Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 77 of 352
Found at i:24148500 original size:81 final size:84
Alignment explanation
Indices: 24148399--24148692 Score: 276
Period size: 88 Copynumber: 3.4 Consensus size: 84
24148389 GCCAAAGCTT
* * *
24148399 AACTCACCTCTCACAGTATGAGTTGGTTTTTG-AAAC-TT-AAAAGAAGATTTTGAAAATACCTC
1 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTTTGAAAAGAAGATTTTGAAAATACCTC
* *
24148461 GACATGTGACCTGAGGCTC
66 GACATGTGACCCGAGGATC
*
24148480 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTTAATTTGAAAAGTAGATTTTGAAAATA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC----TTTGAAAAGAAGATTTTGAAAATA
24148545 CCTCGACATGTGACCCGAGGATC
62 CCTCGACATGTGACCCGAGGATC
* ** * * **
24148568 AACTCACCTCTCGCGATATGAGTTGATTTCTAAAAAATATAAATTGAAAAAAACAGAAATTGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTT-TTGAAAA-CT---TTG-AAAAGA-AGATTTTGAAA
* * *
24148633 ATACCTC-AGC--GTGTCCTGAGGCTC
59 ATACCTCGA-CATGTGACCCGAGGATC
* *
24148657 AACTCACTTCTCGCAATATGAGTTGATTTCTGAAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
24148693 ATATAAATTG
Statistics
Matches: 176, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
81 29 0.16
82 4 0.02
86 1 0.01
87 2 0.01
88 72 0.41
89 46 0.26
90 5 0.03
91 17 0.10
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (84 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACTTTGAAAAGAAGATTTTGAAAATACCTC
GACATGTGACCCGAGGATC
Found at i:24148587 original size:88 final size:89
Alignment explanation
Indices: 24148437--24148706 Score: 368
Period size: 88 Copynumber: 3.0 Consensus size: 89
24148427 TTTGAAACTT
24148437 AAAAGAAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAGAAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
24148502 TTGATTTTTGAAAACT-TAATTTG
66 TTGATTTCTGAAAAATATAAATTG
* * * *
24148525 AAAAGTAGATTTTGAAAATACCTCGACATGTGACCCGAGGATCAACTCACCTCTCGCGATATGAG
1 AAAAGAAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
24148590 TTGATTTCTAAAAAATATAAATTG
66 TTGATTTCTGAAAAATATAAATTG
* ** * *
24148614 AAAAAAACAGAAATTGAAAATACCTC-AGC--GTGTCCTGAGGCTCAACTCACTTCTCGCAATAT
1 -AAAAGA-AGATTTTGAAAATACCTCGA-CATGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
24148676 GAGTTGATTTCTGAAAAATATAAATTG
63 GAGTTGATTTCTGAAAAATATAAATTG
24148703 AAAA
1 AAAA
24148707 AACAGAAATT
Statistics
Matches: 160, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
88 78 0.49
89 60 0.38
90 5 0.03
91 17 0.11
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (89 bp):
AAAAGAAGATTTTGAAAATACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTCTGAAAAATATAAATTG
Found at i:24148715 original size:15 final size:15
Alignment explanation
Indices: 24148697--24148735 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24148687 TGAAAAATAT
24148697 AAATTGAAAAAACAG
1 AAATTGAAAAAACAG
* *
24148712 AAATTG-AACAGCAG
1 AAATTGAAAAAACAG
24148726 AAATTGAAAA
1 AAATTGAAAA
24148736 TTCCTCGGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (15 bp):
AAATTGAAAAAACAG
Found at i:24148736 original size:102 final size:103
Alignment explanation
Indices: 24148621--24148810 Score: 310
Period size: 102 Copynumber: 1.8 Consensus size: 103
24148611 TTGAAAAAAA
*
24148621 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
*
24148685 TCTGAAAAATATAAATTGAAAAAACAGAAATTGAACAG
66 TCTGAAAAATAAAAATTGAAAAAACAGAAATTGAACAG
* *
24148723 CAGAAATTGAAAATTCCTCGGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TT
* *
24148788 TTTTGAAAGATAAAAATTGAAAA
65 TTCTGAAAAATAAAAATTGAAAA
24148811 TACCTCAACG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 59 0.74
104 21 0.26
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (103 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
TCTGAAAAATAAAAATTGAAAAAACAGAAATTGAACAG
Found at i:24148838 original size:75 final size:75
Alignment explanation
Indices: 24148726--24148864 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 75
24148716 TGAACAGCAG
* ** *
24148726 AAATTGAAAATTCCTCGGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
24148791 TGAAAGATAA
66 TGAAAGATAA
* *
24148801 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
24148865 AAAAACAGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (75 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAGATAA
Found at i:24152043 original size:3 final size:3
Alignment explanation
Indices: 24152035--24152060 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24152025 AACTATCCAC
24152035 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
24152061 TGTTGGAAAC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24160782 original size:25 final size:24
Alignment explanation
Indices: 24160749--24160796 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
24160739 TTATACTTTT
24160749 AAATAA-TTTTAACTTTTTAAAAAG
1 AAATAATTTTTAA-TTTTTAAAAAG
24160773 AAATATATTTTTAATTTTTAAAAA
1 AAATA-ATTTTTAATTTTTAAAAA
24160797 ATTAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 11 0.50
26 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATAATTTTTAATTTTTAAAAAG
Found at i:24165583 original size:10 final size:10
Alignment explanation
Indices: 24165568--24165633 Score: 55
Period size: 10 Copynumber: 6.8 Consensus size: 10
24165558 TTATTCCAAG
24165568 GTCAATATCA
1 GTCAATATCA
**
24165578 GTCAATATTT
1 GTCAATATCA
*
24165588 TTCAATATCA
1 GTCAATATCA
* *
24165598 ATCAAT-TTA
1 GTCAATATCA
24165607 -TCAATATCA
1 GTCAATATCA
* *
24165616 GTCAGTAACA
1 GTCAATATCA
24165626 GTCAATAT
1 GTCAATAT
24165634 TTTTCAGTAG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
8 5 0.12
9 4 0.10
10 33 0.79
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (10 bp):
GTCAATATCA
Found at i:24165610 original size:18 final size:20
Alignment explanation
Indices: 24165569--24165615 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
24165559 TATTCCAAGG
* *
24165569 TCAATATCAGTCAATATTTT
1 TCAATATCAATCAATATTTA
24165589 TCAATATCAATC-A-ATTTA
1 TCAATATCAATCAATATTTA
24165607 TCAATATCA
1 TCAATATCA
24165616 GTCAGTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 1 0.04
20 11 0.44
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (20 bp):
TCAATATCAATCAATATTTA
Found at i:24165628 original size:48 final size:48
Alignment explanation
Indices: 24165576--24165678 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
24165566 AGGTCAATAT
* *
24165576 CAGTCAATATTTTTCAATATCAATCAATTTATCAATATCAGTCAGTAA
1 CAGTCAATATTTTTCAATAGCAATCAATTGATCAATATCAGTCAGTAA
* ** * *
24165624 CAGTCAATATTTTTCAGTAGCAATCAATTGATCTTTATTATTCAGTAA
1 CAGTCAATATTTTTCAATAGCAATCAATTGATCAATATCAGTCAGTAA
24165672 CAGTCAA
1 CAGTCAA
24165679 CCATTAGAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.38
Consensus pattern (48 bp):
CAGTCAATATTTTTCAATAGCAATCAATTGATCAATATCAGTCAGTAA
Found at i:24165858 original size:47 final size:47
Alignment explanation
Indices: 24165768--24165866 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
24165758 ACCAACACAC
* *
24165768 CAGTACGGCACTCAGTACCTCATCTGCTATGCCGAAGTAAACAGTAA
1 CAGTACGGCACTCAGTACCTCATCAGCTATGCCAAAGTAAACAGTAA
* * *
24165815 TAGTACGGTACTCAGTACCTCATCAGATTAAT-CCAAAGT-AACAGTAA
1 CAGTACGGCACTCAGTACCTCATCAG-CT-ATGCCAAAGTAAACAGTAA
24165862 CAGTA
1 CAGTA
24165867 TGACACACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
47 35 0.80
48 7 0.16
49 2 0.05
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (47 bp):
CAGTACGGCACTCAGTACCTCATCAGCTATGCCAAAGTAAACAGTAA
Found at i:24166266 original size:24 final size:23
Alignment explanation
Indices: 24166214--24166268 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
24166204 CAATTTCCAC
*
24166214 ATCAATCAAATATATCCATATAA
1 ATCAATCAAATATATCCATACAA
*
24166237 ATTCAAT-AAATTTATCACATACCAA
1 A-TCAATCAAATATATC-CATA-CAA
24166262 ATCAATC
1 ATCAATC
24166269 GATTTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (23 bp):
ATCAATCAAATATATCCATACAA
Found at i:24170378 original size:24 final size:24
Alignment explanation
Indices: 24170312--24170371 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
24170302 TTTCTTTCTT
24170312 TTGCATTCATCCCATGCATTTGCA
1 TTGCATTCATCCCATGCATTTGCA
24170336 TTGCATTCATCCCATGCATTTGCA
1 TTGCATTCATCCCATGCATTTGCA
24170360 TTGCATTGCATC
1 TTGCATT-CATC
24170372 GTTGCATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 31 0.89
25 4 0.11
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.38
Consensus pattern (24 bp):
TTGCATTCATCCCATGCATTTGCA
Found at i:24172842 original size:11 final size:11
Alignment explanation
Indices: 24172807--24172857 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
24172797 AAAGGCATCC
24172807 AAAAAGAAAAA
1 AAAAAGAAAAA
* *
24172818 ACAAAAGTACAA
1 A-AAAAGAAAAA
24172830 AAAAAGAAAAA
1 AAAAAGAAAAA
*
24172841 AAAAAGAAAAG
1 AAAAAGAAAAA
24172852 AAAAAG
1 AAAAAG
24172858 TAATAAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 25 0.74
12 9 0.26
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:24172855 original size:23 final size:23
Alignment explanation
Indices: 24172807--24172866 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
24172797 AAAGGCATCC
* *
24172807 AAAAAGAAAAAACAAAAGTACAA
1 AAAAAGAAAAAACAAAAGAAAAA
*
24172830 AAAAAGAAAAAA-AAAAGAAAAG
1 AAAAAGAAAAAACAAAAGAAAAA
24172852 AAAAAGTAATAAAAC
1 AAAAAG-AA-AAAAC
24172867 GATAAAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 13 0.42
23 14 0.45
24 4 0.13
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (23 bp):
AAAAAGAAAAAACAAAAGAAAAA
Found at i:24173443 original size:9 final size:8
Alignment explanation
Indices: 24173424--24173473 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
24173414 AATCAAAATC
24173424 AAATGAAAA
1 AAAT-AAAA
*
24173433 AATTAAAA
1 AAATAAAA
*
24173441 AAA-AAGA
1 AAATAAAA
24173448 AAATAAAA
1 AAATAAAA
*
24173456 AAA-ATAA
1 AAATAAAA
24173463 AAATAAAA
1 AAATAAAA
24173471 AAA
1 AAA
24173474 GAAGAAAGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
7 12 0.36
8 18 0.55
9 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:24173451 original size:24 final size:25
Alignment explanation
Indices: 24173424--24173470 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24173414 AATCAAAATC
* *
24173424 AAATGAAAAAATTAAAAA-AAAAGA
1 AAATAAAAAAAATAAAAATAAAAGA
24173448 AAATAAAAAAAATAAAAATAAAA
1 AAATAAAAAAAATAAAAATAAAA
24173471 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (25 bp):
AAATAAAAAAAATAAAAATAAAAGA
Found at i:24173456 original size:15 final size:15
Alignment explanation
Indices: 24173431--24173480 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 15
24173421 ATCAAATGAA
24173431 AAAATTAAAAAAAAAG
1 AAAA-TAAAAAAAAAG
24173447 AAAATAAAAAAAATA-
1 AAAATAAAAAAAA-AG
24173462 AAAATAAAAAAAGAAG
1 AAAATAAAAAAA-AAG
24173478 AAA
1 AAA
24173481 GAAAAGGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 22 0.71
16 9 0.29
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (15 bp):
AAAATAAAAAAAAAG
Found at i:24173485 original size:15 final size:13
Alignment explanation
Indices: 24173437--24173476 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
24173427 TGAAAAAATT
24173437 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
*
24173450 ATAAAAAAAATAAA
1 A-AAAAAAAAGAAA
24173464 AATAAAAAAAGAA
1 AA-AAAAAAAGAA
24173477 GAAAGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 21 0.91
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:24174521 original size:13 final size:13
Alignment explanation
Indices: 24174503--24174527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24174493 AAGCATTTAA
24174503 AAAAAGATCATTT
1 AAAAAGATCATTT
24174516 AAAAAGATCATT
1 AAAAAGATCATT
24174528 CTCATTTTTG
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:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAAAAGATCATTT
Found at i:24174631 original size:64 final size:64
Alignment explanation
Indices: 24174558--24174749 Score: 321
Period size: 64 Copynumber: 3.0 Consensus size: 64
24174548 TCATTCATAG
24174558 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
24174622 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * *
24174686 CACATCTAATTATGAGTATTTGATTCATTTTGATCATAGCATCTTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
24174750 GATACATGAA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 119 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:24175132 original size:177 final size:177
Alignment explanation
Indices: 24174837--24175607 Score: 951
Period size: 177 Copynumber: 4.4 Consensus size: 177
24174827 TGAAGTTGCA
* * *
24174837 GTGGAGCAGACCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCGC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * *
24174902 TAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGATGGTGGTCTTATCTTCCTAAGGTA
66 TAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGATGGTGGTCTTATCTTCCTGAGGTA
*
24174967 ACAAGGAAGCAGACTGAAGATTGAAGATCTTGTCTCTCTAAGCAGTA
131 ACAAGGAAGCAGACTGAAGATTGAAGATCTTGTCTCTCTAAGCAGTT
*
24175014 GTGGAGTAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * *
24175079 TAACCTTATCTCCCTGAGGTAGCAAAAGAGTAGGTTGAAGATGGTGGTCTTATCTTCCTGAGGTA
66 TAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGATGGTGGTCTTATCTTCCTGAGGTA
** * * *
24175144 GGAACGAAGCAGACTGATGATTGTAA-ATCTTAG-CTCCCTAAGCAGTT
131 ACAAGGAAGCAGACTGAAGATTG-AAGATCTT-GTCTCTCTAAGCAGTT
* * * * * * * * *
24175191 GAGAAGCAAATCGAATACGGCGAATCTTATCTCCATGTATCGGAAATGAAGTAGATTTTAGTCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * * * ** * *
24175256 TAGCATTATCTCTCTGACGTAGCAAAAAAGCAGATTGGCGATTGTAGG-CTTATCTTCTTGAGGT
66 TAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGATGGT-GGTCTTATCTTCCTGAGGT
* * *
24175320 AACAAGGAAGCAAACTGAAGATTGAAGATCTTATCTCTTTAAGCAGTT
130 AACAAGGAAGCAGACTGAAGATTGAAGATCTTGTCTCTCTAAGCAGTT
* * * *
24175368 G-GGAGCAAATTGAGGATGGCGAATCTTATCTCCATGTTTCGGCAATGGAGCAGATTTTAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
* * * ** ** * * *
24175432 TAGCCTTATCTCTCTAAGGAAGCAAGAGAGTGGGTTGGCGATTGTAGTCTTATCTTCCTGAGGCA
66 TAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGATGGTGGTCTTATCTTCCTGAGGTA
* * *
24175497 GCAAGGAAGCAGACTGAATATTGAAGATCTAT-TTTC-CTAAGCAGTT
131 ACAAGGAAGCAGACTGAAGATTGAAGATCT-TGTCTCTCTAAGCAGTT
* * * *
24175543 GTGGAGCAGATCGAGGATGGCGAATCTTATCTCCATGTATCAGCAATAGAGCAGATTTAAGCCAC
1 GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
24175608 CATCCTATTT
Statistics
Matches: 508, Mismatches: 78, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
175 11 0.02
176 193 0.38
177 299 0.59
178 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (177 bp):
GTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
TAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTGAAGATGGTGGTCTTATCTTCCTGAGGTA
ACAAGGAAGCAGACTGAAGATTGAAGATCTTGTCTCTCTAAGCAGTT
Found at i:24175773 original size:19 final size:20
Alignment explanation
Indices: 24175749--24175794 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
24175739 ATGGGCCCAT
*
24175749 AAAAAAACGAAAA-AAACAA
1 AAAAAAACCAAAATAAACAA
*
24175768 AAAAAAACCAAAATAAATAA
1 AAAAAAACCAAAATAAACAA
*
24175788 AATAAAA
1 AAAAAAA
24175795 TAAGGTCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.07
Consensus pattern (20 bp):
AAAAAAACCAAAATAAACAA
Found at i:24179062 original size:12 final size:11
Alignment explanation
Indices: 24179022--24179062 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
24179012 TTAATATTTA
24179022 AATTTCTTATTC
1 AATTTC-TATTC
24179034 AATTTCTATTC
1 AATTTCTATTC
*
24179045 AATTTCTACTTT
1 AATTTCTA-TTC
24179057 AATTTC
1 AATTTC
24179063 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:24179466 original size:4 final size:4
Alignment explanation
Indices: 24179457--24179550 Score: 59
Period size: 4 Copynumber: 22.8 Consensus size: 4
24179447 ATTTCTCCCT
* ** *
24179457 TTTC TTTC TTTC TTT- TTT- TTTCC CTTC TTTC TTTC TCCC TTGTT TTTC
1 TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTTC TT-TC TTTC
* *
24179505 GTTTC TATTC TGTTC TTTC CTTC TTT- TTTG TTTC TTTC TTTTC TTT
1 -TTTC T-TTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC -TTTC TTT
24179551 ATATCTTATA
Statistics
Matches: 71, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
3 9 0.13
4 42 0.59
5 20 0.28
ACGTcount: A:0.01, C:0.23, G:0.04, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:24179526 original size:29 final size:28
Alignment explanation
Indices: 24179457--24179550 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 28
24179447 ATTTCTCCCT
* * **
24179457 TTTCT-TTCTTTCTTTTTTTTTCCCTTC
1 TTTCTGTTCTTTCCTTCTTTTTCGTTTC
* *
24179484 TTTCT-TTC-TCCCTTGTTTTTCGTTTC
1 TTTCTGTTCTTTCCTTCTTTTTCGTTTC
*
24179510 TATTCTGTTCTTTCCTTCTTTTTTGTTTC
1 T-TTCTGTTCTTTCCTTCTTTTTCGTTTC
*
24179539 TTTCTTTTCTTT
1 TTTCTGTTCTTT
24179551 ATATCTTATA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
26 14 0.25
27 12 0.22
28 13 0.24
29 16 0.29
ACGTcount: A:0.01, C:0.23, G:0.04, T:0.71
Consensus pattern (28 bp):
TTTCTGTTCTTTCCTTCTTTTTCGTTTC
Found at i:24179954 original size:5 final size:5
Alignment explanation
Indices: 24179944--24180056 Score: 174
Period size: 5 Copynumber: 22.4 Consensus size: 5
24179934 TTATTTCATA
24179944 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
24179994 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -TAAT ATAATTT AAAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATAAT
* *
24180045 TTAAT TTAAT AT
1 ATAAT ATAAT AT
24180057 TAACCAACAT
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
4 4 0.04
5 93 0.92
7 4 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:24181628 original size:10 final size:10
Alignment explanation
Indices: 24181609--24181658 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
24181599 TTAAATTCTA
24181609 AAAGATAAAT
1 AAAGATAAAT
24181619 ATAA-ATAAAT
1 A-AAGATAAAT
*
24181629 AAAGATAATT
1 AAAGATAAAT
24181639 AAAGATAAAT
1 AAAGATAAAT
*
24181649 AAAAATAAAT
1 AAAGATAAAT
24181659 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:24187374 original size:3 final size:3
Alignment explanation
Indices: 24187368--24187409 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
24187358 GAGGAGGAAA
24187368 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
24187410 AGGAGGAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:24187414 original size:3 final size:3
Alignment explanation
Indices: 24187408--24187437 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24187398 TGGTGGTGGT
24187408 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
24187438 AATGGTGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:24187549 original size:3 final size:3
Alignment explanation
Indices: 24187541--24187589 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
24187531 CACTGTAGTT
* * * *
24187541 GTG GTG GTG GTG GTG GTG GTG GTG GGG GTG GGG GTG GGG GTG GAG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
24187589 G
1 G
24187590 AAATGGAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.02, C:0.00, G:0.73, T:0.24
Consensus pattern (3 bp):
GTG
Found at i:24197854 original size:131 final size:130
Alignment explanation
Indices: 24197664--24198061 Score: 490
Period size: 131 Copynumber: 3.0 Consensus size: 130
24197654 GATGAGATCG
* * * *
24197664 TTCATGATTTTAAATCGAATGAACTTAGGCTATAATATTAAATTAGCGAGCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAACGAGCCTTAACATTATTAG
* *
24197729 CTGTGATATTAAATCAGTGAGCTATTTAGAGTAGCAATATTAAATCAACTAACTCAAATAAAATT
66 CTGTGATATTAAATCAGTGAGCTATTTAGAGTAGCGATATTAAATCAACTAACTCAAAAAAAATT
* * * * * *
24197794 ATTTATGATATTGAATCGAATGAACTTGGGTTGTAATATTAAATCGACGAGCCTTAACATTATCA
1 -TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAACGAGCCTTAACATTATTA
** * * * * * *
24197859 GCTGCAATATTAAATCAATAAGTTAATTAAAGTAGCGGTATTAAATCAACTAACTCAAAGAAAAA
65 GCTGTGATATTAAATCAGTGAGCTATTTAGAGTAGCGATATTAAATCAACTAACTCAAA-AAAAA
24197924 TT
129 TT
* * * *
24197926 TTCATGATATTAAATTGAATGAACTTAGGCTGTGATTTTAAATCAACGATCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAACGAGCCTTAACATTATTAG
* * * * * * *
24197991 TTGTGATATTAAATCAGCGAACTATTTAGAGTAACGATATTAAATTAGCTAACTCAAAGAAAATT
66 CTGTGATATTAAATCAGTGAGCTATTTAGAGTAGCGATATTAAATCAACTAACTCAAAAAAAATT
24198056 GTTCAT
1 -TTCAT
24198062 TTTAGATAAA
Statistics
Matches: 220, Mismatches: 45, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
130 6 0.03
131 208 0.95
132 6 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (130 bp):
TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAACGAGCCTTAACATTATTAG
CTGTGATATTAAATCAGTGAGCTATTTAGAGTAGCGATATTAAATCAACTAACTCAAAAAAAATT
Found at i:24203868 original size:25 final size:25
Alignment explanation
Indices: 24203818--24203869 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
24203808 GGTTCGCCTA
* * *
24203818 CATGGTGATGCGAACTCACGTTGTG
1 CATGGTGATGCGAACCCACATGGTG
*
24203843 CATGGTGGTGCGAACCCACATGGTG
1 CATGGTGATGCGAACCCACATGGTG
24203868 CA
1 CA
24203870 ATCCCATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (25 bp):
CATGGTGATGCGAACCCACATGGTG
Found at i:24204020 original size:18 final size:18
Alignment explanation
Indices: 24203997--24204033 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24203987 GAGTAAGATT
24203997 TTCAATGTCAATTATTTA
1 TTCAATGTCAATTATTTA
24204015 TTCAATGTCAATTATTTA
1 TTCAATGTCAATTATTTA
24204033 T
1 T
24204034 AGCAGTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (18 bp):
TTCAATGTCAATTATTTA
Found at i:24205773 original size:31 final size:32
Alignment explanation
Indices: 24205705--24205773 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
24205695 TGTTTAAACC
* *
24205705 TATTTTTAATATAATTATATTTAGTTAATTCT
1 TATTTTTAATATAATTAGATTTACTTAATTCT
* *
24205737 CATTTTTAAATATAATT-GATTT-CTTAATTTT
1 TATTTTT-AATATAATTAGATTTACTTAATTCT
24205768 TATTTT
1 TATTTT
24205774 ATATTTCCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
31 12 0.39
32 10 0.32
33 9 0.29
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (32 bp):
TATTTTTAATATAATTAGATTTACTTAATTCT
Found at i:24212384 original size:29 final size:31
Alignment explanation
Indices: 24212321--24212387 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
24212311 AAAATATAAT
*
24212321 GACTAAAATTAATCAATATGTAAATTACAGA
1 GACTAAAATTAATCAATATGTAAAGTACAGA
* *
24212352 GACTAAAATTGATCAA-AT-TAAAGTACAGG
1 GACTAAAATTAATCAATATGTAAAGTACAGA
24212381 GACTAAA
1 GACTAAA
24212388 CTCACAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 16 0.48
30 2 0.06
31 15 0.45
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.25
Consensus pattern (31 bp):
GACTAAAATTAATCAATATGTAAAGTACAGA
Found at i:24213344 original size:35 final size:35
Alignment explanation
Indices: 24213298--24213368 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
24213288 CAACAACAAA
24213298 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
1 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
24213333 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
1 GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
24213368 G
1 G
24213369 ATTGAGAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (35 bp):
GTAAACCTGTGCTAGATTTTATTTTACCTACCTTG
Found at i:24213536 original size:28 final size:28
Alignment explanation
Indices: 24213504--24213559 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24213494 TAAGATAGAA
24213504 CTAAGATCTTATTAAATCAAGGGATGAT
1 CTAAGATCTTATTAAATCAAGGGATGAT
24213532 CTAAGATCTTATTAAATCAAGGGATGAT
1 CTAAGATCTTATTAAATCAAGGGATGAT
24213560 TCAACCTCTT
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:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (28 bp):
CTAAGATCTTATTAAATCAAGGGATGAT
Found at i:24228564 original size:51 final size:52
Alignment explanation
Indices: 24228433--24228580 Score: 149
Period size: 51 Copynumber: 2.8 Consensus size: 52
24228423 CAGACTTGAA
* *
24228433 AAAAATGATCCTGACATAATTGTCATATGAAA-TCTTTCAAATAAATAATTC
1 AAAAATGATCCTGACATAATTGTCATATGAAATTCTATGAAATAAATAATTC
* * * * * * **
24228484 ACACA-GATTCGGTACAGTATTCTAATCATATGAAATTCTATGAAAT-AATCTTTC
1 AAAAATGATCCTG-ACA-TAAT-T-GTCATATGAAATTCTATGAAATAAATAATTC
24228538 AAAAATGATCCTGACATAATTGTCATATGAAATTCTATGAAAT
1 AAAAATGATCCTGACATAATTGTCATATGAAATTCTATGAAAT
24228581 CATGGCATGC
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
50 5 0.07
51 27 0.36
52 4 0.05
53 4 0.05
54 22 0.29
55 13 0.17
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (52 bp):
AAAAATGATCCTGACATAATTGTCATATGAAATTCTATGAAATAAATAATTC
Found at i:24266347 original size:24 final size:26
Alignment explanation
Indices: 24266320--24266369 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
24266310 ATTTGTTTTA
24266320 ATATTTG-TTT-TTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
24266344 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
24266370 TTTTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.29
25 3 0.12
26 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:24269967 original size:10 final size:10
Alignment explanation
Indices: 24269954--24270009 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
24269944 ATAAATATAT
24269954 TAAAAAATCA
1 TAAAAAATCA
*
24269964 T-AAAAATTA
1 TAAAAAATCA
*
24269973 TCAAAAATCA
1 TAAAAAATCA
*
24269983 TAAAAATTAT-T
1 TAAAAA--ATCA
24269994 TAAAAAATCA
1 TAAAAAATCA
24270004 TAAAAA
1 TAAAAA
24270010 TTATAATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 10 0.27
10 19 0.51
11 6 0.16
12 2 0.05
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATCA
Found at i:24269968 original size:9 final size:9
Alignment explanation
Indices: 24269956--24270015 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
24269946 AAATATATTA
24269956 AAAAATCAT
1 AAAAATCAT
*
24269965 AAAAATTAT
1 AAAAATCAT
24269974 CAAAAATCAT
1 -AAAAATCAT
*
24269984 AAAAATTATTT
1 AAAAATCA--T
24269995 AAAAAATCAT
1 -AAAAATCAT
*
24270005 AAAAATTAT
1 AAAAATCAT
24270014 AA
1 AA
24270016 TATCATTTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 25 0.60
10 9 0.21
11 1 0.02
12 7 0.17
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATCAT
Found at i:24269978 original size:19 final size:19
Alignment explanation
Indices: 24269954--24270015 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
24269944 ATAAATATAT
24269954 TAAAAAATCATAAAAATTA
1 TAAAAAATCATAAAAATTA
*
24269973 TCAAAAATCATAAAAATTA
1 TAAAAAATCATAAAAATTA
24269992 TTTAAAAAATCATAAAAATTA
1 --TAAAAAATCATAAAAATTA
24270013 TAA
1 TAA
24270016 TATCATTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 21 0.54
21 18 0.46
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAAATCATAAAAATTA
Found at i:24272170 original size:20 final size:21
Alignment explanation
Indices: 24272141--24272179 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
24272131 AATACATCAT
24272141 TTTTTATTTTATT-TTATTTA
1 TTTTTATTTTATTATTATTTA
*
24272161 TTTTTCTTTTATTATTATT
1 TTTTTATTTTATTATTATT
24272180 GCTTAGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTATTATTATTTA
Found at i:24277030 original size:10 final size:10
Alignment explanation
Indices: 24277003--24277052 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
24276993 TTAAATTCTA
24277003 AAAGATAAAT
1 AAAGATAAAT
24277013 ACAA-ATAAAT
1 A-AAGATAAAT
*
24277023 AAAGATAATT
1 AAAGATAAAT
* *
24277033 AAAGACAATT
1 AAAGATAAAT
24277043 AAAGATAAAT
1 AAAGATAAAT
24277053 GCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:24283431 original size:71 final size:71
Alignment explanation
Indices: 24283353--24283494 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
24283343 CAAACAATCC
* * *
24283353 CAAAATGTACAAACAGTCCAAAAATAACAAAACTCATAAAGTCAAAGCAAATAGAATAATTAACT
1 CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
24283418 AATTAA
66 AATTAA
*
24283424 CAAAATGTACAAATAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
1 CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
24283489 AATTAA
66 AATTAA
24283495 GTTTTAATCG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.58, C:0.15, G:0.07, T:0.19
Consensus pattern (71 bp):
CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
AATTAA
Found at i:24289642 original size:6 final size:6
Alignment explanation
Indices: 24289633--24289680 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
24289623 GAAGTCTAAG
*
24289633 AAAATA AAAATA AACATA AAAATA AAAATA AAAAT- AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
24289679 AA
1 AA
24289681 TGGACTCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 10 0.26
6 29 0.74
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:24293405 original size:6 final size:6
Alignment explanation
Indices: 24293375--24293505 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
24293365 AAGAAACATT
* * * *
24293375 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGG ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
24293424 ATCAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
24293473 ATCAGT ATCAGATA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAG--A ATCAGA ATCAGA ATCAGA AT
24293506 GTGAATGCAA
Statistics
Matches: 97, Mismatches: 17, Indels: 22
0.71 0.12 0.16
Matches are distributed among these distances:
5 6 0.06
6 79 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:24293431 original size:31 final size:31
Alignment explanation
Indices: 24293396--24293505 Score: 112
Period size: 31 Copynumber: 3.4 Consensus size: 31
24293386 AATCAAAATG
*
24293396 AGAATCAGAATCAGGATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
24293427 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* * * *
24293464 AGAATCAGAATCAGTATCAGATAATAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
24293495 AAAATCAGAAT
1 AGAATCAGAAT
24293506 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
31 37 0.55
37 30 0.45
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:24293437 original size:37 final size:37
Alignment explanation
Indices: 24293384--24293484 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
24293374 TATCAGAACT
* * *
24293384 AGAATCAAAATGAGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
24293421 AGAATCAGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
*
24293458 AGAATCAGAATCAGAATCAGTATCAGA
1 AGAATCAGAATCAGAATCAGAATCAGA
24293485 TAATAGAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:24293501 original size:37 final size:36
Alignment explanation
Indices: 24293359--24293505 Score: 110
Period size: 37 Copynumber: 4.2 Consensus size: 36
24293349 TAGCCCATTA
* * * *
24293359 CAGAATAAGAAACATTATCAGAACTAGAATCAAAAT
1 CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
* * * *
24293395 GAGAATCAGAATCAGGATCAG--GT-G-A-CAGAAT
1 CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
* * *
24293426 CAGAATCAGAATCAGAATCA-AAATTAG-GTGACAGAAT
1 CAGAATCAGAATCAGTATCAGAAA-TAGAAT--CAAAAT
24293463 CAGAATCAGAATCAGTATCAGATAATAGAATCAAAAT
1 CAGAATCAGAATCAGTATCAGA-AATAGAATCAAAAT
24293500 CAGAAT
1 CAGAAT
24293506 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 19
0.73 0.12 0.16
Matches are distributed among these distances:
31 23 0.26
32 1 0.01
33 2 0.02
34 2 0.02
36 16 0.18
37 36 0.41
38 4 0.05
39 3 0.03
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (36 bp):
CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
Found at i:24293671 original size:27 final size:26
Alignment explanation
Indices: 24293623--24293680 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
24293613 GCGAGGCTGC
*
24293623 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
24293650 CAGATATTGTGGCGGAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
24293676 CAGAT
1 CAGAT
24293681 GTATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:24294040 original size:27 final size:27
Alignment explanation
Indices: 24294010--24294608 Score: 702
Period size: 27 Copynumber: 22.2 Consensus size: 27
24294000 AACACCCTAG
* *
24294010 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * *
24294037 GGGTAAAACAGTAATTCTATAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294064 GGGTAAAATTGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** * *
24294091 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
24294118 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294145 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294172 GGGTAAAA-CGATAATTTTATAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* *
24294199 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
24294226 GGGTAAAAT-GATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
24294253 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
24294280 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * * *
24294307 TGATAAAATAGTAATTTTGTAGATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
24294334 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294361 GGGTAAAA-CGATAATTTTTTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* **
24294388 AGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294415 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
24294442 TGGTAAAATAATAATTTTGTAATTCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294469 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294496 GGGTAAAATTGTAATTTTTTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294523 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
24294550 GAGTAAAAT-GATAATTCTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* * * *
24294577 TGGTAAAACAGTAATTCTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
24294604 GGGTA
1 GGGTA
24294609 CTTTGGTAAT
Statistics
Matches: 491, Mismatches: 73, Indels: 16
0.85 0.13 0.03
Matches are distributed among these distances:
26 4 0.01
27 483 0.98
28 4 0.01
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:24294619 original size:54 final size:54
Alignment explanation
Indices: 24294010--24294635 Score: 777
Period size: 54 Copynumber: 11.6 Consensus size: 54
24294000 AACACCCTAG
* * *
24294010 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * *
24294064 GGGTAAAATTGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * *
24294118 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * * *
24294172 GGGTAAAACGATAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* ** *
24294226 GGGTAAAATGATAATTTTGTAAATCGAGGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * * * * * *
24294280 GGGTAAAATAGTAATTCTGTAAATCGATGATAAAATAGTAATTTTGTAGATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * *
24294334 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGA
* *
24294388 AGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* ** *
24294442 TGGTAAAATAATAATTTTGTAATTCGAGGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* *
24294496 GGGTAAAATTGTAATTTTTTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
* * * * *
24294550 GAGTAAAATGATAATTCTGTAAATCGATGGTAAAACAGTAATTCTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
*** ** *
24294604 GGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTA
24294636 TTTTAGTAAT
Statistics
Matches: 503, Mismatches: 67, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 501 1.00
55 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.32
Consensus pattern (54 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGA
Found at i:24296258 original size:29 final size:29
Alignment explanation
Indices: 24296216--24296280 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
24296206 CTAGTACTCA
*
24296216 CCACAAAGGCTTTC-TTATCCAGAGTTGTG
1 CCACAAAAGCTTTCATT-TCCAGAGTTGTG
* *
24296245 CCACAAAAGCTTTCATTTCCGGAGTTTTG
1 CCACAAAAGCTTTCATTTCCAGAGTTGTG
24296274 CCACAAA
1 CCACAAA
24296281 GGTTGTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (29 bp):
CCACAAAAGCTTTCATTTCCAGAGTTGTG
Found at i:24296521 original size:53 final size:53
Alignment explanation
Indices: 24296464--24296589 Score: 173
Period size: 53 Copynumber: 2.4 Consensus size: 53
24296454 TTAGTTGCAA
* * *
24296464 TCTTACATGATATGGTCTTTTTTCCATATGAT-TTCATAACCCATCAGTTACGG
1 TCTTACACGATATGGTCTTCTTTCCATATGATGTT-ATAACCCACCAGTTACGG
* * * *
24296517 TCTTACACAATATGGTATTCTTTCCATATGATGTTGTAACCCACCAGTTATGG
1 TCTTACACGATATGGTCTTCTTTCCATATGATGTTATAACCCACCAGTTACGG
24296570 TCTTACACGATATGGTCTTC
1 TCTTACACGATATGGTCTTC
24296590 AGCGTCATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 61 0.97
54 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (53 bp):
TCTTACACGATATGGTCTTCTTTCCATATGATGTTATAACCCACCAGTTACGG
Found at i:24315245 original size:17 final size:17
Alignment explanation
Indices: 24315224--24315263 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
24315214 TAAAGAAATA
24315224 ATATTATTAAAAATATTT
1 ATATTA-TAAAAATATTT
*
24315242 -TATTATATAAATATTT
1 ATATTATAAAAATATTT
24315258 ATATTA
1 ATATTA
24315264 AAGTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTATAAAAATATTT
Found at i:24315283 original size:3 final size:3
Alignment explanation
Indices: 24315270--24315305 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
24315260 ATTAAAGTAT
24315270 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24315306 AACACAACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24323803 original size:16 final size:16
Alignment explanation
Indices: 24323766--24323803 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24323756 ATTTTGATGA
*
24323766 TATTTTTAATTATTTT
1 TATTTTTAATTATGTT
24323782 TATTTTTAATTAATGTT
1 TATTTTTAATT-ATGTT
24323799 T-TTTT
1 TATTTT
24323804 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTTTTAATTATGTT
Found at i:24326311 original size:13 final size:12
Alignment explanation
Indices: 24326277--24326319 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
24326267 GCCGAGGTAT
24326277 TTTTAATTTCTG
1 TTTTAATTTCTG
24326289 TTTTCCAATTTCTG
1 TTTT--AATTTCTG
*
24326303 CTTTTAATTTCTA
1 -TTTTAATTTCTG
24326316 TTTT
1 TTTT
24326320 TCAAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 8 0.30
15 4 0.15
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.65
Consensus pattern (12 bp):
TTTTAATTTCTG
Found at i:24326381 original size:100 final size:101
Alignment explanation
Indices: 24326216--24326484 Score: 382
Period size: 100 Copynumber: 2.7 Consensus size: 101
24326206 TCAATTTATG
* * *
24326216 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
* ** *
24326281 AATTTCTGTTTTCCAA-TTTCTGCTTTTAATTTCTA
66 AATTTCTGTTTTCCAATTTTCTCCTTACAAATTCTA
* * *
24326316 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGGCACGCTAAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
* * *
24326381 AATTTCTGTTTTTCAATTTTTTCCTTACAAATTCTG
66 AATTTCTGTTTTCCAATTTTCTCCTTACAAATTCTA
* *
24326417 CTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
24326480 AATTT
66 AATTT
24326485 TCATTTTTTT
Statistics
Matches: 150, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
99 58 0.39
100 74 0.49
101 18 0.12
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (101 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
AATTTCTGTTTTCCAATTTTCTCCTTACAAATTCTA
Found at i:24326492 original size:99 final size:97
Alignment explanation
Indices: 24326214--24326573 Score: 348
Period size: 100 Copynumber: 3.7 Consensus size: 97
24326204 TTTCAATTTA
* * * *
24326214 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTT
1 TGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
* * * * * *
24326279 TTAATTTCTGTTTTCCAATTTCTGCTTTTAATTTC
65 TCAATTTCT-TTTT-CAATTTTTTCCTTAAAATTC
** * * *
24326314 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGGCACGCTAAGGTATTT
1 TGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
*
24326379 TTAATTTCTGTTTTTCAATTTTTTCCTTACAAATTC
65 TCAATTTC--TTTTTCAATTTTTTCCTTA-AAATTC
24326415 TGCTTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
* *
24326479 CAA-----TTTTC-A-TTTTT--TT-AATTTA
66 CAATTTCTTTTTCAATTTTTTCCTTAAAATTC
* * *
24326501 TG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
1 TGCTTT-T--CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
*
24326565 GTTCAATTT
63 TTTCAATTT
24326574 TTGTTTGTCA
Statistics
Matches: 226, Mismatches: 24, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
85 3 0.01
86 7 0.03
88 2 0.01
89 56 0.25
90 5 0.02
91 1 0.00
92 5 0.02
99 55 0.24
100 76 0.34
101 15 0.07
102 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (97 bp):
TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
CAATTTCTTTTTCAATTTTTTCCTTAAAATTC
Found at i:24326686 original size:148 final size:148
Alignment explanation
Indices: 24326490--24327071 Score: 719
Period size: 148 Copynumber: 3.9 Consensus size: 148
24326480 AATTTTCATT
* * * * *
24326490 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * *
24326554 CGCTGAGGTAAGTTCAATTTTTGTTTGTCAAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
24326619 TCAAGACACGTTGAGGTA
131 TCAAGACACGTTGAGGTA
* * *
24326637 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
24326702 CGCTGAGGTAATTTCAATTTTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
24326767 TCAAGACACGTTGAGGTA
131 TCAAGACACGTTGAGGTA
* * *
24326785 TTTTCAATTTCTGTCTTT-AAAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGTTTTTCAAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * * * * *
24326849 ACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGA
65 ACGCTGAGGTAATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCAAGAGGTGAGTTGA
* *
24326914 ACCTCAAG--ACGCTGAGGTA
128 GCCTCAAGACACGTTGAGGTA
* * * * *
24326933 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * * *
24326996 CGTTGAGGTATTTTCAATTTCTGTCTT-TAAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTT
66 CGCTGAGGTAATTTCAATTTTTGT-TTGT----CAAAAATCAACTCATATTGCAAGAGGTGAGTT
*
24327060 GAACCTCAAGAC
126 GAGCCTCAAGAC
24327072 GCTGAGATGT
Statistics
Matches: 385, Mismatches: 38, Indels: 21
0.87 0.09 0.05
Matches are distributed among these distances:
146 62 0.16
147 24 0.06
148 261 0.68
150 38 0.10
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (148 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
TCAAGACACGTTGAGGTA
Found at i:24326694 original size:75 final size:75
Alignment explanation
Indices: 24326490--24327071 Score: 736
Period size: 73 Copynumber: 7.9 Consensus size: 75
24326480 AATTTTCATT
* * * * *
24326490 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
24326554 CGCTGAGGTA
66 CGTTGAGGTA
** * * * * *
24326564 AGTTCAATTTTTGTTTGTC--AAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
24326627 CGTTGAGGTA
66 CGTTGAGGTA
* * *
24326637 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
24326702 CGCTGAGGTA
66 CGTTGAGGTA
* *
24326712 ATTTCAATTT-TGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
24326774 ACGTTGAGGTA
65 ACGTTGAGGTA
* * *
24326785 TTTTCAATTTCTGTCTTT-AAAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGTTTTTCAAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
24326849 ACGTTGAGGTA
65 ACGTTGAGGTA
* * *
24326860 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
24326923 CGCTGAGGTA
66 CGTTGAGGTA
* * * * *
24326933 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
24326996 CGTTGAGGTA
66 CGTTGAGGTA
** * *
24327006 TTTTCAATTTCTGTCTTTAAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
1 TTTTCAATTTCTGT-TTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
24327071 C
64 C
24327072 GCTGAGATGT
Statistics
Matches: 437, Mismatches: 56, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
71 36 0.08
73 174 0.40
74 20 0.05
75 163 0.37
76 5 0.01
77 39 0.09
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGTTGAGGTA
Found at i:24326934 original size:221 final size:221
Alignment explanation
Indices: 24326510--24327071 Score: 878
Period size: 221 Copynumber: 2.5 Consensus size: 221
24326500 ATGTTTCTAA
* * * ** *
24326510 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAAGTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * * * *
24326575 TGT-TTGT-CAAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TGTCTT-TAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
* *
24326638 TTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACAC
130 TTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCA-GACAC
24326703 GCTGAGGTAATTTCAATTTTGGTTTGTC
194 GCTGAGGTAATTTCAATTTTGGTTTGTC
24326731 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
24326796 TGTCTTTAAAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
66 TGTCTTTAAAAA-AATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
* *
24326861 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCA-AGACG
130 TTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCAGACACG
*
24326925 CTGAGGTAATTTCAATTTTTGTTTGTC
195 CTGAGGTAATTTCAATTTTGGTTTGTC
* *
24326952 AAAAATCAACTCATATTACGAGAGGTGAATTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
24327017 TGTCTTTAAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
66 TGTCTTT---AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
24327072 GCTGAGATGT
Statistics
Matches: 316, Mismatches: 19, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
221 163 0.52
222 5 0.02
223 143 0.45
224 5 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (221 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATT
TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCAGACACGC
TGAGGTAATTTCAATTTTGGTTTGTC
Found at i:24327208 original size:15 final size:14
Alignment explanation
Indices: 24327172--24327204 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24327162 CGCTGAGGTA
24327172 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
24327186 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
24327200 TTTTC
1 TTTTC
24327205 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:24327222 original size:91 final size:91
Alignment explanation
Indices: 24327092--24327555 Score: 295
Period size: 91 Copynumber: 5.0 Consensus size: 91
24327082 TTTCCATTTA
* * * * * *
24327092 TGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGAC
1 TGTTTTTCAATTTATGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA-
24327157 TCACACGCTGAGGTATTTTCAAATTC-
65 TCACACGCTGAGGTATTTTCAAATTCT
* *
24327183 TGTTTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCC-TCA
1 TGTTTTTC-AATTTATGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA
** ** *
24327246 GGACACGCTGAAATATTTTCAATTTCTTT
65 TCACACGCTGAGGTATTTTCAAATTC--T
* * * * *
24327275 TTTTTTTCAATTTATGTTTGT-CAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGA
1 TGTTTTTCAATTTATGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGA
* * *
24327339 TCACATGCCGAGGTATTTTCAATTGATTTT
65 TCACACGCTGAGGTATTTTCAA---ATTCT
* * * * * *
24327369 TATTTTT-ATTTTTTTTTCAATTTATGCTTTGC-AAAAATCAACTCATATTACGAGAGATGAGTT
1 TGTTTTTCA-----ATTT--ATGT-T--TTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * ** * *
24327432 GAGCCTCGGGTCACATACCGAGGTATTTTCAAAATCT
56 GAGCCT-TGATCACACGCTGAGGTATTTTCAAATTCT
* *
24327469 T-TTTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGG
1 TGTTTTTC-AATTTATGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-G
* ** * *
24327528 CTCACGTGCTGAGCTATTTTCAATTTCT
64 ATCACACGCTGAGGTATTTTCAAATTCT
24327556 ATTTTTAATG
Statistics
Matches: 295, Mismatches: 54, Indels: 52
0.74 0.13 0.13
Matches are distributed among these distances:
87 56 0.19
89 24 0.08
90 2 0.01
91 89 0.30
92 18 0.06
93 19 0.06
94 7 0.02
96 5 0.02
98 3 0.01
99 4 0.01
100 7 0.02
101 2 0.01
103 58 0.20
104 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (91 bp):
TGTTTTTCAATTTATGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAT
CACACGCTGAGGTATTTTCAAATTCT
Found at i:24327334 original size:182 final size:178
Alignment explanation
Indices: 24327028--24327360 Score: 420
Period size: 182 Copynumber: 1.8 Consensus size: 178
24327018 GTCTTTAAAA
* * * * * *
24327028 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGATGTTTTCCATTTAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAAATATTTTCAATTTAT
* * * * *
24327093 GTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGAC
66 GTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGA-
*
24327157 TCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
130 TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
*
24327206 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAAATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCA--ACACGCTGAAATATTTTCAA--T
* * * *
24327271 CTTTTTTTTTTCAATTTATGT-TTGTC-AAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCC
62 -TTATGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
*
24327334 TCAGATCACATGCCGAGGTATTTTCAA
125 TCAGATCACACGCCGAGGTATTTTCAA
24327361 TTGATTTTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
178 37 0.28
180 16 0.12
182 57 0.44
183 20 0.15
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (178 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAAATATTTTCAATTTAT
GTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGAT
CACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
Found at i:24327446 original size:103 final size:104
Alignment explanation
Indices: 24327273--24327463 Score: 296
Period size: 103 Copynumber: 1.8 Consensus size: 104
24327263 TTCAATTTCT
* * *
24327273 TTTTTTTTTCAATTTATGTTTGTCAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCAG
1 TTTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGATGAGTTGAGCCTCAG
*
24327338 ATCACATGCCGAGGTATTTTCAATTGATTTTTATTTTTA
66 ATCACATACCGAGGTATTTTCAATTGATTTTTATTTTTA
* *
24327377 TTTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTCG
1 TTTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACAAGAGATGAGTTGAGCCTCA
*
24327440 GGTCACATACCGAGGTATTTTCAA
65 GATCACATACCGAGGTATTTTCAA
24327464 AATCTTTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 56 0.71
104 19 0.24
105 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (104 bp):
TTTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGATGAGTTGAGCCTCAG
ATCACATACCGAGGTATTTTCAATTGATTTTTATTTTTA
Found at i:24327546 original size:87 final size:87
Alignment explanation
Indices: 24327401--24327628 Score: 237
Period size: 87 Copynumber: 2.6 Consensus size: 87
24327391 TATGCTTTGC
* * *
24327401 AAAAATCAACTCATATTACGAG-AGATGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAA
*
24327465 ATCT-TTTTTACAAATTTTGTTTT
65 ATCTATTTTTA-AAATTTAGTTTT
* * * * **
24327488 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
**
24327553 TCTATTTTTAATGTTTAGTTTT
66 TCTATTTTTAAAATTTAGTTTT
* * * * * *
24327575 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACATACCGAG
24327629 TAAAGAATAA
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
87 70 0.60
88 47 0.40
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATACCGAGCTATTTTCAAAA
TCTATTTTTAAAATTTAGTTTT
Found at i:24327700 original size:21 final size:21
Alignment explanation
Indices: 24327676--24327720 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
24327666 TTTATATCCC
24327676 TGAAGTTACAGTGAAGCTAAT
1 TGAAGTTACAGTGAAGCTAAT
* * *
24327697 TGAAGTTGCAGTGGAGCTGAT
1 TGAAGTTACAGTGAAGCTAAT
24327718 TGA
1 TGA
24327721 TGATATCAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (21 bp):
TGAAGTTACAGTGAAGCTAAT
Found at i:24328275 original size:18 final size:18
Alignment explanation
Indices: 24328252--24328305 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
24328242 CCACCACCAA
24328252 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
24328270 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
24328282 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
24328300 CTCCAC
1 CTCCAC
24328306 CACCTACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:24328278 original size:30 final size:30
Alignment explanation
Indices: 24328242--24328340 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
24328232 CTAGCCTTTG
24328242 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
24328272 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
24328302 CCACCACCTACTCTATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
24328332 CCATCACCA
1 CCACCACCA
24328341 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.25, C:0.48, G:0.06, T:0.20
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:24328835 original size:23 final size:23
Alignment explanation
Indices: 24328798--24328927 Score: 79
Period size: 25 Copynumber: 5.5 Consensus size: 23
24328788 CTTTTTTTGT
24328798 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
24328821 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
24328843 TATTAGGTATATTCTAAAT-TCTA
1 TATTATATATATTCTTAATAT-TA
*
24328866 TATTACGTATATATATATT-ATATTA
1 TATTA--TATATAT-TCTTAATATTA
* * *
24328891 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATATTA
*
24328916 TATTATTTATAT
1 TATTATATATAT
24328928 ATATTTTTTC
Statistics
Matches: 81, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 28 0.35
26 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:24328900 original size:25 final size:25
Alignment explanation
Indices: 24328863--24329023 Score: 87
Period size: 25 Copynumber: 6.4 Consensus size: 25
24328853 ATTCTAAATT
*
24328863 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATAT-TTAATA
* * *
24328888 TTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * *
24328913 CTATATTATTTATATATATTT-TTT
1 CTATATTATGTATATATATTTAATA
* *
24328937 CTACATGTTATCTTATGTATATATTTAAT-
1 CT--ATATTAT-GTA--TATATATTTAATA
* * * *
24328966 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
* * *
24328990 CTATATTATGTACATATTTTTTATA
1 CTATATTATGTATATATATTTAATA
*
24329015 CTATTTTAT
1 CTATATTAT
24329024 ACATATGTAT
Statistics
Matches: 105, Mismatches: 22, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
23 8 0.08
24 5 0.05
25 66 0.63
26 12 0.11
27 3 0.03
28 1 0.01
29 9 0.09
30 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:24328968 original size:21 final size:21
Alignment explanation
Indices: 24328944--24328983 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24328934 TTTCTACATG
*
24328944 TTATCTTATGTATATATTTAA
1 TTATATTATGTATATATTTAA
*
24328965 TTATATTATGTATGTATTT
1 TTATATTATGTATATATTT
24328984 TTTACACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (21 bp):
TTATATTATGTATATATTTAA
Found at i:24328968 original size:77 final size:78
Alignment explanation
Indices: 24328875--24329048 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 78
24328865 ATATTACGTA
* * * *
24328875 TATATATATTATATTATTTTATGTATATATCTTTAATACTATATTATTTATATATATTTTTTCTA
1 TATATAT-TTATATTATATTATGTATATATCTTTAACACTATATTA--TATACATATTTTTTATA
*
24328940 C-ATGTTAT-CTTATG
63 CTATGTTATACATATG
* * * *
24328954 TATATATTTA-ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTATACTA
1 TATATATTTATATTATATTATGTATATATCTTTAACACTATATTATATACATATTTTTTATACTA
*
24329018 TTTTATACATATG
66 TGTTATACATATG
24329031 TATATA-TTATA-TATATTA
1 TATATATTTATATTATATTA
24329049 ACATTACTAG
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
75 15 0.18
76 16 0.20
77 41 0.50
78 3 0.04
79 7 0.09
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (78 bp):
TATATATTTATATTATATTATGTATATATCTTTAACACTATATTATATACATATTTTTTATACTA
TGTTATACATATG
Found at i:24329096 original size:25 final size:24
Alignment explanation
Indices: 24329068--24329123 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
24329058 GTTATATTTT
*
24329068 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
24329093 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
24329116 CACTATTA
1 CACTATTA
24329124 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:24329398 original size:261 final size:258
Alignment explanation
Indices: 24328980--24329502 Score: 994
Period size: 261 Copynumber: 2.0 Consensus size: 258
24328970 TTATGTATGT
24328980 ATTTTTTACACTATATTATGTACATATTTTTTATACTATTTTATACATATGTATATATTATATAT
1 ATTTTTTACACTATATTATGTACATATTTTTTATACTATTTTATACATATGTATATATTATATAT
24329045 ATTAACATTACTAGTTATATTTTCACTATTTTATGTATATACTTCAAACACTATATATAGTATAT
66 ATTAACATTACTAGTTATATTTTCACTATTTTATGTATATACTTCAAACAC-ATATATAGTATAT
24329110 TTCTAACACTATTACTATTTATAAATATATATATATTTTACGTACATACTCTTAATATCTTTATT
130 TTCTAACACTATTACTATTTATAAATATATATATATTTTACGTACATACTCTTAATATCTTTATT
24329175 TTGTATATATTCGTTGTTTTTATTTCACATTGGATACTATTATTACGTTTAATATATCGCATGC
195 TTGTATATATTCGTTGTTTTTATTTCACATTGGATACTATTATTACGTTTAATATATCGCATGC
24329239 ATTTTTTACACTATATTATGTACATATTTTTTTATAACTATTTTATACATATGTATATATTATAT
1 ATTTTTTACACTATATTATGTACATA-TTTTTTAT-ACTATTTTATACATATGTATATA-T-TAT
24329304 ATATATTAACATTACTAGTTATATTTTCACTATTTTATGTATATACTTCAAACAC-TATATAGTA
62 ATATATTAACATTACTAGTTATATTTTCACTATTTTATGTATATACTTCAAACACATATATAGTA
24329368 TATTTCTAACACTATTACTATTTATAAATATATATATATTTTACGTACATACTCTTAATATCTTT
127 TATTTCTAACACTATTACTATTTATAAATATATATATATTTTACGTACATACTCTTAATATCTTT
24329433 ATTTTGTATATATTCGTTGTTTTTATTTCACATTGGATACTATTATTACGTTTAATATATCGCAT
192 ATTTTGTATATATTCGTTGTTTTTATTTCACATTGGATACTATTATTACGTTTAATATATCGCAT
24329498 GC
257 GC
24329500 ATT
1 ATT
24329503 GTTATTGTTT
Statistics
Matches: 260, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
259 26 0.10
260 8 0.03
261 167 0.64
262 1 0.00
263 58 0.22
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.50
Consensus pattern (258 bp):
ATTTTTTACACTATATTATGTACATATTTTTTATACTATTTTATACATATGTATATATTATATAT
ATTAACATTACTAGTTATATTTTCACTATTTTATGTATATACTTCAAACACATATATAGTATATT
TCTAACACTATTACTATTTATAAATATATATATATTTTACGTACATACTCTTAATATCTTTATTT
TGTATATATTCGTTGTTTTTATTTCACATTGGATACTATTATTACGTTTAATATATCGCATGC
Found at i:24341516 original size:18 final size:18
Alignment explanation
Indices: 24341493--24341532 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
24341483 TTTTAATTTT
24341493 ATAATTTGAATAACTCAA
1 ATAATTTGAATAACTCAA
*
24341511 ATAATTTGAATAACTCGA
1 ATAATTTGAATAACTCAA
24341529 ATAA
1 ATAA
24341533 CAGATTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (18 bp):
ATAATTTGAATAACTCAA
Found at i:24350702 original size:43 final size:42
Alignment explanation
Indices: 24350652--24350799 Score: 161
Period size: 43 Copynumber: 3.5 Consensus size: 42
24350642 TATCCCGGAT
* *
24350652 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCA-ATATCGATGCCAATGTCCCAGAC
* * * *
24350695 AGGGTCTTACATGAAATCGATTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATC-AATATCGATGCCAATGTCCCAGAC
* * * * *
24350738 ATGGTCTTACACGTAATCAAAATACAATGCTAATGTTCCAGAC
1 ATGGTCTTACATGTAATCAATAT-CGATGCCAATGTCCCAGAC
*
24350781 ATAGTCTTACATGTAATCA
1 ATGGTCTTACATGTAATCA
24350800 CAGCTCGGTA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.02
43 83 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCAATATCGATGCCAATGTCCCAGAC
Found at i:24353133 original size:23 final size:23
Alignment explanation
Indices: 24353103--24353227 Score: 95
Period size: 23 Copynumber: 5.8 Consensus size: 23
24353093 GCTTTGCCGA
*
24353103 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACTTCATGTGTCATATT
* * *
24353126 TCAGGCACTTTATGTATCGTATT
1 TCAGGCACTTCATGTGTCATATT
* * *
24353149 TTAGGCACCTCATGTGT-GTA--
1 TCAGGCACTTCATGTGTCATATT
* *
24353169 TCAGGCACCTCGTGTGTCATA--
1 TCAGGCACTTCATGTGTCATATT
* *
24353190 TCAGGTACTTCGTGTGTC--ATT
1 TCAGGCACTTCATGTGTCATATT
24353211 TCAGGCACTT-ATGTGTC
1 TCAGGCACTTCATGTGTC
24353228 GTATACTGAT
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.01
20 21 0.24
21 27 0.31
22 3 0.03
23 34 0.40
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (23 bp):
TCAGGCACTTCATGTGTCATATT
Found at i:24353193 original size:21 final size:21
Alignment explanation
Indices: 24353151--24353218 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
24353141 ATCGTATTTT
* *
24353151 AGGCACCTCATGTGT-GTATC
1 AGGCACCTCGTGTGTCATATC
24353171 AGGCACCTCGTGTGTCATATC
1 AGGCACCTCGTGTGTCATATC
* * *
24353192 AGGTACTTCGTGTGTCATTTC
1 AGGCACCTCGTGTGTCATATC
24353213 AGGCAC
1 AGGCAC
24353219 TTATGTGTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (21 bp):
AGGCACCTCGTGTGTCATATC
Found at i:24366281 original size:14 final size:14
Alignment explanation
Indices: 24366262--24366292 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24366252 CAAAACCAGA
24366262 AATAAAACTAAAAT
1 AATAAAACTAAAAT
24366276 AATAAAACTAAAAT
1 AATAAAACTAAAAT
24366290 AAT
1 AAT
24366293 CAAGTCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAAACTAAAAT
Found at i:24366587 original size:12 final size:13
Alignment explanation
Indices: 24366565--24366596 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24366555 GCAATGAAAT
24366565 TTTTA-TTATTTA
1 TTTTATTTATTTA
24366577 -TTTATTTATTTA
1 TTTTATTTATTTA
24366589 TTTTATTT
1 TTTTATTT
24366597 TTTCAGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 7 0.39
13 7 0.39
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:24373138 original size:26 final size:27
Alignment explanation
Indices: 24373072--24373140 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 27
24373062 AAACAGATCG
24373072 AAAT-AAAAAAATCAAAATCAAAACAAA
1 AAATCAAAAAAAT-AAAATCAAAACAAA
* * * *
24373099 AAA-CAAGAAGATAAATTTAAAA-AAA
1 AAATCAAAAAAATAAAATCAAAACAAA
24373124 AAATCAAAAAAATAAAA
1 AAATCAAAAAAATAAAA
24373141 AAAAGAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
25 6 0.18
26 18 0.55
27 9 0.27
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (27 bp):
AAATCAAAAAAATAAAATCAAAACAAA
Found at i:24374349 original size:64 final size:64
Alignment explanation
Indices: 24374271--24374526 Score: 413
Period size: 64 Copynumber: 4.0 Consensus size: 64
24374261 TCATTCATAA
* * *
24374271 CACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
24374335 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
24374399 TACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
24374463 CACATCTAGTTAGGAGTATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
24374527 GATACATGGA
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 176 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:24374505 original size:128 final size:128
Alignment explanation
Indices: 24374272--24374526 Score: 474
Period size: 128 Copynumber: 2.0 Consensus size: 128
24374262 CATTCATAAC
24374272 ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
1 ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
24374337 CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATT
66 CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATT
* *
24374400 ACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
1 ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
* *
24374465 CATCTAGTTAGGAGTATTTGATTCATTTTGATCATAGCATCCTAATTATTTGGCATAAGCAT
66 CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCAT
24374527 GATACATGGA
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 123 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (128 bp):
ACATCTAGTTAGGAGCATGTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAGCATCA
CATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATT
Found at i:24374675 original size:45 final size:45
Alignment explanation
Indices: 24374592--24374708 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 45
24374582 GTGAGGTCAG
* * * *
24374592 ATCTTATTTCTCTGAAGTTGCAGTAGAGTAGATCGAAGATTA-CAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGA-TAGCAA
*
24374637 A-CTTTATCTCCCTGAAGTTGCAGTGGAGCAGAAT-GAAGATAGCGA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAG-ATCGAAGATAGCAA
* *
24374682 ATCTTATTTCCCTGAAGTTGTAGTGGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGA
24374709 ATAGATAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
44 3 0.05
45 55 0.90
46 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAA
Found at i:24375392 original size:177 final size:177
Alignment explanation
Indices: 24375089--24375769 Score: 848
Period size: 177 Copynumber: 3.8 Consensus size: 177
24375079 CCACTAGTAG
* * *
24375089 GAGAGCAGGTTGACGATTGTAGTCTTATTTTCCTGAGGTAGCAATGAAGCATG-CTGAAGATTGA
1 GAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA-GACTGAAGATTGA
* * * * * * * *
24375153 GGTTTTTATCTCCTTGAGCAACTGTGGAGCAGATTGAAGATGGTGAATCTTATCTCCATGTATCG
65 AGATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCG
* * * *
24375218 GCAATGGAGTAAATTTTAGCCGCTAGCCATATCTCTTTGAGGTACCAA
130 GCAATGGAGCAGATTTTAGCCGCTAGCCATATCTCTCTGAGGTAGCAA
* * *
24375266 GAGAGCAGGTTGGCGATTGTACTTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGAA
1 GAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
* * * * * * * * *
24375331 GATCTTATCTCCTTCAGCAGCTGTGGGGAAAATCGAAGATGGCGAATTTTATTTTCATGTATCAG
66 GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG
* *
24375396 CAATAGAGCAGATTTTAG-CGACTACCCA-AGTCTCTCTGAGGTAGCAA
131 CAATGGAGCAGATTTTAGCCG-CTAGCCATA-TCTCTCTGAGGTAGCAA
* * *
24375443 GAGAGAAGGTTGGTGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGGATTGAA
1 GAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
* * *
24375508 GATCTTATCTCCCTAAGCAGTTGTAGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGA
66 GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG
** * **
24375573 CAATGGAGCAGATTTTAGCCATTAGCCTTATCTCTCCAAGGTAGCAA
131 CAATGGAGCAGATTTTAGCCGCTAGCCATATCTCTCTGAGGTAGCAA
* * * *
24375620 GAGAGCAGGTTGGAGATTGTAGTCTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAA
1 GAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
* * * *
24375685 AATCTTATCTCCCTAAGCAGTTGTGGAGTAGATC-AAGGATGGCGAATCTTATCTCCATGTATTG
66 GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAA-GATGGCGAATCTTATCTCCATGTATCG
* *
24375749 GAAATGGAGCAGATTTAAGCC
130 GCAATGGAGCAGATTTTAGCC
24375770 ACCAGTCCTA
Statistics
Matches: 434, Mismatches: 64, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
176 6 0.01
177 426 0.98
178 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (177 bp):
GAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAA
GATCTTATCTCCCTAAGCAGCTGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATCGG
CAATGGAGCAGATTTTAGCCGCTAGCCATATCTCTCTGAGGTAGCAA
Found at i:24375681 original size:44 final size:45
Alignment explanation
Indices: 24375599--24375701 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 45
24375589 AGCCATTAGC
* * ** * * *
24375599 CTTATCTCTCC-AAGGTAGCAAGAGAGCAGGTTGGAGATTG-TAGT
1 CTTATCT-TCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
24375643 CTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
1 CTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
*
24375688 CTTATCTCCCTAAG
1 CTTATCTTCCTAAG
24375702 CAGTTGTGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 3 0.06
44 31 0.63
45 15 0.31
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (45 bp):
CTTATCTTCCTAAGGTAACAAGAAAGCAGACTGAAGATTGAAAAT
Found at i:24376279 original size:12 final size:13
Alignment explanation
Indices: 24376257--24376288 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24376247 GCAATGAAAT
24376257 TTTTA-TTATTTA
1 TTTTATTTATTTA
24376269 -TTTATTTATTTA
1 TTTTATTTATTTA
24376281 TTTTATTT
1 TTTTATTT
24376289 TTTCAGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 7 0.39
13 7 0.39
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:24385348 original size:46 final size:46
Alignment explanation
Indices: 24385278--24385640 Score: 476
Period size: 46 Copynumber: 7.9 Consensus size: 46
24385268 TTTGACATGA
* * * * * ** *
24385278 TGCCATAGTGTCTTGCAACTATGGTCTTACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** **
24385324 TGCCATGGTATCTTTCAACCATGGTATTATTCATTTCATATCAATT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *
24385370 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
24385416 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * * *
24385462 TTCCATGGTATCTTTCAACCATGTTCTTACACATTTCCTACCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
24385508 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
24385554 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCGTATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
24385600 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
24385641 TAGAGAGCAC
Statistics
Matches: 287, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.01
46 283 0.99
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:24387470 original size:11 final size:11
Alignment explanation
Indices: 24387454--24387498 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
24387444 CTTTATATAC
*
24387454 TAATAAAATAA
1 TAATAAAATAT
24387465 TAATAAAATATCT
1 TAATAAAATA--T
*
24387478 TATTAAAATAT
1 TAATAAAATAT
24387489 TAATAAAATA
1 TAATAAAATA
24387499 GTATTTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 20 0.69
13 9 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:24387539 original size:31 final size:31
Alignment explanation
Indices: 24387469--24387539 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
24387459 AAATAATAAT
*
24387469 AAAATATCTTATTAAAATATTAATAAAATAG
1 AAAATATCTAATTAAAATATTAATAAAATAG
* **
24387500 TATTTATCTAATT-AAATAATT-ATAAAATAG
1 AAAATATCTAATTAAAAT-ATTAATAAAATAG
24387530 CAAAATATCT
1 -AAAATATCT
24387540 CTAGAGTCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (31 bp):
AAAATATCTAATTAAAATATTAATAAAATAG
Found at i:24388677 original size:24 final size:24
Alignment explanation
Indices: 24388626--24388677 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
24388616 TAAAAGATTT
** *
24388626 CCATCAATGATTATCAATATATTG
1 CCATCAACAATTATCAATATACTG
24388650 CCATCAACAATTATCAATAT-CTG
1 CCATCAACAATTATCAATATACTG
24388673 ACCAT
1 -CCAT
24388678 GAGAATTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (24 bp):
CCATCAACAATTATCAATATACTG
Found at i:24400284 original size:49 final size:49
Alignment explanation
Indices: 24400212--24400399 Score: 243
Period size: 49 Copynumber: 3.8 Consensus size: 49
24400202 TGAGGTCACG
* **
24400212 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * * *
24400261 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAA-T-TGGTCGCA
* * *
24400312 TGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
24400361 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
24400400 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 74 0.64
50 6 0.05
51 36 0.31
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:24400380 original size:100 final size:100
Alignment explanation
Indices: 24400207--24400394 Score: 313
Period size: 100 Copynumber: 1.9 Consensus size: 100
24400197 TATTGTGAGG
* * * **
24400207 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
24400272 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
*
24400307 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
24400372 AAGTGCAGGCTACTATGTGTACC
66 AAGTGCAGGCTACTATGCGTACC
24400395 AGATAGCTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCAAAAACTGTGA
Found at i:24407622 original size:37 final size:37
Alignment explanation
Indices: 24407567--24407647 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
24407557 TTGAACTTTG
*
24407567 TGTATATTATTTCATATTCATTACCCCCTTTTTTTATA
1 TGTATATTATTTCATATTCATTA-CCCCTTTTTCTATA
*
24407605 T-TATATTATTTCTTATTCATTACCCCTTTTTCTATA
1 TGTATATTATTTCATATTCATTACCCCTTTTTCTATA
24407641 TGTATAT
1 TGTATAT
24407648 ACATTTTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 14 0.35
37 25 0.62
38 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.02, T:0.57
Consensus pattern (37 bp):
TGTATATTATTTCATATTCATTACCCCTTTTTCTATA
Found at i:24408456 original size:20 final size:19
Alignment explanation
Indices: 24408431--24408497 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
24408421 TAAATTTGAT
24408431 ACATGATTGATATGATATGC
1 ACATGATTG-TATGATATGC
*
24408451 ACATGATAGGTATGATATGC
1 ACATGAT-TGTATGATATGC
*
24408471 ACATGATATGTATGAAATGC
1 ACATGAT-TGTATGATATGC
24408491 ACATGAT
1 ACATGAT
24408498 GAATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
ACATGATTGTATGATATGC
Found at i:24408592 original size:26 final size:26
Alignment explanation
Indices: 24408547--24408668 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
24408537 GAGAAAGTGC
**
24408547 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
24408572 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
24408598 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
24408624 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
24408650 AAAAGGG-TT-TGCCCGAGTT
1 AAAAGGGCTTATGCCCCAGTT
24408669 ATTAAAAGAG
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
24 9 0.10
25 10 0.11
26 72 0.79
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:24410334 original size:67 final size:64
Alignment explanation
Indices: 24410191--24410374 Score: 201
Period size: 64 Copynumber: 2.8 Consensus size: 64
24410181 CATAATTTTG
* * * * * * * *
24410191 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTA-GTTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGCA
* * *
24410254 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
24410319 CA
63 CA
* *
24410321 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
24410375 CATAATGTCT
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 29 0.29
66 25 0.25
67 28 0.28
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGCA
Found at i:24412386 original size:17 final size:17
Alignment explanation
Indices: 24412364--24412398 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24412354 TTTTGGGTTT
24412364 TTTTGTAATAAGGCCGC
1 TTTTGTAATAAGGCCGC
24412381 TTTTGTAATAAGGCCGC
1 TTTTGTAATAAGGCCGC
24412398 T
1 T
24412399 AATTTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (17 bp):
TTTTGTAATAAGGCCGC
Found at i:24415385 original size:17 final size:17
Alignment explanation
Indices: 24415363--24415395 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24415353 CTTCAAAGAG
24415363 GTGCAGCTAAGAGGATT
1 GTGCAGCTAAGAGGATT
24415380 GTGCAGCTAAGAGGAT
1 GTGCAGCTAAGAGGAT
24415396 GGTGTTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.21
Consensus pattern (17 bp):
GTGCAGCTAAGAGGATT
Found at i:24426049 original size:22 final size:21
Alignment explanation
Indices: 24426019--24426059 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
24426009 TCCAAATTCA
* *
24426019 CTAACCATTACCAAACTATTTT
1 CTAAACATTAACAAA-TATTTT
24426041 CTAAACATTAACAAATATT
1 CTAAACATTAACAAATATT
24426060 ACATAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (21 bp):
CTAAACATTAACAAATATTTT
Found at i:24444392 original size:14 final size:14
Alignment explanation
Indices: 24444373--24444402 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24444363 TTAAACCGAG
24444373 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
24444387 ACCAATCCAATTCA
1 ACCAATCCAAATCA
24444401 AC
1 AC
24444403 ACATTTTCGA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:24458737 original size:6 final size:6
Alignment explanation
Indices: 24458722--24458853 Score: 112
Period size: 6 Copynumber: 21.8 Consensus size: 6
24458712 AACCAAAATG
* *
24458722 AGAATC AGAATT AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
24458770 AGTAA-C AAAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
24458818 AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
24458854 GTGAATGCAA
Statistics
Matches: 101, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.08
6 85 0.84
7 6 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:24458756 original size:30 final size:30
Alignment explanation
Indices: 24458722--24458853 Score: 194
Period size: 30 Copynumber: 4.4 Consensus size: 30
24458712 AACCAAAATG
* *
24458722 AGAATCAGAATTAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
24458752 AGAATCAGAATCA-ATATTAGTAACAAAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
24458782 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
24458812 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
24458843 AGAATCAGAAT
1 AGAATCAGAAT
24458854 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
29 1 0.01
30 70 0.76
31 21 0.23
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:24459008 original size:27 final size:26
Alignment explanation
Indices: 24458971--24459036 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
24458961 AGCATGGCTG
*
24458971 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
24458997 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
24459024 CCAGAATCAGATA
1 CCAGAA-CAGATA
24459037 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:24459041 original size:27 final size:27
Alignment explanation
Indices: 24458971--24459044 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
24458961 AGCATGGCTG
* *
24458971 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
24458997 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
24459024 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
24459045 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:24459051 original size:27 final size:27
Alignment explanation
Indices: 24458995--24459052 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
24458985 GTGACAGAGT
* * *
24458995 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
24459022 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
24459049 CACC
1 CACC
24459053 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:24459424 original size:27 final size:26
Alignment explanation
Indices: 24459355--24459437 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
24459345 TCGATCGGTC
* * *
24459355 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
**
24459381 ATACAGATATTACGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
24459408 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
24459435 AAC
1 AAC
24459438 GCTTCCTCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 8 0.17
27 39 0.83
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:24459702 original size:54 final size:53
Alignment explanation
Indices: 24459640--24459742 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
24459630 CAAAATGGTA
* *
24459640 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCGGT
1 ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGT
* * *
24459693 ATTTCTACCCTATAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT
24459743 TAGTAATTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:24459750 original size:27 final size:27
Alignment explanation
Indices: 24459636--24459742 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 27
24459626 GGGGCAAAAT
* * *
24459636 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24459663 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24459690 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24459717 GATAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
24459743 TAGTAATTTC
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:24460135 original size:27 final size:27
Alignment explanation
Indices: 24459755--24460136 Score: 463
Period size: 27 Copynumber: 14.2 Consensus size: 27
24459745 GTAATTTCAC
*
24459755 AATCAAGGGTAAAACGGTAATTCTG-A
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
24459781 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
24459808 AA-CTGAAGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
24459835 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
24459862 AATCGAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
24459889 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
24459916 AA-CTGAGGGT-AAACTGGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
**
24459943 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
24459970 AA-CTGAGGGTAAAACAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
24459997 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
24460024 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
24460051 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
24460078 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
24460105 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
24460132 AATCG
1 AATCG
24460137 GGAGTACTTT
Statistics
Matches: 304, Mismatches: 39, Indels: 25
0.83 0.11 0.07
Matches are distributed among these distances:
26 34 0.11
27 259 0.85
28 11 0.04
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:24474995 original size:23 final size:23
Alignment explanation
Indices: 24474964--24475036 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
24474954 TTTGTGAACA
*
24474964 TAAATGAACATGTTCACAAATGT
1 TAAACGAACATGTTCACAAATGT
***
24474987 TAAACGAACATGTTC-GTGATCGT
1 TAAACGAACATGTTCACAAAT-GT
* *
24475010 TAAACGAACATGTTCACGAACGT
1 TAAACGAACATGTTCACAAATGT
24475033 TAAA
1 TAAA
24475037 ATGAAAATGT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 2 0.05
23 37 0.93
24 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
TAAACGAACATGTTCACAAATGT
Found at i:24475106 original size:23 final size:23
Alignment explanation
Indices: 24475056--24475106 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
24475046 TTCGCGAACA
24475056 CTAAAAAAACATATTTGCAAACG
1 CTAAAAAAACATATTTGCAAACG
* * * * *
24475079 TTAAACAAACATGTTTGCGAATG
1 CTAAAAAAACATATTTGCAAACG
24475102 CTAAA
1 CTAAA
24475107 TGTATTGATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (23 bp):
CTAAAAAAACATATTTGCAAACG
Found at i:24479323 original size:515 final size:516
Alignment explanation
Indices: 24478352--24479386 Score: 1874
Period size: 515 Copynumber: 2.0 Consensus size: 516
24478342 TTTAATTAAC
24478352 TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
1 TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
* *
24478417 ATAAAAATATTTATGATTCGATTTATGAAATCGAGGTCTCGATACCTTGTTTTCAAAACTAATTA
66 ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTCGATACCTCGTTTTCAAAACTAATTA
*
24478482 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAGC
131 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAAC
24478547 TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
196 TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
*
24478612 TTTTGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
261 TTTCGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
* *
24478677 AATACGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGTAGAAAGCTTAGATTCAATAAA
326 AATAAGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
24478742 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAATGATTAATCTGTATTGATACC
391 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAATGATTAATCTGTATTGATACC
** *
24478807 AAA-CTCAATTCTGTTTCTTGTATGTTTTAATTCATAGAGGTATTGATTTTTAAAGCCCAA
456 AAAGCTCAATTCTGTTTCTTGTACATTTTAATTCATAGAGGTATCGATTTTTAAAGCCCAA
** *
24478867 TATCCAAATGTTAAAATGTTCTAACGAAACTTTAATACTAATTTAATGACACTCTGTAAATATTT
1 TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
* *
24478932 ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTTGATACCTCGTTTTCGAAACTAATTA
66 ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTCGATACCTCGTTTTCAAAACTAATTA
*
24478997 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGTCTAAAATCACACTTAAC
131 ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAAC
**
24479062 TCATAATTAATGATTAAAAAAATTTTTGAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
196 TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
* *
24479127 TTTCGACACCACTAAAAATTAGGCTGTTACATAACACCCTATACTCGGCTTGGTCGCCAAGCCCA
261 TTTCGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
24479192 AATAAGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
326 AATAAGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
24479257 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAATGATTAATCTGTATTGATACC
391 TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAATGATTAATCTGTATTGATACC
* *
24479322 AAAGCTCTATTTTGTTTCTTGTACATTTTAATTCATAGAGGTATCGATTTTTAAAGCCCAA
456 AAAGCTCAATTCTGTTTCTTGTACATTTTAATTCATAGAGGTATCGATTTTTAAAGCCCAA
24479383 TATC
1 TATC
24479387 GATACCTCTG
Statistics
Matches: 498, Mismatches: 21, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
515 442 0.89
516 56 0.11
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (516 bp):
TATCCAAACATTAAAATGTTCTAACGAAACTTTAATACTAACTTAATGACACTCTGTAAATATTT
ATAAAAATATTTATGACTCGATTTATGAAATCGAGGTCTCGATACCTCGTTTTCAAAACTAATTA
ACCTAATAATTCTTTTAAAACACAAAATTCACAAATTCAAGAATATGCCTAAAATCACACTTAAC
TCATAATTAATGATTAAAAAAATTTTCAAACTCACTCGTCAGATTTAGTGATCTCGAATCACTAT
TTTCGACACCACTAAAAATTAGGCTCTTACATAACACCCTATACCCGGCTTGGTCGCCAAGCCCA
AATAAGGGATGCCACACCACCGTCTTGTCTCATTTACATTAAGCAGAAAGCTTAGATTCAATAAA
TGAAACGTCTATTGTTAAATTGATCATGTTTTACTACGTTCAAATGATTAATCTGTATTGATACC
AAAGCTCAATTCTGTTTCTTGTACATTTTAATTCATAGAGGTATCGATTTTTAAAGCCCAA
Found at i:24484572 original size:14 final size:14
Alignment explanation
Indices: 24484544--24484601 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
24484534 CTCCAATTTC
24484544 TCCCTTTTCTTTCTT
1 TCCCTTTT-TTTCTT
24484559 TCCCTTTTTTTCTT
1 TCCCTTTTTTTCTT
24484573 T--CTTTTTTTC-T
1 TCCCTTTTTTTCTT
*
24484584 CCCCTGTTTTTTCGTT
1 TCCCT-TTTTTTC-TT
24484600 TC
1 TC
24484602 TATTCTGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 1 0.03
12 9 0.25
13 2 0.06
14 14 0.39
15 8 0.22
16 2 0.06
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.67
Consensus pattern (14 bp):
TCCCTTTTTTTCTT
Found at i:24484578 original size:27 final size:26
Alignment explanation
Indices: 24484547--24484631 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
24484537 CAATTTCTCC
24484547 CTTTTCTTTCTTTCCCTTTTTTTCTTT
1 CTTTTCTTTC-TTCCCTTTTTTTCTTT
*
24484574 CTTTT-TTTCTCCCCTGTTTTTTCGTTT
1 CTTTTCTTTCTTCCCT-TTTTTTC-TTT
*
24484601 CTATTCTGTTCTT-CCTTTTTTTCTTT
1 CTTTTCT-TTCTTCCCTTTTTTTCTTT
*
24484627 ATTTT
1 CTTTT
24484632 GTTTATTATA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
25 5 0.10
26 17 0.35
27 19 0.39
28 4 0.08
29 4 0.08
ACGTcount: A:0.02, C:0.24, G:0.04, T:0.71
Consensus pattern (26 bp):
CTTTTCTTTCTTCCCTTTTTTTCTTT
Done.