final size:56
Alignment explanation
Indices: 88932348--88932462 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
88932338 AGCATGGCTG
* * *
88932348 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
88932404 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
88932459 CCAG
1 CCAG
88932463 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:88932459 original size:28 final size:27
Alignment explanation
Indices: 88932373--88932462 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
88932363 GTGACAGAGT
*
88932373 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
88932402 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
88932429 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
88932457 CACCAG
1 CACCAG
88932463 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:88932615 original size:28 final size:28
Alignment explanation
Indices: 88932568--88932632 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
88932558 AAATTAACCC
*
88932568 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
88932596 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
88932624 TAGGGGTAT
1 TAGGGGTAT
88932633 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:88932894 original size:8 final size:8
Alignment explanation
Indices: 88932878--88932909 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
88932868 CCCAAAATAC
88932878 CGGCTTTT
1 CGGCTTTT
*
88932886 CGGCATTT
1 CGGCTTTT
88932894 CGGCTTTT
1 CGGCTTTT
88932902 CGGCTTTT
1 CGGCTTTT
88932910 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:88933714 original size:12 final size:13
Alignment explanation
Indices: 88933695--88933727 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
88933685 GGGTTCGGCT
88933695 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
88933708 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
88933720 ATGGAGAA
1 ATGGAGAA
88933728 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:88939219 original size:27 final size:28
Alignment explanation
Indices: 88939162--88939251 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
88939152 GTGACTGAGT
* * *
88939162 CACCAGATACAAATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
*
88939191 CACCAGAACAGATA-TATGTGGTAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
**
88939218 CACCAGAACAGATAATT-TGTGGCATAGC
1 CACCAGAACAGAT-ATTATGTGGCAGGGC
88939246 CACCAG
1 CACCAG
88939252 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 21 0.40
29 8 0.15
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:88939404 original size:28 final size:28
Alignment explanation
Indices: 88939357--88939421 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
88939347 AAATTAACCC
*
88939357 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
88939385 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
88939413 TAGGGGTAT
1 TAGGGGTAT
88939422 TCTAATACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:88941697 original size:22 final size:22
Alignment explanation
Indices: 88941670--88941743 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 22
88941660 CCATACAACT
*
88941670 GTGTGCCTCCTTTCACACAGGT
1 GTGTGCCTCCTTTCACACAGGC
* *
88941692 GTGTGCCT--TAGTCACACAGCC
1 GTGTGCCTCCT-TTCACACAGGC
*
88941713 GTGTGCATCCTTTCACACAGGC
1 GTGTGCCTCCTTTCACACAGGC
88941735 GTGTGCCTC
1 GTGTGCCTC
88941744 TCCATATGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.02
21 15 0.36
22 25 0.60
23 1 0.02
ACGTcount: A:0.15, C:0.32, G:0.24, T:0.28
Consensus pattern (22 bp):
GTGTGCCTCCTTTCACACAGGC
Found at i:88941700 original size:43 final size:43
Alignment explanation
Indices: 88941639--88941742 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
88941629 TGTCCCTAGG
* * * *
88941639 TCACACGGGCGTGTGCCTTAGCCATACAACTGTGTGCCTCCTT
1 TCACACAGGCGTGTGCCTTAGCCACACAACCGTGTGCATCCTT
* * *
88941682 TCACACAGGTGTGTGCCTTAGTCACACAGCCGTGTGCATCCTT
1 TCACACAGGCGTGTGCCTTAGCCACACAACCGTGTGCATCCTT
88941725 TCACACAGGCGTGTGCCT
1 TCACACAGGCGTGTGCCT
88941743 CTCCATATGC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.17, C:0.32, G:0.24, T:0.27
Consensus pattern (43 bp):
TCACACAGGCGTGTGCCTTAGCCACACAACCGTGTGCATCCTT
Found at i:88941708 original size:21 final size:21
Alignment explanation
Indices: 88941638--88941710 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
88941628 ATGTCCCTAG
* *
88941638 GTCACACGGGCGTGTGCCTTA
1 GTCACACAGGTGTGTGCCTTA
* * **
88941659 GCCATACAACTGTGTGCCTCCT-
1 GTCACACAGGTGTGTGCCT--TA
*
88941681 TTCACACAGGTGTGTGCCTTA
1 GTCACACAGGTGTGTGCCTTA
88941702 GTCACACAG
1 GTCACACAG
88941711 CCGTGTGCAT
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
20 1 0.03
21 21 0.57
22 14 0.38
23 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (21 bp):
GTCACACAGGTGTGTGCCTTA
Found at i:88943506 original size:27 final size:26
Alignment explanation
Indices: 88943462--88943512 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
88943452 CTTGCTGCAA
*
88943462 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
88943489 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
88943513 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:88943553 original size:2 final size:2
Alignment explanation
Indices: 88943546--88943581 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
88943536 GCTTCGCCAC
88943546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88943582 TCTGGTGGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88948878 original size:15 final size:15
Alignment explanation
Indices: 88948858--88948888 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
88948848 TGAAACGCCC
88948858 TGTTTTTAAAATAAA
1 TGTTTTTAAAATAAA
88948873 TGTTTTTAAAATAAA
1 TGTTTTTAAAATAAA
88948888 T
1 T
88948889 ATTGCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TGTTTTTAAAATAAA
Found at i:88955695 original size:40 final size:40
Alignment explanation
Indices: 88955636--88955777 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
88955626 AAATTGAATG
* * *
88955636 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
88955676 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
88955716 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
88955756 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
88955778 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:88955778 original size:40 final size:39
Alignment explanation
Indices: 88955675--88955803 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
88955665 TGCTGGAAAT
* * *
88955675 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
88955715 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
88955755 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
88955795 TATATCCGG
1 TATATCCGG
88955804 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:88963774 original size:40 final size:40
Alignment explanation
Indices: 88963672--88963776 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
88963662 AAATTGAATG
* * * *
88963672 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
88963712 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
88963752 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
88963777 TTCGTCGAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:88963787 original size:13 final size:13
Alignment explanation
Indices: 88963769--88963793 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88963759 GGCTAAGACC
88963769 CGAAGGCATTCGT
1 CGAAGGCATTCGT
88963782 CGAAGGCATTCG
1 CGAAGGCATTCG
88963794 CGAGTTATTC
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:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
CGAAGGCATTCGT
Found at i:88971766 original size:40 final size:40
Alignment explanation
Indices: 88971707--88971848 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
88971697 AAATTGAATG
* * *
88971707 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
88971747 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
88971787 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
88971827 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
88971849 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:88971849 original size:40 final size:39
Alignment explanation
Indices: 88971746--88971874 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
88971736 TGCTGGAAAT
* * *
88971746 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
88971786 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
88971826 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
88971866 TATATCCGG
1 TATATCCGG
88971875 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:88973514 original size:15 final size:15
Alignment explanation
Indices: 88973494--88973535 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
88973484 TCTTTAGGTT
88973494 TTTTTAGGGTTAT-AG
1 TTTTTAGGGTT-TGAG
*
88973509 TTTTTAAGGTTTGAG
1 TTTTTAGGGTTTGAG
*
88973524 GTTTTAGGGTTT
1 TTTTTAGGGTTT
88973536 CTAAGAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.55
Consensus pattern (15 bp):
TTTTTAGGGTTTGAG
Done.