Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 23 of 190
Found at i:6546530 original size:36 final size:36
Alignment explanation
Indices: 6546489--6546725 Score: 240
Period size: 36 Copynumber: 6.0 Consensus size: 36
6546479 GGTAGCTTTA
6546489 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
6546525 GCTACACTTATCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
6546570 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
6546607 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTTGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
6546646 AGCTTTAACTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -G------CTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
6546689 GCTATACTTATCTGAGCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
6546725 G
1 G
6546726 TTAGCCTTAG
Statistics
Matches: 171, Mismatches: 10, Indels: 40
0.77 0.05 0.18
Matches are distributed among these distances:
36 96 0.56
37 2 0.01
39 2 0.01
40 3 0.02
42 3 0.02
43 2 0.01
45 2 0.01
46 61 0.36
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:6546590 original size:82 final size:82
Alignment explanation
Indices: 6546453--6546860 Score: 552
Period size: 82 Copynumber: 4.9 Consensus size: 82
6546443 TTTGAGTACT
* *
6546453 TCTGATCAAGAAATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
6546518 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
6546535 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
6546600 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
6546617 TCTGATCAAGAGACAAAGTGATAAGTTGTAGCTTTAACTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
6546682 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * * * * *
6546699 TCTGAGCAAGTGAAAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
6546764 GATAAGTGGTAGCCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* * * * *
6546791 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGTTACACTTATCTGATC-AG-GGACAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
6546853 GATAAGTG
66 GATAAGTG
6546861 ATCATACGTA
Statistics
Matches: 294, Mismatches: 22, Indels: 23
0.87 0.06 0.07
Matches are distributed among these distances:
79 1 0.00
80 1 0.00
82 219 0.74
83 3 0.01
88 3 0.01
89 8 0.03
90 2 0.01
91 19 0.06
92 38 0.13
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:6546681 original size:128 final size:125
Alignment explanation
Indices: 6546526--6546860 Score: 373
Period size: 128 Copynumber: 2.6 Consensus size: 125
6546516 GTGATAAGTG
* *
6546526 CTACACTTATCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGC--TAG-TACACTTATCTGATCAAG
* *
6546591 TGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTTGTAGCTTTAA
63 TGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAA
*
6546654 CTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-GCTA-T--ACTTATCTGAGCAAGTGA
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGTACACTTATCTGATCAAGTGA
* *
6546712 AAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGC
66 AAAAGTGAT-A-----AG---T-GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGC
*
6546777 CTTAG
121 CTTAA
*
6546782 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGTTACACTTATCTGATC-AG-
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTAG-TACACTTATCTGATCAAGT
* *
6546845 GGACAAGTGATAAGTG
64 GAAAAAGTGATAAGTG
6546861 ATCATACGTA
Statistics
Matches: 176, Mismatches: 12, Indels: 41
0.77 0.05 0.18
Matches are distributed among these distances:
118 26 0.15
119 1 0.01
120 1 0.01
122 2 0.01
124 4 0.02
125 3 0.02
126 1 0.01
127 1 0.01
128 105 0.60
129 2 0.01
131 2 0.01
132 1 0.01
133 3 0.02
134 1 0.01
135 10 0.06
136 2 0.01
137 11 0.06
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (125 bp):
CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGTACACTTATCTGATCAAGTGA
AAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAA
Found at i:6558595 original size:18 final size:18
Alignment explanation
Indices: 6558574--6558626 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
6558564 ATAATTATAA
6558574 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
6558592 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
*
6558610 TATTTAATTAAAAAAAT
1 TA-TTAATTAATAAAAT
6558627 CATTTAAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 18 0.62
19 11 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:6564190 original size:41 final size:41
Alignment explanation
Indices: 6564133--6564447 Score: 225
Period size: 41 Copynumber: 7.7 Consensus size: 41
6564123 ACCTTTCGGG
6564133 GCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCAGA
1 GCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCAGA
* * * ** * *
6564174 GCTTTAGCGGTGTTTTTGAAGAAGCGTCGCTAATATTCGGG
1 GCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCAGA
* *
6564215 GTTTTAGCGGCGTTTTTAAA-AAGCGCCGC-AACTGCGCAGA
1 GCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAA-TGCTCAGA
* * * * *
6564255 GCTTTAGCGGCGTTTTTCAGGAAGCGCCGCTAATACTCGGG
1 GCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCAGA
* * ** * *
6564296 GTTTTAGCGACGTTTTTGAAA-AAATGCCGCTAATGCTCTGG
1 GCTTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCAGA
* * * *
6564337 GTTTTAGCGGCGCTTTTGT-AA-AACCGCCGTTAATGCTC-GTG
1 GCTTTAGCGGCG-TTTT-TAAAGAAGCGCCGCTAATGCTCAG-A
* * * * *
6564378 GTTTTAGAGGCATTTTTTGAA-AAGCGCAGCTAATGCTCAG-
1 GCTTTAGCGGC-GTTTTTAAAGAAGCGCCGCTAATGCTCAGA
* *
6564418 GATTTAGTGGCGTTTTTGAAA-AAGCGCCGC
1 GCTTTAGCGGCGTTTTT-AAAGAAGCGCCGC
6564448 AAAAACATTT
Statistics
Matches: 218, Mismatches: 45, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
39 7 0.03
40 49 0.22
41 153 0.70
42 8 0.04
43 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
GCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCAGA
Found at i:6564270 original size:81 final size:81
Alignment explanation
Indices: 6564127--6564447 Score: 308
Period size: 82 Copynumber: 3.9 Consensus size: 81
6564117 AACATAACCT
* * * *
6564127 TTCGGGGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCAGAGCTTTAGCGGTGTTTTTG
1 TTCGGGGTTTTAGCGGCGTTTTTAAA-AAGCGCCGCTAATGCGCAGAGCTTTAGCGGCGTTTTTC
*
6564192 AAGAAGCGTCGCTAATA
65 AAGAAGCGCCGCTAATA
6564209 TTCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGC-AACTGCGCAGAGCTTTAGCGGCGTTTTTC
1 TTCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGCTAA-TGCGCAGAGCTTTAGCGGCGTTTTTC
*
6564273 AGGAAGCGCCGCTAATA
65 AAGAAGCGCCGCTAATA
* * ** * * * *
6564290 CTCGGGGTTTTAGCGACGTTTTTGAAAAAATGCCGCTAATGCTCTGGGTTTTAGCGGCGCTTTTG
1 TTCGGGGTTTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCGCAGAGCTTTAGCGGCG-TTTT-
* * *
6564355 T-AA-AACCGCCGTTAATG
63 TCAAGAAGCGCCGCTAATA
* * * * * * * * * *
6564372 CTCGTGGTTTTAGAGGCATTTTTTGAAAAGCGCAGCTAATGCTCAG-GATTTAGTGGCGTTTTTG
1 TTCGGGGTTTTAGCGGC-GTTTTTAAAAAGCGCCGCTAATGCGCAGAGCTTTAGCGGCGTTTTTC
*
6564436 AAAAAGCGCCGC
65 AAGAAGCGCCGC
6564448 AAAAACATTT
Statistics
Matches: 200, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.00
80 8 0.04
81 85 0.43
82 93 0.47
83 12 0.06
84 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (81 bp):
TTCGGGGTTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCGCAGAGCTTTAGCGGCGTTTTTCA
AGAAGCGCCGCTAATA
Found at i:6564961 original size:21 final size:21
Alignment explanation
Indices: 6564917--6564961 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6564907 GATTTAAGGT
* * *
6564917 TTATGGGTTAGGGGCTAGGGG
1 TTATGGGTTAGAGGCTAAGAG
*
6564938 TTATGGGTTAGAGGTTAAGAG
1 TTATGGGTTAGAGGCTAAGAG
6564959 TTA
1 TTA
6564962 GGGATTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.33
Consensus pattern (21 bp):
TTATGGGTTAGAGGCTAAGAG
Found at i:6565101 original size:15 final size:15
Alignment explanation
Indices: 6565078--6565114 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6565068 GTGTTATGGG
*
6565078 TTAGAGTTTAAGGGT
1 TTAGGGTTTAAGGGT
6565093 TTAGGGTTTAAGGGT
1 TTAGGGTTTAAGGGT
*
6565108 TAAGGGT
1 TTAGGGT
6565115 CGAATTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (15 bp):
TTAGGGTTTAAGGGT
Found at i:6565106 original size:8 final size:8
Alignment explanation
Indices: 6565083--6565114 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
6565073 ATGGGTTAGA
6565083 GTTTAAGG
1 GTTTAAGG
6565091 GTTT-AGG
1 GTTTAAGG
6565098 GTTTAAGG
1 GTTTAAGG
6565106 G-TTAAGG
1 GTTTAAGG
6565113 GT
1 GT
6565115 CGAATTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.64
8 8 0.36
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (8 bp):
GTTTAAGG
Found at i:6565232 original size:21 final size:21
Alignment explanation
Indices: 6565208--6565247 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6565198 GGGGTTTGGG
6565208 GTTAGAGA-TTAGAGGTTTATA
1 GTTAGAGATTTAG-GGTTTATA
*
6565229 GTTAGTGATTTAGGGTTTA
1 GTTAGAGATTTAGGGTTTA
6565248 AAGATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
GTTAGAGATTTAGGGTTTATA
Found at i:6565289 original size:171 final size:171
Alignment explanation
Indices: 6565093--6565455 Score: 701
Period size: 171 Copynumber: 2.1 Consensus size: 171
6565083 GTTTAAGGGT
6565093 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
6565158 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
6565223 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
131 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
6565264 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
1 TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
*
6565329 TATATATATTAAATAAGGTTTAGGGGTTAGTGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
66 TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
6565394 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
131 TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
*
6565435 TTAGGGTTTAA-GGTTTAGGGT
1 TTAGGGTTTAAGGGTTAAGGGT
6565456 AATTAGTATT
Statistics
Matches: 190, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
170 9 0.05
171 181 0.95
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (171 bp):
TTAGGGTTTAAGGGTTAAGGGTCGAATTAGAGTATAGTATTTTATTTAATCAGTATTTTTTAATT
TATATATATTAAATAAGGTTTAGGGGTTAATGATTAATTAGGGGTTTGGGGTTAGAGATTAGAGG
TTTATAGTTAGTGATTTAGGGTTTAAAGATTCGAGGTCTGA
Found at i:6565364 original size:25 final size:25
Alignment explanation
Indices: 6565336--6565389 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
6565326 ATTTATATAT
*
6565336 ATTAAATA-AGGTTTAGGGGTTAGTG
1 ATTAAATAGAGGTTT-GGGGTTAGAG
* *
6565361 ATTAATTAGGGGTTTGGGGTTAGAG
1 ATTAAATAGAGGTTTGGGGTTAGAG
6565386 ATTA
1 ATTA
6565390 GAGGTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (25 bp):
ATTAAATAGAGGTTTGGGGTTAGAG
Found at i:6565403 original size:21 final size:21
Alignment explanation
Indices: 6565379--6565418 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6565369 GGGGTTTGGG
6565379 GTTAGAGA-TTAGAGGTTTATA
1 GTTAGAGATTTAG-GGTTTATA
*
6565400 GTTAGTGATTTAGGGTTTA
1 GTTAGAGATTTAGGGTTTA
6565419 AAGATTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
GTTAGAGATTTAGGGTTTATA
Found at i:6565950 original size:83 final size:83
Alignment explanation
Indices: 6565857--6566167 Score: 297
Period size: 84 Copynumber: 3.7 Consensus size: 83
6565847 TATGTAAAAA
* * * * *
6565857 CGGCGCCGTTTTTGTAAAGGAATGAAATAAT-TTTGTGGCG-TTTTACTGAAAGCGCCGCAAGGA
1 CGGCGCCGTTTCTGTAAAGGAATAAAAT-ATGATTGTGGCGTTTTTA-AGAAAACGCCGCAAGGA
* *
6565920 TTT-TTAACATTTTGCCAATG
64 TTTATTAA-AATTTCCCAATG
** *
6565940 CGGCGCCGTTTCTGTACTGGAATAAAATCTGATTGTGGCGTTTTTTAAGAAAACGCCGCAAGGAT
1 CGGCGCCGTTTCTGTAAAGGAATAAAATATGATTGTGGCG-TTTTTAAGAAAACGCCGCAAGGAT
6566005 TTATTAAAATTTCCCAATG
65 TTATTAAAATTTCCCAATG
** * * * *
6566024 CGGCGCCGTTTCTGTACTGGAAAAAAATTTGATAGTGGCGTTTTTTAAAAAAACGCCGCAAGGAT
1 CGGCGCCGTTTCTGTAAAGGAATAAAATATGATTGTGGCG-TTTTTAAGAAAACGCCGCAAGGAT
* *
6566089 TTATTAAATTTTCCCAAAG
65 TTATTAAAATTTCCCAATG
* * ** * * * * *
6566108 CGACGCTGTTTCTGTACTGGAA-AAAATCTAATAGTGGTGTTTTTTAGGAAAACGCCGCAA
1 CGGCGCCGTTTCTGTAAAGGAATAAAATATGATTGTGGCG-TTTTTAAGAAAACGCCGCAA
6566168 AAGTGAATTA
Statistics
Matches: 201, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
82 1 0.00
83 65 0.32
84 126 0.63
85 9 0.04
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (83 bp):
CGGCGCCGTTTCTGTAAAGGAATAAAATATGATTGTGGCGTTTTTAAGAAAACGCCGCAAGGATT
TATTAAAATTTCCCAATG
Found at i:6566178 original size:83 final size:83
Alignment explanation
Indices: 6565904--6566167 Score: 386
Period size: 84 Copynumber: 3.2 Consensus size: 83
6565894 GCGTTTTACT
* *
6565904 GAAAGCGCCGCAAGGATTT-TTAACATTTTGCCAATGCGGCGCCGTTTCTGTACTGGAATAAAAT
1 GAAAACGCCGCAAGGATTTATTAA-ATTTTCCCAATGCGGCGCCGTTTCTGTACTGGAA-AAAAT
*
6565968 CTGATTGTGGCGTTTTTTAA
64 CTGATAGTGGCGTTTTTTAA
* *
6565988 GAAAACGCCGCAAGGATTTATTAAAATTTCCCAATGCGGCGCCGTTTCTGTACTGGAAAAAAATT
1 GAAAACGCCGCAAGGATTTATTAAATTTTCCCAATGCGGCGCCGTTTCTGTACTGG-AAAAAATC
6566053 TGATAGTGGCGTTTTTTAA
65 TGATAGTGGCGTTTTTTAA
* * * *
6566072 AAAAACGCCGCAAGGATTTATTAAATTTTCCCAAAGCGACGCTGTTTCTGTACTGGAAAAAATCT
1 GAAAACGCCGCAAGGATTTATTAAATTTTCCCAATGCGGCGCCGTTTCTGTACTGGAAAAAATCT
* * *
6566137 AATAGTGGTGTTTTTTAG
66 GATAGTGGCGTTTTTTAA
6566155 GAAAACGCCGCAA
1 GAAAACGCCGCAA
6566168 AAGTGAATTA
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
83 35 0.21
84 122 0.75
85 6 0.04
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (83 bp):
GAAAACGCCGCAAGGATTTATTAAATTTTCCCAATGCGGCGCCGTTTCTGTACTGGAAAAAATCT
GATAGTGGCGTTTTTTAA
Found at i:6567620 original size:21 final size:21
Alignment explanation
Indices: 6567594--6567640 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6567584 CTACAACTTA
6567594 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
**
6567615 AAGCAGAGGTTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
6567636 AAGCA
1 AAGCA
6567641 AAGCAGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.47, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:6568015 original size:43 final size:43
Alignment explanation
Indices: 6567952--6568079 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
6567942 AAAATTAGTG
* * * * * *
6567952 GCGTTTTTAAAAAAACCGCCGCTAAAACTCAT-TATTTTTAGCG
1 GCGTTTATAGAAAAAGCGCCGCTAAAAGTCATGT-TCTTTAGCC
* * * * *
6567995 GCGTTTGTGGGAAAGGCGCCGCTAAAGGTCATGTTCTTTAGCC
1 GCGTTTATAGAAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCC
6568038 GCGTTTATAGAAAAAGCGCCGCTAAAAGTCATGTTCTTTAGC
1 GCGTTTATAGAAAAAGCGCCGCTAAAAGTCATGTTCTTTAGC
6568080 GTTTGTAGGA
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
43 68 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
GCGTTTATAGAAAAAGCGCCGCTAAAAGTCATGTTCTTTAGCC
Found at i:6570005 original size:145 final size:142
Alignment explanation
Indices: 6569842--6570158 Score: 405
Period size: 146 Copynumber: 2.2 Consensus size: 142
6569832 GGTCGAATTT
* **
6569842 TATTTTTA-TTTACAAAATC-AAAGTTT-TCTTTAAAAAAATTACTACTTTTCTTAAAAATCGAA
1 TATTTTTATTTTACAAAATCTAAACTTTCTC-TTAAAAAAAACACTACTTTTCTT-AAAATC-AA
*
6569904 A-C-TTTATTTTCGAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAAATTTAAACTTTTCC
63 AGCTTTTATTTT-GAAATAGTTG-AAAAAAATCAAAACTTTATTTT-AAAAATTTAAAC--TT-C
6569967 TTTAAAATGACT-AAAAAACA
122 TTTAAAATGACTAAAAAAACA
* * *
6569987 TATTTTTATTTTA-GAAATCTAAACTTTCTCTTAAAAAAAACACTATTTTTCTTAAATTCAAAGC
1 TATTTTTATTTTACAAAATCTAAACTTTCTCTTAAAAAAAACACTACTTTTCTTAAAATCAAAGC
*
6570051 TTTTATTTTGAAATAGTTGAAAAAAATCAAAATTTTATTTTAAAAATTTAAACTTCTTTAAAATG
66 TTTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTCTTTAAAATG
6570116 ACTAAAAAAAACA
131 ACT-AAAAAAACA
**
6570129 TATTTTTATTTTTTAAAATCTAAACTTTCT
1 TATTTTTATTTTACAAAATCTAAACTTTCT
6570159 TTTTTTTAAA
Statistics
Matches: 154, Mismatches: 10, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
140 13 0.08
141 2 0.01
142 20 0.13
143 27 0.18
144 23 0.15
145 29 0.19
146 38 0.25
147 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (142 bp):
TATTTTTATTTTACAAAATCTAAACTTTCTCTTAAAAAAAACACTACTTTTCTTAAAATCAAAGC
TTTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTCTTTAAAATG
ACTAAAAAAACA
Found at i:6570151 original size:143 final size:144
Alignment explanation
Indices: 6569866--6570160 Score: 408
Period size: 144 Copynumber: 2.0 Consensus size: 144
6569856 AAATCAAAGT
**
6569866 TTTCTTTAAAAAAATTACTACTTTTCTTAAAAATCGAAACTTTATTTTCGAAATAGTTGAAAAAA
1 TTTCTTTAAAAAAAACACTACTTTTCTTAAAAATCGAAACTTTATTTTCGAAATAGTTGAAAAAA
*
6569931 AATCAAAACTTTGTTTTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAAACATATTTTTAT
66 AATCAAAACTTTATTTTAAAAAATTTAAAC-TTTCCTTTAAAATGACTAAAAAACATATTTTTAT
6569996 TTTAGAAATCTAAAC
130 TTTAGAAATCTAAAC
* *
6570011 TTTCTCTTAAAAAAAACACTATTTTTCTT-AAATTC-AAAGCTTTTATTTT-GAAATAGTTG-AA
1 TTTCT-TTAAAAAAAACACTACTTTTCTTAAAAATCGAAA-C-TTTATTTTCGAAATAGTTGAAA
*
6570072 AAAAATCAAAATTTTATTTT-AAAAATTTAAAC-TT-CTTTAAAATGACTAAAAAAAACATATTT
63 AAAAATCAAAACTTTATTTTAAAAAATTTAAACTTTCCTTTAAAATGACT--AAAAAACATATTT
6570134 TTATTTTTTA-AAATCTAAAC
126 TTA--TTTTAGAAATCTAAAC
6570154 TTTCTTT
1 TTTCTTT
6570161 TTTTTAAAAA
Statistics
Matches: 137, Mismatches: 6, Indels: 17
0.86 0.04 0.11
Matches are distributed among these distances:
140 13 0.09
141 2 0.01
142 18 0.13
143 27 0.20
144 28 0.20
145 21 0.15
146 28 0.20
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (144 bp):
TTTCTTTAAAAAAAACACTACTTTTCTTAAAAATCGAAACTTTATTTTCGAAATAGTTGAAAAAA
AATCAAAACTTTATTTTAAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAACATATTTTTATT
TTAGAAATCTAAAC
Found at i:6575498 original size:9 final size:9
Alignment explanation
Indices: 6575484--6575524 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
6575474 TAAATTTAAT
6575484 TTATAAAAA
1 TTATAAAAA
6575493 TTATAAAAA
1 TTATAAAAA
*
6575502 TAATATAAAA
1 TTATA-AAAA
*
6575512 TAATAAAAA
1 TTATAAAAA
6575521 TTAT
1 TTAT
6575525 GTTTTTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:6584585 original size:21 final size:21
Alignment explanation
Indices: 6584559--6584600 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6584549 TGGCGTTTTT
6584559 TTTACAAATGCCGCTAAAGAA
1 TTTACAAATGCCGCTAAAGAA
6584580 TTTACAAATGCCGCTAAAGAA
1 TTTACAAATGCCGCTAAAGAA
6584601 CATGTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (21 bp):
TTTACAAATGCCGCTAAAGAA
Found at i:6584963 original size:21 final size:21
Alignment explanation
Indices: 6584933--6584999 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
6584923 GCTCTGCTCC
* *
6584933 GCTTCTCTCGCTGCAGCCTCT
1 GCTTCCCTCGCTGCCGCCTCT
*
6584954 GCTTCCCTCGCTGCCGCCGCT
1 GCTTCCCTCGCTGCCGCCTCT
* *
6584975 GCTTCCATCGCTTCCGCCTCT
1 GCTTCCCTCGCTGCCGCCTCT
6584996 GCTT
1 GCTT
6585000 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.46, G:0.19, T:0.31
Consensus pattern (21 bp):
GCTTCCCTCGCTGCCGCCTCT
Found at i:6590180 original size:36 final size:36
Alignment explanation
Indices: 6590140--6590211 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
6590130 TAAGCAGTAT
6590140 CAGGATAAGTTACATCCATCCTTGATGAGGAGGTAC
1 CAGGATAAGTTACATCCATCCTTGATGAGGAGGTAC
6590176 CAGGATAAGTTACATCCATCCTTGATGAGGAGGTAC
1 CAGGATAAGTTACATCCATCCTTGATGAGGAGGTAC
6590212 TAGGCGGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (36 bp):
CAGGATAAGTTACATCCATCCTTGATGAGGAGGTAC
Found at i:6590707 original size:25 final size:25
Alignment explanation
Indices: 6590661--6590947 Score: 439
Period size: 25 Copynumber: 11.2 Consensus size: 25
6590651 ATTATGTAAG
6590661 TTATGTAAGTTATGTAAGTTAAATGTA
1 TTATGTAAG-T-TGTAAGTTAAATGTA
6590688 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
*
6590713 TAATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
6590738 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
* *
6590763 TAATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTA
*
6590789 TTATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTA
6590815 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
*
6590840 TTATGTAAGTTGTAAGTTAAGTGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
* *
6590865 TAATGTAAGTTGTAAGTTATTATGTA
1 TTATGTAAGTTGTAAGTTA-AATGTA
6590891 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAGTTGTAAGTTAAATGTA
* *
6590916 TTATGTAAGTTGTAAATTAAGTGTTA
1 TTATGTAAGTTGTAAGTTAAATG-TA
6590942 TTATGT
1 TTATGT
6590948 TTTAACATAA
Statistics
Matches: 243, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
25 154 0.63
26 80 0.33
27 9 0.04
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTAAGTTGTAAGTTAAATGTA
Found at i:6590825 original size:102 final size:101
Alignment explanation
Indices: 6590663--6590947 Score: 473
Period size: 102 Copynumber: 2.8 Consensus size: 101
6590653 TATGTAAGTT
* *
6590663 ATGTAAGTTATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTAAATGTATAATGTAAGTTGTA
1 ATGTAAG-T-TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTA
6590727 AGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATA
64 AGTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATA
*
6590765 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAA
*
6590830 GTTAAATGTATTATGTAAGTTGTAAGTTAAGTGTATA
65 GTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATA
*
6590867 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAG
*
6590932 TTAAGTGTTATTATGT
66 TTAAATG-TATTATGT
6590948 TTTAACATAA
Statistics
Matches: 173, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
100 9 0.05
101 51 0.29
102 113 0.65
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (101 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAG
TTAAATGTATTATGTAAGTTGTAAGTTAAATGTATA
Found at i:6594085 original size:22 final size:22
Alignment explanation
Indices: 6594047--6594099 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
6594037 TATATTTAAT
*
6594047 TTAA-ATTTTACATTAATAATTA
1 TTAATATTTTACAGTAAT-ATTA
*
6594069 TTAATATTTTA-AGTAATATTT
1 TTAATATTTTACAGTAATATTA
6594090 TTAAGTATTT
1 TTAA-TATTT
6594100 AATATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 14 0.52
23 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
TTAATATTTTACAGTAATATTA
Found at i:6595272 original size:8 final size:8
Alignment explanation
Indices: 6595248--6595296 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
6595238 TTCAAACTCT
*
6595248 AACCCCCA
1 AACCCCTA
*
6595256 AATCCCTA
1 AACCCCTA
6595264 AACCCCT-
1 AACCCCTA
*
6595271 AACCCGTA
1 AACCCCTA
*
6595279 AACTCCTA
1 AACCCCTA
6595287 AACCCCTA
1 AACCCCTA
6595295 AA
1 AA
6595297 TCCTAGCTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.39, C:0.45, G:0.02, T:0.14
Consensus pattern (8 bp):
AACCCCTA
Found at i:6595272 original size:23 final size:23
Alignment explanation
Indices: 6595246--6595295 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6595236 GGTTCAAACT
6595246 CTAACCCCCAAA-TCCCTAAACCC
1 CTAACCCCCAAACT-CCTAAACCC
**
6595269 CTAACCCGTAAACTCCTAAACCC
1 CTAACCCCCAAACTCCTAAACCC
6595292 CTAA
1 CTAA
6595296 ATCCTAGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.36, C:0.46, G:0.02, T:0.16
Consensus pattern (23 bp):
CTAACCCCCAAACTCCTAAACCC
Found at i:6595300 original size:15 final size:16
Alignment explanation
Indices: 6595259--6595301 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6595249 ACCCCCAAAT
*
6595259 CCCTAAACCCCT-AAC
1 CCCTAAACTCCTAAAC
*
6595274 CCGTAAACTCCTAAAC
1 CCCTAAACTCCTAAAC
6595290 CCCTAAA-TCCTA
1 CCCTAAACTCCTA
6595302 GCTCTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.35, C:0.44, G:0.02, T:0.19
Consensus pattern (16 bp):
CCCTAAACTCCTAAAC
Found at i:6595794 original size:114 final size:114
Alignment explanation
Indices: 6595590--6595912 Score: 275
Period size: 114 Copynumber: 2.8 Consensus size: 114
6595580 ATTTTAAATC
* * * * * * * **
6595590 CCTGAGCATTAGCGGCGCTTTTTTA-AAACGCCGCTAAAACCC-CAAAAGATAAGGAGACGACGT
1 CCTGAGAATTAGCGGCGC-TTTATAGAAGCGCCACTAAATCCCTGAAAAGCTCGGGAGACGACGT
* * *
6595653 CGTTGGGCTTAGGTTTTTAGCGGCGCTTTTACAAAAAACACCGCTAAA-A
65 CGTTGCGCTTAGTTTTTTTGCGGCGCTTTTACAAAAAACACCGCTAAAGA
*
6595702 GCCTGATAATTAGCGGCGCTTCCTATA-AAGCGCCACTAAATCCCT-AAAAGCT-GGCGAGACGA
1 -CCTGAGAATTAGCGGCGCTT--TATAGAAGCGCCACTAAATCCCTGAAAAGCTCGG-GAGACGA
* * * *** *
6595764 TGTCGTTGCGC-TAGATTTTTTTGCGACGC-TTTCCCCGAAACGCCGCTAAAGA
62 CGTCGTTGCGCTTAG-TTTTTTTGCGGCGCTTTTACAAAAAACACCGCTAAAGA
* * * * * * *
6595816 CCTGAGCATTAGCGGCGCTTTATAGGAAGCGCCGCTAATTCCGTGAATAGCTCGGGAAACGGCGT
1 CCTGAGAATTAGCGGCGCTTTATA-GAAGCGCCACTAAATCCCTGAAAAGCTCGGGAGACGACGT
6595881 CGTTGCGCTTAGTTTTTTTTGCGGCGCTTTTA
65 CGTTGCGCTTAG-TTTTTTTGCGGCGCTTTTA
6595913 TACAAACGCC
Statistics
Matches: 168, Mismatches: 30, Indels: 21
0.77 0.14 0.10
Matches are distributed among these distances:
111 4 0.02
112 2 0.01
113 69 0.41
114 72 0.43
115 18 0.11
116 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (114 bp):
CCTGAGAATTAGCGGCGCTTTATAGAAGCGCCACTAAATCCCTGAAAAGCTCGGGAGACGACGTC
GTTGCGCTTAGTTTTTTTGCGGCGCTTTTACAAAAAACACCGCTAAAGA
Found at i:6595827 original size:113 final size:114
Alignment explanation
Indices: 6595688--6595910 Score: 258
Period size: 113 Copynumber: 2.0 Consensus size: 114
6595678 CTTTTACAAA
*
6595688 AAACACCGCTAAAAGCCTGATAATTAGCGGCGCTTCCTATA-AAGCGCCACTAAATCCCT-AAAA
1 AAACACCGCTAAAAGCCTGAGAATTAGCGGCGCTT--TATAGAAGCGCCACTAAATCCCTGAAAA
* *
6595751 GCT-GGCGAGACGATGTCGTTGCGC-TAGATTTTTTTGCGACGCTTTCCCCG
64 GCTCGG-GAAACGACGTCGTTGCGCTTAGATTTTTTTGCGACGCTTTCCCCG
* * * * * *
6595801 AAACGCCGCT-AAAGACCTGAGCATTAGCGGCGCTTTATAGGAAGCGCCGCTAATTCCGTGAATA
1 AAACACCGCTAAAAG-CCTGAGAATTAGCGGCGCTTTATA-GAAGCGCCACTAAATCCCTGAAAA
* * *
6595865 GCTCGGGAAACGGCGTCGTTGCGCTTAGTTTTTTTTGCGGCGCTTT
64 GCTCGGGAAACGACGTCGTTGCGCTTAGATTTTTTTGCGACGCTTT
6595911 TATACAAACG
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
111 4 0.04
112 4 0.04
113 42 0.46
114 21 0.23
115 21 0.23
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (114 bp):
AAACACCGCTAAAAGCCTGAGAATTAGCGGCGCTTTATAGAAGCGCCACTAAATCCCTGAAAAGC
TCGGGAAACGACGTCGTTGCGCTTAGATTTTTTTGCGACGCTTTCCCCG
Found at i:6595963 original size:72 final size:71
Alignment explanation
Indices: 6595871--6596051 Score: 226
Period size: 72 Copynumber: 2.5 Consensus size: 71
6595861 AATAGCTCGG
* *
6595871 GAAACGGCGTCGTTGCGCTTAGTTTTTTTTGCGGCGCTT-TTATACAAACGCCGCTAAATCCCCA
1 GAAACGGCGTCGTTGCGCTTAG-GTTTTTTGCGGCGCTTATTA-A-AAACGCCGCTAAATCACC-
6595935 AAAT-CTC-A
62 AAATGCTCTA
* * *
6595943 GAAACGGTGTCGTTGGGCTTAGGGTTTTTAGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAA
1 GAAACGGCGTCGTTGCGCTTA-GGTTTTTTGCGGCGCTTA-TTAAAAACGCCGCTAAATCACCAA
*
6596008 ATGCTCTT
64 ATGCTCTA
6596016 GAAACGGCGTCGTTGCGC-TAGGTTTTTTGCGGCGCT
1 GAAACGGCGTCGTTGCGCTTAGGTTTTTTGCGGCGCT
6596052 GTACCTAAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
71 19 0.20
72 55 0.58
73 18 0.19
74 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (71 bp):
GAAACGGCGTCGTTGCGCTTAGGTTTTTTGCGGCGCTTATTAAAAACGCCGCTAAATCACCAAAT
GCTCTA
Found at i:6599027 original size:25 final size:26
Alignment explanation
Indices: 6598997--6599048 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
6598987 CCCGATTTTT
* *
6598997 AATAAACACAAAAA-AATATTTTAAA
1 AATAAAAACAAAAATAAAATTTTAAA
*
6599022 AATAAAAATAAAAATAAAATTTTAAA
1 AATAAAAACAAAAATAAAATTTTAAA
6599048 A
1 A
6599049 GTATTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
AATAAAAACAAAAATAAAATTTTAAA
Found at i:6599038 original size:37 final size:37
Alignment explanation
Indices: 6598997--6599086 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
6598987 CCCGATTTTT
*
6598997 AATAAACACAAAAAAATATTTTAAAAAT-AAAAATAAA
1 AATAAA-ATAAAAAAATATTTTAAAAATAAAAAATAAA
** * *
6599034 AATAAAATTTTAAAAGTATTTTAAAATTAAAAAATAAA
1 AATAAAA-TAAAAAAATATTTTAAAAATAAAAAATAAA
6599072 AATAAAAATAAAAAA
1 AAT-AAAATAAAAAA
6599087 TAATATATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
36 1 0.02
37 21 0.49
38 17 0.40
39 4 0.09
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.26
Consensus pattern (37 bp):
AATAAAATAAAAAAATATTTTAAAAATAAAAAATAAA
Found at i:6599656 original size:3 final size:3
Alignment explanation
Indices: 6599648--6599679 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6599638 TTTTAATTAT
6599648 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6599680 CAAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6600689 original size:17 final size:17
Alignment explanation
Indices: 6600669--6600702 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6600659 TAGAATTGGG
*
6600669 TTGAGAAAGTAATTTAA
1 TTGAAAAAGTAATTTAA
*
6600686 TTGAAAAATTAATTTAA
1 TTGAAAAAGTAATTTAA
6600703 ATAAAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
TTGAAAAAGTAATTTAA
Found at i:6601317 original size:2 final size:2
Alignment explanation
Indices: 6601312--6601356 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6601302 TCTCTCCTTT
6601312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6601354 TA T
1 TA T
6601357 TAGTTTTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6603956 original size:3 final size:3
Alignment explanation
Indices: 6603948--6603976 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6603938 GTGGAATGGA
6603948 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
6603977 AATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:6606155 original size:105 final size:101
Alignment explanation
Indices: 6605977--6606193 Score: 292
Period size: 105 Copynumber: 2.1 Consensus size: 101
6605967 AATTGATGGA
** * * *
6605977 TAAGACCATGGTTGGACCATGACAGTGCTTATATGTAAGACCATAGCTGGGCTGTGGTATTCTGA
1 TAAGACCATGGTTGGACCATGACAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATCCTGA
* *
6606042 TGATAAGACCATAATTGGGTTATGGCACCT-TGAATG
66 TAATAAGACCATAACTGGGTTATGGCA-CTATGAATG
*
6606078 TAAGACCATGGTTGGACCATGGCAGTAAATGTATACGTGTAAGACCATAGCTGGGCTATGGCATC
1 TAAGACCATGGTTGGACCATGACAGT-AAT-TATA--TGTAAGACCATAGCTGGGCTATGGCATC
* *
6606143 CTGATAATAAGACCATAACTGGGTTATGGCATTATGAGTG
62 CTGATAATAAGACCATAACTGGGTTATGGCACTATGAATG
6606183 TAAGACCATGG
1 TAAGACCATGG
6606194 CAGGGCCATG
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
101 25 0.25
102 1 0.01
103 4 0.04
104 1 0.01
105 70 0.69
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATCCTGA
TAATAAGACCATAACTGGGTTATGGCACTATGAATG
Found at i:6606187 original size:33 final size:33
Alignment explanation
Indices: 6606114--6606191 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
6606104 AAATGTATAC
* *
6606114 GTGTAAGACCATAGCTGGGCTATGGCATCCTGA
1 GTGTAAGACCATAACTGGGCTATGGCATCATGA
* * *
6606147 -TAATAAGACCATAACTGGGTTATGGCATTATGA
1 GT-GTAAGACCATAACTGGGCTATGGCATCATGA
6606180 GTGTAAGACCAT
1 GTGTAAGACCAT
6606192 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 1 0.03
33 35 0.95
34 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGCTATGGCATCATGA
Found at i:6618653 original size:28 final size:27
Alignment explanation
Indices: 6618592--6618653 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
6618582 ATATAGCTAA
**
6618592 AATAATAATAATTACTTATGAAAATAAT
1 AATAATAATAATTACTTAACAAAAT-AT
6618620 AATAATAATAATTACATTAACAAAAT-T
1 AATAATAATAATTAC-TTAACAAAATAT
6618647 AACTAAT
1 AA-TAAT
6618654 TTTAAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.10
28 19 0.63
29 8 0.27
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (27 bp):
AATAATAATAATTACTTAACAAAATAT
Found at i:6619204 original size:23 final size:22
Alignment explanation
Indices: 6619161--6619218 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
6619151 AAAGGGTATC
* *
6619161 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6619182 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
6619205 TACATATCATATCT
1 TACAAATCATATCT
6619219 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6619221 original size:19 final size:19
Alignment explanation
Indices: 6619174--6619243 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 19
6619164 AAATTAAATC
*
6619174 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
6619194 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
6619216 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
6619237 TCTAAGA
1 TCTAAGA
6619244 GTTCTAACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.21
21 16 0.37
22 7 0.16
23 11 0.26
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:6619568 original size:42 final size:43
Alignment explanation
Indices: 6619515--6619615 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
6619505 AAGATATGTT
* *
6619515 TTTAGCGGCGTTTGTGGGAAAA-CGTCGCTAAAAGTGATGAT-
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC
* *
6619556 TTATAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC
6619600 TTTAGCGGCGTTTGTG
1 TTTAGCGGCGTTTGTG
6619616 TGGTTGTGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.04
42 19 0.37
43 29 0.56
44 2 0.04
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC
Found at i:6626699 original size:12 final size:12
Alignment explanation
Indices: 6626682--6626706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6626672 AATGATTAGG
6626682 TTAATTAAGGTC
1 TTAATTAAGGTC
6626694 TTAATTAAGGTC
1 TTAATTAAGGTC
6626706 T
1 T
6626707 CTTGCAACCT
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:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTAATTAAGGTC
Found at i:6627954 original size:24 final size:22
Alignment explanation
Indices: 6627915--6627962 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
6627905 TTATTTATAT
*
6627915 AATTTTAAAAATACACATTAAA
1 AATTTTAAAAAAACACATTAAA
6627937 AATTATTAAAAAGAACACATTAAA
1 AATT-TTAAAAA-AACACATTAAA
6627961 AA
1 AA
6627963 ACTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 12 0.52
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (22 bp):
AATTTTAAAAAAACACATTAAA
Found at i:6627968 original size:25 final size:23
Alignment explanation
Indices: 6627919--6627973 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
6627909 TTATATAATT
* *
6627919 TTAAAAATACACATTAAAAATTA
1 TTAAAAAAACACATTAAAAACTA
6627942 TTAAAAAGAACACATTAAAAAACTA
1 TTAAAAA-AACACATT-AAAAACTA
*
6627967 TTTAAAA
1 TTAAAAA
6627974 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 13 0.48
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
TTAAAAAAACACATTAAAAACTA
Found at i:6627971 original size:26 final size:24
Alignment explanation
Indices: 6627918--6627973 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
6627908 TTTATATAAT
* *
6627918 TTTAAAAATACACATTAAAAATTA
1 TTTAAAAAAACACATTAAAAACTA
6627942 -TTAAAAAGAACACATTAAAAAACTA
1 TTTAAAAA-AACACATT-AAAAACTA
6627967 TTTAAAA
1 TTTAAAA
6627974 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 7 0.26
26 6 0.22
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.29
Consensus pattern (24 bp):
TTTAAAAAAACACATTAAAAACTA
Found at i:6628526 original size:21 final size:21
Alignment explanation
Indices: 6628502--6628543 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6628492 ATCAAAATTT
6628502 TATATAAAATATAAAAATTCA
1 TATATAAAATATAAAAATTCA
**
6628523 TATATAATTTATAAAAATTCA
1 TATATAAAATATAAAAATTCA
6628544 AAATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TATATAAAATATAAAAATTCA
Found at i:6628528 original size:47 final size:48
Alignment explanation
Indices: 6628460--6628550 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
6628450 TAAAATTTTA
6628460 AAAATAAAAAAATATAAATATAAATTA-AAAAAATCAAAATTTTATAT
1 AAAATAAAAAAATATAAATATAAATTATAAAAAATCAAAATTTTATAT
* * * *
6628507 AAAATATAAAAAT-TCATATATAATTTATAAAAATTCAAAATTTT
1 AAAATAAAAAAATAT-AAATATAAATTATAAAAAATCAAAATTTT
6628551 TAAAAAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 1 0.03
47 22 0.58
48 15 0.39
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (48 bp):
AAAATAAAAAAATATAAATATAAATTATAAAAAATCAAAATTTTATAT
Found at i:6628659 original size:29 final size:30
Alignment explanation
Indices: 6628612--6628673 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
6628602 ATATCAGAAT
** *
6628612 ATTATATAAAAATTGAAAT-TTTTAAAAAA
1 ATTATATAAAAATAAAAATATTATAAAAAA
*
6628641 ATTATATAAAAATAAAAATATTATATAAAA
1 ATTATATAAAAATAAAAATATTATAAAAAA
6628671 ATT
1 ATT
6628674 TAAATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
ATTATATAAAAATAAAAATATTATAAAAAA
Found at i:6628678 original size:19 final size:19
Alignment explanation
Indices: 6628634--6628672 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6628624 TTGAAATTTT
*
6628634 TAAAAAAATTATATAAAAA
1 TAAAAATATTATATAAAAA
6628653 TAAAAATATTATATAAAAA
1 TAAAAATATTATATAAAAA
6628672 T
1 T
6628673 TTAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATATTATATAAAAA
Found at i:6628708 original size:17 final size:18
Alignment explanation
Indices: 6628638--6628708 Score: 62
Period size: 19 Copynumber: 4.2 Consensus size: 18
6628628 AATTTTTAAA
*
6628638 AAAATTATATAAAAATAA
1 AAAATTATATAAAAATAT
6628656 AAATATTATATAAAAAT-T
1 AAA-ATTATATAAAAATAT
* *
6628674 TAAA-T-TA-AAAAATCT
1 AAAATTATATAAAAATAT
*
6628689 AAAATTATA-AAACATAT
1 AAAATTATATAAAAATAT
6628706 AAA
1 AAA
6628709 TTGAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
14 6 0.14
15 6 0.14
16 2 0.05
17 12 0.27
18 5 0.11
19 13 0.30
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATTATATAAAAATAT
Found at i:6637527 original size:64 final size:64
Alignment explanation
Indices: 6637449--6637576 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
6637439 ATTAATGGAC
*
6637449 TCTTCCTCTGAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
6637513 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
6637577 CAAAAGCTCG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (64 bp):
TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
Found at i:6648819 original size:17 final size:17
Alignment explanation
Indices: 6648797--6648857 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 17
6648787 TTCATGTAAT
6648797 TTTTTTAAAAATTTTTA
1 TTTTTTAAAAATTTTTA
6648814 TTTTTT-AAAATATTTTA
1 TTTTTTAAAAAT-TTTTA
* *
6648831 -TTTTTGAATATTTTTA
1 TTTTTTAAAAATTTTTA
6648847 TAATTTTTAAA
1 T--TTTTTAAA
6648858 TTATTTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 15 0.41
17 15 0.41
19 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTTAAAAATTTTTA
Found at i:6648823 original size:16 final size:16
Alignment explanation
Indices: 6648797--6648857 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
6648787 TTCATGTAAT
6648797 TTTTTTAAAAATTTTTA
1 TTTTTT-AAAATTTTTA
6648814 TTTTTTAAAATATTTTA
1 TTTTTTAAAAT-TTTTA
* *
6648831 TTTTTGAATATTTTTA
1 TTTTTTAAAATTTTTA
6648847 TAATTTTTAAA
1 T--TTTTTAAA
6648858 TTATTTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.30
17 20 0.54
18 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTTTAAAATTTTTA
Found at i:6650934 original size:44 final size:44
Alignment explanation
Indices: 6650886--6650978 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
6650876 GAACATAAAA
* *
6650886 GAATGAAAATGATGAAGTTACAGATATGAGTTGTACTAACAAAT
1 GAATGAAAATGATGAAGTTACAGAAATGAGTCGTACTAACAAAT
* * * *
6650930 GAATGGAAATGATGAAGTTAGAGAAATGAGTCGTATTCACAAAT
1 GAATGAAAATGATGAAGTTACAGAAATGAGTCGTACTAACAAAT
6650974 GAATG
1 GAATG
6650979 CATTTTCTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (44 bp):
GAATGAAAATGATGAAGTTACAGAAATGAGTCGTACTAACAAAT
Found at i:6668950 original size:31 final size:29
Alignment explanation
Indices: 6668915--6668983 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 29
6668905 ATATGCATAA
*
6668915 ATATAATAATAAAAA-AATATAAAATATGT
1 ATATAATAATAAAAATAA-ATAAAATATTT
6668944 ATATATATATATAAAAATAAATAAAATATTT
1 ATATA-ATA-ATAAAAATAAATAAAATATTT
6668975 ATATAATAA
1 ATATAATAA
6668984 GATACATATG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 6 0.17
30 6 0.17
31 22 0.61
32 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (29 bp):
ATATAATAATAAAAATAAATAAAATATTT
Found at i:6668952 original size:33 final size:32
Alignment explanation
Indices: 6668905--6668983 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
6668895 ATATGCGTGT
* *
6668905 ATATGCATAAATATAATAATAAAAA-AATATAAA
1 ATATGTATATATATAAT-ATAAAAATAA-ATAAA
6668938 ATATGTATATATAT-ATATAAAAATAAATAAA
1 ATATGTATATATATAATATAAAAATAAATAAA
*
6668969 ATATTTATATA-ATAA
1 ATATGTATATATATAA
6668984 GATACATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 2 0.05
31 23 0.56
32 4 0.10
33 12 0.29
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (32 bp):
ATATGTATATATATAATATAAAAATAAATAAA
Found at i:6670157 original size:27 final size:27
Alignment explanation
Indices: 6670099--6670163 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
6670089 CCTGTCTAGT
* * *
6670099 AGGCACCAATGGAGGAGCCTCATGGAG
1 AGGCGCCAATGAAGGAACCTCATGGAG
6670126 AGGCGCCAATGAAGGAACCTCATGGAG
1 AGGCGCCAATGAAGGAACCTCATGGAG
*
6670153 AGGCGCTAATG
1 AGGCGCCAATG
6670164 GTGCCCTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.35, T:0.12
Consensus pattern (27 bp):
AGGCGCCAATGAAGGAACCTCATGGAG
Found at i:6670307 original size:14 final size:13
Alignment explanation
Indices: 6670290--6670339 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
6670280 GAGAAAAAAA
6670290 AAGAGAGAAAGGAG
1 AAGA-AGAAAGGAG
6670304 AAGAAGAGAAGGAG
1 AAGAAGA-AAGGAG
* *
6670318 AAGAAGAAGAAGAT
1 AAGAAGAA-AGGAG
6670332 AAGAAGAA
1 AAGAAGAA
6670340 GAAGAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 4 0.12
14 28 0.88
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (13 bp):
AAGAAGAAAGGAG
Found at i:6670308 original size:3 final size:3
Alignment explanation
Indices: 6670302--6670345 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
6670292 GAGAGAAAGG
* *
6670302 AGA AGA AG- AGA AGG AGA AGA AGA AGA AG- ATA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
6670346 AGAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 3 0.09
3 32 0.91
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:6670312 original size:17 final size:17
Alignment explanation
Indices: 6670290--6670350 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 17
6670280 GAGAAAAAAA
6670290 AAGAGAGAAAGGAGAAG
1 AAGAGAGAAAGGAGAAG
6670307 -A-AGAG-AAGGAGAAG
1 AAGAGAGAAAGGAGAAG
*
6670321 AAGAAGAAGATAAGAAGAAG
1 AAG-AG-AGA-AAGGAGAAG
*
6670341 AAGAAAGAAA
1 AAGAGAGAAA
6670351 AAAAAGGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 9 0.25
15 5 0.14
16 1 0.03
17 4 0.11
18 5 0.14
19 1 0.03
20 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (17 bp):
AAGAGAGAAAGGAGAAG
Found at i:6670340 original size:14 final size:13
Alignment explanation
Indices: 6670304--6670349 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
6670294 GAGAAAGGAG
6670304 AAGAAG-AGAAGGA
1 AAGAAGAAGAA-GA
6670317 GAAGAAGAAGAAGA
1 -AAGAAGAAGAAGA
6670331 TAAGAAGAAGAAGA
1 -AAGAAGAAGAAGA
6670345 AAGAA
1 AAGAA
6670350 AAAAAAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.17
14 21 0.70
15 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Found at i:6670525 original size:22 final size:21
Alignment explanation
Indices: 6670498--6670584 Score: 99
Period size: 22 Copynumber: 4.2 Consensus size: 21
6670488 TAGATTAGAA
*
6670498 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTAT-AATT
6670520 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTATAATT
*
6670541 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTATAATT
* *
6670559 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTATAATT
6670580 ATTTT
1 -TTTT
6670585 ATAATTAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
18 3 0.05
19 14 0.25
20 13 0.23
21 8 0.14
22 19 0.33
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTGTATGAATATTATAATT
Found at i:6670569 original size:19 final size:19
Alignment explanation
Indices: 6670522--6670578 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
6670512 TTTAAATTTT
* *
6670522 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
6670542 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
6670561 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
6670579 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:6670756 original size:27 final size:25
Alignment explanation
Indices: 6670722--6670963 Score: 258
Period size: 27 Copynumber: 9.8 Consensus size: 25
6670712 ATTAGTAATT
*
6670722 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
*
6670749 TTTTGTATGAATATTAT-A-ATTT-
1 TTTTGTATGAATATTGTAATATTTA
6670771 TTTTGTATGAATATTGTAATATTATA
1 TTTTGTATGAATATTGTAATATT-TA
*
6670797 GTTTTGTATGAATATTGCAA-A-TT-
1 -TTTTGTATGAATATTGTAATATTTA
*
6670820 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
6670847 TTTTGTATGAATA-T-T-ATATTT-
1 TTTTGTATGAATATTGTAATATTTA
6670868 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-T-A
*
6670895 TTTTGTATGAATATTG-CA-ATTT-
1 TTTTGTATGAATATTGTAATATTTA
6670917 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
6670944 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
6670964 GTGGGGATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 42
0.78 0.04 0.18
Matches are distributed among these distances:
21 13 0.07
22 51 0.28
23 4 0.02
24 19 0.10
25 11 0.06
26 4 0.02
27 83 0.45
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (25 bp):
TTTTGTATGAATATTGTAATATTTA
Found at i:6670788 original size:49 final size:49
Alignment explanation
Indices: 6670712--6670963 Score: 382
Period size: 49 Copynumber: 5.2 Consensus size: 49
6670702 ATAGTTTTGG
*
6670712 ATTAGTAA-TTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAAT
1 ATTA-TAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
* *
6670761 ATTATAATTTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
** * *
6670810 ATTGCAAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
*
6670859 ATTAT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
**
6670907 ATTGCAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
*
6670956 ATTGTAAT
1 ATTATAAT
6670964 GTGGGGATAT
Statistics
Matches: 183, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
48 46 0.25
49 137 0.75
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
Found at i:6670899 original size:97 final size:98
Alignment explanation
Indices: 6670718--6670963 Score: 449
Period size: 97 Copynumber: 2.5 Consensus size: 98
6670708 TTGGATTAGT
6670718 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
*
6670783 ATTGTAATATTATAGTTTTGTATGAATATTGCA
66 ATTGTAATATTATAATTTTGTATGAATATTGCA
6670816 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
6670880 ATTGTAATATTATAATTTTGTATGAATATTGCA
66 ATTGTAATATTATAATTTTGTATGAATATTGCA
* * *
6670913 ATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAAT
6670964 GTGGGGATAT
Statistics
Matches: 143, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
97 93 0.65
98 50 0.35
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (98 bp):
AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
ATTGTAATATTATAATTTTGTATGAATATTGCA
Found at i:6670909 original size:19 final size:19
Alignment explanation
Indices: 6670885--6670942 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
6670875 TGAATATTGT
6670885 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
6670904 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
6670926 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
6670943 ATTTTGTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:6670956 original size:19 final size:19
Alignment explanation
Indices: 6670885--6670963 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 19
6670875 TGAATATTGT
*
6670885 AATATTATAATTTTGTATG
1 AATATTGTAATTTTGTATG
* *
6670904 AATATTGCAATTTT-TTTG
1 AATATTGTAATTTTGTATG
*
6670922 --TA-TG-AATATTG--T-
1 AATATTGTAATTTTGTATG
6670934 AATATTGTAATTTTGTATG
1 AATATTGTAATTTTGTATG
6670953 AATATTGTAAT
1 AATATTGTAAT
6670964 GTGGGGATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
13 1 0.02
14 7 0.15
15 4 0.09
16 8 0.17
18 4 0.09
19 23 0.49
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (19 bp):
AATATTGTAATTTTGTATG
Found at i:6674275 original size:22 final size:21
Alignment explanation
Indices: 6674237--6674303 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
6674227 TACCTAATTT
6674237 TTTTCTTCT-TTTCCTTCCTTC
1 TTTTCTTCTCTTT-CTTCCTTC
6674258 TTTTCTTCTGCTTTCTTCCTTC
1 TTTTCTTCT-CTTTCTTCCTTC
*
6674280 TTTTCTTCTACTTCCTTCCTTC
1 TTTTCTTCT-CTTTCTTCCTTC
6674302 TT
1 TT
6674304 CTTTCTTCCG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
21 9 0.21
22 30 0.71
23 3 0.07
ACGTcount: A:0.01, C:0.33, G:0.01, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTTCTTCCTTC
Found at i:6674420 original size:27 final size:27
Alignment explanation
Indices: 6674390--6674442 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
6674380 TTCAGTATGA
6674390 CACCACCATTGGCGCCTCCCAGATAGG
1 CACCACCATTGGCGCCTCCCAGATAGG
6674417 CACCACCATTGGCGCCTCCCAGATAG
1 CACCACCATTGGCGCCTCCCAGATAG
6674443 TCGCCAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.42, G:0.21, T:0.15
Consensus pattern (27 bp):
CACCACCATTGGCGCCTCCCAGATAGG
Found at i:6684911 original size:19 final size:19
Alignment explanation
Indices: 6684875--6684911 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6684865 AAAGTTAATA
*
6684875 GCAAATTTGAATATGGTGG
1 GCAAATTTGAATACGGTGG
*
6684894 GCAAATTTGATTACGGTG
1 GCAAATTTGAATACGGTG
6684912 AGTGACAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (19 bp):
GCAAATTTGAATACGGTGG
Found at i:6687459 original size:16 final size:16
Alignment explanation
Indices: 6687438--6687468 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6687428 GACAGCATGA
*
6687438 TTGGATATGATTAGTT
1 TTGGATATGAATAGTT
6687454 TTGGATATGAATAGT
1 TTGGATATGAATAGT
6687469 AAATAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (16 bp):
TTGGATATGAATAGTT
Found at i:6688029 original size:35 final size:35
Alignment explanation
Indices: 6687983--6688058 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
6687973 TACACTCTGT
*
6687983 TTGGTGTGTTTCGG-GTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAG-GGACTAGCTCATATGAGCA
* *
6688018 TTGGTGTGTTTCGGAGGGATTAGCTCATGTGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCATATGAGCA
6688053 TCTGGT
1 T-TGGT
6688059 ATTTTTTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 31 0.86
36 5 0.14
ACGTcount: A:0.14, C:0.13, G:0.36, T:0.37
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGACTAGCTCATATGAGCA
Found at i:6697362 original size:80 final size:80
Alignment explanation
Indices: 6697259--6697406 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 80
6697249 CTCAACATGA
* *
6697259 TTTTTTTACTAATTTTTCTCTTTTGAAATATAATATACATTATAAAAAAAAA-ATTAACACATAA
1 TTTTTTTACTAATTTTTCTCTTTTAAAACATAATATACATTATAAAAAAAAATATTAACACATAA
6697323 AATTCAACATTGTTT
66 AATTCAACATTGTTT
*
6697338 TTTTTATTACT-ATTTTTACTCTTTTAAAACATAATATACATTGTAAAAAAAAATATTAACACAT
1 TTTTT-TTACTAATTTTT-CTCTTTTAAAACATAATATACATTATAAAAAAAAATATTAACACAT
6697402 AAAAT
64 AAAAT
6697407 AAAGACAACT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
79 11 0.17
80 37 0.59
81 15 0.24
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (80 bp):
TTTTTTTACTAATTTTTCTCTTTTAAAACATAATATACATTATAAAAAAAAATATTAACACATAA
AATTCAACATTGTTT
Found at i:6697958 original size:31 final size:31
Alignment explanation
Indices: 6697923--6697988 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
6697913 TAATGGAAAG
6697923 TTAATTTCTTGTTATACGAACTTACTAAGTT
1 TTAATTTCTTGTTATACGAACTTACTAAGTT
6697954 TTAATTTCTTGTTATACGAACTTACTAAGTT
1 TTAATTTCTTGTTATACGAACTTACTAAGTT
6697985 TTAA
1 TTAA
6697989 AGCTTACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (31 bp):
TTAATTTCTTGTTATACGAACTTACTAAGTT
Found at i:6700137 original size:5 final size:5
Alignment explanation
Indices: 6700127--6700157 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
6700117 TGAGCATTCG
6700127 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
6700158 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:6701196 original size:9 final size:9
Alignment explanation
Indices: 6701182--6701218 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6701172 TATAGTTTGA
6701182 TATTCGAAT
1 TATTCGAAT
6701191 TATTCGAAT
1 TATTCGAAT
*
6701200 TATTCGAGT
1 TATTCGAAT
6701209 TATTCGAAT
1 TATTCGAAT
6701218 T
1 T
6701219 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6711644 original size:18 final size:18
Alignment explanation
Indices: 6711589--6711645 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
6711579 ATGCAAGCTT
*
6711589 ATATAGATGTGCAAACCC
1 ATATACATGTGCAAACCC
* * * * *
6711607 CTGTAC-TATGCGAGCCC
1 ATATACATGTGCAAACCC
6711624 ATATACATGTGCAAACCC
1 ATATACATGTGCAAACCC
6711642 ATAT
1 ATAT
6711646 GTTATTGTGA
Statistics
Matches: 27, Mismatches: 11, Indels: 2
0.68 0.28 0.05
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATACATGTGCAAACCC
Found at i:6714242 original size:84 final size:84
Alignment explanation
Indices: 6714101--6714269 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
6714091 ATGATAAGAG
* * * *
6714101 AATGATTAAGTCTTATAATTGTATGAGATGTTGAGGGTGTTGGAACATTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
6714166 AATATAAAAGAAGATAAGT
66 AATATAAAAGAAGATAAGT
6714185 AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
6714250 AATATAAAAGAAGATAAGT
66 AATATAAAAGAAGATAAGT
6714269 A
1 A
6714270 GATTTAATCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (84 bp):
AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
AATATAAAAGAAGATAAGT
Found at i:6715228 original size:29 final size:29
Alignment explanation
Indices: 6715195--6715260 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
6715185 AGTGCAAATA
**
6715195 CAGAACAGGATGGCACTGAAATGCGTATT
1 CAGAACAGGACAGCACTGAAATGCGTATT
* * *
6715224 CAGAATAGGACAGCATTGATATGCGTATT
1 CAGAACAGGACAGCACTGAAATGCGTATT
6715253 CAGAACAG
1 CAGAACAG
6715261 AGAGCACGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (29 bp):
CAGAACAGGACAGCACTGAAATGCGTATT
Found at i:6715231 original size:163 final size:165
Alignment explanation
Indices: 6714955--6715279 Score: 440
Period size: 163 Copynumber: 2.0 Consensus size: 165
6714945 TTTATTATTC
* * * ** *
6714955 AATAGAGGCCCAACGTAAACTTAATAAAACATATTGGGTATATGAAAACAGTACAGCAATGCACC
1 AATAGAGGCCCAACGTAAACTTAACAAAACATATTAGGAATACAAAAACAGTACAGCAATACACC
* *
6715020 GAAATACAAATACAGAATAAGATGGCACCGAAGTGCGTATCCAGAATAGGACAACATTAAAATGC
66 GAAATACAAATACAGAACAAGATGGCACCGAAATGCGTATCCAGAATAGGACAACATTAAAATGC
*
6715085 GTATTCAGAACAGAGAGCGCGCT-AAATTTTCCTT
131 GTATTCAGAACAGAGAGCACGCTAAAATTTTCCTT
* * * *
6715119 AATATAGGCCCAACGTAGACTTAACAAAACATA-TAGGAATACAAAAATAGTACAGTAATACACC
1 AATAGAGGCCCAACGTAAACTTAACAAAACATATTAGGAATACAAAAACAGTACAGCAATACACC
* * * * * * *
6715183 -AAAGTGCAAATACAGAACAGGATGGCACTGAAATGCGTATTCAGAATAGGACAGCATTGATATG
66 GAAA-TACAAATACAGAACAAGATGGCACCGAAATGCGTATCCAGAATAGGACAACATTAAAATG
6715247 CGTATTCAGAACAGAGAGCACGCTAAAATTTTC
130 CGTATTCAGAACAGAGAGCACGCTAAAATTTTC
6715280 TTGATGGCAT
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
162 3 0.02
163 98 0.71
164 38 0.27
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.21
Consensus pattern (165 bp):
AATAGAGGCCCAACGTAAACTTAACAAAACATATTAGGAATACAAAAACAGTACAGCAATACACC
GAAATACAAATACAGAACAAGATGGCACCGAAATGCGTATCCAGAATAGGACAACATTAAAATGC
GTATTCAGAACAGAGAGCACGCTAAAATTTTCCTT
Found at i:6722952 original size:17 final size:17
Alignment explanation
Indices: 6722904--6722968 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
6722894 GGTAACACGA
*
6722904 AATTTTAATTTTTTTTT
1 AATTTCAATTTTTTTTT
* * *
6722921 ATTTTC-AGTTATTTTT
1 AATTTCAATTTTTTTTT
6722937 AATTT-AATTATTTTTTT
1 AATTTCAATT-TTTTTTT
*
6722954 AATTTGAATTTTTTT
1 AATTTCAATTTTTTT
6722969 GTGTAAATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
16 14 0.37
17 20 0.53
18 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (17 bp):
AATTTCAATTTTTTTTT
Found at i:6722968 original size:32 final size:32
Alignment explanation
Indices: 6722907--6722968 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
6722897 AACACGAAAT
* *
6722907 TTTAATTTTTTTTTATTTTCAGTTATTTTTAA
1 TTTAATTTTTTTTTAATTTCAATTATTTTTAA
*
6722939 TTTAATTATTTTTTTAATTTGAATT-TTTTT
1 TTTAATT-TTTTTTTAATTTCAATTATTTTT
6722969 GTGTAAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (32 bp):
TTTAATTTTTTTTTAATTTCAATTATTTTTAA
Found at i:6725510 original size:21 final size:21
Alignment explanation
Indices: 6725484--6725524 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6725474 TAACAAGACC
6725484 GCTGATGTGGCAAGTTAACTG
1 GCTGATGTGGCAAGTTAACTG
*
6725505 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
6725525 TGCTACGTTT
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:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTG
Found at i:6726287 original size:81 final size:82
Alignment explanation
Indices: 6726180--6726333 Score: 274
Period size: 81 Copynumber: 1.9 Consensus size: 82
6726170 AATTAGTGAC
* *
6726180 TGTTTTGTCACTTTTTGATAACGTTAGTGATTGTTTTGTTATTTTTT-AAAATTTGAGTGACTAA
1 TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
6726244 AATGAAACTTATGTAAT
66 AATGAAACTTATGTAAT
*
6726261 TGTTTTGTCACTTTTTGATAATGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
1 TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
6726326 AATGAAAC
66 AATGAAAC
6726334 CTAGGTGACT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 45 0.65
82 24 0.35
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (82 bp):
TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
AATGAAACTTATGTAAT
Found at i:6729640 original size:18 final size:18
Alignment explanation
Indices: 6729617--6729652 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6729607 ATAATTTATT
6729617 TTTTTATTATACTTTTTA
1 TTTTTATTATACTTTTTA
6729635 TTTTTATTATACTTTTTA
1 TTTTTATTATACTTTTTA
6729653 GTAACATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATTATACTTTTTA
Found at i:6730917 original size:3 final size:3
Alignment explanation
Indices: 6730875--6730934 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
6730865 TTTAGCAATT
* * *
6730875 TTA TTA TT- TTA TTCA TTA TT- TTA ATG TTA TTA TCA TTTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
6730920 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
6730935 GTTTTATTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.09
3 38 0.81
4 5 0.11
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:6731892 original size:18 final size:18
Alignment explanation
Indices: 6731864--6731907 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
6731854 GTAACATTAA
*
6731864 TAATTTATTTTATAATTTT
1 TAATTTTTTTTAT-ATTTT
*
6731883 T-ATTTTTTTTATTTTTT
1 TAATTTTTTTTATATTTT
6731900 TAATTTTT
1 TAATTTTT
6731908 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 16 0.73
19 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TAATTTTTTTTATATTTT
Found at i:6732911 original size:8 final size:8
Alignment explanation
Indices: 6732898--6732925 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6732888 TGAAGTATAT
6732898 TATTATTA
1 TATTATTA
6732906 TATTATTA
1 TATTATTA
6732914 TATTATTA
1 TATTATTA
6732922 TATT
1 TATT
6732926 TTAAATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTATTA
Found at i:6733217 original size:13 final size:13
Alignment explanation
Indices: 6733186--6733226 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
6733176 GACGAAACAG
*
6733186 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
6733198 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
6733211 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
6733224 AGA
1 AGA
6733227 GAAAATTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:6733626 original size:18 final size:18
Alignment explanation
Indices: 6733603--6733638 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6733593 TTGAAATGGT
6733603 TTGAATT-GAATCATTGAA
1 TTGAATTGGAAT-ATTGAA
6733621 TTGAATTGGAATATTGAA
1 TTGAATTGGAATATTGAA
6733639 ATTGGTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (18 bp):
TTGAATTGGAATATTGAA
Found at i:6733746 original size:37 final size:35
Alignment explanation
Indices: 6733701--6733808 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 35
6733691 ATATGTGAGA
*
6733701 TTGATACTGAACTGAATTAGTG-AATACTGGATATTG
1 TTGATACTG-ACTGAATTA-TGAAATACTGAATATTG
*
6733737 TTGAGTACTGAGTGAATTATGAAAATACTGAATATTG
1 TTGA-TACTGACTGAATTATG-AAATACTGAATATTG
* *
6733774 TTATGTATAATGCATTGAATTATGAAATTACTGAA
1 -T-TG-ATACTG-ACTGAATTATGAAA-TACTGAA
6733809 GTAATAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
35 2 0.03
36 12 0.20
37 18 0.30
38 1 0.02
39 9 0.15
40 18 0.30
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (35 bp):
TTGATACTGACTGAATTATGAAATACTGAATATTG
Found at i:6734050 original size:51 final size:51
Alignment explanation
Indices: 6733974--6734093 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 51
6733964 GTACGCCGAC
* * *
6733974 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
1 TACTGTTACTGTTACTGATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
*
6734025 TACTGTTACCGTTA-TCGATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
1 TACTGTTACTGTTACT-GATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
6734076 TACTGATTACTGTTACTG
1 TACTG-TTACTGTTACTG
6734094 GTGTGTTTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.02
51 50 0.82
52 9 0.15
53 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (51 bp):
TACTGTTACTGTTACTGATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
Found at i:6740958 original size:42 final size:42
Alignment explanation
Indices: 6740886--6741033 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
6740876 TCTCATGAGC
* * *
6740886 TTCAG-TTAACTCATATGAGTTTTCGTTTAACCCTAATGGGT
1 TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCCTAATGGGT
* *
6740927 TTCAGTTTAGCTCTTTTGAGCTTTAGTTTAACCCTTAA-GGGT
1 TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCC-TAATGGGT
** * * * *
6740969 TTTTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCCTAATGGGT
* *
6741011 TTCTA-TTTAGCACTTATGTGCTT
1 TTC-AGTTTAGCTCTTATGAGCTT
6741034 CTGTGCAGCC
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
41 7 0.08
42 75 0.88
43 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.45
Consensus pattern (42 bp):
TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCCTAATGGGT
Found at i:6743078 original size:46 final size:45
Alignment explanation
Indices: 6742980--6743079 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
6742970 TCTATGAATC
* * * * *
6742980 CGCATGTCTAAGTTTGCCATATCTATGAATCTTCTTTTATGAAGT
1 CGCATGTATAAGTCTACCATATCTATGAATCTTCTTCTACGAAGT
*
6743025 CACATGTATAAGTCTACCATATCTATGAATTCTTCTTCTACG-AGTT
1 CGCATGTATAAGTCTACCATATCTATGAA-TCTTCTTCTACGAAG-T
6743071 CGCATGTAT
1 CGCATGTAT
6743080 GAGTTTGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
45 27 0.59
46 19 0.41
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (45 bp):
CGCATGTATAAGTCTACCATATCTATGAATCTTCTTCTACGAAGT
Found at i:6743670 original size:2 final size:2
Alignment explanation
Indices: 6743663--6743710 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
6743653 AGTTTGTTTT
6743663 TA TA TA 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 TA TA TA TA
6743704 TA TA TA T
1 TA TA TA T
6743711 TGTGATTTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6748359 original size:21 final size:21
Alignment explanation
Indices: 6748333--6748374 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6748323 CTTTGCTCTA
6748333 TTACAATTTTGCCTTCAAGGT
1 TTACAATTTTGCCTTCAAGGT
6748354 TTACAATTTTGCCTTCAAGGT
1 TTACAATTTTGCCTTCAAGGT
6748375 GAGCTTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (21 bp):
TTACAATTTTGCCTTCAAGGT
Found at i:6749123 original size:29 final size:29
Alignment explanation
Indices: 6749090--6749154 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
6749080 AGACTCCACC
*
6749090 TCCACCAAATAAG-CAACCTTTGCCAAGAT
1 TCCACCAAATAAGAAAACC-TTGCCAAGAT
*
6749119 TCCACC-TATAAGAAAACCTTGCCAAGAT
1 TCCACCAAATAAGAAAACCTTGCCAAGAT
6749147 TCCACCAA
1 TCCACCAA
6749155 TCTTCATGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.20
Consensus pattern (29 bp):
TCCACCAAATAAGAAAACCTTGCCAAGAT
Found at i:6752678 original size:12 final size:13
Alignment explanation
Indices: 6752653--6752681 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6752643 AGTATATTTT
6752653 ATATTTTTTAACA
1 ATATTTTTTAACA
6752666 ATATTTTTT-ACA
1 ATATTTTTTAACA
6752678 ATAT
1 ATAT
6752682 ATTAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTTTTTAACA
Found at i:6753000 original size:2 final size:2
Alignment explanation
Indices: 6752993--6753035 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6752983 TAAATTTTAA
6752993 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6753035 A
1 A
6753036 CACACTTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6756234 original size:15 final size:15
Alignment explanation
Indices: 6756210--6756252 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6756200 CATTTCAAAG
* *
6756210 ATAAATCCTAATTCC
1 ATAAACCCTAATTAC
*
6756225 CTAAACCCTAATTAC
1 ATAAACCCTAATTAC
6756240 ATAAACCCATAAT
1 ATAAACCC-TAAT
6756253 CTTATGCGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAACCCTAATTAC
Found at i:6759083 original size:22 final size:21
Alignment explanation
Indices: 6759039--6759084 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
6759029 TTTTGACTCT
*
6759039 AATTTTTTTTAAATTTCTCTC
1 AATTTTTTTTAAATTTATCTC
*
6759060 AATTTTTTTTAACTTTATCGTC
1 AATTTTTTTTAAATTTATC-TC
6759082 AAT
1 AAT
6759085 ATGCTTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTTTTTTTAAATTTATCTC
Found at i:6759179 original size:11 final size:11
Alignment explanation
Indices: 6759159--6759202 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
6759149 CTCAACACCA
6759159 AAATTGAGAGG
1 AAATTGAGAGG
*
6759170 AAATTTAGAGG
1 AAATTGAGAGG
6759181 AAATTGAGAGG
1 AAATTGAGAGG
6759192 AAATTTGAGAG
1 AAA-TTGAGAG
6759203 AGGATTAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:6759187 original size:22 final size:23
Alignment explanation
Indices: 6759159--6759202 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
6759149 CTCAACACCA
6759159 AAATTGAGAGGAAATTT-AGAGG
1 AAATTGAGAGGAAATTTGAGAGG
6759181 AAATTGAGAGGAAATTTGAGAG
1 AAATTGAGAGGAAATTTGAGAG
6759203 AGGATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (23 bp):
AAATTGAGAGGAAATTTGAGAGG
Found at i:6761232 original size:14 final size:15
Alignment explanation
Indices: 6761209--6761245 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
6761199 ATTTCAGTAG
6761209 AAATGA-TTTCTAGA
1 AAATGATTTTCTAGA
6761223 AAAT-ATTTTCTAGA
1 AAATGATTTTCTAGA
6761237 AAATGATTT
1 AAATGATTT
6761246 ACTTTCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 16 0.76
15 4 0.19
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (15 bp):
AAATGATTTTCTAGA
Found at i:6761852 original size:18 final size:18
Alignment explanation
Indices: 6761797--6761857 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
6761787 AATATGCATG
*
6761797 TTTAATAATATTGAAA-AA
1 TTTAATAAT-TTTAAATAA
*
6761815 TATAATAATTTATATTAATAA
1 TTTAATAATTT-TA--AATAA
6761836 TTTAATAATTTTAAAT-A
1 TTTAATAATTTTAAATAA
6761853 TTTAA
1 TTTAA
6761858 AAAATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.22
18 12 0.33
20 4 0.11
21 12 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTAATAATTTTAAATAA
Found at i:6761884 original size:42 final size:46
Alignment explanation
Indices: 6761803--6761891 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 46
6761793 CATGTTTAAT
* *
6761803 AATATTGAAAAATATAATAATTTATATTAATAATTTAATAATTTTA
1 AATATTGAAAAATATAATAATTTATATTAATAATATAATAATATTA
*
6761849 AATATTTAAAAA-ATAA-AA-TT-TATT-ATCAATATAATAATATTA
1 AATATTGAAAAATATAATAATTTATATTAAT-AATATAATAATATTA
6761891 A
1 A
6761892 GCTTGGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
41 2 0.05
42 18 0.46
43 2 0.05
44 2 0.05
45 4 0.10
46 11 0.28
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (46 bp):
AATATTGAAAAATATAATAATTTATATTAATAATATAATAATATTA
Found at i:6771879 original size:44 final size:44
Alignment explanation
Indices: 6771831--6771968 Score: 147
Period size: 44 Copynumber: 3.1 Consensus size: 44
6771821 ATTATATTAT
6771831 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAACAAA
1 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAACAAA
* * ** * *
6771875 ATTTATTATCAAGAATTTTATGAAATTATATATCATT-AT-TAA-ATTAT
1 ATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAACA--AA
6771922 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAACAAA
1 ATTTAATATTAATTATTTTAAATTATATAAATTCATATAACAAA
6771966 ATT
1 ATT
6771969 CATTATCAAG
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 27 0.37
45 8 0.11
46 8 0.11
47 24 0.33
48 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (44 bp):
ATTTAATATTAATTATTTTAAATTATATAAATTCATATAACAAA
Found at i:6771934 original size:91 final size:91
Alignment explanation
Indices: 6771768--6772052 Score: 457
Period size: 91 Copynumber: 3.1 Consensus size: 91
6771758 ATGATTTTAG
* * * *
6771768 TAAATTCATATAATAATATTTATTATTAAGAATTTTATG-AATTATATATCATTATTATATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
6771832 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
6771858 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
6771923 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* * * *
6771949 TAAATTCATATAACAAAATTCATTATCAAGAATTTGATGAAGTTATATATTATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
6772014 TTTAATAATAATTATATTAAATTAT-
66 TTTAATATTAATTATTTTAAATTATA
6772039 TAAAATTCATATAA
1 T-AAATTCATATAA
6772053 TTAAATTATA
Statistics
Matches: 183, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
90 37 0.20
91 146 0.80
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:6772015 original size:10 final size:10
Alignment explanation
Indices: 6771997--6772102 Score: 53
Period size: 10 Copynumber: 10.7 Consensus size: 10
6771987 GAAGTTATAT
6771997 ATTATTATTAA
1 ATTA-TATTAA
*
6772008 ATTATATTTA
1 ATTATATTAA
6772018 A-TA-A-T-A
1 ATTATATTAA
6772024 ATTATATTAA
1 ATTATATTAA
*
6772034 ATTAT-TAAA
1 ATTATATTAA
6772043 ATTCATATAATTAA
1 A-T--TAT-ATTAA
*
6772057 ATTATATTTA
1 ATTATATTAA
* *
6772067 ATAATAAT-A
1 ATTATATTAA
*
6772076 ATTATTTTAA
1 ATTATATTAA
*
6772086 ATTTTATTAA
1 ATTATATTAA
*
6772096 ATCATAT
1 ATTATAT
6772103 ATTTTAATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 2 0.03
9 13 0.18
10 37 0.51
11 7 0.10
12 3 0.04
13 1 0.01
14 4 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTATATTAA
Found at i:6772201 original size:120 final size:121
Alignment explanation
Indices: 6772085--6772374 Score: 467
Period size: 120 Copynumber: 2.4 Consensus size: 121
6772075 AATTATTTTA
* *
6772085 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTC-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTCCTAAATTAGATTT
* **
6772149 TATACTATCATATATTATGATTTTAGGAAATTCATATAATTATATTGATTATTAAG
66 TATACTATCATATATTATGATTTGAGGAAATTCATATAACAATATTGATTATTAAG
6772205 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTA-TCCTAAATTAGATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTCCTAAATTAGATTT
* * * *
6772269 TATAGTATCATATATTATGATTTGAGTAAATTGATATAACAATATTGATTATTAAT
66 TATACTATCATATATTATGATTTGAGGAAATTCATATAACAATATTGATTATTAAG
* *
6772325 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT
6772375 GTTAAAATAT
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 2 0.01
120 155 0.99
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (121 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTCCTAAATTAGATTT
TATACTATCATATATTATGATTTGAGGAAATTCATATAACAATATTGATTATTAAG
Found at i:6772220 original size:61 final size:61
Alignment explanation
Indices: 6772155--6772345 Score: 158
Period size: 61 Copynumber: 3.2 Consensus size: 61
6772145 ATTTTATACT
* * *
6772155 ATCATATATTATGATTTTAGGAAATTCATATAATTATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTAAGTAAATTAATATAATTATATTGATTATTAAGAATTTTATTAA
* * * * * ** * *
6772216 ATCATATATTTTAATTAAAATATATTTAATAATAATTATCCT-A-AATT-AG-ATTTTA-TAGT
1 ATCATATATTATGATTTAAGTA-AATTAAT-ATAATTATATTGATTATTAAGAATTTTATTA-A
* * ** *
6772275 ATCATATATTATGATTTGAGTAAATTGATATAACAATATTGATTATTAATAATTTTATTAA
1 ATCATATATTATGATTTAAGTAAATTAATATAATTATATTGATTATTAAGAATTTTATTAA
*
6772336 ATTATATATT
1 ATCATATATT
6772346 TTAATTAAAA
Statistics
Matches: 95, Mismatches: 27, Indels: 16
0.69 0.20 0.12
Matches are distributed among these distances:
57 7 0.07
58 8 0.08
59 26 0.27
60 3 0.03
61 34 0.36
62 8 0.08
63 9 0.09
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (61 bp):
ATCATATATTATGATTTAAGTAAATTAATATAATTATATTGATTATTAAGAATTTTATTAA
Found at i:6772225 original size:226 final size:236
Alignment explanation
Indices: 6771950--6772374 Score: 525
Period size: 226 Copynumber: 1.8 Consensus size: 236
6771940 TAAATTATAT
* * *
6771950 AAATTCATATAACAAAATTCATTATCAAGAATTTGATGAAGTTATATATTATT-ATTAAATTATA
1 AAATTCATATAACAAAATTCATTATCAAGAATTTGATGAAATCATATATT-TTAATTAAAATATA
* *
6772014 TTTAATAATAATTATATTAAATT-A-TTAAAAT-TCATATAATTA-AATT-A-T-ATTTA-ATAA
65 TTTAATAATAATTATACTAAATTAATTTAAAATATCATAT-ATTAGAATTGAGTAATTGATATAA
* *
6772071 TAATAATT-ATT-TT-A-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAAT
129 CAAT-ATTGATTATTAATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAAAAT
6772132 TATTTCAAATTATATTTTATACTATCATATATTATGATTTTAGG
193 TATTTCAAATTATATTTTATACTATCATATATTATGATTTTAGG
** * * * * *
6772176 AAATTCATATAATTATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATAT
1 AAATTCATATAACAAAATTCATTATCAAGAATTTGATGAAATCATATATTTTAATTAAAATATAT
* * * *
6772241 TTAATAATAATTATCCTAAATTAGATTTTATAGTATCATATATTATGATTTGAGTAAATTGATAT
66 TTAATAATAATTATACTAAATTA-A-TTTAAAATATCATATATTA-GAATTGAGT-AATTGATAT
*
6772306 AACAATATTGATTATTAATAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAA
127 AACAATATTGATTATTAATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAAAA
6772371 TTAT
192 TTAT
6772375 GTTAAAATAT
Statistics
Matches: 163, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
225 2 0.01
226 72 0.44
228 1 0.01
230 9 0.06
231 6 0.04
232 3 0.02
233 1 0.01
234 1 0.01
236 7 0.04
237 10 0.06
238 2 0.01
239 1 0.01
240 48 0.29
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (236 bp):
AAATTCATATAACAAAATTCATTATCAAGAATTTGATGAAATCATATATTTTAATTAAAATATAT
TTAATAATAATTATACTAAATTAATTTAAAATATCATATATTAGAATTGAGTAATTGATATAACA
ATATTGATTATTAATAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAAAATTAT
TTCAAATTATATTTTATACTATCATATATTATGATTTTAGG
Found at i:6772279 original size:59 final size:59
Alignment explanation
Indices: 6772050--6772374 Score: 206
Period size: 59 Copynumber: 5.5 Consensus size: 59
6772040 AAAATTCATA
* * ** *
6772050 TAATTAAATTATATTTAATAATAA-TAATT-ATTTTAAATTTTATTAAATCATATATTT
1 TAATTAAAATATATTTAATAATAATTATTTCAAATTAGATTTTATTAAATCATATATTT
* * *
6772107 TAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTA-TACTATCATATATTA
1 TAATTAAAATATATTTAATAATAATTATTTCAAATTAGATTTTATTA-AATCATATATTT
* ** ** * * * *
6772166 TGATTTTAGGA-AATTCAT-ATAATTATATTGATTATTAAGAATTTTATTAAATCATATATTT
1 TAATTAAAATATATTTAATAATAATTAT-TTCA-AATT-AG-ATTTTATTAAATCATATATTT
* *
6772227 TAATTAAAATATATTTAATAATAATTA-TCCTAAATTAGATTTTA-TAGTATCATATATTAT
1 TAATTAAAATATATTTAATAATAATTATTTC-AAATTAGATTTTATTA-AATCATATATT-T
* * * * * *
6772287 GATTTGAGTAAAT-TGATATAACAAT-ATTGATTAT-TAA-TA-ATTTTATTAAATTATATATTT
1 TAATT-A--AAATAT-ATTTAATAATAATT-ATT-TCAAATTAGATTTTATTAAATCATATATTT
*
6772347 TAATTAAAATATATTTAATAAAAATTAT
1 TAATTAAAATATATTTAATAATAATTAT
6772375 GTTAAAATAT
Statistics
Matches: 202, Mismatches: 43, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
57 44 0.22
58 20 0.10
59 46 0.23
60 11 0.05
61 42 0.21
62 16 0.08
63 22 0.11
64 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (59 bp):
TAATTAAAATATATTTAATAATAATTATTTCAAATTAGATTTTATTAAATCATATATTT
Found at i:6772354 original size:18 final size:17
Alignment explanation
Indices: 6772326--6772360 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6772316 ATTATTAATA
*
6772326 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6772343 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6772361 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6772360 original size:16 final size:16
Alignment explanation
Indices: 6772322--6772371 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
6772312 ATTGATTATT
6772322 AATA-ATTTT-ATTAA
1 AATATATTTTAATTAA
6772336 ATTATATATTTTAATTAA
1 A--ATATATTTTAATTAA
*
6772354 AATATA-TTTAATAAA
1 AATATATTTTAATTAA
6772369 AAT
1 AAT
6772372 TATGTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.03
15 11 0.35
16 8 0.26
17 5 0.16
18 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATATTTTAATTAA
Found at i:6772580 original size:44 final size:45
Alignment explanation
Indices: 6772517--6772613 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
6772507 CTATTACACC
*
6772517 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCATCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCATCTAT
* * * *
6772561 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCATCTAT
6772606 TCCATTAC
1 TCCATTAC
6772614 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCATCTAT
Done.