Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 105 of 143
Found at i:32158013 original size:66 final size:66
Alignment explanation
Indices: 32157933--32158152 Score: 175
Period size: 66 Copynumber: 3.2 Consensus size: 66
32157923 AAAAGAAAAT
*
32157933 AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTTGTCATAGAAAAAGTTTATATTTTTAAA
1 AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTTGTCATAGAAAAAGTTTATTTTTTTAAA
32157998 C
66 C
* ** ** **
32157999 AAAGTTTTGATTTTTAACTATTTCGAAATAAAGTTTTGATTTT-T-A-AG-AAAAGTATT-TTTT
1 AAAGTTTAGATTTTTAA--AAATAAAAAT-CTGTTTT--TTTTGTCATAGAAAAAGT-TTATTTT
32158059 TTTAAA-
60 TTTAAAC
*
32158065 AAAGTTTAGATTTTTAAAAATAAAAATCTG-TTTTTTAGTCATTTTAAAGGAAAAAGTTTAATTT
1 AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTTGTCA---T--A-GAAAAAGTTT-A-TT
32158129 TTTTTAAAC
58 TTTTTAAAC
*
32158138 AAAGTTTTGATTTTT
1 AAAGTTTAGATTTTT
32158153 TTAACTATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
60 3 0.03
61 1 0.01
62 4 0.03
63 1 0.01
64 6 0.05
66 32 0.27
67 15 0.13
68 11 0.09
69 9 0.08
70 7 0.06
71 4 0.03
72 10 0.09
73 14 0.12
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.48
Consensus pattern (66 bp):
AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTTGTCATAGAAAAAGTTTATTTTTTTAAA
C
Found at i:32158050 original size:19 final size:18
Alignment explanation
Indices: 32158028--32158084 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
32158018 ATTTCGAAAT
32158028 AAAGTTTTGATTTTTAAGA
1 AAAGTTTTGATTTTTAA-A
*
32158047 AAAGTATTT-TTTTTTAAA
1 AAAGT-TTTGATTTTTAAA
*
32158065 AAAGTTTAGATTTTTAAA
1 AAAGTTTTGATTTTTAAA
32158083 AA
1 AA
32158085 TAAAAATCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 2 0.06
18 16 0.48
19 12 0.36
20 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (18 bp):
AAAGTTTTGATTTTTAAA
Found at i:32158273 original size:20 final size:20
Alignment explanation
Indices: 32158248--32158285 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32158238 TTAGTCAGGA
32158248 AAAGTTTAAATTTTTTAAAT
1 AAAGTTTAAATTTTTTAAAT
* *
32158268 AAAGTTTGATTTTTTTAA
1 AAAGTTTAAATTTTTTAA
32158286 CTATTTCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
AAAGTTTAAATTTTTTAAAT
Found at i:32158293 original size:129 final size:133
Alignment explanation
Indices: 32157932--32158334 Score: 529
Period size: 129 Copynumber: 3.0 Consensus size: 133
32157922 AAAAAGAAAA
* * *
32157932 TAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTTGTCATAGAAAAAGTTTATA-TTTTTA
1 TAAAGTTTAGATTTTTAAAAATAAAAATCTG-TTTTTTAGTC-TAGGAAAAGTTTAAATTTTTTA
* *
32157996 AACAAAGTTTTGA--TTTTTAACTATTTCGAAAT-AAAGTTTTGATTTTTAAGAAAAGTA-T-TT
64 AACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAGTAGTGAT
32158056 TTTTT
129 TTTTT
32158061 TAAAAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTCATTTTAAAGGAAAAAGTTTAA
1 T---AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTC----T--AGG-AAAAGTTTAA
* *
32158126 TTTTTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAACTTTGATTTTTAAGAAA
56 -ATTTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAA
32158191 AGTAGTGATTTTTT
120 AGTAGTGATTTTTT
* *
32158205 T-AA-TTTAGATTTTTAAAAATTAAAATATGTTTTTTAGTC-AGGAAAAGTTTAAATTTTTTAAA
1 TAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTCTAGGAAAAGTTTAAATTTTTTAAA
*
32158267 TAAAG-TTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAGTAGTGATTT
66 CAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAGTAGTGATTT
32158331 TTT
131 TTT
32158334 T
1 T
32158335 TAAAAAAAAC
Statistics
Matches: 245, Mismatches: 13, Indels: 32
0.84 0.04 0.11
Matches are distributed among these distances:
129 63 0.26
130 13 0.05
131 19 0.08
132 33 0.13
134 1 0.00
136 2 0.01
137 9 0.04
139 53 0.22
140 2 0.01
141 19 0.08
142 23 0.09
143 1 0.00
144 7 0.03
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.48
Consensus pattern (133 bp):
TAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTAGTCTAGGAAAAGTTTAAATTTTTTAAA
CAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAGTAGTGATTT
TTT
Found at i:32158906 original size:16 final size:16
Alignment explanation
Indices: 32158887--32158926 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
32158877 CTTGTATAAT
32158887 TTTATTTAT-TTTCATG
1 TTTATTTATATTT-ATG
32158903 TTTATTTATATTTATG
1 TTTATTTATATTTATG
*
32158919 TTTTTTTA
1 TTTATTTA
32158927 CACATTCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTATTTATATTTATG
Found at i:32160883 original size:15 final size:15
Alignment explanation
Indices: 32160863--32160891 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32160853 CTCCACCCTT
32160863 CCGCTGCTGCCGCCG
1 CCGCTGCTGCCGCCG
32160878 CCGCTGCTGCCGCC
1 CCGCTGCTGCCGCC
32160892 TCACTCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.55, G:0.31, T:0.14
Consensus pattern (15 bp):
CCGCTGCTGCCGCCG
Found at i:32170370 original size:6 final size:7
Alignment explanation
Indices: 32170353--32170377 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32170343 TAAATATGAT
32170353 TTTTTTA
1 TTTTTTA
32170360 TTTTTTA
1 TTTTTTA
32170367 TTTTTTA
1 TTTTTTA
32170374 TTTT
1 TTTT
32170378 GAATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:32170658 original size:20 final size:19
Alignment explanation
Indices: 32170633--32170694 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
32170623 AAACATACTA
32170633 ATAATTTAATAATTATTTAT
1 ATAATTTAA-AATTATTTAT
* *
32170653 ATAATTT-ACA-TA-CTA-
1 ATAATTTAAAATTATTTAT
32170668 ATAATTTAAGAATTATTTAT
1 ATAATTTAA-AATTATTTAT
32170688 ATAATTT
1 ATAATTT
32170695 TTCCTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 7 0.21
16 3 0.09
17 3 0.09
18 3 0.09
19 3 0.09
20 14 0.42
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATTTAAAATTATTTAT
Found at i:32170669 original size:35 final size:35
Alignment explanation
Indices: 32170625--32170694 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
32170615 CAAAATAAAA
*
32170625 ACATACTAATAATTTAATAATTATTTATATAATTT
1 ACATACTAATAATTTAAGAATTATTTATATAATTT
32170660 ACATACTAATAATTTAAGAATTATTTATATAATTT
1 ACATACTAATAATTTAAGAATTATTTATATAATTT
32170695 TTCCTAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (35 bp):
ACATACTAATAATTTAAGAATTATTTATATAATTT
Found at i:32179789 original size:27 final size:28
Alignment explanation
Indices: 32179740--32179796 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
32179730 TTTCATTTTG
*
32179740 AAATTAAAAAAATTATATATTAAATTTA
1 AAATTAAAAAAATTATATATTAAAGTTA
* *
32179768 AAATT-AAAAAATTTTATCTTAAAGTTA
1 AAATTAAAAAAATTATATATTAAAGTTA
32179795 AA
1 AA
32179797 CATTTACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
AAATTAAAAAAATTATATATTAAAGTTA
Found at i:32183739 original size:31 final size:31
Alignment explanation
Indices: 32183674--32183732 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
32183664 TTCAAATTAT
*
32183674 TCAAAATTAAAGCTTATGTGAGAAAATTCAA
1 TCAAAATTAAAGCTTATGTGAGAAAAATCAA
*
32183705 TCAAAAGTTAAAGTTTA-GTG-GAAAAATC
1 TCAAAA-TTAAAGCTTATGTGAGAAAAATC
32183733 TTATCAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 9 0.36
32 9 0.36
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.29
Consensus pattern (31 bp):
TCAAAATTAAAGCTTATGTGAGAAAAATCAA
Found at i:32184326 original size:15 final size:16
Alignment explanation
Indices: 32184299--32184334 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
32184289 TAGAAAATTT
32184299 TTTATATAAATATATA
1 TTTATATAAATATATA
*
32184315 TTTATA-AAATATTTA
1 TTTATATAAATATATA
32184330 TTTAT
1 TTTAT
32184335 CAATTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATATAAATATATA
Found at i:32188325 original size:15 final size:17
Alignment explanation
Indices: 32188305--32188338 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
32188295 TAATTTTTTA
32188305 AAATTA-TAAAAA-TAT
1 AAATTATTAAAAATTAT
32188320 AAATTATTAAAAATTAT
1 AAATTATTAAAAATTAT
32188337 AA
1 AA
32188339 TTTAATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATTATTAAAAATTAT
Found at i:32188358 original size:82 final size:82
Alignment explanation
Indices: 32188204--32188358 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 82
32188194 ATAGAAAATT
* *
32188204 ATTTATTTAAATTTTTTAAAAAATTTAAAAATTTAAATTAGTAAAAATAAAATTATATTTTAATC
1 ATTTATTTAAATTTTTT-AAAAATTTAAAAATATAAATTAGTAAAAATAAAATTATATTTCAATC
32188269 CTCTTAAAAATGATAAAA
65 CTCTTAAAAATGATAAAA
* *
32188287 ATTTGATTT-AATTTTTT-AAAATTATAAAAATATAAATTATTAAAAATTATAATT-TAATTTCA
1 ATTT-ATTTAAATTTTTTAAAAATT-TAAAAATATAAATTAGTAAAAA-TAAAATTAT-ATTTCA
*
32188349 A-CCTTTTAAA
62 ATCCTCTTAAA
32188359 TTTTTTTTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
81 6 0.10
82 29 0.46
83 24 0.38
84 4 0.06
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (82 bp):
ATTTATTTAAATTTTTTAAAAATTTAAAAATATAAATTAGTAAAAATAAAATTATATTTCAATCC
TCTTAAAAATGATAAAA
Found at i:32194454 original size:14 final size:14
Alignment explanation
Indices: 32194432--32194466 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
32194422 GGGACCTATT
*
32194432 CAAGCAATCTTGGG
1 CAAGGAATCTTGGG
32194446 CAAGGAATCTTGGG
1 CAAGGAATCTTGGG
32194460 CAAGGAA
1 CAAGGAA
32194467 CATAATGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (14 bp):
CAAGGAATCTTGGG
Found at i:32203064 original size:12 final size:12
Alignment explanation
Indices: 32203041--32203075 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
32203031 TTTCTTTTGA
32203041 TTTTC-ATTTCG
1 TTTTCGATTTCG
*
32203052 TTTTCGTTTTCG
1 TTTTCGATTTCG
32203064 TTTTCGATTTCG
1 TTTTCGATTTCG
32203076 ATTTAGAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.06, C:0.17, G:0.14, T:0.63
Consensus pattern (12 bp):
TTTTCGATTTCG
Found at i:32205553 original size:13 final size:13
Alignment explanation
Indices: 32205501--32205566 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
32205491 AGTTTAGCAT
32205501 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
32205514 TACTTTTAAAAAG
1 TGCTTTTGAAAAG
*
32205527 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
32205540 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
32205553 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
32205566 T
1 T
32205567 TTGGTTTAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:32214850 original size:30 final size:31
Alignment explanation
Indices: 32214816--32214885 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
32214806 AATTTCAGAA
*
32214816 AATATAAAAAT-AAAATATTTTAAATATTTT
1 AATATAAAAATAAAAATATTTTAAATAATTT
*
32214846 AATATAAAAATAAAAATATTTTATATAATTT
1 AATATAAAAATAAAAATATTTTAAATAATTT
32214877 AATATAAAA
1 AATATAAAA
32214886 TATTATTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
AATATAAAAATAAAAATATTTTAAATAATTT
Found at i:32215327 original size:1 final size:1
Alignment explanation
Indices: 32215293--32215319 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
32215283 GTTGCAGTTA
32215293 CCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCC
32215320 GGCCCCCCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:32229952 original size:22 final size:22
Alignment explanation
Indices: 32229912--32229953 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32229902 AACATAAAGT
*
32229912 ATTTAAATATCAATTTAATTTA
1 ATTTAAATATCAATATAATTTA
32229934 ATTTAAAT-TCAGATATAATT
1 ATTTAAATATCA-ATATAATT
32229954 CGAAATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTAAATATCAATATAATTTA
Found at i:32231076 original size:20 final size:20
Alignment explanation
Indices: 32231038--32231084 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32231028 AGCAATAACA
**
32231038 AAATACAGCTTGTTCGAGCC
1 AAATACAGCTCATTCGAGCC
*
32231058 AAATACAGCTCATTTGAGCC
1 AAATACAGCTCATTCGAGCC
*
32231078 AGATACA
1 AAATACA
32231085 AAATATCGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (20 bp):
AAATACAGCTCATTCGAGCC
Found at i:32231088 original size:27 final size:27
Alignment explanation
Indices: 32231065--32231256 Score: 258
Period size: 27 Copynumber: 7.1 Consensus size: 27
32231055 GCCAAATACA
* *
32231065 GCTCATTTGAGCCAGATACAAAATATC
1 GCTCATTCGAGCCAGATACAGAATATC
* *
32231092 GCTCATTTGAGCCATATACAGAATATC
1 GCTCATTCGAGCCAGATACAGAATATC
* * *
32231119 GCTCATTAGAGCAAGATACAGAATGTC
1 GCTCATTCGAGCCAGATACAGAATATC
* *
32231146 TCTCATTCGAGCCAAATACAGAATATC
1 GCTCATTCGAGCCAGATACAGAATATC
*
32231173 GCTCATTCGAGCCAGATACAGAATGTC
1 GCTCATTCGAGCCAGATACAGAATATC
* *
32231200 TCTCATTCGAGCCAGATACAAAATATC
1 GCTCATTCGAGCCAGATACAGAATATC
* *
32231227 ACTCATTCGAGCCAGATATAGAATATC
1 GCTCATTCGAGCCAGATACAGAATATC
32231254 GCT
1 GCT
32231257 TATTGCTCAG
Statistics
Matches: 144, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (27 bp):
GCTCATTCGAGCCAGATACAGAATATC
Found at i:32234955 original size:21 final size:21
Alignment explanation
Indices: 32234926--32234967 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32234916 GATACATGGT
*
32234926 AAAAAGTATCGATACTTTTTG
1 AAAAAGTATCGATAATTTTTG
*
32234947 AAAAGGTATCGATAATTTTTG
1 AAAAAGTATCGATAATTTTTG
32234968 TCATTGTTTG
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:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (21 bp):
AAAAAGTATCGATAATTTTTG
Found at i:32239482 original size:25 final size:23
Alignment explanation
Indices: 32239442--32239487 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
32239432 CCAATTTGGG
32239442 AATTATTGTTTAAATTTAATTCT
1 AATTATTGTTTAAATTTAATTCT
*
32239465 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTA-AATTTAATT
32239488 TAGAATTCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTGTTTAAATTTAATTCT
Found at i:32245746 original size:291 final size:292
Alignment explanation
Indices: 32245221--32245804 Score: 1125
Period size: 291 Copynumber: 2.0 Consensus size: 292
32245211 TCACTAATGA
32245221 TCTCAATTTGTAATTGCATATTTTAAGAATAAAATGGGATATCATGGTGGAAGTCATATATATGG
1 TCTCAATTTGTAATTGCATATTTTAAGAATAAAATGGGATATCATGGTGGAAGTCATATATATGG
* *
32245286 TCCATGCTGGTGGTATCACTTGGGGAGATGATCATTAAAGCTGATTATGTGGATGAAAAGGATGG
66 TCCATGCTGGTGGTATCACTTGAGGAGATGATCATTAAAGCTGATTATGAGGATGAAAAGGATGG
32245351 CTTGAAAAATTAACCAAATTTTATATAGATACCAAAACCAAGTAGGATTTATTTTTTCTTGACAT
131 CTTGAAAAATTAACCAAATTTTATATAGATACCAAAACCAAGTAGGATTTATTTTTTCTTGACAT
32245416 GGGTTGCATTGGTTTGAAGAAAATAAATAGTGGCATTGGTGAGAAAACTAACTTACTAGGATTTT
196 GGGTTGCATTGGTTTGAAGAAAATAAATAGTGGCATTGGTGAGAAAACTAACTTACTAGGATTTT
32245481 ACACAAAAAAGGTCCAGTATTTAGATGGGAAT
261 ACACAAAAAAGGTCCAGTATTTAGATGGGAAT
32245513 TCTCAATTTGTAATTGCATATTTTAAGAATAAAATGGGATATCATGGTGGAAGTCATATATATGG
1 TCTCAATTTGTAATTGCATATTTTAAGAATAAAATGGGATATCATGGTGGAAGTCATATATATGG
*
32245578 TCCATGCTGGTGGTATCACTT-AGGAGATGATCATTAAAGCTGATTATGAGGATGAGAAGGATGG
66 TCCATGCTGGTGGTATCACTTGAGGAGATGATCATTAAAGCTGATTATGAGGATGAAAAGGATGG
32245642 CTTGAAAAATTAACCAAATTTTATATAGATACCAAAACCAAGTAGGATTTATTTTTTCTTGACAT
131 CTTGAAAAATTAACCAAATTTTATATAGATACCAAAACCAAGTAGGATTTATTTTTTCTTGACAT
*
32245707 GGTTTGCATTGGTTTGAAGAAAATAAATAGTGGCATTGGTGAGAAAACTAACTTACTAGGATTTT
196 GGGTTGCATTGGTTTGAAGAAAATAAATAGTGGCATTGGTGAGAAAACTAACTTACTAGGATTTT
32245772 ACACAAAAAAGGTCCAGTATTTAGATGGGAAT
261 ACACAAAAAAGGTCCAGTATTTAGATGGGAAT
32245804 T
1 T
32245805 AAAAGAGTTG
Statistics
Matches: 288, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
291 202 0.70
292 86 0.30
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (292 bp):
TCTCAATTTGTAATTGCATATTTTAAGAATAAAATGGGATATCATGGTGGAAGTCATATATATGG
TCCATGCTGGTGGTATCACTTGAGGAGATGATCATTAAAGCTGATTATGAGGATGAAAAGGATGG
CTTGAAAAATTAACCAAATTTTATATAGATACCAAAACCAAGTAGGATTTATTTTTTCTTGACAT
GGGTTGCATTGGTTTGAAGAAAATAAATAGTGGCATTGGTGAGAAAACTAACTTACTAGGATTTT
ACACAAAAAAGGTCCAGTATTTAGATGGGAAT
Found at i:32250649 original size:21 final size:22
Alignment explanation
Indices: 32250625--32250665 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32250615 ACGTCATTGT
32250625 CAAAGA-TAAAATAA-AAGAATC
1 CAAAGATTAAAA-AAGAAGAATC
32250646 CAAAGATTAAAAAAGAAGAA
1 CAAAGATTAAAAAAGAAGAA
32250666 AAGAAATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (22 bp):
CAAAGATTAAAAAAGAAGAATC
Found at i:32253385 original size:2 final size:2
Alignment explanation
Indices: 32253373--32253402 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32253363 AGCAACAATC
*
32253373 TA TA AA 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
32253403 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:32253407 original size:2 final size:2
Alignment explanation
Indices: 32253402--32253430 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32253392 ATATATATAT
32253402 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32253431 TGTGTGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32255989 original size:4 final size:4
Alignment explanation
Indices: 32255975--32256008 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
32255965 ACTCATCAAA
32255975 TGTT T-TT TGTT TGTT TGTT TGTT TGTT TGTT TGT
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGT
32256009 ATCTGTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:32261309 original size:20 final size:20
Alignment explanation
Indices: 32261281--32261336 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
32261271 TCACGTCAAC
*
32261281 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
32261301 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
32261321 AAATTA--TTAAAATTAT
1 AAATTATTTTAAAATTAT
32261337 CATTTCCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
20 13 0.42
21 2 0.06
22 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:32261575 original size:17 final size:17
Alignment explanation
Indices: 32261555--32261634 Score: 90
Period size: 17 Copynumber: 4.6 Consensus size: 17
32261545 TTAAACTCAT
* *
32261555 TTTAAGTTTATTTTAAG
1 TTTAAATTTATTTTAAA
32261572 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
32261589 TTTAAATTTTGTTTTAAAA
1 TTTAAA-TTTATTTT-AAA
*
32261608 TTTAAATTTAAATTT-AA
1 TTTAAATTT-ATTTTAAA
32261625 TTTAAATTTA
1 TTTAAATTTA
32261635 GATTTATATA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
16 1 0.02
17 32 0.58
18 10 0.18
19 12 0.22
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:32261586 original size:11 final size:11
Alignment explanation
Indices: 32261555--32261654 Score: 58
Period size: 11 Copynumber: 8.5 Consensus size: 11
32261545 TTAAACTCAT
* *
32261555 TTTAAGTTTAT
1 TTTAAATTTAA
*
32261566 TTTAAGTTTAAA
1 TTTAAATTT-AA
*
32261578 TTT-ATTTTAAA
1 TTTAAATTT-AA
**
32261589 TTTAAATTTTGT
1 TTTAAA-TTTAA
32261601 TTTAAAATTTAAA
1 TTT-AAATTT-AA
32261614 TTTAAATTTAA
1 TTTAAATTTAA
32261625 TTTAAATTTAGA
1 TTTAAATTTA-A
* *
32261637 TTTATATATGAA
1 TTTAAAT-TTAA
32261649 TTTAAA
1 TTTAAA
32261655 ACTTATTATA
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
11 31 0.43
12 30 0.42
13 11 0.15
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:32261613 original size:7 final size:6
Alignment explanation
Indices: 32261566--32261654 Score: 74
Period size: 6 Copynumber: 15.0 Consensus size: 6
32261556 TTAAGTTTAT
* * ***
32261566 TTTAAG TTTAAA TTT-AT TTTAAA TTTAAA TTTTGT TTTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
* * * *
32261614 TTTAAA TTT-AA TTTAAA TTTAGA TTTATA TATGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
32261655 ACTTATTATA
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
5 9 0.14
6 52 0.81
7 3 0.05
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:32263417 original size:30 final size:28
Alignment explanation
Indices: 32263373--32263449 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
32263363 AAATTATCCA
*
32263373 AAAATTACA-ATTTGACCCAAAAACTTCCC
1 AAAATTACATTTTTGACCC--AAACTTCCC
* *
32263402 AAAATTACATTTTTGACCTCGAACTTTCC
1 AAAATTACATTTTTGACC-CAAACTTCCC
32263431 AAAATT-CTATTTTTGACCC
1 AAAATTAC-ATTTTTGACCC
32263450 CGATTTCACC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.05
29 32 0.76
30 7 0.17
31 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (28 bp):
AAAATTACATTTTTGACCCAAACTTCCC
Found at i:32263426 original size:29 final size:30
Alignment explanation
Indices: 32263394--32263483 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 30
32263384 TTGACCCAAA
*
32263394 AACTTCCCAAAATTAC-ATTTTTGACCTCG
1 AACTTCCCAAAATTACTATTTTTGACCCCG
*
32263423 AACTTTCCAAAATT-CTATTTTTGACCCCG
1 AACTTCCCAAAATTACTATTTTTGACCCCG
* *
32263452 -ATTTCACCAAAAATTACTA-TTTTGCCCCCG
1 AACTTC-CC-AAAATTACTATTTTTGACCCCG
32263482 AA
1 AA
32263484 TATCCAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.08
29 27 0.53
30 16 0.31
31 4 0.08
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (30 bp):
AACTTCCCAAAATTACTATTTTTGACCCCG
Found at i:32271391 original size:2 final size:2
Alignment explanation
Indices: 32271384--32271428 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
32271374 AAGACATACG
* * *
32271384 TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32271426 TA T
1 TA T
32271429 TTTTTGTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (2 bp):
TA
Found at i:32278615 original size:16 final size:17
Alignment explanation
Indices: 32278591--32278632 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
32278581 TTATCATTTA
32278591 TTAAAT-AAAAATTATC
1 TTAAATAAAAAATTATC
*
32278607 TTAATTAAAAAATTAT-
1 TTAAATAAAAAATTATC
*
32278623 TTCAATAAAA
1 TTAAATAAAA
32278633 TGATTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAATAAAAAATTATC
Found at i:32278678 original size:14 final size:14
Alignment explanation
Indices: 32278659--32278706 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
32278649 GAAAAAAATC
32278659 TATTAATCATATTT
1 TATTAATCATATTT
*
32278673 TATTAAATGAAAATATTT
1 TATT-AAT---CATATTT
32278691 TATTAATCATATTT
1 TATTAATCATATTT
32278705 TA
1 TA
32278707 ATCGTATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.43
15 3 0.11
17 3 0.11
18 10 0.36
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (14 bp):
TATTAATCATATTT
Found at i:32279179 original size:13 final size:13
Alignment explanation
Indices: 32279156--32279218 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
32279146 TTAGCATTGT
*
32279156 TTTTGATAAGTGC
1 TTTTGAAAAGTGC
* *
32279169 TTTTAAAAAGTGT
1 TTTTGAAAAGTGC
*
32279182 TTTTGAAAAGTGA
1 TTTTGAAAAGTGC
*
32279195 TTTTGAAAAGTAC
1 TTTTGAAAAGTGC
32279208 TTTTGAAAAGT
1 TTTTGAAAAGT
32279219 TTGGTTTAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:32281182 original size:97 final size:97
Alignment explanation
Indices: 32281081--32281264 Score: 253
Period size: 97 Copynumber: 1.9 Consensus size: 97
32281071 GCTCTAGAAA
* * ** *
32281081 AAATTGTGTTCACATTCTATTTTTATGTCATTTGTTATTTTAATATTTATTTC-CCTTTAAAAAA
1 AAATTGTGTTCACATTCTA-TCTTATGCCATTTGAAATTTTAATATCTATTTCTCCTTTAAAAAA
32281145 TTTCATGTATATATTTATTTCATGCTTTTAAAG
65 TTTCATGTATATATTTATTTCATGCTTTTAAAG
* * * * * *
32281178 AAATTGTGTTCACATTGTATCTTATGCCATTTGAAATTTTGATATCTATTTCTCTTTTTAATAGT
1 AAATTGTGTTCACATTCTATCTTATGCCATTTGAAATTTTAATATCTATTTCTCCTTTAAAAAAT
32281243 TTCATGTATATATTTATTTCAT
66 TTCATGTATATATTTATTTCAT
32281265 AAATTTTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 27 0.36
97 48 0.64
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (97 bp):
AAATTGTGTTCACATTCTATCTTATGCCATTTGAAATTTTAATATCTATTTCTCCTTTAAAAAAT
TTCATGTATATATTTATTTCATGCTTTTAAAG
Found at i:32282949 original size:21 final size:21
Alignment explanation
Indices: 32282925--32282964 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32282915 TTTATCAACA
*
32282925 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
32282946 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
32282965 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:32284257 original size:4 final size:4
Alignment explanation
Indices: 32284229--32284274 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
32284219 CCCGCCTTAT
32284229 TTTA TCTTA TTTA --TA TTCTA TTTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA T-TTA TTTA TTTA TT-TA -TTTA TTTA TTTA TTTA TTTA TTTA T
32284275 CCATCTTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 2 0.05
4 25 0.68
5 8 0.22
6 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:32294029 original size:5 final size:5
Alignment explanation
Indices: 32294019--32294044 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32294009 GGTGACAAGG
32294019 CTAGC CTAGC CTAGC CTAGC CTAGC C
1 CTAGC CTAGC CTAGC CTAGC CTAGC C
32294045 ATGGAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (5 bp):
CTAGC
Found at i:32296009 original size:9 final size:9
Alignment explanation
Indices: 32295991--32296077 Score: 59
Period size: 9 Copynumber: 10.3 Consensus size: 9
32295981 GTCAGCAAAT
32295991 AATT-TTAA
1 AATTATTAA
32295999 AATTATTAA
1 AATTATTAA
32296008 AATTATT--
1 AATTATTAA
32296015 --TT-TTAA
1 AATTATTAA
32296021 AA-TA-TAA
1 AATTATTAA
32296028 AATTATTAA
1 AATTATTAA
*
32296037 AATTATTTTTA
1 AATTA--TTAA
32296048 AATTAATTTAA
1 AATT-A-TTAA
32296059 AA-TA-TAA
1 AATTATTAA
32296066 AATTATTAA
1 AATTATTAA
32296075 AAT
1 AAT
32296078 AATCATCATT
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
7 11 0.17
8 8 0.12
9 26 0.41
10 1 0.02
11 13 0.20
12 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTATTAA
Found at i:32296015 original size:20 final size:18
Alignment explanation
Indices: 32295987--32296072 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 18
32295977 ACTCGTCAGC
*
32295987 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAA-TA-TA
32296007 AAATTATTTTTTAAAATATA
1 AAATTA--TTTTAAAATATA
*
32296027 AAATTA--TTAAAATTATTTTT
1 AAATTATTTTAAAA-TA---TA
*
32296047 AAATTAATTTAAAATATA
1 AAATTATTTTAAAATATA
32296065 AAATTATT
1 AAATTATT
32296073 AAAATAATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
16 6 0.11
17 2 0.04
18 8 0.15
20 20 0.37
21 4 0.07
22 14 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATTATTTTAAAATATA
Found at i:32296038 original size:29 final size:30
Alignment explanation
Indices: 32295987--32296072 Score: 106
Period size: 29 Copynumber: 2.9 Consensus size: 30
32295977 ACTCGTCAGC
*
32295987 AAATAATTTTAAAATTATTAAAATTATTTTT
1 AAATAA-TATAAAATTATTAAAATTATTTTT
*
32296018 TAA-AATATAAAATTATTAAAATTATTTTT
1 AAATAATATAAAATTATTAAAATTATTTTT
*
32296047 AAATTAATTTAAAA-TA-TAAAATTATT
1 AAA-TAATATAAAATTATTAAAATTATT
32296073 AAAATAATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
29 35 0.71
30 4 0.08
31 10 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATAATATAAAATTATTAAAATTATTTTT
Found at i:32296133 original size:7 final size:7
Alignment explanation
Indices: 32296116--32296163 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
32296106 TTTTCTGTTA
32296116 CCCTT-C
1 CCCTTCC
32296122 CCCTTCC
1 CCCTTCC
32296129 CCCTTCC
1 CCCTTCC
32296136 CCCTTCC
1 CCCTTCC
*
32296143 CCCAT-C
1 CCCTTCC
*
32296149 CCTTTCC
1 CCCTTCC
*
32296156 CCTTTCC
1 CCCTTCC
32296163 C
1 C
32296164 TTCTATTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 9 0.24
7 28 0.76
ACGTcount: A:0.02, C:0.67, G:0.00, T:0.31
Consensus pattern (7 bp):
CCCTTCC
Found at i:32296134 original size:13 final size:13
Alignment explanation
Indices: 32296116--32296163 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
32296106 TTTTCTGTTA
32296116 CCCTTCCCCTTCC
1 CCCTTCCCCTTCC
32296129 CCCTTCCCCCTTCC
1 CCCTT-CCCCTTCC
* *
32296143 CCCATCCCTTTCC
1 CCCTTCCCCTTCC
*
32296156 CCTTTCCC
1 CCCTTCCC
32296164 TTCTATTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.60
14 12 0.40
ACGTcount: A:0.02, C:0.67, G:0.00, T:0.31
Consensus pattern (13 bp):
CCCTTCCCCTTCC
Found at i:32296806 original size:20 final size:21
Alignment explanation
Indices: 32296772--32296813 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
32296762 CATCAAGGAA
32296772 GGGAAAAGAGAAAAGGGAAGG
1 GGGAAAAGAGAAAAGGGAAGG
*
32296793 GGGAAAGGAG-AAAGGGAAGG
1 GGGAAAAGAGAAAAGGGAAGG
32296813 G
1 G
32296814 TAACAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (21 bp):
GGGAAAAGAGAAAAGGGAAGG
Found at i:32300963 original size:7 final size:7
Alignment explanation
Indices: 32300942--32300979 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
32300932 CCTCATCTTA
*
32300942 AATTCTC
1 AATTTTC
*
32300949 AATCTTC
1 AATTTTC
32300956 AATTTTC
1 AATTTTC
32300963 AATTTTC
1 AATTTTC
32300970 AATTTTC
1 AATTTTC
32300977 AAT
1 AAT
32300980 CCTCAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (7 bp):
AATTTTC
Found at i:32300985 original size:14 final size:14
Alignment explanation
Indices: 32300936--32300987 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
32300926 CTCATTCCTC
* *
32300936 ATCTTAAATTCTCA
1 ATCTTCAATTTTCA
32300950 ATCTTCAATTTTCA
1 ATCTTCAATTTTCA
*
32300964 ATTTTCAATTTTCA
1 ATCTTCAATTTTCA
*
32300978 ATCCTCAATT
1 ATCTTCAATT
32300988 ATTTTCTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (14 bp):
ATCTTCAATTTTCA
Found at i:32317287 original size:6 final size:6
Alignment explanation
Indices: 32317277--32317352 Score: 143
Period size: 6 Copynumber: 12.7 Consensus size: 6
32317267 GCCATAGAAA
*
32317277 CACATA CACATG CACATG CACATG CACATG CACATG CACATG CACATG
1 CACATG CACATG CACATG CACATG CACATG CACATG CACATG CACATG
32317325 CACATG CACATG CACATG CACATG CACA
1 CACATG CACATG CACATG CACATG CACA
32317353 CAACGCACAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.36, C:0.34, G:0.14, T:0.16
Consensus pattern (6 bp):
CACATG
Found at i:32321211 original size:23 final size:22
Alignment explanation
Indices: 32321160--32321211 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
32321150 GAGGGGCCAA
* *
32321160 AATT-AAATTGTAATTTTTATG
1 AATTAAAAATGTAATTTTTAAG
*
32321181 ATAGTAAAAATGTAATTTTTAAAG
1 A-ATTAAAAATGTAATTTTT-AAG
32321205 AATTAAA
1 AATTAAA
32321212 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 2 0.08
23 18 0.75
24 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
AATTAAAAATGTAATTTTTAAG
Found at i:32322871 original size:12 final size:12
Alignment explanation
Indices: 32322854--32322885 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
32322844 ATTTTATACA
32322854 AAAATAAAAATG
1 AAAATAAAAATG
32322866 AAAATAAAAATG
1 AAAATAAAAATG
32322878 AAAATAAA
1 AAAATAAA
32322886 TATTAGCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:32326455 original size:164 final size:162
Alignment explanation
Indices: 32326149--32326475 Score: 510
Period size: 164 Copynumber: 2.0 Consensus size: 162
32326139 GAAAATATGG
* * * * *
32326149 ACATCAGATATACAATAAGAGTAATTTCATGTTATTATTTACTATCATAATAGGTTAGCCCAAAT
1 ACATCACATATACAATAACAATAATTACATGTTATTATTTACTATCATAATAGATTAGCCCAAAT
* *
32326214 TAAAAGGATCTAATTTGGTTAAGGTGATTGAGCTTTAATTATTAAATAAAGTATGGGTCAAATAT
66 TAAAAGGATCTAAATTGGTTAAGGTGATTGAGCTTTAATTATTAAATAAAGTATGAGTCAAATAT
*
32326279 GTGTAGATACTCTAGTAATTAATTTCTAATTA
131 GTGTAGATACTCTAGTAACTAATTTCTAATTA
*
32326311 ACATCACATATATAATAACAATAATTACATGTTATTATTTACTATCATAATAGATTAGCCCAAAT
1 ACATCACATATACAATAACAATAATTACATGTTATTATTTACTATCATAATAGATTAGCCCAAAT
* * * * *
32326376 TAAAAGTGATCTAAATTGGTTAAGATTTATTGGGTTTTAATTATTAAATGAAGTATGAGTCAAAT
66 TAAAAG-GATCTAAATTGGTTAAG-GTGATTGAGCTTTAATTATTAAATAAAGTATGAGTCAAAT
32326441 ATGTGTAGATACTCTAGTAACTAATTTCTAATTA
129 ATGTGTAGATACTCTAGTAACTAATTTCTAATTA
32326475 A
1 A
32326476 TGATGGGCTA
Statistics
Matches: 149, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
162 65 0.44
163 16 0.11
164 68 0.46
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (162 bp):
ACATCACATATACAATAACAATAATTACATGTTATTATTTACTATCATAATAGATTAGCCCAAAT
TAAAAGGATCTAAATTGGTTAAGGTGATTGAGCTTTAATTATTAAATAAAGTATGAGTCAAATAT
GTGTAGATACTCTAGTAACTAATTTCTAATTA
Found at i:32333945 original size:6 final size:6
Alignment explanation
Indices: 32333928--32333980 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
32333918 TATTTAAAAG
* *
32333928 TTTAAA -TT-AA TTTTAA TTTAAT TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
32333973 TTTAAA TT
1 TTTAAA TT
32333981 CACTTATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
4 4 0.10
5 6 0.15
6 27 0.69
7 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:32333951 original size:29 final size:28
Alignment explanation
Indices: 32333909--32333977 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
32333899 GGGCCTAGGC
* *
32333909 TTTTGATTTTATTTAAAAGTTTAAATTAA
1 TTTTAATTTAATTTAAAA-TTTAAATTAA
* *
32333938 TTTTAATTTAATTTTAAATTTAAATTTA
1 TTTTAATTTAATTTAAAATTTAAATTAA
*
32333966 TCTTAAATTTAA
1 T-TTTAATTTAA
32333978 ATTCACTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTAATTTAATTTAAAATTTAAATTAA
Found at i:32333978 original size:17 final size:18
Alignment explanation
Indices: 32333936--32333980 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
32333926 AGTTTAAATT
* *
32333936 AATTTTAATTTAATTTTA
1 AATTTAAATTTAATCTTA
32333954 AATTTAAATTT-ATCTTA
1 AATTTAAATTTAATCTTA
32333971 AATTTAAATT
1 AATTTAAATT
32333981 CACTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTAAATTTAATCTTA
Found at i:32335856 original size:30 final size:30
Alignment explanation
Indices: 32335803--32336291 Score: 496
Period size: 30 Copynumber: 16.4 Consensus size: 30
32335793 AGTTATCCAG
* * *
32335803 AAATTACATTTT-AACCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
*
32335832 AAATTACATTTTGACCCCAAAACTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
* * * * *
32335862 AAATTATATTTTGATCCCGAAACTTTTTTGA
1 AAATTACATTTTGACCCCAAAAC-TTTCTCA
*
32335893 AAATTACATTTTAACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* * *
32335923 AAATTATATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
*
32335953 AAATTACA-TTTGACCCTAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
*
32335982 AAATTACATTTTGACCCCAAAACTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
*
32336012 AAATTACATTTTGATCCCAAAACTTTCT-A
1 AAATTACATTTTGACCCCAAAACTTTCTCA
*
32336041 AAATTACATTTTAACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* * *
32336071 AAATTATATTTTGACCCTAAAAC-TTCCCA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
* * * * *
32336100 AAATTATATTTTGATCTCGAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
*
32336130 AAATTACATTTTAACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* * *
32336160 AAATTATATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
*
32336190 AAATTACATTTTAACCCCAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* * *
32336220 AAATTACATTTTAACTCTAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTCT-CA
* * * *
32336250 AAATTATACTTTGACCCCGAAACTTTC-AA
1 AAATTACATTTTGACCCCAAAACTTTCTCA
32336279 AAATTACCATTTT
1 AAATTA-CATTTT
32336292 TATTCCCCAT
Statistics
Matches: 382, Mismatches: 62, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
28 2 0.01
29 96 0.25
30 259 0.68
31 25 0.07
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTCTCA
Found at i:32336015 original size:89 final size:90
Alignment explanation
Indices: 32335798--32336291 Score: 579
Period size: 89 Copynumber: 5.5 Consensus size: 90
32335788 CCCTAAGTTA
* * * **
32335798 TCCAGAAATTACATTTT-AACCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTTCCCA
1 TCCA-AAATTACATTTTGACCCCAAAACTTTCCAAAAATTACATTTTGACCCCAAAACTTTCTAA
* * * *
32335862 AAATTATATTTTGATCCCGAAACTTTT
65 AAATTACATTTTAACCCCAAAAC-TTT
** * * *
32335889 TTGAAAATTACATTTTAACCCCAAAACTTTTCC-AAAATTATATTTTGACCCTAAAACTTTCTAA
1 TCCAAAATTACATTTTGACCCCAAAAC-TTTCCAAAAATTACATTTTGACCCCAAAACTTTCTAA
* *
32335953 AAATTACA-TTTGACCCTAAAACTTT
65 AAATTACATTTTAACCCCAAAACTTT
* *
32335978 TCCAAAATTACATTTTGACCCCAAAACTTTCCCAAAATTACATTTTGATCCCAAAACTTTCT-AA
1 TCCAAAATTACATTTTGACCCCAAAACTTTCCAAAAATTACATTTTGACCCCAAAACTTTCTAAA
32336042 AATTACATTTTAACCCCAAAACTTT
66 AATTACATTTTAACCCCAAAACTTT
* * * * * * *
32336067 TCCAAAATTATATTTTGACCCTAAAAC-TTCCCAAAATTATATTTTGATCTCGAAACTTTCTAAA
1 TCCAAAATTACATTTTGACCCCAAAACTTTCCAAAAATTACATTTTGACCCCAAAACTTTCTAAA
32336131 AATTACATTTTAACCCCAAAACTTT
66 AATTACATTTTAACCCCAAAACTTT
* * * * *
32336156 TCCAAAATTATATTTTGACCCTAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTT-TCCA
1 TCCAAAATTACATTTTGACCCCAAAACTTTCCAAAAATTACATTTTGACCCCAAAACTTTCT-AA
* *
32336220 AAATTACATTTTAACTCTAAAACTTT
65 AAATTACATTTTAACCCCAAAACTTT
* * *
32336246 TCCAAAATTATACTTTGACCCCGAAACTTT-CAAAAATTACCATTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTTCCAAAAATTA-CATTTT
32336292 TATTCCCCAT
Statistics
Matches: 355, Mismatches: 40, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
88 45 0.13
89 156 0.44
90 106 0.30
91 44 0.12
92 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (90 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTCCAAAAATTACATTTTGACCCCAAAACTTTCTAAA
AATTACATTTTAACCCCAAAACTTT
Found at i:32336290 original size:60 final size:59
Alignment explanation
Indices: 32335798--32336291 Score: 534
Period size: 59 Copynumber: 8.3 Consensus size: 59
32335788 CCCTAAGTTA
*
32335798 TCCAGAAATTACATTTT-AACCTAAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCTAAAACTTTC-AAAAATTACATTTTGACCCCAAAACTTT
* * * ** *
32335858 CCCAAAATTATATTTTGATCCC-GAAACTTTTTTGAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGA-CCCTAAAAC--TTTCAAAAATTACATTTTGACCCCAAAACTTT
* *
32335919 TCCAAAATTATATTTTGACCCTAAAACTTTCTAAAAATTACA-TTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTTC-AAAAATTACATTTTGACCCCAAAACTTT
* * *
32335978 TCCAAAATTACATTTTGACCCCAAAACTTTCCCAAAATTACATTTTGATCCCAAAAC-TT
1 TCCAAAATTACATTTTGACCCTAAAACTTT-CAAAAATTACATTTTGACCCCAAAACTTT
* * * * * *
32336037 TCTAAAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTGACCCTAAAAC-TT
1 TCCAAAATTACATTTTGACCCTAAAAC-TTTCAAAAATTACATTTTGACCCCAAAACTTT
* * * * *
32336096 CCCAAAATTATATTTTGA-TCTCGAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCT-AAAACTTTC-AAAAATTACATTTTGACCCCAAAACTTT
* *
32336156 TCCAAAATTATATTTTGACCCTAAAACTTTCTAAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTTC-AAAAATTACATTTTGACCCCAAAACTTT
* * * * * *
32336216 TCCAAAATTACATTTTAACTCTAAAACTTTTCCAAAATTATACTTTGACCCCGAAAC-TT
1 TCCAAAATTACATTTTGACCCTAAAAC-TTTCAAAAATTACATTTTGACCCCAAAACTTT
*
32336275 TCAAAAATTACCATTTT
1 TCCAAAATTA-CATTTT
32336292 TATTCCCCAT
Statistics
Matches: 373, Mismatches: 46, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.01
59 168 0.45
60 142 0.38
61 55 0.15
62 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (59 bp):
TCCAAAATTACATTTTGACCCTAAAACTTTCAAAAATTACATTTTGACCCCAAAACTTT
Found at i:32348164 original size:68 final size:68
Alignment explanation
Indices: 32348055--32348663 Score: 1083
Period size: 68 Copynumber: 9.0 Consensus size: 68
32348045 GATCATTTCC
*
32348055 CATCCCCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32348120 CGT
66 CGT
*
32348123 CATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
32348188 CAT
66 CGT
32348191 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
32348256 TGT
66 CGT
*
32348259 CATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32348324 CGT
66 CGT
*
32348327 CATCCTCTTGAAGTTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32348392 CGT
66 CGT
* *
32348395 CATCCTCTTAAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32348460 CGT
66 CGT
* * *
32348463 CATCCTCTTGAAGTTAAAGTTGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
32348528 TGT
66 CGT
*
32348531 CATCCTCTTGAAGTTGAAGTAGAGTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32348596 CGT
66 CGT
* *
32348599 CATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
32348664 GATCATTTCC
Statistics
Matches: 516, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 516 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (68 bp):
CATCCTCTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGT
Found at i:32348738 original size:78 final size:75
Alignment explanation
Indices: 32348603--32348744 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 75
32348593 CAACGTCATC
* * *
32348603 CTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAGATC
1 CTCTTGAAATTGAAGTAGAGTGGATAACAAGCCTTTACCTCTGAAATTGAAGTAAGAGCAAGATC
32348668 ATTTCCTATT
66 ATTTCCTATT
* * *
32348678 CTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGCCCCTCTGAAATTGAAGTAAGAGTAAG
1 CTCTTGAAATTGAAGTAGAG-TGGATAACAAGCCTTT--ACCTCTGAAATTGAAGTAAGAGCAAG
32348743 AT
63 AT
32348745 GAAACACCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 20 0.34
76 13 0.22
78 25 0.43
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (75 bp):
CTCTTGAAATTGAAGTAGAGTGGATAACAAGCCTTTACCTCTGAAATTGAAGTAAGAGCAAGATC
ATTTCCTATT
Found at i:32349061 original size:6 final size:6
Alignment explanation
Indices: 32349044--32349096 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
32349034 TATTTAAAAG
* *
32349044 TTTAAA -TT-AA TTTTAA TTTAAT TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
32349089 TTTAAA TT
1 TTTAAA TT
32349097 CACTTATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
4 4 0.10
5 6 0.15
6 27 0.69
7 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:32349067 original size:29 final size:28
Alignment explanation
Indices: 32349025--32349093 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
32349015 GGGCCTAGGC
* *
32349025 TTTTGATTTTATTTAAAAGTTTAAATTAA
1 TTTTAATTTAATTTAAAA-TTTAAATTAA
* *
32349054 TTTTAATTTAATTTTAAATTTAAATTTA
1 TTTTAATTTAATTTAAAATTTAAATTAA
*
32349082 TCTTAAATTTAA
1 T-TTTAATTTAA
32349094 ATTCACTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTTAATTTAATTTAAAATTTAAATTAA
Found at i:32349094 original size:17 final size:18
Alignment explanation
Indices: 32349052--32349096 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
32349042 AGTTTAAATT
* *
32349052 AATTTTAATTTAATTTTA
1 AATTTAAATTTAATCTTA
32349070 AATTTAAATTT-ATCTTA
1 AATTTAAATTTAATCTTA
32349087 AATTTAAATT
1 AATTTAAATT
32349097 CACTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTAAATTTAATCTTA
Found at i:32350974 original size:30 final size:30
Alignment explanation
Indices: 32350940--32351430 Score: 470
Period size: 30 Copynumber: 16.4 Consensus size: 30
32350930 AGTTATCCAG
* ***
32350940 AAATTACATTTTAACCCCAAAACTTTTTGA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
32350970 AAATTACATTTTGACCCCAAAACTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * **
32351000 AAATTATATTTTTGACCCTAAAACTTTCTAA
1 AAATTACA-TTTTGACCCCAAAACTTTCCCA
* **
32351031 AAATTACATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
** *
32351061 AAATTGTATTTTGACCCTAAAAC-TTCCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * **
32351090 AAATTATATTTTGATCCCAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * *
32351120 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
*
32351150 AAATTATATTTTGACCCCAAAACTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * * * ***
32351180 AAATTATATTTTGATCTCGAAACTTTTTGA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* *
32351210 AAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * * **
32351240 AAATTATATTTTAACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
*
32351270 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * *
32351300 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * *
32351330 AAATTACATTTTAACTCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
* * * *
32351360 AAATTATACTTTGACCCCGAAACTTT-CAA
1 AAATTACATTTTGACCCCAAAACTTTCCCA
*
32351389 AAATTACCATTTTTATTCCCC-AAACTTT-CC-
1 AAATTA-CATTTTGA--CCCCAAAACTTTCCCA
*
32351419 AAATTCCATTTT
1 AAATTACATTTT
32351431 TAGCCCCGAT
Statistics
Matches: 388, Mismatches: 68, Indels: 11
0.83 0.15 0.02
Matches are distributed among these distances:
29 38 0.10
30 312 0.80
31 34 0.09
32 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTCCCA
Found at i:32351183 original size:60 final size:60
Alignment explanation
Indices: 32350940--32351418 Score: 520
Period size: 60 Copynumber: 8.0 Consensus size: 60
32350930 AGTTATCCAG
* * **
32350940 AAATTACATTTTAACCCCAAAACTTTTTGAAAATTACATTTTGACCCCAAAACTTTCCCA
1 AAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCCA
* * * **
32351000 AAATTATATTTTTGACCCTAAAAC-TTTCTAAAAATTACATTTTGACCCTAAAACTTTCTAA
1 AAATTATA-TTTTAACCCTAAAACTTTTC-CAAAATTACATTTTGACCCCAAAACTTTCCCA
* * * * * **
32351061 AAATTGTATTTTGACCCTAAAAC-TTCCCAAAATTATATTTTGATCCCAAAACTTTCTAA
1 AAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCCA
* *
32351120 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCA
1 AAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCCA
* * * ** * *
32351180 AAATTATATTTTGA-TCTCGAAACTTTTTGAAAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTATATTTTAACCCT-AAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCCA
* *
32351240 AAATTATATTTTAACCCTAAAAC-TTTCTAAAAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTATATTTTAACCCTAAAACTTTTC-CAAAATTACATTTTGACCCCAAAACTTTCCCA
* * * *
32351300 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACTCCAAAACTTTTCCA
1 AAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCCA
* * ** * *
32351360 AAATTATACTTTGACCCCGAAAC-TTTCAAAAATTACCATTTTTATTCCCC-AAACTTTCC
1 AAATTATATTTTAACCCTAAAACTTTTCCAAAATTA-CATTTTGA--CCCCAAAACTTTCC
32351419 AAATTCCATT
Statistics
Matches: 360, Mismatches: 49, Indels: 19
0.84 0.11 0.04
Matches are distributed among these distances:
59 64 0.18
60 231 0.64
61 62 0.17
62 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (60 bp):
AAATTATATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCCA
Found at i:32351189 original size:90 final size:90
Alignment explanation
Indices: 32350940--32351401 Score: 608
Period size: 90 Copynumber: 5.1 Consensus size: 90
32350930 AGTTATCCAG
* ** *
32350940 AAATTACATTTTAACCCCAAAACTTTTTGAAAATTACATTTTGACCCCAAAACTTTCCCAAAATT
1 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATT
*
32351005 ATATTTTTGACCCTAAAACTTTCTAA
66 ATA-TTTTGACCCCAAAACTTTCTAA
* * * *
32351031 AAATTACATTTTGACCCTAAAAC-TTTCTAAAAATTGTATTTTGACCCTAAAAC-TTCCCAAAAT
1 AAATTACATTTTAACCCTAAAACTTTTC-CAAAATTATATTTTGACCCCAAAACTTTCCCAAAAT
*
32351094 TATATTTTGATCCCAAAACTTTCTAA
65 TATATTTTGACCCCAAAACTTTCTAA
32351120 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATT
1 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATT
* * * * *
32351185 ATATTTTGATCTCGAAACTTTTTGA
66 ATATTTTGACCCCAAAACTTTCTAA
* * * **
32351210 AAATTACATTTTAACCCCAAAACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATT
1 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATT
* *
32351275 ACATTTTGACCCCAAAACTTT-TCCA
66 ATATTTTGACCCCAAAACTTTCT-AA
* * * *
32351300 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTAACTCCAAAACTTTTCCAAAATT
1 AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATT
* *
32351365 ATACTTTGACCCCGAAACTTTC-AA
66 ATATTTTGACCCCAAAACTTTCTAA
32351389 AAATTACCATTTT
1 AAATTA-CATTTT
32351402 TATTCCCCAA
Statistics
Matches: 327, Mismatches: 38, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
89 72 0.22
90 213 0.65
91 42 0.13
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.37
Consensus pattern (90 bp):
AAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTCCCAAAATT
ATATTTTGACCCCAAAACTTTCTAA
Found at i:32351416 original size:31 final size:30
Alignment explanation
Indices: 32351374--32351432 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 30
32351364 TATACTTTGA
32351374 CCCCGAAACTTTCAAAAATTACCATTTTTATT
1 CCCCGAAACTTTC-AAAATT-CCATTTTTATT
*
32351406 CCCC-AAACTTTCCAAATTCCATTTTTA
1 CCCCGAAACTTTCAAAATTCCATTTTTA
32351433 GCCCCGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 5 0.19
31 8 0.31
32 4 0.15
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.37
Consensus pattern (30 bp):
CCCCGAAACTTTCAAAATTCCATTTTTATT
Found at i:32359098 original size:12 final size:12
Alignment explanation
Indices: 32359081--32359144 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 12
32359071 TCATTAACGT
32359081 TGTTCGTGAACA
1 TGTTCGTGAACA
**
32359093 TGTTCGTTTA-A
1 TGTTCGTGAACA
*
32359104 TGTTCATGAACA
1 TGTTCGTGAACA
**
32359116 TGTTCGTTTA-A
1 TGTTCGTGAACA
*
32359127 TGTTCATGAACA
1 TGTTCGTGAACA
32359139 TGTTCG
1 TGTTCG
32359145 ATTAAGTTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
11 16 0.42
12 22 0.58
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.42
Consensus pattern (12 bp):
TGTTCGTGAACA
Found at i:32359157 original size:29 final size:23
Alignment explanation
Indices: 32359081--32359168 Score: 133
Period size: 23 Copynumber: 3.8 Consensus size: 23
32359071 TCATTAACGT
*
32359081 TGTTCGTGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGTTTAA
32359104 TGTTCATGAACATGTTCGTTTAA
1 TGTTCATGAACATGTTCGTTTAA
*
32359127 TGTTCATGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCGTTTAA
*
32359150 -GTTAAATGAACATGTTCGT
1 TGTT-CATGAACATGTTCGT
32359169 GAATATTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
22 3 0.05
23 57 0.95
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.41
Consensus pattern (23 bp):
TGTTCATGAACATGTTCGTTTAA
Found at i:32368866 original size:2 final size:2
Alignment explanation
Indices: 32368859--32368894 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32368849 AAGGAATGAG
32368859 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
32368895 TTAAAACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32369121 original size:25 final size:25
Alignment explanation
Indices: 32369093--32369143 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
32369083 TATAATTCAA
32369093 AGAACAATAATAAAGTGAAAGAATG
1 AGAACAATAATAAAGTGAAAGAATG
*
32369118 AGAACAATAATAAATTGAAAGAATG
1 AGAACAATAATAAAGTGAAAGAATG
32369143 A
1 A
32369144 AAAATGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.61, C:0.04, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAACAATAATAAAGTGAAAGAATG
Found at i:32380462 original size:59 final size:59
Alignment explanation
Indices: 32380399--32380582 Score: 314
Period size: 59 Copynumber: 3.1 Consensus size: 59
32380389 ACCCGAGGGC
* *
32380399 AAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTGGAGAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
* *
32380458 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
* *
32380517 AAAATGGTAATTTTTGGTAAAATCTGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
32380576 AAAATGG
1 AAAATGG
32380583 CAGCCCGACA
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 117 1.00
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:32380562 original size:29 final size:31
Alignment explanation
Indices: 32380399--32380560 Score: 162
Period size: 30 Copynumber: 5.5 Consensus size: 31
32380389 ACCCGAGGGC
*
32380399 AAAATGGTAATTTTTGGTAAAATCGGGGTCA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
** *
32380430 AAAATGG-AA-TTTTGG-AGAGTTCGGGGGT-
1 AAAATGGTAATTTTTGGTA-AAATCGGGGTTA
*
32380458 AAAATGGTAATTTTTGGTGAAATCGGGGTTA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
* * *
32380489 AAAATGG-GA-TTTTGG-AAAGTTCGGGGGT-
1 AAAATGGTAATTTTTGGTAAA-ATCGGGGTTA
*
32380517 AAAATGGTAATTTTTGGTAAAATCTGGGTTA
1 AAAATGGTAATTTTTGGTAAAATCGGGGTTA
32380548 AAAATGG-AATTTT
1 AAAATGGTAATTTT
32380561 GGAAAGTTTG
Statistics
Matches: 105, Mismatches: 16, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
28 17 0.16
29 29 0.28
30 35 0.33
31 24 0.23
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (31 bp):
AAAATGGTAATTTTTGGTAAAATCGGGGTTA
Found at i:32380574 original size:118 final size:118
Alignment explanation
Indices: 32380358--32380582 Score: 335
Period size: 118 Copynumber: 1.9 Consensus size: 118
32380348 AAGAAACGAC
* *
32380358 GAAATCGGGGTTGAAAACGGGACTTTTGGATACCCGAGGGCAAAATGGTAATTTTTGGTAAAATC
1 GAAATCGGGGTTAAAAACGGGACTTTTGGAAACCCGAGGGCAAAATGGTAATTTTTGGTAAAATC
*
32380423 GGGGTCAAAAATGGAATTTTGGAGAGTTCGGGGGTAAAATGGTAATTTTTGGT
66 GGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* ** * *
32380476 GAAATCGGGGTTAAAAATGGGA-TTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTAAAAT
1 GAAATCGGGGTTAAAAACGGGACTTTTGGAAA-CCCGAGGGCAAAATGGTAATTTTTGGTAAAAT
* * *
32380540 CTGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGG
65 CGGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGG
32380583 CAGCCCGACA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 8 0.08
118 87 0.92
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (118 bp):
GAAATCGGGGTTAAAAACGGGACTTTTGGAAACCCGAGGGCAAAATGGTAATTTTTGGTAAAATC
GGGGTCAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
Found at i:32380578 original size:29 final size:29
Alignment explanation
Indices: 32380423--32380579 Score: 144
Period size: 30 Copynumber: 5.3 Consensus size: 29
32380413 TGGTAAAATC
*
32380423 GGGGTCAAAAATGGAATTTTGGAGAGTTCG
1 GGGGT-AAAAATGGAATTTTGGAAAGTTCG
32380453 GGGGT-AAAATGGTAATTTTTGGTGAAA--TCG
1 GGGGTAAAAATGG-AA-TTTT-G-GAAAGTTCG
* *
32380483 GGGTTAAAAATGGGATTTTGGAAAGTTCG
1 GGGGTAAAAATGGAATTTTGGAAAGTTCG
* *
32380512 GGGGT-AAAATGGTAATTTTTGGTAAA-ATCT
1 GGGGTAAAAATGG-AA-TTTTGG-AAAGTTCG
* *
32380542 GGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAAATGGAATTTTGGAAAGTTCG
32380571 GGGGTAAAA
1 GGGGTAAAA
32380580 TGGCAGCCCG
Statistics
Matches: 103, Mismatches: 12, Indels: 25
0.74 0.09 0.18
Matches are distributed among these distances:
27 4 0.04
28 18 0.17
29 29 0.28
30 31 0.30
31 18 0.17
32 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.33, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTGGAAAGTTCG
Found at i:32382488 original size:5 final size:5
Alignment explanation
Indices: 32382471--32382554 Score: 71
Period size: 5 Copynumber: 15.6 Consensus size: 5
32382461 TACAAATAAT
*
32382471 ATTAA ATTTAA ATTAA ATTCAA ACTGAA ATTAA ATTTAA A-TAA ATTTAA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA A-TTAA ATTAA A-TTAA
* *
32382520 ATTAA ATTAA ATTAAA ATTTAA AATAA ATTTA ATT
1 ATTAA ATTAA ATT-AA A-TTAA ATTAA ATTAA ATT
32382555 TCAAAGTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
4 4 0.06
5 33 0.50
6 26 0.39
7 3 0.05
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:32382516 original size:10 final size:11
Alignment explanation
Indices: 32382454--32382552 Score: 89
Period size: 11 Copynumber: 8.9 Consensus size: 11
32382444 ATTAGACATT
32382454 TTAAATTTACAA
1 TTAAATTTA-AA
*
32382466 AT-AATATTAAA
1 TTAAAT-TTAAA
32382477 TTTAAA-TTAAA
1 -TTAAATTTAAA
* *
32382488 TTCAAACTGAAA
1 TT-AAATTTAAA
32382500 TTAAATTTAAA
1 TTAAATTTAAA
32382511 -TAAATTTAAA
1 TTAAATTTAAA
32382521 TTAAA-TTAAA
1 TTAAATTTAAA
32382531 TTAAAATTTAAA
1 TT-AAATTTAAA
*
32382543 ATAAATTTAA
1 TTAAATTTAA
32382553 TTTCAAAGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
10 19 0.26
11 35 0.48
12 17 0.23
13 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:32382564 original size:17 final size:15
Alignment explanation
Indices: 32382497--32382566 Score: 68
Period size: 17 Copynumber: 4.3 Consensus size: 15
32382487 ATTCAAACTG
*
32382497 AAATTAAATTTAAAT
1 AAATTTAATTTAAAT
*
32382512 AAATTTAAATTAAATT
1 AAATTTAATTTAAA-T
*
32382528 AAATTAAAATTTAAAAT
1 AAATT-TAATTT-AAAT
32382545 AAATTTAATTTCAAAGT
1 AAATTTAATTT-AAA-T
32382562 AAATT
1 AAATT
32382567 CTAAAACGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
15 12 0.27
16 14 0.31
17 16 0.36
18 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (15 bp):
AAATTTAATTTAAAT
Found at i:32383010 original size:38 final size:38
Alignment explanation
Indices: 32382959--32383086 Score: 113
Period size: 38 Copynumber: 3.4 Consensus size: 38
32382949 CTATCCAACT
32382959 TTACTTCAATTTCAAGAGGATTGGAAACAATCTTGCTC
1 TTACTTCAATTTCAAGAGGATTGGAAACAATCTTGCTC
* * * *
32382997 TTACTTCAATTTC-AGA-GA-T-AAAGACGTAT-TATCCAAC
1 TTACTTCAATTTCAAGAGGATTGGAA-AC-AATCT-TGC-TC
* **
32383034 TTTACTTCAATTTCAAGAGGATGGGAAACGGTCTTGCTC
1 -TTACTTCAATTTCAAGAGGATTGGAAACAATCTTGCTC
32383073 TTACTTCAATTTCA
1 TTACTTCAATTTCA
32383087 GAGATAAAGA
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
34 2 0.03
35 4 0.06
36 6 0.09
37 4 0.06
38 40 0.57
39 4 0.06
40 5 0.07
41 3 0.04
42 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (38 bp):
TTACTTCAATTTCAAGAGGATTGGAAACAATCTTGCTC
Found at i:32383043 original size:76 final size:76
Alignment explanation
Indices: 32382915--32383667 Score: 1163
Period size: 76 Copynumber: 10.0 Consensus size: 76
32382905 GCTTCGTCTA
* * *
32382915 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
* **
32382980 TGGAAACAATCTT
64 AGGAAATGATCTT
* * *
32382993 GCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCAACTTTACTTCAATTTCAAGAGGATGG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
32383058 GAAACGGTCTT
66 GAAATGATCTT
*
32383069 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAATAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383134 GAAATGATCTT
66 GAAATGATCTT
32383145 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383210 GAAATGATCTT
66 GAAATGATCTT
* *
32383221 GCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383286 GAAATGATCTT
66 GAAATGATCTT
* *
32383297 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTA---C---TTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
*
32383356 AAAATGATCTT
66 GAAATGATCTT
* * *
32383367 GCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCATCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383432 GAAATGATCTT
66 GAAATGATCTT
32383443 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383508 GAAATGATCTT
66 GAAATGATCTT
* * *
32383519 GCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTCTA---C---TTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383578 GAAATGA-CGTT
66 GAAATGATC-TT
* *
32383589 GCTCTTACTTCAATTTTAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383654 GAAATGATCTT
66 GAAATGATCTT
32383665 GCT
1 GCT
32383668 GCGGTCTGAT
Statistics
Matches: 628, Mismatches: 33, Indels: 30
0.91 0.05 0.04
Matches are distributed among these distances:
69 1 0.00
70 127 0.20
73 4 0.01
76 478 0.76
77 1 0.00
78 17 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (76 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATGATCTT
Found at i:32383468 original size:222 final size:222
Alignment explanation
Indices: 32382915--32383667 Score: 1220
Period size: 222 Copynumber: 3.4 Consensus size: 222
32382905 GCTTCGTCTA
* * *
32382915 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTC--AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
* ** * *
32382980 TGGAAACAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCAACTTTACTTCAAT
64 AGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAAT
* * * *
32383045 TTCAAGAGGATGGGAAACGGTCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAAC
129 TTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAAC
*
32383110 TCTACTTCAATTTCAATAGGATAGGAAATGATCTT
194 TCTACTTCAA--GC----GGATAGGAAATGATCTT
32383145 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
32383210 GAAATGATCTTGCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTT
66 GAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTT
32383275 CAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
131 CAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
*
32383340 TACTTCAAGCGGATAGAAAATGATCTT
196 TACTTCAAGCGGATAGGAAATGATCTT
* * *
32383367 GCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCATCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383432 GAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTT
66 GAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTT
*
32383497 CAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAGAGACTTGTTATCCAACTC
131 CAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
32383562 TACTTCAAGCGGATAGGAAATGA-CGTT
196 TACTTCAAGCGGATAGGAAATGATC-TT
* *
32383589 GCTCTTACTTCAATTTTAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
32383654 GAAATGATCTTGCT
66 GAAATGATCTTGCT
32383668 GCGGTCTGAT
Statistics
Matches: 494, Mismatches: 28, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
221 1 0.00
222 303 0.61
226 1 0.00
228 172 0.35
230 17 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (222 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTT
CAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
TACTTCAAGCGGATAGGAAATGATCTT
Found at i:32389950 original size:30 final size:29
Alignment explanation
Indices: 32389911--32390432 Score: 485
Period size: 30 Copynumber: 17.5 Consensus size: 29
32389901 TTTAGGGAAG
* *
32389911 TTTGAGGGTAAAAATGGTAATTTTTGAAAGT
1 TTTG-GGGTCAAAAT-GTAATTTTGGAAAGT
* *
32389942 TTCGGGGT-AAAATATAATTTTTTTGGAAA-T
1 TTTGGGGTCAAAATGTAA---TTTTGGAAAGT
* * * *
32389972 TTTAGGGTCAAAATATGATTTTGGAAAAT
1 TTTGGGGTCAAAATGTAATTTTGGAAAGT
* *
32390001 TTT-GGGTTAAAATGTAATTTCTAGAAAGT
1 TTTGGGGTCAAAATGTAATTT-TGGAAAGT
*
32390030 TTTGGGGTCAAAATGTAATTTCTAGAAAGT
1 TTTGGGGTCAAAATGTAATTT-TGGAAAGT
* * *
32390060 TTTAGGGTTAAAATATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
** **
32390090 TTTAAGGTTGAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
*
32390120 TTTGGGGTCAAAATGTAATTTTGTAAAAGT
1 TTTGGGGTCAAAATGTAATTTTG-GAAAGT
* * *
32390150 TTT-AGGTTAAAATGTAATTTCTAGAAAGT
1 TTTGGGGTCAAAATGTAATTT-TGGAAAGT
*
32390179 TTTGGGGTCAAAATATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
* ***
32390209 TTTGGGGTTAAAATGTAATTTCCAAAAAGT
1 TTTGGGGTCAAAATGTAATTT-TGGAAAGT
**
32390239 TTTGGGGTCAAAAAATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
* *
32390269 TTTGAGGTCGAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
* *
32390299 TTTAGGGTCAAAATGTAATTTCTAGAAAGT
1 TTTGGGGTCAAAATGTAATTT-TGGAAAGT
* *
32390329 TTTGGGGTAAAAATATAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
**
32390359 TTTGGGGTTGAAATGTAATTTTGGAAAAGT
1 TTTGGGGTCAAAATGTAATTTTGG-AAAGT
* * *
32390389 TTTAGGGTTAAAATGTAATTTTTAGAAAGT
1 TTTGGGGTCAAAATGTAA-TTTTGGAAAGT
32390419 TTTGGGGTCAAAAT
1 TTTGGGGTCAAAAT
32390433 TGAATTTCTG
Statistics
Matches: 411, Mismatches: 63, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
28 26 0.06
29 47 0.11
30 312 0.76
31 26 0.06
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.39
Consensus pattern (29 bp):
TTTGGGGTCAAAATGTAATTTTGGAAAGT
Found at i:32390439 original size:90 final size:90
Alignment explanation
Indices: 32389922--32390432 Score: 617
Period size: 90 Copynumber: 5.7 Consensus size: 90
32389912 TTGAGGGTAA
* * * * * *
32389922 AAATGGTAATTTTTG-AAAGTTTCGGGGT-AAAATATAATTTTTTTGGAAA-TTTTAGGGTCAAA
1 AAAT-GTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAA--TTTCTAGAAAGTTTTGGGGTCAAA
* *
32389984 ATATGATTTTGGAAAA-TTTT-GGGTTA
63 ATATAATTTTGGAAAAGTTTTGGGGTTG
* * *
32390010 AAATGTAATTTCTAG-AAAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTAGGGTTAAAAT
1 AAATGTAATTT-TGGAAAAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGGGGTCAAAAT
**
32390074 ATAATTTTGGAAAAGTTTTAAGGTTG
65 ATAATTTTGGAAAAGTTTTGGGGTTG
* * *
32390100 AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTGTA-AAAGTTTT-AGGTTAAAAT
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAA-TTTCTAGAAAGTTTTGGGGTCAAAAT
* * **
32390163 GTAATTTCTAG-AAAGTTTTGGGGTCA
65 ATAATTT-TGGAAAAGTTTTGGGGTTG
* * * * *
32390189 AAATATAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTCCAAAAAGTTTTGGGGTCAAAAAA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGGGGTCAAAATA
* *
32390254 TAATTTTGGAAAAGTTTTGAGGTCG
66 TAATTTTGGAAAAGTTTTGGGGTTG
* *
32390279 AAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTCTAGAAAGTTTTGGGGTAAAAATA
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGGGGTCAAAATA
32390344 TAATTTTGGAAAAGTTTTGGGGTTG
66 TAATTTTGGAAAAGTTTTGGGGTTG
* * *
32390369 AAATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTTAGAAAGTTTTGGGGTCAAAAT
1 AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGGGGTCAAAAT
32390433 TGAATTTCTG
Statistics
Matches: 371, Mismatches: 41, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
87 15 0.04
88 49 0.13
89 86 0.23
90 216 0.58
91 5 0.01
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (90 bp):
AAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGGGGTCAAAATA
TAATTTTGGAAAAGTTTTGGGGTTG
Found at i:32392348 original size:17 final size:17
Alignment explanation
Indices: 32392326--32392386 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
32392316 TTTTATTATT
32392326 AATTTAAATTTTAATTA
1 AATTTAAATTTTAATTA
* **
32392343 AATTTAAATTTAAAGCA
1 AATTTAAATTTTAATTA
32392360 AATTTAAATTTTTACATTTA
1 AATTTAAA-TTTTA-A-TTA
32392380 AATTTAA
1 AATTTAA
32392387 CCATAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 22 0.63
18 4 0.11
19 1 0.03
20 8 0.23
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (17 bp):
AATTTAAATTTTAATTA
Found at i:32392349 original size:6 final size:6
Alignment explanation
Indices: 32392326--32392400 Score: 55
Period size: 6 Copynumber: 12.5 Consensus size: 6
32392316 TTTTATTATT
* **
32392326 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA--TTTA
* ***
32392374 CATTTA AATTTA ACCATA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AAT
32392401 CTTGTTCAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
5 7 0.14
6 39 0.76
8 5 0.10
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:32392784 original size:38 final size:37
Alignment explanation
Indices: 32392735--32393306 Score: 254
Period size: 38 Copynumber: 15.3 Consensus size: 37
32392725 CTATCCTACT
*
32392735 TTACTTCAATTTCAAGAAGATAGGAAATGATGTTGCTC
1 TTACTTCAATTTC-AGAAGATAGGAAATGATCTTGCTC
* * * ***
32392773 TTACTTCAATTTCAG-AGATAAAGACTAGTTATCCAACTC
1 TTACTTCAATTTCAGAAGAT-AGGA--AATGATCTTGCTC
* * *
32392812 -TACTTTAATTTCAAGAGGATAGGAAATGATTTTGCTC
1 TTACTTCAATTTC-AGAAGATAGGAAATGATCTTGCTC
* ** * * *
32392849 TTACTTCAATTTCAG-AGATAAAGACTTGAT-ATCCAAC
1 TTACTTCAATTTCAGAAGAT-AGGAAATGATCTTGC-TC
*
32392886 TCTACTTCAATTTC--AAG--AGGAAATGATCTTACTC
1 T-TACTTCAATTTCAGAAGATAGGAAATGATCTTGCTC
* ** **
32392920 TTACTTCAATTTCAG-AGATAAAGACTTGATATCCAGCT-
1 TTACTTCAATTTCAGAAGAT-AGGAAATG--ATCTTGCTC
* *
32392958 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
1 TTACTTCAATTTC-AGAAGATAGGAAATGATCTTGCTC
* ** * * *
32392996 TTACTTCAATTTCAG-AGATAAAGACTTGAT-ATCCAAC
1 TTACTTCAATTTCAGAAGAT-AGGAAATGATCTTGC-TC
* *
32393033 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTC-AGAAGATAGGAAATGATCTTGCTC
* ** * * *
32393071 TTACTTCAATTTCAG-AGATAAAGACTTG-TCATCCAAC
1 TTACTTCAATTTCAGAAGAT-AGGAAATGATCTTGC-TC
32393108 TCTACTTCAATTTC--AAG--AGGAAATGATCTTGCTC
1 T-TACTTCAATTTCAGAAGATAGGAAATGATCTTGCTC
* * ** *
32393142 TTATTTCAATTTCAGAGAGACGAAGG-CTTG-T-TATCCATC
1 TTACTTCAATTTCAGA-AGA--TAGGAAATGATCT-TGC-TC
* *
32393181 TTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTC
1 -TTACTTCAATTTC-AGAAGATAGGAAATGATCTTGCTC
* ** * * *
32393220 TTACTTCAATTTCAG-AGATAAAGACTTGAT-ATCCAAC
1 TTACTTCAATTTCAGAAGAT-AGGAAATGATCTTGC-TC
* *
32393257 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTC-AGAAGATAGGAAATGATCTTGCTC
32393295 TTACTTCAATTT
1 TTACTTCAATTT
32393307 TACTTCAATT
Statistics
Matches: 387, Mismatches: 97, Indels: 100
0.66 0.17 0.17
Matches are distributed among these distances:
33 23 0.06
34 18 0.05
35 7 0.02
36 28 0.07
37 92 0.24
38 147 0.38
39 42 0.11
40 26 0.07
41 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (37 bp):
TTACTTCAATTTCAGAAGATAGGAAATGATCTTGCTC
Found at i:32392796 original size:76 final size:76
Alignment explanation
Indices: 32392686--32393306 Score: 890
Period size: 76 Copynumber: 8.3 Consensus size: 76
32392676 TCGAGGTTTC
* * * *
32392686 ATCTTGGTCTTACTTCAATATCAGAGAGATAAAGACTTGCTATCCTACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAG
*
32392751 AAGATAGGAAATG
64 AGGATAGGAAATG
* * * * *
32392764 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTAGTTATCCAACTCTACTTTAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
32392829 GATAGGAAATG
66 GATAGGAAATG
* *
32392840 ATTTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTC-A-A-
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
32392902 G--AGGAAATG
66 GATAGGAAATG
* *
32392911 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
32392976 GATAGGAAATG
66 GATAGGAAATG
*
32392987 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
*
32393051 GATAGGAAAAG
66 GATAGGAAATG
*
32393062 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTG-TCATCCAACTCTACTTCAATTTC-A-A
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGAT-ATCCAACTTTACTTCAATTTCAAGA
32393124 -G--AGGAAATG
65 GGATAGGAAATG
* * * * *
32393133 ATCTTGCTCTTATTTCAATTTCAGAGAGACGAAGGCTTGTTATCCATCTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATA--AAGACTTGATATCCAACTTTACTTCAATTTCAAG
32393198 AGGATAGGAAATG
64 AGGATAGGAAATG
*
32393211 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAAC-TTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
*
32393275 GATAGGAAAAG
66 GATAGGAAATG
32393286 ATCTTGCTCTTACTTCAATTT
1 ATCTTGCTCTTACTTCAATTT
32393307 TACTTCAATT
Statistics
Matches: 493, Mismatches: 35, Indels: 33
0.88 0.06 0.06
Matches are distributed among these distances:
71 98 0.20
72 1 0.00
73 29 0.06
74 6 0.01
75 122 0.25
76 184 0.37
78 53 0.11
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:32393281 original size:224 final size:222
Alignment explanation
Indices: 32392686--32393306 Score: 1012
Period size: 224 Copynumber: 2.8 Consensus size: 222
32392676 TCGAGGTTTC
* * *
32392686 ATCTTGGTCTTACTTCAATATCAGAGAGATAAAGACTTGCTATCC-TACTTTACTTCAATTTCAA
1 ATCTTGCTCTTACTTCAATTTCAGAGAG--AAAGACTTGATATCCAT-CTTTACTTCAATTTCAA
* * *
32392750 GAAGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTAGTTATCCAACTCTAC
63 GAGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACT-TAC
* * *
32392815 TTTAATTTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATA
127 TTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATA
32392880 TCCAACTCTACTTCAATTTCAAGAGGAAATG
192 TCCAACTCTACTTCAATTTCAAGAGGAAATG
* * *
32392911 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGAAAGACTTGATATCCATCTTTACTTCAATTTCAAGAG
* *
32392976 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTACTTCA
66 GATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTACTTCA
32393041 ATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTG-TCATCC
131 ATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGAT-ATCC
32393105 AACTCTACTTCAATTTCAAGAGGAAATG
195 AACTCTACTTCAATTTCAAGAGGAAATG
* * *
32393133 ATCTTGCTCTTATTTCAATTTCAGAGAGACGAAGGCTTGTTATCCATCTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGA--AAGACTTGATATCCATCTTTACTTCAATTTCAAG
32393198 AGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTACTT
64 AGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTACTT
32393263 CAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTT
129 CAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTT
32393307 TACTTCAATT
Statistics
Matches: 370, Mismatches: 22, Indels: 9
0.92 0.05 0.02
Matches are distributed among these distances:
221 1 0.00
222 120 0.32
223 87 0.24
224 138 0.37
225 24 0.06
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (222 bp):
ATCTTGCTCTTACTTCAATTTCAGAGAGAAAGACTTGATATCCATCTTTACTTCAATTTCAAGAG
GATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTTACTTCA
ATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCA
ACTCTACTTCAATTTCAAGAGGAAATG
Found at i:32393329 original size:49 final size:49
Alignment explanation
Indices: 32393257--32393355 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
32393247 GATATCCAAC
*
32393257 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATT
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATT
*
32393306 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATT
1 TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATT
32393355 T
1 T
32393356 CAGAGATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (49 bp):
TTACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATT
Found at i:32393357 original size:38 final size:36
Alignment explanation
Indices: 32393306--32393416 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 36
32393296 TACTTCAATT
32393306 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTC
1 TTACTTCAATTTC-AGA-GATAGGAAATGATCTTACTC
* ** * *
32393344 TTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCT-
1 TTACTTCAATTTCAGAGAT-AGGAAATGATCT-TA-CTC
32393382 TTACTTCAATTTCAAGAGGATAGGAAATGATCTTA
1 TTACTTCAATTTC-AGA-GATAGGAAATGATCTTA
32393417 GTGCTTCATC
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
36 3 0.05
37 11 0.19
38 28 0.48
39 13 0.22
40 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (36 bp):
TTACTTCAATTTCAGAGATAGGAAATGATCTTACTC
Found at i:32395221 original size:10 final size:10
Alignment explanation
Indices: 32395206--32395260 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
32395196 CTCTCCTTCT
32395206 TCTTTTTTTC
1 TCTTTTTTTC
32395216 TC--TTTTTC
1 TCTTTTTTTC
*
32395224 TCTTTTTTTT
1 TCTTTTTTTC
32395234 TCTTTTTTT-
1 TCTTTTTTTC
*
32395243 T-TATTTTTC
1 TCTTTTTTTC
32395252 TCCTTTTTT
1 T-CTTTTTT
32395261 ATTTGTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 14 0.38
9 2 0.05
10 16 0.43
11 5 0.14
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTTTTC
Found at i:32395229 original size:18 final size:17
Alignment explanation
Indices: 32395205--32395273 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 17
32395195 CCTCTCCTTC
32395205 TTCTTTTTTTCTCTTTT
1 TTCTTTTTTTCTCTTTT
*
32395222 TCTCTTTTTTTTTCTTTT
1 T-TCTTTTTTTCTCTTTT
*
32395240 TTTTTATTTTTCTCCTTTT
1 TTCTT-TTTTTCT-CTTTT
*
32395259 TTATTTGTTTT-TCTT
1 TTCTTT-TTTTCTCTT
32395274 CATTGTTTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 7 0.16
18 24 0.55
19 13 0.30
ACGTcount: A:0.03, C:0.14, G:0.01, T:0.81
Consensus pattern (17 bp):
TTCTTTTTTTCTCTTTT
Found at i:32395236 original size:28 final size:30
Alignment explanation
Indices: 32395205--32395283 Score: 92
Period size: 28 Copynumber: 2.7 Consensus size: 30
32395195 CCTCTCCTTC
*
32395205 TTCTTTTTTTCTCTTTTTCT-CTTTTTT-T
1 TTCTTTTTTTCTATTTTTCTCCTTTTTTAT
*
32395233 TTCTTTTTTTTTATTTTTCTCCTTTTTTAT
1 TTCTTTTTTTCTATTTTTCTCCTTTTTTAT
*
32395263 TTGTTTTTCTTC-ATTGTTTCT
1 TTCTTTTT-TTCTATT-TTTCT
32395284 GAGTTCACGA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 18 0.42
29 7 0.16
30 11 0.26
31 7 0.16
ACGTcount: A:0.04, C:0.15, G:0.03, T:0.78
Consensus pattern (30 bp):
TTCTTTTTTTCTATTTTTCTCCTTTTTTAT
Found at i:32395249 original size:16 final size:16
Alignment explanation
Indices: 32395211--32395264 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
32395201 CTTCTTCTTT
*
32395211 TTTTCTCTTTTTCTCTTTT
1 TTTT-TCTTTTT-T-TTTA
32395230 TTTTTCTTTTTTTTTA
1 TTTTTCTTTTTTTTTA
**
32395246 TTTTTCTCCTTTTTTA
1 TTTTTCTTTTTTTTTA
32395262 TTT
1 TTT
32395265 GTTTTTCTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 20 0.62
17 1 0.03
18 7 0.22
19 4 0.12
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTA
Found at i:32395250 original size:11 final size:10
Alignment explanation
Indices: 32395202--32395250 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
32395192 CGACCTCTCC
32395202 TTCTTCTTTTT
1 TTCTT-TTTTT
*
32395213 TTCTCTTTTT
1 TTCTTTTTTT
*
32395223 CTCTTTTTTT
1 TTCTTTTTTT
32395233 TTCTTTTTTT
1 TTCTTTTTTT
*
32395243 TTATTTTT
1 TTCTTTTT
32395251 CTCCTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
10 29 0.88
11 4 0.12
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:32396113 original size:22 final size:21
Alignment explanation
Indices: 32396088--32396128 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
32396078 CATATTGACC
*
32396088 CTTTATTCTTCTTTTCTTTTTT
1 CTTTATTCCTCTTTT-TTTTTT
*
32396110 CTTTTTTCCTCTTTTTTTT
1 CTTTATTCCTCTTTTTTTT
32396129 GGGGGTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
CTTTATTCCTCTTTTTTTTTT
Found at i:32400383 original size:30 final size:30
Alignment explanation
Indices: 32400349--32400859 Score: 518
Period size: 30 Copynumber: 17.0 Consensus size: 30
32400339 GGATTTAGGG
* * *
32400349 AAGTTTGGGGGTAAAAATGGTAATTTTTG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTTGGAA
* *
32400379 AAGTTTCGAGGT-AAAATGTAATTTTTTTGG-A
1 AAGTTTTGGGGTCAAAATGTAA---TTTTGGAA
* * *
32400410 AA-TTTTAGGGTCAAAATATGATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
32400439 AAGTTTTAGGGTCAAAATGTAATTTCTAG-A
1 AAGTTTTGGGGTCAAAATGTAATTT-TGGAA
* *
32400469 AAGTTTTAAGGG-CAAAATATAATTTTGGAA
1 AAGTTTT-GGGGTCAAAATGTAATTTTGGAA
* *
32400499 AAGTTTTCGGGTCGAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
32400529 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* **
32400559 AAGTTTTAGGGTCAAAATGTAATTTTTAAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
32400589 AAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * *
32400619 AAGTCTTGGGGTTAAAATGTAATTTCTAG-A
1 AAGTTTTGGGGTCAAAATGTAATTT-TGGAA
* *
32400649 AAGTTTTAGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
32400679 AAGTTTTGGGGTCGAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
32400709 AAGTTTTGGGGTCAAAAATGTAATTTCTAG-A
1 AAGTTTTGGGGTC-AAAATGTAATTT-TGGAA
* * * * *
32400740 AATTTTTGAGGTTAAAATATAATTTCGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * **
32400770 AATTTTTAGGGTTGAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* * * *
32400800 AAGTTTTAGCGTTAAAATGTAATTTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAA-TTTTGGAA
32400831 AA-TTTTGGGGTCAAAATGTAATTTCTGGA
1 AAGTTTTGGGGTCAAAATGTAATTT-TGGA
32400860 TAATTTAGGG
Statistics
Matches: 406, Mismatches: 58, Indels: 34
0.82 0.12 0.07
Matches are distributed among these distances:
28 10 0.02
29 19 0.05
30 321 0.79
31 54 0.13
32 2 0.00
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:32400456 original size:90 final size:91
Alignment explanation
Indices: 32400349--32400859 Score: 594
Period size: 90 Copynumber: 5.7 Consensus size: 91
32400339 GGATTTAGGG
* * * * *
32400349 AAGTTTGGGGGTAAAAATGGTAATTT-TTGAAAGTTTCGA-GGT-AAAATGTAATTTTTTTGG-A
1 AAGTTTTGGGGTCAAAAT-GTAATTTCTAGAAAGTTTTGAGGGTCAAAATATAA---TTTTGGAA
* * *
32400410 AA-TTTTAGGGTCAAAATATGATTTTGGAA
62 AAGTTTTAGGGTCGAAATGTAATTTTGGAA
* *
32400439 AAGTTTTAGGGTCAAAATGTAATTTCTAGAAAGTTTTAAGGG-CAAAATATAATTTTGGAAAAGT
1 AAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGAGGGTCAAAATATAATTTTGGAAAAGT
*
32400503 TTTCGGGTCGAAATGTAATTTTGGAA
66 TTTAGGGTCGAAATGTAATTTTGGAA
* * **
32400529 AAGTTTTGGGGTCAAAATGTAATTT-TGGAAAAGTTTT-AGGGTCAAAATGTAATTTTTAAAAAG
1 AAGTTTTGGGGTCAAAATGTAATTTCTAG-AAAGTTTTGAGGGTCAAAATATAATTTTGGAAAAG
* * *
32400592 TTTTGGGGTCAAAATATAATTTTGGAA
65 TTTTAGGGTCGAAATGTAATTTTGGAA
* *
32400619 AAGTCTTGGGGTTAAAATGTAATTTCTAGAAAGTTTT-AGGGTCAAAATATAATTTTGGAAAAGT
1 AAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGAGGGTCAAAATATAATTTTGGAAAAGT
*
32400683 TTTGGGGTCGAAATGTAATTTTGGAA
66 TTTAGGGTCGAAATGTAATTTTGGAA
* * * *
32400709 AAGTTTTGGGGTCAAAAATGTAATTTCTAGAAATTTTTGA-GGTTAAAATATAATTTCGGAAAAT
1 AAGTTTTGGGGTC-AAAATGTAATTTCTAGAAAGTTTTGAGGGTCAAAATATAATTTTGGAAAAG
*
32400773 TTTTAGGGTTGAAATGTAATTTTGGAA
65 TTTTAGGGTCGAAATGTAATTTTGGAA
* * * * * *
32400800 AAGTTTTAGCGTTAAAATGTAATTTTTAGAAAATTTTG-GGGTCAAAATGTAATTTCTGGA
1 AAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGAGGGTCAAAATATAATTT-TGGA
32400860 TAATTTAGGG
Statistics
Matches: 366, Mismatches: 43, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
88 6 0.02
89 16 0.04
90 249 0.68
91 94 0.26
92 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (91 bp):
AAGTTTTGGGGTCAAAATGTAATTTCTAGAAAGTTTTGAGGGTCAAAATATAATTTTGGAAAAGT
TTTAGGGTCGAAATGTAATTTTGGAA
Found at i:32402732 original size:6 final size:6
Alignment explanation
Indices: 32402721--32402814 Score: 77
Period size: 6 Copynumber: 15.8 Consensus size: 6
32402711 GTTTTTATTA
* * *
32402721 TAAATT TAAATT TTAA-T TAAATT TAAATT TAAA-G CAAATT TAAATTTT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA--TT
* * ***
32402769 TACATT TAAATT TAAA-A TAAATT TAAATT TAACCA TAAATT TAAAT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAAT
32402815 CTTGTTCAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
5 11 0.16
6 51 0.76
8 5 0.07
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (6 bp):
TAAATT
Found at i:32402740 original size:11 final size:11
Alignment explanation
Indices: 32402721--32402797 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
32402711 GTTTTTATTA
32402721 TAAATTTAAATT
1 TAAATTTAAA-T
*
32402733 TTAA-TTAAATT
1 TAAATTTAAA-T
*
32402744 TAAATTTAAAG
1 TAAATTTAAAT
*
32402755 CAAATTTAAAT
1 TAAATTTAAAT
*
32402766 T---TTTACATT
1 TAAATTTA-AAT
*
32402775 TAAATTTAAAA
1 TAAATTTAAAT
32402786 TAAATTTAAAT
1 TAAATTTAAAT
32402797 T
1 T
32402798 TAACCATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
11 31 0.62
12 12 0.24
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (11 bp):
TAAATTTAAAT
Found at i:32402743 original size:17 final size:17
Alignment explanation
Indices: 32402721--32402814 Score: 97
Period size: 17 Copynumber: 5.6 Consensus size: 17
32402711 GTTTTTATTA
*
32402721 TAAATTTAAATTTTAAT
1 TAAATTTAAATTTAAAT
*
32402738 TAAATTTAAATTTAAAG
1 TAAATTTAAATTTAAAT
*
32402755 CAAATTTAAATTT---T
1 TAAATTTAAATTTAAAT
* *
32402769 TACATTTAAATTTAAAA
1 TAAATTTAAATTTAAAT
32402786 TAAATTTAAATTTAACCA-
1 TAAATTTAAATTTAA--AT
32402804 TAAATTTAAAT
1 TAAATTTAAAT
32402815 CTTGTTCAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
14 11 0.17
17 41 0.64
18 11 0.17
19 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTAAAT
Found at i:32409200 original size:29 final size:29
Alignment explanation
Indices: 32409126--32409202 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
32409116 TATATTTTGA
32409126 GGGTAAAATGGTAATTTTTGGTGAAATCGG
1 GGGTAAAATGGTAA-TTTTGGTGAAATCGG
* *
32409156 GGTTAAAAATAG-AATTTT-G-GAAAGTTCGG
1 GGGT-AAAATGGTAATTTTGGTGAAA--TCGG
32409185 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
32409203 TAGAAGTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
27 4 0.10
28 7 0.18
29 17 0.44
30 5 0.13
31 6 0.15
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTGGTGAAATCGG
Found at i:32409209 original size:29 final size:30
Alignment explanation
Indices: 32409126--32409232 Score: 66
Period size: 29 Copynumber: 3.7 Consensus size: 30
32409116 TATATTTTGA
* *
32409126 GGGT-AAAATGGTAATTTTTGGTGAA-ATCGG
1 GGGTAAAAATGGTAATTTTT--AGAAGTTCGG
* * *
32409156 GGTTAAAAATAG-AA-TTTTGGAAAGTTCGG
1 GGGTAAAAATGGTAATTTTTAG-AAGTTCGG
32409185 GGGT-AAAATGGTAATTTTTAGAAGTTTC-G
1 GGGTAAAAATGGTAATTTTTAGAAG-TTCGG
* *
32409214 GGGTCAAAAT-ATAATTTTT
1 GGGTAAAAATGGTAATTTTT
32409233 TAAAATTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
27 1 0.02
28 8 0.13
29 29 0.47
30 18 0.29
31 6 0.10
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.36
Consensus pattern (30 bp):
GGGTAAAAATGGTAATTTTTAGAAGTTCGG
Found at i:32410455 original size:3 final size:3
Alignment explanation
Indices: 32410447--32410521 Score: 60
Period size: 3 Copynumber: 24.3 Consensus size: 3
32410437 TATTTAAACC
* * ** **
32410447 ATT ATT ATT ATT ATT ATT ATT ATG ACT AAC ATTT ATT GGT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT
* *
32410494 ATT ATT ATA ATT ATT ATT AAT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
32410522 ATAATATTCA
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
3 51 0.93
4 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:32411226 original size:11 final size:11
Alignment explanation
Indices: 32411210--32411276 Score: 75
Period size: 11 Copynumber: 6.0 Consensus size: 11
32411200 TACAAATAAT
32411210 ATTAAATTTAA
1 ATTAAATTTAA
*
32411221 ATTAAATTCAA
1 ATTAAATTTAA
32411232 ACTTAAA-TTAA
1 A-TTAAATTTAA
32411243 ATTTAAA-TTAA
1 A-TTAAATTTAA
32411254 ATTAAAATTTAA
1 ATT-AAATTTAA
*
32411266 AATAAATTTAA
1 ATTAAATTTAA
32411277 TTTCAAAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.04
11 36 0.73
12 11 0.22
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:32411227 original size:5 final size:5
Alignment explanation
Indices: 32411210--32411278 Score: 66
Period size: 5 Copynumber: 12.6 Consensus size: 5
32411200 TACAAATAAT
32411210 ATTAA ATTTAA ATTAA ATTCAA ACTTAA ATTAA ATTTAA ATTAA ATTAAA
1 ATTAA A-TTAA ATTAA ATT-AA A-TTAA ATTAA A-TTAA ATTAA ATT-AA
* *
32411260 ATTTAA AATAA ATTTA ATT
1 A-TTAA ATTAA ATTAA ATT
32411279 TCAAAGTAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
5 29 0.53
6 22 0.40
7 4 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (5 bp):
ATTAA
Found at i:32411239 original size:17 final size:16
Alignment explanation
Indices: 32411217--32411283 Score: 71
Period size: 17 Copynumber: 4.0 Consensus size: 16
32411207 AATATTAAAT
32411217 TTAAATTAAATTCAAA
1 TTAAATTAAATTCAAA
*
32411233 CTTAAATTAAATTTAAA
1 -TTAAATTAAATTCAAA
*
32411250 TTAAATTAAAATTTAAA
1 TTAAATT-AAATTCAAA
* *
32411267 ATAAATTTAATTTCAAA
1 TTAAA-TTAAATTCAAA
32411284 GTAACTTCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
16 7 0.16
17 35 0.80
18 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAATTAAATTCAAA
Found at i:32411244 original size:28 final size:28
Alignment explanation
Indices: 32411210--32411276 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
32411200 TACAAATAAT
*
32411210 ATTAAATTTAAATTAAATTCAAACTTAA
1 ATTAAATTTAAATTAAATTAAAACTTAA
*
32411238 ATTAAATTTAAATTAAATTAAAATTTAA
1 ATTAAATTTAAATTAAATTAAAACTTAA
*
32411266 AATAAATTTAA
1 ATTAAATTTAA
32411277 TTTCAAAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (28 bp):
ATTAAATTTAAATTAAATTAAAACTTAA
Found at i:32413984 original size:3 final size:3
Alignment explanation
Indices: 32413976--32414015 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
32413966 AATTATGTGA
32413976 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
32414016 CTTGGAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32424879 original size:30 final size:30
Alignment explanation
Indices: 32424844--32424908 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
32424834 AACTTTAACA
* *
32424844 AACAAATGCATTTAAAATAGTAACAAAATT
1 AACAAATGCATATAAAATAATAACAAAATT
*
32424874 AACAAATGCCTATAAAATAATAACAAAATT
1 AACAAATGCATATAAAATAATAACAAAATT
32424904 AACAA
1 AACAA
32424909 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.23
Consensus pattern (30 bp):
AACAAATGCATATAAAATAATAACAAAATT
Found at i:32427047 original size:20 final size:20
Alignment explanation
Indices: 32427022--32427061 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32427012 TTTGGGCCTT
32427022 GATGGGTAACCCGATCCATG
1 GATGGGTAACCCGATCCATG
32427042 GATGGGTAACCCGATCCATG
1 GATGGGTAACCCGATCCATG
32427062 AACAAGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (20 bp):
GATGGGTAACCCGATCCATG
Found at i:32448807 original size:90 final size:90
Alignment explanation
Indices: 32448654--32448823 Score: 331
Period size: 90 Copynumber: 1.9 Consensus size: 90
32448644 TAAACCCTAA
*
32448654 ACCCATTTTTACACGCCTCTCTTCTTCATCTTCATCTTCTTCCCTTTTGATTCTAAGGTCTTTAG
1 ACCCATTTTTACACGCCTCTCTTCTTCATCTTCATCTTCTTCCCTTTTGATTCTAACGTCTTTAG
32448719 TTACAAATCTATCTCCATCTTCATC
66 TTACAAATCTATCTCCATCTTCATC
32448744 ACCCATTTTTACACGCCTCTCTTCTTCATCTTCATCTTCTTCCCTTTTGATTCTAACGTCTTTAG
1 ACCCATTTTTACACGCCTCTCTTCTTCATCTTCATCTTCTTCCCTTTTGATTCTAACGTCTTTAG
32448809 TTACAAATCTATCTC
66 TTACAAATCTATCTC
32448824 AAAGCTTGAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.19, C:0.31, G:0.05, T:0.45
Consensus pattern (90 bp):
ACCCATTTTTACACGCCTCTCTTCTTCATCTTCATCTTCTTCCCTTTTGATTCTAACGTCTTTAG
TTACAAATCTATCTCCATCTTCATC
Found at i:32449396 original size:50 final size:50
Alignment explanation
Indices: 32449337--32449435 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
32449327 AAACTTGAAG
32449337 ACTAAATAAGTCAGTAGCTAAACTATCTATTCCCTTGCACTTCTACCAAC
1 ACTAAATAAGTCAGTAGCTAAACTATCTATTCCCTTGCACTTCTACCAAC
32449387 ACTAAATAAGTCAGTAGCTAAACTATCTATTCCCTTGCACTTCTACCAA
1 ACTAAATAAGTCAGTAGCTAAACTATCTATTCCCTTGCACTTCTACCAA
32449436 AACCTTGAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.30
Consensus pattern (50 bp):
ACTAAATAAGTCAGTAGCTAAACTATCTATTCCCTTGCACTTCTACCAAC
Found at i:32455410 original size:2 final size:2
Alignment explanation
Indices: 32455405--32455438 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32455395 CCTACCCTTA
32455405 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
32455439 GTATGTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32458972 original size:68 final size:67
Alignment explanation
Indices: 32458827--32459047 Score: 187
Period size: 68 Copynumber: 3.3 Consensus size: 67
32458817 AAAAGGAATG
* * ** *
32458827 TGACTTGGGAAGGTCATGAACTTTGAAAAGTT-ATGTGT-TTGAGAAGGTAAGGTACTTCAAGAA
1 TGACATGGGAAGGTTACAAACTTTGAAAAGTTGA-GT-TCTTAAGAAGGTAAGGTACTT-AAGAA
*
32458890 GTACT
63 GTACA
** * * *
32458895 TGATTTGGGAAGGTTGCAAACTTTGAAAAGTTGAGTTCTTAAGAAAGTGAGGTACTCTAAGAAGT
1 TGACATGGGAAGGTTACAAACTTTGAAAAGTTGAGTTCTTAAGAAGGTAAGGTACT-TAAGAAGT
32458960 ACA
65 ACA
** * ** * * *
32458963 TGACATGGGAATATCACATGCTTTGAAAA-TTGAATGCTTAAGAAGGCAAGGTACTTTAAGAAGT
1 TGACATGGGAAGGTTACAAACTTTGAAAAGTTGAGTTCTTAAGAAGGTAAGGTAC-TTAAGAAGT
32459027 ACA
65 ACA
* *
32459030 TGACCTGAGAAGGTTACA
1 TGACATGGGAAGGTTACA
32459048 CGATTTGAAA
Statistics
Matches: 122, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
67 45 0.37
68 75 0.61
69 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (67 bp):
TGACATGGGAAGGTTACAAACTTTGAAAAGTTGAGTTCTTAAGAAGGTAAGGTACTTAAGAAGTA
CA
Found at i:32459055 original size:67 final size:67
Alignment explanation
Indices: 32458868--32459059 Score: 188
Period size: 67 Copynumber: 2.8 Consensus size: 67
32458858 TATGTGTTTG
* * ** * * * *
32458868 AGAAGGTAAGGTACTTCAAGAAGTACTTGATTTGGGAAGGTTGCAAACTTTGAAAAGTTGAGTTC
1 AGAAGGTAAGGTACTTTAAGAAGTACATGACATGGGAAGGTTACAGA-TTTGAAAAGTTGAATGC
32458933 TTA
65 TTA
* * * ** * *
32458936 AGAAAGTGAGGTACTCTAAGAAGTACATGACATGGGAATATCACATGCTTTGAAAA-TTGAATGC
1 AGAAGGTAAGGTACTTTAAGAAGTACATGACATGGGAAGGTTACA-GATTTGAAAAGTTGAATGC
32459000 TTA
65 TTA
* * *
32459003 AGAAGGCAAGGTACTTTAAGAAGTACATGACCTGAGAAGGTTACACGATTTGAAAAG
1 AGAAGGTAAGGTACTTTAAGAAGTACATGACATGGGAAGGTTACA-GATTTGAAAAG
32459060 ATAAGTGTTT
Statistics
Matches: 96, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
67 54 0.56
68 42 0.44
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (67 bp):
AGAAGGTAAGGTACTTTAAGAAGTACATGACATGGGAAGGTTACAGATTTGAAAAGTTGAATGCT
TA
Found at i:32460683 original size:51 final size:52
Alignment explanation
Indices: 32460509--32460687 Score: 272
Period size: 52 Copynumber: 3.5 Consensus size: 52
32460499 AAATAGGTTT
* *
32460509 GATGACTATGTGTCATCGTGAGTATATGAATCCCTTACGGATTATGAA-GTCT
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAT-AAGGTCC
* *
32460561 TATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCC
* *
32460613 GATGACTATGTGTCATCGTGAGCATATGAATTCTTTACGGATTA-AAGGTCC
1 GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCC
*
32460664 GATGACTCTGTGTCATCGTGAGTA
1 GATGACTATGTGTCATCGTGAGTA
32460688 CCAAATCCAC
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
51 29 0.25
52 87 0.75
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (52 bp):
GATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGTCC
Done.