Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 100 of 221
Found at i:30691214 original size:100 final size:100
Alignment explanation
Indices: 30691039--30692329 Score: 1453
Period size: 100 Copynumber: 12.9 Consensus size: 100
30691029 AAGAATTTCA
* *
30691039 AATCTTACTT-CCTAGGCGATGCAGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTACTTCCCT-GGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* *
30691103 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * ** * *
30691139 AATCTTACTCCCCAGGCGATGCAGTGGAATAGATTAAAACCACATCGGTGAATCTTGCTTCCTCG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * * *
30691204 ACATTACAGTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * * * *
30691239 AATCTTACTCCCCAGGTGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTACTTCCCCA
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * *
30691304 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * * *
30691339 AATCTTACTGCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCCA
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * **** *
30691404 ACATTGTAGTTAAAAAGATTAAAGCTACAATAACA
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * *
30691439 AATCTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * *
30691504 ACATTGCTGTTAAAAAGACTAAAGCCACAGTGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * ** *
30691539 AGTGC-TACTTCCCTGGCGGTGCGGTGGAATAGATTAAAGCCACATCGATGAATCTTGCTTCCCC
1 AAT-CTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
30691603 GACATTACAGTTAAAAAAATTAAAGCCACAGCGACG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* ** * * *
30691639 AATCCTACTTCCCTGGCGGCGCAGTGGAGCAGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* * * *
30691703 GATATTGCAGTTAAAAAGACTAAAGCCATAGCGGCA
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * *
30691739 AATCCTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCTG
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
30691804 ACATTGCAGTTAAAAAGATTAAAGCCACATCGGCT
66 ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * *
30691839 AATCTTACTTCCCTGGCGATACAGTAGAGCAGATTAAACCCACGAT-GGTGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
*
30691903 GACATTGCAGTTAAAAAGATTAAAGCCACATCGGCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* ** * * *
30691939 AATCTTACTTCCCTGGCGATACAGAAGAGCAGATTAAAGCCACGA-CAGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* * *
30692003 GACATTGCAATTAAAAAAGACTAAAGCCACAGTGGCG
65 GACATTGCAGTT-AAAAAGATTAAAGCCACAGCGGCG
* * * * * * *
30692040 AGTGTTACTTCCTTGGCGATGCAGTAGAGCAGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* *
30692104 GACATTGCAGTTAAAAAGACTAAAGCCACAGCGGTG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * *
30692140 AGTGTTACTTCCCTGGAGATGCAGTGGAGCAGATTAAAGCCACAAT-GGCGTATCTTGCTTCCCC
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* **
30692204 GACATTGCAGTTAAAAAGACTAAAGCCACAGCATCG
65 GACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
* * * * * * *
30692240 AGTGTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCTACAACAGCGAATCTTGCTTCCCCA
1 AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
** **
30692305 ACATCACAGTTAAGCAGATTAAAGC
66 ACATTGCAGTTAAAAAGATTAAAGC
30692330 TACAAGGTAC
Statistics
Matches: 1056, Mismatches: 125, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
99 3 0.00
100 958 0.91
101 95 0.09
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (100 bp):
AATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
Found at i:30692251 original size:50 final size:50
Alignment explanation
Indices: 30692097--30692252 Score: 142
Period size: 50 Copynumber: 3.1 Consensus size: 50
30692087 GCGTATCTTG
*
30692097 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCGGT-GAGTGTTA
1 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGC-ATCGAGTGTTA
* * ** ** * * *
30692147 CTTCCCTGGAGA-TGCAGTGGAGCAGATTAAAGCCACA--ATGGCGTA-TCTTG
1 CTTCCC-CGACATTGCAGTTAAAAAGACTAAAGCCACAGCAT--CG-AGTGTTA
30692197 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCATCGAGTGTTA
1 CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCATCGAGTGTTA
30692247 CTTCCC
1 CTTCCC
30692253 TGGCGATGCA
Statistics
Matches: 78, Mismatches: 19, Indels: 18
0.68 0.17 0.16
Matches are distributed among these distances:
47 1 0.01
49 4 0.05
50 67 0.86
51 4 0.05
52 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (50 bp):
CTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCACAGCATCGAGTGTTA
Found at i:30692278 original size:50 final size:50
Alignment explanation
Indices: 30692124--30692279 Score: 133
Period size: 50 Copynumber: 3.1 Consensus size: 50
30692114 TTAAAAAGAC
* *
30692124 TAAAGCCACAGCGGT-GAGTGTTACTTCCCTGGAGATGCAGTGGAGCAGAT
1 TAAAGCCACAGC-ATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
* * * * ** ** *
30692174 TAAAGCCACA--ATGGCGTA-TCTTGCTTCCCCGAC-ATTGCAGTTAAAAAGAC
1 TAAAGCCACAGCAT--CG-AGTGTTACTTCCCTGGCGA-TGCAGTGGAGCAGAT
30692224 TAAAGCCACAGCATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
1 TAAAGCCACAGCATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
30692274 TAAAGC
1 TAAAGC
30692280 TACAACAGCG
Statistics
Matches: 77, Mismatches: 20, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
47 1 0.01
49 2 0.03
50 70 0.91
51 2 0.03
52 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (50 bp):
TAAAGCCACAGCATCGAGTGTTACTTCCCTGGCGATGCAGTGGAGCAGAT
Found at i:30699744 original size:30 final size:30
Alignment explanation
Indices: 30699707--30699857 Score: 151
Period size: 30 Copynumber: 5.1 Consensus size: 30
30699697 GACTATTGAA
* *
30699707 TATGAAAAGGGATGGTTTTGACCATCGGTT
1 TATGAAAAGGGATGGTTTCGACCATCGATT
* ** *
30699737 TACGAAAAGGGATGGTGACGACCATCAATT
1 TATGAAAAGGGATGGTTTCGACCATCGATT
* * * * *
30699767 AATGAAAATGGATGATTTTGACCATTGATT
1 TATGAAAAGGGATGGTTTCGACCATCGATT
* ** *
30699797 TATGAAAAGGTATGGTGACGACCATTGATT
1 TATGAAAAGGGATGGTTTCGACCATCGATT
*
30699827 AATGAAAAGGGATGGTTTCGACCATCG-TT
1 TATGAAAAGGGATGGTTTCGACCATCGATT
30699856 TA
1 TA
30699858 GCATACTTTG
Statistics
Matches: 93, Mismatches: 28, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
29 3 0.03
30 90 0.97
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (30 bp):
TATGAAAAGGGATGGTTTCGACCATCGATT
Found at i:30699804 original size:60 final size:60
Alignment explanation
Indices: 30699708--30699857 Score: 212
Period size: 60 Copynumber: 2.5 Consensus size: 60
30699698 ACTATTGAAT
*
30699708 ATGAAAAGGGATGGTTTTGACCATCGGTTTACGAAAAGGGATGGTGACGACCATCAATTA
1 ATGAAAAGGGATGGTTTTGACCATCGATTTACGAAAAGGGATGGTGACGACCATCAATTA
* * * * * **
30699768 ATGAAAATGGATGATTTTGACCATTGATTTATGAAAAGGTATGGTGACGACCATTGATTA
1 ATGAAAAGGGATGGTTTTGACCATCGATTTACGAAAAGGGATGGTGACGACCATCAATTA
*
30699828 ATGAAAAGGGATGGTTTCGACCATCG-TTTA
1 ATGAAAAGGGATGGTTTTGACCATCGATTTA
30699858 GCATACTTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 4 0.05
60 74 0.95
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.29
Consensus pattern (60 bp):
ATGAAAAGGGATGGTTTTGACCATCGATTTACGAAAAGGGATGGTGACGACCATCAATTA
Found at i:30705633 original size:20 final size:21
Alignment explanation
Indices: 30705595--30705633 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30705585 TATTTACGTT
* *
30705595 TTTTTTCTCTTCTTCTTTTAC
1 TTTTTCCTCTTCTTATTTTAC
30705616 TTTTTCCTCTT-TTATTTT
1 TTTTTCCTCTTCTTATTTT
30705634 TGCCAATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTCCTCTTCTTATTTTAC
Found at i:30714091 original size:39 final size:40
Alignment explanation
Indices: 30713803--30714071 Score: 499
Period size: 40 Copynumber: 6.8 Consensus size: 40
30713793 CATTTGAATG
*
30713803 ATATCCGGGCTAAGACCCGAAGGCATTTGAGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
30713843 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
30713883 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
30713923 ATATCCGGGCTAAGACCCGAAGGCATTTGT-CGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
30713962 ATATCCGGGCTAAGACCC-AAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
30714001 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
30714040 ATATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
30714072 TTGTGGTTAT
Statistics
Matches: 224, Mismatches: 2, Indels: 6
0.97 0.01 0.03
Matches are distributed among these distances:
38 13 0.06
39 87 0.39
40 124 0.55
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:30721473 original size:80 final size:79
Alignment explanation
Indices: 30721310--30721481 Score: 272
Period size: 80 Copynumber: 2.2 Consensus size: 79
30721300 CATTTGAATG
30721310 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCAAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCAAAGGCA
*
30721375 TTTGTGCGAGTTGAT
65 TTTGTGCGAGTGGAT
* *
30721390 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGGGCA
1 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCAAAGGCA
** *
30721455 TTTGTGCTTGTGGTT
65 TTTGTGCGAGTGGAT
30721470 ATATCCGGCTAA
1 ATATCCGGCTAA
30721482 ATTCCGAAGA
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 6 0.07
80 79 0.93
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCAAAGGCAT
TTGTGCGAGTGGAT
Found at i:30721477 original size:40 final size:40
Alignment explanation
Indices: 30721310--30721461 Score: 277
Period size: 40 Copynumber: 3.8 Consensus size: 40
30721300 CATTTGAATG
*
30721310 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
30721350 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
30721390 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
30721430 ATATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
30721462 TTGTGGTTAT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:30725609 original size:43 final size:42
Alignment explanation
Indices: 30725561--30725644 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
30725551 GGGTAAATCG
* *
30725561 AACAACCCATGTTTATCTTCTCCTCTTTTAAAATTATTTTTTC
1 AACAACCCAAGATTATCTTCTCCT-TTTTAAAATTATTTTTTC
* * *
30725604 AACAACTCAAGATTATCTTCTCCTTTTTTAAATTCTTTTTT
1 AACAACCCAAGATTATCTTCTCCTTTTTAAAATTATTTTTT
30725645 TCTAGGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 15 0.42
43 21 0.58
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.50
Consensus pattern (42 bp):
AACAACCCAAGATTATCTTCTCCTTTTTAAAATTATTTTTTC
Found at i:30731628 original size:55 final size:54
Alignment explanation
Indices: 30731533--30731682 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
30731523 CTACTTTGTT
* ** * *
30731533 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
30731587 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
30731642 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
30731683 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:30731645 original size:27 final size:27
Alignment explanation
Indices: 30731505--30731682 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
30731495 TAAATTGTAC
30731505 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
30731532 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
30731558 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
30731586 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
30731614 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
30731641 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
30731668 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30731683 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:30731646 original size:82 final size:81
Alignment explanation
Indices: 30731506--30731661 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
30731496 AAATTGTACA
* * * *
30731506 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
30731571 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
30731587 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
30731650 TGTGCGAGTTGA
63 TGTGCGAATTGA
30731662 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:30739633 original size:55 final size:54
Alignment explanation
Indices: 30739538--30739687 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
30739528 CTACTTTGTT
* ** * *
30739538 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
30739592 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
30739647 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
30739688 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:30739650 original size:27 final size:27
Alignment explanation
Indices: 30739510--30739687 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
30739500 TAAATTGTAC
30739510 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
30739537 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
30739563 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
30739591 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
30739619 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
30739646 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
30739673 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30739688 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:30739651 original size:82 final size:81
Alignment explanation
Indices: 30739511--30739666 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
30739501 AAATTGTACA
* * * *
30739511 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
30739576 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
30739592 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
30739655 TGTGCGAGTTGA
63 TGTGCGAATTGA
30739667 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:30745041 original size:41 final size:41
Alignment explanation
Indices: 30744996--30745143 Score: 170
Period size: 41 Copynumber: 3.6 Consensus size: 41
30744986 GCTTATTAAA
* * * * *
30744996 ATACACTGGCATAAAGCGTTCTAGGCACAAAGCCAGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATG
** *
30745037 ATACACCGGCACGAAGCCTGCTAGGTATAAAGCCTGATATG
1 ATACACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATG
* * * *
30745078 GTACACCGGCATGAAGCCTGCTAGGCATAAAGCCTGCTATA
1 ATACACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATG
* *
30745119 ATTCACTGGCATAAAGCCTGCTAGG
1 ATACACCGGCATAAAGCCTGCTAGG
30745144 GACAGAGCCC
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (41 bp):
ATACACCGGCATAAAGCCTGCTAGGCATAAAGCCTGATATG
Found at i:30745110 original size:16 final size:16
Alignment explanation
Indices: 30745085--30745116 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30745075 ATGGTACACC
*
30745085 GGCATGAAGCCTGCTA
1 GGCATAAAGCCTGCTA
30745101 GGCATAAAGCCTGCTA
1 GGCATAAAGCCTGCTA
30745117 TAATTCACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (16 bp):
GGCATAAAGCCTGCTA
Found at i:30745315 original size:14 final size:15
Alignment explanation
Indices: 30745291--30745333 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
30745281 TTGACTAATA
30745291 ATATGAAAATTCATAC
1 ATAT-AAAATTCATAC
30745307 A-ATAAAATTCA-AC
1 ATATAAAATTCATAC
30745320 ATATAAAATTCATA
1 ATATAAAATTCATA
30745334 TACACTCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 18 0.72
15 3 0.12
16 1 0.04
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (15 bp):
ATATAAAATTCATAC
Found at i:30749913 original size:9 final size:9
Alignment explanation
Indices: 30749898--30750054 Score: 157
Period size: 9 Copynumber: 17.9 Consensus size: 9
30749888 CAAGTATAAT
30749898 TAAGTTATG
1 TAAGTTATG
*
30749907 AAAGTTAT-
1 TAAGTTATG
*
30749915 TAAATTATG
1 TAAGTTATG
30749924 TATAAGTTATG
1 --TAAGTTATG
30749935 TAAGTTATG
1 TAAGTTATG
30749944 TAAGTTAT-
1 TAAGTTATG
30749952 TAAGTTATG
1 TAAGTTATG
30749961 TAAGTTAT-
1 TAAGTTATG
*
30749969 TAAATTATG
1 TAAGTTATG
30749978 TAAGTTATG
1 TAAGTTATG
*
30749987 TAAGTTCTG
1 TAAGTTATG
* * *
30749996 ATATGATATA
1 -TAAGTTATG
*
30750006 T-ATTTATG
1 TAAGTTATG
30750014 T-A-TTATG
1 TAAGTTATG
30750021 TAAGTTAT-
1 TAAGTTATG
30750029 TAAGTTATG
1 TAAGTTATG
30750038 TAAGTTATG
1 TAAGTTATG
*
30750047 TAAATTAT
1 TAAGTTAT
30750055 ATATTAATTT
Statistics
Matches: 123, Mismatches: 16, Indels: 18
0.78 0.10 0.11
Matches are distributed among these distances:
7 6 0.05
8 35 0.28
9 69 0.56
10 5 0.04
11 8 0.07
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:30749922 original size:17 final size:17
Alignment explanation
Indices: 30749896--30750054 Score: 146
Period size: 17 Copynumber: 9.1 Consensus size: 17
30749886 TACAAGTATA
*
30749896 ATTAAGTTATGAAAGTT
1 ATTAAGTTATGTAAGTT
*
30749913 ATTAAATTATGTATAAGTT
1 ATTAAGTTATG--TAAGTT
30749932 ATGTAAGTTATGTAAGTT
1 AT-TAAGTTATGTAAGTT
30749950 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
*
30749967 ATTAAATTATGTAAGTT
1 ATTAAGTTATGTAAGTT
* * *
30749984 ATGTAAGTTCTGATATGAT
1 AT-TAAGTTATG-TAAGTT
*
30750003 A-TATATTTATGT-A-TT
1 ATTA-AGTTATGTAAGTT
30750018 ATGTAAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
*
30750035 ATGTAAGTTATGTAAATT
1 AT-TAAGTTATGTAAGTT
30750053 AT
1 AT
30750055 ATATTAATTT
Statistics
Matches: 117, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.03
16 6 0.05
17 61 0.52
18 27 0.23
19 12 0.10
20 8 0.07
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.47
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:30749962 original size:26 final size:26
Alignment explanation
Indices: 30749896--30750054 Score: 166
Period size: 26 Copynumber: 6.1 Consensus size: 26
30749886 TACAAGTATA
*
30749896 ATTAAGTTATGAAAGTTAT-TAAATT
1 ATTAAGTTATGTAAGTTATGTAAATT
*
30749921 ATGTATAAGTTATGTAAGTTATGTAAGTT
1 A--T-TAAGTTATGTAAGTTATGTAAATT
30749950 ATTAAGTTATGTAAGTTAT-TAAATT
1 ATTAAGTTATGTAAGTTATGTAAATT
* * *
30749975 ATGTAAGTTATGTAAGTTCTG-ATATG
1 AT-TAAGTTATGTAAGTTATGTAAATT
* *
30750001 ATATATATTTATGT-A-TTATGTAAGTT
1 AT-TA-AGTTATGTAAGTTATGTAAATT
30750027 ATTAAGTTATGTAAGTTATGTAAATT
1 ATTAAGTTATGTAAGTTATGTAAATT
30750053 AT
1 AT
30750055 ATATTAATTT
Statistics
Matches: 110, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
24 7 0.06
25 15 0.14
26 57 0.52
27 9 0.08
28 16 0.15
29 6 0.05
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.47
Consensus pattern (26 bp):
ATTAAGTTATGTAAGTTATGTAAATT
Found at i:30751953 original size:24 final size:24
Alignment explanation
Indices: 30751926--30751973 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
30751916 AAAGTAATGC
30751926 TTAAAAATTAAACATAGAAACAAA
1 TTAAAAATTAAACATAGAAACAAA
*
30751950 TTAAAAATTAACCATAGAAACAAA
1 TTAAAAATTAAACATAGAAACAAA
30751974 AATGTAGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.21
Consensus pattern (24 bp):
TTAAAAATTAAACATAGAAACAAA
Found at i:30752129 original size:24 final size:24
Alignment explanation
Indices: 30752102--30752177 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
30752092 TAGTCCAGTT
30752102 GGGAATTTGGGGAAAATGAAATCG
1 GGGAATTTGGGGAAAATGAAATCG
* *
30752126 GGGAATTTGGGGGGAAAA-GGAAT-T
1 GGGAATTT--GGGGAAAATGAAATCG
*
30752150 GGGAAATT-GGGAAAATGAAATCG
1 GGGAATTTGGGGAAAATGAAATCG
30752173 GGGAA
1 GGGAA
30752178 ATCTAATGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 7 0.16
22 4 0.09
23 5 0.12
24 15 0.35
25 4 0.09
26 8 0.19
ACGTcount: A:0.38, C:0.03, G:0.41, T:0.18
Consensus pattern (24 bp):
GGGAATTTGGGGAAAATGAAATCG
Found at i:30752631 original size:22 final size:22
Alignment explanation
Indices: 30752606--30752668 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
30752596 TAGTAAACCA
30752606 TAAACCATAAA-CTCTAAGCCCT
1 TAAACCATAAAGC-CTAAGCCCT
* *
30752628 TAAACCCTAAAGCCTAAGCCCA
1 TAAACCATAAAGCCTAAGCCCT
* * *
30752650 TAACCCCTAAATCCTAAGC
1 TAAACCATAAAGCCTAAGC
30752669 TCCTAACCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.40, C:0.35, G:0.06, T:0.19
Consensus pattern (22 bp):
TAAACCATAAAGCCTAAGCCCT
Found at i:30752643 original size:7 final size:7
Alignment explanation
Indices: 30752599--30752738 Score: 77
Period size: 7 Copynumber: 19.7 Consensus size: 7
30752589 CACTAAATAG
*
30752599 TAAACCA
1 TAAACCC
*
30752606 TAAACCA
1 TAAACCC
*
30752613 TAAACTC
1 TAAACCC
*
30752620 TAAGCCC
1 TAAACCC
30752627 TTAAACCC
1 -TAAACCC
*
30752635 TAAAGCC
1 TAAACCC
*
30752642 TAAGCCC
1 TAAACCC
*
30752649 ATAACCCC
1 -TAAACCC
*
30752657 TAAATCC
1 TAAACCC
*
30752664 TAAGCTCC
1 TAAAC-CC
30752672 T-AACCC
1 TAAACCC
*
30752678 TTAATCCC
1 -TAAACCC
*
30752686 TAAACAC
1 TAAACCC
*
30752693 TAAACAC
1 TAAACCC
*
30752700 TAAACCA
1 TAAACCC
30752707 TAAACCC
1 TAAACCC
* *
30752714 -ACACCT
1 TAAACCC
*
30752720 TAAACCG
1 TAAACCC
*
30752727 TAAACAC
1 TAAACCC
30752734 TAAAC
1 TAAAC
30752739 TCTTAACACA
Statistics
Matches: 101, Mismatches: 26, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
6 6 0.06
7 76 0.75
8 19 0.19
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:30752660 original size:29 final size:29
Alignment explanation
Indices: 30752628--30752709 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 29
30752618 TCTAAGCCCT
30752628 TAAACCCTAAAG-CCTAAGCCCATAACCCC
1 TAAACCCTAAAGCCCTAA-CCCATAACCCC
* * *
30752657 TAAATCCT-AAGCTCCTAACCCTTAATCCC
1 TAAACCCTAAAGC-CCTAACCCATAACCCC
* * *
30752686 TAAACACTAAA-CACTAAACCATAA
1 TAAACCCTAAAGCCCTAACCCATAA
30752710 ACCCACACCT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
28 12 0.29
29 23 0.55
30 7 0.17
ACGTcount: A:0.41, C:0.35, G:0.04, T:0.20
Consensus pattern (29 bp):
TAAACCCTAAAGCCCTAACCCATAACCCC
Found at i:30752688 original size:22 final size:22
Alignment explanation
Indices: 30752619--30752677 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
30752609 ACCATAAACT
* * *
30752619 CTAAGCCCTTAAACCCTAAAGC
1 CTAAGCCCATAACCCCTAAATC
30752641 CTAAGCCCATAACCCCTAAATC
1 CTAAGCCCATAACCCCTAAATC
30752663 CTAAGCTCC-TAACCC
1 CTAAGC-CCATAACCC
30752678 TTAATCCCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 31 0.94
23 2 0.06
ACGTcount: A:0.34, C:0.41, G:0.07, T:0.19
Consensus pattern (22 bp):
CTAAGCCCATAACCCCTAAATC
Found at i:30753624 original size:40 final size:40
Alignment explanation
Indices: 30753580--30753671 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
30753570 AGATCGGGCA
30753580 ATAGCGGCGCTTTTAAAG-AAGCACCACTAATGCTCGATAT
1 ATAGCGGCG-TTTTAAAGAAAGCACCACTAATGCTCGATAT
* ** * *
30753620 ATAGCGGTGTTTTTCAGAAAGCGCCACTAATGCTCGATCT
1 ATAGCGGCGTTTTAAAGAAAGCACCACTAATGCTCGATAT
*
30753660 ATAGCTGCGTTT
1 ATAGCGGCGTTT
30753672 GTTATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 6 0.14
40 38 0.86
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (40 bp):
ATAGCGGCGTTTTAAAGAAAGCACCACTAATGCTCGATAT
Found at i:30755790 original size:40 final size:40
Alignment explanation
Indices: 30755730--30755910 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
30755720 TGTGCTCGGA
* *
30755730 CGAGCGATACCTACTGAATCTACTTATACGTATGCGCTTT
1 CGAGCCATACCTACTGAATCTACTTAAACGTATGCGCTTT
** * * *
30755770 CGAGAGATACCTACTGAATCTACTAAAATGTATGCGATTT
1 CGAGCCATACCTACTGAATCTACTTAAACGTATGCGCTTT
* * * *
30755810 TGAGCCATGCCTACT-AGATCTAC-TAAACATATGCACTTT
1 CGAGCCATACCTACTGA-ATCTACTTAAACGTATGCGCTTT
* * * * *
30755849 CGAGCCTTACCTATTGAATCTACTGAAATGTATGCGCTCT
1 CGAGCCATACCTACTGAATCTACTTAAACGTATGCGCTTT
*
30755889 -GAAGCCATACCTACTAAATCTA
1 CG-AGCCATACCTACTGAATCTA
30755911 TTGAAAAGAA
Statistics
Matches: 111, Mismatches: 26, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
39 30 0.27
40 81 0.73
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (40 bp):
CGAGCCATACCTACTGAATCTACTTAAACGTATGCGCTTT
Found at i:30755854 original size:39 final size:39
Alignment explanation
Indices: 30755730--30755933 Score: 146
Period size: 40 Copynumber: 5.1 Consensus size: 39
30755720 TGTGCTCGGA
* * * *
30755730 CGAGCGATACCTACTGAATCTACTTATACGTATGCGCTTT
1 CGAGCCATACCTACTGAATCTAC-TAAAAGTATGCACTTT
**
30755770 CGAGAGATACCTACTGAATCTACTAAAATGTATGCGA-TTT
1 CGAGCCATACCTACTGAATCTACTAAAA-GTATGC-ACTTT
* *
30755810 TGAGCCATGCCTACT-AGATCTACTAAACA-TATGCACTTT
1 CGAGCCATACCTACTGA-ATCTACTAAA-AGTATGCACTTT
* * * * *
30755849 CGAGCCTTACCTATTGAATCTACTGAAATGTATGCGCTCT
1 CGAGCCATACCTACTGAATCTACT-AAAAGTATGCACTTT
* * * * *
30755889 -GAAGCCATACCTACTAAATCTATTGAAAAGAATGCTCTAT
1 CG-AGCCATACCTACTGAATCTACT-AAAAGTATGCACTTT
30755929 CGAGC
1 CGAGC
30755934 AAAAGAATCT
Statistics
Matches: 131, Mismatches: 23, Indels: 20
0.75 0.13 0.11
Matches are distributed among these distances:
38 1 0.01
39 31 0.24
40 97 0.74
41 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (39 bp):
CGAGCCATACCTACTGAATCTACTAAAAGTATGCACTTT
Found at i:30774891 original size:31 final size:31
Alignment explanation
Indices: 30774853--30774929 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 31
30774843 TCTGTCAAAT
*
30774853 AACAGAAAATATTTTATACAGATTCATCCAA
1 AACAGAAAATATTTTATACAAATTCATCCAA
*
30774884 AACAGAAAATATTTTATACAAATTTATCCAA
1 AACAGAAAATATTTTATACAAATTCATCCAA
*
30774915 ACACCAAAAAATATT
1 A-A-CAGAAAATATT
30774930 AACTTTTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 30 0.73
32 1 0.02
33 10 0.24
ACGTcount: A:0.52, C:0.16, G:0.04, T:0.29
Consensus pattern (31 bp):
AACAGAAAATATTTTATACAAATTCATCCAA
Found at i:30777249 original size:26 final size:26
Alignment explanation
Indices: 30777199--30777251 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
30777189 TTTAAAATAC
* *
30777199 TTTTAAAATATTTTTTATTTTTTTAT
1 TTTTAAAATATTTTTTATATGTTTAT
30777225 TTTTAAAATAATTTTTTA-ATGTTTAT
1 TTTTAAAAT-ATTTTTTATATGTTTAT
30777251 T
1 T
30777252 AAAAAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTAAAATATTTTTTATATGTTTAT
Found at i:30780203 original size:9 final size:9
Alignment explanation
Indices: 30780177--30780222 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
30780167 AAAATTATTT
30780177 TATATTTTA
1 TATATTTTA
30780186 TATTATTTTA
1 TA-TATTTTA
*
30780196 TATATTTTT
1 TATATTTTA
*
30780205 TAAATTTTA
1 TATATTTTA
30780214 TATATTTTA
1 TATATTTTA
30780223 AAAAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATATTTTA
Found at i:30780230 original size:28 final size:28
Alignment explanation
Indices: 30780167--30780226 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
30780157 TTCTTGATAT
*
30780167 AAAATTATTTTATATTTTATATTATTTTA
1 AAAATT-TTTTAAATTTTATATTATTTTA
* *
30780196 TATATTTTTTAAATTTTATA-TATTTTA
1 AAAATTTTTTAAATTTTATATTATTTTA
30780223 AAAA
1 AAAA
30780227 ATTTAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 9 0.35
28 13 0.50
29 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
AAAATTTTTTAAATTTTATATTATTTTA
Found at i:30780231 original size:18 final size:18
Alignment explanation
Indices: 30780192--30780231 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30780182 TTTATATTAT
** *
30780192 TTTATATATTTTTTAAAT
1 TTTATATATTTTAAAAAA
30780210 TTTATATATTTTAAAAAA
1 TTTATATATTTTAAAAAA
30780228 TTTA
1 TTTA
30780232 AAATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTATATATTTTAAAAAA
Found at i:30781998 original size:39 final size:40
Alignment explanation
Indices: 30781946--30782154 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
30781936 GGACTAAGAT
* *
30781946 CCGAAGGCATTTGTACGAGATA-CAAATTCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGTC
* *
30781985 CCGAAGGCCTTTGTGCGAGATA-CTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATC-AAATCCGGGTTAAGTC
* *
30782025 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* *
30782065 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* * * * *
30782105 CCGAAGGCATT-GTGTGAGTTA-CTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATATC-AAATCCGGGTTAAGTC
30782144 CCGAAGGCATT
1 CCGAAGGCATT
30782155 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 65 0.42
40 90 0.58
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
Found at i:30782174 original size:79 final size:80
Alignment explanation
Indices: 30781946--30782189 Score: 230
Period size: 79 Copynumber: 3.1 Consensus size: 80
30781936 GGACTAAGAT
* * * * * * * **
30781946 CCGAAGGCATTTGTACGAGATAC-AAATTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGAT-AC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGAC
30782008 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** * *
30782025 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTA
30782090 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * *
30782105 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CT
* *
30782168 ATATCC-GGTTAAATC
65 AAATCCGGGTTAAGTC
30782183 CCGAAGG
1 CCGAAGG
30782190 TACGTGATTT
Statistics
Matches: 142, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 16 0.11
79 76 0.54
80 50 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTA
AATCCGGGTTAAGTC
Found at i:30782174 original size:119 final size:119
Alignment explanation
Indices: 30781894--30782189 Score: 280
Period size: 119 Copynumber: 2.5 Consensus size: 119
30781884 TGAATGCTGT
* ** * * * **
30781894 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCATT
* * *
30781957 TGTACGAGATACAAATTCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGATACTAAAT
64 CGTACGAGATACAAATTCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAAA
* ** * * *
30782013 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
* * * * *
30782078 TGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAA
66 TACGAGATA-CAAATTCCGGGTTAAG-CCCGAAGGCCATTGTGCGAGATACTAAAA
* * *
30782132 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
30782190 TACGTGATTT
Statistics
Matches: 146, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
118 17 0.12
119 112 0.77
120 17 0.12
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
TACGAGATACAAATTCCGGGTTAAGCCCGAAGGCCATTGTGCGAGATACTAAAA
Found at i:30790027 original size:39 final size:40
Alignment explanation
Indices: 30789899--30790045 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
30789889 GAGGGGGATA
30789899 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
*
30789939 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
* * *
30789979 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
* * *
30790018 TAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT
30790046 TGAACGAGGA
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.34
40 66 0.66
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
Found at i:30790065 original size:79 final size:80
Alignment explanation
Indices: 30789899--30790080 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 80
30789889 GAGGGGGATA
* * *
30789899 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
30789964 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * *
30789979 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
30790043 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
* *
30790058 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
30790081 TACGTGATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:30797812 original size:40 final size:40
Alignment explanation
Indices: 30797782--30797951 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
30797772 GGACTAAGAT
* *
30797782 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
30797822 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
30797862 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * * *
30797902 TCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
30797941 CCGAAGGCATT
1 CCGAAGGCATT
30797952 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:30797866 original size:80 final size:79
Alignment explanation
Indices: 30797729--30797953 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
30797719 TTGAATGCTG
* * * * * * *
30797729 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
30797793 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
30797809 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
30797874 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * * *
30797889 TCCGGGTTATGTCTCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
30797954 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:30797971 original size:79 final size:80
Alignment explanation
Indices: 30797804--30797986 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
30797794 GTGCGAGATA
* * *
30797804 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
30797869 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
30797884 TTAAATCCGGGTTATGTCTCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
30797948 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
30797963 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
30797987 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 13 0.15
79 46 0.54
80 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:30801760 original size:22 final size:22
Alignment explanation
Indices: 30801704--30801762 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
30801694 ATCTTTTAAC
30801704 ACATAA-ACATTCAATTATATTG
1 ACATAATACA-TCAATTATATTG
*
30801726 ACACAAT-CAATCAATTATATTG
1 ACATAATAC-ATCAATTATATTG
30801748 ACATAATACATCAAT
1 ACATAATACATCAAT
30801763 GGCAATAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.32
Consensus pattern (22 bp):
ACATAATACATCAATTATATTG
Found at i:30803083 original size:22 final size:22
Alignment explanation
Indices: 30803058--30803099 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30803048 ATTTTAACTA
*
30803058 ATTTTAAACATAAAAACCCTCC
1 ATTTAAAACATAAAAACCCTCC
* *
30803080 ATTTAAAATATCAAAACCCT
1 ATTTAAAACATAAAAACCCT
30803100 TTTAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (22 bp):
ATTTAAAACATAAAAACCCTCC
Found at i:30807294 original size:16 final size:16
Alignment explanation
Indices: 30807273--30807303 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30807263 TAATGGTTAA
30807273 GCATTACAAGTTTGTG
1 GCATTACAAGTTTGTG
30807289 GCATTACAAGTTTGT
1 GCATTACAAGTTTGT
30807304 ATCAAAGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (16 bp):
GCATTACAAGTTTGTG
Found at i:30811470 original size:40 final size:40
Alignment explanation
Indices: 30811433--30811658 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
30811423 GCTACTCGTT
* *
30811433 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
30811473 CAAATGCCTTCGGAACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
30811513 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
30811553 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
30811593 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
30811634 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30811659 CATCATTCAA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.02
40 148 0.90
41 14 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30811642 original size:120 final size:120
Alignment explanation
Indices: 30811433--30811651 Score: 291
Period size: 120 Copynumber: 1.8 Consensus size: 120
30811423 GCTACTCGTT
30811433 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCAG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCAG
* *
30811498 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
* * * * **
30811553 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGTACAAATGCCTTCGGATCTTAGTCC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCC
* * *
30811616 GGATATGGTCACCTAGCACAAA-GCCTTCGGGACTTA
64 AGATATAGT-AACTAGCACAAATGCCTTCGGGACTTA
30811652 GCCCGGACAT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
119 3 0.04
120 70 0.82
121 12 0.14
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGAACTTAACCCAG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
Found at i:30819573 original size:40 final size:40
Alignment explanation
Indices: 30819536--30819761 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
30819526 GCTACTCGTT
* *
30819536 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
30819576 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30819616 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
30819656 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
30819696 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
30819737 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30819762 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30823871 original size:30 final size:30
Alignment explanation
Indices: 30823814--30823873 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
30823804 GCTTTTTGAA
* *
30823814 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCAACAAATTTTT
30823844 AATATTTACAAAAAGA-GCAACAAAATTTTT
1 AATATTTACAAAAAGAGGCAAC-AAATTTTT
30823874 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACAAATTTTT
Found at i:30853987 original size:40 final size:40
Alignment explanation
Indices: 30853889--30854009 Score: 181
Period size: 40 Copynumber: 3.0 Consensus size: 40
30853879 TCCTCGTTCA
* * * *
30853889 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
30853928 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
30853968 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
30854008 AA
1 AA
30854010 CTCGCACAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.46
40 40 0.54
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:30867650 original size:50 final size:50
Alignment explanation
Indices: 30867543--30867788 Score: 210
Period size: 50 Copynumber: 4.8 Consensus size: 50
30867533 ATTTGGGTAA
* *
30867543 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
30867599 AGAGGTCCCATGTAAGACCATGTCTGGGAAATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
30867649 AGAGGTCCCCCGTAAGACCATGTCTCGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** * * * * *
30867699 AGAACCCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
30867748 AAACATCCCATATAAGACCATGT-TGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30867789 TGTTATTATC
Statistics
Matches: 158, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
48 17 0.11
49 20 0.13
50 77 0.49
53 3 0.02
55 1 0.01
56 40 0.25
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:30891315 original size:51 final size:49
Alignment explanation
Indices: 30891192--30891377 Score: 160
Period size: 51 Copynumber: 3.7 Consensus size: 49
30891182 GAAAGTGATG
* * * * * *
30891192 GTCACATGTGTAGTACTATGTGCATGCTACTACGTGTGCCAGA-ATGATAG
1 GTCACATGTATAGTACTATGTGCAGGCTACTATGCGTACCAGATA-GAT-T
* * *
30891242 GTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-ACTT
1 GTCACATGTATAGTACTATGTGCAGGCTACTATGCGTACCAGATAGA-TT
* * * * *
30891291 CGATCACGTGTATAGTACTATGTGCAGGATACTACGTGTATCAGATAGTGATT
1 -G-TCACATGTATAGTACTATGTGCAGGCTACTATGCGTACCAGATA--GATT
*
30891344 GTCACATGTGTAGTACTATGTGCAGGCTACTATG
1 GTCACATGTATAGTACTATGTGCAGGCTACTATG
30891378 TGAATCGGTA
Statistics
Matches: 110, Mismatches: 19, Indels: 13
0.77 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 39 0.35
51 66 0.60
52 1 0.01
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
GTCACATGTATAGTACTATGTGCAGGCTACTATGCGTACCAGATAGATT
Found at i:30891377 original size:102 final size:101
Alignment explanation
Indices: 30891193--30891377 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
30891183 AAAGTGATGG
* * * * *
30891193 TCACATGTGTAGTACTATGTGCATGCTACTACGTGTGCCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTATAGTACTATGTGCAGGATACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
30891258 TATGTGCAGGCTACTATGCGTACCGGATAACTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAACTTCGA
* * *
30891294 TCACGTGTATAGTACTATGTGCAGGATACTACGTGTATCAGATAGTGAT-TGTCACATGTGTAGT
1 TCACATGTATAGTACTATGTGCAGGATACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
30891358 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
30891378 TGAATCGGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 36 0.49
102 34 0.46
103 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACATGTATAGTACTATGTGCAGGATACTACGTGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAACTTCGA
Found at i:30894403 original size:11 final size:11
Alignment explanation
Indices: 30894387--30894426 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
30894377 TTAGCTTTAG
30894387 TTTCTCTAAGT
1 TTTCTCTAAGT
30894398 TTTCTCTAAGT
1 TTTCTCTAAGT
30894409 TTTCTCTAAGT
1 TTTCTCTAAGT
30894420 TTT-TCTA
1 TTTCTCTA
30894427 CAACTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 4 0.14
11 25 0.86
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.57
Consensus pattern (11 bp):
TTTCTCTAAGT
Found at i:30894434 original size:23 final size:22
Alignment explanation
Indices: 30894387--30894436 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
30894377 TTAGCTTTAG
*
30894387 TTTCTCTAAGTTTTCTCTAAGT
1 TTTCTCTAAGTTTTCTCTAACT
30894409 TTTCTCTAAGTTTT-TCTACAACT
1 TTTCTCTAAGTTTTCTCT--AACT
30894432 TTTCT
1 TTTCT
30894437 AGGGCTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 14 0.56
23 8 0.32
ACGTcount: A:0.18, C:0.20, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTCTCTAAGTTTTCTCTAACT
Found at i:30906676 original size:25 final size:26
Alignment explanation
Indices: 30906636--30906710 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
30906626 ACATATTTTC
*
30906636 TCAAAATTTTACTA-GGGTAAAATCG
1 TCAAAATTTTACTAGGGGTAAAATCA
* * *
30906661 TTAAAATCTTATTAGGGGTAAAATCA
1 TCAAAATTTTACTAGGGGTAAAATCA
30906687 TCAAAATTTTACTAGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
30906711 AGAGATGAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 11 0.26
26 31 0.74
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:30908160 original size:22 final size:22
Alignment explanation
Indices: 30908135--30908179 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30908125 TAATGCTTAG
30908135 TAAGTTCATAAATCATAAACAA
1 TAAGTTCATAAATCATAAACAA
30908157 TAAGTTCATAAATCATAAACAA
1 TAAGTTCATAAATCATAAACAA
30908179 T
1 T
30908180 GCTTACCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (22 bp):
TAAGTTCATAAATCATAAACAA
Found at i:30911299 original size:24 final size:25
Alignment explanation
Indices: 30911262--30911328 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
30911252 TACCGATATT
* * *
30911262 CAGCTCATATGAGCTTACCG-TTTA
1 CAGCTCGTATGAGCATACCGATTCA
*
30911286 CAGCTCGTAAGAGCATACCGATTCA
1 CAGCTCGTATGAGCATACCGATTCA
*
30911311 GAGCTCGTATGAGCATAC
1 CAGCTCGTATGAGCATAC
30911329 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (25 bp):
CAGCTCGTATGAGCATACCGATTCA
Found at i:30916712 original size:6 final size:6
Alignment explanation
Indices: 30916703--30916757 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
30916693 AATAATAAAG
30916703 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
30916751 TTATAT T
1 TTATAT T
30916758 AAATAAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTATAT
Found at i:30918980 original size:30 final size:30
Alignment explanation
Indices: 30918930--30918989 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
30918920 GCGAGAAGAA
30918930 GCCATGGTTGCCAAAGAGCAAG-TGCATGGC
1 GCCATGGTTGCCAAAGAGCAAGCT-CATGGC
*
30918960 GCCATGGTTGCTGAAA-AGCAAGCTCATGGC
1 GCCATGGTTGC-CAAAGAGCAAGCTCATGGC
30918990 AAGGCTCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.18
Consensus pattern (30 bp):
GCCATGGTTGCCAAAGAGCAAGCTCATGGC
Found at i:30919406 original size:18 final size:18
Alignment explanation
Indices: 30919365--30919406 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
30919355 GAATTTTGGA
*
30919365 ATTTTTATAAATATTTTG
1 ATTTTTATAAATATATTG
*
30919383 AATTTTA-AAATTATATTG
1 ATTTTTATAAA-TATATTG
30919401 ATTTTT
1 ATTTTT
30919407 TTTTTGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
ATTTTTATAAATATATTG
Found at i:30924978 original size:20 final size:20
Alignment explanation
Indices: 30924937--30924990 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
30924927 AATTAGATTT
* **
30924937 ATTTAAAATAAAAATATTAA
1 ATTTAAATTAAAAATAGAAA
30924957 ATTTAAATTAAAAATAGAAA
1 ATTTAAATTAAAAATAGAAA
30924977 ATTATAATATTAAA
1 ATT-TAA-ATTAAA
30924991 TATTTCAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 20 0.69
21 3 0.10
22 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
ATTTAAATTAAAAATAGAAA
Found at i:30925493 original size:19 final size:19
Alignment explanation
Indices: 30925447--30925505 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 19
30925437 TTTCTTCTAG
*
30925447 ATTTTATATATATAGTTTCTGA
1 ATTTTATATATATA-TTT-T-T
*
30925469 ATTTTATATATTTATTTTT
1 ATTTTATATATATATTTTT
30925488 ATTTTATATATATATTTT
1 ATTTTATATATATATTTT
30925506 AATATTGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.50
20 1 0.03
21 3 0.09
22 13 0.38
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTTTATATATATATTTTT
Found at i:30926526 original size:5 final size:6
Alignment explanation
Indices: 30926504--30926534 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
30926494 CCCCCACCGT
*
30926504 TCCCCT TCCCCC TCCCCC TCCCCC TCCCCC T
1 TCCCCC TCCCCC TCCCCC TCCCCC TCCCCC T
30926535 ACCGTCGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (6 bp):
TCCCCC
Found at i:30926958 original size:5 final size:5
Alignment explanation
Indices: 30926950--30926974 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30926940 TGGGGTGGGA
30926950 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
30926975 AATATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:30927094 original size:6 final size:6
Alignment explanation
Indices: 30927083--30927112 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
30927073 TCGACCAAAA
30927083 AAATTT AAATTT AAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT
30927113 TCTTATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:30927391 original size:19 final size:19
Alignment explanation
Indices: 30927364--30927445 Score: 74
Period size: 19 Copynumber: 4.0 Consensus size: 19
30927354 TTCTCTCATC
*
30927364 GCTGGTTCTTTGTTCCTCT
1 GCTGCTTCTTTGTTCCTCT
*
30927383 GCTGCTTCTTTGATCCTCT
1 GCTGCTTCTTTGTTCCTCT
30927402 GCTAGTGCTGGTTCTTTGTTCCTCT
1 GC---TGC---TTCTTTGTTCCTCT
* *
30927427 GCTGGTGCTTTGTTCCTCT
1 GCTGCTTCTTTGTTCCTCT
30927446 TCTCCACCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
19 32 0.62
22 5 0.10
25 15 0.29
ACGTcount: A:0.02, C:0.27, G:0.22, T:0.49
Consensus pattern (19 bp):
GCTGCTTCTTTGTTCCTCT
Found at i:30927416 original size:25 final size:25
Alignment explanation
Indices: 30927382--30927435 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
30927372 TTTGTTCCTC
30927382 TGCTGCTTCTTTGATCCTCTGCTAG
1 TGCTGCTTCTTTGATCCTCTGCTAG
* * *
30927407 TGCTGGTTCTTTGTTCCTCTGCTGG
1 TGCTGCTTCTTTGATCCTCTGCTAG
30927432 TGCT
1 TGCT
30927436 TTGTTCCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.04, C:0.26, G:0.24, T:0.46
Consensus pattern (25 bp):
TGCTGCTTCTTTGATCCTCTGCTAG
Found at i:30930358 original size:18 final size:18
Alignment explanation
Indices: 30930335--30930382 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
30930325 AAAATATGAG
* *
30930335 AAATGATGTTCACTTTTT
1 AAATGATGTTCACATTTC
30930353 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
30930371 AAATGATGTTCA
1 AAATGATGTTCA
30930383 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:30932622 original size:20 final size:20
Alignment explanation
Indices: 30932572--30932622 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
30932562 AATCCAAATA
30932572 TATG-TAATATTTTAATTTGT
1 TATGTTAATATTTT-ATTTGT
* *
30932592 TAGGTTTATATTTT-TTATGT
1 TATGTTAATATTTTATT-TGT
30932612 TATGTTAATAT
1 TATGTTAATAT
30932623 CTAAGATGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 15 0.60
21 8 0.32
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (20 bp):
TATGTTAATATTTTATTTGT
Found at i:30933607 original size:9 final size:9
Alignment explanation
Indices: 30933593--30933620 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30933583 TTTTGTTACA
30933593 ACAATTAAT
1 ACAATTAAT
30933602 ACAATTAAT
1 ACAATTAAT
30933611 ACAATTAAT
1 ACAATTAAT
30933620 A
1 A
30933621 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:30933641 original size:68 final size:66
Alignment explanation
Indices: 30933563--30933704 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
30933553 TCAAGTTTGT
*
30933563 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
30933628 AAA
64 AAA
30933631 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
30933696 T
66 A
30933697 TTTACTAA
1 TTTACTAA
30933705 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:30933714 original size:16 final size:16
Alignment explanation
Indices: 30933693--30933734 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30933683 AATAATTTGA
* *
30933693 TAATTTTACTAACAAT
1 TAATTTTAATAAAAAT
30933709 TAATTTTAATAAAAAT
1 TAATTTTAATAAAAAT
*
30933725 TAGTTTTAAT
1 TAATTTTAAT
30933735 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAAAAAT
Found at i:30933726 original size:59 final size:67
Alignment explanation
Indices: 30933563--30933726 Score: 218
Period size: 68 Copynumber: 2.5 Consensus size: 67
30933553 TCAAGTTTGT
**
30933563 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTAATACAACAATTAATACAATTAATACAATTAATAATTTGAT
30933628 AAA
65 AAA
*
30933631 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTAATACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
30933694 AAT
65 AAA
30933697 TTTACTAA-C-AA-TTA-ATTTTAATA-AA-AATTA
1 TTTACTAATCAAAGTTAGATTTTAATACAACAATTA
30933727 GTTTTAATTT
Statistics
Matches: 93, Mismatches: 3, Indels: 9
0.89 0.03 0.09
Matches are distributed among these distances:
59 5 0.05
60 2 0.02
61 8 0.09
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 44 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (67 bp):
TTTACTAATCAAAGTTAGATTTTAATACAACAATTAATACAATTAATACAATTAATAATTTGATA
AA
Found at i:30933754 original size:23 final size:22
Alignment explanation
Indices: 30933708--30933769 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
30933698 TTACTAACAA
* * *
30933708 TTAATTTTAATAAAAATTAGTT
1 TTAATTTTATTAAAAAATAATT
30933730 TTAATTTTATTTAAAAAATAATT
1 TTAATTTTA-TTAAAAAATAATT
30933753 TTAATTTTAATTAAAAA
1 TTAATTTT-ATTAAAAA
30933770 CGGGCCGAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.26
23 25 0.71
24 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTTATTAAAAAATAATT
Found at i:30938391 original size:92 final size:91
Alignment explanation
Indices: 30938234--30938442 Score: 271
Period size: 92 Copynumber: 2.3 Consensus size: 91
30938224 TTGATTTTAG
* *
30938234 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATTAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
30938299 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
30938326 TAAATTCATATAAGAAAATTTATT-TTCAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAAAATTTATTATT-AAGAATTTTATGAAATTAT-ATA-TAACTATTAAATT
30938389 ATATGTAATAATTATTATTTTAAATTATA
63 ATATGTAATAATTATTATTTTAAATTATA
* * * *
30938418 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
30938443 GTTATAATTA
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
90 3 0.03
91 27 0.26
92 70 0.68
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:30938405 original size:24 final size:25
Alignment explanation
Indices: 30938370--30938417 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30938360 TTATGAAATT
30938370 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
30938394 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
30938418 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:30938481 original size:17 final size:17
Alignment explanation
Indices: 30938459--30938492 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30938449 ATTATTTTAA
30938459 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAAT-ATAT
30938476 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
30938493 TTAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:30938668 original size:120 final size:120
Alignment explanation
Indices: 30938458--30938754 Score: 485
Period size: 120 Copynumber: 2.5 Consensus size: 120
30938448 AATTATTTTA
* *
30938458 AATTTTATTAAATCATATATTTTAATTA-AATATATTTAATATTAATTAT-TTCAAATTTTCATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTCATT
*
30938521 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
30938577 AATTTTATTAAATTATATATTTTAATTATAATATATTTAGTAATAATTGTGTT-AATTTAT-ATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TCA-T
30938640 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
30938697 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
30938755 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
119 33 0.20
120 125 0.76
121 4 0.02
122 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTCATTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:30938732 original size:16 final size:16
Alignment explanation
Indices: 30938711--30938752 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30938701 TTATTAAATT
*
30938711 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30938727 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30938742 AT-TATGTTTAA
1 ATATAT-TTTAA
30938753 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30938737 original size:15 final size:15
Alignment explanation
Indices: 30938702--30938743 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30938692 TTAAGAATTT
*
30938702 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30938716 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30938730 TATTTAATAATAAT
1 TATTTAATTATAAT
30938744 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30938912 original size:26 final size:25
Alignment explanation
Indices: 30938873--30938921 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
30938863 TATATTTTAA
30938873 TTAAATATATTTAATAATAATTATGT
1 TTAAATATATTTAA-AATAATTATGT
*
30938899 TTAAATATGA-TTAAAATATTTAT
1 TTAAATAT-ATTTAAAATAATTAT
30938922 TATTGATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 12 0.57
27 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
TTAAATATATTTAAAATAATTATGT
Found at i:30938958 original size:150 final size:154
Alignment explanation
Indices: 30938686--30938995 Score: 520
Period size: 150 Copynumber: 2.0 Consensus size: 154
30938676 ATAAGAATAT
30938686 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
* *
30938751 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAAT-AAT-
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
*
30938814 A-ATTTACCAAAACAAATTTCTGC
131 ACATTTACCAAAACAAATTTATGC
*
30938837 TAATTATTAAGAATTTTATTCAATTATATATTTTAATTA-AATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
*
30938901 AAATATGATTAAAATATTTATTATTGATAATACTAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAAT-A-AA
30938966 TAATCATTTACCAAAACAAATTTATGC
129 TAA-CATTTACCAAAACAAATTTATGC
30938993 TAA
1 TAA
30938996 GGGTATTCTA
Statistics
Matches: 148, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
150 82 0.55
151 38 0.26
153 3 0.02
154 1 0.01
156 24 0.16
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (154 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
ACATTTACCAAAACAAATTTATGC
Found at i:30944816 original size:41 final size:41
Alignment explanation
Indices: 30944759--30944838 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
30944749 TGATCGAATG
* * *
30944759 TAATTCAGACTTATTGTCTAGCAGGCTTGATGCCGGTGATA
1 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGATA
30944800 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGA
1 TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGA
30944839 AATTATTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (41 bp):
TAATTCAGACTCATTGTCTAGCAGGCTTAATGCCAGTGATA
Found at i:30945011 original size:21 final size:21
Alignment explanation
Indices: 30944970--30945011 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30944960 TATGTAAATA
*
30944970 ATATATATTTGAAGATCAAGT
1 ATATATATTTGAAAATCAAGT
30944991 ATATATATTTGATAAAT-AAGT
1 ATATATATTTGA-AAATCAAGT
30945012 TTGATGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.40
Consensus pattern (21 bp):
ATATATATTTGAAAATCAAGT
Found at i:30949925 original size:16 final size:16
Alignment explanation
Indices: 30949887--30949938 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
30949877 TTATATAAGT
* *
30949887 AAATAAATAATTAAAT
1 AAATAAATAATAAAAC
*
30949903 AATTAAATAATAAAAC
1 AAATAAATAATAAAAC
*
30949919 AAATAAAATAA-AAACC
1 AAAT-AAATAATAAAAC
30949935 AAAT
1 AAAT
30949939 TACCTTGTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 24 0.80
17 6 0.20
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAATAATAAAAC
Found at i:30956626 original size:19 final size:18
Alignment explanation
Indices: 30956587--30956625 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30956577 TATCTTTTAC
*
30956587 AAATTAAATACACTATTA
1 AAATTAAATACAATATTA
30956605 AAATTGAAATA-AATATTA
1 AAATT-AAATACAATATTA
30956623 AAA
1 AAA
30956626 AATATCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTAAATACAATATTA
Found at i:30957908 original size:50 final size:52
Alignment explanation
Indices: 30957832--30957954 Score: 151
Period size: 50 Copynumber: 2.4 Consensus size: 52
30957822 GCATTTAATA
* * *
30957832 AAGTTATGCATTATGTAACTCTCATGTTAGTT-AAGATTATATC-ATAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAAGATTACATCTATAAATT
* * * * *
30957882 ATGTCATGCATTATGTAATTCCCATGTTAGTTAAAGTTTGCATCTTTAAATT
1 AAGTCATGCATTATGTAACTCCCATGTTAGTTAAAGATTACATCTATAAATT
*
30957934 AAGTCATGCATTAAGTAACTC
1 AAGTCATGCATTATGTAACTC
30957955 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 28 0.47
51 8 0.13
52 24 0.40
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (52 bp):
AAGTCATGCATTATGTAACTCCCATGTTAGTTAAAGATTACATCTATAAATT
Found at i:30960700 original size:30 final size:30
Alignment explanation
Indices: 30960665--30960722 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30960655 ATTTTTTTAA
* *
30960665 TTATTGTTCAACATTAATATAATTTTAAAG
1 TTATTGTACAACATAAATATAATTTTAAAG
* *
30960695 TTATTGTACAATATAAATATGATTTTAA
1 TTATTGTACAACATAAATATAATTTTAA
30960723 TATTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (30 bp):
TTATTGTACAACATAAATATAATTTTAAAG
Found at i:30963729 original size:62 final size:63
Alignment explanation
Indices: 30963661--30963784 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
30963651 AAGATATTCC
*** * *
30963661 ATCTA-TTTAAAGTGATTTGACAAATCGTACAAGTCTAAATATTAAAAAAGATAGAAAAATTT
1 ATCTATTTTAAAGTGATTTGACAAATAACACAAGTCTAAAAATTAAAAAAGACAGAAAAATTT
* * * * *
30963723 ATCTATTTTAAATTGATTTGATAAATAACACAAGTTTAAAAATTAAAAGAGACGGAAAAATT
1 ATCTATTTTAAAGTGATTTGACAAATAACACAAGTCTAAAAATTAAAAAAGACAGAAAAATT
30963785 AAATAAAAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
62 5 0.10
63 46 0.90
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.32
Consensus pattern (63 bp):
ATCTATTTTAAAGTGATTTGACAAATAACACAAGTCTAAAAATTAAAAAAGACAGAAAAATTT
Found at i:30965450 original size:40 final size:40
Alignment explanation
Indices: 30965406--30965492 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
30965396 CATAATTCTT
* *
30965406 TATCAAATATGCACAATAATAAAAAA-ATATAATATAAGTA
1 TATCAAATATGAAAAATAATAAAAAATA-ATAATATAAGTA
* *
30965446 TATCATATATGAAAAATAATTAAAAATAATAATATAAGTA
1 TATCAAATATGAAAAATAATAAAAAATAATAATATAAGTA
30965486 TATCAAA
1 TATCAAA
30965493 CTCGATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.30
Consensus pattern (40 bp):
TATCAAATATGAAAAATAATAAAAAATAATAATATAAGTA
Found at i:30969502 original size:17 final size:17
Alignment explanation
Indices: 30969462--30969502 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
30969452 CTTAAATGGA
*
30969462 TTAATTTTTACCAACAT
1 TTAATTTTTAACAACAT
*
30969479 TTGAATTTTTAACAAGAT
1 TT-AATTTTTAACAACAT
30969497 TTAATT
1 TTAATT
30969503 AGAGAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (17 bp):
TTAATTTTTAACAACAT
Found at i:30970411 original size:28 final size:28
Alignment explanation
Indices: 30970362--30970429 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 28
30970352 AATAAAGCCC
* * * *
30970362 TTTTTTTCACAATTACGGAAATAGGCTAA
1 TTTTTTT-AAAATGACGAAAATAGGCCAA
* *
30970391 TTTTTTTAAAATGACGAAAATGGGCCGA
1 TTTTTTTAAAATGACGAAAATAGGCCAA
*
30970419 TTTTGTTAAAA
1 TTTTTTTAAAA
30970430 CACGTTCAGC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (28 bp):
TTTTTTTAAAATGACGAAAATAGGCCAA
Found at i:30980445 original size:33 final size:35
Alignment explanation
Indices: 30980391--30980456 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 35
30980381 AAAGGAAATT
30980391 TAAAATTATCAATATATAAACAATAAATTATATGCA
1 TAAAATTATCAATATATAAACAATAAA-TATATGCA
*
30980427 TAAAATT-TCAA-A-ATAAACAATATATATATG
1 TAAAATTATCAATATATAAACAATAAATATATG
30980457 AATTTGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 6 0.21
33 11 0.38
34 1 0.03
35 4 0.14
36 7 0.24
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (35 bp):
TAAAATTATCAATATATAAACAATAAATATATGCA
Found at i:30980949 original size:25 final size:25
Alignment explanation
Indices: 30980916--30980963 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30980906 AAAAATATAT
30980916 AAAATAATACATGATAAATTTAAGA
1 AAAATAATACATGATAAATTTAAGA
**
30980941 AAAATAATATGTGATAAATTTAA
1 AAAATAATACATGATAAATTTAA
30980964 AATATTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (25 bp):
AAAATAATACATGATAAATTTAAGA
Found at i:30980965 original size:21 final size:21
Alignment explanation
Indices: 30980915--30980991 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 21
30980905 AAAAAATATA
*
30980915 TAAAATAATACATGATAAATT
1 TAAAATAATATATGATAAATT
*
30980936 TAAGAAAAATAATATGTGATAAATT
1 T----AAAATAATATATGATAAATT
* *
30980961 TAAAATATTA-ATGATGAATT
1 TAAAATAATATATGATAAATT
30980981 TAAAATAATAT
1 TAAAATAATAT
30980992 TAAGCTTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 17 0.38
21 9 0.20
25 19 0.42
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (21 bp):
TAAAATAATATATGATAAATT
Found at i:30982720 original size:44 final size:43
Alignment explanation
Indices: 30982672--30982777 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 43
30982662 TCCGCCCCAT
* * *
30982672 TGCAACTTCAAGG-AGATAGGATTGGTGACTTCAATCTGCTTCAC
1 TGCAACTTC-AGGAAGATAGG-CTGATGACTTCAATCTGCTCCAC
*
30982716 TGCAACTTCAGGAAGATAAGGCTGATGGCTTCAATCTGCTCCAC
1 TGCAACTTCAGGAAGAT-AGGCTGATGACTTCAATCTGCTCCAC
*
30982760 TACAACTTCAGGAAGATA
1 TGCAACTTCAGGAAGATA
30982778 AGATCCGCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
43 4 0.07
44 48 0.87
45 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
TGCAACTTCAGGAAGATAGGCTGATGACTTCAATCTGCTCCAC
Found at i:30982863 original size:51 final size:51
Alignment explanation
Indices: 30982795--30983247 Score: 656
Period size: 51 Copynumber: 8.9 Consensus size: 51
30982785 CCATAATTTG
* * * * *
30982795 CAGCTTTAATCTATTCCACTGTAACACCAGAGAAATAAGATTCGCTACCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
* * *
30982846 TAGCTTTAATCTGTTCCACTGCAACACCAGGGAAATAAGATTCGCTACCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
* *
30982897 CAACTTTAATCTGTTCCACTACAACGCCAGGGAAATAAGATTCGCTGCCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
30982948 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
* * *
30982999 CAGCTTTAGTCTGTTCCACTGCAACGCCAGGGAAAAAAGATTCGCTGTCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
* * * *
30983050 CAGCTTTAATCTGTTCCACTGCAATGCTA-GGAAAAAAAATTCGCTGCCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
* * * *
30983100 CAGCTTCAATCTGTTCCACTGCAATGCCAGGTAAATAAGATTTGCTGCCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
*
30983151 CAGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTCGCTGCCTT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
* * * * *
30983202 TAGCTTTAATCTGTTCCACTGTAACACCAGAGAAATAATATTCGCT
1 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCT
30983248 ATAATGACTT
Statistics
Matches: 367, Mismatches: 34, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
50 46 0.13
51 321 0.87
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (51 bp):
CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTT
Found at i:30983161 original size:203 final size:204
Alignment explanation
Indices: 30982795--30983248 Score: 685
Period size: 203 Copynumber: 2.2 Consensus size: 204
30982785 CCATAATTTG
* *
30982795 CAGCTTTAATCTATTCCACTGTAACACCAGAGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 CAGCTTTAATCTGTTCCACTGTAACACCAGAGAAATAAGATTCGCTACCTTCAGCTTTAATCTGT
* * *
30982860 TCCACTGCAACACCAGGGAAATAAGATTCGCTACCTTCAACTTTAATCTGTTCCACTACAACGCC
66 TCCACTGCAACACCAGGGAAAAAAAATTCGCTACCTTCAACTTCAATCTGTTCCACTACAACGCC
30982925 AGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
131 AGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
30982990 CGCTGCCTT
196 CGCTGCCTT
* * * * * **
30982999 CAGCTTTAGTCTGTTCCACTGCAACGCCAGGGAAAAAAGATTCGCTGTCTTCAGCTTTAATCTGT
1 CAGCTTTAATCTGTTCCACTGTAACACCAGAGAAATAAGATTCGCTACCTTCAGCTTTAATCTGT
** * * * * *
30983064 TCCACTGCAATGCTA-GGAAAAAAAATTCGCTGCCTTCAGCTTCAATCTGTTCCACTGCAATGCC
66 TCCACTGCAACACCAGGGAAAAAAAATTCGCTACCTTCAACTTCAATCTGTTCCACTACAACGCC
* * *
30983128 AGGTAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATT
131 AGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
30983193 CGCTGCCTT
196 CGCTGCCTT
* *
30983202 TAGCTTTAATCTGTTCCACTGTAACACCAGAGAAATAATATTCGCTA
1 CAGCTTTAATCTGTTCCACTGTAACACCAGAGAAATAAGATTCGCTA
30983249 TAATGACTTC
Statistics
Matches: 220, Mismatches: 30, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
203 152 0.69
204 68 0.31
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (204 bp):
CAGCTTTAATCTGTTCCACTGTAACACCAGAGAAATAAGATTCGCTACCTTCAGCTTTAATCTGT
TCCACTGCAACACCAGGGAAAAAAAATTCGCTACCTTCAACTTCAATCTGTTCCACTACAACGCC
AGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
CGCTGCCTT
Found at i:30983275 original size:152 final size:152
Alignment explanation
Indices: 30982795--30983247 Score: 645
Period size: 152 Copynumber: 3.0 Consensus size: 152
30982785 CCATAATTTG
* * * * * * *
30982795 CAGCTTTAATCTATTCCACTGTAACACCAGAGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 CAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGT
* * * *
30982860 TCCACTGCAACACCAGGGAAATAAGATTCGCTACCTTCAACTTTAATCTGTTCCACTACAACGCC
66 TCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCC
*
30982925 AGGGAAATAAGATTCGCTGCCTT
131 A-GGAAATAAAATTCGCTGCCTT
* *
30982948 CAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAGTCTGT
1 CAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGT
* * * *
30983013 TCCACTGCAACGCCAGGGAAAAAAGATTCGCTGTCTTCAGCTTTAATCTGTTCCACTGCAATGCT
66 TCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCC
*
30983078 AGGAAAAAAAATTCGCTGCCTT
131 AGGAAATAAAATTCGCTGCCTT
* * *
30983100 CAGCTTCAATCTGTTCCACTGCAATGCCAGGTAAATAAGATTTGCTGCCTTCAGCTTTAATCTGT
1 CAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGT
* * * *
30983165 TCCACTGTAACGCCAGGGAAATAAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGTAACACC
66 TCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCC
*
30983230 AGAGAAATAATATTCGCT
131 AG-GAAATAAAATTCGCT
30983248 ATAATGACTT
Statistics
Matches: 267, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
152 138 0.52
153 129 0.48
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (152 bp):
CAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGT
TCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGCC
AGGAAATAAAATTCGCTGCCTT
Found at i:30984495 original size:48 final size:46
Alignment explanation
Indices: 30984430--30984550 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 46
30984420 TGGTCTCTAG
* *
30984430 GCGCCCTTTGCGGGTTTTCACCTTGGCATTTTTTTGTTAGGAATCAAA
1 GCGCCCTTTGTGGGTTTTCACCTTGGC-TCTTTTT-TTAGGAATCAAA
* ** * *
30984478 GCGCCCTTTGTGAGTTTTTGCCTTAGTCTCTTTTTTTAGGACTCAAA
1 GCGCCCTTTGTGGGTTTTCACCTT-GGCTCTTTTTTTAGGAATCAAA
* *
30984525 GCACCCTTTTTCGGGTTTTCACCTTG
1 GCGCCCTTTGT-GGGTTTTCACCTTG
30984551 CTCCCTTCTC
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
47 21 0.36
48 36 0.61
49 2 0.03
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (46 bp):
GCGCCCTTTGTGGGTTTTCACCTTGGCTCTTTTTTTAGGAATCAAA
Found at i:30990510 original size:12 final size:13
Alignment explanation
Indices: 30990493--30990521 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30990483 TTCGAAAAAC
30990493 GAAAATGGAAAT-
1 GAAAATGGAAATA
30990505 GAAAATGGAAATA
1 GAAAATGGAAATA
30990518 GAAA
1 GAAA
30990522 CTTGCAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (13 bp):
GAAAATGGAAATA
Found at i:30990731 original size:25 final size:25
Alignment explanation
Indices: 30990662--30990738 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 25
30990652 ATGAATTTTC
* *
30990662 TCAAAATTTTACCAGGGTTAAAATCG
1 TCAAAATTTTACAAGGG-TAAAATTG
*
30990688 TCAAAAATTTACAATGGGTAAAATTG
1 TCAAAATTTTACAA-GGGTAAAATTG
*
30990714 TCAAAATTTTACTAGGGTAAAATTG
1 TCAAAATTTTACAAGGGTAAAATTG
30990739 GGGTGAGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.24
26 31 0.69
27 3 0.07
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACAAGGGTAAAATTG
Found at i:30992645 original size:461 final size:461
Alignment explanation
Indices: 30991783--30992704 Score: 1781
Period size: 461 Copynumber: 2.0 Consensus size: 461
30991773 AGTGGATGAA
30991783 CCAATTTTCACAAAATAAATGTAAAAAAATATTTCTAATAGACTTTTTAGTTCCAAGCCTTATAA
1 CCAATTTTCACAAAATAAATGTAAAAAAATATTTCTAATAGACTTTTTAGTTCCAAGCCTTATAA
30991848 GTCTTCTCAAATCCTCATATCTACAATCATTTTGTATAACAGGTGCATGGGAAACATCATCAATT
66 GTCTTCTCAAATCCTCATATCTACAATCATTTTGTATAACAGGTGCATGGGAAACATCATCAATT
30991913 TTTAAAGGAAAATATGCTGAAAACGTCAGTATTTTTATCTCAAGTATATTATTATAATTAAACAC
131 TTTAAAGGAAAATATGCTGAAAACGTCAGTATTTTTATCTCAAGTATATTATTATAATTAAACAC
30991978 ATCACTATTTATAGCAAGAAATATATGTGCAACACTAACTTCAACATAGTTAATGAACATGGAAC
196 ATCACTATTTATAGCAAGAAATATATGTGCAACACTAACTTCAACATAGTTAATGAACATGGAAC
30992043 TAGAATTCATTTTCCTTTTCTTAAGAACAGAAGACATGATTTTTAGACACCTCCACATTTTCATA
261 TAGAATTCATTTTCCTTTTCTTAAGAACAGAAGACATGATTTTTAGACACCTCCACATTTTCATA
*
30992108 CATTTTAAGTTAAAAAAATAATGTTCAAAACATAATGTGTCTTATCATTATCATCTAAGGAATCT
326 CATTTTAAGTTAAAAAAATAATGTTCAAAACATAACGTGTCTTATCATTATCATCTAAGGAATCT
*
30992173 AACACACACAAATACTATGCAAATAATTTTCAAGTATACTCGCATTAACAATTGCACATTTTGGC
391 AACACACACAAATACTATGCAAATAATTTTCAAGTATACTCGAATTAACAATTGCACATTTTGGC
30992238 GAGTAT
456 GAGTAT
30992244 CCAATTTTCACAAAATAAATGTAAAAAAATATTTCTAATAGACTTTTTAGTTCCAAGCCTTATAA
1 CCAATTTTCACAAAATAAATGTAAAAAAATATTTCTAATAGACTTTTTAGTTCCAAGCCTTATAA
30992309 GTCTTCTCAAATCCTCATATCTACAATCATTTTGTATAACAGGTGCATGGGAAACATCATCAATT
66 GTCTTCTCAAATCCTCATATCTACAATCATTTTGTATAACAGGTGCATGGGAAACATCATCAATT
30992374 TTTAAAGGAAAATATGCTGAAAACGTCAGTATTTTTATCTCAAGTATATTATTATAATTAAACAC
131 TTTAAAGGAAAATATGCTGAAAACGTCAGTATTTTTATCTCAAGTATATTATTATAATTAAACAC
*
30992439 ATCACTATTTATAGCAAGAAATATATGTGCAACACTAACTTCAACATAGTTAATGAACATGGAAT
196 ATCACTATTTATAGCAAGAAATATATGTGCAACACTAACTTCAACATAGTTAATGAACATGGAAC
* *
30992504 TGGAATTCATTTTCCTTTTCTTAAGAACAGAAGACATGATTTTTAGACACCTTCACATTTTCATA
261 TAGAATTCATTTTCCTTTTCTTAAGAACAGAAGACATGATTTTTAGACACCTCCACATTTTCATA
*
30992569 CATTTTAAGTTATAAAAATAATGTTCAAAACATAACGTGTCTTATCATTATCATCTAAGGAATCT
326 CATTTTAAGTTAAAAAAATAATGTTCAAAACATAACGTGTCTTATCATTATCATCTAAGGAATCT
*
30992634 AACACACACAAATACTATGCAAATAATTTTCAAGTATACTCGAATTAACAATTGCACATTTTGGT
391 AACACACACAAATACTATGCAAATAATTTTCAAGTATACTCGAATTAACAATTGCACATTTTGGC
30992699 GAGTAT
456 GAGTAT
30992705 TTTAATGCCC
Statistics
Matches: 454, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
461 454 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (461 bp):
CCAATTTTCACAAAATAAATGTAAAAAAATATTTCTAATAGACTTTTTAGTTCCAAGCCTTATAA
GTCTTCTCAAATCCTCATATCTACAATCATTTTGTATAACAGGTGCATGGGAAACATCATCAATT
TTTAAAGGAAAATATGCTGAAAACGTCAGTATTTTTATCTCAAGTATATTATTATAATTAAACAC
ATCACTATTTATAGCAAGAAATATATGTGCAACACTAACTTCAACATAGTTAATGAACATGGAAC
TAGAATTCATTTTCCTTTTCTTAAGAACAGAAGACATGATTTTTAGACACCTCCACATTTTCATA
CATTTTAAGTTAAAAAAATAATGTTCAAAACATAACGTGTCTTATCATTATCATCTAAGGAATCT
AACACACACAAATACTATGCAAATAATTTTCAAGTATACTCGAATTAACAATTGCACATTTTGGC
GAGTAT
Found at i:30993537 original size:5 final size:5
Alignment explanation
Indices: 30993527--30993626 Score: 200
Period size: 5 Copynumber: 20.0 Consensus size: 5
30993517 TTTGTTTTAT
30993527 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
30993577 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
30993627 AAATGACCAC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 95 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:30993976 original size:5 final size:5
Alignment explanation
Indices: 30993966--30994030 Score: 130
Period size: 5 Copynumber: 13.0 Consensus size: 5
30993956 TTTGTTTTAT
30993966 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
30994016 TATAA TATAA TATAA
1 TATAA TATAA TATAA
30994031 AAATGACCAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:30994311 original size:404 final size:405
Alignment explanation
Indices: 30993562--30994435 Score: 1714
Period size: 404 Copynumber: 2.2 Consensus size: 405
30993552 TATAATATAA
30993562 TATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAA
1 TATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAA
30993627 AAATGACCACACAATTATATCATCTTCTTCGACTAAATTGACATTTGGCTTAACAGGATTATCAT
66 AAATGACCACACAATTATATCATCTTCTTCGACTAAATTGACATTTGGCTTAACAGGATTATCAT
30993692 TCCTCCATTATTGATTTCTGTACAGAGTTATATAGTAGCTCAATTTGTCATCACAATTGGGTACT
131 TCCTCCATTATTGATTTCTGTACAGAGTTATATAGTAGCTCAATTTGTCATCACAATTGGGTACT
30993757 AGGATAGTGAGCACAGAATTGATGAATAAAACACGAGGTAAATTCCTAAGAAAGAGAGGTGGTGT
196 AGGATAGTGAGCACAGAATTGATGAATAAAACACGAGGTAAATTCCTAAGAAAGAGAGGTGGTGT
* *
30993822 ATATGACACACTTGCTTTGTGTCTTTCTCCTTGCTTTGAAACCCTTGTTTTGTGTCTTTCTCCTT
261 ATATGACACACTTGCTTTGTGTCTTTCTCCTTACTTTGAAACCCTTGATTTGTGTCTTTCTCCTT
30993887 CTTTCCTTTTTC-TTTTTTTTTGCCCTTTCTGTTTCGTTGACTTTGTTCTTTTTCTATTTCTTTT
326 CTTTCCTTTTTCTTTTTTTTTTGCCCTTTCTGTTTCGTTGACTTTGTTCTTTTTCTATTTCTTTT
30993951 ATTTCTTTGTTTTAT
391 ATTTCTTTGTTTTAT
30993966 TATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAA
1 TATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAA
30994031 AAATGACCACACAATTATATCATCTTCTTCGACTAAATTGACATTTGGCTTAACAGGATTATCAT
66 AAATGACCACACAATTATATCATCTTCTTCGACTAAATTGACATTTGGCTTAACAGGATTATCAT
30994096 TCCTCCATTATTGATTTCTGTACAGAGTTATATAGTAGCTCAATTTGTCATCACAATTGGGTACT
131 TCCTCCATTATTGATTTCTGTACAGAGTTATATAGTAGCTCAATTTGTCATCACAATTGGGTACT
30994161 AGGATAGTGAGCACAGAATTGATGAATAAAACACGAGGTAAATTCCTAAGAAAGAGAGGTGGTGT
196 AGGATAGTGAGCACAGAATTGATGAATAAAACACGAGGTAAATTCCTAAGAAAGAGAGGTGGTGT
30994226 ATATGACACACTTGCTTTGTGTCTTTCTCCTTACTTTGAAACCCTTGATTTGTGTCTTTCTCCTT
261 ATATGACACACTTGCTTTGTGTCTTTCTCCTTACTTTGAAACCCTTGATTTGTGTCTTTCTCCTT
*
30994291 CTTTCCTTTTTCTTTTTTTTTTGCCCTTTCTGTTTCTTTGACTTTGTTCTTTTTCTATTTCTTTT
326 CTTTCCTTTTTCTTTTTTTTTTGCCCTTTCTGTTTCGTTGACTTTGTTCTTTTTCTATTTCTTTT
30994356 ATTTCTTTGTTTTAT
391 ATTTCTTTGTTTTAT
30994371 TATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAA
1 TATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAA
30994436 TATAATATAA
Statistics
Matches: 466, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
404 335 0.72
405 131 0.28
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (405 bp):
TATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAATATAA
AAATGACCACACAATTATATCATCTTCTTCGACTAAATTGACATTTGGCTTAACAGGATTATCAT
TCCTCCATTATTGATTTCTGTACAGAGTTATATAGTAGCTCAATTTGTCATCACAATTGGGTACT
AGGATAGTGAGCACAGAATTGATGAATAAAACACGAGGTAAATTCCTAAGAAAGAGAGGTGGTGT
ATATGACACACTTGCTTTGTGTCTTTCTCCTTACTTTGAAACCCTTGATTTGTGTCTTTCTCCTT
CTTTCCTTTTTCTTTTTTTTTTGCCCTTTCTGTTTCGTTGACTTTGTTCTTTTTCTATTTCTTTT
ATTTCTTTGTTTTAT
Found at i:30994381 original size:5 final size:5
Alignment explanation
Indices: 30994371--30994473 Score: 206
Period size: 5 Copynumber: 20.6 Consensus size: 5
30994361 TTTGTTTTAT
30994371 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
30994421 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
30994471 TAT
1 TAT
30994474 TAATTAAACA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 98 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:31000642 original size:41 final size:40
Alignment explanation
Indices: 31000531--31000642 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 40
31000521 TCGAAAAATT
*
31000531 CGAAGTAATAATTTGACACCCAGTGTCTCATC-AGCTAAAC
1 CGAAGT-ATAATTTGACACCCAGTGTCTCATCGAACTAAAC
* * * * * *
31000571 CGAA--ATAAATTGACACCTAGTGCCTTATCGAATTAATC
1 CGAAGTATAATTTGACACCCAGTGTCTCATCGAACTAAAC
*
31000609 TGAAGTAGTAATTTGACACCCAGTGTCTCATCGA
1 CGAAGTA-TAATTTGACACCCAGTGTCTCATCGA
31000643 CTCGATTGCA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
37 21 0.38
38 8 0.14
40 5 0.09
41 22 0.39
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (40 bp):
CGAAGTATAATTTGACACCCAGTGTCTCATCGAACTAAAC
Found at i:31001386 original size:5 final size:5
Alignment explanation
Indices: 31001376--31001458 Score: 143
Period size: 5 Copynumber: 16.8 Consensus size: 5
31001366 TTTGTTTTAT
31001376 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
31001426 TATAA TATAA TAT-A TA-ATA TATAA TATAA TATA
1 TATAA TATAA TATAA TATA-A TATAA TATAA TATA
31001459 TTACTTAAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
4 3 0.04
5 71 0.95
6 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:31008704 original size:49 final size:48
Alignment explanation
Indices: 31008633--31008726 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 48
31008623 GGTTAGCGTA
31008633 AAAACAACGATGGAAGTAAGATTAAATACTATAACTATACTGTAGTAT
1 AAAACAACGATGGAAGTAAGATTAAATACTATAACTATACTGTAGTAT
* * * *
31008681 AAAACTAACGAT-GAGAGTGAGATTAGATACTGTAGCTATACTGTAG
1 AAAAC-AACGATGGA-AGTAAGATTAAATACTATAACTATACTGTAG
31008727 CATGAGACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 7 0.17
49 33 0.82
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.27
Consensus pattern (48 bp):
AAAACAACGATGGAAGTAAGATTAAATACTATAACTATACTGTAGTAT
Found at i:31009131 original size:17 final size:17
Alignment explanation
Indices: 31009111--31009163 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
31009101 AAATAAACTC
31009111 TTGTATTTTATAATTTT
1 TTGTATTTTATAATTTT
**
31009128 TTGT-TTTTACTTTTTTT
1 TTGTATTTTA-TAATTTT
* *
31009145 TTATATTTTAAAATTTT
1 TTGTATTTTATAATTTT
31009162 TT
1 TT
31009164 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (17 bp):
TTGTATTTTATAATTTT
Found at i:31009333 original size:17 final size:17
Alignment explanation
Indices: 31009299--31009347 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
31009289 ATTTTATATT
31009299 TTTATAATATCAAAAATTA
1 TTTATAATAT--AAAATTA
31009318 TTTATAATATAAAATTA
1 TTTATAATATAAAATTA
* *
31009335 TTTTTAAAATAAA
1 TTTATAATATAAA
31009348 TCAATGTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 18 0.64
19 10 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTATAATATAAAATTA
Found at i:31009549 original size:18 final size:18
Alignment explanation
Indices: 31009530--31009570 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
31009520 TTAAGTAATA
31009530 AAAACT-AAATTTATTTT
1 AAAACTGAAATTTATTTT
*
31009547 AAATCTGAAATTTATTTTT
1 AAAACTGAAATTTA-TTTT
31009566 AAAAC
1 AAAAC
31009571 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 8 0.40
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
AAAACTGAAATTTATTTT
Found at i:31012020 original size:22 final size:25
Alignment explanation
Indices: 31011970--31012047 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
31011960 CGTAACTTAA
31011970 ATCATTCATTTTCAAACACATGCAT
1 ATCATTCATTTTCAAACACATGCAT
*
31011995 ATCATTCATTTTCATA-A-AT-CAT
1 ATCATTCATTTTCAAACACATGCAT
31012017 ATCATAACTCA--TTCAAACACATGCAT
1 ATCAT---TCATTTTCAAACACATGCAT
31012043 ATCAT
1 ATCAT
31012048 CCTTTATTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
22 8 0.18
23 7 0.16
24 2 0.04
25 20 0.44
26 8 0.18
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (25 bp):
ATCATTCATTTTCAAACACATGCAT
Found at i:31013399 original size:20 final size:20
Alignment explanation
Indices: 31013371--31013427 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
31013361 TAAACTATGA
* *
31013371 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
31013391 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
31013411 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
31013428 GCATAAGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:31014179 original size:35 final size:35
Alignment explanation
Indices: 31014133--31014273 Score: 183
Period size: 35 Copynumber: 4.0 Consensus size: 35
31014123 AACACATCAG
* *
31014133 ATGCTCATAAGAGCCAATCCAACTGTAACATGCCA
1 ATGCTCATAAGAGCTAATCCAACTGTAACACGCCA
* * *
31014168 ATGCTCATAAGAGTTAATCCAACTGTAGCACGTCA
1 ATGCTCATAAGAGCTAATCCAACTGTAACACGCCA
* * * *
31014203 ATTCTCATAAGAGCTAATCCAACAGAAACACACCA
1 ATGCTCATAAGAGCTAATCCAACTGTAACACGCCA
* *
31014238 ATGCTCATAAGAGCTAATCCAACCGAAACACGCCA
1 ATGCTCATAAGAGCTAATCCAACTGTAACACGCCA
31014273 A
1 A
31014274 ATAGAGAGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 91 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (35 bp):
ATGCTCATAAGAGCTAATCCAACTGTAACACGCCA
Found at i:31023474 original size:20 final size:20
Alignment explanation
Indices: 31023443--31023500 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
31023433 AGAGCATCGA
*
31023443 AGTGCA-AATAGGTCACCAG
1 AGTGCATAATAGGGCACCAG
*
31023462 AGTGCATAATAGGGCATCAG
1 AGTGCATAATAGGGCACCAG
*
31023482 AGTGCATTATAGGGGCACC
1 AGTGCATAATA-GGGCACC
31023501 GTAGTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.18
20 21 0.64
21 6 0.18
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (20 bp):
AGTGCATAATAGGGCACCAG
Done.