Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 177 of 222
Found at i:56809407 original size:26 final size:25
Alignment explanation
Indices: 56809355--56809405 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
56809345 TATGATTTGT
56809355 TCTGTTATGTATAAGCATGTGTAATA
1 TCTGTTA-GTATAAGCATGTGTAATA
*
56809381 TCTGTTA-TATAAGCATGTGTGATA
1 TCTGTTAGTATAAGCATGTGTAATA
56809405 T
1 T
56809406 ATTAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.71
26 7 0.29
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (25 bp):
TCTGTTAGTATAAGCATGTGTAATA
Found at i:56812589 original size:16 final size:16
Alignment explanation
Indices: 56812565--56812602 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
56812555 TTTGGTTCGC
* *
56812565 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
56812581 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
56812597 TGTAAT
1 TGTAAT
56812603 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:56812645 original size:45 final size:44
Alignment explanation
Indices: 56812581--56812690 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
56812571 GGATTAGAGG
56812581 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAAT-GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* ***
56812626 TGTAATGAAATAGAGGTGTAATAG-TAATCCTGTGTTTGGTTGAA
1 TGTAATG-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
56812670 TG----GAATAGAGGTGTAATAGCA
1 TGTAATGAATAGAGGTGTAATAGCA
56812691 TAATGGAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 19 0.33
45 22 0.38
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (44 bp):
TGTAATGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:56812688 original size:39 final size:40
Alignment explanation
Indices: 56812584--56812690 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 40
56812574 TTAGAGGTGT
56812584 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
* ***
56812624 AATGTAATGAAATAGAGGTGTAATAG-TAATCCTGTGTTTGGTTG
1 AATG----G-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
56812668 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
56812691 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
39 16 0.29
40 5 0.09
44 19 0.34
45 16 0.29
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.31
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
Found at i:56812881 original size:18 final size:18
Alignment explanation
Indices: 56812834--56812868 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56812824 ATTATTATTG
56812834 TATATAATTTAATAAAAA
1 TATATAATTTAATAAAAA
56812852 TATATAATTTAATAAAA
1 TATATAATTTAATAAAA
56812869 TTCTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATATAATTTAATAAAAA
Found at i:56812920 original size:61 final size:61
Alignment explanation
Indices: 56812848--56813028 Score: 192
Period size: 61 Copynumber: 3.0 Consensus size: 61
56812838 TAATTTAATA
**
56812848 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAAATC
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTAATAAAATC
* * * * * ** *
56812909 ATAATATATAATACT-ATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATAATTTAATA
1 AAAATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATTCTTATATAAATTTAATAAAATC
* *
56812968 AAAATATATAATTTAATACAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATC
1 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTAATAAAATC
56813029 TTGTAAAAAG
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 5 0.05
59 32 0.35
60 16 0.17
61 34 0.37
62 5 0.05
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.43
Consensus pattern (61 bp):
AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTAATAAAATC
Found at i:56816413 original size:20 final size:19
Alignment explanation
Indices: 56816384--56816428 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
56816374 TTTAGAATGT
*
56816384 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
56816403 AAAACATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
56816423 AAAAAT
1 AAAAAT
56816429 GGTTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:56818083 original size:43 final size:43
Alignment explanation
Indices: 56818019--56818112 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 43
56818009 TAGAATATAA
*
56818019 AACATAACTTACCATTTATTTGCATAACATAAAGTAAAAGCAT
1 AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
56818062 AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
1 AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
*
56818105 AATATAAC
1 AACATAAC
56818113 CCAAACCACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (43 bp):
AACATAACTTACCATTCATTTGCATAACATAAAGTAAAAGCAT
Found at i:56821250 original size:26 final size:26
Alignment explanation
Indices: 56821220--56821303 Score: 100
Period size: 25 Copynumber: 3.3 Consensus size: 26
56821210 TCCCGTTATG
56821220 TGGCTCTTCGTGAGCTTCCCGATTAA
1 TGGCTCTTCGTGAGCTTCCCGATTAA
* * * *
56821246 AGGCTTTTTGTGAGCTTCCTG-TTAA
1 TGGCTCTTCGTGAGCTTCCCGATTAA
* *
56821271 TGGCCCTCCG-GAGCTTCCCGATTAA
1 TGGCTCTTCGTGAGCTTCCCGATTAA
56821296 TGGCTCTT
1 TGGCTCTT
56821304 TGGAACTACT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
24 9 0.20
25 19 0.42
26 17 0.38
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (26 bp):
TGGCTCTTCGTGAGCTTCCCGATTAA
Found at i:56821338 original size:49 final size:50
Alignment explanation
Indices: 56821230--56821351 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 50
56821220 TGGCTCTTCG
* * * * * *
56821230 TGAGCTTCCCGATTAAAGGCTTTTTGTGAGCTTCCTGTTAATGGCCCTCC
1 TGAGCTTCCCGATTAATGGCTCTTTGTGAACTACCTGTTAATGGCCCGCA
* * * *
56821280 GGAGCTTCCCGATTAATGGCTCTTTG-GAACTACTTGTTATTGGCTCGCA
1 TGAGCTTCCCGATTAATGGCTCTTTGTGAACTACCTGTTAATGGCCCGCA
56821329 TGAGCTTCCCGATT-ATGGCTCTT
1 TGAGCTTCCCGATTAATGGCTCTT
56821352 ATGAGCTTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 9 0.15
49 29 0.48
50 23 0.38
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (50 bp):
TGAGCTTCCCGATTAATGGCTCTTTGTGAACTACCTGTTAATGGCCCGCA
Found at i:56828096 original size:21 final size:20
Alignment explanation
Indices: 56828054--56828103 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
56828044 TTACATTATC
* *
56828054 ACTATTCATGATTTGACTTT
1 ACTATTCATGACTTGACCTT
*
56828074 ACTGTTCATGGACTTGACCTT
1 ACTATTCAT-GACTTGACCTT
56828095 ACTATTCAT
1 ACTATTCAT
56828104 AAGACTGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (20 bp):
ACTATTCATGACTTGACCTT
Found at i:56831586 original size:210 final size:210
Alignment explanation
Indices: 56831319--56832136 Score: 700
Period size: 210 Copynumber: 3.9 Consensus size: 210
56831309 TGCAGTACTG
* * * * * *
56831319 AACCTGCGAGCCTTAAGAATTTAGGTGGGAGCTTGAACTCGCGCTAACTGTTTTGGAGGCTGGGA
1 AACCTACGAGCCTTAAGATTTTAGCTAGGAGCTTGAACTCGCGCAAACTGTTTTGGAGGCTGCGA
* *
56831384 CATTGAACCTACAAGCATTAAAATTCAAGCTTAGAGCTTAAGCACACGTTAACTATTTTGGAGGT
66 CATTAAACCTACAAGCATTAAAATTCAAGCTTAGAGCTTAAGCACACGCTAACTATTTTGGAGGT
* *
56831449 TGCGATATTGAATCTATGAGACTTAAGATTACAGCTGGGATCTTAAGCTCACACTAACAATTTTA
131 TGCGATATTGAATCTACGAGACTTAAGACTACAGCTGGGATCTTAAGCTCACACTAACAATTTTA
*
56831514 GAGGCTGCGATATTA
196 GAGGCTACGATATTA
*
56831529 AACCTAC-ATGCCTTAAGATTTTAGCTAGGAGCTTGAATTCGCGCAAACTGTTTTGGAGGCTGCG
1 AACCTACGA-GCCTTAAGATTTTAGCTAGGAGCTTGAACTCGCGCAAACTGTTTTGGAGGCTGCG
* * * * *
56831593 ACATTAAACCTACAAGCCTTAAGATTCAAGCTTAGAGCTTGAGCTCATGCTAACTATTTTGGAGG
65 ACATTAAACCTACAAGCATTAAAATTCAAGCTTAGAGCTTAAGCACACGCTAACTATTTTGGAGG
* * * *
56831658 TTGTGATATTGAATCTACGAGCCTTAAGACTACAGCTGGGATCTTAAGCTCACACTAATAGTTTT
130 TTGCGATATTGAATCTACGAGACTTAAGACTACAGCTGGGATCTTAAGCTCACACTAACAATTTT
* *
56831723 AGAGGCTACGGTATTG
195 AGAGGCTACGATATTA
* * * ** * * * *
56831739 AACCTACGAGCCTTAAGATTTTAG-TTGAGAGCTTGAGCTCGAGTTAATTTTTTTTGAGGCTGCT
1 AACCTACGAGCCTTAAGATTTTAGCTAG-GAGCTTGAACTCGCGCAAACTGTTTTGGAGGCTGCG
* * *** * * * * *
56831803 ATATTGAACCTGTGAGCCTTAATATT-ACAG-TTGGGAGCTTAAGCTCGA-GCTAACTATTTTAG
65 ACATTAAACCTACAAGCATTAAAATTCA-AGCTT-AGAGCTTAAGCAC-ACGCTAACTATTTTGG
* * * * * * * * * * *
56831865 AGGCTGCAATATTGAACCTGCAAGCCTTAAGA-TTCTAGTTGGGAGCTTGAGCTCGAC-CTAACT
127 AGGTTGCGATATTGAATCTACGAGACTTAAGACTAC-AGCTGGGATCTTAAGCTC-ACACTAACA
* * * *
56831928 ATTTTGGAGGCTGC-AGTTTTG
190 ATTTTAGAGGCTACGA-TATTA
* * * * * * *
56831949 AACCTACGAGCCTTAAGACTTTAGCTTGGAGCTTGAGCTCACGCTAACTATTTTGGAGGCTACGA
1 AACCTACGAGCCTTAAGATTTTAGCTAGGAGCTTGAACTCGCGCAAACTGTTTTGGAGGCTGCGA
* * ** * * ** * * * * * * *
56832014 TACTAAACCTGTAAGCTTTAATATTTTAGC-TAGGAGCTTGAGCTCGCGTTAATTGTTTTTGAGG
66 CATTAAACCTACAAGCATTAAAATTCAAGCTTA-GAGCTTAAGCACACGCTAACTATTTTGGAGG
** * * * * * * *
56832078 CGGCTATATTGAACCTACGAGCCTTAAGATTACAGCTGGGACCTTGAGCTCGCACTAAC
130 TTGCGATATTGAATCTACGAGACTTAAGACTACAGCTGGGATCTTAAGCTCACACTAAC
56832137 TTTTTTGAGA
Statistics
Matches: 504, Mismatches: 88, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
209 9 0.02
210 486 0.96
211 9 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (210 bp):
AACCTACGAGCCTTAAGATTTTAGCTAGGAGCTTGAACTCGCGCAAACTGTTTTGGAGGCTGCGA
CATTAAACCTACAAGCATTAAAATTCAAGCTTAGAGCTTAAGCACACGCTAACTATTTTGGAGGT
TGCGATATTGAATCTACGAGACTTAAGACTACAGCTGGGATCTTAAGCTCACACTAACAATTTTA
GAGGCTACGATATTA
Found at i:56832157 original size:70 final size:71
Alignment explanation
Indices: 56831230--56832148 Score: 601
Period size: 70 Copynumber: 13.1 Consensus size: 71
56831220 TGTTAACTGC
* * * * * ***
56831230 TTTGA-AGGCTGTGATATTAAACCTGCGAGCCTTGAGATTACAGCTGGGAGCTTGACCTCGTGTT
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCACT
**
56831294 AACTGC
66 AACTAT
* * * * * *
56831300 TTTGA-AGGCTGC-AGTACTGAACCTGCGAGCCTTAAGAATT-TAGGTGGGAGCTTGAACTCGCG
1 TTTGAGAGGCTGCGA-TATTGAACCTACGAGCCTTAAG-ATTACAGCTGGGAGCTTGAGCTCGCA
*
56831362 CTAACTGT
64 CTAACTAT
* * * * * ** * * * **
56831370 TTTG-GAGGCTGGGACATTGAACCTACAAGCATTAAAATT-CAAGCTTAGAGCTTAAGCACACGT
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTAC-AGCTGGGAGCTTGAGCTCGCAC
56831433 TAACTAT
65 TAACTAT
* * * * * * *
56831440 TTTG-GAGGTTGCGATATTGAATCTATGAGACTTAAGATTACAGCTGGGATCTTAAGCTCACACT
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCACT
*
56831504 AACAAT
66 AACTAT
* ** * ** *
56831510 TTT-AGAGGCTGCGATATTAAACCTAC-ATGCCTTAAGATTTTAGCTAGGAGCTTGAATTCGCGC
1 TTTGAGAGGCTGCGATATTGAACCTACGA-GCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCAC
* *
56831573 AAACTGT
65 TAACTAT
* * * ** ***
56831580 TTTG-GAGGCTGCGACATTAAACCTACAAGCCTTAAGATT-CAAGCTTAGAGCTTGAGCTCATGC
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTAC-AGCTGGGAGCTTGAGCTCGCAC
56831643 TAACTAT
65 TAACTAT
* * * * * * *
56831650 TTTG-GAGGTTGTGATATTGAATCTACGAGCCTTAAGACTACAGCTGGGATCTTAAGCTCACACT
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCACT
56831714 AA-TAGT
66 AACTA-T
* * ** * * *
56831720 TTT-AGAGGCTACGGTATTGAACCTACGAGCCTTAAGATTTTAGTTGAGAGCTTGAGCTCG-AGT
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCA-C
*
56831783 TAA-TTT
65 TAACTAT
** * ** * * *
56831789 TTTTTGAGGCTGCTATATTGAACCTGTGAGCCTTAATATTACAGTTGGGAGCTTAAGCTCG-AGC
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCA-C
56831853 TAACTAT
65 TAACTAT
* * * *
56831860 TTT-AGAGGCTGCAATATTGAACCTGCAAGCCTTAAGATT-CTAGTTGGGAGCTTGAGCTCG-AC
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTAC-AGCTGGGAGCTTGAGCTCGCA-
56831922 CTAACTAT
64 CTAACTAT
* * * * *
56831930 TTTG-GAGGCTGC-AGTTTTGAACCTACGAGCCTTAAGACTT-TAGCTTGGAGCTTGAGCTCACG
1 TTTGAGAGGCTGCGA-TATTGAACCTACGAGCCTTAAGA-TTACAGCTGGGAGCTTGAGCTCGCA
56831992 CTAACTAT
64 CTAACTAT
* * * *** * * ** * **
56832000 TTTG-GAGGCTACGATACTAAACCTGTAAGCTTTAATATTTTAGCTAGGAGCTTGAGCTCGCGTT
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCACT
* *
56832064 AATTGT
66 AACTAT
* * * *
56832070 TTT-TGAGGCGGCTATATTGAACCTACGAGCCTTAAGATTACAGCTGGGACCTTGAGCTCGCACT
1 TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCACT
*
56832134 AACTTT
66 AACTAT
56832140 TTTGAGAGG
1 TTTGAGAGG
56832149 GATCATATTA
Statistics
Matches: 664, Mismatches: 159, Indels: 51
0.76 0.18 0.06
Matches are distributed among these distances:
69 16 0.02
70 629 0.95
71 19 0.03
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (71 bp):
TTTGAGAGGCTGCGATATTGAACCTACGAGCCTTAAGATTACAGCTGGGAGCTTGAGCTCGCACT
AACTAT
Found at i:56840513 original size:20 final size:21
Alignment explanation
Indices: 56840488--56840544 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
56840478 ATATTATTGT
* *
56840488 TGTTCAT-GATTTGCCTCCAC
1 TGTTCATGGACTTGACTCCAC
56840508 TGTTCATGGACTTGACTCCAC
1 TGTTCATGGACTTGACTCCAC
56840529 TGTTCATAGGA-TTGAC
1 TGTTCAT-GGACTTGAC
56840545 ATTCAGAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 23 0.70
22 3 0.09
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
TGTTCATGGACTTGACTCCAC
Found at i:56848745 original size:2 final size:2
Alignment explanation
Indices: 56848738--56848762 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56848728 TACATACGCG
56848738 CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA C
56848763 TAAACCTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:56849769 original size:33 final size:33
Alignment explanation
Indices: 56849729--56849799 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
56849719 AGTTGTATTT
* * *
56849729 TTAATTAAATATGGCTTTAGACTGATTTTAAAA
1 TTAATTAAATAAGCCTTTAGACCGATTTTAAAA
* * *
56849762 TTAATTAATTAAGCCTTTAGGCCGGTTTTAAAA
1 TTAATTAAATAAGCCTTTAGACCGATTTTAAAA
56849795 TTAAT
1 TTAAT
56849800 CACACAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (33 bp):
TTAATTAAATAAGCCTTTAGACCGATTTTAAAA
Found at i:56854617 original size:6 final size:6
Alignment explanation
Indices: 56854606--56854641 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
56854596 TTTCAGTTCC
56854606 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA
56854642 CGCACTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
ATTGAA
Found at i:56857833 original size:14 final size:15
Alignment explanation
Indices: 56857814--56857852 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
56857804 CAAAACCGGG
56857814 TAAAAAGATTGTTC-
1 TAAAAAGATTGTTCT
*
56857828 TAAAAATATTGTTCT
1 TAAAAAGATTGTTCT
*
56857843 TAAAATGATT
1 TAAAAAGATT
56857853 TTTGCCTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (15 bp):
TAAAAAGATTGTTCT
Found at i:56859653 original size:24 final size:24
Alignment explanation
Indices: 56859608--56859653 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
56859598 GGACGTTATC
* * *
56859608 TGAAAAGGATATCATTGGAAAGGT
1 TGAAAAGGATAACAATGAAAAGGT
56859632 TGAAAAGGATAACAATGAAAAG
1 TGAAAAGGATAACAATGAAAAG
56859654 TTCGGTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.04, G:0.26, T:0.20
Consensus pattern (24 bp):
TGAAAAGGATAACAATGAAAAGGT
Found at i:56864099 original size:25 final size:26
Alignment explanation
Indices: 56864071--56864125 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
56864061 AAAATCCTAT
*
56864071 GTGGCGTA-TTACTTAGGAAGCCTTA
1 GTGGCGAAGTTACTTAGGAAGCCTTA
* * *
56864096 GTGGCGAAGTTATTTGGGAAGCCTTT
1 GTGGCGAAGTTACTTAGGAAGCCTTA
56864122 GTGG
1 GTGG
56864126 TGATTTATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.20, C:0.13, G:0.35, T:0.33
Consensus pattern (26 bp):
GTGGCGAAGTTACTTAGGAAGCCTTA
Found at i:56864136 original size:76 final size:75
Alignment explanation
Indices: 56864039--56864180 Score: 185
Period size: 76 Copynumber: 1.9 Consensus size: 75
56864029 AACCAAGCCG
* * *
56864039 AGCCTTTGTGGCGAATCATCTGAAAATCCTATGTGGCGTATTACTTAGGAAGCCTTAGTGGCGAA
1 AGCCTTTGTGGCGAATCATCTGAAAAGCCTATGTGACGTATTACTTAGGAAGCCTCAGTGGC-AA
56864104 GTTATTTGGGA
65 GTTATTTGGGA
* * * * * * *
56864115 AGCCTTTGTGGTGATTTATCTGAAAAGCTTATGTGACGTATTATTTGGGCAGCCTCAGTGGCAAG
1 AGCCTTTGTGGCGAATCATCTGAAAAGCCTATGTGACGTATTACTTAGGAAGCCTCAGTGGCAAG
56864180 T
66 T
56864181 GATCTAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
75 4 0.07
76 52 0.93
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (75 bp):
AGCCTTTGTGGCGAATCATCTGAAAAGCCTATGTGACGTATTACTTAGGAAGCCTCAGTGGCAAG
TTATTTGGGA
Found at i:56865393 original size:84 final size:84
Alignment explanation
Indices: 56865252--56865423 Score: 317
Period size: 84 Copynumber: 2.0 Consensus size: 84
56865242 TAAGTTCTAG
*
56865252 AACTCATTTGGAAGTTGACGCCAAAACCTTCTTCTTAGATTTTTCCCTTGCTACCCGAACCTCCA
1 AACTCACTTGGAAGTTGACGCCAAAACCTTCTTCTTAGATTTTTCCCTTGCTACCCGAACCTCCA
*
56865317 ACAACTTACAAAACATGAC
66 ACAACTTACAAAACATAAC
56865336 AACTCACTTGGAAGTTGACGCCAAAACCTTCTTCTTAGATTTTTCCCTTGCTACCCGAACCTCCA
1 AACTCACTTGGAAGTTGACGCCAAAACCTTCTTCTTAGATTTTTCCCTTGCTACCCGAACCTCCA
*
56865401 GCAACTTACAAAACATAAC
66 ACAACTTACAAAACATAAC
56865420 AACT
1 AACT
56865424 ATTTCAGTCT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.28
Consensus pattern (84 bp):
AACTCACTTGGAAGTTGACGCCAAAACCTTCTTCTTAGATTTTTCCCTTGCTACCCGAACCTCCA
ACAACTTACAAAACATAAC
Found at i:56869808 original size:17 final size:17
Alignment explanation
Indices: 56869786--56869818 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56869776 AATTAATATA
56869786 ATTATTAATTTGTTAAT
1 ATTATTAATTTGTTAAT
*
56869803 ATTATTAATTTTTTAA
1 ATTATTAATTTGTTAA
56869819 ATTTTATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTATTAATTTGTTAAT
Found at i:56872075 original size:76 final size:72
Alignment explanation
Indices: 56871905--56872105 Score: 233
Period size: 76 Copynumber: 2.7 Consensus size: 72
56871895 ATTTGTTTAT
* * *
56871905 TATTTTTACATCAATATTATACTTATTTACAATTTACGAAGAAAAT-GAAAAAAATTTATTTGTA
1 TATTTTTACATCAATAATATACTTATTTACAATTTAC-AAAAAAATGGAAAAAAATTTATTTGGA
*
56871969 TTGCATTG
65 TTACATTG
* * **
56871977 TATTTTTACATCAATAATATACTTATTCAAAATTTACAAAAAAAATGGAAACAATTTTTTATATT
1 TATTTTTACATCAATAATATACTTATTTACAATTTAC-AAAAAAATGGAAA-AA-AATTTAT-TT
*
56872042 GGATTATATTG
62 GGATTACATTG
* * **
56872053 TATTTTAACATAAATAATATACTTATTTACAATTTACCCAAAAATGGAAAAAA
1 TATTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGGAAAAAA
56872106 TGAATAAATG
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
72 41 0.38
73 4 0.04
74 4 0.04
75 16 0.15
76 43 0.40
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.40
Consensus pattern (72 bp):
TATTTTTACATCAATAATATACTTATTTACAATTTACAAAAAAATGGAAAAAAATTTATTTGGAT
TACATTG
Found at i:56877684 original size:22 final size:22
Alignment explanation
Indices: 56877659--56877701 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56877649 GCATGTTTAT
56877659 TTTTC-ATTTTTAGTTTAGTTTG
1 TTTTCGATTTTTA-TTTAGTTTG
*
56877681 TTTTCGATTTTTATTTGGTTT
1 TTTTCGATTTTTATTTAGTTT
56877702 TTATTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.12, C:0.05, G:0.14, T:0.70
Consensus pattern (22 bp):
TTTTCGATTTTTATTTAGTTTG
Found at i:56877684 original size:23 final size:22
Alignment explanation
Indices: 56877653--56877701 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
56877643 TTTCTTGCAT
56877653 GTTTATTTTTC-ATTTTTAGTTTA
1 GTTTA-TTTTCGATTTTTA-TTTA
* *
56877676 GTTTGTTTTCGATTTTTATTTG
1 GTTTATTTTCGATTTTTATTTA
56877698 GTTT
1 GTTT
56877702 TTATTTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.12, C:0.04, G:0.14, T:0.69
Consensus pattern (22 bp):
GTTTATTTTCGATTTTTATTTA
Found at i:56882898 original size:28 final size:26
Alignment explanation
Indices: 56882857--56882922 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 26
56882847 GCAATTCGGG
* *
56882857 CCTTTTTGTTTTTTTCTTTTCTCTTTTT
1 CCTTTTT-TTTTTTTCTTTTCT-TTCTC
56882885 CCTTTTTTTCTTTTTCTTTTCTTTCTC
1 CCTTTTTTT-TTTTTCTTTTCTTTCTC
56882912 CCTTTTTTTTT
1 CCTTTTTTTTT
56882923 GCAGATTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 14 0.40
28 19 0.54
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (26 bp):
CCTTTTTTTTTTTTCTTTTCTTTCTC
Found at i:56882909 original size:15 final size:15
Alignment explanation
Indices: 56882867--56882910 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
56882857 CCTTTTTGTT
56882867 TTTTTCTTTTC--TC
1 TTTTTCTTTTCTTTC
56882880 TTTTTCCTTTT-TTTC
1 TTTTT-CTTTTCTTTC
56882895 TTTTTCTTTTCTTTC
1 TTTTTCTTTTCTTTC
56882910 T
1 T
56882911 CCCTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.19
14 10 0.37
15 12 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTCTTTTCTTTC
Found at i:56883001 original size:23 final size:23
Alignment explanation
Indices: 56882941--56883006 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
56882931 GGCCGTTGCG
56882941 CTGGATGCTGGCCTGCTGCTGGAA
1 CTGGATGCTGGCCTGCTGCTGG-A
* *
56882965 C-GGGT-CTGG--GGCTGCTGGA
1 CTGGATGCTGGCCTGCTGCTGGA
56882984 CTGGATGCTGGCCTGCTGCTGGA
1 CTGGATGCTGGCCTGCTGCTGGA
56883007 ACAGGCCTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
19 2 0.06
20 11 0.32
21 4 0.12
22 4 0.12
23 12 0.35
24 1 0.03
ACGTcount: A:0.09, C:0.24, G:0.42, T:0.24
Consensus pattern (23 bp):
CTGGATGCTGGCCTGCTGCTGGA
Found at i:56883045 original size:43 final size:42
Alignment explanation
Indices: 56882941--56883048 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 42
56882931 GGCCGTTGCG
* * *
56882941 CTGGATGCTGGCCTGCTGCTGGAACGGGTCTGGGGCTGCTGGA
1 CTGGATGCTGG-CAGCTGCTGGAACAGGCCTGGGGCTGCTGGA
* * *
56882984 CTGGATGCTGGCCTGCTGCTGGAACAGGCCTGGGGTTGTTGGA
1 CTGGATGCTGG-CAGCTGCTGGAACAGGCCTGGGGCTGCTGGA
*
56883027 GCTGGCCTGCTGG-AGCTGCTGG
1 -CTGG-ATGCTGGCAGCTGCTGG
56883049 GCAGTGGCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 47 0.82
44 4 0.07
45 6 0.11
ACGTcount: A:0.09, C:0.23, G:0.44, T:0.24
Consensus pattern (42 bp):
CTGGATGCTGGCAGCTGCTGGAACAGGCCTGGGGCTGCTGGA
Found at i:56883168 original size:19 final size:19
Alignment explanation
Indices: 56883146--56883220 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 19
56883136 TATTTTTTTA
56883146 TTCTTTATTTTTTTTCTTT
1 TTCTTTATTTTTTTTCTTT
56883165 TTCTTCTA--TTTTTTCTTT
1 TTCTT-TATTTTTTTTCTTT
*
56883183 TTCTTTCTTTTTCTTT-TTT
1 TTCTTTATTTTT-TTTCTTT
* *
56883202 TCTTTTTATTTTCTTTCTT
1 T-TCTTTATTTTTTTTCTT
56883221 CCCCTTCTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.02
18 15 0.33
19 15 0.33
20 15 0.33
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (19 bp):
TTCTTTATTTTTTTTCTTT
Found at i:56883176 original size:18 final size:17
Alignment explanation
Indices: 56883154--56883221 Score: 79
Period size: 18 Copynumber: 4.0 Consensus size: 17
56883144 TATTCTTTAT
56883154 TTTTTTTCTTTTTCTTC
1 TTTTTTTCTTTTTCTTC
56883171 TATTTTTTCTTTTTCTT-
1 T-TTTTTTCTTTTTCTTC
*
56883188 TCTTTTTCTTTTT-TTC
1 TTTTTTTCTTTTTCTTC
56883204 TTTTTATT-TTCTTTCTTC
1 TTTTT-TTCTT-TTTCTTC
56883222 CCCTTCTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
15 2 0.05
16 17 0.39
17 7 0.16
18 18 0.41
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTTTTTCTTC
Found at i:56883183 original size:24 final size:23
Alignment explanation
Indices: 56883140--56883213 Score: 87
Period size: 24 Copynumber: 3.2 Consensus size: 23
56883130 TGCTGCTATT
*
56883140 TTTTTATTCTTTATTT-TTTTTC
1 TTTTTATTCTTTTTTTCTTTTTC
*
56883162 TTTTTCTTCTATTTTTTCTTTTTC
1 TTTTTATTCT-TTTTTTCTTTTTC
* *
56883186 TTTCTTTTTCTTTTTTTCTTTTTA
1 TTT-TTATTCTTTTTTTCTTTTTC
56883210 TTTT
1 TTTT
56883214 CTTTCTTCCC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
22 9 0.20
23 6 0.13
24 24 0.53
25 6 0.13
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTATTCTTTTTTTCTTTTTC
Found at i:56883208 original size:6 final size:6
Alignment explanation
Indices: 56883146--56883200 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
56883136 TATTTTTTTA
* *
56883146 TTCTTT ATTTTTT TTCTTT TTCTTCT AT-TTT TTCTTT TTC--T TTCTTT
1 TTCTTT -TTCTTT TTCTTT TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT
56883193 TTCTTT TT
1 TTCTTT TT
56883201 TTCTTTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.10
5 2 0.05
6 27 0.68
7 7 0.17
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:56883344 original size:21 final size:21
Alignment explanation
Indices: 56883314--56883365 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
56883304 CGGTATCTCC
* *
56883314 TCTCTTCTTTTCTCTTTT-CTT
1 TCTCTCCTTTCCT-TTTTCCTT
56883335 TCTCTCCTTTCCTTTTTCCTT
1 TCTCTCCTTTCCTTTTTCCTT
56883356 TCTCT-CTTTC
1 TCTCTCCTTTC
56883366 TTTCTCCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (21 bp):
TCTCTCCTTTCCTTTTTCCTT
Found at i:56883599 original size:12 final size:12
Alignment explanation
Indices: 56883584--56883626 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
56883574 GTGGTGGCTT
*
56883584 TGGTGGTTGTAG
1 TGGTGGTTGTGG
*
56883596 TGGTGGTGGTGG
1 TGGTGGTTGTGG
56883608 TGGTGGTTGTGG
1 TGGTGGTTGTGG
56883620 TGGTGGT
1 TGGTGGT
56883627 GTTTACGCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.02, C:0.00, G:0.58, T:0.40
Consensus pattern (12 bp):
TGGTGGTTGTGG
Found at i:56883647 original size:3 final size:3
Alignment explanation
Indices: 56883584--56883627 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
56883574 GTGGTGGCTT
* * *
56883584 TGG TGG TTG TAG TGG TGG TGG TGG TGG TGG TTG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
56883628 TTTACGCGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.02, C:0.00, G:0.59, T:0.39
Consensus pattern (3 bp):
TGG
Found at i:56884041 original size:30 final size:30
Alignment explanation
Indices: 56883905--56884064 Score: 105
Period size: 30 Copynumber: 5.4 Consensus size: 30
56883895 TTCTAGGGCA
* * * *
56883905 AAAATGCAATTTTAGAAAAATATAGGGCT-
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
* *
56883934 AAAGTGTAATTTCTAG-AAAGTTTAGGGGCC
1 AAAATGTAATTT-TAGAAAAGTTTAGGGGTC
* * * * *
56883964 CAATTATAA-TTTACAAAA-TATTAGGGGTT
1 AAAATGTAATTTTAGAAAAGT-TTAGGGGTC
* *
56883993 AAGATGTAAATTTAGAAAAAG-TTAGGGGTC
1 AAAATGTAATTTTAG-AAAAGTTTAGGGGTC
* * * *
56884023 AAAATATAATTTTTGAAAAGTTTGGGGGCC
1 AAAATGTAATTTTAGAAAAGTTTAGGGGTC
56884053 AAAATGTAATTT
1 AAAATGTAATTT
56884065 ATATTTTTTG
Statistics
Matches: 98, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
28 3 0.03
29 41 0.42
30 50 0.51
31 4 0.04
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (30 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGGTC
Found at i:56884613 original size:74 final size:74
Alignment explanation
Indices: 56884335--56885176 Score: 1059
Period size: 74 Copynumber: 11.1 Consensus size: 74
56884325 TTTTTATTTG
* * * * * *
56884335 AAAA-ACAGAAACTGAAAATACCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTTAGCAATATG
1 AAAAGACAGAAATTAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTC-T-GTATTATG
**
56884399 AGTTGATTTT-TG
62 AGTTGATTTTAAA
* * ** * *
56884411 AAAA-ACAGAAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAGACAGAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTAT
*
56884475 GAGTTGATTTTTTTGAA
61 GAGTTGA---TTTTAAA
*
56884492 AAAA-ACAGAAATTTAAAAGAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTCGTATTAT
1 AAAAGACAGAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTAT
56884556 GAGTTGA-TTTAAA
61 GAGTTGATTTTAAA
* *
56884569 AAAAGATAGAAATTAAAAATACCTCAGCGTGACCCGATGCTCAACTCACCTCTGTATTATGAGTT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
56884634 GATTTTTAAA
66 GA-TTTTAAA
* *
56884644 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATAAGTT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
*
56884709 TATTTTTTTTAAA
66 GA----TTTTAAA
*
56884722 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
56884787 GATTTTTTAAAA
66 GA--TTTT-AAA
* * *
56884799 AAAAGACATAAATTAAAAATACCTCAGCATGACCCAAGGCTCAACTCACCTCTGTATTATGAGTT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
56884864 GATTTTTAAA
66 GA-TTTTAAA
* *
56884874 AAAA-ACCGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTATATTATGAGTT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
56884938 GATTTTTTAAA
66 GA--TTTTAAA
* *
56884949 AAAAGACATAAATTAAAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTGTATTATGAGTT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
*
56885014 GATTTAAAA
66 GATTTTAAA
*
56885023 AAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
56885088 GATTTT-AA
66 GATTTTAAA
* *
56885096 AAAAGACCGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTCTCGTATTATGAGT
1 AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGT
56885161 TGATATTTGAAA
65 TGAT-TTT-AAA
56885173 AAAA
1 AAAA
56885177 TAGAAAGTGA
Statistics
Matches: 703, Mismatches: 42, Indels: 41
0.89 0.05 0.05
Matches are distributed among these distances:
73 66 0.09
74 182 0.26
75 92 0.13
76 80 0.11
77 101 0.14
78 101 0.14
79 1 0.00
80 16 0.02
81 64 0.09
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (74 bp):
AAAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
GATTTTAAA
Found at i:56885007 original size:150 final size:152
Alignment explanation
Indices: 56884349--56885176 Score: 1110
Period size: 150 Copynumber: 5.4 Consensus size: 152
56884339 ACAGAAACTG
* * * * * *
56884349 AAAATACCTCGGCGTGTGGCCCGAGGCTCAACTCACCTCTTAGCAATATGAGTTGATTTTT--GA
1 AAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTC-TCGTATTATGAGTTGATTTTTAAAA
* * ** * *
56884412 AAA-ACAGAAATTTAAAAGAAATACCTCGGCATGGTCCGAGGCTCAACTCACCTCTCGCAATATG
63 AAAGACAGAAA-TT--AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATG
* *
56884476 AGTTGATTTTTTTGAAAAAA-ACAGAAATTTAAA
123 AGTTGA-TTTTTTAAAAAAAGACATAAA-TT--A
*
56884509 AGAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA--TTTAAAAAA
1 A-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAA
* *
56884572 AGATAGAAATTAAAAATACCTCAGCGTGACCCGATGCTCAACTCACCTCTGTATTATGAGTTGA-
65 AGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGAT
56884636 TTTTTAAAAAAAGACATAAATTA
130 TTTTTAAAAAAAGACATAAATTA
* *
56884659 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATAAGTTTATTTTTTTTAAAA
1 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA---TTTTTAAAA
*
56884723 AAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTG
63 AAAGACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTG
56884788 ATTTTTTAAAAAAAAGACATAAATTA
128 ATTTTTT-AAAAAAAGACATAAATTA
* *
56884814 AAAATACCTCAGCATGACCCAAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTAAAAAAA
1 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAA
* *
56884878 -ACCGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTATATTATGAGTTGATT
66 GACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATT
56884942 TTTTAAAAAAAGACATAAATTA
131 TTTTAAAAAAAGACATAAATTA
* *
56884964 AAAATACCTCAGCGTGACTCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTAAAAAAAA
1 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAA
*
56885027 GACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA--
66 GACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATT
**
56885090 TTTT-AAAAAAGACCGAAATTA
131 TTTTAAAAAAAGACATAAATTA
* *
56885111 AAAATACCTCAGCGTGACCCGAGGCTCAACTTACCTCTCGTATTATGAGTTGATATTTGAAAAAA
1 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGAT-TTTTAAAAAA
56885176 A
65 A
56885177 TAGAAAGTGA
Statistics
Matches: 610, Mismatches: 42, Indels: 42
0.88 0.06 0.06
Matches are distributed among these distances:
147 51 0.08
148 30 0.05
149 46 0.08
150 138 0.23
151 65 0.11
152 25 0.04
153 76 0.12
154 17 0.03
155 98 0.16
156 5 0.01
158 19 0.03
159 28 0.05
160 1 0.00
161 11 0.02
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (152 bp):
AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTAAAAAAA
GACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATT
TTTTAAAAAAAGACATAAATTA
Found at i:56886061 original size:12 final size:11
Alignment explanation
Indices: 56886046--56886112 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
56886036 CGGGTTTTCA
56886046 TCTTGATTTTTT
1 TCTTG-TTTTTT
*
56886058 TCTTCTTTTTT
1 TCTTGTTTTTT
* *
56886069 T-TTCTTGTTT
1 TCTTGTTTTTT
56886079 T-TTGTTTTGTT
1 TCTTGTTTT-TT
*
56886090 TGTT-TTTTGTT
1 TCTTGTTTT-TT
56886101 TCTTGTTTTTT
1 TCTTGTTTTTT
56886112 T
1 T
56886113 AGGCATAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
10 14 0.30
11 23 0.49
12 10 0.21
ACGTcount: A:0.01, C:0.07, G:0.10, T:0.81
Consensus pattern (11 bp):
TCTTGTTTTTT
Found at i:56886064 original size:15 final size:13
Alignment explanation
Indices: 56886052--56886112 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
56886042 TTCATCTTGA
56886052 TTTTTTTCTTCTT
1 TTTTTTTCTTCTT
*
56886065 TTTTTTTCTTGTT
1 TTTTTTTCTTCTT
* *
56886078 TTTTGTT-TTGTT
1 TTTTTTTCTTCTT
*
56886090 TGTTTTTTGTTTCTT
1 T-TTTTTT-CTTCTT
56886105 GTTTTTTT
1 -TTTTTTT
56886113 AGGCATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 6 0.15
13 23 0.57
15 10 0.25
16 1 0.03
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.84
Consensus pattern (13 bp):
TTTTTTTCTTCTT
Found at i:56886085 original size:7 final size:7
Alignment explanation
Indices: 56886063--56886111 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
56886053 TTTTTTCTTC
56886063 TTTTTT-
1 TTTTTTG
*
56886069 TTTCTTG
1 TTTTTTG
56886076 TTTTTTG
1 TTTTTTG
56886083 TTTTGTTTG
1 -TTT-TTTG
56886092 TTTTTTG
1 TTTTTTG
*
56886099 TTTCTTG
1 TTTTTTG
56886106 TTTTTT
1 TTTTTT
56886112 TAGGCATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 5 0.14
7 21 0.58
8 6 0.17
9 4 0.11
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (7 bp):
TTTTTTG
Found at i:56886086 original size:16 final size:16
Alignment explanation
Indices: 56886063--56886111 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
56886053 TTTTTTCTTC
56886063 TTTT-TTTTTCTTGTT
1 TTTTGTTTTTCTTGTT
56886078 TTTTGTTTTGT-TTGTT
1 TTTTGTTTT-TCTTGTT
56886094 TTTTG--TTTCTTGTT
1 TTTTGTTTTTCTTGTT
56886108 TTTT
1 TTTT
56886112 TAGGCATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.03
14 11 0.35
15 4 0.13
16 14 0.45
17 1 0.03
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTGTTTTTCTTGTT
Found at i:56886112 original size:16 final size:15
Alignment explanation
Indices: 56886063--56886112 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
56886053 TTTTTTCTTC
56886063 TTTTTTTTTCTTGTT
1 TTTTTTTTTCTTGTT
56886078 TTTTGTTTTGT-TTG-T
1 TTTT-TTTT-TCTTGTT
*
56886093 TTTTTGTTTCTTGTT
1 TTTTTTTTTCTTGTT
56886108 TTTTT
1 TTTTT
56886113 AGGCATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 1 0.03
14 6 0.20
15 15 0.50
16 7 0.23
17 1 0.03
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTCTTGTT
Found at i:56891682 original size:18 final size:18
Alignment explanation
Indices: 56891659--56891937 Score: 126
Period size: 17 Copynumber: 15.6 Consensus size: 18
56891649 CAACTTTTTC
56891659 TTTTTTGAAAACACGAAT
1 TTTTTTGAAAACACGAAT
* *
56891677 TTTTTTAAAATACAAGAA-
1 TTTTTTGAAA-ACACGAAT
*
56891695 -TTTTAG-AAACACGAAACT
1 TTTTTTGAAAACACG-AA-T
*
56891713 TTTGTTTAAAAAACACGAA-
1 TTT-TTT-GAAAACACGAAT
**
56891732 AATTTTG-AAACACGAGATT
1 TTTTTTGAAAACACGA-A-T
56891751 TTTTTTGAAAACACGAATTT
1 TTTTTTGAAAACACGAA--T
56891771 TCTTTTTG-AAACACGAATTT
1 T-TTTTTGAAAACACGAA--T
*
56891791 TTTTTTG-AAACACGAAA
1 TTTTTTGAAAACACGAAT
*
56891808 ATTTTT-AAAACACGAGA-
1 TTTTTTGAAAACACGA-AT
* * * *
56891825 ATTTTAG-AGACACGAAA
1 TTTTTTGAAAACACGAAT
* * *
56891842 ATTATTAAAAACAC-AA-
1 TTTTTTGAAAACACGAAT
56891858 -TTTTTGAAAACACGACA-
1 TTTTTTGAAAACACGA-AT
*
56891875 -ATTTTG-AAACACGAGAAT
1 TTTTTTGAAAACAC--GAAT
*
56891893 TTTTTTGAAAACAC-TAT
1 TTTTTTGAAAACACGAAT
*
56891910 TTTTTTG-AAACACGAAA
1 TTTTTTGAAAACACGAAT
56891927 TTTTTTGAAAA
1 TTTTTTGAAAA
56891938 GACGTATCGT
Statistics
Matches: 206, Mismatches: 27, Indels: 56
0.71 0.09 0.19
Matches are distributed among these distances:
15 15 0.07
16 26 0.13
17 60 0.29
18 23 0.11
19 35 0.17
20 32 0.16
21 8 0.04
22 7 0.03
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (18 bp):
TTTTTTGAAAACACGAAT
Found at i:56891695 original size:19 final size:18
Alignment explanation
Indices: 56891659--56891698 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
56891649 CAACTTTTTC
* *
56891659 TTTTTTGAAAACACGAAT
1 TTTTTTAAAAACAAGAAT
56891677 TTTTTTAAAATACAAGAAT
1 TTTTTTAAAA-ACAAGAAT
56891696 TTT
1 TTT
56891699 AGAAACACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (18 bp):
TTTTTTAAAAACAAGAAT
Found at i:56891744 original size:38 final size:36
Alignment explanation
Indices: 56891661--56891937 Score: 141
Period size: 36 Copynumber: 7.7 Consensus size: 36
56891651 ACTTTTTCTT
* *
56891661 TTTTGAAAACACG-AATTTTTTTAAAATACA--AGAA
1 TTTTG-AAACACGAAATTTTTTTAAAAAACACGAAAA
56891695 TTTTAGAAACACGAAACTTTTGTTTAAAAAACACGAAAA
1 TTTT-GAAACACGAAA-TTTT-TTTAAAAAACACGAAAA
* ** **
56891734 TTTTGAAACACGAGATTTTTTTTGAAAACACGAATTTTCT
1 TTTTGAAACACGAAATTTTTTTAAAAAACACGAA----AA
***
56891774 TTTTGAAACACG-AATTTTTTTTTGAAACACGAAAA
1 TTTTGAAACACGAAATTTTTTTAAAAAACACGAAAA
* * *
56891809 TTTTTAAAACACGAGAA---TTTT-AGAGACACGAAAA
1 -TTTTGAAACACGA-AATTTTTTTAAAAAACACGAAAA
* * *
56891843 TTATT-AAAAAC-ACAA--TTTTT-GAAAACACGACAA
1 TT-TTGAAACACGA-AATTTTTTTAAAAAACACGAAAA
* * ***
56891876 TTTTGAAACACGAGAATTTTTTT-GAAAACACTATTT
1 TTTTGAAACACGA-AATTTTTTTAAAAAACACGAAAA
*
56891912 TTTTGAAACACGAAATTTTTTGAAAA
1 TTTTGAAACACGAAATTTTTTTAAAA
56891938 GACGTATCGT
Statistics
Matches: 194, Mismatches: 29, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
32 5 0.03
33 27 0.14
34 27 0.14
35 15 0.08
36 57 0.29
37 14 0.07
38 12 0.06
39 25 0.13
40 12 0.06
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (36 bp):
TTTTGAAACACGAAATTTTTTTAAAAAACACGAAAA
Found at i:56891764 original size:20 final size:19
Alignment explanation
Indices: 56891734--56891806 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 19
56891724 AACACGAAAA
56891734 TTTTGAAACACGAGA-TTTT
1 TTTTGAAACACGA-ATTTTT
56891753 TTTTGAAAACACGAATTTTCT
1 TTTTG-AAACACGAATTTT-T
56891774 TTTTGAAACACGAATTTTT
1 TTTTGAAACACGAATTTTT
56891793 TTTTGAAACACGAA
1 TTTTGAAACACGAA
56891807 AATTTTTAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
19 21 0.41
20 24 0.47
21 6 0.12
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (19 bp):
TTTTGAAACACGAATTTTT
Found at i:56892429 original size:7 final size:7
Alignment explanation
Indices: 56892419--56892457 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
56892409 GCCTTTTTGT
56892419 TTTTTTC
1 TTTTTTC
*
56892426 TTTTCTC
1 TTTTTTC
*
56892433 TTTTTCC
1 TTTTTTC
56892440 TTTTTTC
1 TTTTTTC
*
56892447 CTTTTTC
1 TTTTTTC
56892454 TTTT
1 TTTT
56892458 CTTTTTCCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:56892437 original size:21 final size:21
Alignment explanation
Indices: 56892418--56892471 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
56892408 GGCCTTTTTG
*
56892418 TTTTTTTCTTTTCTCTTTTTCC
1 TTTTTTCCTTTT-TCTTTTTCC
56892440 TTTTTTCCTTTTTC-TTTT-C
1 TTTTTTCCTTTTTCTTTTTCC
*
56892459 TTTTTCCCTTTTT
1 TTTTTTCCTTTTT
56892472 TTTGCAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 2 0.07
22 11 0.37
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTCCTTTTTCTTTTTCC
Found at i:56892473 original size:28 final size:28
Alignment explanation
Indices: 56892420--56892472 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
56892410 CCTTTTTGTT
*
56892420 TTTTTCTTTTCTCTTTTTCCTTTTTTCC
1 TTTTTCTTTTCTCTTTTCCCTTTTTTCC
56892448 TTTTTCTTTTCT-TTTTCCCTTTTTT
1 TTTTTCTTTTCTCTTTTCCCTTTTTT
56892473 TTGCAGATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTCTTTTCTCTTTTCCCTTTTTTCC
Found at i:56892558 original size:43 final size:44
Alignment explanation
Indices: 56892492--56892583 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 44
56892482 GGGCCGTTGG
* * * *
56892492 GCTGGATGCTGGCCTGCTGCTGGAACGGGCCTGGGGCTGCTGGA
1 GCTGGACGCTGGCCTACTACTGGAACAGGCCTGGGGCTGCTGGA
*
56892536 -CTGGACGCTGGCCTACTACTGGAACAGGCCTGGGGTTGCTGGA
1 GCTGGACGCTGGCCTACTACTGGAACAGGCCTGGGGCTGCTGGA
56892579 GCTGG
1 GCTGG
56892584 CCTGCTGGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 38 0.90
44 4 0.10
ACGTcount: A:0.12, C:0.25, G:0.42, T:0.21
Consensus pattern (44 bp):
GCTGGACGCTGGCCTACTACTGGAACAGGCCTGGGGCTGCTGGA
Found at i:56892734 original size:6 final size:6
Alignment explanation
Indices: 56892723--56892784 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
56892713 TTTATTATTT
*
56892723 TTTTTC TTTTTC TTCTAT- TTTTTC TTTTTC --TTTC TTTTTC TTTTT-
1 TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
56892768 TTCTTTC TATTTTC TTT
1 TT-TTTC T-TTTTC TTT
56892785 CTTCCCCTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 30 0.64
7 8 0.17
8 1 0.02
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:56892743 original size:19 final size:20
Alignment explanation
Indices: 56892721--56892787 Score: 88
Period size: 18 Copynumber: 3.5 Consensus size: 20
56892711 TCTTTATTAT
56892721 TTTTTTTCTTTTTC-TTCTA
1 TTTTTTTCTTTTTCTTTCTA
56892740 -TTTTTTCTTTTTCTTTCT-
1 TTTTTTTCTTTTTCTTTCTA
*
56892758 TTTTCTT-TTTTTCTTTCTA
1 TTTTTTTCTTTTTCTTTCTA
56892777 TTTTCTTTCTT
1 TTTT-TTTCTT
56892788 CCCCTTCTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 24 0.59
19 13 0.32
20 2 0.05
21 2 0.05
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTCTTTTTCTTTCTA
Found at i:56892749 original size:34 final size:34
Alignment explanation
Indices: 56892705--56892771 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
56892695 GCTGCTGTTT
56892705 TTTTATTCTTTATTATTT-TTTTTCTTTTTCTTCTA
1 TTTTATTCTTT-TTATTTCTTTTTCTTTTT-TTCTA
*
56892740 TTTT-TTCTTTTTCTTTCTTTTTCTTTTTTTCT
1 TTTTATTCTTTTTATTTCTTTTTCTTTTTTTCT
56892772 TTCTATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 9 0.30
34 17 0.57
35 4 0.13
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (34 bp):
TTTTATTCTTTTTATTTCTTTTTCTTTTTTTCTA
Found at i:56892756 original size:28 final size:27
Alignment explanation
Indices: 56892722--56892780 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
56892712 CTTTATTATT
*
56892722 TTTTTTCTTTTTCTTCTA-TTTTTTCTT
1 TTTTTTCTTTTTCTT-TATTTTTTTCTA
56892749 TTTCTTTCTTTTTCTTT-TTTTCTTTCTA
1 TTT-TTTCTTTTTCTTTATTTT-TTTCTA
56892777 TTTT
1 TTTT
56892781 CTTTCTTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTCTTTTTCTTTATTTTTTTCTA
Found at i:56892911 original size:21 final size:21
Alignment explanation
Indices: 56892881--56892932 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
56892871 CGGTATCTCC
* *
56892881 TCTCTTCTTTTCTCTTTT-CTT
1 TCTCTCCTTTCCT-TTTTCCTT
56892902 TCTCTCCTTTCCTTTTTCCTT
1 TCTCTCCTTTCCTTTTTCCTT
56892923 TCTCT-CTTTC
1 TCTCTCCTTTC
56892933 TTTCTCCCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (21 bp):
TCTCTCCTTTCCTTTTTCCTT
Found at i:56893170 original size:15 final size:15
Alignment explanation
Indices: 56893150--56893180 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56893140 GTTTTTAGGT
56893150 GGTGGTGGTGGTTGC
1 GGTGGTGGTGGTTGC
*
56893165 GGTGGTGGTGTTTGC
1 GGTGGTGGTGGTTGC
56893180 G
1 G
56893181 CGAGGGTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.58, T:0.35
Consensus pattern (15 bp):
GGTGGTGGTGGTTGC
Found at i:56893518 original size:30 final size:30
Alignment explanation
Indices: 56893461--56893613 Score: 120
Period size: 30 Copynumber: 5.2 Consensus size: 30
56893451 GAAAAAATGC
* * *
56893461 AATTTTAGAAAAATATA-GGGCTAAAGTGT
1 AATTTTAGAAAAGTTTAGGGGCCAAAGTGT
*
56893490 AATTTCTAG-AAAGTTTAGGGGCCCAAGTGT
1 AATTT-TAGAAAAGTTTAGGGGCCAAAGTGT
* *
56893520 AA-TTTATAAAA-TATTAGGGGTC-AAGATGT
1 AATTTTAGAAAAGT-TTAGGGGCCAAAG-TGT
* ** *
56893549 AAATTTAGAAAAAG-TTAGGGGTTAAAATGT
1 AATTTTAG-AAAAGTTTAGGGGCCAAAGTGT
* *
56893579 AATTTTTGAAAAGTTTAGGGGCCAAAATGT
1 AATTTTAGAAAAGTTTAGGGGCCAAAGTGT
56893609 AATTT
1 AATTT
56893614 ATATTTTTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
28 6 0.06
29 34 0.34
30 55 0.54
31 6 0.06
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (30 bp):
AATTTTAGAAAAGTTTAGGGGCCAAAGTGT
Found at i:56894131 original size:14 final size:15
Alignment explanation
Indices: 56894095--56894133 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
56894085 CCTTTTTTGT
*
56894095 TTTTTTTTGTTTTTC
1 TTTTTTTTGCTTTTC
*
56894110 TCTTTTTT-CTTTTC
1 TTTTTTTTGCTTTTC
56894124 TTTTTTTTGC
1 TTTTTTTTGC
56894134 AGATTGGGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTTTTTTGCTTTTC
Found at i:56894399 original size:21 final size:21
Alignment explanation
Indices: 56894373--56894413 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
56894363 GTGGCCTGCT
56894373 GGGTTGCACGGGTCGGGTCGC
1 GGGTTGCACGGGTCGGGTCGC
*
56894394 GGGTTGCACTGGTCGGGTCG
1 GGGTTGCACGGGTCGGGTCG
56894414 GTTCAGTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.22, G:0.51, T:0.22
Consensus pattern (21 bp):
GGGTTGCACGGGTCGGGTCGC
Found at i:56894478 original size:13 final size:12
Alignment explanation
Indices: 56894462--56894539 Score: 67
Period size: 12 Copynumber: 6.8 Consensus size: 12
56894452 TTTTTTTATA
56894462 TTTTTTCTTTCCT
1 TTTTTTCTTT-CT
*
56894475 TTTTCTCTTT-T
1 TTTTTTCTTTCT
*
56894486 TTCTTTCTCTTC-
1 TTTTTTCT-TTCT
56894498 TTTTTTCTTTC-
1 TTTTTTCTTTCT
56894509 -TTTTT-TTTCT
1 TTTTTTCTTTCT
*
56894519 CTTTTTCTTTCT
1 TTTTTTCTTTCT
*
56894531 TTCTTTCTT
1 TTTTTTCTT
56894540 CTTCCTTCCC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
9 4 0.07
10 5 0.09
11 15 0.28
12 21 0.39
13 9 0.17
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:56894499 original size:16 final size:16
Alignment explanation
Indices: 56894480--56894539 Score: 70
Period size: 16 Copynumber: 3.7 Consensus size: 16
56894470 TTCCTTTTTC
56894480 TCTTTTTTCTTTCTCT
1 TCTTTTTTCTTTCTCT
56894496 TCTTTTTTCTTTCT-T
1 TCTTTTTTCTTTCTCT
*
56894511 T-TTTTTCTCTTTTTCTT
1 TCTTTTT-TCTTTCTC-T
56894528 TCTTTCTTTCTT
1 TCTTT-TTTCTT
56894540 CTTCCTTCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 5 0.13
15 8 0.21
16 14 0.37
17 2 0.05
18 7 0.18
19 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TCTTTTTTCTTTCTCT
Found at i:56894502 original size:36 final size:36
Alignment explanation
Indices: 56894462--56894546 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
56894452 TTTTTTTATA
56894462 TTTTTTCTTTCCTTTTTCTCT-TTTTTCTTTCTCTTC
1 TTTTTTCTTTCCTTTTTCTCTCTTTTTCTTTCT-TTC
* *
56894498 TTTTTTCTTTCTTTTTTTTCTCTTTTTCTTTCTTTC
1 TTTTTTCTTTCCTTTTTCTCTCTTTTTCTTTCTTTC
*
56894534 TTTCTTC-TTCCTT
1 TTTTTTCTTTCCTT
56894547 CCCTTCGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 5 0.11
36 28 0.64
37 11 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (36 bp):
TTTTTTCTTTCCTTTTTCTCTCTTTTTCTTTCTTTC
Found at i:56894512 original size:25 final size:28
Alignment explanation
Indices: 56894480--56894547 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 28
56894470 TTCCTTTTTC
56894480 TCTTTTTTCTTTCTCTTCTT-TTTTC-TT
1 TCTTTTTTC-TTCTCTTCTTCTTTTCTTT
*
56894507 TCTTTTTT-TTCTCTTTTTC-TTTC-TT
1 TCTTTTTTCTTCTCTTCTTCTTTTCTTT
*
56894532 TCTTTCTTCTTC-CTTC
1 TCTTTTTTCTTCTCTTC
56894548 CCTTCGACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 25 0.69
26 3 0.08
27 8 0.22
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (28 bp):
TCTTTTTTCTTCTCTTCTTCTTTTCTTT
Found at i:56894537 original size:20 final size:20
Alignment explanation
Indices: 56894463--56894538 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
56894453 TTTTTTATAT
*
56894463 TTTTTCTTTCCTT-TTTCTC
1 TTTTTCTTTCTTTCTTTCTC
56894482 --TTT-TTTCTTTCTCTTCT-
1 TTTTTCTTTCTTTCT-TTCTC
*
56894499 TTTTTCTTTCTTTTTTTTCTC
1 TTTTTCTTTC-TTTCTTTCTC
56894520 TTTTTCTTTCTTTCTTTCT
1 TTTTTCTTTCTTTCTTTCT
56894539 TCTTCCTTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
16 6 0.13
17 4 0.09
18 4 0.09
19 3 0.06
20 16 0.34
21 14 0.30
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTCTTTCTTTCTC
Found at i:56895134 original size:29 final size:28
Alignment explanation
Indices: 56895088--56895199 Score: 98
Period size: 30 Copynumber: 3.8 Consensus size: 28
56895078 TTCTAGAAAT
* *
56895088 TTTAGGGGCCCAAGTGTAATTTAAAAAA
1 TTTAGGGGCCAAAATGTAATTTAAAAAA
*
56895116 TATTAGGGGTCAAAATGTAAATTTATAAAAA
1 T-TTAGGGGCCAAAATGT-AATTTA-AAAAA
* * ** * *
56895147 GTTAGGGGTCAAAACATAATTTTTGAAAAG
1 TTTAGGGGCCAAAATGTAA--TTTAAAAAA
56895177 TTTAGGGGCCAAAATGTAATTTA
1 TTTAGGGGCCAAAATGTAATTTA
56895200 TATTTTTTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
28 4 0.06
29 15 0.23
30 39 0.59
31 8 0.12
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (28 bp):
TTTAGGGGCCAAAATGTAATTTAAAAAA
Found at i:56895152 original size:30 final size:29
Alignment explanation
Indices: 56895102--56895201 Score: 112
Period size: 30 Copynumber: 3.4 Consensus size: 29
56895092 GGGGCCCAAG
*
56895102 TGTAATTTA-AAAAATATTAGGGGTCAAAA
1 TGTAATTTATAAAAA-GTTAGGGGTCAAAA
56895131 TGTAAATTTATAAAAAGTTAGGGGTCAAAA
1 TGT-AATTTATAAAAAGTTAGGGGTCAAAA
** * * *
56895161 CATAATTTTTGAAAAGTTTAGGGGCCAAAA
1 TGTAATTTATAAAAAG-TTAGGGGTCAAAA
56895191 TGTAATTTATA
1 TGTAATTTATA
56895202 TTTTTTGTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
29 14 0.24
30 39 0.67
31 5 0.09
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (29 bp):
TGTAATTTATAAAAAGTTAGGGGTCAAAA
Found at i:56907562 original size:44 final size:42
Alignment explanation
Indices: 56907491--56907917 Score: 342
Period size: 44 Copynumber: 9.9 Consensus size: 42
56907481 GATCCTTTGT
* * *
56907491 TTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTA-C
* * * * *
56907535 ATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CCTAA
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTAC
*** * * * * *
56907576 TACGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAT
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TCTAC
* *
56907620 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTA-C
* * * *
56907664 TTTAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCCTTTAT
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT--TCTAC
*
56907708 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTA-C
* *
56907752 TTTAATCTGCTCCGCTTTAATCTCAGGGAGATAAGA-TCTGAC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCT-AC
*** * * * * *
56907794 -ACGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAT
1 TTTAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TCTAC
* *
56907837 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CTA-C
*
56907881 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
1 TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
56907918 CTGAAAATCT
Statistics
Matches: 298, Mismatches: 65, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
40 2 0.01
41 52 0.17
42 9 0.03
43 9 0.03
44 221 0.74
45 4 0.01
46 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (42 bp):
TTTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTAC
Found at i:56907627 original size:129 final size:129
Alignment explanation
Indices: 56907384--56908063 Score: 509
Period size: 129 Copynumber: 5.2 Consensus size: 129
56907374 CTCCGCAACG
* * * * * * * * *
56907384 TCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAACCTGATG
1 TCAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGACCTAATG
* * * *
56907449 CGATCTACTCTATTATAACTTCAGTGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATC
66 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
* * * * *
56907513 TCAGGGAAATAGGATTACTAGCATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATA
1 TCAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGACCTAATG
*
56907578 CGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
66 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
* * *
56907642 TCAGGGAGATAGGATTACTATCTTTAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCCTTTA
1 TCAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-CC--TA
* *** * * * * * * * *
56907707 TTTTAATCTGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTATCTTTAATCTGCTCCGCTT
63 ATGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCT-TTAT-TTTAATCCGCTCCACTG
56907769 TAATC
125 TAATC
* * * * *
56907774 TCAGGGAGATAAGA-T-CT-GAC-ACGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTT
1 TCAGGGAGATAGGATTACTAG-CTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGA-CC--
* *** ** * * * * * * *
56907834 TATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGCTCCAC
61 TAATGCGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCT-TTA-TTTTAATCCGCTCCAC
56907896 TGTAATC
123 TGTAATC
* ** * ** ** * * * * *
56907903 TCAGGGAGATAAGATCTGAAAATCTTCGGTCTGTTCCACTGTAATATTAGGGAAATAAAACCTGA
1 TCAGGGAGATAGGAT-T-ACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGACCTAA
* * * *
56907968 CGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAAT
64 TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAT
56908033 C
129 C
*
56908034 TCAGGGAGATAGGATTACTAACTTCAATCT
1 TCAGGGAGATAGGATTACTAGCTTCAATCT
56908064 GATATAGGAT
Statistics
Matches: 446, Mismatches: 86, Indels: 38
0.78 0.15 0.07
Matches are distributed among these distances:
128 1 0.00
129 281 0.63
130 7 0.02
131 65 0.15
132 64 0.14
133 4 0.01
134 24 0.05
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (129 bp):
TCAGGGAGATAGGATTACTAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGACCTAATG
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC
Found at i:56907761 original size:217 final size:217
Alignment explanation
Indices: 56907469--56907918 Score: 756
Period size: 217 Copynumber: 2.1 Consensus size: 217
56907459 TATTATAACT
* *
56907469 TCAGTGAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAG
1 TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAG
* *
56907534 CATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAATACGATCTTCTCTACTGTAACTT
66 CATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAACACGATCTACTCTACTGTAACTT
*
56907599 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATC
131 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
* *
56907664 TTTAATCTACTCCGCTGTAATC
196 TTCAATCTACTCCACTGTAATC
* * *
56907686 TCAGGGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAT
1 TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAG
* * * * *
56907751 CTTTAATCTGCTCCGCTTTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTT
66 CATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAACACGATCTACTCTACTGTAACTT
56907816 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
131 CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
*
56907881 TTCAATCTGCTCCACTGTAATC
196 TTCAATCTACTCCACTGTAATC
56907903 TCAGGGAGATAAGATC
1 TCAGGGAGATAAGATC
56907919 TGAAAATCTT
Statistics
Matches: 217, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 217 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (217 bp):
TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTAG
CATCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTAACACGATCTACTCTACTGTAACTT
CAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
TTCAATCTACTCCACTGTAATC
Found at i:56908073 original size:25 final size:25
Alignment explanation
Indices: 56908042--56908091 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
56908032 TCTCAGGGAG
56908042 ATAGGATTACTAACTTCAATCTGAT
1 ATAGGATTACTAACTTCAATCTGAT
56908067 ATAGGATTACTAACTTCAATCTGAT
1 ATAGGATTACTAACTTCAATCTGAT
56908092 CCGCTGTAAT
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:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (25 bp):
ATAGGATTACTAACTTCAATCTGAT
Found at i:56908210 original size:200 final size:200
Alignment explanation
Indices: 56907867--56908261 Score: 675
Period size: 200 Copynumber: 2.0 Consensus size: 200
56907857 TCTCAGGGAG
* * *
56907867 ATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAATCTTCGG
1 ATAGGATTACTAACTTCAATCTGATCCACTGTAATCTCAAGGAGATAAGATCTGAAAATCTTCGG
*
56907932 TCTGTTCCACTGTAATATTAGGGAAATAAAACCTGACGCGATCTACTCTGCTGTAACTTCAGAGA
66 TCTGTTCCACTGTAATATCAGGGAAATAAAACCTGACGCGATCTACTCTGCTGTAACTTCAGAGA
56907997 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
131 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
56908062 CTGAT
196 CTGAT
* *
56908067 ATAGGATTACTAACTTCAATCTGATCCGCTGTAATCTGAAGGAGATAAGATCT-AAAATTCTTCG
1 ATAGGATTACTAACTTCAATCTGATCCACTGTAATCTCAAGGAGATAAGATCTGAAAA-TCTTCG
* * * *
56908131 GTCTGTTCCACTGTAATCTCAGGGAAATAAGACTTGACGCGATCTACTCTGCTGTAACTTTAGAG
65 GTCTGTTCCACTGTAATATCAGGGAAATAAAACCTGACGCGATCTACTCTGCTGTAACTTCAGAG
*
56908196 AGATAAGATCCTTCATTTTAATCCATTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
130 AGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAA
56908261 T
195 T
56908262 TTGCTCCGCT
Statistics
Matches: 183, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
199 4 0.02
200 179 0.98
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (200 bp):
ATAGGATTACTAACTTCAATCTGATCCACTGTAATCTCAAGGAGATAAGATCTGAAAATCTTCGG
TCTGTTCCACTGTAATATCAGGGAAATAAAACCTGACGCGATCTACTCTGCTGTAACTTCAGAGA
GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
CTGAT
Found at i:56909574 original size:21 final size:21
Alignment explanation
Indices: 56909548--56909594 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
56909538 GGTATAGCAG
56909548 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
56909569 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
56909590 GATCA
1 GATCA
56909595 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:56910564 original size:6 final size:6
Alignment explanation
Indices: 56910553--56910593 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
56910543 TTGACCTTTC
* *
56910553 CTTTTT CTTTTT CTTTTT CTTCTT -TTCTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
56910594 TTCCTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:56910577 original size:9 final size:9
Alignment explanation
Indices: 56910563--56910596 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
56910553 CTTTTTCTTT
56910563 TTCTTTTTC
1 TTCTTTTTC
56910572 TTC-TTTTC
1 TTCTTTTTC
56910580 TTCTTTTTC
1 TTCTTTTTC
56910589 TT-TTTTTC
1 TTCTTTTTC
56910597 CTATTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.58
9 10 0.42
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:56910583 original size:17 final size:17
Alignment explanation
Indices: 56910563--56910596 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56910553 CTTTTTCTTT
56910563 TTCTTTTTCTTCTTTTC
1 TTCTTTTTCTTCTTTTC
*
56910580 TTCTTTTTCTTTTTTTC
1 TTCTTTTTCTTCTTTTC
56910597 CTATTTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTCTTTTTCTTCTTTTC
Found at i:56910617 original size:7 final size:7
Alignment explanation
Indices: 56910607--56910668 Score: 56
Period size: 7 Copynumber: 8.6 Consensus size: 7
56910597 CTATTTTGAC
56910607 TTTTATT
1 TTTTATT
56910614 TTTTGATT
1 TTTT-ATT
*
56910622 TTTGATT
1 TTTTATT
56910629 TTTTGATT
1 TTTT-ATT
56910637 TTTTGATT
1 TTTT-ATT
56910645 TTTT-TT
1 TTTTATT
56910651 TTATT-TT
1 TT-TTATT
*
56910658 TTTGATT
1 TTTTATT
56910665 TTTT
1 TTTT
56910669 TGATTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
6 5 0.11
7 21 0.45
8 21 0.45
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:56910622 original size:8 final size:8
Alignment explanation
Indices: 56910607--56910677 Score: 82
Period size: 8 Copynumber: 9.5 Consensus size: 8
56910597 CTATTTTGAC
56910607 TTTT-ATT
1 TTTTGATT
56910614 TTTTGA-T
1 TTTTGATT
56910621 TTTTGATT
1 TTTTGATT
56910629 TTTTGATT
1 TTTTGATT
56910637 TTTTGATT
1 TTTTGATT
56910645 TTTT--TT
1 TTTTGATT
*
56910651 TTAT--TT
1 TTTTGATT
56910657 TTTTGATTT
1 TTTTGA-TT
56910666 TTTTGATT
1 TTTTGATT
56910674 TTTT
1 TTTT
56910678 TTAGTCTGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
6 10 0.18
7 11 0.19
8 28 0.49
9 8 0.14
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.80
Consensus pattern (8 bp):
TTTTGATT
Found at i:56910632 original size:9 final size:9
Alignment explanation
Indices: 56910612--56910678 Score: 79
Period size: 9 Copynumber: 7.7 Consensus size: 9
56910602 TTGACTTTTA
56910612 TTTTTTGA-
1 TTTTTTGAT
56910620 -TTTTTGA-
1 TTTTTTGAT
56910627 TTTTTTGA-
1 TTTTTTGAT
56910635 TTTTTTGATTT
1 TTTTTTGA--T
*
56910646 TTTTTTTAT
1 TTTTTTGAT
56910655 TTTTTTGAT
1 TTTTTTGAT
56910664 TTTTTTGAT
1 TTTTTTGAT
56910673 TTTTTT
1 TTTTTT
56910679 TAGTCTGAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
7 7 0.13
8 15 0.28
9 24 0.45
11 7 0.13
ACGTcount: A:0.10, C:0.00, G:0.09, T:0.81
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:56910676 original size:7 final size:7
Alignment explanation
Indices: 56910600--56910658 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
56910590 TTTTTTCCTA
*
56910600 TTTTGAC
1 TTTTGAT
56910607 TTTT-ATT
1 TTTTGA-T
56910614 TTTTGAT
1 TTTTGAT
56910621 TTTTGATT
1 TTTTGA-T
56910629 TTTTGATT
1 TTTTGA-T
56910637 TTTTGAT
1 TTTTGAT
56910644 TTTT--T
1 TTTTGAT
56910649 TTTT-AT
1 TTTTGAT
56910655 TTTT
1 TTTT
56910659 TTGATTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
5 5 0.11
6 6 0.13
7 20 0.43
8 16 0.34
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (7 bp):
TTTTGAT
Found at i:56918249 original size:17 final size:16
Alignment explanation
Indices: 56918229--56918261 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
56918219 AAAATTCAAA
56918229 AAATTCAAAAAGAAAAG
1 AAATTCAAAAA-AAAAG
56918246 AAATTCAAAAAAAAAG
1 AAATTCAAAAAAAAAG
56918262 GGGTCACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATTCAAAAAAAAAG
Found at i:56923580 original size:13 final size:15
Alignment explanation
Indices: 56923543--56923579 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
56923533 AAAGAATAAT
56923543 ATTTTATATTAAAAA
1 ATTTTATATTAAAAA
*
56923558 ATTTTATATTAAAAG
1 ATTTTATATTAAAAA
56923573 ATTTTAT
1 ATTTTAT
56923580 TTTTATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTTATATTAAAAA
Found at i:56923634 original size:25 final size:26
Alignment explanation
Indices: 56923606--56923654 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
56923596 ATTTGAAAAT
56923606 AATATTTTATATTAA-ATTATATTAA
1 AATATTTTATATTAAGATTATATTAA
*
56923631 AATATTTTATATTAAGATTTTATT
1 AATATTTTATATTAAGATTATATT
56923655 TTTATATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
AATATTTTATATTAAGATTATATTAA
Found at i:56925585 original size:46 final size:46
Alignment explanation
Indices: 56925518--56925611 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
56925508 AGCTTTTTAC
56925518 AATGTCGAGATATCTGTCGATGATCGTTGTGGGATGAGAATAACCA
1 AATGTCGAGATATCTGTCGATGATCGTTGTGGGATGAGAATAACCA
56925564 AATGTCGAGATATCTGTCGATGATCGTTGTGGGATGAGAATAACCA
1 AATGTCGAGATATCTGTCGATGATCGTTGTGGGATGAGAATAACCA
56925610 AA
1 AA
56925612 CGAGAACGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (46 bp):
AATGTCGAGATATCTGTCGATGATCGTTGTGGGATGAGAATAACCA
Found at i:56927357 original size:23 final size:23
Alignment explanation
Indices: 56927314--56927358 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
56927304 TGCTTTTGTA
*
56927314 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
56927337 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
56927359 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:56928138 original size:23 final size:23
Alignment explanation
Indices: 56928095--56928139 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
56928085 TGCTTTTGTA
*
56928095 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
56928118 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
56928140 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:56928973 original size:19 final size:20
Alignment explanation
Indices: 56928949--56929016 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 20
56928939 TATATGTTTC
56928949 ATAAT-ATATAACTTATAAT
1 ATAATAATATAACTTATAAT
*
56928968 ATAATAATATAA-TTCA-AAC
1 ATAATAATATAACTT-ATAAT
56928987 ATAATAATATAACTTAT--T
1 ATAATAATATAACTTATAAT
56929005 ATAATAATATAA
1 ATAATAATATAA
56929017 TAATATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 12 0.28
19 22 0.51
20 9 0.21
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATAATATAACTTATAAT
Found at i:56928976 original size:8 final size:8
Alignment explanation
Indices: 56928963--56929024 Score: 61
Period size: 8 Copynumber: 7.1 Consensus size: 8
56928953 TATATAACTT
56928963 ATAATATA
1 ATAATATA
56928971 ATAATATA
1 ATAATATA
*
56928979 ATTCAAACATA
1 A-T--AATATA
56928990 ATAATATA
1 ATAATATA
*
56928998 ACTTATTATA
1 A--TAATATA
56929008 ATAATATA
1 ATAATATA
56929016 ATAATATA
1 ATAATATA
56929024 A
1 A
56929025 AAGAATGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 30 0.67
9 1 0.02
10 8 0.18
11 6 0.13
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:56929466 original size:113 final size:113
Alignment explanation
Indices: 56929279--56929623 Score: 591
Period size: 113 Copynumber: 3.1 Consensus size: 113
56929269 GCTTAATGCC
* * * *
56929279 AAACACCGCTGAAGAACGGAGTATTAGCGACGTTTGGGCAAAACCGCCACTAGTGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
56929344 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
56929392 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
* * *
56929457 TATGAAAACGGCGTCGTTCTGTGTTACTCCATTGTGGCGCTTTTTATA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
* * *
56929505 AAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGAAAAACCACCACTAATGTTCCCAAATA
1 AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
*
56929570 TATGAAAATGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
66 TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
56929618 AAACGC
1 AAACGC
56929624 TGCTAATGCT
Statistics
Matches: 218, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 218 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (113 bp):
AAACGCCGCTGAAGAACGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTTGTA
Found at i:56939952 original size:21 final size:23
Alignment explanation
Indices: 56939927--56939976 Score: 86
Period size: 21 Copynumber: 2.3 Consensus size: 23
56939917 TCAAGAATAT
56939927 TTTATGTATA-TATTTTCCTT-A
1 TTTATGTATATTATTTTCCTTGA
56939948 TTTATGTATATTATTTTCCTTGA
1 TTTATGTATATTATTTTCCTTGA
56939971 TTTATG
1 TTTATG
56939977 AGCTAATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.37
22 10 0.37
23 7 0.26
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTATGTATATTATTTTCCTTGA
Found at i:56943743 original size:30 final size:31
Alignment explanation
Indices: 56943704--56943763 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
56943694 ACAGGTGGGA
*
56943704 TGGGAAGGGAATAAAAGTTTCAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTCAGGGAAAAAG
* **
56943735 TGGG-AGGGAGTAAAAATTTTGGGGAAAAA
1 TGGGAAGGGAATAAAAATTTCAGGGAAAAA
56943764 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.37, T:0.18
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTCAGGGAAAAAG
Found at i:56954351 original size:24 final size:24
Alignment explanation
Indices: 56954319--56954366 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56954309 CCCAAATGAT
56954319 TGAATAGGATTTGGATCTCTGACC
1 TGAATAGGATTTGGATCTCTGACC
56954343 TGAATAGGATTTGGATCTCTGACC
1 TGAATAGGATTTGGATCTCTGACC
56954367 CGGATAGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
TGAATAGGATTTGGATCTCTGACC
Found at i:56954373 original size:24 final size:24
Alignment explanation
Indices: 56954320--56954373 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
56954310 CCAAATGATT
*
56954320 GAATAGGATTTGGATCTCTGACCT
1 GAATAGGATTTGGATCTCTGACCC
56954344 GAATAGGATTTGGATCTCTGACCC
1 GAATAGGATTTGGATCTCTGACCC
*
56954368 GGATAG
1 GAATAG
56954374 ACCCGACTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (24 bp):
GAATAGGATTTGGATCTCTGACCC
Found at i:56954549 original size:62 final size:62
Alignment explanation
Indices: 56954452--56954575 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
56954442 GTTCGTAAAG
56954452 ATAGCTATCATGAGAAGCTTGCGATGAGAGCTCGCGTAAGCCTCGCAGGAATGAGGTTGCGA
1 ATAGCTATCATGAGAAGCTTGCGATGAGAGCTCGCGTAAGCCTCGCAGGAATGAGGTTGCGA
56954514 ATAGCTATCATGAGAAGCTTGCGATGAGAGCTCGCGTAAGCCTCGCAGGAATGAGGTTGCGA
1 ATAGCTATCATGAGAAGCTTGCGATGAGAGCTCGCGTAAGCCTCGCAGGAATGAGGTTGCGA
56954576 GCTATGTCCG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.21
Consensus pattern (62 bp):
ATAGCTATCATGAGAAGCTTGCGATGAGAGCTCGCGTAAGCCTCGCAGGAATGAGGTTGCGA
Found at i:56961740 original size:5 final size:5
Alignment explanation
Indices: 56961717--56961784 Score: 57
Period size: 6 Copynumber: 12.8 Consensus size: 5
56961707 AAAATATTTC
* *
56961717 AAAAA AAAAG AAGAAG AAAGG AAAAG AAAAAG AGAAAG AGAAAG AGAAAG
1 AAAAG AAAAG AA-AAG AAAAG AAAAG -AAAAG A-AAAG A-AAAG A-AAAG
*
56961767 AAGA- AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAA
56961785 AAAGAGAGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
4 3 0.06
5 24 0.44
6 27 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:56961749 original size:19 final size:19
Alignment explanation
Indices: 56961727--56961789 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
56961717 AAAAAAAAAG
56961727 AAGAAGAAAGGAAAAGAAA
1 AAGAAGAAAGGAAAAGAAA
56961746 AAG-AGAAAGAGAAAGAGAAA
1 AAGAAGAAAG-GAAA-AGAAA
56961766 GAAGAA-AAA-GAAAAGAAA
1 -AAGAAGAAAGGAAAAGAAA
56961784 AA-AAGA
1 AAGAAGA
56961790 GAGGCTAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.05
17 3 0.08
18 11 0.28
19 11 0.28
20 5 0.13
21 6 0.15
22 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAAGAAAGGAAAAGAAA
Found at i:56961752 original size:24 final size:27
Alignment explanation
Indices: 56961719--56961791 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 27
56961709 AATATTTCAA
*
56961719 AAAAAAAGAAGAAGAAAG-G-AA-AAG
1 AAAAAGAGAAGAAGAAAGAGAAAGAAG
56961743 AAAAAGAGAA-AGAGAAAGAGAAAGAAG
1 AAAAAGAGAAGA-AGAAAGAGAAAGAAG
* *
56961770 AAAAAGAAAAGAAAAAAAGAGA
1 AAAAAGAGAAG-AAGAAAGAGA
56961792 GGCTAAAGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.03
24 15 0.38
25 1 0.03
26 2 0.05
27 12 0.30
28 8 0.20
29 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (27 bp):
AAAAAGAGAAGAAGAAAGAGAAAGAAG
Found at i:56961754 original size:6 final size:6
Alignment explanation
Indices: 56961739--56961791 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
56961729 GAAGAAAGGA
* *
56961739 AAAGAA AAAGAG AAAGAG AAAGAG AAAGAAG AAAAAG AAA-AG AAA-A-
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAG-AG AAAGAG AAAGAG AAAGAG
56961785 AAAGAG A
1 AAAGAG A
56961792 GGCTAAAGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 3 0.07
5 7 0.17
6 27 0.64
7 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:56961786 original size:13 final size:13
Alignment explanation
Indices: 56961717--56961789 Score: 62
Period size: 13 Copynumber: 5.7 Consensus size: 13
56961707 AAAATATTTC
56961717 AAAAAAA-AAGAAG
1 AAAAAAAGAA-AAG
* *
56961730 AAGAAAGGAAAAG
1 AAAAAAAGAAAAG
*
56961743 AAAAAGAG-AAAG
1 AAAAAAAGAAAAG
* *
56961755 AGAAAGAG-AAAG
1 AAAAAAAGAAAAG
56961767 AAGAAAAAGAAAAG
1 AA-AAAAAGAAAAG
56961781 AAAAAAAGA
1 AAAAAAAGA
56961790 GAGGCTAAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
12 16 0.33
13 25 0.51
14 8 0.16
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:56963248 original size:50 final size:50
Alignment explanation
Indices: 56963189--56964135 Score: 1065
Period size: 50 Copynumber: 18.9 Consensus size: 50
56963179 TGTCCCCCTG
* * *
56963189 AATAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
**** *
56963239 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGGTGCAGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * * * *
56963289 AACAGATTGAAGCTACAATAGCGAATCTTGCTTCCCTGAAATTACAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
*
56963339 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACGA-TGCAGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGAC-ATTGCAGTGA
* * * ** *
56963389 AACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCAACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* ** *
56963439 AATAGATTGAAGCTACAATAGCGAATCTTACTTCCCTGACGGTGCAGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * *
56963489 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * *
56963539 AATAGATTGAAGCTACAACAGTGAATCTTACTTCCCTGGCAGTGCAGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * * *
56963589 AACAGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* **** *
56963639 AATAGATTGAAGCTACAACAACGAATCTTACTTCCCTGGTGGTGCAGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * ** * *
56963689 AACAGACTGAAGCTACAACAATGAATCTTACTT-ACTCGACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACATTGCAGTGA
* * * *
56963739 AATAGATTTAAGCTACAACAGCGAATCTTACTTCCCTGGCACTGCAGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * * * *
56963789 AACAGATTGAAGCTACAATAGCAAATCTTGCTTCCCCGACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * * *
56963839 AATAGATTGCAGCTACAACAGCAAATCTTACTTCCCTGGCGA-TGTAGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGAC-ATTGCAGTGA
* * * *
56963889 AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGAAATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * * * *
56963939 AATAGATTGAAGCTACAACAACGAATCTTACTTCCCTGGCAATGTAATGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * *
56963989 AATAGATTGAAGCCACAACAGTGAATCTTACTTCCCTGACATTGCAGTTA
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
* * * *
56964039 AATAGATTGAAGCTACAACAGCGAATCTTGCTT-CGTCGACATTGCTGTGG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACATTGCAGTGA
* * *
56964089 AATAGATTGAAGCTACAACAGTGAATCTTATTTCCTTGACATTGCAG
1 AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAG
56964136 CAGAACAGAT
Statistics
Matches: 734, Mismatches: 155, Indels: 16
0.81 0.17 0.02
Matches are distributed among these distances:
49 6 0.01
50 722 0.98
51 6 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTGA
Found at i:56963365 original size:100 final size:100
Alignment explanation
Indices: 56963192--56964135 Score: 1377
Period size: 100 Copynumber: 9.4 Consensus size: 100
56963182 CCCCCTGAAT
56963192 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
*
56963257 CAGCGAATCTTACTTCCCTGGTGGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * *
56963292 AGATTGAAGCTACAATAGCGAATCTTGCTTCCCTGAAATTACAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* *
56963357 CAGCGAATCTTACTTCCCTGACGATGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *
56963392 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCAACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* *
56963457 TAGCGAATCTTACTTCCCTGACGGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
56963492 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* *
56963557 CAGTGAATCTTACTTCCCTGGCAGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
*
56963592 AGATTGAAGCTACAACAGTGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* *
56963657 CAACGAATCTTACTTCCCTGGTGGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* ** * * * *
56963692 AGACTGAAGCTACAACAATGAATCTTACTTACTCGACATTGCAGTTAAATAGATTTAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
**
56963757 CAGCGAATCTTACTTCCCTGGCACTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * *
56963792 AGATTGAAGCTACAATAGCAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGCAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* * *
56963857 CAGCAAATCTTACTTCCCTGGCGATGTAGTGGAAC
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* *
56963892 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCTGAAATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* ** * * *
56963957 CAACGAATCTTACTTCCCTGGCAATGTAATGGAAT
66 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
* * * *
56963992 AGATTGAAGCCACAACAGTGAATCTTACTTCCCTGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
* * * ** * *
56964057 CAGCGAATCTTGCTT-CGTCGACATTGCTGTGGAAT
66 CAGCGAATCTTACTTCCCT-GGCGGTGCAGTGGAAC
* ** **
56964092 AGATTGAAGCTACAACAGTGAATCTTATTTCCTTGACATTGCAG
1 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAG
56964136 CAGAACAGAT
Statistics
Matches: 768, Mismatches: 75, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
99 2 0.00
100 766 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
Found at i:56967477 original size:82 final size:80
Alignment explanation
Indices: 56967358--56967605 Score: 381
Period size: 81 Copynumber: 3.1 Consensus size: 80
56967348 TTGGCTACAT
* * * * *
56967358 TTTATAATTCCGTTGAAAGCATCAGTTCCAAAATGTGTACACAAATTTCACCAGAAAAAAAATAT
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAG-AAAAAAATAT
56967423 AAAAAAAAATTAATAAA
65 AAAAAAAAA-TAATAAA
56967440 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
*
56967505 TAAACAAAATAATAAA
66 -AAAAAAAATAATAAA
*
56967521 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACA-AAATTTCACCAGAAAAAAATAAA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
*
56967585 AAAATAAAATGATAAA
66 AAAA-AAAATAATAAA
56967601 TTTAT
1 TTTAT
56967606 TTATTAGACG
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
79 3 0.02
80 37 0.24
81 59 0.38
82 56 0.36
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (80 bp):
TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
AAAAAAAATAATAAA
Found at i:56967543 original size:81 final size:81
Alignment explanation
Indices: 56967358--56967605 Score: 376
Period size: 82 Copynumber: 3.1 Consensus size: 81
56967348 TTGGCTACAT
* * * * *
56967358 TTTATAATTCCGTTGAAAGCATCAGTTCCAAAATGTGTACACAAATTTCACCAGAAAAAAA-ATA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
56967422 TAAAAAAAAATTAATAAA
66 T-AAAAAAAA-TAATAAA
56967440 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
*
56967505 TAAACAAAATAATAAA
66 TAAAAAAAATAATAAA
56967521 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACA-AAATTTCACCAGAAAAAAATA-A
1 TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
* *
56967584 AAAAATAAAATGATAAA
66 TAAAA-AAAATAATAAA
56967601 TTTAT
1 TTTAT
56967606 TTATTAGACG
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
79 4 0.03
80 36 0.23
81 48 0.31
82 63 0.41
83 4 0.03
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (81 bp):
TTTATAATTTCATTGAAAGCATTACTTTCAAAATGTGTACACAAATTTCACCAGAAAAAAATATA
TAAAAAAAATAATAAA
Found at i:56968750 original size:41 final size:40
Alignment explanation
Indices: 56968640--56968823 Score: 190
Period size: 41 Copynumber: 4.5 Consensus size: 40
56968630 ATATTTTTTG
* * * * *
56968640 GGCCTTTAGCGGCGTTTTTGACAAATCGCCGCTAATTCTCC
1 GGCCTTTAGCGGCGTTTTTTA-TAAGCGCCGCTAATGCTCT
* *
56968681 GACCTTTTAGCGGCGATTTTCGTA-AAGCGCCGCTAATGCTCT
1 GGCC-TTTAGCGGCG-TTTT-TTATAAGCGCCGCTAATGCTCT
*
56968723 AGCCTTTAGCGGCGTTTTCTTATAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTT-TTATAAGCGCCGCTAATGCTCT
* * *
56968764 GGCCTTTAGAGGCGTTTTTTAATAAGCGCCACTAATGATCT
1 GGCCTTTAGCGGCGTTTTTT-ATAAGCGCCGCTAATGCTCT
* *
56968805 GGTCATTAGCGGCGTTTTT
1 GGCCTTTAGCGGCGTTTTT
56968824 AGAAAAGCAC
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
40 9 0.07
41 81 0.66
42 27 0.22
43 4 0.03
44 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (40 bp):
GGCCTTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCT
Found at i:56970581 original size:116 final size:117
Alignment explanation
Indices: 56970334--56970579 Score: 284
Period size: 116 Copynumber: 2.1 Consensus size: 117
56970324 GCTCGGGGCT
* * * * * *
56970334 TTAGCGGCGGTTTTT-CCTAAAATGCCGCAAATATTTCTTTAATACGACATCGTTTAGTGTTCTG
1 TTAGCGGC-GTTTTTACATAAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATG
* * *
56970398 CTCTGGTTGAAAAGTTCGACAAAACGACGTCGCTTTGATGATGTTTACCGGTA
65 ATCTGGTTGAAAAGTTAGACAAAACGACATCGCTTTGATGATGTTTACCGGTA
* * * *
56970451 TTAGCGGCGGTTTTACAT-AAACGCCGCAAAAATTTCTGTAATACGACGTCGTTTACTTTTATTA
1 TTAGCGGCGTTTTTACATAAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGA
* * * **
56970515 TTTGGTTG-AAAGTTAGACAAAACGACATCGTTTTTAT-ACTGTTTATTGGTA
66 TCTGGTTGAAAAGTTAGACAAAACGACATCGCTTTGATGA-TGTTTACCGGTA
56970566 TTAGCGGCGTTTTT
1 TTAGCGGCGTTTTT
56970580 TATGCAAAGG
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
114 1 0.01
115 48 0.44
116 49 0.45
117 10 0.09
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (117 bp):
TTAGCGGCGTTTTTACATAAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGA
TCTGGTTGAAAAGTTAGACAAAACGACATCGCTTTGATGATGTTTACCGGTA
Found at i:56973419 original size:43 final size:43
Alignment explanation
Indices: 56973293--56973419 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 43
56973283 AAAGATTGCT
56973293 TATGTAAGCTATATTTAAATTTTATTAATAATAAGTTGATAACTTAAA
1 TATGTAAGCTATATTTAAATTTTATTAATAAT-A--T--TAACTTAAA
* * * * * **
56973341 TAAGTATTA-CTATATTTTTAATATTATAAAT-ATATTAATTTACG
1 TATGTA--AGCTATA-TTTAAATTTTATTAATAATATTAACTTAAA
56973385 TATGTAAGCTATATTTAAATTTTATTAATAATATT
1 TATGTAAGCTATATTTAAATTTTATTAATAATATT
56973420 TAAACATATT
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
42 14 0.22
43 10 0.16
44 11 0.17
46 1 0.02
48 6 0.10
49 7 0.11
50 14 0.22
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (43 bp):
TATGTAAGCTATATTTAAATTTTATTAATAATATTAACTTAAA
Found at i:56973601 original size:9 final size:9
Alignment explanation
Indices: 56973593--56973718 Score: 106
Period size: 9 Copynumber: 14.9 Consensus size: 9
56973583 ATATATTAAT
56973593 TTACATAA-
1 TTACATAAC
56973601 -TACATAAC
1 TTACATAAC
56973609 TTACATAAC
1 TTACATAAC
* *
56973618 CTACTTAA-
1 TTACATAAC
56973626 -TACATAAC
1 TTACATAAC
*
56973634 TTGCATAAC
1 TTACATAAC
56973643 TTACATAA-
1 TTACATAAC
*
56973651 -TACACAAC
1 TTACATAAC
*
56973659 TTACATAAG
1 TTACATAAC
*
56973668 TTTCATAA-
1 TTACATAAC
*
56973676 -TACACAAC
1 TTACATAAC
**
56973684 TTACGCAAC
1 TTACATAAC
56973693 TTACATAAC
1 TTACATAAC
*
56973702 TTACACAAC
1 TTACATAAC
56973711 TTACATAA
1 TTACATAA
56973719 TGTATAACTT
Statistics
Matches: 94, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
7 24 0.26
9 70 0.74
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:56973614 original size:16 final size:17
Alignment explanation
Indices: 56973593--56973718 Score: 84
Period size: 16 Copynumber: 7.5 Consensus size: 17
56973583 ATATATTAAT
56973593 TTACATAA-TACATAAC
1 TTACATAACTACATAAC
*
56973609 TTACATAACCTACTTAA-
1 TTACATAA-CTACATAAC
*
56973626 -TACATAACTTGCATAAC
1 TTACATAAC-TACATAAC
*
56973643 TTACATAA-TACACAAC
1 TTACATAACTACATAAC
* *
56973659 TTACATAAGTTTCATAA-
1 TTACATAA-CTACATAAC
* **
56973676 -TACACAACTTACGCAAC
1 TTACATAAC-TACATAAC
*
56973693 TTACATAACTTACACAAC
1 TTACATAAC-TACATAAC
56973711 TTACATAA
1 TTACATAA
56973719 TGTATAACTT
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
15 1 0.01
16 44 0.51
18 41 0.48
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.30
Consensus pattern (17 bp):
TTACATAACTACATAAC
Found at i:56973627 original size:25 final size:25
Alignment explanation
Indices: 56973594--56973718 Score: 124
Period size: 25 Copynumber: 4.9 Consensus size: 25
56973584 TATATTAATT
56973594 TACATAATACATAACTTACATAACC
1 TACATAATACATAACTTACATAACC
* * *
56973619 TACTTAATACATAACTTGCATAACT
1 TACATAATACATAACTTACATAACC
* **
56973644 TACATAATACACAACTTACATAAGT
1 TACATAATACATAACTTACATAACC
* * ** *
56973669 TTCATAATACACAACTTACGCAACT
1 TACATAATACATAACTTACATAACC
*
56973694 TACATAACTTACACAACTTACATAA
1 TACATAA--TACATAACTTACATAA
56973719 TGTATAACTT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
25 70 0.83
27 14 0.17
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAATACATAACTTACATAACC
Found at i:56973664 original size:34 final size:34
Alignment explanation
Indices: 56973593--56973719 Score: 104
Period size: 34 Copynumber: 3.8 Consensus size: 34
56973583 ATATATTAAT
**
56973593 TTACATAA--TACATAACTTACATAACCTACTTAA-
1 TTACATAACTTACATAACTTACATAA--TACACAAC
*
56973626 -TACATAACTTGCATAACTTACATAATACACAAC
1 TTACATAACTTACATAACTTACATAATACACAAC
* * * *
56973659 TTACATAAGTTTCATAA--TACACAACTTACGCAAC
1 TTACATAACTTACATAACTTACATAA--TACACAAC
*
56973693 TTACATAACTTACACAACTTACATAAT
1 TTACATAACTTACATAACTTACATAAT
56973720 GTATAACTTA
Statistics
Matches: 75, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
32 18 0.24
34 51 0.68
36 6 0.08
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.31
Consensus pattern (34 bp):
TTACATAACTTACATAACTTACATAATACACAAC
Found at i:56979207 original size:21 final size:21
Alignment explanation
Indices: 56979177--56979245 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
56979167 CAACAACTTA
* *
56979177 AAGCAGAGGCGGCAGCAAGGG
1 AAGCAGAGGCCGCAGCAAGAG
* ** *
56979198 AAGTAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCAAGAG
*
56979219 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCAAGAG
56979240 AAGCAG
1 AAGCAG
56979246 CAATAGAAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCAAGAG
Found at i:56979809 original size:43 final size:42
Alignment explanation
Indices: 56979705--56980018 Score: 366
Period size: 43 Copynumber: 7.4 Consensus size: 42
56979695 GTTTGTGAAA
*
56979705 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCC
* * *
56979748 -AAGCGCCGCTATAGAACATTA-CTTTTAACGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
*
56979790 TAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* * *
56979832 CAAGCGCCGCTAAAAGAACATGATCTTTAGCGGTGTTTTTTTC
1 TAAGCGCCGCT-AAAGAACATGATCTTTAGCGGCGTTTTTTCC
* * *
56979875 TAAGCGCCGCTAAAGAATATGATCTGTAGCGGCGTTTTTTCA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
56979917 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* ** *
56979960 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGTATTTTTTTCTG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGG-CGTTTTTTC-C
*
56980004 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
56980019 TTAGCGACGT
Statistics
Matches: 234, Mismatches: 28, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.00
42 107 0.46
43 109 0.47
44 17 0.07
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:56979999 original size:85 final size:84
Alignment explanation
Indices: 56979705--56979991 Score: 366
Period size: 85 Copynumber: 3.4 Consensus size: 84
56979695 GTTTGTGAAA
* *
56979705 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCG-TTTTTGACCAAGCGCCGCTATAGAACAT
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCA-CAAGCGCCGCTAAAGAACAT
* *
56979767 TA-CTTTTAACGGCGTTTTCTTCC
63 GATC-TTTAGCGGCGTTTT-TTCC
* *
56979790 TAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCACAAGCGCCGCT-AAAGAACATGA
* *
56979855 TCTTTAGCGGTGTTTTTTTC
65 TCTTTAGCGGCGTTTTTTCC
* * * *
56979875 TAAGCGCCGCTAAAGAATATGATCTGTAGCGGCGTTTTTTCATAAGTGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCACAAGCGCCGCTAAAGAACATGAT
56979940 CTTTAGCGGCGTTTATTTCC
66 CTTTAGCGGCGTTT-TTTCC
*
56979960 TTAGCGCCGCTAAAGAACATGATCTTTAGCGG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGG
56979992 TATTTTTTTC
Statistics
Matches: 177, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
84 26 0.15
85 122 0.69
86 28 0.16
87 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCACAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTTTCC
Found at i:56984111 original size:5 final size:5
Alignment explanation
Indices: 56984101--56984133 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
56984091 AAGTATCCTA
56984101 AAAGT AAAGT AAAGT AAAGT AAAGT AAAGT AAA
1 AAAGT AAAGT AAAGT AAAGT AAAGT AAAGT AAA
56984134 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (5 bp):
AAAGT
Found at i:56984141 original size:3 final size:3
Alignment explanation
Indices: 56984133--56984157 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56984123 AGTAAAGTAA
56984133 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
56984158 AAACACCATA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:56986757 original size:11 final size:11
Alignment explanation
Indices: 56986739--56986771 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
56986729 GCATATAACT
56986739 TTAA-TATTAA
1 TTAAGTATTAA
56986749 TTAAGTATTAA
1 TTAAGTATTAA
56986760 TTAAGATATTAA
1 TTAAG-TATTAA
56986772 AACTCTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 11 0.52
12 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (11 bp):
TTAAGTATTAA
Found at i:56989173 original size:22 final size:20
Alignment explanation
Indices: 56989139--56989187 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
56989129 ATATATTATG
* *
56989139 TTATAAAAATTAATTACATTAA
1 TTATATAAATTAAATA-A-TAA
*
56989161 TTATATAAGTTAAATAATAA
1 TTATATAAATTAAATAATAA
56989181 TTATATA
1 TTATATA
56989188 TTTATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.42
21 1 0.04
22 13 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATATAAATTAAATAATAA
Found at i:56989486 original size:17 final size:18
Alignment explanation
Indices: 56989464--56989498 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
56989454 TATATATTTT
56989464 TAAAAATT-ATTTTTAAA
1 TAAAAATTAATTTTTAAA
56989481 TAAAAATTAATTTTTAAA
1 TAAAAATTAATTTTTAAA
56989499 AAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAATTAATTTTTAAA
Done.