Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 41 of 349
Found at i:11512960 original size:132 final size:131
Alignment explanation
Indices: 11512804--11513050 Score: 350
Period size: 132 Copynumber: 1.9 Consensus size: 131
11512794 ATGTGTCCCG
* * *
11512804 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAAACAGAAACTAAAAATACCTCA
** * *
11512869 GTGTGTGACCGGAGGCTCAACTCACCTCTCACAATATGAGTTAAATTTTTTTGAAACATAAACTA
66 GCATGTGACCCGAAGCTCAACTCACCTCTCACAATATGAGTT-AATTTTTTTGAAACATAAACTA
11512934 AA
130 AA
* * * *
11512936 AGGCTCAACTCACTTCTCGCAATATGAGTCGATTTTTTTGAAAAACATAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAAACAGAAACTAAAAATACCTCA
* ** *
11513001 GCATGTGTCCCGAAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTT
66 GCATGTGACCCGAAGCTCAACTCACCTCTCACAATATGAGTTAATTTTTT
11513051 AAAAAAAATA
Statistics
Matches: 100, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
131 7 0.07
132 93 0.93
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (131 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAAACAGAAACTAAAAATACCTCA
GCATGTGACCCGAAGCTCAACTCACCTCTCACAATATGAGTTAATTTTTTTGAAACATAAACTAA
A
Found at i:11513074 original size:210 final size:211
Alignment explanation
Indices: 11512596--11513149 Score: 826
Period size: 210 Copynumber: 2.6 Consensus size: 211
11512586 AAACTGACGT
* * * * * * *
11512596 TCAACTCATCTCTCG-AATTATGAGTTAATTTTTGAAAAAAGTAAAAATTAAAAATACCTTAGTG
1 TCAACTCACCTCTCGTAA-TATGAGTTGATTTTTTAAAAAAATAGAAACTAAAAATACCTCAGTG
* *
11512660 TGTGACCTGAGGCTCAACTGACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAACTAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-AAAACAGAAACTAA
*
11512725 AAGGCTCAACTCACTTCTCGCAATATGAGTCAATTTTTTTGAAAAAACATAAATTGAAAATACTT
129 AAGGCTCAACTCACTTCTCGCAATATGAGTCAATTTTTTTGAAAAAACATAAATTGAAAATACCT
*
11512790 CAGCATGTGTCCCGAGGC
194 CAGCATGTGTCCCGAAGC
**
11512808 TCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCAGTGT
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAAATAGAAACTAAAAATACCTCAGTGT
* * * * *
11512873 GTGACCGGAGGCTCAACTCACCTCTCACAATATGAGTTAAATTTTTTTG-AAACATAAACTAAAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAACTAAAA
*
11512937 GGCTCAACTCACTTCTCGCAATATGAGTCGATTTTTTTG-AAAAACATAAATTGAAAATACCTCA
131 GGCTCAACTCACTTCTCGCAATATGAGTCAATTTTTTTGAAAAAACATAAATTGAAAATACCTCA
11513001 GCATGTGTCCCGAAGC
196 GCATGTGTCCCGAAGC
*
11513017 TCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAAAATAGAAACTAAAAATACCTCAGCG
1 TCAACTCACCTCTCGTAATATGAGTTGATTTTTT-AAAAAAATAGAAACTAAAAATACCTCAGTG
* * * *
11513082 TGTGACCCGAGGCTCAACTCACCTATCGTAATATGAGTTGATTTTTTTTTAAAAAAAAGAAACTA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT-GAAAACAGAAACTA
11513147 AAA
128 AAA
11513150 ATACCTTAGC
Statistics
Matches: 307, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
209 73 0.24
210 115 0.37
211 7 0.02
212 97 0.32
213 15 0.05
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (211 bp):
TCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAAATAGAAACTAAAAATACCTCAGTGT
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAACTAAAA
GGCTCAACTCACTTCTCGCAATATGAGTCAATTTTTTTGAAAAAACATAAATTGAAAATACCTCA
GCATGTGTCCCGAAGC
Found at i:11513339 original size:77 final size:77
Alignment explanation
Indices: 11512936--11513379 Score: 574
Period size: 77 Copynumber: 5.8 Consensus size: 77
11512926 ATAAACTAAA
* * * * * *
11512936 AGGCTCAACTCACTTCTCGCAATATGAGTCGATTTTTTTGAAAAACATAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
* *
11513001 GCATGTGTCCCG
66 GCGTGTGACCCG
* * **
11513013 AAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAAAATAGAAACTAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TGAAAAATAGAAACTAAAAATACCTC
11513078 AGCGTGTGACCCG
65 AGCGTGTGACCCG
* * * *
11513091 AGGCTCAACTCACCTATCGTAATATGAGTTGATTTTTTTTTAAAAAAAAGAAACTAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAATAGAAACTAAAAATACCT
*
11513156 TAGCGTGTGACCCG
64 CAGCGTGTGACCCG
* *
11513170 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAT--AAATTGAAAAA-ACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACT-AAAAATACCTC
* * * *
11513232 AGTGCGTGATCTG
65 AGCGTGTGACCCG
*
11513245 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGGAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
*
11513310 GCGTATGACCCG
66 GCGTGTGACCCG
* *
11513322 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAAACAGAAA-TAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATA
11513380 TCAGAATACC
Statistics
Matches: 321, Mismatches: 39, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
75 70 0.22
76 19 0.06
77 99 0.31
78 61 0.19
79 66 0.21
80 6 0.02
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
GCGTGTGACCCG
Found at i:11520609 original size:53 final size:54
Alignment explanation
Indices: 11520528--11520642 Score: 148
Period size: 53 Copynumber: 2.1 Consensus size: 54
11520518 CTTACACGGT
* *
11520528 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAGTCACA-TTA
1 TCACATATCATACCGAAGCCATAGCCCAG-CTATGGTCTTAAACGG-G-CACACTTA
*
11520583 TCACAT-T-ATACCGATGCCATAGCCCAGCTATGGTCTTAAACGGGCACACTTA
1 TCACATATCATACCGAAGCCATAGCCCAGCTATGGTCTTAAACGGGCACACTTA
11520635 TCACATAT
1 TCACATAT
11520643 TTTTCGTCAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
51 4 0.07
52 11 0.20
53 32 0.59
54 1 0.02
55 6 0.11
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (54 bp):
TCACATATCATACCGAAGCCATAGCCCAGCTATGGTCTTAAACGGGCACACTTA
Found at i:11535050 original size:24 final size:22
Alignment explanation
Indices: 11534996--11535053 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
11534986 GAAAAATATT
*
11534996 AAAAT-ATAATATTAGAATAAA
1 AAAATAATAATATTACAATAAA
*
11535017 AATAACAATAATATTCACAATAAA
1 AA-AATAATAATATT-ACAATAAA
11535041 GAAAATAATAATA
1 -AAAATAATAATA
11535054 AAAAATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 8 0.27
24 16 0.53
25 2 0.07
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAATAATAATATTACAATAAA
Found at i:11535286 original size:3 final size:3
Alignment explanation
Indices: 11535278--11535340 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
11535268 CTATACATAT
* *
11535278 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA AT- ATAA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
11535323 TTA GA-A ATA ATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA
11535341 TTTAATAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.06
3 46 0.90
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11540112 original size:21 final size:20
Alignment explanation
Indices: 11540080--11540133 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
11540070 TGGAAAATAA
11540080 TAAAATAAATAATACATTAAAT
1 TAAAA-AAATAATAC-TTAAAT
* *
11540102 TAAAAAAATAATTCTTAATT
1 TAAAAAAATAATACTTAAAT
11540122 TAAAGAAAATAA
1 TAAA-AAAATAA
11540134 ATTTAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.31
21 15 0.52
22 5 0.17
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAAAAATAATACTTAAAT
Found at i:11540139 original size:20 final size:20
Alignment explanation
Indices: 11540096--11540141 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
11540086 AAATAATACA
* *
11540096 TTAAATTAAAAAAATAATTC
1 TTAATTTAAAAAAATAAATC
11540116 TTAATTTAAAGAAAATAAAT-
1 TTAATTTAAA-AAAATAAATC
11540136 TTAATT
1 TTAATT
11540142 ATCTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAATTTAAAAAAATAAATC
Found at i:11545572 original size:54 final size:54
Alignment explanation
Indices: 11545490--11545594 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
11545480 GCGGGATTAC
11545490 AAACTCATAGAGTATTGTCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATAT
1 AAACTCATAGAGTATTGTCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATAT
11545544 AAACTCATAGAGTATTGTCGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
1 AAACTCATAGAGTATTGTCGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
11545595 CGACAATTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (54 bp):
AAACTCATAGAGTATTGTCGGGATTACCAGTCCAGGCTAAATCCCCTGCAATAT
Found at i:11550094 original size:26 final size:24
Alignment explanation
Indices: 11550065--11550113 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
11550055 TAAATAAAAA
* *
11550065 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
11550091 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
11550114 TTAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:11553003 original size:29 final size:27
Alignment explanation
Indices: 11552924--11553018 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 27
11552914 GAATATCCAA
* *
11552924 CCCAAACACACCCGGAATATATAAATCCT
1 CCCAAACACA-CCGGTATATATATA-CCT
* *
11552953 -CCATAACATACCAGTATA-ATATAGCCT
1 CCCA-AACACACCGGTATATATATA-CCT
11552980 CCCAAACACACCGGTATATCATAT-CCT
1 CCCAAACACACCGGTATAT-ATATACCT
11553007 CCCAAACACACC
1 CCCAAACACACC
11553019 AAAAAGCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 34 0.62
28 12 0.22
29 9 0.16
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (27 bp):
CCCAAACACACCGGTATATATATACCT
Found at i:11553950 original size:3 final size:3
Alignment explanation
Indices: 11553942--11553986 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
11553932 TTTTAAATCA
* *
11553942 AAT AAT AAT AAT AAT AAT AAT AAT ATT AAC AAT AAT AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA
11553987 AATCTAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11556573 original size:51 final size:49
Alignment explanation
Indices: 11556445--11556621 Score: 177
Period size: 49 Copynumber: 3.7 Consensus size: 49
11556435 TATTGTGAGG
* * *
11556445 TCACGTGTTTAGTACTAAGTGCAGGCTACTACATGTACTAGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACACGTACTAGATAATTGA
* * **
11556494 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCT-GATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACACGTA-CTAGATAA-TT-GA
* ** *
11556545 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-TCAG---A-TGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACACGTACT-AGATAATTGA
11556590 TCACGTGTGTAGTACTAAGTGCAGGCTACTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTAC
11556622 GTGTACCGGA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
45 32 0.29
46 1 0.01
48 1 0.01
49 37 0.34
50 4 0.04
51 34 0.31
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACACGTACTAGATAATTGA
Found at i:11556619 original size:96 final size:98
Alignment explanation
Indices: 11556445--11556634 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 98
11556435 TATTGTGAGG
* *
11556445 TCACGTGTTTAGTACTAAGTGCAGGCTACTACATGTACTAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAG--AATTGGTCACATGTGTAGTACT
* *
11556510 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
64 AAGTGCAGGCTACTACGCGTACCGGATAACTTCGA
* * *
11556545 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-TCAG-A-TGGTCACGTGTGTAGTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACT-AGAATTGGTCACATGTGTAGTACTA
*
11556607 AGTGCAGGCTACTACGTGTACCGGATAA
65 AGTGCAGGCTACTACGCGTACCGGATAA
11556635 TTGGTCACAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
96 43 0.53
97 1 0.01
99 1 0.01
100 36 0.44
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGAATTGGTCACATGTGTAGTACTAA
GTGCAGGCTACTACGCGTACCGGATAACTTCGA
Found at i:11559548 original size:18 final size:18
Alignment explanation
Indices: 11559517--11559567 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11559507 TGTATTATAA
11559517 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
11559535 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
*
11559553 TATTATTTAATAAAA
1 TATTAATTAATAAAA
11559568 ATATCATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:11562058 original size:2 final size:2
Alignment explanation
Indices: 11562053--11562087 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11562043 TTATTAAAAT
11562053 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11562088 GATAAAGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11567706 original size:25 final size:25
Alignment explanation
Indices: 11567672--11567723 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11567662 GTTTCATTTA
11567672 AGCAAGAGGCATAGCTGCTGTTTGT
1 AGCAAGAGGCATAGCTGCTGTTTGT
11567697 AGCAAGAGGCATAGCTGCTGTTTGT
1 AGCAAGAGGCATAGCTGCTGTTTGT
11567722 AG
1 AG
11567724 TTTTTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (25 bp):
AGCAAGAGGCATAGCTGCTGTTTGT
Found at i:11571751 original size:22 final size:21
Alignment explanation
Indices: 11571703--11571753 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
11571693 TAAAAAAAAT
* *
11571703 TATTTTTTGTTGTTTTCTTAT
1 TATTTTTTGTTATTTTCTTAC
* *
11571724 TGTTTTGTTGTTATTTTTTTAC
1 TATTTT-TTGTTATTTTCTTAC
11571746 TATTTTTT
1 TATTTTTT
11571754 TAACTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.10, C:0.04, G:0.10, T:0.76
Consensus pattern (21 bp):
TATTTTTTGTTATTTTCTTAC
Found at i:11571752 original size:12 final size:12
Alignment explanation
Indices: 11571735--11571763 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
11571725 GTTTTGTTGT
11571735 TATTTTTTT-AC
1 TATTTTTTTAAC
11571746 TATTTTTTTAAC
1 TATTTTTTTAAC
11571758 TATTTT
1 TATTTT
11571764 GCTACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTTTTAAC
Found at i:11571957 original size:18 final size:18
Alignment explanation
Indices: 11571936--11571972 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11571926 AGTATTTTTG
*
11571936 ATATATTATATTTAAAAA
1 ATATATTATATATAAAAA
*
11571954 ATATATTTTATATAAAAA
1 ATATATTATATATAAAAA
11571972 A
1 A
11571973 ATTTAATACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATATTATATATAAAAA
Found at i:11576854 original size:30 final size:30
Alignment explanation
Indices: 11576818--11576879 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
11576808 TATTCATCTC
**
11576818 TAATTTTTCAATAAATC-TGAACTTTTAATT
1 TAATTTTTCAATAAA-CAAAAACTTTTAATT
11576848 TAATTTTTCAATAAACAAAAACTTTTAATT
1 TAATTTTTCAATAAACAAAAACTTTTAATT
11576878 TA
1 TA
11576880 TTTCATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (30 bp):
TAATTTTTCAATAAACAAAAACTTTTAATT
Found at i:11582018 original size:120 final size:120
Alignment explanation
Indices: 11581803--11582753 Score: 1008
Period size: 120 Copynumber: 7.9 Consensus size: 120
11581793 CAGATTCCTC
* * * * * *
11581803 AACATTGGCTCCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGTCGTAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * *
11581868 CATCAGCAGCTACAGTCATTTCAGAGCCCTCTTTCTCTTCTGACCAGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * *
11581923 AACATTAGTTTCAGAGACAATGGCGTTTGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * * * *
11581988 CATCAGCAGCTACGGCCACTCCAGAACCCTCTTTCTCTTCTGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * *
11582043 AACATTGGCTTCGGAGACAGTGGCCTCAGCACTATCATTAGATAAACCAT-TGGCATTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCT-CCATTGCAATCA
* * *
11582107 CCACCATCAGCTACAGCCATTTCAGAGCCCGCATTCTCTTTTGACCAGGAATCAAT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * * *** *
11582163 AACGCTGGCTTCAGAGACTGTGGTCTTAGCACTATCATTAGCTAAATTGTCTCCATTGCTATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
** ** **
11582228 CATCATCAGCTACAGTTATTTTGGAGCCCTCATTCTCTTTTGACCTGGAATTGAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * *
11582283 AACGTTGGCTTCAGAGACAGTGGCCTTAGCATTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * *
11582348 CATCATCGGCTACAGCCATTTCAGAGCCCTCATTATCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * * * * *
11582403 AACAGTATCTTCAGAAACAGTTGCCTCAACACTGTCATT-GACAAAACCATCTCCATTGAAATCT
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAG-CTAAACCATCTCCATTGCAATCA
* ** * * ** *
11582467 CCATCACCAGCTACAGCCATTTCATTGCCCCCATTCTCTTTTGACCTGAAATTGAG
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * ** *
11582523 CACATTAGCTTCAGAAACAGCGGCCTCAACACTATCATTAATTAAACCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * * * *
11582588 CATCATCAGCTACTGTCATTTCGGAGCACTCACTCTCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * *
11582643 AACATCAGTTTCAGAAACAG-GGGCTTCAACACTATCATTAACTAAACCATCTCCACTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTT-AGCACTATCATTAGCTAAACCATCTCCATTGCAATCA
* *
11582707 CCATCATCAGCTACAGCTATTTCGGAGCCCTCATTCTCTTTTGACCT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCT
11582754 AAAATCAAGG
Statistics
Matches: 697, Mismatches: 129, Indels: 10
0.83 0.15 0.01
Matches are distributed among these distances:
119 6 0.01
120 690 0.99
121 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (120 bp):
AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
Found at i:11583811 original size:7 final size:7
Alignment explanation
Indices: 11583799--11583830 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
11583789 GTAAAATTCC
11583799 TTTCCTT
1 TTTCCTT
11583806 TTTCCTT
1 TTTCCTT
11583813 TTTCCTT
1 TTTCCTT
11583820 TTTCCTT
1 TTTCCTT
11583827 TTTC
1 TTTC
11583831 GTAATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCCTT
Found at i:11585793 original size:23 final size:21
Alignment explanation
Indices: 11585753--11585803 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
11585743 GACATTTAGT
11585753 AATTTT-ATTTTTATTTTTAA
1 AATTTTAATTTTTATTTTTAA
*
11585773 AATTTTAATTTCTCTATTTTTTA
1 AATTTTAATTT-T-TATTTTTAA
*
11585796 TATTTTAA
1 AATTTTAA
11585804 AATTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 4 0.15
22 1 0.04
23 15 0.58
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTTTAATTTTTATTTTTAA
Found at i:11587393 original size:18 final size:18
Alignment explanation
Indices: 11587370--11587412 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11587360 GAATAGGTAT
11587370 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
11587388 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
11587406 TTAATTA
1 TTAATTA
11587413 TACTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:11593875 original size:24 final size:23
Alignment explanation
Indices: 11593832--11593886 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
11593822 ATCTTCCATT
11593832 TTATTT-TTTTAATATCTATTTC
1 TTATTTATTTTAATATCTATTTC
* * *
11593854 TTATTTATTTATAATTTTTATTTG
1 TTATTTATTT-TAATATCTATTTC
*
11593878 TTCTTTATT
1 TTATTTATT
11593887 CTCAAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.22
23 3 0.11
24 18 0.67
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (23 bp):
TTATTTATTTTAATATCTATTTC
Found at i:11602483 original size:20 final size:21
Alignment explanation
Indices: 11602445--11602486 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
11602435 TTTAATATTC
11602445 GATAAAAAAAGGTAATATTGTA
1 GATAAAAAAA-GTAATATTGTA
*
11602467 GATAAAAAAA-TAGTATTGTA
1 GATAAAAAAAGTAATATTGTA
11602487 AAAATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.29
Consensus pattern (21 bp):
GATAAAAAAAGTAATATTGTA
Found at i:11606127 original size:18 final size:18
Alignment explanation
Indices: 11606106--11606140 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11606096 CATGAGATTT
*
11606106 AAATAATAATAATTATTA
1 AAATAATAATAAATATTA
*
11606124 AAATATTAATAAATATT
1 AAATAATAATAAATATT
11606141 CAATTCAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAATAATAAATATTA
Found at i:11609067 original size:34 final size:34
Alignment explanation
Indices: 11609024--11609091 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
11609014 TTATGTAAAA
11609024 AACAAAACTTCTTCAAAATAAGTGAATTTTTTTT
1 AACAAAACTTCTTCAAAATAAGTGAATTTTTTTT
*
11609058 AACAAAACTTCTTCAAAATAAGTGATTTTTTTTT
1 AACAAAACTTCTTCAAAATAAGTGAATTTTTTTT
11609092 CTTTCTCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.43
Consensus pattern (34 bp):
AACAAAACTTCTTCAAAATAAGTGAATTTTTTTT
Found at i:11610875 original size:28 final size:25
Alignment explanation
Indices: 11610844--11610914 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
11610834 TTTAATTGAG
11610844 ATAATTTTCATTTAATAAATGATAATT
1 ATAATTTT-ATTTAATAAAT-ATAATT
*
11610871 AATAAATTTTGTTCT-ATAAA-ATAATT
1 -AT-AATTTTATT-TAATAAATATAATT
11610897 ATAATTTTATTTAA-AAAT
1 ATAATTTTATTTAATAAAT
11610915 TTAGACCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
23 4 0.11
24 9 0.24
25 2 0.05
26 6 0.16
28 9 0.24
29 7 0.19
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (25 bp):
ATAATTTTATTTAATAAATATAATT
Found at i:11614126 original size:13 final size:14
Alignment explanation
Indices: 11614105--11614133 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11614095 TGAAAAATGG
11614105 ATTAGAAAATATTT
1 ATTAGAAAATATTT
11614119 ATTA-AAAATATTT
1 ATTAGAAAATATTT
11614132 AT
1 AT
11614134 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:11614695 original size:31 final size:32
Alignment explanation
Indices: 11614646--11614709 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
11614636 ATATTAAATA
*
11614646 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
11614677 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
11614709 A
1 A
11614710 AAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:11615660 original size:15 final size:15
Alignment explanation
Indices: 11615637--11615680 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
11615627 TATCAAATTT
11615637 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
11615652 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
11615667 ATATTGATTGAAAT
1 ATATTGATTGAAAT
11615681 ATAATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:11618211 original size:22 final size:23
Alignment explanation
Indices: 11618161--11618209 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
11618151 AAATTAAATA
*
11618161 AAAATTAAAATAACTTTTTTTAT
1 AAAATTAAAATAACATTTTTTAT
* *
11618184 AAAATTGAAATGACATTTTTTAT
1 AAAATTAAAATAACATTTTTTAT
11618207 AAA
1 AAA
11618210 TTTTAAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAATTAAAATAACATTTTTTAT
Found at i:11622642 original size:16 final size:16
Alignment explanation
Indices: 11622617--11622649 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11622607 TCTAATTCTA
11622617 ATAACAATTAGAATTT
1 ATAACAATTAGAATTT
*
11622633 ATAACTATTAGAATTT
1 ATAACAATTAGAATTT
11622649 A
1 A
11622650 AAGTACATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
ATAACAATTAGAATTT
Found at i:11622750 original size:10 final size:9
Alignment explanation
Indices: 11622712--11622747 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
11622702 TTCATAACAC
*
11622712 TTTTTATAA
1 TTTTTAAAA
*
11622721 TTTTTTAAA
1 TTTTTAAAA
11622730 TTTTTAAAA
1 TTTTTAAAA
11622739 TTTTTAAAA
1 TTTTTAAAA
11622748 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:11628934 original size:31 final size:30
Alignment explanation
Indices: 11628865--11628944 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
11628855 ACGTTGAAAT
* *
11628865 CAAACTCAAGTATCAAATTAAAACTAAAAA
1 CAAACTTAAGTACCAAATTAAAACTAAAAA
* * *
11628895 AAATACTTAAGTACCAAATTAAATATTAAAAC
1 CAA-ACTTAAGTACCAAATTAAA-ACTAAAAA
11628927 CAAACTTATA-TACCAAAT
1 CAAACTTA-AGTACCAAAT
11628945 AGTATATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
30 2 0.05
31 30 0.73
32 9 0.22
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAACTTAAGTACCAAATTAAAACTAAAAA
Found at i:11632036 original size:10 final size:9
Alignment explanation
Indices: 11632003--11632067 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
11631993 ATTTTTATTT
11632003 TTTAAAAAA
1 TTTAAAAAA
**
11632012 TTTGTAAAA
1 TTTAAAAAA
11632021 TTTAAAAAA
1 TTTAAAAAA
11632030 TTCTAAAAAA
1 TT-TAAAAAA
11632040 TATATAAAGAAA
1 T-T-TAAA-AAA
*
11632052 GTTAAAAAA
1 TTTAAAAAA
11632061 -TTAAAAA
1 TTTAAAAA
11632068 TTTTCTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 7 0.15
9 19 0.40
10 12 0.26
11 6 0.13
12 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:11634929 original size:122 final size:124
Alignment explanation
Indices: 11634742--11634969 Score: 336
Period size: 122 Copynumber: 1.9 Consensus size: 124
11634732 CTTATTTCTG
* * *
11634742 TTTTTGGTTTGCATGTGCTTATTTCATTAAGCACAAAAAAGATTTAAAATAAAATTATTTATTTT
1 TTTTTGGTATGCATGTGCTTATTTCATTAAGCACAAAAAAGATTTAAAATAAAAATATTGATTTT
* * *
11634807 TTTCTTCTGAAAATTAGAAACCATAATTGAAAAAATTGTATCTTTTACTTTTCGTTTTT
66 TTTCTTCTGAAAATCAGAAACCAAAATTAAAAAAATTGTATCTTTTACTTTTCGTTTTT
* *
11634866 TTTTTTGTATGCATGTTG-TTATTT-ATTAAGCAC-AAAAAGATTTAAAATAAAAATCTTGATTT
1 TTTTTGGTATGCATG-TGCTTATTTCATTAAGCACAAAAAAGATTTAAAATAAAAATATTGATTT
* *
11634928 TTTTTTTTTGAAAATCAGAAACCAAAATTAAAAAAATTGTAT
65 TTTTCTTCTGAAAATCAGAAACCAAAATTAAAAAAATTGTAT
11634970 TTTCAGAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
122 63 0.68
123 9 0.10
124 19 0.20
125 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (124 bp):
TTTTTGGTATGCATGTGCTTATTTCATTAAGCACAAAAAAGATTTAAAATAAAAATATTGATTTT
TTTCTTCTGAAAATCAGAAACCAAAATTAAAAAAATTGTATCTTTTACTTTTCGTTTTT
Found at i:11639088 original size:25 final size:25
Alignment explanation
Indices: 11639055--11639104 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11639045 AATCCCTCAT
11639055 TTTTTTTTAAAGAAGAAAATAAATA
1 TTTTTTTTAAAGAAGAAAATAAATA
11639080 TTTTTTTTAAAGAAGAAAATAAATA
1 TTTTTTTTAAAGAAGAAAATAAATA
11639105 AAAATTCACG
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (25 bp):
TTTTTTTTAAAGAAGAAAATAAATA
Found at i:11639938 original size:17 final size:17
Alignment explanation
Indices: 11639916--11639955 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
11639906 CCTAGACCTC
*
11639916 AAAAATAAAATAAGAAT
1 AAAAATAAAATAAAAAT
11639933 AAAAATAAAATAAAAAT
1 AAAAATAAAATAAAAAT
11639950 AAAAAT
1 AAAAAT
11639956 TACTTTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:11639954 original size:6 final size:6
Alignment explanation
Indices: 11639916--11639955 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
11639906 CCTAGACCTC
*
11639916 AAAAAT -AAAAT AAGAAT AAAAAT -AAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
11639956 TACTTTTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:11645990 original size:29 final size:29
Alignment explanation
Indices: 11645958--11646016 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11645948 AGTGCCCATG
11645958 TACATAGGCTTACGTGAAGTATTGATCAT
1 TACATAGGCTTACGTGAAGTATTGATCAT
11645987 TACATAGGCTTACGTGAAGTATTGATCAT
1 TACATAGGCTTACGTGAAGTATTGATCAT
11646016 T
1 T
11646017 CTCATTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (29 bp):
TACATAGGCTTACGTGAAGTATTGATCAT
Found at i:11651666 original size:2 final size:2
Alignment explanation
Indices: 11651659--11651691 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11651649 AGTAATAAAA
11651659 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11651692 GATTTTATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11654064 original size:28 final size:28
Alignment explanation
Indices: 11654029--11654103 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
11654019 CTATATTGAC
* *
11654029 GATAGTCCTTAGCGGACTTTCTACATAA
1 GATAGTCCTTGGCGGACTTTCCACATAA
* *
11654057 G-TCAGTCCTTGGCAGACGTTCCACATAA
1 GAT-AGTCCTTGGCGGACTTTCCACATAA
*
11654085 GATAGTCCTTGGTGGACTT
1 GATAGTCCTTGGCGGACTT
11654104 CCCTTTTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (28 bp):
GATAGTCCTTGGCGGACTTTCCACATAA
Found at i:11656751 original size:39 final size:39
Alignment explanation
Indices: 11656670--11656752 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
11656660 CGTTTTAAAG
* * * *
11656670 AAAAACGCCACTAAAGATCGAGTATTAGCAGTGTTTTTA
1 AAAAACGCCACTAAAGATCGAGAATTAGCAGCGCTTTCA
*
11656709 AAAAACGCCACTAAAGATCGAGAATTAGCTGCGCTTTCA
1 AAAAACGCCACTAAAGATCGAGAATTAGCAGCGCTTTCA
11656748 AAAAA
1 AAAAA
11656753 AAGCCGCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (39 bp):
AAAAACGCCACTAAAGATCGAGAATTAGCAGCGCTTTCA
Found at i:11657494 original size:21 final size:21
Alignment explanation
Indices: 11657468--11657508 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11657458 TTATCATTAT
*
11657468 AGTTTAAGGTTTACGGTTTAG
1 AGTTTAAGGTTAACGGTTTAG
* *
11657489 AGTTTATGGTTAAGGGTTTA
1 AGTTTAAGGTTAACGGTTTA
11657509 AGGTTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (21 bp):
AGTTTAAGGTTAACGGTTTAG
Found at i:11657588 original size:21 final size:22
Alignment explanation
Indices: 11657562--11657610 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
11657552 TAGGGATTAT
11657562 GGTTTAAGGGTT-GGGGTGTAA
1 GGTTTAAGGGTTAGGGGTGTAA
* *
11657583 GGTTTAAGGGTTAGGGGTTTAG
1 GGTTTAAGGGTTAGGGGTGTAA
11657605 GGTTTA
1 GGTTTA
11657611 TGTTTTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGGTGTAA
Found at i:11657664 original size:14 final size:14
Alignment explanation
Indices: 11657629--11657665 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11657619 GATTCAAGGT
*
11657629 TTAGGGATTATGGA
1 TTAGGGGTTATGGA
11657643 TTAGGGGTTATGGA
1 TTAGGGGTTATGGA
*
11657657 TTATGGGTT
1 TTAGGGGTT
11657666 TAGGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
TTAGGGGTTATGGA
Found at i:11657835 original size:23 final size:23
Alignment explanation
Indices: 11657805--11657854 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11657795 GATTAATGTA
* *
11657805 TATG-GTTAAGAGTTTTAGGGTT
1 TATGAGTTAAGACTTTAAGGGTT
**
11657827 TATGAGTTACTACTTTAAGGGTT
1 TATGAGTTAAGACTTTAAGGGTT
11657850 TATGA
1 TATGA
11657855 ATTATGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.44
Consensus pattern (23 bp):
TATGAGTTAAGACTTTAAGGGTT
Found at i:11657925 original size:50 final size:51
Alignment explanation
Indices: 11657841--11657939 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 51
11657831 AGTTACTACT
*
11657841 TTAAGGGTTTATGAATTATGGTTTCAGGGCTAGGATTTAAGGTTTATGGGG
1 TTAAGGGTTTACGAATTATGGTTTCAGGGCTAGGATTTAAGGTTTATGGGG
* *
11657892 TTAAGGG-TTACGAGTTATGG-TTCAGGGTTTAGGATTTAAGGTTTATGG
1 TTAAGGGTTTACGAATTATGGTTTCAGGG-CTAGGATTTAAGGTTTATGG
11657940 TTTAGGGTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 7 0.16
50 30 0.68
51 7 0.16
ACGTcount: A:0.23, C:0.04, G:0.33, T:0.39
Consensus pattern (51 bp):
TTAAGGGTTTACGAATTATGGTTTCAGGGCTAGGATTTAAGGTTTATGGGG
Found at i:11657959 original size:15 final size:14
Alignment explanation
Indices: 11657926--11657965 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
11657916 GGGTTTAGGA
* *
11657926 TTTAAGGTTTATGG
1 TTTAGGGTTTATAG
11657940 TTTAGGGTTCTATAG
1 TTTAGGGTT-TATAG
11657955 TTTAGGGTTTA
1 TTTAGGGTTTA
11657966 GGGATTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:11657963 original size:22 final size:21
Alignment explanation
Indices: 11657910--11657973 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
11657900 TACGAGTTAT
* *
11657910 GGTTCAGGGTTTAGGATTTAA
1 GGTTTAGGGTTTAGGGTTTAA
*
11657931 GGTTTATGGTTTAGGGTTCTATA
1 GGTTTAGGGTTTAGGGTT-TA-A
*
11657954 -GTTTAGGGTTTAGGGATTAA
1 GGTTTAGGGTTTAGGGTTTAA
11657974 AGGATTAAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 17 0.47
22 17 0.47
23 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.33, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTAGGGTTTAA
Found at i:11657964 original size:7 final size:7
Alignment explanation
Indices: 11657910--11657968 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
11657900 TACGAGTTAT
*
11657910 GGTTCAG
1 GGTTTAG
11657917 GGTTTAG
1 GGTTTAG
* *
11657924 GATTTAA
1 GGTTTAG
*
11657931 GGTTTAT
1 GGTTTAG
11657938 GGTTTAG
1 GGTTTAG
*
11657945 GGTTCTAT
1 GGTT-TAG
*
11657953 AGTTTAG
1 GGTTTAG
11657960 GGTTTAG
1 GGTTTAG
11657967 GG
1 GG
11657969 ATTAAAGGAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 36 0.88
8 5 0.12
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:11658040 original size:313 final size:303
Alignment explanation
Indices: 11657381--11658062 Score: 793
Period size: 313 Copynumber: 2.2 Consensus size: 303
11657371 ATGACTGATT
* * * *
11657381 ATTTTTTAATTTATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATTGTATTAATTTCAAA
1 ATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAA
* *
11657446 ATATTGAATTAATTATCATTATAGTTTAAGGTTTACGGTTTAGAGTTTATGGTTAAGGGTTTAAG
66 ATATTGAAGTAATTATCATTATAGTTTAAGGTTTACGGTTTAGAGTATATGGTTAAGGGTTTAAG
* * *
11657511 GTTTATGAGTTATTATTTTAAGGTTTAGAGATTATAGGGTTTAGGGATTATGGTTTAAGGGTTGG
131 GTTTATGAGTTACTACTTTAAGGTTTAGAGATTATA-GGTTTAGGGACTATGGTTTAAGGGTTGG
* * * * * * *
11657576 GGTGTAAGGTTTAAGGGTTAGGGGTTTAGGGTTTATGTTTTATGATTCAAGGTTTAGGGATTATG
195 GGTGTAAGGGTTAAGAGTTAGGGGTTCAGGGTTTAGGATTTAAGATTCAAGGTTTAGGGATTATA
* * * * * *
11657641 GATTAGGGGTTATGGATTATGGGTTTAGGTTTTAAATTAATTAGC
260 GATTAGGGGTTAGGGATTAAGGATTAAGG-TATAAATAAATTAGC
*
11657686 ATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTGTTAATTTTAAA
1 ATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAA
* * *
11657751 ATATTGAAGTAATTATCTTTATAGTTTAGGGTTTAGGGTTTACAGATTAATGTATATGGTTAAGA
66 ATATTGAAGTAATTATCATTATAGTTTAAGGTTTACGGTTT--AG----A-GTATATGGTTAAG-
* *
11657816 GTTTTAGGGTTTATGAGTTACTACTTTAAGGGTTTATGA-ATTAT-GGTTTCAGGG-CTA-GGAT
123 GGTTTAAGGTTTATGAGTTACTACTTTAA-GGTTTA-GAGATTATAGGTTT-AGGGACTATGG-T
* * * * * *
11657877 TTAAGGTTTATGGGGT-TAAGGGTTACGAGTTA-TGGTTCAGGGTTTAGGATTTAAGGTTTATGG
184 TTAAGG-GT-TGGGGTGTAAGGGTTAAGAGTTAGGGGTTCAGGGTTTAGGATTTAAGATTCAAGG
* * * *
11657940 TTTAGGGTTCTATAGTTTAGGGTTTAGGGATTAAAGGATTAAGG-ATAAATAAATTAGT
247 TTTAGGGAT-TATAGATTAGGGGTTAGGGATT-AAGGATTAAGGTATAAATAAATTAGC
*
11657998 ATTTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAATATTAATTTTAA
1 A-TTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
11658063 TATCTTAAAA
Statistics
Matches: 320, Mismatches: 40, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
305 97 0.30
307 2 0.01
311 3 0.01
312 69 0.22
313 122 0.38
314 25 0.08
315 2 0.01
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (303 bp):
ATTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAA
ATATTGAAGTAATTATCATTATAGTTTAAGGTTTACGGTTTAGAGTATATGGTTAAGGGTTTAAG
GTTTATGAGTTACTACTTTAAGGTTTAGAGATTATAGGTTTAGGGACTATGGTTTAAGGGTTGGG
GTGTAAGGGTTAAGAGTTAGGGGTTCAGGGTTTAGGATTTAAGATTCAAGGTTTAGGGATTATAG
ATTAGGGGTTAGGGATTAAGGATTAAGGTATAAATAAATTAGC
Found at i:11658128 original size:13 final size:14
Alignment explanation
Indices: 11658104--11658140 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
11658094 GAAAAAAATG
11658104 AAATTATTTAGATT
1 AAATTATTTAGATT
11658118 AAATT-TTTAGATT
1 AAATTATTTAGATT
*
11658131 AAACTATTTA
1 AAATTATTTA
11658141 AGATATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:11658219 original size:19 final size:19
Alignment explanation
Indices: 11658197--11658236 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11658187 AATTGATAAC
*
11658197 AAATAAAAATTAAATACAA
1 AAATAAAAATGAAATACAA
*
11658216 AAATAAAAATGAAATATAA
1 AAATAAAAATGAAATACAA
11658235 AA
1 AA
11658237 TGGAGATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:11658522 original size:19 final size:18
Alignment explanation
Indices: 11658500--11658547 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
11658490 CCCGTAATAG
*
11658500 ATTTTCCCCAATTCACTAT
1 ATTTTCCCCAA-TCACTAA
*
11658519 A-TTTCCCCTAATCTCTAA
1 ATTTTCCCC-AATCACTAA
11658537 ATTTTCCCCAA
1 ATTTTCCCCAA
11658548 AATCCCTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTTCCCCAATCACTAA
Found at i:11658692 original size:20 final size:20
Alignment explanation
Indices: 11658667--11658705 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11658657 ATGAAGGTTC
*
11658667 AGTTTTCTTGTTATGTCATT
1 AGTTTTCTTGTTATATCATT
11658687 AGTTTTCTTGTTATATCAT
1 AGTTTTCTTGTTATATCAT
11658706 CCAACCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.13, T:0.59
Consensus pattern (20 bp):
AGTTTTCTTGTTATATCATT
Found at i:11660936 original size:12 final size:13
Alignment explanation
Indices: 11660914--11660942 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11660904 CATAAAAATT
11660914 TAAACTAAGTAAA
1 TAAACTAAGTAAA
11660927 TAAA-TAAGTAAA
1 TAAACTAAGTAAA
11660939 TAAA
1 TAAA
11660943 AATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.24
Consensus pattern (13 bp):
TAAACTAAGTAAA
Found at i:11662354 original size:23 final size:22
Alignment explanation
Indices: 11662302--11662354 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
11662292 TCCACGTCTT
*
11662302 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
11662324 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
11662347 TTTCTTTT
1 TTTCTTTT
11662355 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:11665934 original size:5 final size:5
Alignment explanation
Indices: 11665926--11665953 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11665916 TTTAAATATA
11665926 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
11665954 ATTATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:11666211 original size:105 final size:105
Alignment explanation
Indices: 11665932--11666333 Score: 709
Period size: 104 Copynumber: 3.8 Consensus size: 105
11665922 TATATTATTT
* * *
11665932 TATTTTATTTTATTTTATTTTAATTATGAAAAATGTTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
11665997 ACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
*
11666037 TATTTTA-TTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
11666101 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
* *
11666141 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTGCTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
11666206 ACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAAA
66 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
*
11666246 T-GTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
11666310 ACCTAATTAAATTAAATTGTATTT
66 ACCTAATTAAATTAAATTGTATTT
11666334 TTAAATGTTG
Statistics
Matches: 283, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
104 182 0.64
105 101 0.36
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (105 bp):
TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
Found at i:11666232 original size:209 final size:209
Alignment explanation
Indices: 11665932--11666333 Score: 725
Period size: 209 Copynumber: 1.9 Consensus size: 209
11665922 TATATTATTT
* *
11665932 TATTTTATTTTATTTTATTTTAATTATGAAAAATGTTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
* *
11665997 ACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT-TATTTATTTTATTTTAATC
66 ACCTAATCAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTAT-TTTATTTTATTTTAATC
11666061 ACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
130 ACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
11666126 AAGTTTTATTTTAAA
195 AAGTTTTATTTTAAA
*
11666141 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTGCTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
11666206 ACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCA
66 ACCTAATCAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCA
*
11666271 CGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
131 CAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
11666334 TTAAATGTTG
Statistics
Matches: 185, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
209 184 0.99
210 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (209 bp):
TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
ACCTAATCAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCA
CAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAA
AGTTTTATTTTAAA
Found at i:11666245 original size:13 final size:12
Alignment explanation
Indices: 11666227--11666267 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
11666217 TTAAATAGTA
11666227 TTTAAAGTTTTAT
1 TTTAAA-TTTTAT
11666240 TTTAAATGTTTAT
1 TTTAAAT-TTTAT
11666253 TTT--ATTTTAT
1 TTTAAATTTTAT
11666263 TTTAA
1 TTTAA
11666268 TCACGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 1 0.04
13 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (12 bp):
TTTAAATTTTAT
Found at i:11666570 original size:9 final size:9
Alignment explanation
Indices: 11666556--11666609 Score: 72
Period size: 9 Copynumber: 6.0 Consensus size: 9
11666546 ATATCGTATC
11666556 TTACATAAT
1 TTACATAAT
11666565 TTACATAAT
1 TTACATAAT
* * *
11666574 TCAGATAAC
1 TTACATAAT
11666583 TTACATAAT
1 TTACATAAT
*
11666592 TTACATAAC
1 TTACATAAT
11666601 TTACATAAT
1 TTACATAAT
11666610 ACATAAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAT
Found at i:11666608 original size:27 final size:27
Alignment explanation
Indices: 11666555--11666642 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
11666545 TATATCGTAT
*
11666555 CTTACATAATTTACATAA-TTCAGATAA
1 CTTACATAATTTACATAACTT-ACATAA
11666582 CTTACATAATTTACATAACTTACATAA
1 CTTACATAATTTACATAACTTACATAA
* * * *
11666609 --TACATAA-ATATATATCATATCATAA
1 CTTACATAATTTACATAACTTA-CATAA
11666634 CTTACATAA
1 CTTACATAA
11666643 CTTAATTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
24 8 0.15
25 12 0.23
27 30 0.58
28 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (27 bp):
CTTACATAATTTACATAACTTACATAA
Found at i:11671667 original size:13 final size:14
Alignment explanation
Indices: 11671651--11671679 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11671641 TTATAAATAT
11671651 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
11671664 TTATAATGGTTTAA
1 TTATAATGGTTTAA
11671678 TT
1 TT
11671680 TGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:11672114 original size:21 final size:21
Alignment explanation
Indices: 11672089--11672129 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11672079 TTAGAGCGGA
11672089 GGCAGCAGAGAAGGAGGCAGC
1 GGCAGCAGAGAAGGAGGCAGC
* *
11672110 GGCAGCAGCGAGGGAGGCAG
1 GGCAGCAGAGAAGGAGGCAG
11672130 AGCAGAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.51, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAAGGAGGCAGC
Found at i:11672424 original size:30 final size:31
Alignment explanation
Indices: 11672368--11672436 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
11672358 TGATTGCATT
*
11672368 TTTTATGCTAAATTTGCTAATTTTGGTTGCA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
* * *
11672399 TTTTATGCTATATTTACT-GTTTTGGTTGGA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
*
11672429 TTTAATGC
1 TTTTATGC
11672437 AGGAAGGGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (31 bp):
TTTTATGCTAAATTTACTAATTTTGGTTGCA
Found at i:11672624 original size:43 final size:43
Alignment explanation
Indices: 11672445--11672626 Score: 226
Period size: 43 Copynumber: 4.3 Consensus size: 43
11672435 GCAGGAAGGG
* *
11672445 CTTTTAGCCAGCGCTTTTACCACAAACGCCGCTAAAA-CCATGA
1 CTTTTAG-CGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
* * **
11672488 CTTTTAGTGGTGCTTTTCTTAC-AACGCCGCTAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
* * * *
11672530 CTTTTAGAGGCGTTTTTCCCATAAACGCTG-TGAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCT-AAAAGCCATGA
*
11672573 CTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
11672616 CTTTTAGCGGC
1 CTTTTAGCGGC
11672627 ATTTTTTTAG
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
41 13 0.11
42 32 0.27
43 71 0.61
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
Found at i:11672989 original size:20 final size:21
Alignment explanation
Indices: 11672961--11673001 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11672951 CAACTCTTAA
*
11672961 ATTATTATTTAATTA-AAATT
1 ATTAATATTTAATTATAAATT
*
11672981 ATTAATATTTATTTATAAATT
1 ATTAATATTTAATTATAAATT
11673002 TTCTGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATATTTAATTATAAATT
Found at i:11679648 original size:75 final size:77
Alignment explanation
Indices: 11679506--11679648 Score: 220
Period size: 78 Copynumber: 1.9 Consensus size: 77
11679496 GTAACCAAAA
* * *
11679506 TTTGAGAATATTATTTAATTGTATTCTAAAAATAATAATATATAATAAATTCAAGAAAAAACTAA
1 TTTGAAAATATTATTCAATTGTATTCT-AAAATAATAATATATAATAAATTAAAGAAAAAACTAA
11679571 AAAAAATCCGATT
65 AAAAAATCCGATT
*
11679584 TTTGAAAATGTTATTCAATTGTATTCT-AAA-AATAATATATAATAAATTAAAG-AAAAACTAAA
1 TTTGAAAATATTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAA
11679646 AAA
66 AAA
11679649 CCCAACTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
74 13 0.21
75 21 0.34
76 3 0.05
78 24 0.39
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (77 bp):
TTTGAAAATATTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAA
AAAAATCCGATT
Found at i:11680192 original size:17 final size:19
Alignment explanation
Indices: 11680170--11680206 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
11680160 CGTCAGAGTT
11680170 GGAAGCTAAG-AA-AGAGG
1 GGAAGCTAAGTAACAGAGG
11680187 GGAAGCTAAGTAACAGAGG
1 GGAAGCTAAGTAACAGAGG
11680206 G
1 G
11680207 AATACTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.43, C:0.08, G:0.41, T:0.08
Consensus pattern (19 bp):
GGAAGCTAAGTAACAGAGG
Found at i:11682673 original size:12 final size:12
Alignment explanation
Indices: 11682656--11682680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11682646 ATATATTGAG
11682656 AATGGCAAATTT
1 AATGGCAAATTT
11682668 AATGGCAAATTT
1 AATGGCAAATTT
11682680 A
1 A
11682681 TGTTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AATGGCAAATTT
Found at i:11690627 original size:7 final size:7
Alignment explanation
Indices: 11690608--11690696 Score: 76
Period size: 7 Copynumber: 12.3 Consensus size: 7
11690598 ACTAAACACC
11690608 ATTAAAA
1 ATTAAAA
11690615 ATTTAAAA
1 A-TTAAAA
11690623 ATTAAAA
1 ATTAAAA
*
11690630 ATTTAGAA
1 A-TTAAAA
11690638 ATT---A
1 ATTAAAA
*
11690642 ACTAAACA
1 ATTAAA-A
11690650 CCATTAAAA
1 --ATTAAAA
11690659 ATTAAAA
1 ATTAAAA
11690666 ATTAAAA
1 ATTAAAA
11690673 ATTAAAA
1 ATTAAAA
11690680 ATTAAAA
1 ATTAAAA
*
11690687 TCTTAAAA
1 -ATTAAAA
11690695 AT
1 AT
11690697 ATAATATATA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
4 3 0.04
7 39 0.57
8 20 0.29
9 1 0.01
10 5 0.07
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (7 bp):
ATTAAAA
Found at i:11690628 original size:15 final size:14
Alignment explanation
Indices: 11690608--11690696 Score: 76
Period size: 15 Copynumber: 6.1 Consensus size: 14
11690598 ACTAAACACC
11690608 ATTAAAAATTTAAAA
1 ATTAAAAA-TTAAAA
*
11690623 ATTAAAAATTTAGAA
1 ATTAAAAA-TTAAAA
*
11690638 ATT---AACTAAACA
1 ATTAAAAATTAAA-A
11690650 CCATTAAAAATTAAAA
1 --ATTAAAAATTAAAA
11690666 ATTAAAAATTAAAA
1 ATTAAAAATTAAAA
*
11690680 ATTAAAATCTTAAAA
1 ATTAAAA-ATTAAAA
11690695 AT
1 AT
11690697 ATAATATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.05
12 3 0.05
14 24 0.39
15 25 0.40
16 1 0.02
17 6 0.10
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (14 bp):
ATTAAAAATTAAAA
Found at i:11690638 original size:44 final size:42
Alignment explanation
Indices: 11690588--11690684 Score: 167
Period size: 44 Copynumber: 2.3 Consensus size: 42
11690578 GAAGTTAGTG
11690588 TTAGAAATTAACTAAACACCATTAAAAATTTAAAAATTAAAAA
1 TTAGAAATTAACTAAACACCATTAAAAA-TTAAAAATTAAAAA
11690631 TTTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
1 -TTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
*
11690674 TTAAAAATTAA
1 TTAGAAATTAA
11690685 AATCTTAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 10 0.19
43 14 0.27
44 28 0.54
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (42 bp):
TTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
Found at i:11693886 original size:98 final size:97
Alignment explanation
Indices: 11693773--11693958 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
11693763 CAAGGCTATG
* *
11693773 AAATTATTAAGAGCATTTAATAAGCTCAACCTCTGAGTTTTATAATTCGATGAATTCATCAAGTC
1 AAATTATTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTC
11693838 TGTCTCAATAAAACCACCCAAACACTGGAATT
66 TGTCTCAATAAAACCACCCAAACACTGGAATT
* * *
11693870 AAATTCATTAAGAGCATTTAATATGCTCAACCTTTCAGTTTTATAATTCAATGAATTCATTAAGT
1 AAATT-ATTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGT
* **
11693935 CTGTCTCACTAGGACCACCCAAAC
65 CTGTCTCAATAAAACCACCCAAAC
11693959 TCTAGGCTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 5 0.06
98 75 0.94
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (97 bp):
AAATTATTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTC
TGTCTCAATAAAACCACCCAAACACTGGAATT
Found at i:11695381 original size:21 final size:20
Alignment explanation
Indices: 11695355--11695397 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
11695345 TTAATAATAT
* *
11695355 AATAAAAGAATAAAGAAATGA
1 AATAAAAAAAGAAAGAAA-GA
11695376 AATAAAAAAAGAAAGAAAGA
1 AATAAAAAAAGAAAGAAAGA
11695396 AA
1 AA
11695398 GAAGGCACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (20 bp):
AATAAAAAAAGAAAGAAAGA
Found at i:11698020 original size:26 final size:26
Alignment explanation
Indices: 11697991--11698068 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
11697981 ATTTGCTCAT
* *
11697991 GGTCCTTCGACCAACTCAAAC-TCAAG
1 GGTCCTCCAACCAACTCAAACGT-AAG
*
11698017 GGTCCTCCAAGCAACTCAAACGTAAG
1 GGTCCTCCAACCAACTCAAACGTAAG
* ** *
11698043 GGTCCTCTAACCCCCTCAAACTTAAG
1 GGTCCTCCAACCAACTCAAACGTAAG
11698069 CTTACTAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 42 0.98
27 1 0.02
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (26 bp):
GGTCCTCCAACCAACTCAAACGTAAG
Found at i:11699148 original size:38 final size:38
Alignment explanation
Indices: 11699069--11699148 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
11699059 TAGTAGAGGA
* * ** *
11699069 TTTTCCTTAACAGAAAATATTCTACAACAGTCAAAGGT
1 TTTTCCTCAACAAAAAATATTCTACAACAGAAAAAGAT
*
11699107 TTTTCCTCAATCAAAAAATATTCTACAACA-AAAAATAT
1 TTTTCCTCAA-CAAAAAATATTCTACAACAGAAAAAGAT
11699145 TTTT
1 TTTT
11699149 AAAAAATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 17 0.49
39 18 0.51
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (38 bp):
TTTTCCTCAACAAAAAATATTCTACAACAGAAAAAGAT
Found at i:11704224 original size:49 final size:49
Alignment explanation
Indices: 11704152--11704249 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
11704142 GTTTTTCATT
11704152 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
1 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
11704201 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
1 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
11704250 TGTCGATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (49 bp):
CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
Found at i:11706641 original size:31 final size:31
Alignment explanation
Indices: 11706603--11706664 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11706593 CATAACTTCG
11706603 TAACATGTTTCATTCACTCTCTATTAATAAT
1 TAACATGTTTCATTCACTCTCTATTAATAAT
*
11706634 TAACATGTTTCATTCACTCTCTATTAGTAAT
1 TAACATGTTTCATTCACTCTCTATTAATAAT
11706665 CATCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (31 bp):
TAACATGTTTCATTCACTCTCTATTAATAAT
Found at i:11706715 original size:26 final size:26
Alignment explanation
Indices: 11706686--11706738 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11706676 TATATTAAAT
11706686 AATTTTTTATTTAATATTTAATATAC
1 AATTTTTTATTTAATATTTAATATAC
11706712 AATTTTTTATTTAATATTTAATATAC
1 AATTTTTTATTTAATATTTAATATAC
11706738 A
1 A
11706739 TATAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTTTTATTTAATATTTAATATAC
Found at i:11709877 original size:23 final size:23
Alignment explanation
Indices: 11709851--11709900 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
11709841 ACCTTAGAAT
*
11709851 TAACAACTCTATAACAGACTT-GC
1 TAAC-ACTCTATAACAAACTTGGC
* *
11709874 TAACAGTCTGTAACAAACTTGGC
1 TAACACTCTATAACAAACTTGGC
11709897 TAAC
1 TAAC
11709901 TCTTAACTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (23 bp):
TAACACTCTATAACAAACTTGGC
Found at i:11718854 original size:22 final size:22
Alignment explanation
Indices: 11718804--11718854 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
11718794 CCTCGTCTTT
* *
11718804 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTCTCTAAC
11718826 -TCATTTTCTCTTCTTTCT-TAAC
1 TTC-TTTTCT-TTCTTTCTCTAAC
11718848 TTCTTTT
1 TTCTTTT
11718855 TCAATTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.08
22 13 0.54
23 9 0.38
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTCTCTAAC
Found at i:11718855 original size:23 final size:21
Alignment explanation
Indices: 11718804--11718856 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
11718794 CCTCGTCTTT
*
11718804 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTT-TCTCTTTTTCTAAC
*
11718826 -TCATTTTCTCTTCTTTCTTAAC
1 TTCTTTTTCTCTT-TTTC-TAAC
11718848 TTCTTTTTC
1 TTCTTTTTC
11718857 AATTTCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.20
21 9 0.36
22 4 0.16
23 7 0.28
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (21 bp):
TTCTTTTTCTCTTTTTCTAAC
Found at i:11736487 original size:18 final size:17
Alignment explanation
Indices: 11736455--11736488 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11736445 AGCAAATTTT
11736455 GAAAAAAAAAAAGAAAA
1 GAAAAAAAAAAAGAAAA
*
11736472 GAAAAGAAAGAAAGAAA
1 GAAAA-AAAAAAAGAAA
11736489 GACTTAGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAAAAGAAAA
Found at i:11739977 original size:24 final size:24
Alignment explanation
Indices: 11739948--11740004 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
11739938 ATTAGGAGGA
* * *
11739948 GGAGGTGGTGGAGGGTTTGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
11739972 GGAGGTGGAGGAGGGCTAGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
*
11739996 GGAGCTGGA
1 GGAGGTGGA
11740005 TTTGGTGGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.14, C:0.04, G:0.61, T:0.21
Consensus pattern (24 bp):
GGAGGTGGAGGAGGGCTAGGTGGT
Found at i:11740040 original size:18 final size:18
Alignment explanation
Indices: 11740019--11740057 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11740009 GTGGGGGCGC
* *
11740019 TGGTGCTGGTGGTGGCCT
1 TGGTGCAGGTGGTGGACT
*
11740037 TGGTGGAGGTGGTGGACT
1 TGGTGCAGGTGGTGGACT
11740055 TGG
1 TGG
11740058 AGGAGGAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.05, C:0.10, G:0.54, T:0.31
Consensus pattern (18 bp):
TGGTGCAGGTGGTGGACT
Found at i:11740062 original size:18 final size:18
Alignment explanation
Indices: 11740026--11740069 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11740016 CGCTGGTGCT
* *
11740026 GGTGGTGGCCTTGGTGGA
1 GGTGGTGGACTTGGAGGA
11740044 GGTGGTGGACTTGGAGGA
1 GGTGGTGGACTTGGAGGA
*
11740062 GGAGGTGG
1 GGTGGTGG
11740070 TGGAGGGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.07, G:0.59, T:0.23
Consensus pattern (18 bp):
GGTGGTGGACTTGGAGGA
Found at i:11740101 original size:18 final size:20
Alignment explanation
Indices: 11740059--11740113 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
11740049 TGGACTTGGA
*
11740059 GGAGGAGGTGGTGGAGGGTTC
1 GGAGGAGGTGGTGG-TGGTTC
11740080 GGAGGAGGTGGTGGTGG-T-
1 GGAGGAGGTGGTGGTGGTTC
*
11740098 GGAGTAGGTGGTGGTG
1 GGAGGAGGTGGTGGTG
11740114 CTGGTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 15 0.47
19 1 0.03
20 2 0.06
21 14 0.44
ACGTcount: A:0.13, C:0.02, G:0.64, T:0.22
Consensus pattern (20 bp):
GGAGGAGGTGGTGGTGGTTC
Found at i:11740135 original size:24 final size:24
Alignment explanation
Indices: 11740038--11740132 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
11740028 TGGTGGCCTT
* **
11740038 GGTGGAGGTGGTGGACTTGGAGGA
1 GGTGGTGGTGGTGGGTTTGGAGGA
* * *
11740062 GGAGGTGGTGGAGGGTTCGGAGGA
1 GGTGGTGGTGGTGGGTTTGGAGGA
* * *
11740086 GGTGGTGGTGGTGGAG-TAGGTGGT
1 GGTGGTGGTGGTGG-GTTTGGAGGA
*
11740110 GGTGCTGGTGGTGGGTTTGGAGG
1 GGTGGTGGTGGTGGGTTTGGAGG
11740133 TGGAGCAGGA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
23 1 0.02
24 53 0.96
25 1 0.02
ACGTcount: A:0.12, C:0.03, G:0.61, T:0.24
Consensus pattern (24 bp):
GGTGGTGGTGGTGGGTTTGGAGGA
Found at i:11740178 original size:18 final size:18
Alignment explanation
Indices: 11740127--11740197 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
11740117 GTGGTGGGTT
**
11740127 TGGAGGTGGAGCAGGAGC
1 TGGAGGTGGAGGTGGAGC
* *
11740145 AGGAGCTGGAGGTGGA-C
1 TGGAGGTGGAGGTGGAGC
* *
11740162 TAGGTGGTGGTGGTGGAGC
1 T-GGAGGTGGAGGTGGAGC
11740181 TGGAGGTGGAGGTGGAG
1 TGGAGGTGGAGGTGGAG
11740198 GCGGCTTCGG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 38 0.93
19 2 0.05
ACGTcount: A:0.18, C:0.07, G:0.58, T:0.17
Consensus pattern (18 bp):
TGGAGGTGGAGGTGGAGC
Found at i:11740188 original size:12 final size:12
Alignment explanation
Indices: 11740127--11740198 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 12
11740117 GTGGTGGGTT
11740127 TGGAGGTGGAGC
1 TGGAGGTGGAGC
* **
11740139 AGGAGCAGGAGC
1 TGGAGGTGGAGC
11740151 TGGAGGTGGA-C
1 TGGAGGTGGAGC
11740162 T--AGGT-G-G-
1 TGGAGGTGGAGC
*
11740169 TGGTGGTGGAGC
1 TGGAGGTGGAGC
*
11740181 TGGAGGTGGAGG
1 TGGAGGTGGAGC
11740193 TGGAGG
1 TGGAGG
11740199 CGGCTTCGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 7 0.16
10 1 0.02
11 3 0.07
12 32 0.71
ACGTcount: A:0.18, C:0.07, G:0.58, T:0.17
Consensus pattern (12 bp):
TGGAGGTGGAGC
Found at i:11740188 original size:15 final size:15
Alignment explanation
Indices: 11740145--11740192 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
11740135 GAGCAGGAGC
11740145 AGGAGCTGGAGGTGG
1 AGGAGCTGGAGGTGG
** * *
11740160 ACTAGGTGGTGGTGG
1 AGGAGCTGGAGGTGG
*
11740175 TGGAGCTGGAGGTGG
1 AGGAGCTGGAGGTGG
11740190 AGG
1 AGG
11740193 TGGAGGCGGC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.58, T:0.19
Consensus pattern (15 bp):
AGGAGCTGGAGGTGG
Found at i:11740251 original size:30 final size:30
Alignment explanation
Indices: 11740206--11740285 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
11740196 AGGCGGCTTC
* *
11740206 GGTGGAGGAGGTGGGTTTGGCGGTGGAGCT
1 GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
* *
11740236 GGTGCAGGTGGTGGGTTCGGTGGTGGAGCT
1 GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
* *
11740266 GGTGCAGGTAGTGGGCTTGG
1 GGTGCAGGTGGTGGGTTTGG
11740286 AGGAGGACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.09, C:0.09, G:0.57, T:0.25
Consensus pattern (30 bp):
GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
Found at i:11741315 original size:12 final size:12
Alignment explanation
Indices: 11741298--11741327 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11741288 CCCTACACGT
11741298 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
11741310 CCGTGTGTTAGG
1 CCGTGTGCTAGG
11741322 CCGTGT
1 CCGTGT
11741328 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:11746691 original size:19 final size:19
Alignment explanation
Indices: 11746667--11746704 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11746657 AAGTTAATAA
11746667 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
11746686 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
11746705 TGACAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:11746802 original size:31 final size:31
Alignment explanation
Indices: 11746764--11746837 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
11746754 AAATATATTA
11746764 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
11746795 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
11746826 GACTCGATTCGA
1 GATTTGATTCGA
11746838 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:11747216 original size:16 final size:15
Alignment explanation
Indices: 11747197--11747240 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
11747187 CATTCACTCC
11747197 TTTTTCTTTTTCTTT-
1 TTTTT-TTTTTCTTTG
11747212 TTTTTTGTTTTACTTTG
1 TTTTTT-TTTT-CTTTG
11747229 TTTTTTTTTTCT
1 TTTTTTTTTTCT
11747241 ACTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.04
15 11 0.42
16 8 0.31
17 6 0.23
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTTCTTTG
Found at i:11747234 original size:18 final size:18
Alignment explanation
Indices: 11747210--11747245 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11747200 TTCTTTTTCT
*
11747210 TTTTTTTTGTTTTACTTTG
1 TTTTTTTT-TTCTACTTTG
11747229 TTTTTTTTTTCTACTTT
1 TTTTTTTTTTCTACTTT
11747246 TAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.06, C:0.08, G:0.06, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTTCTACTTTG
Found at i:11762543 original size:11 final size:11
Alignment explanation
Indices: 11762527--11762556 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11762517 CCAATTTATA
11762527 AAAAATAAAAT
1 AAAAATAAAAT
11762538 AAAAATAAAAT
1 AAAAATAAAAT
11762549 -AAAATAAA
1 AAAAATAAA
11762557 GAACACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:11763273 original size:38 final size:38
Alignment explanation
Indices: 11763211--11763334 Score: 124
Period size: 39 Copynumber: 3.2 Consensus size: 38
11763201 CGTTTGAATG
*
11763211 AAAAACGCCGCTAAAGAACAAGCATTAGCGGCGCTTTTA
1 AAAAACGCCGCTAAAGATC-AGCATTAGCGGCGCTTTTA
* *
11763250 AAAAATGCCGCTAAAG-TCGAGCATTAGCAGCGCTTATTA
1 AAAAACGCCGCTAAAGATC-AGCATTAGCGGCGCTT-TTA
* * * * *
11763289 AAAAACGCCACTATAGGTTCACCTTTAGCGGCGCTTTTCA
1 AAAAACGCCGCTA-AAGATCAGCATTAGCGGCGCTTTT-A
11763329 AAAAAC
1 AAAAAC
11763335 ACCGTTAATG
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
38 16 0.23
39 31 0.44
40 22 0.31
41 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (38 bp):
AAAAACGCCGCTAAAGATCAGCATTAGCGGCGCTTTTA
Found at i:11763762 original size:15 final size:14
Alignment explanation
Indices: 11763744--11763778 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11763734 ATTATTTTAA
*
11763744 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
11763758 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
11763773 GGTTTA
1 GGTTTA
11763779 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:11763764 original size:22 final size:22
Alignment explanation
Indices: 11763705--11763783 Score: 54
Period size: 22 Copynumber: 3.6 Consensus size: 22
11763695 ATTTACAGTA
*
11763705 TATGG-TTAAGGGTTTAATGTT
1 TATGGATTAAGGGTTTAAGGTT
****
11763726 TAT-GAGTTATTATTTTAAGGTT
1 TATGGA-TTAAGGGTTTAAGGTT
* * *
11763748 TATGGATTATGGGTTTAGGGAT
1 TATGGATTAAGGGTTTAAGGTT
*
11763770 TATGGTTTAAGGGT
1 TATGGATTAAGGGT
11763784 GGTTTAAGGG
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 37 0.86
23 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
TATGGATTAAGGGTTTAAGGTT
Found at i:11763800 original size:25 final size:25
Alignment explanation
Indices: 11763759--11763806 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11763749 ATGGATTATG
11763759 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTATGGTTTAAGGGT
*
11763784 GGTTTAAGGG-TTGTGGTTTAAGG
1 GGTTT-AGGGATTATGGTTTAAGG
11763807 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGTTTAGGGATTATGGTTTAAGGGT
Found at i:11764077 original size:15 final size:15
Alignment explanation
Indices: 11764059--11764106 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
11764049 ATTATTTTAA
11764059 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
11764074 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
11764088 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
11764103 GGTT
1 GGTT
11764107 GAGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:11764079 original size:22 final size:21
Alignment explanation
Indices: 11764054--11764103 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
11764044 GAGTTATTAT
*
11764054 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
11764076 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
11764097 TTTAAGG
1 TTTAAGG
11764104 GTTGAGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:11764097 original size:7 final size:7
Alignment explanation
Indices: 11763991--11764100 Score: 53
Period size: 7 Copynumber: 15.4 Consensus size: 7
11763981 TTAATTATCA
*
11763991 TTATAGT
1 TTATGGT
*
11763998 TTAGGGT
1 TTATGGT
*
11764005 TTATGAT
1 TTATGGT
*
11764012 TTAGGGT
1 TTATGGT
*
11764019 ATATGGT
1 TTATGGT
*
11764026 TTATAGT
1 TTATGGT
**
11764033 TTAAAGT
1 TTATGGT
*
11764040 GTATGAGTT
1 TTATG-G-T
11764049 ATTAT--T
1 -TTATGGT
*
11764055 TTAAGGT
1 TTATGGT
*
11764062 TTATGGA
1 TTATGGT
11764069 TTATGGGT
1 TTAT-GGT
* *
11764077 TTAGGGA
1 TTATGGT
11764084 TTATGGT
1 TTATGGT
11764091 TTATGGT
1 TTATGGT
11764098 TTA
1 TTA
11764101 AGGGTTGAGG
Statistics
Matches: 74, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
5 3 0.04
6 1 0.01
7 60 0.81
8 6 0.08
9 1 0.01
10 3 0.04
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:11764126 original size:21 final size:21
Alignment explanation
Indices: 11764079--11764137 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
11764069 TTATGGGTTT
* * *
11764079 AGGGATTATGGTTTATGGTTTA
1 AGGG-TTAAGGTTTAAGGCTTA
*
11764101 AGGGTTGAGGTTTAAGGCTTA
1 AGGGTTAAGGTTTAAGGCTTA
* *
11764122 GGGGTTAAGGGTTAAG
1 AGGGTTAAGGTTTAAG
11764138 TGTTAGGTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.24, C:0.02, G:0.39, T:0.36
Consensus pattern (21 bp):
AGGGTTAAGGTTTAAGGCTTA
Found at i:11764663 original size:14 final size:13
Alignment explanation
Indices: 11764644--11764693 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
11764634 TTAGTTTTTT
11764644 ATTTATAAAAACTA
1 ATTTATAAAAA-TA
11764658 ATTTATAAAAATA
1 ATTTATAAAAATA
*
11764671 A-TAATAATAAATA
1 ATTTATAA-AAATA
*
11764684 TTTTATAAAA
1 ATTTATAAAA
11764694 TCATTTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 5 0.16
13 10 0.32
14 16 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTATAAAAATA
Found at i:11771285 original size:40 final size:41
Alignment explanation
Indices: 11771211--11771287 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
11771201 TTATTTTTTT
* *
11771211 TAAATTTTATGACCTTTAGCGGCGTTTTTAGGAAAAGCGCC
1 TAAATGTTATGACCTTTAGCGGCGTTTGTAGGAAAAGCGCC
*
11771252 TAAATGTTATGACC-TTAGCGGCGTTTGTGGGAAAAG
1 TAAATGTTATGACCTTTAGCGGCGTTTGTAGGAAAAG
11771288 TTTTATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 20 0.61
41 13 0.39
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.32
Consensus pattern (41 bp):
TAAATGTTATGACCTTTAGCGGCGTTTGTAGGAAAAGCGCC
Found at i:11771303 original size:10 final size:10
Alignment explanation
Indices: 11771288--11771331 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
11771278 GTGGGAAAAG
11771288 TTTTATAATA
1 TTTTATAATA
11771298 TTTTATAATA
1 TTTTATAATA
*
11771308 TTTTATTAT-
1 TTTTATAATA
*
11771317 TTTTTTAA-A
1 TTTTATAATA
11771326 TTTTAT
1 TTTTAT
11771332 GACCTTTAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 11 0.38
10 18 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATAATA
Found at i:11771390 original size:111 final size:109
Alignment explanation
Indices: 11771190--11771397 Score: 319
Period size: 111 Copynumber: 1.9 Consensus size: 109
11771180 TTTTATGACC
11771190 TTTATAATATTTTATTTTTTTTAAATTTTATGACCTTTAGCGGCGTTTTTAGGAAAAGCGCCTAA
1 TTTATAATATTTTATTTTTTTTAAATTTTATGACCTTTAGCGGCGTTTTTAGGAAAAGCGCCTAA
* *
11771255 ATGTTATGACCTTAGCGGCGTTTGTGGGAAAAGTTTTATAATAT
66 ATGTTATGACCTTAGCGGCATTTGTGAGAAAAGTTTTATAATAT
* * *
11771299 TTTATAATATTTTATTATTTTTTTAAATTTTATGACCTTTAGTGGCGTTTTT-GGGAAAGCGTCT
1 TTTATAATATTTTA-T-TTTTTTTAAATTTTATGACCTTTAGCGGCGTTTTTAGGAAAAGCGCCT
* *
11771363 AAATGTTATGACTTTTAGTGGCATTTGTGAGAAAA
64 AAATGTTATGAC-CTTAGCGGCATTTGTGAGAAAA
11771398 ACGCCGCTAA
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
109 14 0.16
110 23 0.26
111 52 0.58
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (109 bp):
TTTATAATATTTTATTTTTTTTAAATTTTATGACCTTTAGCGGCGTTTTTAGGAAAAGCGCCTAA
ATGTTATGACCTTAGCGGCATTTGTGAGAAAAGTTTTATAATAT
Found at i:11772386 original size:3 final size:3
Alignment explanation
Indices: 11772378--11772412 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11772368 ACCCTCTCTT
*
11772378 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11772413 TCTCCATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11772961 original size:6 final size:6
Alignment explanation
Indices: 11772921--11772960 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
11772911 GCTACGAAAT
*
11772921 AATAAA AATAAA AATAAA AATAAA AATAAA GAATGAA AAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA AAT
11772961 GGGCCATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:11773281 original size:30 final size:31
Alignment explanation
Indices: 11773226--11773284 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
11773216 CAAAAATTTT
*
11773226 TTTTTTTAAAAATATTATAAAAATAAACCAA
1 TTTTTTTAAAAATATTACAAAAATAAACCAA
* *
11773257 TTTTTTTGAAAAT-TTACAAGAATAAACC
1 TTTTTTTAAAAATATTACAAAAATAAACC
11773285 TTAAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.39
Consensus pattern (31 bp):
TTTTTTTAAAAATATTACAAAAATAAACCAA
Found at i:11773938 original size:18 final size:19
Alignment explanation
Indices: 11773907--11773945 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
11773897 TGATATATCT
11773907 TTTTTAAATATTTACT-TA
1 TTTTTAAATATTTACTATA
11773925 TTTTT-AATATTTTACTATA
1 TTTTTAAATA-TTTACTATA
11773944 TT
1 TT
11773946 CATTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAAATATTTACTATA
Done.