Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 625 of 770
Found at i:196038016 original size:71 final size:70
Alignment explanation
Indices: 196037936--196038140 Score: 311
Period size: 71 Copynumber: 2.9 Consensus size: 70
196037926 TATCTCAAAT
196037936 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTC
1 GCACTATGTGTGCGATT-ACTATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTC
196038001 ACTATG
65 ACTATG
*
196038007 GCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTT
1 GCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATT-ACTATGGCACTATGTGTGCGATTC
196038072 ACTATG
65 ACTATG
* * * * * *
196038078 GCACTAAGTGTGCGATTTACTATAGCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGA
1 GCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGA-TTACTATGGCACTATGTGTGCGA
196038141 ACATAATAAG
Statistics
Matches: 124, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
70 23 0.19
71 60 0.48
72 39 0.31
73 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (70 bp):
GCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTACTATGGCACTATGTGTGCGATTCA
CTATG
Found at i:196052335 original size:40 final size:40
Alignment explanation
Indices: 196052262--196052444 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
196052252 CCGCACCAAG
* * * * *
196052262 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
196052301 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
196052341 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
196052381 GCCTTCGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-T
* *
196052421 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
196052445 CATTCAATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 13 0.11
40 99 0.84
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:196060346 original size:40 final size:40
Alignment explanation
Indices: 196060278--196060455 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
196060268 CCAAGGCCAA
* * * *
196060278 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
196060317 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
196060357 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
196060397 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
196060437 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
196060456 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:196064696 original size:27 final size:26
Alignment explanation
Indices: 196064661--196064773 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
196064651 AGCATGGCTG
*
196064661 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
* *
196064687 CCAGATACAGATAATCGTGCCAGAACCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
196064715 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
196064742 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGACAGAGCCA
196064770 CCAG
1 CCAG
196064774 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.49
28 32 0.43
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:196072501 original size:27 final size:26
Alignment explanation
Indices: 196072466--196072577 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
196072456 AGCATGGCTG
* *
196072466 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
196072492 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
196072520 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
196072547 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
196072574 CCAG
1 CCAG
196072578 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:196072525 original size:54 final size:54
Alignment explanation
Indices: 196072466--196072577 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
196072456 AGCATGGCTG
*
196072466 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
196072520 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
196072574 CCAG
1 CCAG
196072578 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:196074010 original size:24 final size:24
Alignment explanation
Indices: 196073983--196074053 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
196073973 CTAGATTTCC
**
196073983 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
196074007 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
196074031 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
196074054 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:196074504 original size:17 final size:18
Alignment explanation
Indices: 196074471--196074505 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
196074461 GAGGAAGCTA
196074471 TTGCTAAAGAAGAGAAAG
1 TTGCTAAAGAAGAGAAAG
*
196074489 TTGCTAAA-ATGAGAAAG
1 TTGCTAAAGAAGAGAAAG
196074506 AAAACGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.20
Consensus pattern (18 bp):
TTGCTAAAGAAGAGAAAG
Found at i:196083684 original size:30 final size:30
Alignment explanation
Indices: 196083648--196083722 Score: 78
Period size: 38 Copynumber: 2.2 Consensus size: 30
196083638 TGAATGTGCG
196083648 AATTGTGATATCCGGGCTAAGCCCGAAGGC
1 AATTGTGATATCCGGGCTAAGCCCGAAGGC
196083678 AATTGTGCGAGTATGATATCCGGGCTAAGCCCGAAGGC
1 AA-T-T----G--TGATATCCGGGCTAAGCCCGAAGGC
196083716 AATTGTG
1 AATTGTG
196083723 CGAGTTGTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
30 4 0.11
31 1 0.03
32 2 0.05
36 2 0.05
37 1 0.03
38 27 0.73
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (30 bp):
AATTGTGATATCCGGGCTAAGCCCGAAGGC
Found at i:196083780 original size:40 final size:39
Alignment explanation
Indices: 196083642--196083794 Score: 191
Period size: 40 Copynumber: 3.9 Consensus size: 39
196083632 TGTGAATGAA
* *
196083642 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
196083681 TGTGCGAG-TATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
196083719 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
196083759 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
196083795 TGTTTTGAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 37 0.37
39 23 0.23
40 40 0.40
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:196091637 original size:39 final size:39
Alignment explanation
Indices: 196091590--196091702 Score: 199
Period size: 39 Copynumber: 2.9 Consensus size: 39
196091580 AATGTGCGAA
196091590 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
196091629 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
* *
196091668 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
196091703 GGTTACCATA
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 54 0.76
40 17 0.24
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
Found at i:196095596 original size:6 final size:6
Alignment explanation
Indices: 196095544--196095596 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 6
196095534 TTAACATAGG
196095544 AAAGAA AAAGGCAA AAA-AA AAA-AA AAAG-A AAA-AA AAAGAA AAAGAA
1 AAAGAA AAA-G-AA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
196095590 AATGAA A
1 AAAGAA A
196095597 GAGAGAAGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
5 18 0.44
6 17 0.41
7 1 0.02
8 5 0.12
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:196095598 original size:16 final size:16
Alignment explanation
Indices: 196095544--196095591 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
196095534 TTAACATAGG
196095544 AAAGAAAAAGGCAAAAAA
1 AAAGAAAAA-G-AAAAAA
*
196095562 AAAAAAAAAGAAAAAA
1 AAAGAAAAAGAAAAAA
196095578 AAAGAAAAAGAAAA
1 AAAGAAAAAGAAAA
196095592 TGAAAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 19 0.68
17 1 0.04
18 8 0.29
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAA
Found at i:196097567 original size:40 final size:40
Alignment explanation
Indices: 196097521--196097602 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
196097511 TATCCTAGAG
196097521 CTTGGAATTCAAGTGTGCTGCAGTATTGGAATTGTAACAA
1 CTTGGAATTCAAGTGTGCTGCAGTATTGGAATTGTAACAA
196097561 CTTGGAATTCAAGTGTGCTGCAGTATTGGAATTGTAACAA
1 CTTGGAATTCAAGTGTGCTGCAGTATTGGAATTGTAACAA
196097601 CT
1 CT
196097603 CAGTTTCCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (40 bp):
CTTGGAATTCAAGTGTGCTGCAGTATTGGAATTGTAACAA
Found at i:196101910 original size:27 final size:28
Alignment explanation
Indices: 196101880--196101949 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
196101870 ATAATAAGTC
*
196101880 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
196101907 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
196101935 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
196101950 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:196109825 original size:26 final size:28
Alignment explanation
Indices: 196109795--196109863 Score: 97
Period size: 26 Copynumber: 2.5 Consensus size: 28
196109785 ATAATAAGTC
*
196109795 CGCACACTTAGTGCTATAT-ATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
196109821 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
196109849 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
196109864 GTACAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 18 0.49
27 3 0.08
28 16 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:196113883 original size:80 final size:80
Alignment explanation
Indices: 196113799--196113947 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
196113789 TATGGTAACC
* * * *
196113799 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
196113863 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
196113879 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
196113944 CCGG
66 CCGG
196113948 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:196113889 original size:40 final size:38
Alignment explanation
Indices: 196113840--196113947 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
196113830 ATCACGATTT
*
196113840 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
196113880 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
196113920 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
196113948 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:196123499 original size:44 final size:44
Alignment explanation
Indices: 196123470--196123770 Score: 378
Period size: 44 Copynumber: 6.9 Consensus size: 44
196123460 TGTTTACAAG
* * *
196123470 GAGCAGATCGAAGATAGCAGATTTGGCATCTTTGTTTTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
196123514 GAGC-GAATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
1 GAGCAG-ATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
196123558 GAGCAGATCGAAGATAGAAGA-TTGGCATCTCTGTATTGTCAAA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * * *
196123601 GAACAGATCGAAGATAACAGATTCGGCATCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
196123645 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* ** * *
196123689 GAGCAGATCCAAGAT-GACAGATTTGGCATCTCCATATTTGACAGG
1 GAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTA-TTGTCAGA
* * *
196123734 GAGCAAAACCAAGA-AG-ATGATTTGGCATCTCTGTATT
1 GAGCAGATCGAAGATAGCA-GATTTGGCATCTCTGTATT
196123771 TGACGGGGAG
Statistics
Matches: 226, Mismatches: 24, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
43 44 0.19
44 162 0.72
45 20 0.09
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:196123608 original size:131 final size:132
Alignment explanation
Indices: 196123312--196123720 Score: 414
Period size: 131 Copynumber: 3.1 Consensus size: 132
196123302 GATCCAAGAT
* * * **
196123312 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGA-AACAGATTTGGCATCTCCATATTCG
1 GATTTGGCATCTCTGTATTGTCAAAGAACAGATCGAAGATAACAGATTCGGCATCTCTGTATT-G
* * ** * * *
196123376 ACT-GAGAGCAGATCGAAGACATAGCAGATCTAACCT-TCAGATGT-TTTTGCATCGA-AACAGA
65 -TTAGAGAGCAGATCGAAG--ATAGCAGATTTGGCATCTC---TGTATTGT-CA--GAGAGCAGA
196123437 TCCAAGAT----
121 TCCAAGATGACA
* * * * * * *
196123445 GATTTGGCATC-CTTGTGTT-TACAAGGAGCAGATCGAAGATAGCAGATTTGGCATCTTTGTTTT
1 GATTTGGCATCTC-TGTATTGT-CAAAGAACAGATCGAAGATAACAGATTCGGCATCTCTGTATT
*
196123508 GTTAGAGAGC-GAATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGA
64 GTTAGAGAGCAG-ATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCCAAGA
196123572 TAGA-A
128 T-GACA
196123577 GA-TTGGCATCTCTGTATTGTCAAAGAACAGATCGAAGATAACAGATTCGGCATCTCTGTATTGT
1 GATTTGGCATCTCTGTATTGTCAAAGAACAGATCGAAGATAACAGATTCGGCATCTCTGTATTGT
196123641 TAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCCAAGATGA
66 TAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCCAAGATGA
196123706 CA
131 CA
196123708 GATTTGGCATCTC
1 GATTTGGCATCTC
196123721 CATATTTGAC
Statistics
Matches: 233, Mismatches: 26, Indels: 35
0.79 0.09 0.12
Matches are distributed among these distances:
127 2 0.01
128 12 0.05
129 5 0.02
130 5 0.02
131 126 0.54
132 21 0.09
133 44 0.19
134 18 0.08
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (132 bp):
GATTTGGCATCTCTGTATTGTCAAAGAACAGATCGAAGATAACAGATTCGGCATCTCTGTATTGT
TAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCCAAGATGA
CA
Found at i:196123756 original size:88 final size:86
Alignment explanation
Indices: 196123312--196123770 Score: 366
Period size: 88 Copynumber: 5.2 Consensus size: 86
196123302 GATCCAAGAT
* * * ** *
196123312 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATACAGATTTGGCATCTCTGTATT-GT
*
196123377 CTGAGAGCAGATCGAAGACATAGCA
65 CAGAGAGCAGATCGAAG--ATAG-A
* ** * * * *
196123402 GATCTAACCT-TCAGATGT-TTTTGCATCGA-AACAGATCCAAGAT---GATTTGGCATC-CTTG
1 GATTTGGCATCTC---TGTATTGT-CA--GAGAGCAGATCGAAGATACAGATTTGGCATCTC-TG
*
196123460 TGTT-TACA-AGGAGCAGATCGAAGATAGCA
59 TATTGT-CAGA-GAGCAGATCGAAGATAG-A
* * *
196123489 GATTTGGCATCTTTGTTTTGTTAGAGAGC-GAATCGAAGATAGCAGATTTGGCATCTCTGTATTG
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAG-ATCGAAGATA-CAGATTTGGCATCTCTGTATTG
196123553 TCAGAGAGCAGATCGAAGATAGAA
64 TCAGAGAGCAGATCGAAGATAG-A
* * *
196123577 GA-TTGGCATCTCTGTATTGTCAAAGAACAGATCGAAGATAACAGATTCGGCATCTCTGTATTGT
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGTATTGT
*
196123641 TAGAGAGCAGATCGAAGATAGCA
65 CAGAGAGCAGATCGAAGATAG-A
* **
196123664 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCCAAGATGACAGATTTGGCATCTCCATATTTG
1 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGAT-ACAGATTTGGCATCTCTGTA-TTG
* * * * *
196123729 ACAGGGAGCAAAACCAAGA-AGA
64 TCAGAGAGCAGATCGAAGATAGA
196123751 TGATTTGGCATCTCTGTATT
1 -GATTTGGCATCTCTGTATT
196123771 TGACGGGGAG
Statistics
Matches: 299, Mismatches: 45, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
83 3 0.01
84 10 0.03
85 4 0.01
86 3 0.01
87 88 0.29
88 114 0.38
89 36 0.12
90 20 0.07
91 3 0.01
92 5 0.02
93 11 0.04
94 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (86 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATACAGATTTGGCATCTCTGTATTGTC
AGAGAGCAGATCGAAGATAGA
Found at i:196123771 original size:44 final size:45
Alignment explanation
Indices: 196123445--196123784 Score: 168
Period size: 44 Copynumber: 7.7 Consensus size: 45
196123435 GATCCAAGAT
* * * * *
196123445 GATTTGGCATC-CTTGTGTTT-ACAAGGAGCAGATCGAAGATAG-CA
1 GATTTGGCATCTC-TGTATTTGACAGGGAGCAAAACCAAGA-AGACA
* ** * * * *
196123489 GATTTGGCATCTTTGT-TTTGTTAGAGAGCGAATCGAAGATAG-CA
1 GATTTGGCATCTCTGTATTTGACAGGGAGCAAAACCAAGA-AGACA
* * * * *
196123533 GATTTGGCATCTCTGTA-TTGTCAGAGAGCAGATCGAAGATAGA-A
1 GATTTGGCATCTCTGTATTTGACAGGGAGCAAAACCAAGA-AGACA
* ** * * * *
196123577 GA-TTGGCATCTCTGTA-TTGTCAAAGAACAGATCGAAGATA-ACA
1 GATTTGGCATCTCTGTATTTGACAGGGAGCAAAACCAAGA-AGACA
* ** * * * *
196123620 GATTCGGCATCTCTGTA-TTGTTAGAGAGCAGATCGAAGATAG-CA
1 GATTTGGCATCTCTGTATTTGACAGGGAGCAAAACCAAGA-AGACA
* * * * *
196123664 GATTTGGCATCTCTGTA-TTGTCAGAGAGCAGATCCAAGATGACA
1 GATTTGGCATCTCTGTATTTGACAGGGAGCAAAACCAAGAAGACA
** *
196123708 GATTTGGCATCTCCATATTTGACAGGGAGCAAAACCAAGAAGA-T
1 GATTTGGCATCTCTGTATTTGACAGGGAGCAAAACCAAGAAGACA
*
196123752 GATTTGGCATCTCTGTATTTGACGGGGAGCAAA
1 GATTTGGCATCTCTGTATTTGACAGGGAGCAAA
196123785 TCAAAGACAT
Statistics
Matches: 255, Mismatches: 32, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.00
43 43 0.17
44 191 0.75
45 20 0.08
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTTGACAGGGAGCAAAACCAAGAAGACA
Found at i:196123941 original size:80 final size:79
Alignment explanation
Indices: 196123747--196123950 Score: 248
Period size: 80 Copynumber: 2.6 Consensus size: 79
196123737 CAAAACCAAG
* * *
196123747 AAGATGATTT-GGCATCTCTGTATTTGACGGGGAGCAAATCAAAGACATAGCAGATCTGACCTTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTC
* *
196123811 GTCGAGGCAGAACC
66 ATCAAGGCAGAACC
* * * * *
196123825 AAGATGATTTGGGCATCTCTATAATGGACGGAGAGCAAATCGAAGACATTAGTAGATCTGACCTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACA-TAGCAGATCTGACCTT
* **
196123890 CATCAAGGCTGATTC
65 CATCAAGGCAGAACC
* * *
196123905 AAGATGATTTGGGCGTCTCTGTATTCAACGGGGAGCAGATCGAAGA
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGA
196123951 ACTCAAGACT
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 10 0.10
79 32 0.30
80 63 0.60
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (79 bp):
AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTC
ATCAAGGCAGAACC
Found at i:196125054 original size:23 final size:23
Alignment explanation
Indices: 196125028--196125075 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
196125018 ATTTTAATCC
*
196125028 TTTA-TTATATATTTCTAAATTTT
1 TTTATTTATATATTT-TAAATATT
*
196125051 TTTATTTATTTATTTTAAATATT
1 TTTATTTATATATTTTAAATATT
196125074 TT
1 TT
196125076 AAATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATTTATATATTTTAAATATT
Found at i:196125239 original size:32 final size:32
Alignment explanation
Indices: 196125177--196125249 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
196125167 TGTCTAACAT
* *
196125177 ATATATTATCTATTATTTATTTATATTTTATC
1 ATATATTATTTATTATTTATTTATACTTTATC
*
196125209 ATATATTATTTATTATGTTGTTTAT-CTTTATC
1 ATATATTATTTATTAT-TTATTTATACTTTATC
*
196125241 -TTTATTATT
1 ATATATTATT
196125250 ATAATTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 8 0.22
32 21 0.58
33 7 0.19
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.64
Consensus pattern (32 bp):
ATATATTATTTATTATTTATTTATACTTTATC
Found at i:196128884 original size:29 final size:29
Alignment explanation
Indices: 196128848--196128903 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
196128838 TCGAGCCTAG
196128848 GGGCAAAA-GTGTAATTATGCAAAAGTTTA
1 GGGCAAAATG-GTAATTATGCAAAAGTTTA
* *
196128877 GGGCAAAATGGTAATTTTGCCAAAGTT
1 GGGCAAAATGGTAATTATGCAAAAGTT
196128904 CGTATTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (29 bp):
GGGCAAAATGGTAATTATGCAAAAGTTTA
Found at i:196129617 original size:49 final size:49
Alignment explanation
Indices: 196129558--196129732 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
196129548 TGAGGTCACG
* **
196129558 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATTGGTCGCA
* * * * * *
196129607 TGTGTAGTACTAAGTTCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAA-TT-GGTCGCA
*
196129658 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATTGGTCGCA
*
196129707 TGTGTAGTACTAAGTGCAGGGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
196129733 TGCTACTAGA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 62 0.58
50 4 0.04
51 41 0.38
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATTGGTCGCA
Found at i:196129732 original size:100 final size:100
Alignment explanation
Indices: 196129553--196129735 Score: 312
Period size: 100 Copynumber: 1.8 Consensus size: 100
196129543 TATTGTGAGG
**
196129553 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
196129618 AAGTTCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
* *
196129653 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCTGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
196129718 AAGTGCAGGGTACTATGC
66 AAGTGCAGGCTACTATGC
196129736 TACTAGATAG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
Found at i:196131174 original size:40 final size:40
Alignment explanation
Indices: 196131115--196131208 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
196131105 CAATTGTATT
* ** *
196131115 AGGCACTAAATGTATGATTCAAAATAGTTTCGGCTATCTG
1 AGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATCTG
*
196131155 AGGCACTAAGTGTGCGATTCAAAATGGCTTCGGCTATCTG
1 AGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATCTG
196131195 AGGCACTAAGTGTG
1 AGGCACTAAGTGTG
196131209 TGATACAGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (40 bp):
AGGCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATCTG
Found at i:196135847 original size:42 final size:42
Alignment explanation
Indices: 196135788--196135894 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
196135778 TGTTGATTTC
196135788 GGCACTAAGTGTGCGGGTATAAACATTTGTGATCATGAGAAT
1 GGCACTAAGTGTGCGGGTATAAACATTTGTGATCATGAGAAT
196135830 GGCACTAAGTGTGCGGGTATAAACATTTGTGATCATGAGAAT
1 GGCACTAAGTGTGCGGGTATAAACATTTGTGATCATGAGAAT
*
196135872 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
196135895 TTTGTACAGC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAACATTTGTGATCATGAGAAT
Found at i:196135958 original size:27 final size:28
Alignment explanation
Indices: 196135902--196135971 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
196135892 AAATTTGTAC
196135902 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
196135930 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
196135957 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
196135972 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:196135982 original size:27 final size:27
Alignment explanation
Indices: 196135902--196135983 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
196135892 AAATTTGTAC
* *
196135902 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
196135930 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
196135957 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
196135984 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:196143779 original size:27 final size:28
Alignment explanation
Indices: 196143723--196143792 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
196143713 AAATTTGTAC
196143723 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
196143751 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
196143778 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
196143793 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:196143803 original size:27 final size:27
Alignment explanation
Indices: 196143723--196143804 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
196143713 AAATTTGTAC
* *
196143723 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
196143751 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
196143778 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
196143805 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:196146908 original size:2 final size:2
Alignment explanation
Indices: 196146901--196146939 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
196146891 TCATGACATG
196146901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
196146940 GACTAGTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:196151613 original size:27 final size:27
Alignment explanation
Indices: 196151583--196151675 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
196151573 TAGATAACTT
*
196151583 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCAAAATACCCCTATAAG
* *
196151610 GTAGAAATACCAAAATACCCCTATAGG
1 GTAGAATTACCAAAATACCCCTATAAG
* * * **
196151637 GTAGAATTACCGAGATACCCTTATGGG
1 GTAGAATTACCAAAATACCCCTATAAG
*
196151664 GTAAAATTACCA
1 GTAGAATTACCA
196151676 TTTTGCCCTT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTATAAG
Found at i:196151684 original size:27 final size:27
Alignment explanation
Indices: 196151654--196151710 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
196151644 TACCGAGATA
*
196151654 CCCTTATGGG-GTAAAATTACCATTTTG
1 CCCTTA-GGGTGTAAAATGACCATTTTG
* *
196151681 CCCTTAGGGTGTTAAATGACTATTTTG
1 CCCTTAGGGTGTAAAATGACCATTTTG
196151708 CCC
1 CCC
196151711 CTCGTGCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
CCCTTAGGGTGTAAAATGACCATTTTG
Found at i:196152369 original size:27 final size:26
Alignment explanation
Indices: 196152325--196152376 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
196152315 CTCGCTACAA
*
196152325 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
196152352 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
196152377 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:196158175 original size:50 final size:48
Alignment explanation
Indices: 196158115--196158293 Score: 152
Period size: 49 Copynumber: 3.7 Consensus size: 48
196158105 GAGATGTGTC
*
196158115 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATATGTGAGAGCT
* * * * * * * *
196158165 AGTGTAAGACCATGTCTGGGACATGCCGTTGGCCTCA-ATTTCAATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATATGT-GAGAGCT
* *
196158214 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATGTGA-GAGCT
* *
196158261 AATGTAAGACCATGT-TTGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
196158294 TTATACCCTA
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
46 15 0.15
47 17 0.17
48 7 0.07
49 32 0.32
50 28 0.28
51 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATGTGAGAGCT
Found at i:196166143 original size:47 final size:47
Alignment explanation
Indices: 196166090--196166564 Score: 709
Period size: 47 Copynumber: 10.0 Consensus size: 47
196166080 AAGATATGTA
*
196166090 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
196166137 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG--TGTATG
* * *
196166186 TATATGATAAGGCCAAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
*
196166233 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
196166282 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
196166329 TATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
196166376 TATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
196166423 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * * *
196166472 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGATGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
196166519 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
196166565 AACTGTGACA
Statistics
Matches: 390, Mismatches: 31, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
47 257 0.66
48 3 0.01
49 130 0.33
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:196166290 original size:96 final size:96
Alignment explanation
Indices: 196166088--196166565 Score: 745
Period size: 96 Copynumber: 5.0 Consensus size: 96
196166078 ACAAGATATG
196166088 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATG--TATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
*
196166151 GAATGGCCAATGTGATGAATGTGAAAGTATATA
66 GAATGGCCAATGTGATGAATGTGAAAG--TGTA
* *
196166184 TATATATGATAAGGCCAAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
*
196166249 GAATGGCCAACGTGATGAATGTGAAAGTGTA
66 GAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
196166280 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCT
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
*
196166343 GAATGGCCAATGTGATGAATGTGAAAGTATA
66 GAATGGCCAATGTGATGAATGTGAAAGTGTA
*
196166374 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
196166439 GAATGGCCAATGTGATGAATGTGAAAGTGTA
66 GAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
196166470 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG--GATGTATATATATATGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
* *
196166533 GAATGGTCAATGTGATGGAA-GTGGAAGTGTA
66 GAATGGCCAATGTGAT-GAATGTGAAAGTGTA
196166564 TA
1 TA
196166566 ACTGTGACAG
Statistics
Matches: 353, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
94 135 0.38
95 3 0.01
96 175 0.50
98 40 0.11
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (96 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:196166345 original size:25 final size:25
Alignment explanation
Indices: 196166270--196166345 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
196166260 GTGATGAATG
196166270 TGAAAGTGTATGTATGTGATAAGGC
1 TGAAAGTGTATGTATGTGATAAGGC
* * * *
196166295 CGAATG-GCCA---ATGTGATGAATG-
1 TGAAAGTG-TATGTATGTGAT-AAGGC
196166317 TGAAAGTGTATGTATGTGATAAGGC
1 TGAAAGTGTATGTATGTGATAAGGC
196166342 TGAA
1 TGAA
196166346 TGGCCAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 12 0.33
23 4 0.11
24 4 0.11
25 16 0.44
ACGTcount: A:0.33, C:0.07, G:0.32, T:0.29
Consensus pattern (25 bp):
TGAAAGTGTATGTATGTGATAAGGC
Found at i:196166468 original size:190 final size:191
Alignment explanation
Indices: 196166090--196166549 Score: 814
Period size: 190 Copynumber: 2.4 Consensus size: 191
196166080 AAGATATGTA
*
196166090 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATGTGATAAGGCCGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
196166155 GGCCAATGTGATGAATGTGAAAGTATATATATATATGATAAGGCCAAATGGCCAATGTGATGAAT
66 GGCCAATGTGATGAATGTGAAAG-ATATATATATATGATAAGGCCAAATGGCCAATGTGATGAAT
196166220 GTGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
130 GTGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
*
196166282 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCTGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
*
196166347 GGCCAATGTGATGAATGTGAAAG-TATATATATATGATAAGGCCGAATGGCCAATGTGATGAATG
66 GGCCAATGTGATGAATGTGAAAGATATATATATATGATAAGGCCAAATGGCCAATGTGATGAATG
*
196166411 TGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
131 TGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
* * * * *
196166472 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGATGTATATATATATGATAAGGCCGAAT
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
*
196166537 GGTCAATGTGATG
66 GGCCAATGTGATG
196166550 GAAGTGGAAG
Statistics
Matches: 257, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
190 171 0.67
192 86 0.33
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (191 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAAT
GGCCAATGTGATGAATGTGAAAGATATATATATATGATAAGGCCAAATGGCCAATGTGATGAATG
TGAAGGTGTATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
Found at i:196168238 original size:18 final size:20
Alignment explanation
Indices: 196168215--196168252 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
196168205 AATATTACAC
196168215 ATTTC-AGTTTCACA-TAAA
1 ATTTCAAGTTTCACACTAAA
*
196168233 ATTTCAATTTTCACACTAAA
1 ATTTCAAGTTTCACACTAAA
196168253 TTTGGCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTCAAGTTTCACACTAAA
Found at i:196172172 original size:124 final size:124
Alignment explanation
Indices: 196171950--196172174 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
196171940 GAATTATGTG
* * * * * * *
196171950 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
196172015 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
196172074 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
196172139 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
196172175 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 3 0.03
124 85 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:196172257 original size:40 final size:40
Alignment explanation
Indices: 196172169--196172258 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
196172159 TTGCTGGAAA
*
196172169 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
* * *
196172209 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTA-GCGG
196172249 TTATATCCGG
1 TTATATCCGG
196172259 TTGTATTCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 4 0.10
40 38 0.90
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGCGG
Found at i:196181154 original size:22 final size:22
Alignment explanation
Indices: 196181126--196181202 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
196181116 TTTTACATCC
196181126 ATCACATAGGCCATTTGGCCTT
1 ATCACATAGGCCATTTGGCCTT
*** * *
196181148 ATCACATATATACACTTTCGCATT
1 ATCACATA-GGCCA-TTTGGCCTT
* *
196181172 CATCACATTGGCCATTCGGCCTT
1 -ATCACATAGGCCATTTGGCCTT
196181195 ATCACATA
1 ATCACATA
196181203 TACACACATT
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 9 0.23
25 7 0.18
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATAGGCCATTTGGCCTT
Found at i:196181176 original size:47 final size:47
Alignment explanation
Indices: 196181098--196181342 Score: 375
Period size: 47 Copynumber: 5.2 Consensus size: 47
196181088 ACCTTCGGGA
* * * * * * *
196181098 CTTATCACATTTATACACTTTTACATCCATCACATAGGCCATTTGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
* * *
196181145 CTTATCACATATATACACTTTCGCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
196181192 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
196181239 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTC-GC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
* *
196181285 CTTATCACATATAGACACAGTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
196181332 CTTATCACATA
1 CTTATCACATA
196181343 CACGTATCTT
Statistics
Matches: 186, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 44 0.24
47 142 0.76
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:196181377 original size:48 final size:48
Alignment explanation
Indices: 196181322--196181454 Score: 239
Period size: 48 Copynumber: 2.8 Consensus size: 48
196181312 CATCACATTG
* * *
196181322 GCCATTCGGCCTTATCACATACACGTATCTTATACATATTTCACACTA
1 GCCATTCGGCTTTACCACATATACGTATCTTATACATATTTCACACTA
196181370 GCCATTCGGCTTTACCACATATACGTATCTTATACATATTTCACACTA
1 GCCATTCGGCTTTACCACATATACGTATCTTATACATATTTCACACTA
196181418 GCCATTCGGCTTTACCACATATACGTATCTTATACAT
1 GCCATTCGGCTTTACCACATATACGTATCTTATACAT
196181455 CAATTTCAGC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.35
Consensus pattern (48 bp):
GCCATTCGGCTTTACCACATATACGTATCTTATACATATTTCACACTA
Found at i:196185213 original size:43 final size:43
Alignment explanation
Indices: 196184950--196185206 Score: 442
Period size: 43 Copynumber: 6.0 Consensus size: 43
196184940 CCTTGCTCGA
** * *
196184950 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACTCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* * *
196184993 ATCACCGGTACAAAGCCTGCTAGGCTCGAAGGCCCAAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
196185036 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
196185079 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
196185122 ATCACCGGCACAAAGCCTGCTAGGTACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
196185165 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACA
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACA
196185207 CGTCACCAGC
Statistics
Matches: 202, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 202 1.00
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:196185389 original size:42 final size:42
Alignment explanation
Indices: 196185209--196185407 Score: 196
Period size: 40 Copynumber: 4.9 Consensus size: 42
196185199 CGAATACACG
* * ** *
196185209 TCACCAGCATGACTGCTCTTCGGGACCTGGA-CCGG--ATACA
1 TCACCAGCACGAATGCTCTTCGGGA-CTTAACCCGGATATATA
* * * *
196185249 TCACTAGCATGAATGCTCTTCGGGATTTAGCCCGG--ATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATATA
* * * *
196185289 TCACTAGCATGAATGCTCTTCGGGATTTAACCCGGATGTA-A
1 TCACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATATA
*
196185330 -CACCAGCACGAATGCTCTACGGGACTTAACCCGGATATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATATA
* *
196185371 TCGCCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACCAGCACGAATGCTCTTCGGGACTTAACCCGGAT
196185408 CATCGTCGAG
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 99 0.72
41 2 0.01
42 35 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATATA
Found at i:196186674 original size:2 final size:2
Alignment explanation
Indices: 196186667--196186694 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
196186657 TTGGCTGTCT
196186667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
196186695 CCTTCGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:196187405 original size:22 final size:22
Alignment explanation
Indices: 196187377--196187453 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
196187367 TTTTACATCC
196187377 ATCACATAGGCCATTTGGCCTT
1 ATCACATAGGCCATTTGGCCTT
*** * *
196187399 ATCACATATATACACTTTCGCATT
1 ATCACATA-GGCCA-TTTGGCCTT
* *
196187423 CATCACATTGGCCATTCGGCCTT
1 -ATCACATAGGCCATTTGGCCTT
196187446 ATCACATA
1 ATCACATA
196187454 TACACACATT
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 9 0.23
25 7 0.18
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATAGGCCATTTGGCCTT
Found at i:196187427 original size:47 final size:47
Alignment explanation
Indices: 196187349--196187644 Score: 475
Period size: 47 Copynumber: 6.3 Consensus size: 47
196187339 CCCTTCGAGA
* * * * * * *
196187349 CTTATCACATTTATACACTTTTACATCCATCACATAGGCCATTTGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
* * *
196187396 CTTATCACATATATACACTTTCGCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
196187443 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
196187490 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
196187537 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
* * *
196187584 CATATCACATATAGACACAGTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
196187631 CTTATCACATATAC
1 CTTATCACATATAC
196187645 GTATCTTATA
Statistics
Matches: 235, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 235 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATACACACATTCACATTCATCACATTGGCCATTCGGC
Found at i:196187474 original size:25 final size:25
Alignment explanation
Indices: 196187446--196187571 Score: 106
Period size: 25 Copynumber: 5.3 Consensus size: 25
196187436 ATTCGGCCTT
196187446 ATCACATATACACACATTCACATTC
1 ATCACATATACACACATTCACATTC
** * *
196187471 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATACACACATTC-ACATTC
196187493 ATCACATATACACACATTCACATTC
1 ATCACATATACACACATTCACATTC
** * *
196187518 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATACACACATTC-ACATTC
196187540 ATCACATATACACACATTCACATTC
1 ATCACATATACACACATTCACATTC
196187565 ATCACAT
1 ATCACAT
196187572 TGGCCATTCG
Statistics
Matches: 75, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
22 24 0.32
23 10 0.13
24 10 0.13
25 31 0.41
ACGTcount: A:0.33, C:0.32, G:0.06, T:0.29
Consensus pattern (25 bp):
ATCACATATACACACATTCACATTC
Found at i:196192736 original size:27 final size:26
Alignment explanation
Indices: 196192688--196192745 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
196192678 GCGAGGCTGC
*
196192688 CAGATATTGTGACGAAGTCACTAGATA
1 CAGATATTGTGACGAAGCCACTAGA-A
* * *
196192715 CAGATATTGTGGCTAGGCCACTAGAA
1 CAGATATTGTGACGAAGCCACTAGAA
196192741 CAGAT
1 CAGAT
196192746 GTATATATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACTAGAA
Found at i:196193007 original size:24 final size:25
Alignment explanation
Indices: 196192965--196193012 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
196192955 TTAACCTTAA
* *
196192965 GGGTATACTGGTCATTTTTACCTAG
1 GGGTATAATGGTCAATTTTACCTAG
*
196192990 GGGTATAATGGT-AATTTTCCCTA
1 GGGTATAATGGTCAATTTTACCTA
196193013 CTTAGGGGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (25 bp):
GGGTATAATGGTCAATTTTACCTAG
Found at i:196195336 original size:21 final size:21
Alignment explanation
Indices: 196195312--196195358 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
196195302 GGACAACAAT
**
196195312 ACACGAGTGTGGTACCCTCAC
1 ACACGAGCATGGTACCCTCAC
*
196195333 ACACGGGCATGGTACCCTCAC
1 ACACGAGCATGGTACCCTCAC
196195354 ACACG
1 ACACG
196195359 GGTATGGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.36, G:0.23, T:0.15
Consensus pattern (21 bp):
ACACGAGCATGGTACCCTCAC
Found at i:196195359 original size:21 final size:21
Alignment explanation
Indices: 196195321--196195365 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
196195311 TACACGAGTG
196195321 TGGTACCCTCACACACGGGCA
1 TGGTACCCTCACACACGGGCA
*
196195342 TGGTACCCTCACACACGGGTA
1 TGGTACCCTCACACACGGGCA
196195363 TGG
1 TGG
196195366 GAGAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
TGGTACCCTCACACACGGGCA
Found at i:196197329 original size:6 final size:6
Alignment explanation
Indices: 196197282--196197320 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
196197272 CCCTCTTATC
* *
196197282 TTTTTA TTTT-A TTTTAA TCTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
196197321 TTTTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:196199979 original size:93 final size:93
Alignment explanation
Indices: 196199866--196200037 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
196199856 GCCCATAAGT
* * * *
196199866 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAGCTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
196199931 CGAGTTCGGATGCCTAGTTTCATTTCAC
66 CGAGTTCGGATGCCTAGTTTCATTTCAC
* *
196199959 GAACTCGGACTCAACTCAATGAGTTCGGATATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
196200024 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
196200038 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAATGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTTCATTTCAC
Found at i:196200029 original size:46 final size:45
Alignment explanation
Indices: 196199858--196200034 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
196199848 TGTAACCCGC
* * ** *
196199858 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATTTCACAT
* ** **
196199904 CCATAAGTGAGCTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTTC-ACAT
* * * *
196199950 TCATTTCA-CGAACTCGGACTCAACTCAATGAGTTCGGATATTCACAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT-TTCACAT
196199997 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
196200035 GCCCAAACAT
Statistics
Matches: 103, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
45 5 0.05
46 63 0.61
47 32 0.31
48 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTTCACAT
Found at i:196202436 original size:14 final size:15
Alignment explanation
Indices: 196202417--196202496 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
196202407 CAAAGATAAC
*
196202417 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
196202431 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
196202446 GAGAAACCCAGAATG
1 AAGAAATCCAGAATA
196202461 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
196202476 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
196202491 AAGAAA
1 AAGAAA
196202497 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:196202466 original size:30 final size:30
Alignment explanation
Indices: 196202417--196202505 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
196202407 CAAAGATAAC
196202417 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
196202446 GAGAAACCCAGAATGAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
196202476 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
196202506 CGATATTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 9 0.19
30 37 0.77
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:196202505 original size:15 final size:15
Alignment explanation
Indices: 196202428--196202505 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
196202418 AGAAAACCGA
196202428 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
196202443 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
196202457 AATGAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
196202472 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
196202488 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
196202503 ATA
1 ATA
196202506 CGATATTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:196205541 original size:92 final size:93
Alignment explanation
Indices: 196205430--196205600 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
196205420 GCCCATAAGT
* *
196205430 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
196205495 CGA-TTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
196205522 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
196205587 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
196205601 CAAACATCCT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 65 0.87
93 10 0.13
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:196205596 original size:46 final size:46
Alignment explanation
Indices: 196205422--196205596 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
196205412 TGTAACCCGC
* * *
196205422 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
196205468 CCATAAGTGAACTCGGACTCAACTCAACGA-TTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
196205517 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
196205560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
196205597 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 6 0.05
46 81 0.74
47 8 0.07
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:196212169 original size:37 final size:38
Alignment explanation
Indices: 196212125--196212274 Score: 207
Period size: 37 Copynumber: 3.9 Consensus size: 38
196212115 AATGTGCGAA
196212125 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-G
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAG
*
196212162 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AG
* *
196212201 CTATGATATCCGGGCTAA--CCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AG
* *
196212238 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGC
196212275 GGGTTACCAT
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
37 68 0.68
39 17 0.17
40 15 0.15
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (38 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAG
Found at i:196212291 original size:76 final size:75
Alignment explanation
Indices: 196212130--196212293 Score: 197
Period size: 76 Copynumber: 2.2 Consensus size: 75
196212120 GCGAATTGTG
*
196212130 ATATCCGGGCTAAGCCCGAAGGCAATTGTGCGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGG
1 ATATACGGGCTAA-CCCGAAGGCAATTGTGCGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGG
**
196212195 TGCGAGCTATG
65 TGCGAGCTACC
* * *
196212206 ATATCCGGGCTAA-CCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 ATATACGGGCTAACCCGAAGGCAATTGTGC--GTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
* * *
196212270 TGTGCGGGTTACC
63 GGTGCGAGCTACC
196212283 ATA-ACGGGCTA
1 ATATACGGGCTA
196212294 TGTCCCGAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
74 16 0.21
76 39 0.51
77 22 0.29
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (75 bp):
ATATACGGGCTAACCCGAAGGCAATTGTGCGTTGTGATATCCGGGCTAAGCCCGAAGGCAATGGT
GCGAGCTACC
Found at i:196220863 original size:29 final size:29
Alignment explanation
Indices: 196220829--196220931 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
196220819 TACTCGATTT
* * *
196220829 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
196220858 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
196220887 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
196220916 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
196220932 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:196225782 original size:60 final size:60
Alignment explanation
Indices: 196225708--196225937 Score: 289
Period size: 60 Copynumber: 3.8 Consensus size: 60
196225698 AGCACTATGG
* * * * * * *
196225708 CCACAAAGGTTTTCCTTTCCATAGAATTGCCATAAAGGCACCCTTTTCATGCAATACTCA
1 CCACAAAGGCTTTCCTTTCCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAATACTCA
* * *
196225768 CCACAAGGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCATTTTCATTCAATACTCA
1 CCACAAAGGCTTTCCTTTCCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAATACTCA
* * * *
196225828 CCACAAAGGCTTTCCTTTCCAAAGATTTTTCACAAAGGCATCCTTTTGATTCAGTACTCG
1 CCACAAAGGCTTTCCTTTCCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAATACTCA
* * * * *
196225888 CCAAAAAGGCTTTCCTTTCTATATATTTTCCACAAAGGCATTCTTTTCAT
1 CCACAAAGGCTTTCCTTTCCAAAGATTTTCCACAAAGGCATCCTTTTCAT
196225938 ACATTTTCAT
Statistics
Matches: 147, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 147 1.00
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.33
Consensus pattern (60 bp):
CCACAAAGGCTTTCCTTTCCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAATACTCA
Found at i:196225785 original size:32 final size:32
Alignment explanation
Indices: 196225749--196225845 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 32
196225739 ATAAAGGCAC
*
196225749 CCTTTTCATGCAATACTCACCACAAGGGCTTT
1 CCTTTTCATGCAATACTCACCACAAAGGCTTT
* ** *
196225781 CCTTTCCA-G-AGAT--TTTCCACAAAGGC-AT
1 CCTTTTCATGCA-ATACTCACCACAAAGGCTTT
* *
196225809 CATTTTCATTCAATACTCACCACAAAGGCTTT
1 CCTTTTCATGCAATACTCACCACAAAGGCTTT
196225841 CCTTT
1 CCTTT
196225846 CCAAAGATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
28 7 0.15
29 12 0.26
30 2 0.04
31 14 0.30
32 12 0.26
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (32 bp):
CCTTTTCATGCAATACTCACCACAAAGGCTTT
Found at i:196230539 original size:38 final size:38
Alignment explanation
Indices: 196230481--196230638 Score: 201
Period size: 38 Copynumber: 4.1 Consensus size: 38
196230471 ATTTGATGTG
* * * *
196230481 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTATTA
*
196230521 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
196230559 TGTCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
196230597 TATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
196230635 TATC
1 TATC
196230639 TGAGCTTAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
37 1 0.01
38 93 0.88
39 5 0.05
40 7 0.07
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:196230669 original size:40 final size:38
Alignment explanation
Indices: 196230497--196230670 Score: 199
Period size: 38 Copynumber: 4.5 Consensus size: 38
196230487 GGCTTAAAGA
* * **
196230497 CCCGCAGGCTATA-TGCTGGAAATATATCCAGGTTAAAT
1 CCCGCAGGCT-TAGTGCTGGTATTATATCTGGGTTAAAT
* * *
196230535 CCCGCAGGCTTCGTGCTGGTATTATGTCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCTGGGTTAAAT
*
196230573 CCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCTGGGTTAAAT
* *
196230611 CCCGCAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGGCTTAGTGCTGGTATTATATCTG-GGTTAAA-T
*
196230651 CCTGCAGG-TTATGTGCTGGT
1 CCCGCAGGCTTA-GTGCTGGT
196230671 GACTGGATTC
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 95 0.79
39 8 0.07
40 16 0.13
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCTGGGTTAAAT
Found at i:196234704 original size:38 final size:39
Alignment explanation
Indices: 196234652--196234866 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 39
196234642 GAATCACGTA
* * **
196234652 CCTTCGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGACTTAACCCGGATATAG-TAACTCGCACAAATG
* *
196234690 CCTTCGGACATAACCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
196234729 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTC-GGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
196234769 CCTTCGGGCTT-AGCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGACTTAACCCGGATA-TAGTAACTCGCACAAATG
** * *
196234807 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGA-CTTAACCCGGATATAGTAAC-TCGCACAAATG
*
196234847 CCTTCGGGACTTAGCCCGGA
1 CCTTC-GGACTTAACCCGGA
196234867 CATCATTCGA
Statistics
Matches: 148, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
38 41 0.28
39 33 0.22
40 62 0.42
41 12 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CCTTCGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:196234755 original size:40 final size:40
Alignment explanation
Indices: 196234684--196234866 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
196234674 GCTACTCGTT
*
196234684 CAAATGCCTTC-GGACATAACCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
196234723 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
196234763 CCAATGCCTTCGGG-CTT-AGCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
196234801 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
196234842 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
196234867 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
37 2 0.02
38 29 0.23
39 17 0.14
40 64 0.51
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:196234804 original size:78 final size:79
Alignment explanation
Indices: 196234711--196234862 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 79
196234701 AACCCGGTTA
* * *
196234711 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
196234774 GGG-CTTAGCCGGAAT
64 GGGACTTAGCCGGAAT
** *
196234789 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
196234854 GACTTAGCC
66 GACTTAGCC
196234863 CGGACATCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
77 3 0.05
78 51 0.78
79 11 0.17
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCGGAAT
Found at i:196242924 original size:119 final size:120
Alignment explanation
Indices: 196242742--196242964 Score: 319
Period size: 119 Copynumber: 1.9 Consensus size: 120
196242732 TACTCGTTCA
*
196242742 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
196242807 TTAGTGAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTCACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* **
196242862 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
196242924 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
196242965 CATCATTCGA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
118 4 0.04
119 68 0.74
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:196242964 original size:40 final size:40
Alignment explanation
Indices: 196242721--196242964 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
196242711 CGGAATTTAA
** *
196242721 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
196242761 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
196242801 CCGGATTTAGTGACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
196242841 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
196242880 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
196242920 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
196242960 CCGGA
1 CCGGA
196242965 CATCATTCGA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.18
40 133 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:196245995 original size:47 final size:47
Alignment explanation
Indices: 196245905--196246377 Score: 760
Period size: 47 Copynumber: 10.2 Consensus size: 47
196245895 TATAGTACTG
* * * *
196245905 ACATCCATCACGTTGGCCATTCGGCC-TATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
196245951 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
196245998 ACATTCATCACATCGGCCA-TAGG-CTTATCA-ATATATACACTTTT
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* * * *
196246042 TCA-TCA-CAAATTGGCCATTCGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
196246087 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
196246134 ACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
196246181 ACGTTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
*
196246228 ACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
196246275 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* * * *
196246322 ACATTCATCACATCGGCCATTCGACCTTATCTCATATATACACATTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
196246369 ACATTCATC
1 ACATTCATC
196246378 GCATAAAATC
Statistics
Matches: 397, Mismatches: 24, Indels: 11
0.92 0.06 0.03
Matches are distributed among these distances:
42 9 0.02
43 6 0.02
44 22 0.06
45 22 0.06
46 29 0.07
47 309 0.78
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
Found at i:196249262 original size:16 final size:17
Alignment explanation
Indices: 196249232--196249267 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
196249222 TCCACACACA
196249232 TTTTTTTTCATCATTTCT
1 TTTTTTTTCA-CATTTCT
196249250 TTTTTTTTC-CATTTCT
1 TTTTTTTTCACATTTCT
196249266 TT
1 TT
196249268 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTTTTCACATTTCT
Found at i:196255594 original size:29 final size:27
Alignment explanation
Indices: 196255560--196255662 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
196255550 TACTCGATCA
*
196255560 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
196255589 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
196255618 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
196255647 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
196255663 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:196257006 original size:17 final size:19
Alignment explanation
Indices: 196256972--196257009 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
196256962 TCCACACACA
196256972 TTTTTTTTCATCATTTTCTT
1 TTTTTTTTCA-CATTTTCTT
196256992 TTTTTTTTC-CA-TTTCTT
1 TTTTTTTTCACATTTTCTT
196257009 T
1 T
196257010 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 2 0.11
20 9 0.50
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCACATTTTCTT
Found at i:196268799 original size:163 final size:163
Alignment explanation
Indices: 196268617--196268952 Score: 645
Period size: 163 Copynumber: 2.1 Consensus size: 163
196268607 ATCACATATT
196268617 CATATAATCAAGCTTACCTTCTTGTGATGATTTATATTTTACTCAAAATCAATTTAACCAAACCT
1 CATATAATCAAGCTTACCTTCTTGTGATGATTTATATTTTACTCAAAATCAATTTAACCAAACCT
196268682 TATACATGTAAATATTAAACATGATATAACTTTATATTATCTAACCAAAATATAACATTATTAGT
66 TATACATGTAAATATTAAACATGATATAACTTTATATTATCTAACCAAAATATAACATTATTAGT
196268747 CATTCCAAAAACTAGATTACAAACATCCATTTA
131 CATTCCAAAAACTAGATTACAAACATCCATTTA
196268780 CATATAATCAAGCTTACCTTCTTGTGATGATTTATATTTTACTCAAAATCAATTTAACCAAACCT
1 CATATAATCAAGCTTACCTTCTTGTGATGATTTATATTTTACTCAAAATCAATTTAACCAAACCT
*
196268845 TATACATGTATATATTAAACATGATATAACTTTATATTATCTAACCAAAATATAACATTATTAGT
66 TATACATGTAAATATTAAACATGATATAACTTTATATTATCTAACCAAAATATAACATTATTAGT
*
196268910 CATTCCAAAAGCTAGATTACAAACATCCATTTA
131 CATTCCAAAAACTAGATTACAAACATCCATTTA
*
196268943 CATATTATCA
1 CATATAATCA
196268953 TTGGTAAAAT
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 170 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (163 bp):
CATATAATCAAGCTTACCTTCTTGTGATGATTTATATTTTACTCAAAATCAATTTAACCAAACCT
TATACATGTAAATATTAAACATGATATAACTTTATATTATCTAACCAAAATATAACATTATTAGT
CATTCCAAAAACTAGATTACAAACATCCATTTA
Found at i:196269764 original size:25 final size:25
Alignment explanation
Indices: 196269695--196269757 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 25
196269685 AACACTATCA
*
196269695 GGAAGCTCACAAAGAGCCAAATTTAACG
1 GGAAGCTCACGAAGAGCC---TTTAACG
196269723 GGAAGCTCACGAAGAGCCTTTAATCG
1 GGAAGCTCACGAAGAGCCTTTAA-CG
*
196269749 GGATGCTCA
1 GGAAGCTCA
196269758 TAAGAGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
28 17 0.53
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.17
Consensus pattern (25 bp):
GGAAGCTCACGAAGAGCCTTTAACG
Found at i:196275130 original size:27 final size:27
Alignment explanation
Indices: 196275088--196275199 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
196275078 AGGAAGTGTC
*
196275088 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
196275115 CTGGTGGCTCTACCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
196275142 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
196275170 CTGGTGACTCTGTCAC-ATTTTCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
196275196 CTGG
1 CTGG
196275200 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 8 0.11
27 45 0.64
28 17 0.24
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:196275192 original size:54 final size:54
Alignment explanation
Indices: 196275091--196275197 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
196275081 AAGTGTCCTG
*
196275091 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATTTCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATTTCTGTTCTA
* * **
196275145 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTTCT
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATTTCTGTTCT
196275198 GGCAGCCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATTTCTGTTCTA
Found at i:196279580 original size:49 final size:48
Alignment explanation
Indices: 196279524--196279814 Score: 350
Period size: 49 Copynumber: 6.4 Consensus size: 48
196279514 TACATATATG
* * * *
196279524 TGTGATAAGGCCAAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGT-TA
* *
196279573 TGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGT-TA
*
196279622 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG-TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTA
196279665 TGT-AT----CCTAATGGCCGATGTGGTGAATGTG-AAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGT-TA
*
196279708 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTA
196279756 TGTGATAAGG-C---T---CGATGTGGTGAATGTGAAAGTGTATG-TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTA
196279796 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
196279815 TAATGTAAAA
Statistics
Matches: 217, Mismatches: 6, Indels: 40
0.83 0.02 0.15
Matches are distributed among these distances:
37 2 0.01
38 25 0.12
39 1 0.00
40 12 0.06
41 29 0.13
42 2 0.01
43 10 0.05
44 4 0.02
45 2 0.01
47 2 0.01
48 36 0.17
49 92 0.42
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTA
Found at i:196279718 original size:86 final size:88
Alignment explanation
Indices: 196279583--196279814 Score: 357
Period size: 86 Copynumber: 2.7 Consensus size: 88
196279573 TGTGATAAGG
* *
196279583 CCTAATGGCCGATGCGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTG
1 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTG
196279648 GTGAATGTGAAAGTGTATG-TAT
66 GTGAATGTGAAAGTGTATGTTAT
196279670 CCTAATGGCCGATGTGGTGAATGTG-AAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTG
1 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTG
196279734 GTGAATGTGAAAGTGTATGTTAT
66 GTGAATGTGAAAGTGTATGTTAT
* * *
196279757 -GTGATAAGGCTCGATGTGGTGAATGTGAAAGTGTATG--TATGTGATAAGGCCTAATGGC
1 CCT-A-ATGGC-CGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGC
196279815 TAATGTAAAA
Statistics
Matches: 135, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
86 59 0.44
87 27 0.20
88 24 0.18
89 16 0.12
90 9 0.07
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.31
Consensus pattern (88 bp):
CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTG
GTGAATGTGAAAGTGTATGTTAT
Found at i:196279722 original size:48 final size:48
Alignment explanation
Indices: 196279670--196279814 Score: 209
Period size: 48 Copynumber: 3.2 Consensus size: 48
196279660 GTGTATGTAT
*
196279670 CCTAATGGCCGATGTGGTGAATGTG-AAGTGTATGTATATGTGATGAGG
1 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGT-TATGTGATAAGG
196279718 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTATGTGATAAGG
1 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTATGTGATAAGG
196279766 -C---T---CGATGTGGTGAATGTGAAAGTGTATG-TATGTGATAAGG
1 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTATGTGATAAGG
196279806 CCTAATGGC
1 CCTAATGGC
196279815 TAATGTAAAA
Statistics
Matches: 88, Mismatches: 1, Indels: 17
0.83 0.01 0.16
Matches are distributed among these distances:
40 12 0.14
41 27 0.31
44 2 0.02
47 1 0.01
48 36 0.41
49 10 0.11
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.31
Consensus pattern (48 bp):
CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTTATGTGATAAGG
Found at i:196279772 original size:41 final size:40
Alignment explanation
Indices: 196279641--196279806 Score: 178
Period size: 41 Copynumber: 4.0 Consensus size: 40
196279631 GCCTAATGGC
* *
196279641 CGATGTGGTGAATGTGAAAGTGTATGTATCCT-A-ATGGC-
1 CGATGTGGTGAATGTGAAAGTGTATGTAT-GTGATAAGGCT
*
196279679 CGATGTGGTGAATGTG-AAGTGTATGTATATGTGATGAGGCCTAAT
1 CGATGTGGTGAATGTGAAAGTGTATG--TATGTGATAAGG-C---T
196279724 GGCCGATGTGGTGAATGTGAAAGTGTATGTTATGTGATAAGGCT
1 ---CGATGTGGTGAATGTGAAAGTGTATG-TATGTGATAAGGCT
196279768 CGATGTGGTGAATGTGAAAGTGTATGTATGTGATAAGGC
1 CGATGTGGTGAATGTGAAAGTGTATGTATGTGATAAGGC
196279807 CTAATGGCTA
Statistics
Matches: 110, Mismatches: 5, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
37 9 0.08
38 17 0.15
39 4 0.04
40 15 0.14
41 27 0.25
44 1 0.01
47 1 0.01
48 27 0.25
49 9 0.08
ACGTcount: A:0.27, C:0.07, G:0.34, T:0.32
Consensus pattern (40 bp):
CGATGTGGTGAATGTGAAAGTGTATGTATGTGATAAGGCT
Found at i:196279964 original size:37 final size:37
Alignment explanation
Indices: 196279914--196279998 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
196279904 GGAATATGTT
*
196279914 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
* *
196279951 CCGGGTAAGACCCGATGACTATGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
196279988 CCGGGTAAGAC
1 CCGGGTAAGAC
196279999 TTCTTTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:196284100 original size:22 final size:24
Alignment explanation
Indices: 196284073--196284121 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
196284063 CTCAGCTTGT
196284073 ATGAGA-TTACCAATT-GCAGCTC
1 ATGAGACTTACCAATTCGCAGCTC
*
196284095 ATGAGAGCTTACCAATTCTCAGCTC
1 ATGAGA-CTTACCAATTCGCAGCTC
196284120 AT
1 AT
196284122 ATGAGCTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
24 9 0.39
25 8 0.35
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (24 bp):
ATGAGACTTACCAATTCGCAGCTC
Found at i:196284127 original size:25 final size:25
Alignment explanation
Indices: 196284054--196284132 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
196284044 GGGTGTTACA
* ** *
196284054 TTACCGATTCTCAGCTTGTATGAGA
1 TTACCAATTCTCAGCTCATATGAGC
*
196284079 TTACCAATT-GCAGCTCATGA-GAGC
1 TTACCAATTCTCAGCTCAT-ATGAGC
196284103 TTACCAATTCTCAGCTCATATGAGC
1 TTACCAATTCTCAGCTCATATGAGC
196284128 TTACC
1 TTACC
196284133 GATGTATAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 19 0.42
25 26 0.58
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (25 bp):
TTACCAATTCTCAGCTCATATGAGC
Found at i:196284177 original size:25 final size:25
Alignment explanation
Indices: 196284115--196284189 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 25
196284105 ACCAATTCTC
* * *
196284115 AGCTCATATGAGCTTACCGATGTAT
1 AGCTCGTATGAGCATACCAATGTAT
*
196284140 AACTCGTGA-GAGCATACCAAT-TAAT
1 AGCTCGT-ATGAGCATACCAATGT-AT
*
196284165 AGCTCGTATGAGCTTA-C-ATGTAT
1 AGCTCGTATGAGCATACCAATGTAT
196284188 AG
1 AG
196284190 AAATTGACGA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 6 0.15
24 4 0.10
25 29 0.73
26 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCAATGTAT
Found at i:196291760 original size:24 final size:24
Alignment explanation
Indices: 196291493--196291758 Score: 453
Period size: 24 Copynumber: 11.1 Consensus size: 24
196291483 GCAAAGACCA
196291493 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
196291516 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
196291540 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
196291564 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
196291588 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
196291612 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
196291636 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
196291660 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
196291684 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
196291708 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
196291732 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
196291756 TAT
1 TAT
196291759 AGTCACATTC
Statistics
Matches: 238, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
23 19 0.08
24 219 0.92
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:196299790 original size:24 final size:24
Alignment explanation
Indices: 196299522--196299788 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
196299512 GCAAAGACCA
196299522 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
196299546 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
196299570 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
196299594 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
196299618 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
196299642 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
196299666 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
196299690 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
196299714 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
196299738 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
196299762 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
196299786 TAT
1 TAT
196299789 AGTCACATTC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 237 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:196301275 original size:39 final size:40
Alignment explanation
Indices: 196301132--196301277 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
196301122 CGGTTCGGGG
* * * * *
196301132 TGTTACATCCGGGCTATGTCCCGAAGGCATTTATGCTAG-
1 TGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
196301171 TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
1 TG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
* *
196301212 TGCTATATCCCGGCTAAGACCCGAAGGCATTTGTGCGAGT
1 TGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
196301252 TGTTATATCC-GGCTAA-ATCCCGAAGG
1 TGTTATATCCGGGCTAAGA-CCCGAAGG
196301278 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.17
40 77 0.80
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT
Found at i:196301544 original size:22 final size:22
Alignment explanation
Indices: 196301506--196301550 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
196301496 ATGTGCATAT
*
196301506 ATGAAGTTATTCATTTAGCCAA
1 ATGAAGTTATACATTTAGCCAA
*
196301528 ATGAATGTTATAC-TTTAGTCAA
1 ATGAA-GTTATACATTTAGCCAA
196301550 A
1 A
196301551 ACTAATTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (22 bp):
ATGAAGTTATACATTTAGCCAA
Found at i:196305786 original size:30 final size:29
Alignment explanation
Indices: 196305750--196305811 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
196305740 CCTTTTCATA
196305750 TTTCATATTTCATAACACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCC-AAGCC
**
196305780 TTTCATATTTCATATTACTGGGCCAAGCC
1 TTTCATATTTCATAACACTGGGCCAAGCC
196305809 TTT
1 TTT
196305812 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 8 0.27
30 22 0.73
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
TTTCATATTTCATAACACTGGGCCAAGCC
Found at i:196306054 original size:24 final size:24
Alignment explanation
Indices: 196306018--196306144 Score: 206
Period size: 23 Copynumber: 5.4 Consensus size: 24
196306008 CTGGAGGCCT
*
196306018 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
196306043 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
196306067 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
196306090 AGCCCTTTTGATAACT-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
196306113 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
196306136 AGCCCTTTT
1 AGCCCTTTT
196306145 TCACTTCCTC
Statistics
Matches: 96, Mismatches: 3, Indels: 7
0.91 0.03 0.07
Matches are distributed among these distances:
22 9 0.09
23 47 0.49
24 36 0.38
25 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:196306219 original size:20 final size:20
Alignment explanation
Indices: 196306194--196306232 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
196306184 TATGATTACA
196306194 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
196306214 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
196306233 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:196306238 original size:20 final size:20
Alignment explanation
Indices: 196306195--196306239 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
196306185 ATGATTACAT
**
196306195 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
196306215 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
196306235 CATGT
1 CATGT
196306240 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:196306308 original size:25 final size:25
Alignment explanation
Indices: 196306276--196306323 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
196306266 ATACATAAAC
* * *
196306276 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
196306301 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
196306324 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:196308684 original size:123 final size:126
Alignment explanation
Indices: 196308446--196308685 Score: 459
Period size: 123 Copynumber: 1.9 Consensus size: 126
196308436 CTCAAAATCT
196308446 TCTTCCAAGGTGAAACCTTCAAAAAGACCATGTCTCCTACCGCATATTCAATATCCTTACGCTTC
1 TCTTCCAAGGTGAAACCTTCAAAAAGACCATGTCTCCTACCGCATATTCAATATCCTTACGCTTC
196308511 AGATCGGCATAAGACTTTTGTCGATCCGCCGCCTCTTTTAACCTCTTCCTGACTCTTTACC
66 AGATCGGCATAAGACTTTTGTCGATCCGCCGCCTCTTTTAACCTCTTCCTGACTCTTTACC
196308572 TCTTCCAAGGTGAAACCTTC-AAAA-ACCATGTCTCCTACCGCATATTCAATATCCTTACGCTTC
1 TCTTCCAAGGTGAAACCTTCAAAAAGACCATGTCTCCTACCGCATATTCAATATCCTTACGCTTC
196308635 AGATC-GCATAAGACTTTTGTCGATCCGCCGCCTCTTTTAACCTCTTCCTGA
66 AGATCGGCATAAGACTTTTGTCGATCCGCCGCCTCTTTTAACCTCTTCCTGA
196308686 TCACCTTAAT
Statistics
Matches: 114, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
123 46 0.40
124 44 0.39
125 4 0.04
126 20 0.18
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (126 bp):
TCTTCCAAGGTGAAACCTTCAAAAAGACCATGTCTCCTACCGCATATTCAATATCCTTACGCTTC
AGATCGGCATAAGACTTTTGTCGATCCGCCGCCTCTTTTAACCTCTTCCTGACTCTTTACC
Found at i:196313050 original size:30 final size:30
Alignment explanation
Indices: 196313014--196313076 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
196313004 CCTTTTCATA
196313014 TTTCATATTTCATAACACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
**
196313044 TTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTCATATTTCATAACACTGGGCCGAAGCC
196313074 TTT
1 TTT
196313077 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (30 bp):
TTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:196313314 original size:23 final size:24
Alignment explanation
Indices: 196313283--196313450 Score: 248
Period size: 23 Copynumber: 7.4 Consensus size: 24
196313273 CTGGAGGCCT
196313283 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
196313307 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
196313331 AGCCC-TTTAATAA-T-GGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
196313352 AGCCC-TTT--TAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
196313373 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
196313396 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
196313420 AGCCC-TTTAATAACTGGGGCA-A
1 AGCCCTTTTAATAACTGGGGCATA
196313442 AGCCCTTTT
1 AGCCCTTTT
196313451 CACTTCCTCC
Statistics
Matches: 136, Mismatches: 1, Indels: 15
0.89 0.01 0.10
Matches are distributed among these distances:
19 3 0.02
20 1 0.01
21 27 0.20
22 10 0.07
23 66 0.49
24 29 0.21
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:196313403 original size:89 final size:91
Alignment explanation
Indices: 196313283--196313450 Score: 281
Period size: 89 Copynumber: 1.9 Consensus size: 91
196313273 CTGGAGGCCT
196313283 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAA-T-G
1 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
196313346 GGCATAAGCCCTTTTAACTGGGGCATA
66 GGCA-AAGCCCTTTTAACTGGGGCATA
*
196313373 AGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
196313436 GGGCAAAGCCCTTTT
65 GGGCAAAGCCCTTTT
196313451 CACTTCCTCC
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
88 12 0.16
89 42 0.57
90 15 0.20
91 5 0.07
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (91 bp):
AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGG
GGCAAAGCCCTTTTAACTGGGGCATA
Found at i:196313524 original size:20 final size:20
Alignment explanation
Indices: 196313499--196313537 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
196313489 TATGATTACA
196313499 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
196313519 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
196313538 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:196313543 original size:20 final size:20
Alignment explanation
Indices: 196313500--196313544 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
196313490 ATGATTACAT
**
196313500 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
196313520 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
196313540 CATGT
1 CATGT
196313545 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:196313613 original size:25 final size:25
Alignment explanation
Indices: 196313581--196313628 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
196313571 ATACATAAAC
* * *
196313581 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
196313606 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
196313629 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:196321290 original size:28 final size:28
Alignment explanation
Indices: 196321258--196321356 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
196321248 GCAATAAGCC
*
196321258 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
196321286 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
196321314 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
196321343 CGCACACTTAGTGC
1 CGCACACTTAGTGC
196321357 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:196323431 original size:23 final size:24
Alignment explanation
Indices: 196323393--196323481 Score: 128
Period size: 23 Copynumber: 3.8 Consensus size: 24
196323383 CGGCTCGTAA
196323393 GAGCTTACTGTTTTCAGCTCGTTG
1 GAGCTTACTGTTTTCAGCTCGTTG
196323417 GAGCTTA-TGTTTTCAGCTCGTTG
1 GAGCTTACTGTTTTCAGCTCGTTG
* **
196323440 GAGCTTACTG-TTTCAGCTCATAA
1 GAGCTTACTGTTTTCAGCTCGTTG
*
196323463 GAGCTTACTGTTTCCAGCT
1 GAGCTTACTGTTTTCAGCT
196323482 TATCAGAGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.73
24 16 0.27
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCGTTG
Found at i:196323489 original size:24 final size:23
Alignment explanation
Indices: 196323385--196323518 Score: 112
Period size: 23 Copynumber: 5.7 Consensus size: 23
196323375 CGATATATCG
*
196323385 GCTCGTAAGAGCTTACTGTTTTCA
1 GCTCATAAGAGCTTACTG-TTTCA
* **
196323409 GCTCGTTGGAGCTTA-TGTTTTCA
1 GCTCATAAGAGCTTACTG-TTTCA
* **
196323432 GCTCGTTGGAGCTTACTGTTTCA
1 GCTCATAAGAGCTTACTGTTTCA
196323455 GCTCATAAGAGCTTACTGTTTCCA
1 GCTCATAAGAGCTTACTGTTT-CA
* * *
196323479 GCTTATCAGAGCTTA-TAGTTTTA
1 GCTCATAAGAGCTTACT-GTTTCA
196323502 GCTCA-ATAGAGCTTACT
1 GCTCATA-AGAGCTTACT
196323519 ATCCATCAGC
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
23 60 0.63
24 35 0.37
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (23 bp):
GCTCATAAGAGCTTACTGTTTCA
Found at i:196323491 original size:47 final size:47
Alignment explanation
Indices: 196323392--196323518 Score: 125
Period size: 47 Copynumber: 2.7 Consensus size: 47
196323382 TCGGCTCGTA
* ** * * *
196323392 AGAGCTTACTGTTTTCAGCTCGTTGGAGCTTA-TGTTTTCAGCTCGTT
1 AGAGCTTACTG-TTTCAGCTCATAAGAGCTTACTGTTTCCAGCTCATC
* *
196323439 GGAGCTTACTGTTTCAGCTCATAAGAGCTTACTGTTTCCAGCTTATC
1 AGAGCTTACTGTTTCAGCTCATAAGAGCTTACTGTTTCCAGCTCATC
*
196323486 AGAGCTTA-TAGTTTTAGCTCA-ATAGAGCTTACT
1 AGAGCTTACT-GTTTCAGCTCATA-AGAGCTTACT
196323519 ATCCATCAGC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 19 0.28
47 48 0.72
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (47 bp):
AGAGCTTACTGTTTCAGCTCATAAGAGCTTACTGTTTCCAGCTCATC
Found at i:196323514 original size:70 final size:70
Alignment explanation
Indices: 196323385--196323518 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
196323375 CGATATATCG
* * * ** ** *
196323385 GCTCGTAAGAGCTTACTGTTTTCAGCTCGTTGGAGCTTATGTTTTCAGCTCGTTGGAGCTTACTG
1 GCTCATAAGAGCTTACTGTTTCCAGCTCATCAGAGCTTATGTTTTCAGCTCAATAGAGCTTACTG
196323450 TTTCA
66 TTTCA
*
196323455 GCTCATAAGAGCTTACTGTTTCCAGCTTATCAGAGCTTATAGTTTT-AGCTCAATAGAGCTTACT
1 GCTCATAAGAGCTTACTGTTTCCAGCTCATCAGAGCTTAT-GTTTTCAGCTCAATAGAGCTTACT
196323519 ATCCATCAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 49 0.91
71 5 0.09
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (70 bp):
GCTCATAAGAGCTTACTGTTTCCAGCTCATCAGAGCTTATGTTTTCAGCTCAATAGAGCTTACTG
TTTCA
Found at i:196330591 original size:18 final size:18
Alignment explanation
Indices: 196330568--196330618 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
196330558 AGAAAATAAG
*
196330568 TAAAACTAAAACTCTTAA
1 TAAAACTAAAACTCTAAA
* *
196330586 TAAAACCTAATA-TAATAAA
1 TAAAA-CTAAAACT-CTAAA
196330605 TAAAACTAAAACTC
1 TAAAACTAAAACTC
196330619 CTTTTGCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAACTAAAACTCTAAA
Found at i:196332648 original size:13 final size:13
Alignment explanation
Indices: 196332630--196332708 Score: 149
Period size: 13 Copynumber: 6.1 Consensus size: 13
196332620 TAAGCAATCG
196332630 CACACGGGCGTGT
1 CACACGGGCGTGT
196332643 CACACGGGCGTGT
1 CACACGGGCGTGT
196332656 CACACGGGCGTGT
1 CACACGGGCGTGT
*
196332669 CACACTGGCGTGT
1 CACACGGGCGTGT
196332682 CACACGGGCGTGT
1 CACACGGGCGTGT
196332695 CACACGGGCGTGT
1 CACACGGGCGTGT
196332708 C
1 C
196332709 CCTATCGAGC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 64 1.00
ACGTcount: A:0.15, C:0.32, G:0.37, T:0.16
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:196333836 original size:12 final size:13
Alignment explanation
Indices: 196333819--196333847 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
196333809 GCAATTTAAA
196333819 TTTTATT-CTAAT
1 TTTTATTACTAAT
196333831 TTTTATTACTAAT
1 TTTTATTACTAAT
196333844 TTTT
1 TTTT
196333848 TTTCCCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTACTAAT
Found at i:196339281 original size:39 final size:39
Alignment explanation
Indices: 196339169--196339400 Score: 260
Period size: 39 Copynumber: 5.9 Consensus size: 39
196339159 TCGTTCAAAC
* * * * *
196339169 GCCTTCGGGACATAGCCCGGTTATGATAA-CCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCA-AATCTCGCACAATT
* *
196339209 GCCTTCGGGACTTAACCCGGATATCACAA-CTCGCACAATC
1 GCCTTCGGG-CTTAGCCCGGATATCA-AATCTCGCACAATT
*
196339249 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACAATT
* *
196339288 GCCTTCGGGCTTAGCCAGGATATCACAAT-TCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACAATT
*
196339327 GCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACAATT
196339366 GCCTTCGGGCTTAG-CCGGATATCACAAT-TCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCA-AATCTCGCACA
196339401 TTCATACACA
Statistics
Matches: 175, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 22 0.13
39 110 0.63
40 43 0.25
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCAAATCTCGCACAATT
Done.