Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 260 of 325
Found at i:84833032 original size:54 final size:54
Alignment explanation
Indices: 84832991--84833431 Score: 621
Period size: 54 Copynumber: 8.2 Consensus size: 54
84832981 CGAGGTTATC
* *
84832991 TCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
* * * *
84833045 TCGGTAATTTTATCCTACGGGGGTATTTCAGTAATTCTACCCTACAGGGCTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
* * *
84833099 TCGATAATTCTACCTTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
* * *
84833153 TCGGTAATTCTACCTTACAGGGGTATTTCAGTCATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
* * * * *
84833207 TTGGTAATTCTACCATACAGGAGTATTTCAATAATTCTACACTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
* * * *
84833261 TCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTAGAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
* *
84833315 TCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCATACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
* * * * * *
84833369 TTGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTATAGGGTTGTT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
84833423 TCGGTAATT
1 TCGGTAATT
84833432 TTGTAAATCG
Statistics
Matches: 342, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 342 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (54 bp):
TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
Found at i:84833484 original size:27 final size:27
Alignment explanation
Indices: 84833454--84833755 Score: 233
Period size: 27 Copynumber: 11.2 Consensus size: 27
84833444 GGTAAAATGT
* *
84833454 TAATTTTGTAAATCAGGGGTACTTTGG
1 TAATTTTATAAATCAGGGGTATTTTGG
* * * *
84833481 TAATTTTACAAGTC-GAAGGTATTTTAG
1 TAATTTTATAAATCAG-GGGTATTTTGG
* *
84833508 TAATCTTACAAATC-GGGGTATTTTGG
1 TAATTTTATAAATCAGGGGTATTTTGG
* * * * *
84833534 TGATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTATAAATCAGGGGTATTTTGG
* *
84833561 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAATCAGGGGTATTTTGG
* * *
84833588 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTATAAATCAGGGGTATTTTGG
* *
84833615 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAATCAGGGGTATTTTGG
* * * *
84833642 TGATTTTATAAA-CTAAGGGTATTCTAG
1 TAATTTTATAAATC-AGGGGTATTTTGG
*
84833669 TAATTTTGCT-AATC-GAGGGTATTTTGG
1 TAATTTT-ATAAATCAG-GGGTATTTTGG
* *
84833696 TAATTTT-TCTAATCAAGGGTATTTTGG
1 TAATTTTAT-AAATCAGGGGTATTTTGG
*
84833723 TAATTTTGCT-AATC-GAGGGTATTTTGG
1 TAATTTT-ATAAATCAG-GGGTATTTTGG
84833750 TAATTT
1 TAATTT
84833756 AGTAAACTAA
Statistics
Matches: 223, Mismatches: 40, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 21 0.09
27 198 0.89
28 2 0.01
29 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
TAATTTTATAAATCAGGGGTATTTTGG
Found at i:84833511 original size:81 final size:80
Alignment explanation
Indices: 84833426--84833761 Score: 300
Period size: 81 Copynumber: 4.2 Consensus size: 80
84833416 GGTTGTTTCG
*** * * * * *
84833426 GTAATTTTGTAAATCGAGGGTAAAATGTTAATTTTGTAAATCAGGGGTACTTTGGTAATTTTACA
1 GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACA
*
84833491 AGTCGAAGGTATTTTA
66 A-ACGAAGGTATTTTA
* ** * * *
84833507 GTAATCTTACAAATCG-GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACA
1 GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACA
* * *
84833571 AACCAGGGGTATTTTG
66 AACGA-AGGTATTTTA
* * * * * *
84833587 GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATA
1 GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACA
* *
84833652 AACTAAGGGTATTCTA
66 AACGAA-GGTATTTTA
* * *
84833668 GTAATTTTGCT-AATCGAGGGTATTTTGGTAATTTT-TCTAATCAAGGGTATTTTGGTAATTTTG
1 GTAATTTTG-TAAATCGAGGGTATTTTGGTAATTTTAT-AAACCAAGGGTATTTTGGTAATTTTA
* * *
84833731 CTAATCGAGGGTATTTTG
64 C-AAACGAAGGTATTTTA
*
84833749 GTAATTTAGTAAA
1 GTAATTTTGTAAA
84833762 CTAAAGTATT
Statistics
Matches: 199, Mismatches: 49, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
79 2 0.01
80 58 0.29
81 134 0.67
82 5 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (80 bp):
GTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACA
AACGAAGGTATTTTA
Found at i:84833600 original size:54 final size:53
Alignment explanation
Indices: 84833454--84833755 Score: 320
Period size: 54 Copynumber: 5.6 Consensus size: 53
84833444 GGTAAAATGT
** * * * *
84833454 TAATTTTGTAAATCAGGGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTTAG
1 TAATTTTACAAATC-GGGGTATTTTGGTAATTTTATAA-ACCAAGGGTATTTTAG
* * *
84833508 TAATCTTACAAATCGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAATCGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
* * *
84833561 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAATC-GGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
* * * *
84833615 TAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACTAAGGGTATTCTAG
1 TAATTTTACAAATC-GGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
* * * * *
84833669 TAATTTTGCTAATCGAGGGTATTTTGGTAATTTT-TCTAATCAAGGGTATTTTGG
1 TAATTTTACAAATCG-GGGTATTTTGGTAATTTTAT-AAACCAAGGGTATTTTAG
* *
84833723 TAATTTTGCTAATCGAGGGTATTTTGGTAATTT
1 TAATTTTACAAATCG-GGGTATTTTGGTAATTT
84833756 AGTAAACTAA
Statistics
Matches: 215, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
52 3 0.01
53 43 0.20
54 169 0.79
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (53 bp):
TAATTTTACAAATCGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
Found at i:84833674 original size:108 final size:106
Alignment explanation
Indices: 84833467--84833774 Score: 365
Period size: 108 Copynumber: 2.9 Consensus size: 106
84833457 TTTTGTAAAT
* * * *
84833467 CAGGGGTACTTTGGTAA-TTTTACAAGTCGAA-GGTATTTTAGTAATCTTACAAATCGGGGTATT
1 CAGGGGTATTTTGGTAATTTTTA-AA--CCAAGGGTATTTTGGTAATTTTACAAATCGGGGTATT
*
84833530 TTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAAC
63 TTGGTGATTTTATAAACTAAGGGTATTCTAGTAATTTTACAAAC
*
84833574 CAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTT-TAAACCAAGGGTATTTTGGTAATTTTACAAATC-GGGGTATTT
* * *
84833639 TGGTGATTTTATAAACTAAGGGTATTCTAGTAATTTTGCTAAT
64 TGGTGATTTTATAAACTAAGGGTATTCTAGTAATTTTACAAAC
* * * *
84833682 C-GAGGGTATTTTGGTAATTTTTCTAATCAAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATT
1 CAG-GGGTATTTTGGTAATTTTT-AAACCAAGGGTATTTTGGTAATTTTACAAATCG-GGGTATT
* *
84833746 TTGGT-AATTTAGTAAACTAA-AGTATTCTA
63 TTGGTGATTTTA-TAAACTAAGGGTATTCTA
84833775 AACAGGGATA
Statistics
Matches: 177, Mismatches: 16, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
106 3 0.02
107 53 0.30
108 119 0.67
109 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (106 bp):
CAGGGGTATTTTGGTAATTTTTAAACCAAGGGTATTTTGGTAATTTTACAAATCGGGGTATTTTG
GTGATTTTATAAACTAAGGGTATTCTAGTAATTTTACAAAC
Found at i:84836139 original size:44 final size:44
Alignment explanation
Indices: 84836088--84836235 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
84836078 GCTCCGCTGC
* * *
84836088 AACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGT
1 AACTTCAGAGAGATAAGGTTGGTGGCTTCAATCTACTCCAATGA
* * * * * **
84836132 AATTTCAGAGAGA-AGAGATTTGTAGCTTCGATCTACTCCGTTGA
1 AACTTCAGAGAGATA-AGGTTGGTGGCTTCAATCTACTCCAATGA
* *
84836176 AACTTCA-AGGAGATAAGGTTGGTGGCTTCAATCTACTCCACTGC
1 AACTTCAGA-GAGATAAGGTTGGTGGCTTCAATCTACTCCAATGA
* *
84836220 AACATCAGGGAGATAA
1 AACTTCAGAGAGATAA
84836236 TGTAATACCC
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
43 2 0.03
44 77 0.96
45 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
AACTTCAGAGAGATAAGGTTGGTGGCTTCAATCTACTCCAATGA
Found at i:84837591 original size:28 final size:28
Alignment explanation
Indices: 84837554--84837628 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
84837544 TGGCCCCTTT
* * *
84837554 AGGCCCAATCTCATTCATATGGCCTATC
1 AGGCCCAATCACATTCATACGGCCCATC
* *
84837582 GGGCCTAATCACATTCATACGGCCCATC
1 AGGCCCAATCACATTCATACGGCCCATC
*
84837610 AAGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
84837629 GTCATGCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATACGGCCCATC
Found at i:84840510 original size:8 final size:8
Alignment explanation
Indices: 84840497--84840526 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
84840487 ATTTAAGTAA
84840497 ATATTATT
1 ATATTATT
84840505 ATATTATT
1 ATATTATT
84840513 ATATTATT
1 ATATTATT
84840521 ATATTA
1 ATATTA
84840527 ATTAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTATT
Found at i:84840747 original size:28 final size:27
Alignment explanation
Indices: 84840683--84840755 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
84840673 AAATATAATA
84840683 AACA-AAAGAAA-GAAAAAAAAGGAAG
1 AACAGAAAGAAAGGAAAAAAAAGGAAG
*
84840708 AACAGAATAGAAAGGAAAAAAACAGGGGAG
1 AACAGAA-AGAAAGGAAAAAAA-A-GGAAG
84840738 AA-AGAAAGAAAGGAAAAA
1 AACAGAAAGAAAGGAAAAA
84840756 GGTAAAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 4 0.10
26 2 0.05
27 5 0.12
28 20 0.48
29 5 0.12
30 6 0.14
ACGTcount: A:0.70, C:0.04, G:0.25, T:0.01
Consensus pattern (27 bp):
AACAGAAAGAAAGGAAAAAAAAGGAAG
Found at i:84841688 original size:40 final size:40
Alignment explanation
Indices: 84841632--84841772 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
84841622 CCTTCTCGAG
*
84841632 AATTAAAAGTGAATAGGATTTATTCTTGATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
* *
84841673 AATTAAAGTGAATAGGATTTATTCCTGATTCGCTAGAA-A
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
* * * * * *
84841712 TATATAAAGCGGATAGGATTTGTTCCCGATTCACT-AAGGTA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTAAAAG-A
* *
84841753 AATCAAGGTGAATAGGATTT
1 AATTAAAGTGAATAGGATTT
84841773 TCCCTAAAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.05
40 70 0.86
41 7 0.09
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (40 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
Found at i:84858130 original size:40 final size:40
Alignment explanation
Indices: 84858086--84858170 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
84858076 TTAAGTCCGG
84858086 ATATAGTACCAGCACT-AAGCCTGCGGGATTTAACCAGGAT
1 ATATAGTACCAGCA-TGAAGCCTGCGGGATTTAACCAGGAT
* * *
84858126 ATATATTACTAGCATGAAGCCTGCGGGATTTAACCCGGAT
1 ATATAGTACCAGCATGAAGCCTGCGGGATTTAACCAGGAT
84858166 ATATA
1 ATATA
84858171 TATTATATCG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (40 bp):
ATATAGTACCAGCATGAAGCCTGCGGGATTTAACCAGGAT
Found at i:84867430 original size:27 final size:27
Alignment explanation
Indices: 84867393--84867596 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
84867383 TAAATTGTAC
*
84867393 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
84867420 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * **
84867447 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
84867473 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
84867501 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
84867529 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
84867555 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
84867582 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84867597 GACTCAATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 25 0.16
27 107 0.69
28 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:84876030 original size:99 final size:99
Alignment explanation
Indices: 84875858--84876235 Score: 505
Period size: 99 Copynumber: 3.9 Consensus size: 99
84875848 AAAACATGCG
* * * * **
84875858 AGGTATGAAAGTGTTAACATATCATGTTGCGTACTTGATATTCTGTATGATTAATAAAGTGACCG
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
*
84875923 CACATATTATGTTGAAAATGAATGGGAATGAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * *
84875957 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTTTTTATGATTGATAAAGTGTTCA
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
* * *
84876022 CACTTATTATATTGAAAATGAATGGAAATTAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * *
84876056 AGGTATAAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATTATTGATGAAGTGTTCG
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
*
84876121 CACTTACTATGTTGAAAATGAATGGGAATGAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * ** *
84876155 AGGTATGAAAGTATTAATATATCATGTTGTGTACTTGATATAT-TATATG-TTGATAAAGTGTTC
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATAT-TCTGTATGATTGATAAAGTGTTC
*
84876218 G-A-TCATTATG-TGAAAATG
65 GCACTTATTATGTTGAAAATG
84876236 GTTTTGGTTT
Statistics
Matches: 245, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
95 8 0.03
96 6 0.02
97 1 0.00
98 14 0.06
99 215 0.88
100 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (99 bp):
AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
CACTTATTATGTTGAAAATGAATGGGAATGAATC
Found at i:84877690 original size:14 final size:15
Alignment explanation
Indices: 84877650--84877693 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
84877640 GTTAAGAGCA
*
84877650 TAAAATAATTATATAT
1 TAAAATAATT-TTTAT
*
84877666 TAAAATTATTTTTAT
1 TAAAATAATTTTTAT
84877681 T-AAATAATTTTTA
1 TAAAATAATTTTTA
84877694 ATCTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.44
15 5 0.20
16 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAAATAATTTTTAT
Found at i:84880465 original size:82 final size:83
Alignment explanation
Indices: 84880328--84880494 Score: 246
Period size: 82 Copynumber: 2.0 Consensus size: 83
84880318 TTTAAATAGT
* * * * *
84880328 ATTATCGTAACATTTTATAGTGATTGAAAGATGTTTTGAGATTTTTATTTTTCATCCAAAATTAA
1 ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCACTTTTCATCCAAAATTAA
*
84880393 AAGAACTAATAAA-AAAA
66 AAGAACCAATAAAGAAAA
* *
84880410 ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCGCTTTTCATCCAAGATTAA
1 ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCACTTTTCATCCAAAATTAA
*
84880475 CAGAACCAATAAAGAAAA
66 AAGAACCAATAAAGAAAA
84880493 AT
1 AT
84880495 AAAATGGTAG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 69 0.92
83 6 0.08
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (83 bp):
ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCACTTTTCATCCAAAATTAA
AAGAACCAATAAAGAAAA
Found at i:84884716 original size:5 final size:5
Alignment explanation
Indices: 84884706--84884732 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
84884696 AGGATTTGGG
84884706 GCCAT GCCAT GCCAT GCCAT GCCAT GC
1 GCCAT GCCAT GCCAT GCCAT GCCAT GC
84884733 AATCGACTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.22, T:0.19
Consensus pattern (5 bp):
GCCAT
Found at i:84890498 original size:17 final size:18
Alignment explanation
Indices: 84890478--84890524 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
84890468 ACCCCTTTTG
84890478 AAATTTAAAAAATCAT-A
1 AAATTTAAAAAATCATAA
**
84890495 AAATTTATAAAAATTTTAA
1 AAATTTA-AAAAATCATAA
84890514 AAATTTAAAAA
1 AAATTTAAAAA
84890525 TTAAGCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTAAAAAATCATAA
Found at i:84890514 original size:9 final size:9
Alignment explanation
Indices: 84890494--84890526 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
84890484 AAAAAATCAT
84890494 AAAATTTATA
1 AAAATTT-TA
84890504 AAAATTTTA
1 AAAATTTTA
84890513 AAAA-TTTA
1 AAAATTTTA
84890521 AAAATT
1 AAAATT
84890527 AAGCCCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 7 0.32
10 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:84897161 original size:34 final size:33
Alignment explanation
Indices: 84897103--84897182 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 33
84897093 TATTTTTAGT
84897103 AATTTTATATATTTATATATTTTTAATAAATTTATA
1 AATTTTAT-T-TTTATATATTTTTAAT-AATTTATA
* *
84897139 AATTTTATTTTTTTATATTTTTAATAATTTTTA
1 AATTTTATTTTTATATATTTTTAATAATTTATA
**
84897172 TTTTTTATTTT
1 AATTTTATTTT
84897183 ATAACTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 16 0.40
34 15 0.38
35 1 0.03
36 8 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (33 bp):
AATTTTATTTTTATATATTTTTAATAATTTATA
Found at i:84905324 original size:48 final size:48
Alignment explanation
Indices: 84905259--84905429 Score: 177
Period size: 48 Copynumber: 3.6 Consensus size: 48
84905249 ACATCATGAG
* * *
84905259 AGCTAGTGTAAAACATGTCTAGAACATGAATCGGCCTCGAGAAATACA
1 AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
* * * ** ** *
84905307 AGCCAGTGTAAGACATGT-TTGTGACATGCATCGGTATTGAG-ACGA-G
1 AGCTAGTGTAAGACATGTCTAG-GACATGAATCGGCCTTGAGAAATACA
* * *
84905353 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACA
1 AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
*
84905401 AGCTAGTGTAAGACCTGTCTAGGACATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGA
84905430 CATCAGCTTA
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
46 34 0.35
47 7 0.07
48 56 0.58
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
Found at i:84905393 original size:46 final size:47
Alignment explanation
Indices: 84905214--84905433 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 47
84905204 TGATATGTGT
* ** * * *
84905214 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCC-ACATCATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GAAGACAA
* * * * * *
84905260 GCTAGTGTAAAACATGTCTAGAACATGAATCGGCCTCGAGAAATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAG-AAGACAA
* * * ** * *
84905308 GCCAGTGTAAGACATGTTTGTGACATGCATCGGTATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAAGACAA
*
84905354 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-AGACAA
* *
84905402 GCTAGTGTAAGACCTGTCTAGGACATGACATC
1 GCTAGTGTAAGACATGTCTGGGACATG-CATC
84905434 AGCTTATTGT
Statistics
Matches: 134, Mismatches: 34, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
46 67 0.50
47 6 0.04
48 57 0.43
49 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAAGACAA
Found at i:84905427 original size:94 final size:95
Alignment explanation
Indices: 84905256--84905433 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 95
84905246 GCCACATCAT
84905256 GAGAGCTAGTGTAAAACATGTCTAGAACATGAATCGGCCTCGAGAAATACAAGCCAGTGTAAGAC
1 GAGAGCTAGTGTAAAACATGTCTAGAACATGAATCGGCCTCGAGAAATACAAGCCAGTGTAAGAC
*
84905321 ATGTTTGTGACATG-CATCGGTATTGAGAC
66 ATGTTAGTGACATGACATCGGTATTGAGAC
* * * * * * *
84905350 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCTAGTGTAAAACATGTCTAGAACATGAATCGGCCTCGAGAAATACAAGCCAGTGTAAGAC
*
84905415 CTGTCTAG-GACATGACATC
66 ATGT-TAGTGACATGACATC
84905434 AGCTTATTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
94 67 0.92
95 6 0.08
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (95 bp):
GAGAGCTAGTGTAAAACATGTCTAGAACATGAATCGGCCTCGAGAAATACAAGCCAGTGTAAGAC
ATGTTAGTGACATGACATCGGTATTGAGAC
Found at i:84906669 original size:28 final size:28
Alignment explanation
Indices: 84906629--84906689 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
84906619 CATAGGCTGT
* *
84906629 GACACGGGCGTGTCATGGTCGTGTGAGG
1 GACACGGGCGTGTCATAGCCGTGTGAGG
84906657 GACACGGGCGTGTCATAGCCGTGTGAGG
1 GACACGGGCGTGTCATAGCCGTGTGAGG
84906685 GACAC
1 GACAC
84906690 AGGCTATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.18, C:0.21, G:0.43, T:0.18
Consensus pattern (28 bp):
GACACGGGCGTGTCATAGCCGTGTGAGG
Found at i:84909721 original size:30 final size:31
Alignment explanation
Indices: 84909659--84909739 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 31
84909649 ATTTATAAAG
*
84909659 CTTTAAATTAATAATGATAAAATTACGCTTTAACT
1 CTTTAAA--AATAAT-A-AAAATTACGATTTAACT
*
84909694 CTTTAAAAATAATAAAAATTA-GATTTAATT
1 CTTTAAAAATAATAAAAATTACGATTTAACT
* *
84909724 ATTTAAAAATTATAAA
1 CTTTAAAAATAATAAA
84909740 TATACAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 21 0.50
31 7 0.17
32 1 0.02
33 6 0.14
35 7 0.17
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.40
Consensus pattern (31 bp):
CTTTAAAAATAATAAAAATTACGATTTAACT
Found at i:84910538 original size:56 final size:57
Alignment explanation
Indices: 84910442--84910554 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 57
84910432 AACAAAAAAA
* *
84910442 TATTTTAGGTACTAAAGTGAAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
1 TATTTTAAGTAATAAAGTGAAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
84910499 TATTTTAAGTAATAAAGTG-AAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
1 TATTTTAAGTAATAAAGTGAAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
84910555 GAAGCTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 37 0.69
57 17 0.31
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (57 bp):
TATTTTAAGTAATAAAGTGAAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
Found at i:84911897 original size:20 final size:20
Alignment explanation
Indices: 84911872--84911921 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
84911862 ATCAGTATTC
*
84911872 TTATTCTGAATTTTAGGATT
1 TTATTCTGAATTTTAAGATT
*
84911892 TTATTCTAAATTTTAAGATT
1 TTATTCTGAATTTTAAGATT
*
84911912 TTATCCTGAA
1 TTATTCTGAA
84911922 AAAAATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (20 bp):
TTATTCTGAATTTTAAGATT
Found at i:84911962 original size:20 final size:20
Alignment explanation
Indices: 84911939--84911990 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
84911929 AAATCCAAAT
*
84911939 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAAGA
*
84911959 TAAAAT-CTTGAAATTTAAGA
1 TAAAATAC-TGAAATTCAAGA
84911979 TAAGAATACTGA
1 TAA-AATACTGA
84911991 TGTGGCATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 6 0.22
22 1 0.04
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (20 bp):
TAAAATACTGAAATTCAAGA
Found at i:84913140 original size:21 final size:21
Alignment explanation
Indices: 84913111--84913151 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
84913101 GGTGATAATA
*
84913111 ATTACTATAATTGTGTGATTT
1 ATTACTATAATTGTGGGATTT
* *
84913132 ATTATTATAGTTGTGGGATT
1 ATTACTATAATTGTGGGATT
84913152 AAAATTAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (21 bp):
ATTACTATAATTGTGGGATTT
Found at i:84928027 original size:16 final size:16
Alignment explanation
Indices: 84927984--84928030 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
84927974 AACTAAAGCC
*
84927984 TTGTTCTGAAT-ATAG
1 TTGTTCTGAATAACAG
* *
84927999 TTATTCTCAAATAACAG
1 TTGTTCT-GAATAACAG
84928016 TTGTTCTGAATAACA
1 TTGTTCTGAATAACA
84928031 ATAATTCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.24
16 10 0.40
17 9 0.36
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (16 bp):
TTGTTCTGAATAACAG
Found at i:84931693 original size:68 final size:64
Alignment explanation
Indices: 84931478--84931726 Score: 193
Period size: 68 Copynumber: 3.8 Consensus size: 64
84931468 CATATAGTTC
* * *
84931478 AGCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGC-CA-ATTTATCTCG
1 AGCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTCACATATATCTCG
84931540 T
64 T
* * * ** *
84931541 AGCTCTCTTGTCTACATGGTGCCCTTCACCTGGAACCATGCATGCGACCTAGCT-ACATATATCC
1 AGCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTCACATATATCT
84931605 CGT
62 CGT
* *
84931608 AGCTCTCCTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATATCT
1 AGCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCT-CA-CAT-ATATCT
*
84931673 TGT
62 CGT
* * * ** *
84931676 AGCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCT
1 AGCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCT
84931727 ACGTTCCATC
Statistics
Matches: 146, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 20 0.14
64 22 0.15
66 21 0.14
67 35 0.24
68 46 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (64 bp):
AGCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTCACATATATCTCGT
Found at i:84932108 original size:22 final size:21
Alignment explanation
Indices: 84932066--84932108 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
84932056 AACTTGGCAC
* **
84932066 CATAATCATTTAATTTTTTAA
1 CATAATCAATTAATTCATTAA
84932087 CATAATTCAATTAATTCATTAA
1 CATAA-TCAATTAATTCATTAA
84932109 ATTTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (21 bp):
CATAATCAATTAATTCATTAA
Found at i:84945457 original size:24 final size:23
Alignment explanation
Indices: 84945413--84945458 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
84945403 ATTCATTATA
84945413 ATAATTAACCAAATATAATAATT
1 ATAATTAACCAAATATAATAATT
84945436 ATAATT-ACCACAAGTATAATAAT
1 ATAATTAACCA-AA-TATAATAAT
84945459 GTTTGACCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAATTAACCAAATATAATAATT
Found at i:84945521 original size:38 final size:39
Alignment explanation
Indices: 84945432--84945528 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 39
84945422 CAAATATAAT
* * * *
84945432 AATTATAATTACCACAAGTATAATAATGTTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTTGACCGAAA
* * *
84945471 AATTACAATTACAATAATTATAATAATATTTGATCG-TA
1 AATTATAATTACAATAATTATAATAATATTTGACCGAAA
*
84945509 AATTTTAATTACAATAATTA
1 AATTATAATTACAATAATTA
84945529 CAACAAGGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 19 0.39
39 30 0.61
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (39 bp):
AATTATAATTACAATAATTATAATAATATTTGACCGAAA
Found at i:84948881 original size:27 final size:26
Alignment explanation
Indices: 84948851--84948912 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
84948841 ATTTACTAAA
*
84948851 ATACCCCTAAGTATAAAAATTACCATT
1 ATACCCCTAAGT-GAAAAATTACCATT
* * *
84948878 ATACCTCTAGGTGCAAAATTACCATT
1 ATACCCCTAAGTGAAAAATTACCATT
84948904 ATACCCCTA
1 ATACCCCTA
84948913 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (26 bp):
ATACCCCTAAGTGAAAAATTACCATT
Found at i:84949058 original size:28 final size:28
Alignment explanation
Indices: 84949018--84949104 Score: 135
Period size: 27 Copynumber: 3.2 Consensus size: 28
84949008 GAGGAAACGT
84949018 TCTGGTGGCTCTGCCACAAATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
84949046 TCTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
84949073 TCTGGTGACTCTGTCA-AAATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
84949099 TCTGGT
1 TCTGGT
84949105 AGCCATGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 6 0.11
27 33 0.59
28 17 0.30
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:84953420 original size:20 final size:20
Alignment explanation
Indices: 84953395--84953442 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
84953385 AGTCAAGCTA
84953395 CAAGCTCAGGGACTGTCAGC
1 CAAGCTCAGGGACTGTCAGC
* *
84953415 CAAGCTCGGGGACTGTTAGC
1 CAAGCTCAGGGACTGTCAGC
84953435 CAAGCTCA
1 CAAGCTCA
84953443 TAACACTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.17
Consensus pattern (20 bp):
CAAGCTCAGGGACTGTCAGC
Found at i:84959031 original size:49 final size:49
Alignment explanation
Indices: 84958978--84959081 Score: 190
Period size: 49 Copynumber: 2.1 Consensus size: 49
84958968 TTAGGGTTGT
*
84958978 TTAGGGGTTGGGGAAGTGAGAATATGGGGAATAGTGGCCAGAATAGGGA
1 TTAGGGGTTGGGAAAGTGAGAATATGGGGAATAGTGGCCAGAATAGGGA
*
84959027 TTAGGGGTTGGGAAAGTGAGAATATGGGGAATAGTGGCCGGAATAGGGA
1 TTAGGGGTTGGGAAAGTGAGAATATGGGGAATAGTGGCCAGAATAGGGA
84959076 TTAGGG
1 TTAGGG
84959082 AGTGGAGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.30, C:0.04, G:0.45, T:0.21
Consensus pattern (49 bp):
TTAGGGGTTGGGAAAGTGAGAATATGGGGAATAGTGGCCAGAATAGGGA
Found at i:84998743 original size:46 final size:46
Alignment explanation
Indices: 84998684--84998957 Score: 422
Period size: 46 Copynumber: 6.0 Consensus size: 46
84998674 TTTGTCATGT
** * *
84998684 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
84998730 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
84998776 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
84998822 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
84998868 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
84998914 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
84998958 AGAGCACACT
Statistics
Matches: 211, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 211 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:85001131 original size:18 final size:20
Alignment explanation
Indices: 85001116--85001152 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85001106 TAATAATAAA
*
85001116 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
85001136 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
85001153 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:85002831 original size:172 final size:172
Alignment explanation
Indices: 85002561--85002896 Score: 494
Period size: 172 Copynumber: 2.0 Consensus size: 172
85002551 TTCTAAACCT
* * *
85002561 CATTGAAAAGATCTGTTTGATCTTACAGACTATTATTTGTTTATTTGTTAGTTATAGTTTAGTTT
1 CATTGAAAAGATCTGTTGGATCTTACAGACTATTATTTGTTTATTTGTTAGTTACACTTTAGTTT
* * *
85002626 AATCCCAATCTTGTTCTTATTAGTTTCCATTGAATTTGTTTGCTATATTAATTGAGTTCCAAATC
66 AATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAATC
* * *
85002691 TTGTCTTAGTGCCATTCATGTTGGTTAGGATGTTTTGGAATG
131 TTGTCTTAGTGCCACTCATATTGGTCAGGATGTTTTGGAATG
* * * *
85002733 CATTGAAAAGGTCTGTTGGATCTTACA-ATCTGTTATTTGTTTGTTTGTTAGTTCCACTTTAGTT
1 CATTGAAAAGATCTGTTGGATCTTACAGA-CTATTATTTGTTTATTTGTTAGTTACACTTTAGTT
* **
85002797 TAATCTCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTTTAAAT
65 TAATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAAT
* *
85002862 CTTGTTTTAGTGTCACTCATATTGGTCAGGATGTT
130 CTTGTCTTAGTGCCACTCATATTGGTCAGGATGTT
85002897 CCTGTAGCAC
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
171 1 0.01
172 144 0.99
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (172 bp):
CATTGAAAAGATCTGTTGGATCTTACAGACTATTATTTGTTTATTTGTTAGTTACACTTTAGTTT
AATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAATC
TTGTCTTAGTGCCACTCATATTGGTCAGGATGTTTTGGAATG
Found at i:85004122 original size:20 final size:20
Alignment explanation
Indices: 85004073--85004123 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
85004063 CATATAAAGT
* * * *
85004073 ATGCCATAAAGGATAATAGA
1 ATGCCACAAGGGATAACAAA
85004093 ATGCCACAAGGGATAACAAA
1 ATGCCACAAGGGATAACAAA
85004113 ATGCCACAAGG
1 ATGCCACAAGG
85004124 ACTAAATCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (20 bp):
ATGCCACAAGGGATAACAAA
Found at i:85005931 original size:25 final size:25
Alignment explanation
Indices: 85005903--85005958 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
85005893 TAGCCCGTGA
* *
85005903 GAGCATACAGA-TCTACAACTTGAGT
1 GAGCATACAGATTC-ACAACTCGAAT
*
85005928 GAGCATACCGATTCACAACTCGAAT
1 GAGCATACAGATTCACAACTCGAAT
85005953 GAGCAT
1 GAGCAT
85005959 TCATGTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (25 bp):
GAGCATACAGATTCACAACTCGAAT
Found at i:85009955 original size:93 final size:93
Alignment explanation
Indices: 85009793--85010014 Score: 245
Period size: 93 Copynumber: 2.4 Consensus size: 93
85009783 GATGCTGACG
* * *
85009793 CCATGTCCCAGACATGGTCTTACACTGACTAGCACATCAAAGTCGACGACATGTCTCAGACAGAT
1 CCATGTCCCAGACA-GGTCTTACACTAAC-A-CACAACAAAGTCGACGACATGTCCCAGACAGAT
*
85009858 CTTACACT-GACTT-TCATATATCGAGGCTGAT
63 CTTACACTAG-CTTGT-ATATATCGAGGCCGAT
* * *
85009889 CCCATGTCCCAGACAGGTCTTACACTAACACACAACAACA-T-GATGCCATGTCCCAGACAGGTC
1 -CCATGTCCCAGACAGGTCTTACACTAACACACAACAA-AGTCGACGACATGTCCCAGACAGATC
*
85009952 TTACACTAGCTTGTATATTTCGAGGCCGAT
64 TTACACTAGCTTGTATATATCGAGGCCGAT
* * * *
85009982 GCATGTCCCTGACATGTCTTACACTAGCACACA
1 CCATGTCCCAGACAGGTCTTACACTAACACACA
85010015 TATCACTTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
92 29 0.26
93 42 0.38
94 10 0.09
95 2 0.02
96 13 0.12
97 14 0.13
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (93 bp):
CCATGTCCCAGACAGGTCTTACACTAACACACAACAAAGTCGACGACATGTCCCAGACAGATCTT
ACACTAGCTTGTATATATCGAGGCCGAT
Found at i:85016235 original size:18 final size:18
Alignment explanation
Indices: 85016212--85016247 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
85016202 TTCCTGGGTG
85016212 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
85016230 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
85016248 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:85019660 original size:50 final size:50
Alignment explanation
Indices: 85019585--85019977 Score: 448
Period size: 50 Copynumber: 7.8 Consensus size: 50
85019575 TCCATTGTGA
* *
85019585 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
85019635 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * *
85019686 ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
85019736 GTCACATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
85019786 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGA-TAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * * * *
85019837 ATCACGTATGTAGTACTAAGTGCAGGCTACTACATGTATCATATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
85019887 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
85019937 ATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
85019978 AAGAGCTTCG
Statistics
Matches: 281, Mismatches: 56, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
49 5 0.02
50 200 0.71
51 75 0.27
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:85019766 original size:101 final size:99
Alignment explanation
Indices: 85019586--85019976 Score: 419
Period size: 101 Copynumber: 3.9 Consensus size: 99
85019576 CCATTGTGAG
* * *
85019586 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAGATTGATAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGATCACATGTGTAGTAC
*
85019651 TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
66 TAAGTGCAGGCTACTACGCGTACCCGTTAA-TT-GA
* * * *
85019687 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA-AGTCACATGTGTGGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGA-TCACATGTGTAGTA
* * * * *
85019751 CTAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
65 CTAAGTGCAGGCTACTACGCGTACCCG-TTAATTGA
* * * * * * *
85019787 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGA-TAACTTTGATCACGTATGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGATCACATGTGTAGT
** * * ** *
85019851 ACTAAGTGCAGGCTACTACATGTA-TCATATGGTTAA
64 ACTAAGTGCAGGCTACTACGCGTACCCGT-TAATTGA
* *
85019887 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGATCGCATGTGTAGTA
1 -TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGATCACATGTGTAGTA
*
85019952 CTAAGTGCAGGCTACTATGCGTACC
65 CTAAGTGCAGGCTACTACGCGTACC
85019977 AAAGAGCTTC
Statistics
Matches: 236, Mismatches: 45, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
99 1 0.00
100 76 0.32
101 153 0.65
102 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGATCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCCGTTAATTGA
Found at i:85019858 original size:151 final size:151
Alignment explanation
Indices: 85019584--85019976 Score: 669
Period size: 151 Copynumber: 2.6 Consensus size: 151
85019574 ATCCATTGTG
* * *
85019584 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAGATTGATAGGTCACATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
85019649 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATATGTAGTACTAAGTGCAGGCT
*
85019714 ACTACGTGTATCAGATGGTTA
131 ACTACATGTATCAGATGGTTA
*
85019735 AGTCACATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
85019800 ACTAAGTGCAGGCTACTATGTGTACCCGATAACTTTGATCACGTATGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATATGTAGTACTAAGTGCAGGCT
*
85019865 ACTACATGTATCATATGGTTA
131 ACTACATGTATCAGATGGTTA
* *
85019886 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGATCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
85019951 ACTAAGTGCAGGCTACTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
85019977 AAAGAGCTTC
Statistics
Matches: 227, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 227 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (151 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATATGTAGTACTAAGTGCAGGCT
ACTACATGTATCAGATGGTTA
Found at i:85020200 original size:16 final size:16
Alignment explanation
Indices: 85020179--85020210 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85020169 AGAATGGAGT
85020179 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
85020195 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
85020211 TAAAACAATT
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:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:85026121 original size:49 final size:48
Alignment explanation
Indices: 85026061--85026235 Score: 167
Period size: 49 Copynumber: 3.6 Consensus size: 48
85026051 CATCAAAGTT
* *
85026061 GATGCCATGTCCCAAACAGGTCTTAGACTGACTTTCATATATCGAGCCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-CC
* * * * * * **
85026110 GATGCCGTGTCCTAGATAGGTCTTACACTGGCTCTCATCTATCGATGGT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGA-GCC
* *
85026159 GACGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGA-GCC
*
85026208 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
85026236 AGCACATATA
Statistics
Matches: 100, Mismatches: 23, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
48 23 0.23
49 75 0.75
50 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGCC
Found at i:85041095 original size:15 final size:15
Alignment explanation
Indices: 85041075--85041152 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
85041065 CATAGTATCA
*
85041075 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
85041090 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
85041105 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
* *
85041120 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTT
85041135 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
85041150 TAT
1 TAT
85041153 TCAGTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 1 0.02
15 52 0.96
16 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:85043120 original size:13 final size:13
Alignment explanation
Indices: 85043102--85043129 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85043092 TACATATATA
85043102 AAAGAAACAAAAG
1 AAAGAAACAAAAG
85043115 AAAGAAACAAAAG
1 AAAGAAACAAAAG
85043128 AA
1 AA
85043130 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:85045206 original size:25 final size:25
Alignment explanation
Indices: 85045178--85045269 Score: 76
Period size: 25 Copynumber: 3.7 Consensus size: 25
85045168 TTTTACCCAT
*
85045178 AGCTCGTGTGAGCATACCGATTTAT
1 AGCTCGTGTGAGCATACCGATTTAC
** * * * *
85045203 AGCTTATGAGACCATACTGATCTAC
1 AGCTCGTGTGAGCATACCGATTTAC
* * * *
85045228 AGCTCGAGTGAGCATAGCAATTCAC
1 AGCTCGTGTGAGCATACCGATTTAC
*
85045253 AGCTCGTATGAGCATAC
1 AGCTCGTGTGAGCATAC
85045270 ATGTACATAA
Statistics
Matches: 47, Mismatches: 20, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCGATTTAC
Found at i:85048036 original size:54 final size:54
Alignment explanation
Indices: 85047973--85048080 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
85047963 ATTAGGCCCG
85047973 ATAGCCCAAAATCGAAATCCAAAATCTGGTTGAATCGGGCCAGGTATGTGAAAC
1 ATAGCCCAAAATCGAAATCCAAAATCTGGTTGAATCGGGCCAGGTATGTGAAAC
85048027 ATAGCCCAAAATCGAAATCCAAAATCTGGTTGAATCGGGCCAGGTATGTGAAAC
1 ATAGCCCAAAATCGAAATCCAAAATCTGGTTGAATCGGGCCAGGTATGTGAAAC
85048081 CAGGCCGACG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (54 bp):
ATAGCCCAAAATCGAAATCCAAAATCTGGTTGAATCGGGCCAGGTATGTGAAAC
Found at i:85048425 original size:31 final size:29
Alignment explanation
Indices: 85048390--85048447 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
85048380 AATAGTATTT
*
85048390 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
85048421 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
85048448 GTAGATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:85048486 original size:62 final size:61
Alignment explanation
Indices: 85048417--85048535 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
85048407 AGTGATTATC
* * * *
85048417 TTAATATTAAATTAAATTTAATGTTTATCTTGTAGATAAACATTTTATTATTTTAATAAGAT
1 TTAATATTAAATTAAATCTAATATTTATCTT-TAGATAAACATTATATTAATTTAATAAGAT
* *
85048479 TTAATATTAAATTTAATCTAATATTTATCTTTAGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTTAGATAAACATTATATTAATTTAATA
85048536 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
61 23 0.45
62 28 0.55
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (61 bp):
TTAATATTAAATTAAATCTAATATTTATCTTTAGATAAACATTATATTAATTTAATAAGAT
Found at i:85056417 original size:12 final size:13
Alignment explanation
Indices: 85056400--85056431 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
85056390 ATAGCACATT
85056400 TCAAAAC-ATGCA
1 TCAAAACTATGCA
85056412 TCAAAACTATGCA
1 TCAAAACTATGCA
85056425 -CAAAACT
1 TCAAAACT
85056432 TAACATTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:85064172 original size:93 final size:93
Alignment explanation
Indices: 85064013--85064184 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
85064003 CGCCCATAAG
*
85064013 CGAACTCGGACTCAACTCAACGAGCTCAAGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAAGCATTCGCATCCATAAGTAAACTCGGACTCAACTCA
85064078 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
85064106 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAAG-CATTCGCATCCATAAGTAAACTCGGACTCAACTC
85064170 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
85064185 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAAGCATTCGCATCCATAAGTAAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:85064179 original size:46 final size:47
Alignment explanation
Indices: 85064006--85064181 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 47
85063996 TGTAACCCGC
* * *
85064006 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-AAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
** *
85064052 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
85064102 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
85064145 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
85064182 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.55
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:85070230 original size:21 final size:21
Alignment explanation
Indices: 85070206--85070252 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
85070196 CTCTTTCAAA
*
85070206 CTTCTGTTCAGCTCTTATGAG
1 CTTCTGTTAAGCTCTTATGAG
*
85070227 CTTCTGTTAAGCTTTTATGAG
1 CTTCTGTTAAGCTCTTATGAG
85070248 CTTCT
1 CTTCT
85070253 CTTGGCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
CTTCTGTTAAGCTCTTATGAG
Found at i:85079980 original size:20 final size:21
Alignment explanation
Indices: 85079937--85079982 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
85079927 ACTGTTTTGT
85079937 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
85079957 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
85079976 TATGGGC
1 TATGGGC
85079983 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:85082410 original size:43 final size:43
Alignment explanation
Indices: 85082344--85082428 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
85082334 AAATCGTACA
*
85082344 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
85082387 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATC
85082429 AGAATCACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:85084907 original size:13 final size:13
Alignment explanation
Indices: 85084889--85084914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85084879 CTCTGCATTC
85084889 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
85084902 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
85084915 AGCAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:85090546 original size:6 final size:6
Alignment explanation
Indices: 85090533--85090597 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
85090523 TTCTTTTTCA
* * * *
85090533 TTTT-T TTTTAT TTTAAT TTTTAT CTTTAT CTTTAT TTTTAT TTGTAGT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
85090581 TGCTTTAT TTTTAT TTT
1 T--TTTAT TTTTAT TTT
85090598 CTTAGACTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
5 4 0.08
6 39 0.78
7 2 0.04
8 2 0.04
9 3 0.06
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:85090569 original size:18 final size:18
Alignment explanation
Indices: 85090527--85090573 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
85090517 TTTCTTTTCT
*
85090527 TTTTCATTTTT-T-TTTA
1 TTTTAATTTTTATCTTTA
85090543 TTTTAATTTTTATCTTTA
1 TTTTAATTTTTATCTTTA
85090561 TCTTT-ATTTTTAT
1 T-TTTAATTTTTAT
85090574 TTGTAGTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 10 0.37
17 1 0.04
18 13 0.48
19 3 0.11
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTAATTTTTATCTTTA
Found at i:85097208 original size:45 final size:44
Alignment explanation
Indices: 85097136--85097263 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 44
85097126 TCAACTCGTA
*
85097136 AGAGCTTATTGTTTTCAGCTCATTAGAGCTTACTGTTTCAGCTC-AT
1 AGAGCTTATTG--TTCAGCTCA-TAGAGCTTACTATTTCAGCTCAAT
*
85097182 ATGAGCTTATTGTTCAGCTCGATAGAGCTTACCATTTCAGCTCAAT
1 A-GAGCTTATTGTTCAGCTC-ATAGAGCTTACTATTTCAGCTCAAT
* *
85097228 AGAACTTACTAT-TTCAGCTAAATAGAGCTTACTATT
1 AGAGCTTA-T-TGTTCAGCT-CATAGAGCTTACTATT
85097264 CATCAACTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
45 33 0.46
46 27 0.38
47 11 0.15
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (44 bp):
AGAGCTTATTGTTCAGCTCATAGAGCTTACTATTTCAGCTCAAT
Found at i:85097261 original size:23 final size:23
Alignment explanation
Indices: 85097148--85097263 Score: 139
Period size: 23 Copynumber: 5.1 Consensus size: 23
85097138 AGCTTATTGT
* *
85097148 TTTCAGCTCATTAGAGCTTACTG
1 TTTCAGCTCAATAGAGCTTACTA
85097171 TTTCAGCTC-ATATGAGCTTA-T-
1 TTTCAGCTCAATA-GAGCTTACTA
* *
85097192 TGTTCAGCTCGATAGAGCTTACCA
1 T-TTCAGCTCAATAGAGCTTACTA
*
85097216 TTTCAGCTCAATAGAACTTACTA
1 TTTCAGCTCAATAGAGCTTACTA
*
85097239 TTTCAGCTAAATAGAGCTTACTA
1 TTTCAGCTCAATAGAGCTTACTA
85097262 TT
1 TT
85097264 CATCAACTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.22
23 61 0.75
24 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (23 bp):
TTTCAGCTCAATAGAGCTTACTA
Found at i:85107376 original size:40 final size:39
Alignment explanation
Indices: 85107332--85107516 Score: 246
Period size: 40 Copynumber: 4.7 Consensus size: 39
85107322 GCCACTAGCT
*
85107332 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
85107372 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
*
85107411 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
85107451 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
85107491 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
85107517 TATCATCCGA
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.31
40 89 0.69
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:85107430 original size:79 final size:80
Alignment explanation
Indices: 85107325--85107519 Score: 268
Period size: 79 Copynumber: 2.5 Consensus size: 80
85107315 GGATATAGCC
* *
85107325 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
85107390 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * *
85107404 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
85107469 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
*
85107484 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
85107520 CATCCGAACA
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
79 69 0.68
80 32 0.32
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:85115485 original size:39 final size:40
Alignment explanation
Indices: 85115381--85115583 Score: 232
Period size: 40 Copynumber: 5.1 Consensus size: 40
85115371 GGAGTTTAAG
** * *
85115381 CCGGATATAGCCACTAGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85115421 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85115461 CCGG-TATAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
85115500 CCGGATATAGTAGCTCGCACGAATGCCTTTGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** * * *
85115540 CCGGA-ATTAGCCACTAGCTCAAATG-CTCTCGGGACTTATC
1 CCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGACTTAGC
85115580 CCGG
1 CCGG
85115584 TTATCATCCG
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 40 0.28
40 101 0.72
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85115499 original size:79 final size:80
Alignment explanation
Indices: 85115393--85115587 Score: 250
Period size: 79 Copynumber: 2.5 Consensus size: 80
85115383 GGATATAGCC
* *
85115393 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
85115458 AGCCCGGTA-TAATA
66 AGCCCGGAATTAACA
* * * * *
85115472 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTTGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
85115537 AGCCCGGAATTAGCC
66 AGCCCGGAATTAACA
* *
85115552 ACTAGCTCAAATG-CTCTCGGGACTTATCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
85115588 CATCCGAACT
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 68 0.69
80 31 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGAATTAACA
Found at i:85122289 original size:49 final size:49
Alignment explanation
Indices: 85122208--85122303 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
85122198 AAGCCTAGCT
85122208 GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACCCC
1 GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACCCC
* *
85122257 GATTTATATATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
1 GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
85122304 TTTCTAGTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (49 bp):
GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACCCC
Found at i:85122297 original size:27 final size:27
Alignment explanation
Indices: 85122218--85122297 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
85122208 GATTCATAAA
85122218 TTATCTCATATCAGCCCATATTTTTCT
1 TTATCTCATATCAGCCCATATTTTTCT
** * *
85122245 TTA--T--T-TCA-CCCCGATTTATAT
1 TTATCTCATATCAGCCCATATTTTTCT
85122266 ATTATCTCATATCAGCCCATATTTTTCT
1 -TTATCTCATATCAGCCCATATTTTTCT
85122294 TTAT
1 TTAT
85122298 TTCACCTTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
21 9 0.24
22 6 0.16
23 1 0.03
24 1 0.03
25 1 0.03
26 1 0.03
27 10 0.26
28 9 0.24
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.49
Consensus pattern (27 bp):
TTATCTCATATCAGCCCATATTTTTCT
Found at i:85127135 original size:29 final size:28
Alignment explanation
Indices: 85127075--85127148 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
85127065 TCATCAACCA
*
85127075 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACAC-TAGTGCCATGCACTTTAAACT
**
85127104 CGCACACTCAGTGCCATGCA-TTTCAAGTT
1 CGCACACT-AGTGCCATGCACTTT-AAACT
85127133 CGCACAACTAGTGCCA
1 CGCAC-ACTAGTGCCA
85127149 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.10
29 32 0.82
30 3 0.08
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
CGCACACTAGTGCCATGCACTTTAAACT
Found at i:85133466 original size:40 final size:41
Alignment explanation
Indices: 85133331--85133468 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 41
85133321 TTCTGAATCT
* *
85133331 ATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
85133372 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
* * * * *
85133413 CTGAAAAGGTTGAAAATGATG-TATTCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
* * *
85133453 AGGAATAGATTGAAAA
1 ATGAAAAGGTTGAAAA
85133469 AAATAGCAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 29 0.34
41 57 0.66
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
Found at i:85137185 original size:21 final size:21
Alignment explanation
Indices: 85137161--85137200 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
85137151 ACCTTTTCTA
*
85137161 AAGTTAAAAATCAAAACTATT
1 AAGTTAAAAAGCAAAACTATT
*
85137182 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAAGCAAAACTA
85137201 CGTTATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAAGCAAAACTATT
Found at i:85141106 original size:36 final size:35
Alignment explanation
Indices: 85141004--85141108 Score: 165
Period size: 35 Copynumber: 3.0 Consensus size: 35
85140994 TCAATTAGAC
* *
85141004 TAGCTCTTATGAGCACTAGTCTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
85141039 TAGCTCTTACGAGCACTGGTGTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
85141074 TAGCTCTTATGAGCATCTGGTGTGTTTCGGATGGA
1 TAGCTCTTATGAGCA-CTGGTGTGTTTTGGATGGA
85141109 ATATGGATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 46 0.72
36 18 0.28
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (35 bp):
TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
Found at i:85142933 original size:18 final size:18
Alignment explanation
Indices: 85142912--85142948 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85142902 TTGATTTCGG
* *
85142912 AATTCGAATAACTCGAAT
1 AATTCAAATAAATCGAAT
85142930 AATTCAAATAAATCGAAT
1 AATTCAAATAAATCGAAT
85142948 A
1 A
85142949 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:85143187 original size:20 final size:20
Alignment explanation
Indices: 85143162--85143201 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
85143152 CAACCCTCAA
* *
85143162 AAACTTTTACTTTTCTCCCT
1 AAACTTTTAATTTTCACCCT
85143182 AAACTTTTAATTTTCACCCT
1 AAACTTTTAATTTTCACCCT
85143202 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTAATTTTCACCCT
Found at i:85144262 original size:16 final size:17
Alignment explanation
Indices: 85144229--85144261 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
85144219 ATTAATGATA
85144229 TAATTAATTTTCATTTT
1 TAATTAATTTTCATTTT
85144246 TAATT-ATTTT-ATTTT
1 TAATTAATTTTCATTTT
85144261 T
1 T
85144262 TCCAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TAATTAATTTTCATTTT
Found at i:85144393 original size:7 final size:7
Alignment explanation
Indices: 85144383--85144422 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
85144373 TTTTGGTTGC
85144383 TTTTTTA
1 TTTTTTA
85144390 TTTTTTA
1 TTTTTTA
85144397 TTTTTTA
1 TTTTTTA
*
85144404 TTTTTCA
1 TTTTTTA
*
85144411 TTCTTTA
1 TTTTTTA
85144418 TTTTT
1 TTTTT
85144423 CTTCTTCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:85151255 original size:37 final size:37
Alignment explanation
Indices: 85151205--85151282 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
85151195 TTTGGCTTGG
85151205 AAGTTTGAATCAAATTAGAGAGAGAGAGAGAGAAAGT
1 AAGTTTGAATCAAATTAGAGAGAGAGAGAGAGAAAGT
85151242 AAGTTTGAATCAAATTAGAGAGAGAGAGAGAGAAAGT
1 AAGTTTGAATCAAATTAGAGAGAGAGAGAGAGAAAGT
85151279 AAGT
1 AAGT
85151283 AATGGCGGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.49, C:0.03, G:0.29, T:0.19
Consensus pattern (37 bp):
AAGTTTGAATCAAATTAGAGAGAGAGAGAGAGAAAGT
Found at i:85157318 original size:19 final size:19
Alignment explanation
Indices: 85157294--85157330 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85157284 CAATGCAAAT
* *
85157294 AAAACAATAAATCGAATAA
1 AAAACAACAAATCCAATAA
85157313 AAAACAACAAATCCAATA
1 AAAACAACAAATCCAATA
85157331 CACCTCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.14
Consensus pattern (19 bp):
AAAACAACAAATCCAATAA
Found at i:85161939 original size:37 final size:37
Alignment explanation
Indices: 85161882--85161952 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
85161872 TTTAACCTTA
* *
85161882 CAACTCCCTTAAGATCTCTACCTAAATCTTAAGATTG
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
* *
85161919 CAACTCCCTTAAGGTTTCTACCCAAACCTTAAGA
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGA
85161953 CTAAACCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (37 bp):
CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
Found at i:85162390 original size:20 final size:20
Alignment explanation
Indices: 85162362--85162399 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85162352 TCGTTGGAGC
85162362 TATCAATACCAAAGAAAATT
1 TATCAATACCAAAGAAAATT
* *
85162382 TATCGATACCAAATAAAA
1 TATCAATACCAAAGAAAA
85162400 GGTACCGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (20 bp):
TATCAATACCAAAGAAAATT
Found at i:85164996 original size:54 final size:52
Alignment explanation
Indices: 85164815--85165028 Score: 241
Period size: 53 Copynumber: 4.0 Consensus size: 52
85164805 ATATATTATA
* * * * * * *
85164815 CCGATGCCATATCCCGGATATGGTATTTTACGGAAGCACTTATCACTTTTCT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
* * **
85164867 CCGATGCCATAGCCCAACTATGGTCTTATACGG-ATCACTTGTATCAATTTAAT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTTTTT
* *
85164920 CCGAAGCCATAACCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTT-TTTT
* *
85164974 CCGATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTTTCACTTGTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTTTTTT
85165027 CC
1 CC
85165029 ATGTTCCAAC
Statistics
Matches: 136, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
51 4 0.03
52 28 0.21
53 52 0.38
54 47 0.35
55 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (52 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
Found at i:85165004 original size:107 final size:105
Alignment explanation
Indices: 85164815--85165008 Score: 289
Period size: 107 Copynumber: 1.8 Consensus size: 105
85164805 ATATATTATA
* * * *
85164815 CCGATGCCATATCCCGGATATGGTATTTTACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
1 CCGAAGCCATAACCCAGATATGGTATTATACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
85164880 CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
66 CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
* * * *
85164920 CCGAAGCCATAACCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTTCCGATGCCATA
1 CCGAAGCCATAACCCAGATATGGTATTATACGG-AAGCACTTATCACTT-TTCTCCGATGCCATA
*
85164985 GCCCAGCTATGGTCTTATACGGAT
64 GCCCAACTATGGTCTTATACGGAT
85165009 ATCACTTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 27 0.35
106 14 0.18
107 37 0.47
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (105 bp):
CCGAAGCCATAACCCAGATATGGTATTATACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
Found at i:85172586 original size:86 final size:86
Alignment explanation
Indices: 85172441--85172603 Score: 263
Period size: 86 Copynumber: 1.9 Consensus size: 86
85172431 AGTGACGTTG
* ** *
85172441 ATACACACCTTGAAGTCTTCATTAATTTCTCATAAGTTCATTTTTATCCCCACACACCAACATAT
1 ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
85172506 TGTACATATTAATCATTAAAA
66 TGTACATATTAATCATTAAAA
* * *
85172527 ATACACACCTTGAAGCCTTCGTTTATTTCTCATAAGTTCATTGCTATCCCTACACACCAACATAC
1 ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
85172592 TGTACATATTAA
66 TGTACATATTAA
85172604 GCATAGCAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (86 bp):
ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
TGTACATATTAATCATTAAAA
Found at i:85173913 original size:23 final size:24
Alignment explanation
Indices: 85173894--85173947 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
85173884 TAGAATTTTT
*
85173894 TAAAAATTGCAAATG-AAATTATA
1 TAAAAATTACAAATGCAAATTATA
* *
85173917 TATAAATTACAAATGCAAATATACA
1 TAAAAATTACAAATGCAAAT-TATA
85173942 TAAAAA
1 TAAAAA
85173948 CATATACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.52
24 4 0.16
25 8 0.32
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (24 bp):
TAAAAATTACAAATGCAAATTATA
Found at i:85174084 original size:12 final size:12
Alignment explanation
Indices: 85174053--85174108 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
85174043 CTATAAGTGA
*
85174053 AAAAATATACTT
1 AAAAATATACAT
**
85174065 AATTATATACAT
1 AAAAATATACAT
*
85174077 AAAAATATCCAT
1 AAAAATATACAT
85174089 AAAAATTATACAT
1 AAAAA-TATACAT
85174102 AAAAATA
1 AAAAATA
85174109 CATATGACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
12 25 0.69
13 11 0.31
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATATACAT
Found at i:85174102 original size:13 final size:13
Alignment explanation
Indices: 85174070--85174107 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
85174060 TACTTAATTA
85174070 TATACATAAAAA-
1 TATACATAAAAAT
*
85174082 TATCCATAAAAAT
1 TATACATAAAAAT
85174095 TATACATAAAAAT
1 TATACATAAAAAT
85174108 ACATATGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (13 bp):
TATACATAAAAAT
Found at i:85174192 original size:19 final size:20
Alignment explanation
Indices: 85174168--85174205 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
85174158 ACGGGTTATG
*
85174168 CATAAATATATACA-AAAAC
1 CATAAAAATATACATAAAAC
85174187 CATAAAAATATACATAAAA
1 CATAAAAATATACATAAAA
85174206 TAGTATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (20 bp):
CATAAAAATATACATAAAAC
Found at i:85174964 original size:21 final size:21
Alignment explanation
Indices: 85174924--85174973 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
85174914 AGCAAAAAAC
* *
85174924 CTCTAAAATTTCTCCCTAAAG
1 CTCTCAAATTTCTCACTAAAG
* *
85174945 CTCTCAAATTTCTCATTAAAT
1 CTCTCAAATTTCTCACTAAAG
*
85174966 TTCTCAAA
1 CTCTCAAA
85174974 GCTCTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (21 bp):
CTCTCAAATTTCTCACTAAAG
Found at i:85175247 original size:54 final size:54
Alignment explanation
Indices: 85175138--85175240 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
85175128 TTAATTTTAA
*
85175138 TTTGAATACTATTTAATATTTTTTTCATTTATGTAATTTTAATTAATTTCAATT
1 TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTTCAATT
*
85175192 TTTGAATAGTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTT
1 TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTT
85175241 GTATTTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (54 bp):
TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTTCAATT
Found at i:85176804 original size:18 final size:18
Alignment explanation
Indices: 85176781--85176823 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
85176771 TGCCAGGTGC
*
85176781 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
85176799 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
85176817 GTTTCCT
1 GTATCCT
85176824 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:85179223 original size:14 final size:15
Alignment explanation
Indices: 85179187--85179223 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
85179177 CTTCTTTTAT
*
85179187 TTATTATAACTATTA
1 TTATTATATCTATTA
85179202 -TATTATATC-ATTA
1 TTATTATATCTATTA
85179215 TTATTATAT
1 TTATTATAT
85179224 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:85179240 original size:21 final size:21
Alignment explanation
Indices: 85179189--85179251 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
85179179 TCTTTTATTT
* *
85179189 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
85179208 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
85179229 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
85179250 AT
1 AT
85179252 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:85185820 original size:26 final size:26
Alignment explanation
Indices: 85185791--85185846 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
85185781 TGATACAAAT
85185791 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85185817 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85185843 TGAT
1 TGAT
85185847 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85187524 original size:27 final size:26
Alignment explanation
Indices: 85187466--85187571 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 26
85187456 AGGAAGCGTC
* *
85187466 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC-AA-TATCTGTT
85187494 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGTT
85187521 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGT-T
* *
85187548 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
85187572 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
26 9 0.13
27 46 0.65
28 16 0.23
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:85189939 original size:10 final size:10
Alignment explanation
Indices: 85189924--85189958 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
85189914 AAAACCCTAT
85189924 TTTTTCTTTC
1 TTTTTCTTTC
85189934 TTTTTCTTTCCC
1 TTTTTCTTT--C
85189946 TTTTTCTTTC
1 TTTTTCTTTC
85189956 TTT
1 TTT
85189959 CTTTCCCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:85189949 original size:22 final size:20
Alignment explanation
Indices: 85189924--85189971 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 20
85189914 AAAACCCTAT
85189924 TTTTTCTTTCTTTTTCTTTCCC
1 TTTTTCTTTC--TTTCTTTCCC
85189946 TTTTTCTTTCTTTCTTTCCC
1 TTTTTCTTTCTTTCTTTCCC
85189966 TGTTTT
1 T-TTTT
85189972 GTACGTGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.44
21 4 0.16
22 10 0.40
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTCTTTCTTTCTTTCCC
Found at i:85190490 original size:21 final size:21
Alignment explanation
Indices: 85190440--85190513 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
85190430 CACTCACAAT
* *
85190440 CGGAGCACCCACAACCCCTGC
1 CGGAGCAACCACAACCCCCGC
*
85190461 CGGAGCAACCACAACCCCCGT
1 CGGAGCAACCACAACCCCCGC
* * **
85190482 TGGATCAACCACAACCCCCAT
1 CGGAGCAACCACAACCCCCGC
85190503 CGGAGCAACCA
1 CGGAGCAACCA
85190514 ATAAGGAATC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.30, C:0.46, G:0.18, T:0.07
Consensus pattern (21 bp):
CGGAGCAACCACAACCCCCGC
Found at i:85195131 original size:13 final size:13
Alignment explanation
Indices: 85195101--85195139 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
85195091 TGTTTGAAGT
85195101 TTTTTTTAATT--
1 TTTTTTTAATTAA
85195112 TTATTTTTAATTAA
1 TT-TTTTTAATTAA
85195126 TTTTTTTAATTAA
1 TTTTTTTAATTAA
85195139 T
1 T
85195140 AAACAAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 12 0.48
14 2 0.08
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTTAATTAA
Found at i:85202780 original size:51 final size:51
Alignment explanation
Indices: 85202703--85202804 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
85202693 TCTCGAAACC
*
85202703 TTAAATGTCTCAAATTAAAGAATTCGTGAGCTGTTTATAATATTTGTATCT
1 TTAAATGTCTCAAATTAAAGAATTCGTGAACTGTTTATAATATTTGTATCT
*
85202754 TTAAATGTCTCAAATTAAAGAGTTCGTGAACTGTTTATAATATTTGTATCT
1 TTAAATGTCTCAAATTAAAGAATTCGTGAACTGTTTATAATATTTGTATCT
85202805 GGCACCATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (51 bp):
TTAAATGTCTCAAATTAAAGAATTCGTGAACTGTTTATAATATTTGTATCT
Found at i:85203045 original size:16 final size:16
Alignment explanation
Indices: 85203021--85203054 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
85203011 ATTAAGTAAA
*
85203021 AATATATAAATTTTAT
1 AATAAATAAATTTTAT
85203037 AATAAATAAATTTTAT
1 AATAAATAAATTTTAT
85203053 AA
1 AA
85203055 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATAAATTTTAT
Found at i:85212066 original size:4 final size:4
Alignment explanation
Indices: 85212059--85212136 Score: 52
Period size: 4 Copynumber: 19.5 Consensus size: 4
85212049 CTTTTGTTTG
* * * * *
85212059 TTTA TTTA TTTA TTCA TCTA TTTA TTTG TTTA TATA TATA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
85212106 -TTC TTTA GTTTTA TTTA TTCA TTCA TTTA TT
1 TTTA TTTA --TTTA TTTA TTTA TTTA TTTA TT
85212137 AGTAAATATT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
3 5 0.08
4 50 0.85
6 4 0.07
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:85212084 original size:20 final size:20
Alignment explanation
Indices: 85212059--85212104 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
85212049 CTTTTGTTTG
*
85212059 TTTATTTATTTAT-TCATCTA
1 TTTATTTATTTATAT-ATATA
*
85212079 TTTATTTGTTTATATATATA
1 TTTATTTATTTATATATATA
85212099 TTTATT
1 TTTATT
85212105 ATTCTTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTATATATATA
Found at i:85212312 original size:3 final size:3
Alignment explanation
Indices: 85212304--85212335 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
85212294 CATTTTATTT
85212304 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
85212336 TATTATTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:85212352 original size:18 final size:17
Alignment explanation
Indices: 85212331--85212366 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
85212321 CATCATCATC
85212331 ATCATTATTATTACTATT
1 ATCATTATTA-TACTATT
85212349 ATCATTATTATACTATT
1 ATCATTATTATACTATT
85212366 A
1 A
85212367 CTATTAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
ATCATTATTATACTATT
Found at i:85213086 original size:27 final size:28
Alignment explanation
Indices: 85213056--85213114 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
85213046 GTATTATTTT
85213056 AATTT-ATTTAACATATTA-TTTATTTAA
1 AATTTGATTT-ACATATTACTTTATTTAA
* * *
85213083 AATTTGCTTTATATATTACTTTATTTCA
1 AATTTGATTTACATATTACTTTATTTAA
85213111 AATT
1 AATT
85213115 GTTTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTTGATTTACATATTACTTTATTTAA
Found at i:85213121 original size:24 final size:26
Alignment explanation
Indices: 85213068--85213131 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
85213058 TTTATTTAAC
85213068 ATATTATTTATTTAAAATTTGCTTTAT
1 ATATTATTTATTTAAAATTTGC-TTAT
* *
85213095 ATATTACTTTATTTCAAA-TTGTTTAT
1 ATATTA-TTTATTTAAAATTTGCTTAT
*
85213121 ATTTTATTTAT
1 ATATTATTTAT
85213132 GTTGAATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 9 0.27
27 9 0.27
28 10 0.30
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
ATATTATTTATTTAAAATTTGCTTAT
Found at i:85216067 original size:46 final size:46
Alignment explanation
Indices: 85216017--85216417 Score: 606
Period size: 46 Copynumber: 8.7 Consensus size: 46
85216007 GATAGAAAAT
85216017 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
*
85216063 GTGTAAGACCATGGTTGAAATATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
85216109 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
85216155 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
85216201 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *
85216247 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* *** *
85216293 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATGAAAC
** * * * *
85216340 GAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAC
* * * *
85216386 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
85216418 TCATGTCGAA
Statistics
Matches: 334, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 294 0.88
47 39 0.12
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
Found at i:85218337 original size:30 final size:31
Alignment explanation
Indices: 85218293--85218351 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
85218283 CAATTCATAT
* *
85218293 ATATCTCATGTCACATAGCATGTTTCATTCC
1 ATATCTCATATCACATAGCATGTATCATTCC
*
85218324 ATAT-TCATATCACATATCATGTATCATT
1 ATATCTCATATCACATAGCATGTATCATT
85218352 TATATCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (31 bp):
ATATCTCATATCACATAGCATGTATCATTCC
Found at i:85221010 original size:30 final size:30
Alignment explanation
Indices: 85220971--85221027 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
85220961 TTTTATAAAT
85220971 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
85221001 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
85221028 AATAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:85222591 original size:35 final size:35
Alignment explanation
Indices: 85222545--85222611 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
85222535 TAAGCTTTTT
85222545 CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
1 CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
85222580 CGGTTACTTGTGCATTAGATCAGAATGGATCT
1 CGGTTACTTGTGCATTAGATCAGAATGGATCT
85222612 CTCATGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (35 bp):
CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
Found at i:85224712 original size:25 final size:25
Alignment explanation
Indices: 85224682--85224731 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
85224672 TTGTGGAAGT
85224682 GACAGAAATTCAGTGAACTTATGGA
1 GACAGAAATTCAGTGAACTTATGGA
85224707 GACAGAAATTCAGTGAACTTATGGA
1 GACAGAAATTCAGTGAACTTATGGA
85224732 AAAAAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (25 bp):
GACAGAAATTCAGTGAACTTATGGA
Found at i:85227522 original size:17 final size:18
Alignment explanation
Indices: 85227500--85227534 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
85227490 TCCATGTTGC
85227500 AAAATAAACG-AGAAAAA
1 AAAATAAACGAAGAAAAA
*
85227517 AAAATAAAGGAAGAAAAA
1 AAAATAAACGAAGAAAAA
85227535 GAAGAGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAATAAACGAAGAAAAA
Found at i:85230000 original size:59 final size:60
Alignment explanation
Indices: 85229933--85230046 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
85229923 CTTAATATAA
* * * *
85229933 AATTTGGTATTTGAACTTAACA-CTTTTTCTTAATTT-AGTATCTAATTTTTTTTTTGCTT
1 AATTTGGTACTTGAACTTAACATCTTTTTCCTAATTTGA-TACCTAAATTTTTTTTTGCTT
* *
85229992 AATTTGGTACTTGAACTTGACATTTTTTTCCTAATTTGATACCTAAATTTTTTTT
1 AATTTGGTACTTGAACTTAACATCTTTTTCCTAATTTGATACCTAAATTTTTTTT
85230047 GGGCCCACTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 20 0.43
60 26 0.55
61 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (60 bp):
AATTTGGTACTTGAACTTAACATCTTTTTCCTAATTTGATACCTAAATTTTTTTTTGCTT
Found at i:85230047 original size:59 final size:59
Alignment explanation
Indices: 85229933--85230047 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 59
85229923 CTTAATATAA
* * * *
85229933 AATTTGGTATTTGAACTTAACACTTTTTCTTAATTTAGTATCTAATTTTTTTTTTGCTT
1 AATTTGGTACTTGAACTTAACACTTTTTCCTAATTTAGTACCTAATATTTTTTTTGCTT
* *
85229992 AATTTGGTACTTGAACTTGACATTTTTTTCCTAATTT-GATACCTAA-ATTTTTTTTG
1 AATTTGGTACTTGAACTTAACA-CTTTTTCCTAATTTAG-TACCTAATATTTTTTTTG
85230048 GGCCCACTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
59 30 0.62
60 18 0.38
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (59 bp):
AATTTGGTACTTGAACTTAACACTTTTTCCTAATTTAGTACCTAATATTTTTTTTGCTT
Found at i:85245945 original size:42 final size:42
Alignment explanation
Indices: 85245884--85245965 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
85245874 CGTGCAGGTG
*
85245884 ACACACGGCCAGACAACACGCCCATGAGGCTAGCCGTGTGTC
1 ACACACGGCCAGACAACACGCCCATGAGGCTACCCGTGTGTC
* *
85245926 ACACACGGCCTAGAC-ACACGCCCATGTGTCTACCCGTGTG
1 ACACACGGCC-AGACAACACGCCCATGAGGCTACCCGTGTG
85245966 GATAATATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (42 bp):
ACACACGGCCAGACAACACGCCCATGAGGCTACCCGTGTGTC
Found at i:85246909 original size:46 final size:47
Alignment explanation
Indices: 85246823--85247006 Score: 153
Period size: 46 Copynumber: 3.9 Consensus size: 47
85246813 TTATACTGAC
* * *
85246823 ACATCTCGTAGCCGGTGCATGTCCCAGACATGTCTGACACTGGCT-T
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTGACACTAGCTCT
85246869 ACATCTCGAAGCCGATGCATGTCCCAGACATGTCAT-ACACTAGCTCT
1 ACATCTCGAAGCCGATGCATGTCCCAGACATGTC-TGACACTAGCTCT
* * * * * *
85246916 -CAACTCCATGCCAATGCCATGTCCCAGACATGGTCTTACATTAGCTCT
1 ACATCTCGAAGCCGATG-CATGTCCCAGACAT-GTCTGACACTAGCTCT
* * ** * * *
85246964 -CGTAAT-GTGGCTGATCCATGTCCCAGACATGTCTTACACTAGC
1 ACAT-CTCGAAGCCGATGCATGTCCCAGACATGTCTGACACTAGC
85247007 ACACAAATGA
Statistics
Matches: 114, Mismatches: 18, Indels: 12
0.79 0.12 0.08
Matches are distributed among these distances:
46 64 0.56
47 31 0.27
48 18 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
ACATCTCGAAGCCGATGCATGTCCCAGACATGTCTGACACTAGCTCT
Done.