Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 58 of 349
Found at i:16809764 original size:22 final size:22
Alignment explanation
Indices: 16809717--16809813 Score: 108
Period size: 22 Copynumber: 4.3 Consensus size: 22
16809707 TGATTAATAA
*
16809717 TAAGCTCTAAT-GAGCTGGAACGG
1 TAAGCTCT-ATCGAGCT-GAACAG
16809740 TAAGCTCTATCGAGCTGAACAG
1 TAAGCTCTATCGAGCTGAACAG
* *
16809762 TAAGCTATATTGAGCTGAACAG
1 TAAGCTCTATCGAGCTGAACAG
*
16809784 TAAGCTC-ATACGAGCTGAAACAA
1 TAAGCTCTAT-CGAGCTG-AACAG
16809807 TAAGCTC
1 TAAGCTC
16809814 CAATTAGCTA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.03
22 39 0.60
23 24 0.37
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (22 bp):
TAAGCTCTATCGAGCTGAACAG
Found at i:16809776 original size:45 final size:45
Alignment explanation
Indices: 16809688--16809812 Score: 128
Period size: 45 Copynumber: 2.7 Consensus size: 45
16809678 GAACTATGAT
* * * *
16809688 CAGTAAGCTCCTCCTGAGCTGATTAATAATAAGCTCTAATGAGCTGGAA
1 CAGTAAGCTCATAC-GAGCTGA--AACAATAAGCTATAATGAGCT-GAA
* * *
16809737 CGGTAAGCTC-TATCGAGCTG-AACAGTAAGCTATATTGAGCTGAA
1 CAGTAAGCTCATA-CGAGCTGAAACAATAAGCTATAATGAGCTGAA
16809781 CAGTAAGCTCATACGAGCTGAAACAATAAGCT
1 CAGTAAGCTCATACGAGCTGAAACAATAAGCT
16809813 CCAATTAGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
44 19 0.29
45 29 0.45
48 7 0.11
49 10 0.15
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
CAGTAAGCTCATACGAGCTGAAACAATAAGCTATAATGAGCTGAA
Found at i:16811568 original size:31 final size:31
Alignment explanation
Indices: 16811533--16811594 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
16811523 AGACATGGCC
16811533 AATGACCAATTTACCAGCTGGTACATTCTCT
1 AATGACCAATTTACCAGCTGGTACATTCTCT
* *
16811564 AATGACTAATTTGCCAGCTGGTACATTCTCT
1 AATGACCAATTTACCAGCTGGTACATTCTCT
16811595 CGAACGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (31 bp):
AATGACCAATTTACCAGCTGGTACATTCTCT
Found at i:16812368 original size:21 final size:21
Alignment explanation
Indices: 16812316--16812373 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
16812306 AAGTTAAAAT
16812316 TAATAAGTCTTAATT-AATTAA
1 TAATAAG-CTTAATTAAATTAA
* *
16812337 -ACTAAACCTTAATTAAATTAA
1 TAAT-AAGCTTAATTAAATTAA
16812358 TAATAAGCTTAATTAA
1 TAATAAGCTTAATTAA
16812374 CATAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 9 0.30
21 19 0.63
22 2 0.07
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (21 bp):
TAATAAGCTTAATTAAATTAA
Found at i:16813743 original size:31 final size:31
Alignment explanation
Indices: 16813705--16813768 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
16813695 ACCAAGATGC
16813705 TAGCAACTTATCCTGTTGTTTATGTAGTACA
1 TAGCAACTTATCCTGTTGTTTATGTAGTACA
16813736 TAGCAACTTATCCTGTTGTTTATGTAGTACA
1 TAGCAACTTATCCTGTTGTTTATGTAGTACA
16813767 TA
1 TA
16813769 CTTAGGATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (31 bp):
TAGCAACTTATCCTGTTGTTTATGTAGTACA
Found at i:16817655 original size:69 final size:69
Alignment explanation
Indices: 16817544--16817682 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
16817534 CGGCTCCTGG
* * *
16817544 TAATCCACCTTTTTCCTTCACTCTGATATGCTTCATCAATCTTTGCC-GAGCCTTCATCACTGTG
1 TAATCCACCTCTTTCCTTCACTCTGATAGGCTTCATCAATCTTT-CCAGAGACTTCATCACTGTG
16817608 AAGGT
65 AAGGT
* * * *
16817613 TAATCCACCTCTTTCCTTCACTGTGATAGGCTTCATCGATCTTTCCAGAGACTTCTTCACTTTGA
1 TAATCCACCTCTTTCCTTCACTCTGATAGGCTTCATCAATCTTTCCAGAGACTTCATCACTGTGA
16817678 AGGT
66 AGGT
16817682 T
1 T
16817683 GCAGATCTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 2 0.03
69 60 0.97
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (69 bp):
TAATCCACCTCTTTCCTTCACTCTGATAGGCTTCATCAATCTTTCCAGAGACTTCATCACTGTGA
AGGT
Found at i:16817914 original size:7 final size:7
Alignment explanation
Indices: 16817899--16817972 Score: 64
Period size: 7 Copynumber: 10.6 Consensus size: 7
16817889 TAAAAAATTA
16817899 ATTTTTT
1 ATTTTTT
*
16817906 -TTATTT
1 ATTTTTT
16817912 -TTTTTT
1 ATTTTTT
16817918 ATTTTTT
1 ATTTTTT
16817925 A-TTTTT
1 ATTTTTT
* *
16817931 CTTTTTA
1 ATTTTTT
16817938 AGTTTTTT
1 A-TTTTTT
16817946 ATTTATTT
1 ATTT-TTT
*
16817954 ACTTTTTA
1 A-TTTTTT
16817962 ATTTTTT
1 ATTTTTT
16817969 ATTT
1 ATTT
16817973 GTCCTTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
6 15 0.28
7 23 0.43
8 13 0.24
9 3 0.06
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:16817958 original size:24 final size:21
Alignment explanation
Indices: 16817896--16817972 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 21
16817886 CATTAAAAAA
16817896 TTAATTTTTT-TTATTTT-TTT
1 TTAATTTTTTATT-TTTTCTTT
16817916 TT-ATTTTTTA-TTTTTCTTT
1 TTAATTTTTTATTTTTTCTTT
16817935 TTAAGTTTTTTATTTATTTACTTT
1 TTAA-TTTTTTATTT-TTT-CTTT
16817959 TTAATTTTTTATTT
1 TTAATTTTTTATTT
16817973 GTCCTTTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.08
19 13 0.26
20 3 0.06
21 7 0.14
22 2 0.04
23 13 0.26
24 8 0.16
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (21 bp):
TTAATTTTTTATTTTTTCTTT
Found at i:16817989 original size:43 final size:43
Alignment explanation
Indices: 16817899--16817996 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 43
16817889 TAAAAAATTA
* * * *
16817899 ATTTTTTTTATTTTTTTTTATTTTTTATTTTTCTTTTTAAGTT
1 ATTTTATTTATTTTTTTTAATTTTTTATTTGTCTCTTTAAGTT
*
16817942 -TTTTATTTATTTACTTTTTAATTTTTTATTTGTC-CTTT-ATTT
1 ATTTTATTTATTT--TTTTTAATTTTTTATTTGTCTCTTTAAGTT
16817984 ATTTTATTTATTT
1 ATTTTATTTATTT
16817997 GTTTATTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
42 14 0.30
43 15 0.32
44 18 0.38
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (43 bp):
ATTTTATTTATTTTTTTTAATTTTTTATTTGTCTCTTTAAGTT
Found at i:16818102 original size:21 final size:20
Alignment explanation
Indices: 16818076--16818122 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
16818066 AATTTTTTAA
16818076 ATTTTTTAAAATTTAAATATT
1 ATTTTTTAAAATTTAAATA-T
*
16818097 ATTTTTTAAATTTTAAATAT
1 ATTTTTTAAAATTTAAATAT
16818117 ATTTTT
1 ATTTTT
16818123 AAATAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTAAAATTTAAATAT
Found at i:16818416 original size:20 final size:21
Alignment explanation
Indices: 16818382--16818438 Score: 98
Period size: 20 Copynumber: 2.7 Consensus size: 21
16818372 GGCTTTTTTC
16818382 TAAAATATATATATTAAAAAAT
1 TAAAA-ATATATATTAAAAAAT
16818404 TAAAAAT-TATATTAAAAAAT
1 TAAAAATATATATTAAAAAAT
16818424 TAAAAATATATATTA
1 TAAAAATATATATTA
16818439 TAATTGGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.59
21 9 0.26
22 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATATATATTAAAAAAT
Found at i:16821571 original size:5 final size:5
Alignment explanation
Indices: 16821561--16821635 Score: 57
Period size: 5 Copynumber: 15.0 Consensus size: 5
16821551 TTTGTTTTAG
* * **
16821561 ATTTT ATTTT A-TTT ATTAT -TTTT ATTTG ATGGT -TTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
*
16821608 ATTTTT ATTTTT ATTTCT AGTTT ATTTT
1 A-TTTT A-TTTT ATTT-T ATTTT ATTTT
16821636 TGGAAGTTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
4 9 0.16
5 31 0.56
6 15 0.27
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:16821587 original size:6 final size:6
Alignment explanation
Indices: 16821562--16821636 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
16821552 TTGTTTTAGA
**
16821562 TTTTA- TTTTAT TTATTAT TTTTAT TTGATGGT TTTTA- TTTTA- TTTTAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TT--TTAT TTTTAT TTTTAT TTTTAT
* *
16821610 TTTTAT TTTTAT TTCTA- GTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
16821637 GGAAGTTACG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
5 18 0.32
6 28 0.50
7 6 0.11
8 4 0.07
ACGTcount: A:0.17, C:0.01, G:0.05, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:16823141 original size:92 final size:92
Alignment explanation
Indices: 16822884--16823151 Score: 340
Period size: 92 Copynumber: 2.9 Consensus size: 92
16822874 TTATTGATAA
** * * *
16822884 CAGTATAGCATATTACCGCATTGCACTGTACCGCATGTACGTTAGCTACGCTACGTACCATTAAC
1 CAGTATAGCGGATTACTGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
* *
16822949 GGAAT-TGGCAATCATACTAAAATCTAT
66 AG-ATCTGGCAGTCATACTAAAATCTAT
* * * ** *
16822976 CAGTATAGCGGATTACTGTATTACACTGTACCGCATGTATGTAAGTTACGCTATATACCGTTAAC
1 CAGTATAGCGGATTACTGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
* * *
16823041 AGAGCTGGCAGTCTTACTACAATCTAT
66 AGATCTGGCAGTCATACTAAAATCTAT
* *
16823068 CAGTATAGCGGATTACTGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCACTATC
1 CAGTATAGCGGATTACTGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
*
16823133 TGATCTGGCAGTTCATACT
66 AGATCTGGCAG-TCATACT
16823152 GCATGTCTGT
Statistics
Matches: 147, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
91 1 0.01
92 140 0.95
93 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (92 bp):
CAGTATAGCGGATTACTGTATTGCACTGTACCGCATGTATGTTAGCTACGCTACGTACCATTAAC
AGATCTGGCAGTCATACTAAAATCTAT
Found at i:16824497 original size:22 final size:23
Alignment explanation
Indices: 16824472--16824521 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
16824462 CCACCAAATA
**
16824472 AAATATTAATTTTTAAAAT-TTT
1 AAATATTAATTTAAAAAATATTT
16824494 AAATA-TAATTTAAAAAATATTT
1 AAATATTAATTTAAAAAATATTT
16824516 AAATAT
1 AAATAT
16824522 CTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATATTAATTTAAAAAATATTT
Found at i:16824504 original size:21 final size:22
Alignment explanation
Indices: 16824472--16824538 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
16824462 CCACCAAATA
**
16824472 AAATATTAATTTTTAAAAT-TTT
1 AAATA-TAATTTAAAAAATATTT
16824494 AAATATAATTTAAAAAATATTT
1 AAATATAATTTAAAAAATATTT
*
16824516 AAATAT-CTTT-AAAAATAATTT
1 AAATATAATTTAAAAAAT-ATTT
16824537 AA
1 AA
16824539 GAATTAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 6 0.15
21 20 0.50
22 14 0.35
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATATAATTTAAAAAATATTT
Found at i:16824579 original size:17 final size:18
Alignment explanation
Indices: 16824553--16824586 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16824543 TAATAATTAA
*
16824553 AAAAATATATTTGAAATT
1 AAAAATATATTTAAAATT
16824571 AAAAA-ATATTTAAAAT
1 AAAAATATATTTAAAAT
16824587 ATACACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAAATATATTTAAAATT
Found at i:16824693 original size:22 final size:22
Alignment explanation
Indices: 16824668--16824741 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
16824658 TTTTATAATA
16824668 TTAAATAATTTATATTT-AAAAT
1 TTAAA-AATTTATATTTAAAAAT
*
16824690 TTAAAAA-TAATATTATAAAACAT
1 TTAAAAATTTATATT-TAAAA-AT
* *
16824713 TT-AAAATATATATTTCAAAAT
1 TTAAAAATTTATATTTAAAAAT
16824734 TTATAAAA
1 TTA-AAAA
16824742 CTAATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 6 0.14
21 7 0.17
22 16 0.38
23 13 0.31
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAAAATTTATATTTAAAAAT
Found at i:16824717 original size:23 final size:21
Alignment explanation
Indices: 16824679--16824747 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 21
16824669 TAAATAATTT
16824679 ATATTT-AAAATTTAAAAATA
1 ATATTTAAAAATTTAAAAATA
16824699 ATATTATAAAACATTT-AAAATA
1 ATATT-TAAAA-ATTTAAAAATA
*
16824721 TATATTTCAAAATTTATAAAACTA
1 -ATATTTAAAAATTTA-AAAA-TA
16824745 ATA
1 ATA
16824748 ATAAACAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
20 5 0.12
21 5 0.12
22 13 0.32
23 16 0.39
24 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATTTAAAAATTTAAAAATA
Found at i:16824795 original size:4 final size:4
Alignment explanation
Indices: 16824747--16824780 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
16824737 TAAAACTAAT
*
16824747 AATA AACA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
16824781 GGACAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:16835727 original size:33 final size:33
Alignment explanation
Indices: 16835681--16835835 Score: 195
Period size: 33 Copynumber: 4.7 Consensus size: 33
16835671 TCCGAGTGGT
*
16835681 AAGTATACATTTCCTTTTCATATGATATACACA
1 AAGTATACATTTCCTTTTCAAATGATATACACA
* * *
16835714 AAGTATACCTTTCCTTTTCATATGGTATACACA
1 AAGTATACATTTCCTTTTCAAATGATATACACA
**
16835747 AAGTATACATTTCCTTTTCAAATGGCATACACA
1 AAGTATACATTTCCTTTTCAAATGATATACACA
** *
16835780 AAGTATACATAACATTTTCAAAT-AGTATACACA
1 AAGTATACATTTCCTTTTCAAATGA-TATACACA
* *
16835813 AAGTATACCTTTCCTTTGCAAAT
1 AAGTATACATTTCCTTTTCAAAT
16835836 TCGATAGCCG
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
33 106 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (33 bp):
AAGTATACATTTCCTTTTCAAATGATATACACA
Found at i:16835867 original size:29 final size:29
Alignment explanation
Indices: 16835825--16835920 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
16835815 GTATACCTTT
* *
16835825 CCTTTGCAAATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
16835854 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
16835883 CATTTTCACATTTGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
16835912 CCTATTCAC
1 CCTTTTCAC
16835921 TGATCAGGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:16835951 original size:31 final size:31
Alignment explanation
Indices: 16835840--16836106 Score: 305
Period size: 31 Copynumber: 8.7 Consensus size: 31
16835830 GCAAATTCGA
* *
16835840 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGG
** *
16835869 TAGCCGAAGCTATCCA-TTTTCAC--ATTTGA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGG
* *
16835898 TAGCCGAAGCTATCC-CTATTCACTGATCAGG
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGG
**
16835929 TAGCTAAAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
16835960 TAGCCGAAGCTACTACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
** *
16835991 TAGCCGAAGCTACCGTTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
16836022 TAGCCGAAGCTACTACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
**
16836053 TAGCCGAAGCTACCACTTTTCACTGGTCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
16836084 TAGCTGAAGCTACCACTTTTCAC
1 TAGCCGAAGCTACCACTTTTCAC
16836107 ATTGTACACA
Statistics
Matches: 207, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
28 1 0.00
29 45 0.22
30 2 0.01
31 159 0.77
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTAATCAGG
Found at i:16837733 original size:22 final size:22
Alignment explanation
Indices: 16837708--16837757 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
16837698 GGGGTGGGTC
*
16837708 TTGTATATGTGGATGAAGTGAT
1 TTGTATATGTGGAGGAAGTGAT
16837730 TTGTATATGTGGAGGAAGTGAT
1 TTGTATATGTGGAGGAAGTGAT
*
16837752 ATGTAT
1 TTGTAT
16837758 GTGTCGCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (22 bp):
TTGTATATGTGGAGGAAGTGAT
Found at i:16840959 original size:17 final size:19
Alignment explanation
Indices: 16840937--16840979 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
16840927 TGGAAGCTTT
*
16840937 GGAAAAC-ATTT-ATTTTA
1 GGAAAACTATTTGATCTTA
16840954 GGAAAACTATTTGATCTTA
1 GGAAAACTATTTGATCTTA
16840973 GTGAAAA
1 G-GAAAA
16840980 TCGAGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 6 0.27
20 5 0.23
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (19 bp):
GGAAAACTATTTGATCTTA
Found at i:16844599 original size:139 final size:137
Alignment explanation
Indices: 16844357--16844778 Score: 444
Period size: 139 Copynumber: 3.0 Consensus size: 137
16844347 GTGCTTTTAG
* * * * * *
16844357 CCTTGAGTCCCGAGTTTAGTTTCTT-TCCTACTCACATATGTATTTTTTTCGTTTTATGTTGCTT
1 CCTTGAGTCTCAAGTTT-GATTCTTCTCCTACTCACATTTGTA--TTTTT-ATTTCATGTTGCTT
* * * *
16844421 CAAGCTTTTTAAAATTTTAATTCATTTTATTTAACATATTAATTTTTTGTTAGATAGTTAGATAG
62 CAAGCTTTTTAAATTTTTAATTAATATT-TTTAACATATTAATTTTTTGTTAGATGGTTAGATAG
*
16844486 TTGCAATTATAT
126 TTGCAATTACAT
* *
16844498 CCTTGAGTCTTGAA-TTTGATTCTTCTCCTACTCACATTTGTAATTTTTATTTCATTTTGCTTCA
1 CCTTGAGTC-TCAAGTTTGATTCTTCTCCTACTCACATTTGT-ATTTTTATTTCATGTTGCTTCA
* *
16844562 AGCTTTTTAAATTTTTAATTAATATTTTCTAACATATTAGTTCTTTTGTTAGATGGTTAAATAGT
64 AGCTTTTTAAATTTTTAATTAATATTTT-TAACATATTAATT-TTTTGTTAGATGGTTAGATAGT
* *
16844627 TGTATTTACAT
127 TGCAATTACAT
* * * * *
16844638 CATTGAGTCTCAAGTTTGATTCCTCTACTATTCACATTTTGT-TTTTTATTTCGTGTTGCTTCAA
1 CCTTGAGTCTCAAGTTTGATTCTTCTCCTACTCACA-TTTGTATTTTTATTTCATGTTGCTTCAA
* * *
16844702 GC-CTTT---TTTTTAATTAATATTTTTAACATATTAACTCCTTTTGTTAGATGGTTAGATAATT
65 GCTTTTTAAATTTTTAATTAATATTTTTAACATATTAA-T-TTTTTGTTAGATGGTTAGATAGTT
* *
16844763 ACGATTACAT
128 GCAATTACAT
16844773 CCTTGA
1 CCTTGA
16844779 ATTTGAGGTT
Statistics
Matches: 238, Mismatches: 34, Indels: 24
0.80 0.11 0.08
Matches are distributed among these distances:
134 10 0.04
135 50 0.21
138 5 0.02
139 73 0.31
140 66 0.28
141 32 0.13
142 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.51
Consensus pattern (137 bp):
CCTTGAGTCTCAAGTTTGATTCTTCTCCTACTCACATTTGTATTTTTATTTCATGTTGCTTCAAG
CTTTTTAAATTTTTAATTAATATTTTTAACATATTAATTTTTTGTTAGATGGTTAGATAGTTGCA
ATTACAT
Found at i:16844907 original size:21 final size:21
Alignment explanation
Indices: 16844844--16844921 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
16844834 TTTCAAGATT
16844844 TTTTTATTTTTAATTAATGT-
1 TTTTTATTTTTAATTAATGTA
* * **
16844864 TTTGATGATGTTT--TTAAACTA
1 TTT--TTATTTTTAATTAATGTA
16844885 TTTTTATTTTTAATTAATGTA
1 TTTTTATTTTTAATTAATGTA
16844906 TTTTTATTTTTAATTA
1 TTTTTATTTTTAATTA
16844922 TTTTTATAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
19 6 0.13
20 8 0.18
21 25 0.56
22 6 0.13
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTATTTTTAATTAATGTA
Found at i:16845013 original size:22 final size:22
Alignment explanation
Indices: 16844987--16845032 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16844977 TTGATTTTAT
*
16844987 AAATAAAAGAGTTAAAAATAAA
1 AAATAAAAGAATTAAAAATAAA
* **
16845009 AAATACATTAATTAAAAATAAA
1 AAATAAAAGAATTAAAAATAAA
16845031 AA
1 AA
16845033 TAATTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAAAAGAATTAAAAATAAA
Found at i:16846500 original size:22 final size:21
Alignment explanation
Indices: 16846419--16846522 Score: 65
Period size: 22 Copynumber: 4.9 Consensus size: 21
16846409 TTCTTTTACA
*
16846419 TTTTT-TTATTTTATTATTAACT
1 TTTTTCTTATTTTATT-TT-ATT
* * *
16846441 TTTGTC-T-TTTTCTTTAATT
1 TTTTTCTTATTTTATTTTATT
16846460 TTTTTCTT-TTTTAAGTTTTATAT
1 TTTTTCTTATTTT-A-TTTTAT-T
*
16846483 TTTTTCTTATTTTATTTTGTT
1 TTTTTCTTATTTTATTTTATT
16846504 TATTTAT-TTATTTTATTTT
1 T-TTT-TCTTATTTTATTTT
16846523 TTGTTATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
19 7 0.11
20 6 0.09
21 8 0.12
22 30 0.45
23 11 0.17
24 4 0.06
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (21 bp):
TTTTTCTTATTTTATTTTATT
Found at i:16846609 original size:32 final size:34
Alignment explanation
Indices: 16846564--16846629 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 34
16846554 TTATAATATA
16846564 TATTTTTTAAAATTTTAAATATTA-TTTTTAAAT
1 TATTTTTTAAAATTTTAAATATTATTTTTTAAAT
16846597 TATTTTTT-AAATTTTAAATATTATTTTTTAAAT
1 TATTTTTTAAAATTTTAAATATTATTTTTTAAAT
16846630 ATTAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (34 bp):
TATTTTTTAAAATTTTAAATATTATTTTTTAAAT
Found at i:16846621 original size:21 final size:21
Alignment explanation
Indices: 16846587--16846646 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
16846577 TTTAAATATT
*
16846587 ATTTTTAA-ATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
16846607 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
*
16846628 ATATTAAATATGTATTTTT
1 ATTTTAAATAT-TATTTTT
16846647 AATAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.19
21 22 0.61
22 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:16846627 original size:14 final size:14
Alignment explanation
Indices: 16846576--16846633 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
16846566 TTTTTTAAAA
16846576 TTTTAAATATTA-T
1 TTTTAAATATTATT
*
16846589 TTTTAAATTATTTTTT
1 TTTTAAA-TA-TTATT
16846605 AAATTTTAAATATTATT
1 ---TTTTAAATATTATT
16846622 TTTTAAATATTA
1 TTTTAAATATTA
16846634 AATATGTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 7 0.19
14 14 0.38
15 2 0.05
16 1 0.03
17 4 0.11
18 2 0.05
19 7 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:16846653 original size:23 final size:21
Alignment explanation
Indices: 16846595--16846662 Score: 91
Period size: 21 Copynumber: 3.1 Consensus size: 21
16846585 TTATTTTTAA
*
16846595 ATTATTTTTTAAATTTTAAAT
1 ATTATTTTTTAAATATTAAAT
16846616 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
* *
16846637 ATGTATTTTTAATAATATAAAAT
1 AT-TATTTTTTA-AATATTAAAT
16846660 ATT
1 ATT
16846663 TAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 22 0.52
22 9 0.21
23 11 0.26
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:16846746 original size:14 final size:14
Alignment explanation
Indices: 16846729--16846794 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
16846719 ATATTATTTA
*
16846729 ATTTAATTTATAAT
1 ATTTAAATTATAAT
*
16846743 ATTTTAAATTATGAT
1 A-TTTAAATTATAAT
*
16846758 TTTTAAATTATATAT
1 ATTTAAATTATA-AT
* **
16846773 ATTGAAAAAATATAT
1 ATTTAAATTATA-AT
16846788 ATTTAAA
1 ATTTAAA
16846795 ATTTAAAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
14 11 0.27
15 30 0.73
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
ATTTAAATTATAAT
Found at i:16846754 original size:15 final size:15
Alignment explanation
Indices: 16846708--16846775 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
16846698 ATTAGTTTTT
16846708 TAATATTTTAAA-TA
1 TAATATTTTAAATTA
* * *
16846722 TTATTTAATTTAATTTA
1 -TA-ATATTTTAAATTA
16846739 TAATATTTTAAATTA
1 TAATATTTTAAATTA
*
16846754 TGAT-TTTTAAATTA
1 TAATATTTTAAATTA
16846768 TATATATT
1 TA-ATATT
16846776 GAAAAAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 11 0.27
15 17 0.41
16 11 0.27
17 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (15 bp):
TAATATTTTAAATTA
Found at i:16846762 original size:29 final size:30
Alignment explanation
Indices: 16846708--16846775 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
16846698 ATTAGTTTTT
* *
16846708 TAATATTTTAAATATTATTTAATTTAATTTA
1 TAATATTTTAAATATGATTT-ATTTAAATTA
16846739 TAATATTTTAAATTATGA-TT-TTTAAATTA
1 TAATATTTTAAA-TATGATTTATTTAAATTA
16846768 TATATATT
1 TA-ATATT
16846776 GAAAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 10 0.30
30 5 0.15
31 14 0.42
32 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TAATATTTTAAATATGATTTATTTAAATTA
Found at i:16846885 original size:18 final size:17
Alignment explanation
Indices: 16846856--16846892 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
16846846 TAAAATTAAT
16846856 AATAAAAAATAAAAATA
1 AATAAAAAATAAAAATA
*
16846873 AATAAATAAATAAAGATA
1 AATAAA-AAATAAAAATA
16846891 AA
1 AA
16846893 GACATGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AATAAAAAATAAAAATA
Found at i:16847177 original size:22 final size:22
Alignment explanation
Indices: 16847152--16847216 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 22
16847142 TTTTTAAATG
16847152 TTTAAATATTATTAAAAATATA
1 TTTAAATATTATTAAAAATATA
*
16847174 TTT-AATA-T-TTAAGAATAATA
1 TTTAAATATTATTAAAAAT-ATA
* *
16847194 TTTAAATTTTA-AAAAAATA-A
1 TTTAAATATTATTAAAAATATA
16847214 TTT
1 TTT
16847217 CAAAAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
19 7 0.20
20 11 0.31
21 8 0.23
22 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTAAATATTATTAAAAATATA
Found at i:16847372 original size:10 final size:9
Alignment explanation
Indices: 16847359--16847445 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
16847349 TTTTAAAATT
16847359 AATAACAAAA
1 AATAA-AAAA
*
16847369 AATAAATAA
1 AATAAAAAA
16847378 AATAAATAAA
1 AATAAA-AAA
* *
16847388 CA-AAATAA
1 AATAAAAAA
16847396 AATAAGAAAA
1 AATAA-AAAA
*
16847406 AATATAAAA
1 AATAAAAAA
**
16847415 CTTAAAAAA
1 AATAAAAAA
**
16847424 AGGAAAAAA
1 AATAAAAAA
16847433 AATTAAAGAAA
1 AA-TAAA-AAA
16847444 AA
1 AA
16847446 GACAAAAGTT
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
8 3 0.05
9 31 0.54
10 18 0.32
11 5 0.09
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (9 bp):
AATAAAAAA
Found at i:16847381 original size:9 final size:9
Alignment explanation
Indices: 16847367--16847400 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
16847357 TTAATAACAA
16847367 AAAATAAAT
1 AAAATAAAT
16847376 AAAATAAAT
1 AAAATAAAT
16847385 AAACA-AAAT
1 AAA-ATAAAT
16847394 AAAATAA
1 AAAATAA
16847401 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:16847384 original size:13 final size:13
Alignment explanation
Indices: 16847354--16847396 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
16847344 AAATTTTTTA
* *
16847354 AAATTAATAACAAA
1 AAATAAATAA-AAT
16847368 AAATAAATAAAAT
1 AAATAAATAAAAT
*
16847381 AAATAAACAAAAT
1 AAATAAATAAAAT
16847394 AAA
1 AAA
16847397 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:16847398 original size:23 final size:24
Alignment explanation
Indices: 16847352--16847409 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
16847342 TCAAATTTTT
*
16847352 TAAAATTAAT-AACAAAAAATAAA
1 TAAAATAAATAAACAAAAAATAAA
*
16847375 TAAAATAAATAAACAAAATA-AAA
1 TAAAATAAATAAACAAAAAATAAA
*
16847398 TAAGAAAAAATA
1 TAA-AATAAATA
16847410 TAAAACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATAAATAAACAAAAAATAAA
Found at i:16847693 original size:14 final size:15
Alignment explanation
Indices: 16847674--16847706 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
16847664 ATCTTTAAAA
16847674 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
16847688 ATAATTTAAAATATT
1 ATAATTTAAAATATT
16847703 ATAA
1 ATAA
16847707 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:16847790 original size:25 final size:25
Alignment explanation
Indices: 16847762--16847884 Score: 71
Period size: 23 Copynumber: 5.0 Consensus size: 25
16847752 TTGAAAGGTC
16847762 ATATTTTAAAATATTTAAATATTTT
1 ATATTTTAAAATATTTAAATATTTT
* *
16847787 ATATTATTAAAA-A--TATATATTTA
1 ATATT-TTAAAATATTTAAATATTTT
* * *
16847810 ATATTTAAAAAATAATTTAAA-A-ATA
1 ATATTT-TAAAAT-ATTTAAATATTTT
* *
16847835 ATA-TTTAAAAT-TTTAAAAAATTT
1 ATATTTTAAAATATTTAAATATTTT
* * *
16847858 ATATTATAAAACATTTCAAATTTTTT
1 ATATTTTAAAATATTT-AAATATTTT
16847884 A
1 A
16847885 AAATTAATAA
Statistics
Matches: 74, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
21 6 0.08
22 2 0.03
23 26 0.35
24 8 0.11
25 15 0.20
26 14 0.19
27 3 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTTAAAATATTTAAATATTTT
Found at i:16847833 original size:33 final size:33
Alignment explanation
Indices: 16847793--16847855 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
16847783 TTTTATATTA
*
16847793 TTAAAAATATATATTTAATA-TTTAAAAAATAAT
1 TTAAAAATA-ATATTTAAAATTTTAAAAAATAAT
16847826 TTAAAAATAATATTTAAAATTTTAAAAAAT
1 TTAAAAATAATATTTAAAATTTTAAAAAAT
16847856 TTATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TTAAAAATAATATTTAAAATTTTAAAAAATAAT
Found at i:16847912 original size:13 final size:13
Alignment explanation
Indices: 16847884--16847944 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
16847874 CAAATTTTTT
*
16847884 AAAATTAATAACAA
1 AAAATAAATAA-AA
16847898 AAAATAAATAAAA
1 AAAATAAATAAAA
*
16847911 AAAATAAACAAAA
1 AAAATAAATAAAA
*
16847924 TAAAAT-AAGAAAA
1 -AAAATAAATAAAA
*
16847937 AATATAAA
1 AAAATAAA
16847945 ACTTAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 4 0.10
13 22 0.54
14 15 0.37
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:16847945 original size:22 final size:21
Alignment explanation
Indices: 16847898--16847966 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 21
16847888 TTAATAACAA
*
16847898 AAAATAAATAA-AAAAAATAAAC
1 AAAATAAATAAGAAAAAAT--AT
16847920 AAAATAAAATAAGAAAAAATAT
1 AAAAT-AAATAAGAAAAAATAT
16847942 AAAACTTAAA-AAGTAAAAAAT-T
1 AAAA--TAAATAAG-AAAAAATAT
16847964 AAA
1 AAA
16847967 GAAAAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
22 17 0.41
23 16 0.39
24 8 0.20
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (21 bp):
AAAATAAATAAGAAAAAATAT
Found at i:16848766 original size:23 final size:23
Alignment explanation
Indices: 16848740--16848789 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
16848730 ATTTATTTCT
*
16848740 TTTTGAATAATTTGATATATATA
1 TTTTGAATAATTTAATATATATA
** **
16848763 TTTTTTATTTTTTAATATATATA
1 TTTTGAATAATTTAATATATATA
16848786 TTTT
1 TTTT
16848790 TGTTTATTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTGAATAATTTAATATATATA
Found at i:16848782 original size:21 final size:22
Alignment explanation
Indices: 16848756--16848841 Score: 74
Period size: 22 Copynumber: 4.0 Consensus size: 22
16848746 ATAATTTGAT
16848756 ATATATATTTTT-TATTTTTTA
1 ATATATATTTTTATATTTTTTA
*
16848777 ATATATATATTTT-TGTTTATTT-
1 ATATATAT-TTTTATATTT-TTTA
* *
16848799 ATTTATACTTTTTAGATTTTTTA
1 ATATATA-TTTTTATATTTTTTA
*
16848822 A-AT-TATTTTTATAATTTTTA
1 ATATATATTTTTATATTTTTTA
16848842 TCTAAAAGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 13 0.25
21 10 0.19
22 22 0.42
23 8 0.15
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (22 bp):
ATATATATTTTTATATTTTTTA
Found at i:16848799 original size:23 final size:23
Alignment explanation
Indices: 16848749--16848799 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
16848739 TTTTTGAATA
*
16848749 ATTTGATATATATATTTTTTATT
1 ATTTAATATATATATTTTTTATT
*
16848772 TTTTAATATATATATTTTTGT-TT
1 ATTTAATATATATATTTTT-TATT
16848795 ATTTA
1 ATTTA
16848800 TTTATACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
ATTTAATATATATATTTTTTATT
Found at i:16851737 original size:15 final size:15
Alignment explanation
Indices: 16851719--16851750 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16851709 CATTTTATTA
*
16851719 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
16851734 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
16851749 TT
1 TT
16851751 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:16853461 original size:21 final size:21
Alignment explanation
Indices: 16853368--16853494 Score: 94
Period size: 21 Copynumber: 6.0 Consensus size: 21
16853358 TTTAACTCTC
* * * *
16853368 ATGAGCTTCTGTTTAACTCAT
1 ATGAGTTTCTGTTCAACCCTT
* *
16853389 ATGAGTTTCCGTTCAACCCTA
1 ATGAGTTTCTGTTCAACCCTT
* * * *
16853410 ATGGGTTTCTGTACAGCTC-T
1 ATGAGTTTCTGTTCAACCCTT
*
16853430 ATTGAGCTTCTGTTCAACCCTT
1 A-TGAGTTTCTGTTCAACCCTT
* * *
16853452 ATGGGTTTCTGTTCAGCTCTT
1 ATGAGTTTCTGTTCAACCCTT
* *
16853473 ATGAGCTTCCGTTCAACCCTT
1 ATGAGTTTCTGTTCAACCCTT
16853494 A
1 A
16853495 CAGGTTTCTG
Statistics
Matches: 78, Mismatches: 26, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
20 1 0.01
21 75 0.96
22 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (21 bp):
ATGAGTTTCTGTTCAACCCTT
Found at i:16853516 original size:42 final size:42
Alignment explanation
Indices: 16853374--16853517 Score: 173
Period size: 42 Copynumber: 3.4 Consensus size: 42
16853364 TCTCATGAGC
* * * * *
16853374 TTCTGTTTAACTCATATGAGTTTCCGTTCAACCCTAATGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
* *
16853416 TTCTGTACAGCTC-TATTGAGCTTCTGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTA-TGAGCTTCCGTTCAACCCTTATGGGT
**
16853458 TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTACAGGT
1 TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
* *
16853500 TTCTGTTTAGCACTTATG
1 TTCTGTTCAGCTCTTATG
16853518 TGTTTTTATT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.02
42 84 0.95
43 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (42 bp):
TTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
Found at i:16855866 original size:48 final size:48
Alignment explanation
Indices: 16855808--16855904 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
16855798 ATTCTAAAAA
*
16855808 TAATATTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
1 TAATAGTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
* * **
16855856 TAATAGTATTTTATTAGTTTGATATTAAATTTAATTTAATGTTTATCT
1 TAATAGTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
16855904 T
1 T
16855905 GTAGATAAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (48 bp):
TAATAGTATTTTAATAGTTTAATATTAAATTTAATTTAATACTTATCT
Found at i:16866069 original size:18 final size:19
Alignment explanation
Indices: 16866048--16866096 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
16866038 TATTATTTTT
16866048 AAAAA-TATAAAATA-ATA
1 AAAAATTATAAAATATATA
16866065 AAAAATTATAAAA-ATATA
1 AAAAATTATAAAATATATA
*
16866083 AAGAATTATAAAAT
1 AAAAATTATAAAAT
16866097 TTTATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAATTATAAAATATATA
Found at i:16866105 original size:26 final size:26
Alignment explanation
Indices: 16866044--16866108 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
16866034 TGTATATTAT
16866044 TTTTAAAAATATAAAATAATAAAAAA
1 TTTTAAAAATATAAAATAATAAAAAA
* * *
16866070 TTATAAAAATATAAAGA-ATTATAAAA
1 TTTTAAAAATATAAA-ATAATAAAAAA
*
16866096 TTTTATAAATATA
1 TTTTAAAAATATA
16866109 TTACCATTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
TTTTAAAAATATAAAATAATAAAAAA
Found at i:16875870 original size:25 final size:25
Alignment explanation
Indices: 16875842--16875906 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
16875832 CACACCACAA
16875842 CTCGCATGAGCTTCCCGTTATTCAG
1 CTCGCATGAGCTTCCCGTTATTCAG
* *
16875867 CTCGCATGAACTTCCCGTTATTTAG
1 CTCGCATGAGCTTCCCGTTATTCAG
*
16875892 CTCACATGAGCTTCC
1 CTCGCATGAGCTTCC
16875907 TATTTACAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.32
Consensus pattern (25 bp):
CTCGCATGAGCTTCCCGTTATTCAG
Found at i:16879391 original size:16 final size:14
Alignment explanation
Indices: 16879367--16879403 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
16879357 AAAACAAGAA
16879367 AAAGAAATAGAGAAG
1 AAAGAAATAGA-AAG
16879382 AAACGAAATAGAAAG
1 AAA-GAAATAGAAAG
16879397 AAAGAAA
1 AAAGAAA
16879404 GAAGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 8 0.38
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.05
Consensus pattern (14 bp):
AAAGAAATAGAAAG
Found at i:16879429 original size:26 final size:26
Alignment explanation
Indices: 16879367--16879419 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
16879357 AAAACAAGAA
* * *
16879367 AAAGAAATAGAGAAGAAACGAAATAG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
16879393 AAAGAAAGAAAGAAGAAAAGAAA-AG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
16879418 AA
1 AA
16879420 GAAGGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.04
Consensus pattern (26 bp):
AAAGAAAGAAAGAAGAAAAGAAATAG
Found at i:16881402 original size:39 final size:39
Alignment explanation
Indices: 16881368--16881558 Score: 256
Period size: 39 Copynumber: 4.9 Consensus size: 39
16881358 AGATATAGTA
* * * *
16881368 CCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTA
1 CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
16881407 CCAGCACGAAGCCTGCGGATCTTAAGTCTGGATACAATT
1 CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * *
16881446 CCAGCACGAAGCCTGCGAGTCTTTAAGCCCGGATACAATT
1 CCAGAACGAAGCCTGCG-GACCTTAAGTCCGGATACAATT
*
16881486 CCAGAATGAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
16881525 CCAGAACGAAGCCTACGGACCTTAAGTCCGGATA
1 CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATA
16881559 TACATCAAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 101 0.76
40 32 0.24
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:16881479 original size:79 final size:78
Alignment explanation
Indices: 16881368--16881560 Score: 260
Period size: 79 Copynumber: 2.5 Consensus size: 78
16881358 AGATATAGTA
* * * *
16881368 CCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGCACGAAGCCTGCGGATCTTAAG
1 CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGAACGAAGCCTGCGGACCTTAAG
*
16881433 TCTGGATACAATT
66 TCCGGATACAATT
* * * * * * *
16881446 CCAGCACGAAGCCTGCGAGTCTTTAAGCCCGGATACAATTCCAGAATGAAGCCTGCGGACCTTAA
1 CCAGAACGAAGCCTGCG-GACCTTAAGTCCGGATATAATACCAGAACGAAGCCTGCGGACCTTAA
16881511 GTCCGGATACAATT
65 GTCCGGATACAATT
*
16881525 CCAGAACGAAGCCTACGGACCTTAAGTCCGGATATA
1 CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATATA
16881561 CATCAAATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
78 31 0.32
79 66 0.68
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (78 bp):
CCAGAACGAAGCCTGCGGACCTTAAGTCCGGATATAATACCAGAACGAAGCCTGCGGACCTTAAG
TCCGGATACAATT
Found at i:16881549 original size:118 final size:118
Alignment explanation
Indices: 16881336--16881558 Score: 311
Period size: 118 Copynumber: 1.9 Consensus size: 118
16881326 CACCAACACA
* * *
16881336 AAGCCTACGAGACTTTAAGCCCAGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTACGAGACTTTAAGCCCAGATACAATACCAGAACGAAGCCTGCGGACCTTAAGTCCGGAT
* * * * * *
16881401 ATAGTACCAGCACGAAGCCTGCGGATCTTAAGTCTGGATACAATTCCAGCACG
66 ACAATACCAGAACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * * *
16881454 AAGCCTGCGAGTCTTTAAGCCCGGATACAATTCCAGAATGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTACGAGACTTTAAGCCCAGATACAATACCAGAACGAAGCCTGCGGACCTTAAGTCCGGAT
*
16881519 ACAATTCCAGAACGAAGCCTACGGACCTTAAGTCCGGATA
66 ACAATACCAGAACGAAGCCTACGGACCTTAAGTCCGGATA
16881559 TACATCAAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
118 90 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (118 bp):
AAGCCTACGAGACTTTAAGCCCAGATACAATACCAGAACGAAGCCTGCGGACCTTAAGTCCGGAT
ACAATACCAGAACGAAGCCTACGGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:16882299 original size:24 final size:24
Alignment explanation
Indices: 16882287--16882378 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
16882277 TTGACATTCC
16882287 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
16882311 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* *
16882335 AATTCGCACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
16882359 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
16882379 AAATCATTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.20
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:16882348 original size:72 final size:72
Alignment explanation
Indices: 16882242--16882378 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
16882232 CCATGTTAAC
* ** * * *
16882242 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
16882307 TACAAAT
66 TACAAAT
* * *
16882314 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
16882379 AAATCATTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:16882376 original size:48 final size:48
Alignment explanation
Indices: 16882242--16882378 Score: 161
Period size: 48 Copynumber: 2.9 Consensus size: 48
16882232 CCATGTTAAC
* * * * * *
16882242 CCGCACACATAGTGCC-TT-AGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATTCA--AATTCGCACACATAGTGCCATACAAAT
* *
16882290 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCATACAAAT
*
16882338 TCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
16882379 AAATCATTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 74 0.97
49 1 0.01
50 1 0.01
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (48 bp):
CCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCATACAAAT
Found at i:16883576 original size:17 final size:17
Alignment explanation
Indices: 16883554--16883587 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16883544 CCCCACTTAA
16883554 TATATTATAACATATTT
1 TATATTATAACATATTT
16883571 TATATTATAACATATTT
1 TATATTATAACATATTT
16883588 CAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:16884817 original size:6 final size:6
Alignment explanation
Indices: 16884803--16884836 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
16884793 TTAGCATCAC
* *
16884803 ATATAT ATATGT ATATGT ATATAT ATATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
16884837 ATTTGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:16887351 original size:40 final size:39
Alignment explanation
Indices: 16887306--16887530 Score: 155
Period size: 39 Copynumber: 5.7 Consensus size: 39
16887296 CACTAACACA
* *
16887306 AAGCCTACGAGACTTTAAGCCCAGATATAGTACCAGTACG
1 AAGCCTACG-GACCTTAAGCCCAGATATAGTACCAGCACG
* * *
16887346 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGCACG
1 AAGCCTACGGACCTTAAGCCCAGATATAGTACCAGCACG
* * * * * * *
16887385 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTACGGACCTTAAGCCCAGATATAGTACCAGCACG
* * * * * * *
16887424 AAGCCTGCGGGTCTTTAAGCCC-GAATACAATTCCAGCATG
1 AAGCCTAC-GGACCTTAAGCCCAG-ATATAGTACCAGCACG
* * * * * * *
16887464 AAGCCTGCGGGCCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTACGGACCTTAAGCCCAGATATAGTACCAGCACG
* * *
16887503 AAGCCTGCGGACCTTAAGTCCGGATATA
1 AAGCCTACGGACCTTAAGCCCAGATATA
16887531 CATCAAATAT
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 121 0.75
40 41 0.25
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
AAGCCTACGGACCTTAAGCCCAGATATAGTACCAGCACG
Found at i:16887372 original size:39 final size:39
Alignment explanation
Indices: 16887338--16887528 Score: 274
Period size: 39 Copynumber: 4.9 Consensus size: 39
16887328 AGATATAGTA
* * * *
16887338 CCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
16887377 CCAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * *
16887416 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* *
16887456 CCAGCATGAAGCCTGCGGGCCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
16887495 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
16887529 TACATCAAAT
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 101 0.75
40 33 0.25
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:16888269 original size:24 final size:24
Alignment explanation
Indices: 16888257--16888348 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
16888247 TTGACATTCC
16888257 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
16888281 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* *
16888305 AATTCGCACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
16888329 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
16888349 AAATCATTTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.20
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:16888318 original size:72 final size:72
Alignment explanation
Indices: 16888212--16888348 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
16888202 CCATGTTAAC
* ** * * *
16888212 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
16888277 TACAAAT
66 TACAAAT
* * *
16888284 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
16888349 AAATCATTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:16888346 original size:48 final size:48
Alignment explanation
Indices: 16888212--16888348 Score: 161
Period size: 48 Copynumber: 2.9 Consensus size: 48
16888202 CCATGTTAAC
* * * * * *
16888212 CCGCACACATAGTGCC-TT-AGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATTCA--AATTCGCACACATAGTGCCATACAAAT
* *
16888260 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCATACAAAT
*
16888308 TCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
16888349 AAATCATTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 74 0.97
49 1 0.01
50 1 0.01
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (48 bp):
CCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCATACAAAT
Found at i:16889546 original size:17 final size:17
Alignment explanation
Indices: 16889524--16889557 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16889514 CCCCATTTAA
16889524 TATATTATAACATATTT
1 TATATTATAACATATTT
16889541 TATATTATAACATATTT
1 TATATTATAACATATTT
16889558 CAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:16895852 original size:25 final size:25
Alignment explanation
Indices: 16895815--16895882 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
16895805 GGACACACCA
16895815 CAACTCGTATGAGCTTCCAGTTATT
1 CAACTCGTATGAGCTTCCAGTTATT
* * * *
16895840 GAGCTCGCATGAGCTTCCTGTTATT
1 CAACTCGTATGAGCTTCCAGTTATT
*
16895865 CAACTCATATGAGCTTCC
1 CAACTCGTATGAGCTTCC
16895883 CATTTACAGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (25 bp):
CAACTCGTATGAGCTTCCAGTTATT
Found at i:16900190 original size:11 final size:10
Alignment explanation
Indices: 16900155--16900202 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
16900145 TCAATTTAAT
16900155 TAAATAAATTA
1 TAAA-AAATTA
*
16900166 CAAAAAATTA
1 TAAAAAATTA
16900176 TAAAAAATTA
1 TAAAAAATTA
*
16900186 TTAAAAA-TA
1 TAAAAAATTA
*
16900195 GAAAAAAT
1 TAAAAAAT
16900203 AATTTCAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 7 0.23
10 21 0.68
11 3 0.10
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:16901056 original size:31 final size:29
Alignment explanation
Indices: 16901029--16901107 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
16901019 ATTTTTTAAA
*
16901029 AATTTTAAAATATTAAAAATATGTTTTTTAT
1 AATTTTAAAAT-TTAAAAATAT-CTTTTTAT
* *
16901060 AATTTTAATGATTTTAAAATATCTTTTTAT
1 AATTTTAA-AATTTAAAAATATCTTTTTAT
*
16901090 AATTTTTAAATTTAAAAA
1 AATTTTAAAATTTAAAAA
16901108 ATTAATTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 8 0.20
30 14 0.34
31 17 0.41
32 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (29 bp):
AATTTTAAAATTTAAAAATATCTTTTTAT
Found at i:16905183 original size:20 final size:20
Alignment explanation
Indices: 16905146--16905184 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16905136 TAAATTGGAA
*
16905146 TGAAATTGTGATATTGAATG
1 TGAAATTATGATATTGAATG
16905166 TGAAATTAT-ATATATGAAT
1 TGAAATTATGATAT-TGAAT
16905185 TGGATTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (20 bp):
TGAAATTATGATATTGAATG
Found at i:16908367 original size:14 final size:14
Alignment explanation
Indices: 16908348--16908380 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16908338 ACGAAGTTGG
*
16908348 TGATTTCTTTTTGT
1 TGATTTCCTTTTGT
16908362 TGATTTCCTTTTGT
1 TGATTTCCTTTTGT
16908376 TGATT
1 TGATT
16908381 AAATGACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.67
Consensus pattern (14 bp):
TGATTTCCTTTTGT
Found at i:16912837 original size:16 final size:16
Alignment explanation
Indices: 16912816--16912854 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16912806 TATGAATGTT
*
16912816 TTTGAATGATTTTTGA
1 TTTGAATGATATTTGA
*
16912832 TTTGAATGGTATTTGA
1 TTTGAATGATATTTGA
16912848 TTATGAA
1 TT-TGAA
16912855 ATGTTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTGAATGATATTTGA
Found at i:16915400 original size:409 final size:409
Alignment explanation
Indices: 16914641--16915456 Score: 1632
Period size: 409 Copynumber: 2.0 Consensus size: 409
16914631 TTTGATAACG
16914641 TAAACATTTGTAAATCAATCACAGTCACTTAATCAATATCAAATAGTCTTCAGTACTTTCATTTA
1 TAAACATTTGTAAATCAATCACAGTCACTTAATCAATATCAAATAGTCTTCAGTACTTTCATTTA
16914706 CCCCTATTAACATAATTCGGACCTAAACGGACAAGCGAATCCAATCCACACACCAGGGATAATAT
66 CCCCTATTAACATAATTCGGACCTAAACGGACAAGCGAATCCAATCCACACACCAGGGATAATAT
16914771 TCAATGTTTCATTGGCTGAAACCAGAATACACCGTAAGGTAACAGTAATAGTCATAGCCAGGTAC
131 TCAATGTTTCATTGGCTGAAACCAGAATACACCGTAAGGTAACAGTAATAGTCATAGCCAGGTAC
16914836 AGAGTACCTCTTCGGCACGAATCCAGAATAGTCACAGTAGTCGACACATATAGTGTCTCATCGAC
196 AGAGTACCTCTTCGGCACGAATCCAGAATAGTCACAGTAGTCGACACATATAGTGTCTCATCGAC
16914901 ACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGCCAATTGTATCCAACTAGCCCG
261 ACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGCCAATTGTATCCAACTAGCCCG
16914966 ACACTGTTAATAGGGTATTCAAATCGTTTAATTTCAATACAGAAGCAGTAACAATTTTCATCATA
326 ACACTGTTAATAGGGTATTCAAATCGTTTAATTTCAATACAGAAGCAGTAACAATTTTCATCATA
16915031 TCATTCATTATACATTCAT
391 TCATTCATTATACATTCAT
16915050 TAAACATTTGTAAATCAATCACAGTCACTTAATCAATATCAAATAGTCTTCAGTACTTTCATTTA
1 TAAACATTTGTAAATCAATCACAGTCACTTAATCAATATCAAATAGTCTTCAGTACTTTCATTTA
16915115 CCCCTATTAACATAATTCGGACCTAAACGGACAAGCGAATCCAATCCACACACCAGGGATAATAT
66 CCCCTATTAACATAATTCGGACCTAAACGGACAAGCGAATCCAATCCACACACCAGGGATAATAT
16915180 TCAATGTTTCATTGGCTGAAACCAGAATACACCGTAAGGTAACAGTAATAGTCATAGCCAGGTAC
131 TCAATGTTTCATTGGCTGAAACCAGAATACACCGTAAGGTAACAGTAATAGTCATAGCCAGGTAC
16915245 AGAGTACCTCTTCGGCACGAATCCAGAATAGTCACAGTAGTCGACACATATAGTGTCTCATCGAC
196 AGAGTACCTCTTCGGCACGAATCCAGAATAGTCACAGTAGTCGACACATATAGTGTCTCATCGAC
16915310 ACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGCCAATTGTATCCAACTAGCCCG
261 ACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGCCAATTGTATCCAACTAGCCCG
16915375 ACACTGTTAATAGGGTATTCAAATCGTTTAATTTCAATACAGAAGCAGTAACAATTTTCATCATA
326 ACACTGTTAATAGGGTATTCAAATCGTTTAATTTCAATACAGAAGCAGTAACAATTTTCATCATA
16915440 TCATTCATTATACATTC
391 TCATTCATTATACATTC
16915457 TAACTATTAA
Statistics
Matches: 407, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
409 407 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (409 bp):
TAAACATTTGTAAATCAATCACAGTCACTTAATCAATATCAAATAGTCTTCAGTACTTTCATTTA
CCCCTATTAACATAATTCGGACCTAAACGGACAAGCGAATCCAATCCACACACCAGGGATAATAT
TCAATGTTTCATTGGCTGAAACCAGAATACACCGTAAGGTAACAGTAATAGTCATAGCCAGGTAC
AGAGTACCTCTTCGGCACGAATCCAGAATAGTCACAGTAGTCGACACATATAGTGTCTCATCGAC
ACACAGTCGGAATATCCCTAAACACTTCCAATCCTATAGCATGCCAATTGTATCCAACTAGCCCG
ACACTGTTAATAGGGTATTCAAATCGTTTAATTTCAATACAGAAGCAGTAACAATTTTCATCATA
TCATTCATTATACATTCAT
Found at i:16922415 original size:6 final size:6
Alignment explanation
Indices: 16922404--16922436 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
16922394 TAAGATACAC
16922404 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGA
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGA
16922437 CATTCAGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AGAGGA
Found at i:16962980 original size:19 final size:19
Alignment explanation
Indices: 16962956--16962995 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
16962946 CTTTTGTCTC
*
16962956 ATCATACGATAACGTTTAA
1 ATCATACGATAACATTTAA
16962975 ATCATACGATAACATTTAA
1 ATCATACGATAACATTTAA
16962994 AT
1 AT
16962996 TTTAGTTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (19 bp):
ATCATACGATAACATTTAA
Found at i:16964537 original size:6 final size:7
Alignment explanation
Indices: 16964520--16964550 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
16964510 TACTTTAGGC
16964520 TTTTTTA
1 TTTTTTA
16964527 TTTTTTA
1 TTTTTTA
16964534 TTTTTTTA
1 -TTTTTTA
16964542 TTTTTTA
1 TTTTTTA
16964549 TT
1 TT
16964551 GCATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:16964540 original size:15 final size:15
Alignment explanation
Indices: 16964520--16964550 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16964510 TACTTTAGGC
16964520 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
16964535 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
16964550 T
1 T
16964551 GCATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:16964556 original size:20 final size:20
Alignment explanation
Indices: 16964533--16964570 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16964523 TTTATTTTTT
16964533 ATTTTTTTAT-TTTTTATTGC
1 ATTTTTTT-TGTTTTTATTGC
16964553 ATTTTTTTTGTTTTTATT
1 ATTTTTTTTGTTTTTATT
16964571 TTAATTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (20 bp):
ATTTTTTTTGTTTTTATTGC
Found at i:16973426 original size:28 final size:28
Alignment explanation
Indices: 16973360--16973516 Score: 215
Period size: 29 Copynumber: 5.5 Consensus size: 28
16973350 CATGAGATTG
* * **
16973360 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
16973389 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16973417 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
16973446 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
16973475 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16973503 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
16973517 GACTTACTAT
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
28 45 0.38
29 73 0.62
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16973449 original size:57 final size:58
Alignment explanation
Indices: 16973360--16973515 Score: 219
Period size: 57 Copynumber: 2.7 Consensus size: 58
16973350 CATGAGATTG
* * * *
16973360 GCACTAAGTGTGCGGGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATAT-A
1 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCAAGTTTGATTATATAA
* *
16973417 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
*
16973475 GCACTAAGTGTGCGAGTTTGATTATATAA-CACTAAGTGTGC
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGC
16973516 GGACTTACTA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 58 0.64
58 32 0.36
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
Found at i:16977099 original size:4 final size:4
Alignment explanation
Indices: 16977090--16977137 Score: 64
Period size: 4 Copynumber: 12.2 Consensus size: 4
16977080 TTTCTTGTAC
*
16977090 ATAA ATAA ATAA ATAA ATAAA ATTA A-AA A-AA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
16977137 A
1 A
16977138 GGATCAAGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 5 0.12
4 31 0.77
5 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:16997906 original size:13 final size:13
Alignment explanation
Indices: 16997888--16997912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16997878 AACGAAGTAG
16997888 GACACGGCCGTGC
1 GACACGGCCGTGC
16997901 GACACGGCCGTG
1 GACACGGCCGTG
16997913 TGCACCAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:17005210 original size:3 final size:3
Alignment explanation
Indices: 17005195--17005396 Score: 98
Period size: 3 Copynumber: 66.0 Consensus size: 3
17005185 TTATATTTTT
* *
17005195 TTA TT- TTA ATA TTA TTA TTA TTA TTA CTA CTTCCA TTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TT--A TTA TTA TTA TTA
* *
17005240 TT- TCTAA CTA TTA TTA TTT TTA TGTA TATA TTA TTAA TTA -TA TTA
1 TTA T-T-A TTA TTA TTA TTA TTA T-TA T-TA TTA TT-A TTA TTA TTA
* * * * *
17005285 TTG TTA TTA TTA CTA TTA TTAA ATA TTC TTA TTA TTA CTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
17005330 TTCA TTCC TT- TTA TTA TTGT TTA TTA TCA TT- GTA TTA TTA TTA TTA
1 TT-A TT-A TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
17005376 CTT- CTA TTA TTA TTA TTA TTA
1 -TTA TTA TTA TTA TTA TTA TTA
17005397 CTTTCTTTGT
Statistics
Matches: 152, Mismatches: 28, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
2 15 0.10
3 112 0.74
4 22 0.14
5 2 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:17010388 original size:15 final size:15
Alignment explanation
Indices: 17010368--17010397 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17010358 TTTGGTTTCA
17010368 CTAACCCAATTTTTT
1 CTAACCCAATTTTTT
*
17010383 CTAACCCGATTTTTT
1 CTAACCCAATTTTTT
17010398 GGATGTGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.47
Consensus pattern (15 bp):
CTAACCCAATTTTTT
Found at i:17014532 original size:17 final size:18
Alignment explanation
Indices: 17014493--17014533 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17014483 TTTCAAATAT
* *
17014493 GATTGTTTTTTCGTGTAC
1 GATTGTTTTTTCATGCAC
17014511 GATTGTTTTTTCATGCAC
1 GATTGTTTTTTCATGCAC
17014529 -ATTGT
1 GATTGT
17014534 GCGTATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.54
Consensus pattern (18 bp):
GATTGTTTTTTCATGCAC
Found at i:17016320 original size:12 final size:13
Alignment explanation
Indices: 17016298--17016328 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
17016288 ATCTTTCTTA
17016298 TATATACTTTTAT
1 TATATACTTTTAT
17016311 TATATA-TTTTAT
1 TATATACTTTTAT
17016323 TATATA
1 TATATA
17016329 AATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATACTTTTAT
Found at i:17016358 original size:25 final size:26
Alignment explanation
Indices: 17016308--17016370 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
17016298 TATATACTTT
*
17016308 TATTAT-ATATTTTATTATATAAATA
1 TATTATAATTTTTTATTATATAAATA
*
17016333 TATT-TAATTTTTTA-TATATTATATA
1 TATTATAATTTTTTATTATA-TAAATA
17016358 TATTAATAATTTT
1 TATT-ATAATTTT
17016371 ACCATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 5 0.16
25 20 0.62
27 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTATAATTTTTTATTATATAAATA
Found at i:17016431 original size:15 final size:15
Alignment explanation
Indices: 17016398--17016440 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
17016388 AAAATACTTA
17016398 TTATATTATTATTATT
1 TTATATTA-TATTATT
17016414 TTATATTATATT-TCT
1 TTATATTATATTAT-T
*
17016429 TTATATTTTATT
1 TTATATTATATT
17016441 CATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 16 0.64
16 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATATTATATTATT
Found at i:17016645 original size:3 final size:3
Alignment explanation
Indices: 17016637--17016678 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
17016627 ATGTTACTAC
17016637 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17016679 TTGTATATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17022626 original size:16 final size:15
Alignment explanation
Indices: 17022601--17022630 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17022591 CTTCCATTTC
17022601 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
17022616 AAAAGAAAAGAAAAA
1 AAAA-AAAAGAAAAA
17022631 AAGAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:17023642 original size:45 final size:45
Alignment explanation
Indices: 17023593--17023986 Score: 434
Period size: 45 Copynumber: 8.9 Consensus size: 45
17023583 TTGAAGATAG
* *
17023593 CAGATCTTATTTCTCTGTAATAGATGGGGAGCAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGA
* * *
17023638 CAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACAT-A
1 CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAG--ATGA
* * * *
17023684 GCAGATCTGA---C-CT-TCAT---C-GGG-GCAGATCTAAGATGG
1 -CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGA
*
17023720 CGGATCTTATCTCTCTGTAATAGACAGGGG-GCAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATAGAC-GGGGAGCAGATCCAAGATGA
* * *
17023765 CAGATCTTATCTCTCTGTAATGGACGAGGAGTAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGA
* * * *
17023810 CAGATCCTATCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGA
* * * *
17023855 CAGATCTTATCTCTCTATAATGGACGGGGAGTAGGTCCAAGATGA
1 CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGA
**
17023900 CAGATCTTATCTCTCTGTAATAGACGGGGAATAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGA
* * *
17023945 CAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGA
1 CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGA
17023987 CATAGCAGAT
Statistics
Matches: 299, Mismatches: 35, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.03
37 10 0.03
38 4 0.01
39 3 0.01
40 3 0.01
42 2 0.01
43 3 0.01
44 4 0.01
45 250 0.84
46 1 0.00
47 10 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (45 bp):
CAGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCCAAGATGA
Found at i:17025917 original size:34 final size:33
Alignment explanation
Indices: 17025874--17025938 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
17025864 TATATATACT
*
17025874 TTTTATTATATATTTTATTATATAAATATATTTAA
1 TTTTATTATATATTATA-TATATAAATA-ATTTAA
*
17025909 TTTT-TTATATATTATATATATTAATAATTT
1 TTTTATTATATATTATATATATAAATAATTT
17025939 TACCATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 4 0.14
33 9 0.32
34 11 0.39
35 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (33 bp):
TTTTATTATATATTATATATATAAATAATTTAA
Found at i:17025920 original size:18 final size:18
Alignment explanation
Indices: 17025873--17025920 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
17025863 TTATATATAC
*
17025873 TTTTTATTATATATTTTAT
1 TTTTTA-TATATATTTAAT
* * *
17025892 TATATAAATATATTTAAT
1 TTTTTATATATATTTAAT
17025910 TTTTTATATAT
1 TTTTTATATAT
17025921 TATATATATT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTATATATATTTAAT
Found at i:17025927 original size:25 final size:26
Alignment explanation
Indices: 17025877--17025939 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
17025867 ATATACTTTT
*
17025877 TATTAT-ATATTTTATTATATAAATA
1 TATTATAATTTTTTATTATATAAATA
*
17025902 TATT-TAATTTTTTA-TATATTATATA
1 TATTATAATTTTTTATTATA-TAAATA
17025927 TATTAATAATTTT
1 TATT-ATAATTTT
17025940 ACCATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 5 0.16
25 20 0.62
27 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTATAATTTTTTATTATATAAATA
Found at i:17026000 original size:15 final size:15
Alignment explanation
Indices: 17025967--17026009 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
17025957 AAAATACTTA
17025967 TTATATTATTATTATT
1 TTATATTA-TATTATT
17025983 TTATATTATATT-TCT
1 TTATATTATATTAT-T
*
17025998 TTATATTTTATT
1 TTATATTATATT
17026010 CATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 16 0.64
16 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATATTATATTATT
Found at i:17026214 original size:3 final size:3
Alignment explanation
Indices: 17026206--17026243 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
17026196 ATGTTACTAC
17026206 ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17026244 TTGTATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:17029918 original size:84 final size:83
Alignment explanation
Indices: 17029794--17030116 Score: 306
Period size: 84 Copynumber: 4.0 Consensus size: 83
17029784 TGAACGAGTG
* * * * *
17029794 AGGCATAGTCTTGACAGAC-AAGTGGTACG-GGTGCTAAGAACCATAAATGATAACTTGTATTAC
1 AGGCATAGTCTTGACAGACAAAG-GGTA-GAGATGCCAAGAACCTTAAATGGTAACTCGTATTAC
*
17029857 ACGTATGAGCATGAGCAAGCA
64 ACG-ATGAGCATAAGCAAGCA
* *
17029878 AGGCATAGTCTTGACAGACAAAGGGTAGAGGTGCCAAGAACCTTACATGGTAACTCGTATT--AC
1 AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAC
* *
17029941 -AT--GCATAAGGATG-A
66 GATGAGCATAAGCAAGCA
* * * *
17029955 A--AATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAT
1 AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAC
* * *
17030018 GCATGAGCACAAGCCAGCG
66 G-ATGAGCATAAGCAAGCA
* * * * * *
17030037 AGGCATAGTGTTGACAGACAAATGGTAGAGATGCCAAGAGCCTTGAATGGTAACTTGTACTACAT
1 AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACA-
* *
17030102 GGATGAGCATGAGCA
65 CGATGAGCATAAGCA
17030117 TGAACTTGCC
Statistics
Matches: 197, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
75 53 0.27
77 3 0.02
78 8 0.04
79 2 0.01
80 2 0.01
81 7 0.04
82 3 0.02
83 1 0.01
84 114 0.58
85 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (83 bp):
AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAC
GATGAGCATAAGCAAGCA
Found at i:17029982 original size:75 final size:75
Alignment explanation
Indices: 17029882--17030021 Score: 244
Period size: 75 Copynumber: 1.9 Consensus size: 75
17029872 CAAGCAAGGC
* * *
17029882 ATAGTCTTGACAGACAAAGGGTAGAGGTGCCAAGAACCTTACATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAAGGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
17029947 AAGGATGAAA
66 AAGGATGAAA
*
17029957 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAAGGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
17030022 GAGCACAAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (75 bp):
ATAGTCTTGACAGACAAAGGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
AAGGATGAAA
Found at i:17030087 original size:159 final size:159
Alignment explanation
Indices: 17029798--17030102 Score: 407
Period size: 159 Copynumber: 1.9 Consensus size: 159
17029788 CGAGTGAGGC
* * * * * *
17029798 ATAGTCTTGACAGACAAGTGGTACGGGTGCTAAGAACCATAAATGATAACTTGTATTACACGTAT
1 ATAGTCTTGACAGACAAATGATACGGATGCCAAGAACCATAAATGATAACTCGTATTACACGCAT
** *
17029863 GAGCATGAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGGTGCCAAGAACCTTACATGG
66 GAGCACAAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTACATGG
*
17029928 TAACTCGTATTACATGCATAAGGATGAAA
131 TAACTCGTACTACATGCATAAGGATGAAA
* * *
17029957 ATAGTCTTGACAGACAAATGATA-GAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCA
1 ATAGTCTTGACAGACAAATGATACG-GATGCCAAGAACCATAAATGATAACTCGTATTACACGCA
* * * * *
17030021 TGAGCACAAGCCAGCGAGGCATAGTGTTGACAGACAAATGGTAGAGATGCCAAGAGCCTTGA-AT
65 TGAGCACAAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTT-ACAT
*
17030085 GGTAACTTGTACTACATG
129 GGTAACTCGTACTACATG
17030103 GATGAGCATG
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
158 1 0.01
159 123 0.98
160 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (159 bp):
ATAGTCTTGACAGACAAATGATACGGATGCCAAGAACCATAAATGATAACTCGTATTACACGCAT
GAGCACAAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTACATGG
TAACTCGTACTACATGCATAAGGATGAAA
Found at i:17030751 original size:20 final size:21
Alignment explanation
Indices: 17030709--17030752 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
17030699 ATTTTTATGG
*
17030709 TTTATTCATAAAAAATAATTT
1 TTTACTCATAAAAAATAATTT
17030730 TTTACTCATAAAAAATAATTT
1 TTTACTCATAAAAAATAATTT
17030751 TT
1 TT
17030753 CATCATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTACTCATAAAAAATAATTT
Found at i:17031174 original size:78 final size:78
Alignment explanation
Indices: 17031079--17031239 Score: 286
Period size: 78 Copynumber: 2.1 Consensus size: 78
17031069 GTATCCATGT
* * *
17031079 AAGCATGCAACTTGTTTAGATGTAGTCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAGC
1 AAGCATGCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAATTAGGCACTAAAC
*
17031144 ATCGAGTAAAGCA
66 ATCAAGTAAAGCA
17031157 AAGCATGCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAATTAGGCACTAAAC
1 AAGCATGCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAATTAGGCACTAAAC
17031222 ATCAAGTAAAGCA
66 ATCAAGTAAAGCA
17031235 AAGCA
1 AAGCA
17031240 ACCAAAGATA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (78 bp):
AAGCATGCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAATTAGGCACTAAAC
ATCAAGTAAAGCA
Found at i:17031677 original size:84 final size:79
Alignment explanation
Indices: 17031533--17031784 Score: 271
Period size: 75 Copynumber: 3.2 Consensus size: 79
17031523 AAGTTCATGC
* * * *
17031533 TCATGCTCATGCATGTAGT-TGAAGTTACCATTCAAGGCTCTTGGCATCTCTACCATTTGTCTGT
1 TCATGCTCATGCATGTAATACG-AGTTACCATTTAAGGTTCTTGGCATCTCTACCATTTGTCTGT
*
17031597 CAACACTATGCCTCGCT
65 CAAGACTATGCCT--CT
** *
17031614 GGCTTGTGCTCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTATCATTTGTCT
1 ---TCATGCTCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTACCATTTGTCT
17031679 GTCAAGACTAT---T-T
63 GTCAAGACTATGCCTCT
* * * * * *
17031692 TCATGCTCATGCATGTAATACAAGTTATCATTTATGGTTCTTGGCACCCCTACCACTTGTCTGTC
1 TCATGCTCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTACCATTTGTCTGTC
17031757 AAGACTATGCCTCACT
66 AAGACTATGCCT--CT
17031773 TCATGCTCATGC
1 TCATGCTCATGC
17031785 TTGTGCTCAT
Statistics
Matches: 144, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
75 64 0.44
78 2 0.01
81 14 0.10
84 63 0.44
85 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (79 bp):
TCATGCTCATGCATGTAATACGAGTTACCATTTAAGGTTCTTGGCATCTCTACCATTTGTCTGTC
AAGACTATGCCTCT
Found at i:17031854 original size:93 final size:93
Alignment explanation
Indices: 17031695--17031863 Score: 248
Period size: 93 Copynumber: 1.8 Consensus size: 93
17031685 ACTATTTTCA
* * * * * * *
17031695 TGCTCATGCATGTAATACAAGTTATCATTTATGGTTCTTGGCACCCCTACCACTTGTCTGTCAAG
1 TGCTCATGCATGTAAGACAAGTTACCATTCAAGGTTCTCGGCACCCCTACCAATTGCCTGTCAAG
*
17031760 ACTATGCCTCACTTCATGCTCATGCTTG
66 ACCATGCCTCACTTCATGCTCATGCTTG
* *
17031788 TGCTCATGCATGTAAGGCAAGTTACCATTCAAGGTTCTCGGCACCTCTACCAATTGCCTGTCAAG
1 TGCTCATGCATGTAAGACAAGTTACCATTCAAGGTTCTCGGCACCCCTACCAATTGCCTGTCAAG
17031853 ACCATGCCTCA
66 ACCATGCCTCA
17031864 AGCTTCCTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (93 bp):
TGCTCATGCATGTAAGACAAGTTACCATTCAAGGTTCTCGGCACCCCTACCAATTGCCTGTCAAG
ACCATGCCTCACTTCATGCTCATGCTTG
Found at i:17034478 original size:41 final size:41
Alignment explanation
Indices: 17034421--17034501 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
17034411 TATTCGACGC
*
17034421 CGAAACAGGGTACAAGGTATTATCGGACTCGTCACACAAAT
1 CGAAACAGGGTACAAGGTATTACCGGACTCGTCACACAAAT
17034462 CGAAACAGGGTACAAGGTATTACCGGACTCGTCACACAAA
1 CGAAACAGGGTACAAGGTATTACCGGACTCGTCACACAAA
17034502 CTTTCACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (41 bp):
CGAAACAGGGTACAAGGTATTACCGGACTCGTCACACAAAT
Found at i:17041963 original size:42 final size:42
Alignment explanation
Indices: 17041906--17042031 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 42
17041896 TAGGGTTATG
** * * * *
17041906 TGTGATTTTGTGTAAGAGCATATCTGGGATATGGAATCGATA
1 TGTGATTTCATGTAAGACCATGTCTAGGACATGGAATCGATA
*
17041948 TGTGATTTCATGTAAGACCATGTCTAGGACATGGCATCGATA
1 TGTGATTTCATGTAAGACCATGTCTAGGACATGGAATCGATA
* *
17041990 TTTGATTTCATGTAAGACCATGTCTAGGACATGGAGTCGATA
1 TGTGATTTCATGTAAGACCATGTCTAGGACATGGAATCGATA
17042032 CAAGATATCG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATGTCTAGGACATGGAATCGATA
Found at i:17042046 original size:42 final size:42
Alignment explanation
Indices: 17041955--17042052 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
17041945 ATATGTGATT
*** *
17041955 TCATGTAAGACCATGTCTAGGACATGGCATCGATATTTGATT
1 TCATGTAAGACCATGTCTAGGACATGGCATCGATACAAGATA
17041997 TCATGTAAGACCATGTCTAGGACATGG-AGTCGATACAAGATA
1 TCATGTAAGACCATGTCTAGGACATGGCA-TCGATACAAGATA
*
17042039 TCGTGTAAGACCAT
1 TCATGTAAGACCAT
17042053 AGTTGGGCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 49 0.98
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (42 bp):
TCATGTAAGACCATGTCTAGGACATGGCATCGATACAAGATA
Found at i:17049368 original size:42 final size:42
Alignment explanation
Indices: 17049320--17049466 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 42
17049310 CATAGTTCAA
17049320 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
* * *
17049362 CTATGGTCTTACACATATTCATATATTGATGCCATAGCCCAG
1 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
* *
17049404 CCATGGTCTTACACGTTACCACATATCACAT-ATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC---A--TC-T-TCACATAAT-GATGCCATAGCCCAG
17049453 CTATGGTCTTACAC
1 CTATGGTCTTACAC
17049467 GAATCACATA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
42 52 0.59
45 1 0.01
48 2 0.02
49 33 0.38
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (42 bp):
CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
Found at i:17049444 original size:49 final size:50
Alignment explanation
Indices: 17049373--17049467 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 50
17049363 TATGGTCTTA
* *
17049373 CACATATTCATATATTGATGCCATAGCCCAGCCATGGTCTTACACGTTAC
1 CACATATTCACATATCGATGCCATAGCCCAGCCATGGTCTTACACGTTAC
*
17049423 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
1 CACATATTCACATATCGATGCCATAGCCCAGCCATGGTCTTACACG
17049468 AATCACATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (50 bp):
CACATATTCACATATCGATGCCATAGCCCAGCCATGGTCTTACACGTTAC
Found at i:17049538 original size:47 final size:46
Alignment explanation
Indices: 17049389--17049560 Score: 164
Period size: 47 Copynumber: 3.7 Consensus size: 46
17049379 TTCATATATT
* ** * * * *
17049389 GATGCCATAGCCCAGCCATGGTCTTACACGTTACCACATATCACATATC
1 GATGCCATATCCCAGATATGGTCTTATACG-AAGCACATATCAC--ACC
* * * * * *
17049438 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACC
* * *
17049484 GATGCCATATCCCAGATATGATCTTATACAGTAGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACC
17049531 GATGCCATATCCCAGATATGGTCTTATACG
1 GATGCCATATCCCAGATATGGTCTTATACG
17049561 GAAATCACTT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
46 27 0.25
47 40 0.38
48 10 0.09
49 29 0.27
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACC
Found at i:17049613 original size:31 final size:31
Alignment explanation
Indices: 17049578--17049664 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
17049568 CTTGTCACTT
*
17049578 GTAGCCGAAGCTACCACTGTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
17049609 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
17049640 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
17049665 TGTCATTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:17049739 original size:50 final size:50
Alignment explanation
Indices: 17049640--17049816 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
17049630 CACTGATCAG
* *
17049640 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
17049691 GTAGTCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
17049741 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
17049791 GTAGCCGAAGCTATCATTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
17049817 GTTGCCATGG
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 94 0.80
51 23 0.20
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:17052029 original size:29 final size:29
Alignment explanation
Indices: 17051987--17052044 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
17051977 ACTATTAGAA
17051987 AAAGGGATAATCTATGTTTCATACAATCC
1 AAAGGGATAATCTATGTTTCATACAATCC
17052016 AAAGGGATAATCTATGTTTCATACAATCC
1 AAAGGGATAATCTATGTTTCATACAATCC
17052045 TTTCTCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAGGGATAATCTATGTTTCATACAATCC
Found at i:17057012 original size:3 final size:3
Alignment explanation
Indices: 17057004--17057028 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17056994 GTAGACGAGG
17057004 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
17057029 AAGCGGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Done.