Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 143 of 171
Found at i:43603954 original size:213 final size:213
Alignment explanation
Indices: 43603620--43604381 Score: 1238
Period size: 213 Copynumber: 3.6 Consensus size: 213
43603610 GGAAATGATC
* *
43603620 TTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTAATTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
* * *
43603685 GACGTTGCTCTTACTTCAATTTCAGAAATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGA
65 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGA
43603750 GGATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTT
130 GGATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTT
43603815 CAATTTCAAGAGGATGACG
195 CAATTTCAAGAGGATGACG
*
43603834 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGTGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
* *
43603899 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
43603964 GATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTC
131 GATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTC
43604029 AATTTCAAGAGGATGACG
196 AATTTCAAGAGGATGACG
*
43604047 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGTGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
* * *
43604112 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
* * * *
43604176 GAT--G--AC---GTTGCTCTTACTTCAATTTCAGAGATAAAGCCGTGTTATCC-ACTCTACTTC
131 GATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTC
*
43604233 AATTTCAAGGGGATGACG
196 AATTTCAAGAGGATGACG
* *
43604251 TTGCTCTTACTTCAATTTCGGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
* * * *
43604316 ACGTTGCTCTTACTTTAAATTCAGAGATAAAGACATGTTATCC-GCTCTACTTCAATTTCAAGAG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
43604380 GA
131 GA
43604382 CGAAATGATC
Statistics
Matches: 526, Mismatches: 21, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
204 150 0.29
205 37 0.07
208 2 0.00
210 1 0.00
212 20 0.04
213 277 0.53
214 39 0.07
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (213 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
GATAGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTC
AATTTCAAGAGGATGACG
Found at i:43604199 original size:136 final size:136
Alignment explanation
Indices: 43603620--43604381 Score: 1101
Period size: 136 Copynumber: 5.5 Consensus size: 136
43603610 GGAAATGATC
* *
43603620 TTGCTCTTACTTCAATTTCAGAGATAAAGGCGTGTTATCCAACTCTAATTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
* * * * *
43603685 GACGTTGCTCTTACTTCAATTTCAGAAATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGA
65 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGA
43603750 GGATAGGAAACGATG
129 GGAT--G--AC---G
* * *
43603765 TTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
*
43603830 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGTG
65 GACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAG
43603895 GATGACG
130 GATGACG
* * * *
43603902 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGAT
* * *
43603967 AGGAAACGATGTTACTCTTACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTCTACTTCAAT
65 --G--AC---GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAAT
43604032 TTCAAGAGGATGACG
122 TTCAAGAGGATGACG
*
43604047 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGTGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
*
43604112 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
43604177 ATGACG
131 ATGACG
* *
43604183 TTGCTCTTACTTCAATTTCAGAGATAAAGCCGTGTTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
* *
43604248 ACGTTGCTCTTACTTCAATTTCGGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGG
66 ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
43604313 ATGACG
131 ATGACG
* * * *
43604319 TTGCTCTTACTTTAAATTCAGAGATAAAGACATGTTATCCGCTCTACTTCAATTTCAAGAGGA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGA
43604382 CGAAATGATC
Statistics
Matches: 568, Mismatches: 40, Indels: 27
0.89 0.06 0.04
Matches are distributed among these distances:
136 216 0.38
137 97 0.17
139 1 0.00
140 4 0.01
141 2 0.00
142 2 0.00
144 78 0.14
145 168 0.30
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (136 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
ATGACG
Found at i:43605252 original size:8 final size:8
Alignment explanation
Indices: 43605239--43605269 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
43605229 GACCTCTCCA
43605239 TTTTTTAT
1 TTTTTTAT
43605247 TTTTTTATT
1 TTTTTTA-T
43605256 TTTTTTAT
1 TTTTTTAT
43605264 TTTTTT
1 TTTTTT
43605270 TATGTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTAT
Found at i:43605259 original size:10 final size:9
Alignment explanation
Indices: 43605239--43605272 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
43605229 GACCTCTCCA
43605239 TTTTTTA-T
1 TTTTTTATT
43605247 TTTTTTATT
1 TTTTTTATT
43605256 TTTTTTATT
1 TTTTTTATT
43605265 TTTTTTAT
1 TTTTTTAT
43605273 GTGTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTATT
Found at i:43616368 original size:30 final size:29
Alignment explanation
Indices: 43616332--43616589 Score: 252
Period size: 30 Copynumber: 8.6 Consensus size: 29
43616322 GAAAGTTCCG
*
43616332 GGGTCAAAAAATAATTTTAGAAAAGTTTT
1 GGGTCAAAATATAATTTTAGAAAAGTTTT
* * *
43616361 GGAGTCAAAATGTAATTTTGGAGAAGTTTT
1 GG-GTCAAAATATAATTTTAGAAAAGTTTT
* * *
43616391 GGGATTAAAATGTAATTTTTAG-AAAGTTTC
1 GGG-TCAAAATATAA-TTTTAGAAAAGTTTT
*
43616421 GAGGTTAAAATATAATTTTTA-AAAAGTTTT
1 G-GGTCAAAATATAA-TTTTAGAAAAGTTTT
*
43616451 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 -GGGTCAAAATATAATTTTAGAAAAGTTTT
* * *
43616481 AGGGTCGAAATGTAATTTTGGAAAAGTTTT
1 -GGGTCAAAATATAATTTTAGAAAAGTTTT
*
43616511 AGGGTCAAAATATAATTTTGGAAAAGTTTT
1 -GGGTCAAAATATAATTTTAGAAAAGTTTT
*
43616541 GGGTTTAAAATATAATTTTCAG-AAAGTTTT
1 GGG-TCAAAATATAATTTT-AGAAAAGTTTT
* *
43616571 AGGGTCGAAATGTAATTTT
1 -GGGTCAAAATATAATTTT
43616590 TGGACAATTT
Statistics
Matches: 197, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
29 10 0.05
30 175 0.89
31 12 0.06
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (29 bp):
GGGTCAAAATATAATTTTAGAAAAGTTTT
Found at i:43616388 original size:60 final size:59
Alignment explanation
Indices: 43616303--43616589 Score: 276
Period size: 60 Copynumber: 4.8 Consensus size: 59
43616293 GGAAGTTTGG
* ** *
43616303 GGGT-AAAATGGTAATTTTTG-AAAGTTCCGGGGTCAAAAAATAATTTTAGAAAAGTTTT
1 GGGTCAAAAT-GTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTT
* * * * *
43616361 GGAGTCAAAATGTAATTTTGGAGAAGTTTTGGGATTAAAATGTAATTTTTAG-AAAGTTTC
1 GG-GTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAA-TTTTAGAAAAGTTTT
* * ** *
43616421 GAGGTTAAAATATAATTTTTAAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTT
1 G-GGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTT
* * *
43616481 AGGGTCGAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTT
1 -GGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTT
* * * * * *
43616541 GGGTTTAAAATATAATTTT-CAGAAAGTTTTAGGGTCGAAATGTAATTTT
1 GGG-TCAAAATGTAATTTTGGA-AAAGTTTTGGGGTCAAAATATAATTTT
43616590 TGGACAATTT
Statistics
Matches: 189, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
58 2 0.01
59 20 0.11
60 159 0.84
61 8 0.04
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (59 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATATAATTTTAGAAAAGTTTT
Found at i:43616436 original size:90 final size:88
Alignment explanation
Indices: 43616294--43616591 Score: 327
Period size: 90 Copynumber: 3.3 Consensus size: 88
43616284 GGGATTTAGG
** * * *
43616294 GAAGTTTGGGGGT-AAAATGGTAATTTTTGAAAGTTCCGGGGTCAAAAAATAATTTTAGAAAAGT
1 GAAGTTTTAGGGTCAAAAT-GTAATTTTTGAAAGTTTCGAGGTCAAAATATAATTTTAGAAAAGT
*
43616358 TTTGGAGTCAAAATGTAATTTTGGA
65 TTTGG-GTCAAAATATAATTTTGGA
* *
43616383 GAAGTTTT-GGGATTAAAATGTAATTTTTAGAAAGTTTCGAGGTTAAAATATAATTTTTA-AAAA
1 GAAGTTTTAGGG-TCAAAATGTAATTTTT-GAAAGTTTCGAGGTCAAAATATAA-TTTTAGAAAA
43616446 GTTTTGGGGTCAAAATATAATTTTGGA
63 GTTTT-GGGTCAAAATATAATTTTGGA
* * * * *
43616473 AAAGTTTTAGGGTCGAAATGTAATTTTGGAAAAGTTT-TAGGGTCAAAATATAATTTTGGAAAAG
1 GAAGTTTTAGGGTCAAAATGTAATTTTTG-AAAGTTTCGA-GGTCAAAATATAATTTTAGAAAAG
* *
43616537 TTTTGGGTTTAAAATATAATTTT-CA
64 TTTTGGG-TCAAAATATAATTTTGGA
*
43616562 GAAAGTTTTAGGGTCGAAATGTAATTTTTG
1 G-AAGTTTTAGGGTCAAAATGTAATTTTTG
43616592 GACAATTTAG
Statistics
Matches: 181, Mismatches: 17, Indels: 21
0.83 0.08 0.10
Matches are distributed among these distances:
88 3 0.02
89 27 0.15
90 141 0.78
91 10 0.06
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.38
Consensus pattern (88 bp):
GAAGTTTTAGGGTCAAAATGTAATTTTTGAAAGTTTCGAGGTCAAAATATAATTTTAGAAAAGTT
TTGGGTCAAAATATAATTTTGGA
Found at i:43618664 original size:6 final size:6
Alignment explanation
Indices: 43618655--43618764 Score: 95
Period size: 6 Copynumber: 18.7 Consensus size: 6
43618645 TTTTTTAATG
* ** * *
43618655 TTAAAT TTAATAT TTTAAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
43618703 TTAAAT AATTAAAT TTAAAT TTAAA- ATAAAT TTAAAT TTAAA- -TAAAT
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
43618750 TTAAAA TT-AAT TTAA
1 TTAAAT TTAAAT TTAA
43618765 CTCTAAATTA
Statistics
Matches: 84, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
4 4 0.05
5 11 0.13
6 58 0.69
7 5 0.06
8 6 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:43618701 original size:17 final size:16
Alignment explanation
Indices: 43618681--43618759 Score: 99
Period size: 17 Copynumber: 4.9 Consensus size: 16
43618671 AATTTTTATT
*
43618681 TAAATTTAAATTCAAA
1 TAAATTTAAATTTAAA
*
43618697 GTAAATTTAAA--TAAT
1 -TAAATTTAAATTTAAA
43618712 TAAATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
43618729 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
*
43618745 TAAATTTAAAATTAA
1 TAAATTTAAATTTAA
43618760 TTTAACTCTA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
14 10 0.18
15 2 0.04
16 18 0.33
17 25 0.45
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:43618771 original size:27 final size:27
Alignment explanation
Indices: 43618718--43618772 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
43618708 TAATTAAATT
*
43618718 TAAATTTAAAATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
* *
43618745 TAAATTTAAAATTAATTTAACTCTAAA
1 TAAATTTAAAATAAATTTAAATCTAAA
43618772 T
1 T
43618773 TAAACGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCTAAA
Found at i:43622903 original size:29 final size:30
Alignment explanation
Indices: 43622838--43622904 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
43622828 TTTTTATGAT
* *
43622838 ATTTTTTTAAATTTTCTATAAGTATTTATA
1 ATTTTTTTAAATCTTCTATAAGTATATATA
** *
43622868 AAATTTTTAAA-CTTCTATAAGTCTATATA
1 ATTTTTTTAAATCTTCTATAAGTATATATA
43622897 ATTTTTTT
1 ATTTTTTT
43622905 TATTTTTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTTTTTTAAATCTTCTATAAGTATATATA
Found at i:43624024 original size:15 final size:16
Alignment explanation
Indices: 43624001--43624030 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43623991 ACATATAAAA
43624001 AATATTTATATATTAT
1 AATATTTATATATTAT
43624017 AATA-TTATATATTA
1 AATATTTATATATTA
43624031 AATTTGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATTTATATATTAT
Found at i:43624410 original size:15 final size:16
Alignment explanation
Indices: 43624376--43624412 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
43624366 ATGGAAGTGG
43624376 AATG-AAAATTGAATA
1 AATGAAAAATTGAATA
*
43624391 GATGAAAAATTGAA-A
1 AATGAAAAATTGAATA
43624406 AATGAAA
1 AATGAAA
43624413 GACAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (16 bp):
AATGAAAAATTGAATA
Found at i:43629354 original size:19 final size:17
Alignment explanation
Indices: 43629325--43629400 Score: 66
Period size: 17 Copynumber: 4.3 Consensus size: 17
43629315 AACTTTAGAT
* *
43629325 TTTTAATT-TTTATAAA
1 TTTTAATTATTTTTTAA
43629341 TTTTAATTATTTTTTAA
1 TTTTAATTATTTTTTAA
*
43629358 TGTTTTA-TATTTTTTATGA
1 T-TTTAATTATTTTTTA--A
43629377 TTTTAAATTATTTTTATAA
1 TTTT-AATTATTTTT-TAA
43629396 TTTTA
1 TTTTA
43629401 TCTATTTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
16 8 0.16
17 16 0.33
18 8 0.16
19 8 0.16
20 7 0.14
21 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTAATTATTTTTTAA
Found at i:43629370 original size:36 final size:37
Alignment explanation
Indices: 43629325--43629396 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
43629315 AACTTTAGAT
43629325 TTTTAA-TTTTTATAAATTTT-AATTATTTTT-TAATG
1 TTTTAATTTTTTAT-AATTTTAAATTATTTTTATAATG
*
43629360 TTTTATATTTTTTATGATTTTAAATTATTTTTATAAT
1 TTTTA-ATTTTTTATAATTTTAAATTATTTTTATAAT
43629397 TTTATCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
35 5 0.16
36 6 0.19
37 17 0.53
38 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (37 bp):
TTTTAATTTTTTATAATTTTAAATTATTTTTATAATG
Found at i:43629371 original size:27 final size:27
Alignment explanation
Indices: 43629324--43629380 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
43629314 GAACTTTAGA
*
43629324 TTTTTAATTTTTATAAATTTTAATTAT
1 TTTTTAATTTTTATAAATTTTAATGAT
* *
43629351 TTTTTAATGTTTTAT-ATTTTTTATGAT
1 TTTTTAAT-TTTTATAAATTTTAATGAT
43629378 TTT
1 TTT
43629381 AAATTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (27 bp):
TTTTTAATTTTTATAAATTTTAATGAT
Found at i:43629409 original size:36 final size:35
Alignment explanation
Indices: 43629340--43629409 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 35
43629330 ATTTTTATAA
*
43629340 ATTTTAATTATTTTTTAATGTTTTATATTTTTTATG
1 ATTTTAATTATTTTTTAA-GTTTTATATATTTTATG
*
43629376 ATTTTAAATTATTTTTATAA-TTTTATCTATTTTA
1 ATTTT-AATTATTTTT-TAAGTTTTATATATTTTA
43629410 AAGTAATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 17 0.57
37 10 0.33
38 3 0.10
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (35 bp):
ATTTTAATTATTTTTTAAGTTTTATATATTTTATG
Found at i:43630146 original size:20 final size:20
Alignment explanation
Indices: 43630123--43630161 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
43630113 TATTATTGAA
*
43630123 TTTGTTATTT-TAAATATTTT
1 TTTGTCATTTATAAA-ATTTT
43630143 TTTGTCATTTATAAAATTT
1 TTTGTCATTTATAAAATTT
43630162 ATCATATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTGTCATTTATAAAATTTT
Found at i:43630943 original size:19 final size:18
Alignment explanation
Indices: 43630905--43630951 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
43630895 TTCAAATAGA
*
43630905 AAATTT-TAATTATTTAT
1 AAATTTATAATTATGTAT
43630922 AAATTTATAATTGATGTAT
1 AAATTTATAATT-ATGTAT
43630941 AAATTTTATAA
1 AAA-TTTATAA
43630952 ATAATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 5 0.19
19 8 0.31
20 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
AAATTTATAATTATGTAT
Found at i:43637347 original size:634 final size:634
Alignment explanation
Indices: 43634620--43638109 Score: 6116
Period size: 638 Copynumber: 5.5 Consensus size: 634
43634610 GGCGAAATAT
* * * * ** *
43634620 TGTTTAAACTAAAGACATCAAAGAAAATGCACACCTTCTAGATTATTAAACTCCAACCATAATCC
1 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
* * * * *
43634685 TTCAAGTCA-AGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATCGATTA-ACGAATAA
66 TTCGAGT-AGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATA-GGACAA
** * * * *
43634748 TGATAAAATTTTAAGGTTGTTGCATTTGCCTATACTTGATGAAATGTTACCAGATAAT-TCATTC
129 TGCCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGAT-ATCTCATTC
* *
43634812 GAACTCAAGTAAAGCCCTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGA
193 CAACTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGA
* *
43634877 TAGGCTATTGTTGGAGAGAACAATAGTCTTCAGAGACGAAATGTTGAAGATCGAAGTCGGAATTT
258 TAGACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTT
43634942 GACCTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCT
323 GACCTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCT
43635007 TCAGGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTA
388 TCAGGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTA
* * *
43635072 AGTCTAAATCAAAGAGGC-TTTTTTTTTTGTTATAAAATAATATGGATATATAAGATTCTAAACA
453 AGTCTAAATCAGAGAGGCTTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAACA
43635136 TATTTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTGG
518 TATTTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTGG
43635201 TATTTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
583 TATTTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
43635253 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
1 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
43635318 TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
66 TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
43635383 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
131 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
43635448 CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
196 CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
43635513 ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
261 ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
43635578 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
326 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
43635643 GGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
391 GGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
43635708 CTAAATCAGAGAGGCTTTTTTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAAC
456 CTAAATCAGAGAGGC----TTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAAC
43635773 ATATTTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTG
517 ATATTTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTG
*
43635838 GTATTTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGAGCTAAA
582 GTATTTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
43635891 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
1 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
*
43635956 TTCGAGTGGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
66 TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
43636021 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
131 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
*
43636086 CTCAAGTAAAGCATTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
196 CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
*
43636151 GCTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
261 ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
43636216 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
326 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
*
43636281 GGAATTTGACTTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
391 GGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
* *
43636346 CTAAATCAGAGAGGCTTTTTTTTTTTTTTTGTTATGAAATAATATGAATATGTAAGATACTAAAC
456 CTAAATCAGAGAGGC----TTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAAC
43636411 ATATTTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTG
517 ATATTTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTG
43636476 GTATTTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
582 GTATTTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
*
43636529 TATTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
1 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
43636594 TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
66 TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
*
43636659 CCAATTTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
131 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
43636724 CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
196 CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
43636789 ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
261 ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
43636854 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
326 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
43636919 GGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
391 GGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
43636984 CTAAATCAGAGAGGCTTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAACATAT
456 CTAAATCAGAGAGGCTTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAACATAT
43637049 TTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTGGTAT
521 TTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTGGTAT
43637114 TTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
586 TTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
43637163 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
1 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
* *
43637228 TTCGAGTAGTGTCAAATTTCCAATACTTCTTGGAATGATCCCCATAAATTGATTATAGGACAATG
66 TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
43637293 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
131 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
43637358 CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
196 CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
43637423 ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
261 ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
** *
43637488 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTATAAATCAAGAAGATTACCGATTTCTTCA
326 CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
*
43637553 GGAATTTGACCTACAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
391 GGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
* *
43637618 CTAAATTAGAGAGGC-TTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAACAGAT
456 CTAAATCAGAGAGGCTTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAACATAT
* *
43637682 TTAAGTATATTAGTTCAACTGATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTGGTAT
521 TTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTGGTAT
* * * *
43637747 TTATATTGCAAATATTTTTTTTTTAAAAATTTAAAAACAAAAGGACCAAA
586 TTATATTGCAAATA-TTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
* * * ** *
43637797 TGTTTAAACTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAGCCCCAACCATAATTT
1 TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
* * * * * * **
43637862 TTCAAGTCGAGACAGATTTTCAATACTTCTTGGAATGATCCCCATAAATTGATTAGCGGACAATG
66 TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
* * * *
43637927 CTAAATTTTTAAGGTTGTTGCATTGGTCTATACTTGACGGAATGTTACCAGATAAT-TCATTCCA
131 CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGAT-ATCTCATTCCA
* * *
43637991 ACTCAAGTAAAGCACTTCAAGCTTGGAAAGATATTGACACATATCATTAGGCAAACTACC-AAGT
195 ACTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGA-T
* * * *
43638055 AGACTATTGCT-GAG-GAGACTAATAATATTCAGAGAAGAAATGTTGAAGATGGAAG
259 AGACTATTGTTGGAGAGA-AC-AATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAG
43638110 ATGGAACCTG
Statistics
Matches: 2762, Mismatches: 82, Indels: 25
0.96 0.03 0.01
Matches are distributed among these distances:
632 5 0.00
633 571 0.21
634 929 0.34
635 2 0.00
638 1255 0.45
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Consensus pattern (634 bp):
TGTTTAAATTAAAGACATCAAGGAAAATGCATACCTTCTAGGTTATTAAACTCCAAATATAATTC
TTCGAGTAGTGTCAGATTTCCAATACTTCTTGGAATGATCCCCGTAAATTGATTATAGGACAATG
CCAAATTTTTAAGGTTGTTGCATTTGCCTATATTTGACGGAATGTTACCAGATATCTCATTCCAA
CTCAAGTAAAGCACTTCAAGCTTGGGAAGATGTTGACACATATCATTAGGCAAACTACCTGATAG
ACTATTGTTGGAGAGAACAATAGTCTTCAGAGAAGAAATGTTGAAGATCGAAGTCGGAATTTGAC
CTGTAATGCCTTTAATTGCGTGAATATAAAGCATTTCCAAATCAAGAAGATTACCAATTTCTTCA
GGAATTTGACCTGCAAATTAACATAGTTGAAAAATGAAGGTGTTAAAGTTAACTATTTTGTAAGT
CTAAATCAGAGAGGCTTTTTTTTTTTGTTATGAAATAATATGGATATGTAAGATTCTAAACATAT
TTAAGTATATTAGTTCAGCTAATTATGTATTTTTCCTTGAAAGAAAATTCCCTTATTTTTGGTAT
TTATATTGCAAATATTCTTTTTTAAAAATTTTAAAACAAAAGGGCTAAA
Found at i:43643558 original size:11 final size:11
Alignment explanation
Indices: 43643535--43643597 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
43643525 TCAAATTTAT
43643535 TTTAATCTTAAA
1 TTTAAT-TTAAA
*
43643547 TTTATTTTAAA
1 TTTAATTTAAA
*
43643558 TTCAATTTAAA
1 TTTAATTTAAA
*
43643569 TTTAAATTTGAA
1 TTT-AATTTAAA
43643581 TTTAATTTAAA
1 TTTAATTTAAA
43643592 TTTAAT
1 TTTAAT
43643598 GTTATTATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
11 29 0.66
12 15 0.34
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:43643594 original size:17 final size:16
Alignment explanation
Indices: 43643545--43643613 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
43643535 TTTAATCTTA
* *
43643545 AATTTATTTTAAATTC
1 AATTTAATTTAAATTT
43643561 AATTTAAATTTAAATTT
1 AATTT-AATTTAAATTT
43643578 GAATTTAATTTAAATTT
1 -AATTTAATTTAAATTT
43643595 AATGTT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
43643612 AA
1 AA
43643614 AAAGAAAGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 11 0.23
17 31 0.66
18 5 0.11
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (16 bp):
AATTTAATTTAAATTT
Found at i:43643614 original size:6 final size:6
Alignment explanation
Indices: 43643542--43643596 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
43643532 TATTTTAATC
* * *
43643542 TTAAAT TT-ATT TTAAA- TTCAAT TTAAAT TTAAAT TTGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
43643587 TTAAAT TTAA
1 TTAAAT TTAA
43643597 TGTTATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 13 0.32
6 28 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:43643818 original size:20 final size:20
Alignment explanation
Indices: 43643793--43643852 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
43643783 GTGCCTACTG
*
43643793 CTGCTGGCCACCAGCTCCAT
1 CTGCTGACCACCAGCTCCAT
43643813 CTGCTGACCACCAGCTCCAT
1 CTGCTGACCACCAGCTCCAT
*
43643833 CTGTTGACCACCAAGCTCCA
1 CTGCTGACCACC-AGCTCCA
43643853 CCATGCCCTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
20 30 0.81
21 7 0.19
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (20 bp):
CTGCTGACCACCAGCTCCAT
Found at i:43644400 original size:19 final size:20
Alignment explanation
Indices: 43644374--43644420 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
43644364 TAATAACTAT
43644374 TAAT-ATAATAAAT-ATTAA
1 TAATAATAATAAATAATTAA
* *
43644392 TAATAATAA-CAATAATTAG
1 TAATAATAATAAATAATTAA
43644411 TAATAATAAT
1 TAATAATAAT
43644421 GCTAGTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TAATAATAATAAATAATTAA
Found at i:43644406 original size:25 final size:25
Alignment explanation
Indices: 43644358--43644407 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
43644348 ATAGTAGCTA
* *
43644358 AAATATTAATAACTATTAATATAAT
1 AAATATTAATAACTAATAAAATAAT
43644383 AAATATTAATAA-TAATAACAATAAT
1 AAATATTAATAACTAATAA-AATAAT
43644408 TAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATTAATAACTAATAAAATAAT
Found at i:43645615 original size:30 final size:30
Alignment explanation
Indices: 43645576--43645841 Score: 293
Period size: 30 Copynumber: 8.9 Consensus size: 30
43645566 CCCCAAACAA
* *
43645576 TCCAGAAATTGCATTTTAACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
* *
43645607 TCCAAAATTACATTTTAACCCCAAAACTCT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
43645637 TCCAAAATTATATTTCGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
43645667 TCAAAAATTACATTTTGACCTCGAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
43645696 TCCAAAAATTATATTTTGACCCCAAAACTTT
1 TCC-AAAATTACATTTTGACCCCAAAACTTT
* ** **
43645727 TCCAAAATTATATTTCAACCCCAAATTTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * **
43645757 TTCAAAATTACATTTCGACCCTTAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
43645787 TCCAAAATTACATTTTGACCCTAGAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
43645816 TCAAAAATTACATTTTGACTCCAAAA
1 TCCAAAATTACATTTTGACCCCAAAA
43645842 ATTTCCTAAA
Statistics
Matches: 199, Mismatches: 34, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
29 28 0.14
30 162 0.81
31 9 0.05
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:43645880 original size:59 final size:59
Alignment explanation
Indices: 43645817--43646008 Score: 178
Period size: 59 Copynumber: 3.3 Consensus size: 59
43645807 CTAGAACTTT
* *
43645817 CAAAAATTA-CATTTTGACTCC-AAAAATTTCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTT-AC-CCGAAAAATTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* *** ** *
43645876 CAAAATTTACCATTTTACCCTCGAAGCTTCCAAAATTCC-GTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCGAAAAATTTCCAAAATTCCATTTTTAACCCCGATTTCAC
* ** * *
43645934 TAAAAATTACCATTTTATCCCCGAAACCTTT--AAAATTCTATTTTTAACCCTGATTTCAC
1 CAAAAATTACCATTTTA--CCCGAAAAATTTCCAAAATTCCATTTTTAACCCCGATTTCAC
*
43645993 CAAAATTTACCATTTT
1 CAAAAATTACCATTTT
43646009 GCCCCCGGGT
Statistics
Matches: 107, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
58 42 0.39
59 53 0.50
60 12 0.11
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCGAAAAATTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:43645956 original size:30 final size:29
Alignment explanation
Indices: 43645858--43645957 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 29
43645848 TAAATCCCAT
*
43645858 TTTTAACCCCGATTTCACCAAAATTTACCA
1 TTTTAACCCCGATTTCA-CAAAAATTACCA
* *
43645888 TTTT-ACCCTCGAAGCTTC-C-AAAATT-CCG
1 TTTTAACCC-CG-A-TTTCACAAAAATTACCA
43645916 TTTTAACCCCGATTTCACTAAAAATTACCA
1 TTTTAACCCCGATTTCAC-AAAAATTACCA
*
43645946 TTTTATCCCCGA
1 TTTTAACCCCGA
43645958 AACCTTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
26 3 0.05
27 2 0.04
28 8 0.14
29 19 0.34
30 20 0.36
31 1 0.02
32 3 0.05
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (29 bp):
TTTTAACCCCGATTTCACAAAAATTACCA
Found at i:43646015 original size:59 final size:58
Alignment explanation
Indices: 43645855--43646015 Score: 207
Period size: 58 Copynumber: 2.8 Consensus size: 58
43645845 TCCTAAATCC
* *
43645855 CATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCTCGAAGCTTCCAAAATT
1 CATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCGAACCTTCCAAAATT
** * * * *
43645913 CCGTTTTAACCCCGATTTCACTAAAAATTACCATTTTATCCCCGAAACCTT-TAAAATT
1 CATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCG-AACCTTCCAAAATT
* *
43645971 CTATTTTTAACCCTGATTTCACCAAAATTTACCATTTTGCCCCCG
1 C-ATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCG
43646016 GGTATCCACA
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
58 45 0.52
59 41 0.48
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.35
Consensus pattern (58 bp):
CATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCGAACCTTCCAAAATT
Found at i:43646036 original size:59 final size:58
Alignment explanation
Indices: 43645849--43646052 Score: 173
Period size: 59 Copynumber: 3.4 Consensus size: 58
43645839 AAAATTTCCT
* *
43645849 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCTCGAAGCT-TCCA
1 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCG--GGTATCCA
* * * * * * *
43645908 AAATTCC-GTTTTAACCCCGATTTCACTAAAAATTACCATTTTATCCCC--GAAACCTTTA
1 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCGGGTATCC---A
* * * *
43645966 AAATTCTATTTTTAACCCTGATTTCACCAAAATTTACCATTTTGCCCCCGGGTATCCA
1 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCGGGTATCCA
* *
43646024 CAAGTCCCATTTTTTTCACCCCGATTTCA
1 -AAATCCCA--TTTTTAACCCCGATTTCA
43646053 TCATTTATCA
Statistics
Matches: 112, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
55 2 0.02
58 44 0.39
59 46 0.41
61 20 0.18
ACGTcount: A:0.29, C:0.30, G:0.06, T:0.35
Consensus pattern (58 bp):
AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCCCCGGGTATCCA
Found at i:43647590 original size:20 final size:22
Alignment explanation
Indices: 43647554--43647609 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
43647544 TTTAATCAAA
*
43647554 TTATAATAAATATATTTTATA-T
1 TTATAA-AAACATATTTTATAGT
*
43647576 TT-TCAAAACATA-TTTATAGT
1 TTATAAAAACATATTTTATAGT
43647596 TTATAAAAACATAT
1 TTATAAAAACATAT
43647610 AGGGCAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 11 0.39
22 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (22 bp):
TTATAAAAACATATTTTATAGT
Found at i:43650561 original size:6 final size:6
Alignment explanation
Indices: 43650550--43650577 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
43650540 AATTAAATTT
43650550 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTT
43650578 AATATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
ATTTTA
Found at i:43650561 original size:11 final size:11
Alignment explanation
Indices: 43650542--43650586 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
43650532 TACTTTGAAA
*
43650542 TTAAATTTATT
1 TTAATTTTATT
43650553 TTAATTTTAATT
1 TTAATTTT-ATT
*
43650565 TTAATTTTAAT
1 TTAATTTTATT
*
43650576 TTAATATTATT
1 TTAATTTTATT
43650587 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:43651443 original size:30 final size:29
Alignment explanation
Indices: 43651409--43651472 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
43651399 GAAATAGGGG
43651409 TAATAAATG-TTTTAATAATAATTAATACAA
1 TAATAAA-GATTTTAATAATAATTAATA-AA
* *
43651439 TAATAAAGATTTTTAATAATATTTATTAAA
1 TAATAAAGA-TTTTAATAATAATTAATAAA
43651469 TAAT
1 TAAT
43651473 TATTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.03
30 13 0.43
31 16 0.53
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (29 bp):
TAATAAAGATTTTAATAATAATTAATAAA
Found at i:43652524 original size:30 final size:30
Alignment explanation
Indices: 43652490--43652817 Score: 276
Period size: 29 Copynumber: 11.1 Consensus size: 30
43652480 AAAAAATGTA
***
43652490 TTTTAACCTCGAAACTTTTGAAAATTACAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
* * *
43652520 TTTTACCCCCG-AACTTCCAAAAATTCCAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
* * * *
43652549 TTTTGACCCCAAAACTTTCAAAAATTACAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
** *
43652579 TTTTTCCCTCG-AACATCCAAAAATT-CTAT
1 TTTTAACCTCGAAACTTCCAAAAATTAC-AT
* *
43652608 TTTTAACTTCGAAACTTCCCAAAATTACAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
*
43652638 TTTT-ACCTCG-AACTTCCAAAAATTACAA
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
* * * **
43652666 TTTTGACCCCGAAACTTCCCAAAATTTTAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
* * *
43652696 TTTTACCCTTG-AACTTCCAAAAATTCCAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
* * *
43652725 TTTTGACCCCAAAACTTCCAAAAATTACAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
* *
43652755 TTTTAACC-CCAAACTTCCAAAAATTTCAT
1 TTTTAACCTCGAAACTTCCAAAAATTACAT
* * * *
43652784 ATTTAACC-CTAAATTTTCCCAAAATTACCAT
1 TTTTAACCTCGAAA-CTTCCAAAAATTA-CAT
43652815 TTT
1 TTT
43652818 GCCATTGAGA
Statistics
Matches: 237, Mismatches: 52, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
28 21 0.09
29 105 0.44
30 105 0.44
31 6 0.03
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTTAACCTCGAAACTTCCAAAAATTACAT
Found at i:43652574 original size:59 final size:59
Alignment explanation
Indices: 43652510--43652817 Score: 359
Period size: 59 Copynumber: 5.2 Consensus size: 59
43652500 GAAACTTTTG
* *
43652510 AAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCA
1 AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * * * ** * *
43652569 AAAATTACATTTTTTCCCTCGAACATCCAAAAATTCTATTTTTAACTTCGAAACTTCCC
1 AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * * *
43652628 AAAATTACATTTTTA-CCTCGAACTTCCAAAAATTACAATTTTGACCCCGAAACTTCCC
1 AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
** *
43652686 AAAATTTTATTTTTACCCTTGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
* * * * * ** *
43652745 AAAATTACATTTTTAACCC-CAAACTTCCAAAAATTTCATATTTAACCCTAAATTTTCCC
1 AAAATTACATTTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
43652804 AAAATTACCATTTT
1 AAAATTA-CATTTT
43652818 GCCATTGAGA
Statistics
Matches: 210, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
58 49 0.23
59 151 0.72
60 10 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCA
Found at i:43652789 original size:29 final size:29
Alignment explanation
Indices: 43652510--43652817 Score: 264
Period size: 30 Copynumber: 10.4 Consensus size: 29
43652500 GAAACTTTTG
* *
43652510 AAAATTACATTTTTACCCCCGAACTTCCA
1 AAAATTACATTTTTAACCCCAAACTTCCA
* * *
43652539 AAAATTCCATTTTTGACCCCAAAACTTTCA
1 AAAATTACATTTTTAACCCC-AAACTTCCA
* * *
43652569 AAAATTACATTTTT-TCCCTCGAACATCCA
1 AAAATTACATTTTTAACCC-CAAACTTCCA
* * *
43652598 AAAATT-CTATTTTTAACTTCGAAACTTCCC
1 AAAATTAC-ATTTTTAAC-CCCAAACTTCCA
* *
43652628 AAAATTACATTTTT-ACCTCGAACTTCCA
1 AAAATTACATTTTTAACCCCAAACTTCCA
* * *
43652656 AAAATTACAATTTTGACCCCGAAACTTCCC
1 AAAATTACATTTTTAACCCC-AAACTTCCA
** **
43652686 AAAATTTTATTTTT-ACCCTTGAACTTCCA
1 AAAATTACATTTTTAACCC-CAAACTTCCA
* *
43652715 AAAATTCCATTTTTGACCCCAAAACTTCCA
1 AAAATTACATTTTTAACCCC-AAACTTCCA
43652745 AAAATTACATTTTTAACCCCAAACTTCCA
1 AAAATTACATTTTTAACCCCAAACTTCCA
* * * * *
43652774 AAAATTTCATATTTAACCCTAAATTTTCCC
1 AAAATTACATTTTTAACCCCAAA-CTTCCA
43652804 AAAATTACCATTTT
1 AAAATTA-CATTTT
43652818 GCCATTGAGA
Statistics
Matches: 222, Mismatches: 44, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
28 21 0.09
29 96 0.43
30 98 0.44
31 7 0.03
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTTAACCCCAAACTTCCA
Found at i:43652861 original size:146 final size:146
Alignment explanation
Indices: 43652711--43653008 Score: 327
Period size: 146 Copynumber: 2.0 Consensus size: 146
43652701 CCCTTGAACT
* * **
43652711 TCCAAAAAT-TCCATTTTTGA-CCCCAAAACTTCCAAAAATTA-CATTTTTAACCCCAAACTTCC
1 TCCAAAAATCT-CATTTTTGATCCCCAAAACTTCCAAAAATTACCA-TGTTAACCCAAAAAGT-C
* *** * *
43652773 AAAAATTTCATATTTAACCCT-AAATTTTCCCAAAATTACCATTTTG-CCATTGAGAGTCCAAAA
63 AAAAATGTCATATTTAA-CCTAAAATTTTCCCAAAATTACCATTTTGTCC-CCAAAAATCCAAAA
43652836 TTACCATTTTGCCCTCGGGCA
126 TTACCATTTTGCCCTCGGGCA
* * *** ** * *
43652857 TCCAAAAATCTCGTTTTTGATCCCGAATTTTTGTAAAAATTACCATGTTATCCCAAAAAGTCTAA
1 TCCAAAAATCTCATTTTTGATCCCCAAAACTTCCAAAAATTACCATGTTAACCCAAAAAGTCAAA
*
43652922 AATGTCATTTTTAACCTAAAATTTTCCCAAAATTACCATTTTGTCCCCAAAAATCCAAAATTACC
66 AATGTCATATTTAACCTAAAATTTTCCCAAAATTACCATTTTGTCCCCAAAAATCCAAAATTACC
*
43652987 ATTTTGCCCTCGGGTA
131 ATTTTGCCCTCGGGCA
43653003 TCCAAA
1 TCCAAA
43653009 GGTCCTGTTT
Statistics
Matches: 126, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
145 3 0.02
146 92 0.73
147 29 0.23
148 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (146 bp):
TCCAAAAATCTCATTTTTGATCCCCAAAACTTCCAAAAATTACCATGTTAACCCAAAAAGTCAAA
AATGTCATATTTAACCTAAAATTTTCCCAAAATTACCATTTTGTCCCCAAAAATCCAAAATTACC
ATTTTGCCCTCGGGCA
Found at i:43653360 original size:97 final size:97
Alignment explanation
Indices: 43653228--43653409 Score: 262
Period size: 97 Copynumber: 1.9 Consensus size: 97
43653218 AAACTTTAAA
* * *
43653228 ATCGAGGCAATATTCTTTTATTTCGAGTTTCGAAA-TTTTGCACCTTAACTTACTAGGTGCGATT
1 ATCGAGGCAATATTCTCTTATTTCGAGTTTCGAAATTTTTGCACCTTAACTTACTAGGTGCAATC
43653292 TTTCTTCAAATCGAAATAATCGAATACCCTTTT
66 TTTC-TCAAATCGAAATAATCGAATACCCTTTT
* *
43653325 ATCGAGGCAATGTT-TCCTTATCTTCGA-TTTTGAAATTTTTGCACCTTAACTTACTAGGTGCAA
1 ATCGAGGCAATATTCT-CTTAT-TTCGAGTTTCGAAATTTTTGCACCTTAACTTACTAGGTGCAA
*
43653388 TCTTTCTCAAATCGAGATAATC
64 TCTTTCTCAAATCGAAATAATC
43653410 AAACATCCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
96 1 0.01
97 39 0.51
98 36 0.47
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (97 bp):
ATCGAGGCAATATTCTCTTATTTCGAGTTTCGAAATTTTTGCACCTTAACTTACTAGGTGCAATC
TTTCTCAAATCGAAATAATCGAATACCCTTTT
Found at i:43658494 original size:29 final size:29
Alignment explanation
Indices: 43658403--43658509 Score: 92
Period size: 29 Copynumber: 3.7 Consensus size: 29
43658393 GGTGAAATCG
43658403 GGGTTAAAAAATAGAATTTTGGAAAATTTA
1 GGGTT-AAAAATAGAATTTTGGAAAATTTA
* * * * * **
43658433 -CGATCAAAATGGTAATTTTGGTGAAA-TCG
1 GGGTTAAAAATAG-AATTTTGG-AAAATTTA
43658462 GGGTTAAAAATAGAATTTTGGAAAATTTA
1 GGGTTAAAAATAGAATTTTGGAAAATTTA
* *
43658491 GGGTTAAAAAGATAATTTT
1 GGGTTAAAAATAGAATTTT
43658510 AAGAAGTTTC
Statistics
Matches: 57, Mismatches: 16, Indels: 9
0.70 0.20 0.11
Matches are distributed among these distances:
28 9 0.16
29 37 0.65
30 11 0.19
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (29 bp):
GGGTTAAAAATAGAATTTTGGAAAATTTA
Found at i:43658507 original size:58 final size:59
Alignment explanation
Indices: 43658386--43658509 Score: 196
Period size: 58 Copynumber: 2.1 Consensus size: 59
43658376 GGTGAAAGGG
* *
43658386 TAATTTTGGTGAAATCGGGGTTAAAAAATAGAATTTTGGAAAATTTACGATCAAAATGG
1 TAATTTTGGTGAAATCGGGGTTAAAAAATAGAATTTTGGAAAATTTACGATCAAAAAGA
* * *
43658445 TAATTTTGGTGAAATCGGGGTT-AAAAATAGAATTTTGGAAAATTTAGGGTTAAAAAGA
1 TAATTTTGGTGAAATCGGGGTTAAAAAATAGAATTTTGGAAAATTTACGATCAAAAAGA
43658503 TAATTTT
1 TAATTTT
43658510 AAGAAGTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
58 38 0.63
59 22 0.37
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.35
Consensus pattern (59 bp):
TAATTTTGGTGAAATCGGGGTTAAAAAATAGAATTTTGGAAAATTTACGATCAAAAAGA
Found at i:43658530 original size:58 final size:58
Alignment explanation
Indices: 43658386--43658559 Score: 165
Period size: 58 Copynumber: 2.9 Consensus size: 58
43658376 GGTGAAAGGG
** * * * *
43658386 TAATTTTGGTGAAATCGGGGTTAAAAAATAGAATTTTGGAAAATTTACGATCAAAATGG
1 TAATTTTGAAGAAATCGGGGTT-AAAAATAGAATTTTGGAAAATTTAGGGTCAAAAAGA
** *
43658445 TAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAATTTAGGGTTAAAAAGA
1 TAATTTTGAAGAAATCGGGGTTAAAAATAGAATTTTGGAAAATTTAGGGTCAAAAAGA
* * *
43658503 TAATTTT-AAGAAGTTTCGGGG-TCAAAAT-GTAATTTTGGAGAAGTTTTAGGGTCAAAA
1 TAATTTTGAAGAA--ATCGGGGTTAAAAATAG-AATTTTGGA-AA-ATTTAGGGTCAAAA
43658560 CCTAATTTTG
Statistics
Matches: 99, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
57 4 0.04
58 53 0.54
59 30 0.30
60 12 0.12
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (58 bp):
TAATTTTGAAGAAATCGGGGTTAAAAATAGAATTTTGGAAAATTTAGGGTCAAAAAGA
Found at i:43658547 original size:30 final size:30
Alignment explanation
Indices: 43658475--43658687 Score: 181
Period size: 30 Copynumber: 7.2 Consensus size: 30
43658465 TTAAAAATAG
* *
43658475 AATTTTGGAAAA-TTT-AGGGTTAAAAAGAT
1 AATTTTGGAAAAGTTTCAGGGTCAAAATG-T
*
43658504 AATTTT--AAGAAGTTTCGGGGTCAAAATGT
1 AATTTTGGAA-AAGTTTCAGGGTCAAAATGT
* * **
43658533 AATTTTGGAGAAGTTTTAGGGTCAAAACCT
1 AATTTTGGAAAAGTTTCAGGGTCAAAATGT
*
43658563 AATTTTGGAAAAGTAT-AGGTGTCAAAATGT
1 AATTTTGGAAAAGTTTCAGG-GTCAAAATGT
** * * *
43658593 AATTTTCAAAAAGTTTTAGGGTTAAAATAT
1 AATTTTGGAAAAGTTTCAGGGTCAAAATGT
43658623 AATTTTGG-AAAG-TTCAAGGGTCAAAATGT
1 AATTTTGGAAAAGTTTC-AGGGTCAAAATGT
* **
43658652 AATTTTTGAAAAGTTTTGGGGTCAAAATAG-
1 AATTTTGGAAAAGTTTCAGGGTCAAAAT-GT
43658682 AATTTT
1 AATTTT
43658688 TGGATAGTTT
Statistics
Matches: 148, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.01
28 4 0.03
29 41 0.28
30 94 0.64
31 7 0.05
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (30 bp):
AATTTTGGAAAAGTTTCAGGGTCAAAATGT
Found at i:43658568 original size:59 final size:59
Alignment explanation
Indices: 43658475--43658687 Score: 184
Period size: 59 Copynumber: 3.6 Consensus size: 59
43658465 TTAAAAATAG
* * *
43658475 AATTTTGGAAAA--TTTAGGGTTAAAAAGATAATTTTAAGAAGTTTCGGGGTCAAAATGT
1 AATTTTCGAAAAGTTTTAGGG-TCAAAACATAATTTTAAGAAGTTTCGGGGTCAAAATGT
* * * * * *
43658533 AATTTTGGAGAAGTTTTAGGGTCAAAACCTAATTTTGGAA-AAGTATAGGTGTCAAAATGT
1 AATTTTCGAAAAGTTTTAGGGTCAAAACATAATTTT--AAGAAGTTTCGGGGTCAAAATGT
* * * * *
43658593 AATTTTCAAAAAGTTTTAGGGTTAAAATATAATTTT-GGAAAG-TTCAAGGGTCAAAATGT
1 AATTTTCGAAAAGTTTTAGGGTCAAAACATAATTTTAAG-AAGTTTC-GGGGTCAAAATGT
* * * *
43658652 AATTTTTGAAAAGTTTTGGGGTCAAAATAGAATTTT
1 AATTTTCGAAAAGTTTTAGGGTCAAAACATAATTTT
43658688 TGGATAGTTT
Statistics
Matches: 125, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
58 12 0.10
59 57 0.46
60 54 0.43
61 2 0.02
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (59 bp):
AATTTTCGAAAAGTTTTAGGGTCAAAACATAATTTTAAGAAGTTTCGGGGTCAAAATGT
Found at i:43658588 original size:60 final size:58
Alignment explanation
Indices: 43658521--43658701 Score: 202
Period size: 60 Copynumber: 3.0 Consensus size: 58
43658511 AGAAGTTTCG
* * *
43658521 GGGTCAAAATGTAATTTTGGAGAAGTTTTAGGGTCAAAACCTAATTTTGGAAAAG-TATA
1 GGGTCAAAATGTAATTTTCGAAAAGTTTTAGGGTCAAAACATAATTTTGG-AAAGTTA-A
* * *
43658580 GGTGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATAATTTTGGAAAGTTCAA
1 GG-GTCAAAATGTAATTTTCGAAAAGTTTTAGGGTCAAAACATAATTTTGGAAAGTT-AA
* * * * *
43658640 GGGTCAAAATGTAATTTTTGAAAAGTTTTGGGGTCAAAATAGAATTTTTGGATAGTTTAA
1 GGGTCAAAATGTAATTTTCGAAAAGTTTTAGGGTCAAAACATAA-TTTTGGAAAG-TTAA
43658700 GG
1 GG
43658702 ACCTATAGAG
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
59 43 0.41
60 59 0.56
61 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (58 bp):
GGGTCAAAATGTAATTTTCGAAAAGTTTTAGGGTCAAAACATAATTTTGGAAAGTTAA
Found at i:43660641 original size:6 final size:6
Alignment explanation
Indices: 43660624--43660685 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
43660614 GAAATTCAAG
* * * * *
43660624 TTAAAT TCAAAT TTAAAT TTAAAA TTGAAT TTAAA- ATAAAT TTAAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
43660671 TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAA
43660686 TTTCAAAGTA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
5 8 0.19
6 35 0.81
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:43660667 original size:11 final size:11
Alignment explanation
Indices: 43660637--43660671 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
43660627 AATTCAAATT
43660637 TAAATTTAAAA
1 TAAATTTAAAA
*
43660648 TTGAATTTAAAA
1 -TAAATTTAAAA
43660660 TAAATTTAAAA
1 TAAATTTAAAA
43660671 T
1 T
43660672 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:43660697 original size:17 final size:16
Alignment explanation
Indices: 43660645--43660688 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
43660635 TTTAAATTTA
*
43660645 AAATTGAATTTAAAAT
1 AAATTTAATTTAAAAT
*
43660661 AAATTTAAAATTAAAAT
1 AAATTT-AATTTAAAAT
43660678 AAATTTAATTT
1 AAATTTAATTT
43660689 CAAAGTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATTTAATTTAAAAT
Found at i:43661075 original size:92 final size:92
Alignment explanation
Indices: 43660955--43662828 Score: 3242
Period size: 92 Copynumber: 20.5 Consensus size: 92
43660945 ATGTCGAGAT
* * * **
43660955 TTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACAACAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
* *
43661020 AAGAGGATAGGAAATGATGTTTGATGT
66 AAGAGGATAGGAAATGATATTTGATGC
*
43661047 TTTGTCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43661112 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43661139 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCAAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43661204 AAGAGGATAGGAAATGATGTTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
* *
43661231 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
* *
43661296 AAGAGGATAGAAAATGATGTTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43661323 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTG
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43661388 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
* * *
43661415 TTTATCTATCTCTTACTTCAATTTCGGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43661480 AAGAGGATAGGAAATGATGTTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
* *
43661507 TTTATCT-G-GC-T-CTTCAATTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43661568 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43661595 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43661660 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
43661687 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43661752 AAGTGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
* *
43661779 TTTATCTAGCTCTTGCATCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43661844 AAGAGGATAGGAAATGATATTTGATGA
66 AAGAGGATAGGAAATGATATTTGATGC
*
43661871 TTTATTTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43661936 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
* *
43661963 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43662028 AAGAGGATAGGAAATGATGTTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43662055 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTG
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43662120 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43662147 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43662212 AAGAGGATAGGAAATGATGTTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
* *
43662239 TTTATCT-G-GC-T-CTTCAATTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43662300 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43662327 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
43662392 AAGAGGATAGGAAATGATATTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
* *
43662419 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43662484 AAGAGGATAGGAAATGATGTTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43662511 TTTATCTAGCTCTTACTTTAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
* * *
43662576 AAGAGGATAGTAAATGATATTTAATGT
66 AAGAGGATAGGAAATGATATTTGATGC
*
43662603 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAGTTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
* * *
43662668 AAGAGGATAGAAAATGATGTTTGATAC
66 AAGAGGATAGGAAATGATATTTGATGC
*
43662695 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTG
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
* *
43662760 AAGAGGATAGAAAATGATGTTTGATGC
66 AAGAGGATAGGAAATGATATTTGATGC
43662787 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTG
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTG
43662829 TCATCGTGGA
Statistics
Matches: 1691, Mismatches: 83, Indels: 16
0.94 0.05 0.01
Matches are distributed among these distances:
88 161 0.10
89 4 0.00
90 4 0.00
91 3 0.00
92 1519 0.90
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (92 bp):
TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
AAGAGGATAGGAAATGATATTTGATGC
Found at i:43662358 original size:732 final size:732
Alignment explanation
Indices: 43660955--43662828 Score: 3478
Period size: 732 Copynumber: 2.6 Consensus size: 732
43660945 ATGTCGAGAT
* * * **
43660955 TTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACAACAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
* *
43661020 AAGAGGATAGGAAATGATGTTTGATGTTTTGTCTAGCTCTTACTTCAATTTCAGAGAGATAAAGA
66 AAGAGGATAGGAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGA
*
43661085 CTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGCTTTATCTAGCT
131 CTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGATTTATCTAGCT
*
43661150 CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCAAACTTTACTTCAATTTCAAGAGGATAGG
196 CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGG
43661215 AAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCA
261 AAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCA
43661280 TCTTTACTTCAATTTCAAGAGGATAGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAAT
326 TCTTTACTTCAATTTCAAGAGGATAGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAAT
43661345 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTGAAGAGGATAGGAAATGATATTT
391 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTGAAGAGGATAGGAAATGATATTT
* *
43661410 GATGCTTTATCTATCTCTTACTTCAATTTCGGAGAGATAAAGACTTGCTATCCAACTTTACTTTA
456 GATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTA
43661475 ATTTCAAGAGGATAGGAAATGATGTTTGATGCTTTATCTGGCTCTTCAATTTCAAAGAGATAAAG
521 ATTTCAAGAGGATAGGAAATGATGTTTGATGCTTTATCTGGCTCTTCAATTTCAAAGAGATAAAG
43661540 ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGCTTTATCTAGC
586 ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGCTTTATCTAGC
43661605 TCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTCAAGAGGATAG
651 TCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTCAAGAGGATAG
43661670 GAAATGATATTTGATGC
716 GAAATGATATTTGATGC
43661687 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
* * * *
43661752 AAGTGGATAGGAAATGATATTTGATGCTTTATCTAGCTCTTGCATCAATTTCAGAGAGATAAAGA
66 AAGAGGATAGGAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGA
*
43661817 CTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGATTTATTTAGCT
131 CTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGATTTATCTAGCT
43661882 CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGG
196 CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGG
*
43661947 AAATGATATTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCA
261 AAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCA
*
43662012 TCTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAAT
326 TCTTTACTTCAATTTCAAGAGGATAGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAAT
43662077 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTGAAGAGGATAGGAAATGATATTT
391 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTGAAGAGGATAGGAAATGATATTT
43662142 GATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTA
456 GATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTA
43662207 ATTTCAAGAGGATAGGAAATGATGTTTGATGCTTTATCTGGCTCTTCAATTTCAAAGAGATAAAG
521 ATTTCAAGAGGATAGGAAATGATGTTTGATGCTTTATCTGGCTCTTCAATTTCAAAGAGATAAAG
43662272 ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGCTTTATCTAGC
586 ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGCTTTATCTAGC
43662337 TCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTCAAGAGGATAG
651 TCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTCAAGAGGATAG
43662402 GAAATGATATTTGATGC
716 GAAATGATATTTGATGC
* *
43662419 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTTCAATTTC
1 TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
*
43662484 AAGAGGATAGGAAATGATGTTTGATGCTTTATCTAGCTCTTACTTTAATTTCAGAGAGATAAAGA
66 AAGAGGATAGGAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGA
* * *
43662549 CTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGTAAATGATATTTAATGTTTTATCTAGCT
131 CTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGATTTATCTAGCT
* *
43662614 CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAGTTTCAAGAGGATAGA
196 CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGG
* *
43662679 AAATGATGTTTGATACTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCA
261 AAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCA
* *
43662744 ACTTTACTTCAATTTGAAGAGGATAGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAAT
326 TCTTTACTTCAATTTCAAGAGGATAGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAAT
43662809 TTCAGAGAGATAAAGACTTG
391 TTCAGAGAGATAAAGACTTG
43662829 TCATCGTGGA
Statistics
Matches: 1105, Mismatches: 37, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
732 1105 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (732 bp):
TTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
AAGAGGATAGGAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGA
CTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGATTTATCTAGCT
CTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGG
AAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCA
TCTTTACTTCAATTTCAAGAGGATAGAAAATGATGTTTGATGCTTTATCTAGCTCTTACTTCAAT
TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTGAAGAGGATAGGAAATGATATTT
GATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTA
ATTTCAAGAGGATAGGAAATGATGTTTGATGCTTTATCTGGCTCTTCAATTTCAAAGAGATAAAG
ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTTGATGCTTTATCTAGC
TCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTTAATTTCAAGAGGATAG
GAAATGATATTTGATGC
Found at i:43669804 original size:10 final size:10
Alignment explanation
Indices: 43669802--43669830 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
43669792 TTATTAATAT
43669802 TTATTTATTA
1 TTATTTATTA
43669812 TTA-TTATTA
1 TTATTTATTA
43669821 TTATTTATTA
1 TTATTTATTA
43669831 CCATTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTTATTA
Found at i:43669806 original size:14 final size:14
Alignment explanation
Indices: 43669787--43669816 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43669777 AGGTTTCTTT
43669787 TTTATTTATTAATA
1 TTTATTTATTAATA
*
43669801 TTTATTTATTATTA
1 TTTATTTATTAATA
43669815 TT
1 TT
43669817 ATTATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTTATTAATA
Found at i:43669953 original size:21 final size:21
Alignment explanation
Indices: 43669929--43669978 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
43669919 GTTTATCGAA
*
43669929 ATATTAGAATGACTTAAATAT
1 ATATTAAAATGACTTAAATAT
*
43669950 ATATTAAAATGACTTAAATGT
1 ATATTAAAATGACTTAAATAT
*
43669971 ATAATAAA
1 ATATTAAA
43669979 TATATAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (21 bp):
ATATTAAAATGACTTAAATAT
Found at i:43670594 original size:17 final size:16
Alignment explanation
Indices: 43670572--43670660 Score: 70
Period size: 17 Copynumber: 5.2 Consensus size: 16
43670562 ACTTTTCTTT
*
43670572 TTAAATTTATAATAATA
1 TTAAATTTA-AATAAAA
* *
43670589 TTAAATTTAAATTAGA
1 TTAAATTTAAATAAAA
43670605 TTCAAATTTAAATTAAAA
1 TT-AAATTTAAA-TAAAA
* *
43670623 TTGAATTTAAAATAAAT
1 TTAAATTT-AAATAAAA
* *
43670640 TTAAGATTAAAATAAAT
1 TTAA-ATTTAAATAAAA
43670657 TTAA
1 TTAA
43670661 TTTTCAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
16 7 0.12
17 42 0.70
18 11 0.18
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAATAAAA
Found at i:43671130 original size:38 final size:38
Alignment explanation
Indices: 43671020--43671289 Score: 162
Period size: 38 Copynumber: 7.2 Consensus size: 38
43671010 CTTTACCTCG
* * * *
43671020 ATTTCAAGAGGATAGGAAATGGTCTTGCCCTTACTCCA
1 ATTTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCA
* ** **
43671058 ATTTC-AGA-GATAAAGACTTGATATCCAGCT-TTACTTCA
1 ATTTCAAGAGGAT-AGGAAATGAT-T-TTGCTCTTACTTCA
*
43671096 ATTTCAAGAGGATAGGAAATGATTTTGTTCTTACTTCA
1 ATTTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCA
* ** * * *
43671134 ATTTC-AGA-GATAAAGACGTG-TTATCCACTCTACTTCA
1 ATTTCAAGAGGAT-AGGAAATGATTTTGCTCT-TACTTCA
* * *
43671171 ATTTCAAGCGGATAGGAAAAGATCTTGCTCTTACTTCA
1 ATTTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCA
* ** * * *
43671209 ATTTC-AGA-GATAAAGACGTG-TTATCCACTCTACTTCA
1 ATTTCAAGAGGAT-AGGAAATGATTTTGCTCT-TACTTCA
* * *
43671246 ATTTCAAGCGGATAGGAAAAGATCTTGCTCTTACTTCA
1 ATTTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCA
43671284 ATTTCA
1 ATTTCA
43671290 GAGATAAAGA
Statistics
Matches: 167, Mismatches: 49, Indels: 32
0.67 0.20 0.13
Matches are distributed among these distances:
36 19 0.11
37 49 0.29
38 68 0.41
39 28 0.17
40 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (38 bp):
ATTTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCA
Found at i:43671204 original size:75 final size:75
Alignment explanation
Indices: 43670976--43671324 Score: 509
Period size: 75 Copynumber: 4.6 Consensus size: 75
43670966 TGCTTCATCT
* * * * *
43670976 TTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACCTCGATTTCAAGAGGATAGGAAATG
1 TTCAATTTC--AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAG
* *
43671041 GTCTTGCCCTTAC
63 ATCTTGCTCTTAC
* * * * *
43671054 TCCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAGGATAGGAAAAGAT
* *
43671119 TTTGTTCTTAC
65 CTTGCTCTTAC
*
43671130 TTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATAGGAAAAGATC
1 TTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATC
43671195 TTGCTCTTAC
66 TTGCTCTTAC
*
43671205 TTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGATAGGAAAAGATC
1 TTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATC
43671270 TTGCTCTTAC
66 TTGCTCTTAC
*
43671280 TTCAATTTCAGAGATAAAGACGTGTTATCCATTCTACTTCAATTT
1 TTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTT
43671325 AATTGGACTT
Statistics
Matches: 253, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
75 159 0.63
76 86 0.34
78 8 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (75 bp):
TTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGAAAAGATC
TTGCTCTTAC
Found at i:43671349 original size:6 final size:6
Alignment explanation
Indices: 43671340--43671429 Score: 52
Period size: 6 Copynumber: 15.8 Consensus size: 6
43671330 GACTTTTCTT
*
43671340 TTTAAA TTTATAA --TAATA TT-AAA TTTAAA -TTAAA TTCAAA TTTAAA
1 TTTAAA TTTA-AA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * *
43671386 -TTAAA ATTGAA TTTAAA -ATAAA TTTAAGA -TTAAA -ATAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAA
43671430 TTTTCAAATG
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
4 1 0.02
5 25 0.38
6 36 0.55
7 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:43671363 original size:17 final size:16
Alignment explanation
Indices: 43671341--43671432 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 16
43671331 ACTTTTCTTT
43671341 TTAAATTTATAA-TAATA
1 TTAAATTTA-AATTAA-A
43671358 TTAAATTTAAATTAAA
1 TTAAATTTAAATTAAA
43671374 TTCAAATTTAAATTAAAA
1 TT-AAATTTAAATT-AAA
* *
43671392 TTGAATTTAAAATAAA
1 TTAAATTTAAATTAAA
*
43671408 TTTAAGA-TTAAAATAAA
1 -TTAA-ATTTAAATTAAA
*
43671425 TTTAATTT
1 TTAAATTT
43671433 TCAAATGGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
15 1 0.02
16 13 0.20
17 45 0.69
18 6 0.09
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:43671373 original size:11 final size:11
Alignment explanation
Indices: 43671357--43671432 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
43671347 TTATAATAAT
43671357 ATTAAATTTAA
1 ATTAAATTTAA
*
43671368 ATTAAATTCAA
1 ATTAAATTTAA
*
43671379 ATTTAAATTAAA
1 A-TTAAATTTAA
*
43671391 ATTGAATTTAA
1 ATTAAATTTAA
*
43671402 AATAAATTTAA
1 ATTAAATTTAA
*
43671413 GATTAAA-ATAA
1 -ATTAAATTTAA
*
43671424 ATTTAATTT
1 ATTAAATTT
43671433 TCAAATGGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
10 5 0.10
11 32 0.62
12 15 0.29
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:43671399 original size:34 final size:34
Alignment explanation
Indices: 43671343--43671409 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
43671333 TTTTCTTTTT
* *
43671343 AAATTTATAATAATATTAAATTTAAATTAAATTC
1 AAATTTATAATAAAATTAAATTTAAAATAAATTC
*
43671377 AAATTTA-AATTAAAATTGAATTTAAAATAAATT
1 AAATTTATAA-TAAAATTAAATTTAAAATAAATT
43671410 TAAGATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 2 0.07
34 27 0.93
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (34 bp):
AAATTTATAATAAAATTAAATTTAAAATAAATTC
Found at i:43673111 original size:19 final size:19
Alignment explanation
Indices: 43673089--43673133 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
43673079 ATTTTCTTTA
*
43673089 TAATTTTTTTTAAAACTAT
1 TAATTTTTTTTAAAAATAT
*
43673108 TAATATTTTTTAAAAATAT
1 TAATTTTTTTTAAAAATAT
*
43673127 AAATTTT
1 TAATTTT
43673134 GGATTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATTTTTTTTAAAAATAT
Found at i:43673144 original size:17 final size:18
Alignment explanation
Indices: 43673124--43673159 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
43673114 TTTTTAAAAA
43673124 TATAAAT-TTTGGATTTT
1 TATAAATATTTGGATTTT
*
43673141 TATAAATATTTTGATTTT
1 TATAAATATTTGGATTTT
43673159 T
1 T
43673160 TTATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
TATAAATATTTGGATTTT
Found at i:43673170 original size:18 final size:18
Alignment explanation
Indices: 43673124--43673170 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
43673114 TTTTTAAAAA
*
43673124 TATAAA-TTTTGGATTTT
1 TATAAATTTTTTGATTTT
*
43673141 TATAAATATTTTGATTTT
1 TATAAATTTTTTGATTTT
* *
43673159 TTTATATTTTTT
1 TATAAATTTTTT
43673171 TGAGAGACTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TATAAATTTTTTGATTTT
Found at i:43674382 original size:23 final size:23
Alignment explanation
Indices: 43674352--43674403 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
43674342 ATCCTTACTA
* *
43674352 ACTGGACCTTCTAGAAGCCGCTG
1 ACTGGACCTTCTAAAAGCCACTG
*
43674375 ACTGGACCTTCTAAAAGCTACTG
1 ACTGGACCTTCTAAAAGCCACTG
43674398 ACTGGA
1 ACTGGA
43674404 TTCCACGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (23 bp):
ACTGGACCTTCTAAAAGCCACTG
Found at i:43674603 original size:16 final size:16
Alignment explanation
Indices: 43674582--43674615 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43674572 GTAATTAAGG
43674582 ATAAAATA-TTAATCAA
1 ATAAAATACTT-ATCAA
43674598 ATAAAATACTTATCAA
1 ATAAAATACTTATCAA
43674614 AT
1 AT
43674616 TCCCCCTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAATACTTATCAA
Found at i:43675244 original size:17 final size:17
Alignment explanation
Indices: 43675222--43675254 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43675212 AACAGTTTTC
*
43675222 TCTTTTTTTTGTTCTTT
1 TCTTTTTCTTGTTCTTT
43675239 TCTTTTTCTTGTTCTT
1 TCTTTTTCTTGTTCTT
43675255 CATTATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (17 bp):
TCTTTTTCTTGTTCTTT
Found at i:43676028 original size:6 final size:6
Alignment explanation
Indices: 43676017--43676104 Score: 52
Period size: 6 Copynumber: 13.5 Consensus size: 6
43676007 TCTCAAAAAG
* * *
43676017 AAATAA AAATAA TATTAA TAAATAA AAATTTA AAAT-A AAATAA AAGATAGA
1 AAATAA AAATAA AAATAA -AAATAA AAA-TAA AAATAA AAATAA AA-ATA-A
* *
43676068 AATATAA ATAATCA AAATAA ATTAATAA TAATAA AAA
1 AA-ATAA A-AATAA AAATAA A--AATAA AAATAA AAA
43676105 AAATAATGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 5 0.08
6 29 0.45
7 18 0.28
8 12 0.19
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.26
Consensus pattern (6 bp):
AAATAA
Found at i:43677398 original size:17 final size:17
Alignment explanation
Indices: 43677362--43677443 Score: 78
Period size: 17 Copynumber: 4.8 Consensus size: 17
43677352 AACTTTTAAT
*
43677362 TTTTAAATCTT-AGTTTA
1 TTTTAAAT-TTAAATTTA
*
43677379 TTTTAAATTTAAATTCA
1 TTTTAAATTTAAATTTA
43677396 -TTTAGAATTTAAATTTA
1 TTTTA-AATTTAAATTTA
* *
43677413 TGTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
* *
43677430 TTTTGAATTAAAAT
1 TTTTAAATTTAAAT
43677444 GATTTAAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
16 6 0.11
17 44 0.83
18 3 0.06
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:43677413 original size:34 final size:34
Alignment explanation
Indices: 43677375--43677443 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
43677365 TAAATCTTAG
* *
43677375 TTTATTTTAAATTTAAATTCATTTAGAATTTAAA
1 TTTATGTTAAATTTAAATTCATTTAGAATTAAAA
* * *
43677409 TTTATGTTAAATTTGAATTTATTTTGAATTAAAA
1 TTTATGTTAAATTTAAATTCATTTAGAATTAAAA
43677443 T
1 T
43677444 GATTTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (34 bp):
TTTATGTTAAATTTAAATTCATTTAGAATTAAAA
Found at i:43678073 original size:11 final size:11
Alignment explanation
Indices: 43678006--43678083 Score: 52
Period size: 11 Copynumber: 7.1 Consensus size: 11
43677996 CAAAACCATT
*
43678006 TTTAAATTAAA
1 TTTAAATTTAA
** *
43678017 TTTATTTTTAT
1 TTTAAATTTAA
*
43678028 TTTAGATTT-A
1 TTTAAATTTAA
* *
43678038 TATTAAATTCAC
1 T-TTAAATTTAA
43678050 TTT-AATTTGAA
1 TTTAAATTT-AA
*
43678061 TTTGAATTTAA
1 TTTAAATTTAA
43678072 TTTAAATTTAA
1 TTTAAATTTAA
43678083 T
1 T
43678084 ATTATTGTAA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
10 5 0.10
11 39 0.78
12 6 0.12
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:43678743 original size:21 final size:21
Alignment explanation
Indices: 43678714--43678764 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
43678704 CTATCATCTA
*
43678714 TTTATTATACATTTAAGTCAT
1 TTTAATATACATTTAAGTCAT
*
43678735 TTTAATATATATTTAAGTCAT
1 TTTAATATACATTTAAGTCAT
*
43678756 TCTAATATA
1 TTTAATATA
43678765 ATGATAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTAATATACATTTAAGTCAT
Found at i:43678907 original size:21 final size:21
Alignment explanation
Indices: 43678867--43678907 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43678857 AAAAAACATT
*
43678867 AATGTTTTAGTAATAATAATG
1 AATGTTTTAATAATAATAATG
*
43678888 AATGTTTTAATAATATTAAT
1 AATGTTTTAATAATAATAAT
43678908 AATTAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (21 bp):
AATGTTTTAATAATAATAATG
Found at i:43679654 original size:5 final size:5
Alignment explanation
Indices: 43679638--43679672 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
43679628 AACCCATTGC
* *
43679638 CCCGA CCAGA CCCGA CCCGA CCCGA TCCGA CCCGA
1 CCCGA CCCGA CCCGA CCCGA CCCGA CCCGA CCCGA
43679673 ATACCCTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.54, G:0.20, T:0.03
Consensus pattern (5 bp):
CCCGA
Found at i:43680089 original size:30 final size:30
Alignment explanation
Indices: 43680049--43680187 Score: 153
Period size: 30 Copynumber: 4.7 Consensus size: 30
43680039 CTTTGTAGGT
*
43680049 CCCT-AAACTTTCTAAAAATTATATTTTGA
1 CCCTAAAACTTTCTCAAAATTATATTTTGA
* *
43680078 CCCTAAAACTTTTTGAAAATTATATTTTGA
1 CCCTAAAACTTTCTCAAAATTATATTTTGA
* *
43680108 CCCCT-AAACTTT-TCCAAAATCATATTTTAA
1 -CCCTAAAACTTTCT-CAAAATTATATTTTGA
* *
43680138 CCCTAAAACTTTCT-AAATTTACATTTTGA
1 CCCTAAAACTTTCTCAAAATTATATTTTGA
*
43680167 CCCTAAAA-TTTCCCAAAATTA
1 CCCTAAAACTTTCTCAAAATTA
43680188 CCATTTTACC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
28 4 0.04
29 34 0.37
30 50 0.54
31 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (30 bp):
CCCTAAAACTTTCTCAAAATTATATTTTGA
Found at i:43680119 original size:60 final size:58
Alignment explanation
Indices: 43680049--43680201 Score: 173
Period size: 60 Copynumber: 2.6 Consensus size: 58
43680039 CTTTGTAGGT
* * * *
43680049 CCCTAAACTTTCTAAAAATTATATTTTGACCCTAAAACTTTTTGAAAATTATATTTTGA
1 CCCTAAACTTTCTCAAAATTATATTTTAACCCTAAAACTTTCT-AAAATTACATTTTGA
* *
43680108 CCCCTAAACTTT-TCCAAAATCATATTTTAACCCTAAAACTTTCTAAATTTACATTTTGA
1 -CCCTAAACTTTCT-CAAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTGA
* * * *
43680167 CCCTAAAATTTCCCAAAATTACCATTTTACCCCTA
1 CCCTAAACTTTCTCAAAATTA-TATTTTAACCCTA
43680202 GATTTTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
58 17 0.22
59 25 0.32
60 37 0.47
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (58 bp):
CCCTAAACTTTCTCAAAATTATATTTTAACCCTAAAACTTTCTAAAATTACATTTTGA
Found at i:43680142 original size:29 final size:29
Alignment explanation
Indices: 43680049--43680227 Score: 121
Period size: 30 Copynumber: 6.1 Consensus size: 29
43680039 CTTTGTAGGT
* *
43680049 CCCTAAAC-TTTCTAAAAATTATATTTTGA
1 CCCTAAACTTTTC-CAAAATTATATTTTAA
** *
43680078 CCCTAAAACTTTTTGAAAATTATATTTTGAC
1 CCCT-AAACTTTTCCAAAATTATATTTT-AA
*
43680109 CCCTAAACTTTTCCAAAATCATATTTTAA
1 CCCTAAACTTTTCCAAAATTATATTTTAA
* * * *
43680138 CCCTAAAAC-TTTCTAAATTTACATTTTGA
1 CCCT-AAACTTTTCCAAAATTATATTTTAA
* * * *
43680167 CCCTAAAATTTCCCAAAATTACCATTTTAC
1 CCCTAAACTTTTCCAAAATTA-TATTTTAA
* ** **
43680197 CCCTAGA-TTTTTAAAAATTCCATTTTAA
1 CCCTAAACTTTTCCAAAATTATATTTTAA
43680225 CCC
1 CCC
43680228 CGATTTCACC
Statistics
Matches: 119, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
28 13 0.11
29 46 0.39
30 53 0.45
31 7 0.06
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
CCCTAAACTTTTCCAAAATTATATTTTAA
Found at i:43680194 original size:30 final size:29
Alignment explanation
Indices: 43680049--43680187 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
43680039 CTTTGTAGGT
* **
43680049 CCCTAAACTTTCTAAAAATTATATTTTGA
1 CCCTAAAATTTCCCAAAATTATATTTTGA
***
43680078 CCCTAAAACTTTTTGAAAATTATATTTTGA
1 CCCTAAAA-TTTCCCAAAATTATATTTTGA
* * * *
43680108 CCCCTAAACTTTTCCAAAATCATATTTTAA
1 -CCCTAAAATTTCCCAAAATTATATTTTGA
* * *
43680138 CCCTAAAACTTT-CTAAATTTACATTTTGA
1 CCCTAAAA-TTTCCCAAAATTATATTTTGA
43680167 CCCTAAAATTTCCCAAAATTA
1 CCCTAAAATTTCCCAAAATTA
43680188 CCATTTTACC
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
28 3 0.03
29 41 0.46
30 39 0.43
31 7 0.08
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (29 bp):
CCCTAAAATTTCCCAAAATTATATTTTGA
Found at i:43680201 original size:30 final size:29
Alignment explanation
Indices: 43680049--43680228 Score: 107
Period size: 29 Copynumber: 6.1 Consensus size: 29
43680039 CTTTGTAGGT
* * *
43680049 CCCTAAACTTTCTAAAAATTATATTTTGA-
1 CCCTAAAATTTC-CAAAATTACATTTTGAC
** *
43680078 CCCTAAAACTTTTTGAAAATTATATTTTGAC
1 CCCTAAAA--TTTCCAAAATTACATTTTGAC
* * * *
43680109 CCCTAAACTTTTCCAAAATCATATTTT-AA
1 CCCTAAA-ATTTCCAAAATTACATTTTGAC
* *
43680138 CCCTAAAACTTTCTAAATTTACATTTTGA-
1 CCCTAAAA-TTTCCAAAATTACATTTTGAC
43680167 CCCTAAAATTTCCCAAAATTACCATTTT-AC
1 CCCTAAAATTT-CCAAAATTA-CATTTTGAC
* * ** * *
43680197 CCCTAGATTTTTAAAAATTCCATTTTAAC
1 CCCTAAAATTTCCAAAATTACATTTTGAC
43680226 CCC
1 CCC
43680229 GATTTCACCA
Statistics
Matches: 121, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
28 9 0.07
29 56 0.46
30 46 0.38
31 10 0.08
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.39
Consensus pattern (29 bp):
CCCTAAAATTTCCAAAATTACATTTTGAC
Found at i:43680201 original size:59 final size:60
Alignment explanation
Indices: 43680071--43680201 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 60
43680061 TAAAAATTAT
* * * * * *
43680071 ATTTTGACCCTAAAACTTTTTGAAAATTATATTTTGACCCCTAAACTTTTCCAAAATCAT
1 ATTTTAACCCTAAAACTTTCTGAAAATTACATTTTGACCCCTAAAATTTCCCAAAATCAC
* *
43680131 ATTTTAACCCTAAAACTTTCT-AAATTTACATTTTGA-CCCTAAAATTTCCCAAAATTACC
1 ATTTTAACCCTAAAACTTTCTGAAAATTACATTTTGACCCCTAAAATTTCCCAAAATCA-C
*
43680190 ATTTTACCCCTA
1 ATTTTAACCCTA
43680202 GATTTTTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 18 0.30
59 24 0.39
60 19 0.31
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (60 bp):
ATTTTAACCCTAAAACTTTCTGAAAATTACATTTTGACCCCTAAAATTTCCCAAAATCAC
Found at i:43680221 original size:58 final size:58
Alignment explanation
Indices: 43680159--43680316 Score: 144
Period size: 58 Copynumber: 2.7 Consensus size: 58
43680149 TCTAAATTTA
* * * *
43680159 CATTTTGACCCTAAAATTTC-CCA-AAATTACCATTTTACCCCTAGATTTTTAAAAATTC
1 CATTTTGACCC--AAATTTCACCAGAAATTACCATTTTACCCCTAAACTTCTAAAAATCC
* ** * *
43680217 CATTTTAACCCCGATTTCACCAGAAATTACTATTTTACCCTTAAACTTCTAAAAATCC
1 CATTTTGACCCAAATTTCACCAGAAATTACCATTTTACCCCTAAACTTCTAAAAATCC
* * *
43680275 CATTTTTGACCC-ATTTTCAGCCA-AAATTACCCTTTTGCCCCT
1 CA-TTTTGACCCAAATTTCA-CCAGAAATTACCATTTTACCCCT
43680317 CGGGTATCTG
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
56 5 0.06
57 3 0.04
58 61 0.76
59 11 0.14
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (58 bp):
CATTTTGACCCAAATTTCACCAGAAATTACCATTTTACCCCTAAACTTCTAAAAATCC
Found at i:43680272 original size:29 final size:30
Alignment explanation
Indices: 43680052--43680272 Score: 86
Period size: 30 Copynumber: 7.5 Consensus size: 30
43680042 TGTAGGTCCC
43680052 TAAACTTTCTAAAAATTA-TATTTTGACCCT
1 TAAAC-TTCTAAAAATTACTATTTTGACCCT
* * * *
43680082 AAAACTTTTTGAAAATTA-TATTTTGACCCC
1 TAAAC-TTCTAAAAATTACTATTTTGACCCT
* * * *
43680112 TAAACTTTTCCAAAATCA-TATTTTAACCCT
1 TAAACTTCT-AAAAATTACTATTTTGACCCT
* *
43680142 AAAACTTTCT-AAATTTAC-ATTTTGACCCT
1 TAAAC-TTCTAAAAATTACTATTTTGACCCT
* * ** * *
43680171 AAAATTTCCCAAAATTACCATTTT-ACCCC
1 TAAACTTCTAAAAATTACTATTTTGACCCT
* * * * *
43680200 TAGATTTTTAAAAATT-CCATTTTAACCCCGAT
1 TAAACTTCTAAAAATTACTATTTTGA-CCC--T
** *
43680232 TTCAC--C-AGAAATTACTATTTT-ACCCT
1 TAAACTTCTAAAAATTACTATTTTGACCCT
43680258 TAAACTTCTAAAAAT
1 TAAACTTCTAAAAAT
43680273 CCCATTTTTG
Statistics
Matches: 145, Mismatches: 33, Indels: 27
0.71 0.16 0.13
Matches are distributed among these distances:
26 4 0.03
28 14 0.10
29 58 0.40
30 64 0.44
31 3 0.02
32 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAACTTCTAAAAATTACTATTTTGACCCT
Found at i:43692807 original size:46 final size:46
Alignment explanation
Indices: 43692757--43692900 Score: 125
Period size: 46 Copynumber: 3.2 Consensus size: 46
43692747 TCCTATCCTC
*
43692757 TTGAAGTTATAGTAAAGATGGATATCAAGCCTTTATCCCTCTGAAA
1 TTGAAGTTATAGTAAAGATGGATATCAAGTCTTTATCCCTCTGAAA
* * * * * * ****
43692803 TTGAAGTAAGAGCAAA-ATGAAGCATCGACA-TCTTT-T-CCTATCCTC
1 TTGAAGTTATAGTAAAGATGGA-TATC-A-AGTCTTTATCCCTCTGAAA
*
43692848 TTGAAGTTATAGTAAAGATGGATATCAAGTCTTTATCTCTCTGAAA
1 TTGAAGTTATAGTAAAGATGGATATCAAGTCTTTATCCCTCTGAAA
43692894 TTGAAGT
1 TTGAAGT
43692901 AAGAGCAAGA
Statistics
Matches: 69, Mismatches: 22, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
43 1 0.01
44 6 0.09
45 25 0.36
46 31 0.45
47 5 0.07
48 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (46 bp):
TTGAAGTTATAGTAAAGATGGATATCAAGTCTTTATCCCTCTGAAA
Found at i:43692854 original size:45 final size:45
Alignment explanation
Indices: 43692712--43692854 Score: 112
Period size: 45 Copynumber: 3.2 Consensus size: 45
43692702 CCCTCTCAAA
* *
43692712 TTGAAGTAAGAGCAAGATGAAGCACCGACATCTTTTCCTATCCTC
1 TTGAAGTAAGAGCAAAATGAAGCATCGACATCTTTTCCTATCCTC
* * * * * * * ****
43692757 TTGAAGTTATAGTAAAGATGGA-TATC-A-AGCCTTTATCCCTCTGAAA
1 TTGAAGTAAGAGCAAA-ATGAAGCATCGACA-TCTTT-T-CCTATCCTC
43692803 TTGAAGTAAGAGCAAAATGAAGCATCGACATCTTTTCCTATCCTC
1 TTGAAGTAAGAGCAAAATGAAGCATCGACATCTTTTCCTATCCTC
43692848 TTGAAGT
1 TTGAAGT
43692855 TATAGTAAAG
Statistics
Matches: 67, Mismatches: 24, Indels: 14
0.64 0.23 0.13
Matches are distributed among these distances:
43 1 0.01
44 5 0.07
45 30 0.45
46 25 0.37
47 5 0.07
48 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (45 bp):
TTGAAGTAAGAGCAAAATGAAGCATCGACATCTTTTCCTATCCTC
Found at i:43692925 original size:91 final size:91
Alignment explanation
Indices: 43692008--43692911 Score: 1447
Period size: 91 Copynumber: 9.9 Consensus size: 91
43691998 TCAGATCAAT
* * *
43692008 CCGATATCTTTTTCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGA
1 CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGA
43692073 AATTGAAGTAAGAGCAAGATGAAGCA
66 AATTGAAGTAAGAGCAAGATGAAGCA
* *
43692099 CCGACATCTTTTTCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTAA
1 CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGA
43692164 AATTGAAGTAAGAGCAAGATGAAGCA
66 AATTGAAGTAAGAGCAAGATGAAGCA
* *
43692190 CCGACATCTTTTTCTATCCTCTTGAAATTGAAGTAGAGCTGGATATTAAGCCTTTGTCCCTCTGA
1 CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGA
43692255 AATTGAAGTAAGAGCAAGATGAAGCA
66 AATTGAAGTAAGAGCAAGATGAAGCA
* * * * *
43692281 CCGACATCTTTTCCTATCCTCTTGAAGTT-ATAGTAAAGATGGATATCAAGTCTTTATCCCTCTG
1 CCGACATCTTTTCCTATCCTCTTGAAATTGA-AGTAGAGCTGGATATCAAGCCTTTGTCCCTCTG
43692345 AAATTGAAGTAAGAGCAAGATGAAGCA
65 AAATTGAAGTAAGAGCAAGATGAAGCA
* *
43692372 CCGACATCTTTTCCTATCCTCCTGAAATTGAAGTAGAGCTAGATATCAAGCCTTTGTCCCTCTGA
1 CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGA
43692437 AATTGAAGTAAGAGCAAGATGAAGCA
66 AATTGAAGTAAGAGCAAGATGAAGCA
* * *
43692463 CCGACATCTTTTCCTATCCTCTTGAAGTT-ATAGTAAAGATGGATATCAAGCCTTTGTCCCTCTG
1 CCGACATCTTTTCCTATCCTCTTGAAATTGA-AGTAGAGCTGGATATCAAGCCTTTGTCCCTCTG
43692527 AAATTGAAGTAAGAGCAAGATGAAGCA
65 AAATTGAAGTAAGAGCAAGATGAAGCA
* *
43692554 CCGACATCTCTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCTCTCTGA
1 CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGA
*
43692619 AATTGAAGTAAGAGCAATATGAAGCA
66 AATTGAAGTAAGAGCAAGATGAAGCA
*
43692645 CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTCA
1 CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGA
43692710 AATTGAAGTAAGAGCAAGATGAAGCA
66 AATTGAAGTAAGAGCAAGATGAAGCA
* * * *
43692736 CCGACATCTTTTCCTATCCTCTTGAAGTT-ATAGTAAAGATGGATATCAAGCCTTTATCCCTCTG
1 CCGACATCTTTTCCTATCCTCTTGAAATTGA-AGTAGAGCTGGATATCAAGCCTTTGTCCCTCTG
*
43692800 AAATTGAAGTAAGAGCAAAATGAAGCA
65 AAATTGAAGTAAGAGCAAGATGAAGCA
* * * * * * *
43692827 TCGACATCTTTTCCTATCCTCTTGAAGTT-ATAGTAAAGATGGATATCAAGTCTTTATCTCTCTG
1 CCGACATCTTTTCCTATCCTCTTGAAATTGA-AGTAGAGCTGGATATCAAGCCTTTGTCCCTCTG
43692891 AAATTGAAGTAAGAGCAAGAT
65 AAATTGAAGTAAGAGCAAGAT
43692912 AAAACCCTGA
Statistics
Matches: 764, Mismatches: 44, Indels: 10
0.93 0.05 0.01
Matches are distributed among these distances:
90 3 0.00
91 759 0.99
92 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (91 bp):
CCGACATCTTTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGA
AATTGAAGTAAGAGCAAGATGAAGCA
Found at i:43693898 original size:21 final size:21
Alignment explanation
Indices: 43693869--43693919 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
43693859 CTATCATCTA
*
43693869 TTTATTATACATTTAAGTCAT
1 TTTAATATACATTTAAGTCAT
*
43693890 TTTAATATATATTTAAGTCAT
1 TTTAATATACATTTAAGTCAT
*
43693911 TCTAATATA
1 TTTAATATA
43693920 ATGATAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTAATATACATTTAAGTCAT
Found at i:43694062 original size:21 final size:21
Alignment explanation
Indices: 43694022--43694062 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43694012 AAAAAACATT
*
43694022 AATGTTTTAGTAATAATAATG
1 AATGTTTTAATAATAATAATG
*
43694043 AATGTTTTAATAATATTAAT
1 AATGTTTTAATAATAATAAT
43694063 AATTAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (21 bp):
AATGTTTTAATAATAATAATG
Found at i:43694954 original size:30 final size:30
Alignment explanation
Indices: 43694884--43695051 Score: 189
Period size: 30 Copynumber: 5.6 Consensus size: 30
43694874 CTTTGTAGGT
* * *
43694884 CCCT-AAACTTTTTGAAAATTATATTTTGAC
1 CCCTAAAACTTTCTAAAAATTATATTTT-AA
*
43694914 CCCAAAAACTTTCTAAAAATTATATTTTAA
1 CCCTAAAACTTTCTAAAAATTATATTTTAA
* *
43694944 CCCTAAAACTTTTTAGAAATTATATTTTAA
1 CCCTAAAACTTTCTAAAAATTATATTTTAA
*
43694974 -CCTCAAAACTTTCTAAAAATTACATTTTAA
1 CCCT-AAAACTTTCTAAAAATTATATTTTAA
* * *
43695004 CCCTTAAACTTT-TCCAAAATCATATTTTAA
1 CCCTAAAACTTTCT-AAAAATTATATTTTAA
*
43695034 CCCCAAAACTTTCTAAAA
1 CCCTAAAACTTTCTAAAA
43695052 TTCCATTTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
29 4 0.03
30 87 0.75
31 25 0.22
ACGTcount: A:0.40, C:0.20, G:0.02, T:0.38
Consensus pattern (30 bp):
CCCTAAAACTTTCTAAAAATTATATTTTAA
Found at i:43694989 original size:60 final size:59
Alignment explanation
Indices: 43694884--43695060 Score: 234
Period size: 60 Copynumber: 3.0 Consensus size: 59
43694874 CTTTGTAGGT
* *
43694884 CCCTAAACTTTTT-GAAAATTATATTTTGACCCCAAAAACTTTCTAAAAATTATATTTTAA
1 CCCTAAACTTTTTAG-AAATTATATTTTAACCCC-AAAACTTTCTAAAAATTACATTTTAA
*
43694944 CCCTAAAACTTTTTAGAAATTATATTTTAACCTCAAAACTTTCTAAAAATTACATTTTAA
1 CCCT-AAACTTTTTAGAAATTATATTTTAACCCCAAAACTTTCTAAAAATTACATTTTAA
* * *
43695004 CCCTTAAACTTTTCCA-AAATCATATTTTAACCCCAAAACTTTCT-AAAATTCCATTTT
1 CCC-TAAACTTTT-TAGAAATTATATTTTAACCCCAAAACTTTCTAAAAATTACATTTT
43695061 TAACATCGAT
Statistics
Matches: 106, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
59 12 0.11
60 66 0.62
61 27 0.25
62 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.40
Consensus pattern (59 bp):
CCCTAAACTTTTTAGAAATTATATTTTAACCCCAAAACTTTCTAAAAATTACATTTTAA
Found at i:43695541 original size:95 final size:96
Alignment explanation
Indices: 43695377--43695555 Score: 222
Period size: 95 Copynumber: 1.9 Consensus size: 96
43695367 AAACTTTAAT
* * **
43695377 ATCAAGGCAATATTATTTAATTTCGCATTTTGAAATCTTGCGCCTTAACTTACTAGGTGTAATTT
1 ATCAAGGCAATATTATTTAATTTCGCATTTTGAAATCTTGCGCCTTAACTCACTAGGTGCAATCC
43695442 TTCTTCAAACCGAAATAATCGAATACCCTTA
66 TTCTTCAAACCGAAATAATCGAATACCCTTA
* *
43695473 ATCAAGGCAATATT-TGTT-ATCTTTG-ATTTTGAAAAT-TTGCTCCTTAACTCACTAGGTGCAA
1 ATCAAGGCAATATTAT-TTAAT-TTCGCATTTTG-AAATCTTGCGCCTTAACTCACTAGGTGCAA
* * *
43695534 TCCTTCTTTAAATCGAGATAAT
63 TCCTTCTTCAAACCGAAATAAT
43695556 TAAATATTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
95 48 0.68
96 23 0.32
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (96 bp):
ATCAAGGCAATATTATTTAATTTCGCATTTTGAAATCTTGCGCCTTAACTCACTAGGTGCAATCC
TTCTTCAAACCGAAATAATCGAATACCCTTA
Found at i:43696190 original size:12 final size:13
Alignment explanation
Indices: 43696173--43696268 Score: 54
Period size: 13 Copynumber: 7.6 Consensus size: 13
43696163 GTATATTTTA
*
43696173 ATTAATAGT-AAT
1 ATTAATAATAAAT
43696185 ATTAATAATAAAT
1 ATTAATAATAAAT
** *
43696198 ATTAGCATTAAAT
1 ATTAATAATAAAT
** * *
43696211 AGCATTAATAAGT
1 ATTAATAATAAAT
*
43696224 ACTAATAA-AAAT
1 ATTAATAATAAAT
* *
43696236 ATTATTAATAATT
1 ATTAATAATAAAT
*
43696249 AATAATAAT-AAT
1 ATTAATAATAAAT
*
43696261 AATAATAA
1 ATTAATAA
43696269 AAGAATCTGA
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
12 27 0.44
13 35 0.56
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.36
Consensus pattern (13 bp):
ATTAATAATAAAT
Found at i:43696239 original size:22 final size:22
Alignment explanation
Indices: 43696214--43696268 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
43696204 ATTAAATAGC
43696214 ATTAATAAGT-ACTAATAAAAAT
1 ATTAATAA-TAACTAATAAAAAT
* * *
43696236 ATTATTAATAATTAATAATAAT
1 ATTAATAATAACTAATAAAAAT
*
43696258 AATAATAATAA
1 ATTAATAATAA
43696269 AAGAATCTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATTAATAATAACTAATAAAAAT
Found at i:43696242 original size:25 final size:25
Alignment explanation
Indices: 43696214--43696261 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43696204 ATTAAATAGC
*
43696214 ATTAATAAGTACTAATAAAAATATT
1 ATTAATAAGTAATAATAAAAATATT
* *
43696239 ATTAATAATTAATAATAATAATA
1 ATTAATAAGTAATAATAAAAATA
43696262 ATAATAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATAAGTAATAATAAAAATATT
Found at i:43696247 original size:3 final size:3
Alignment explanation
Indices: 43696216--43696268 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
43696206 TAAATAGCAT
* * * *
43696216 TAA TAA GTAC TAA TAA AAA TAT TAT TAA TAA TTAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
43696263 TAA TAA
1 TAA TAA
43696269 AAGAATCTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
3 37 0.88
4 5 0.12
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:43697481 original size:29 final size:29
Alignment explanation
Indices: 43697360--43697708 Score: 257
Period size: 29 Copynumber: 11.9 Consensus size: 29
43697350 TAAGGTCCCT
43697360 AAACTATCCAAAAATTACATTTTGACCCTC-
1 AAACT-TCCAAAAATTACATTTTGACCC-CA
* * * *
43697390 AAACATCTCTAAAATTACATTTTAACCTCA
1 AAACTTC-CAAAAATTACATTTTGACCCCA
*
43697420 AAACTTTTCC-AAAATTACATTTTTG--CCCT
1 AAAC--TTCCAAAAATTACA-TTTTGACCCCA
43697449 AAACTTCCAAAAATTACATTTTGACCCCA
1 AAACTTCCAAAAATTACATTTTGACCCCA
** * *
43697478 AAACTTAAAAAAATTACATTTTTACCCCC
1 AAACTTCCAAAAATTACATTTTGACCCCA
* * * *
43697507 AAACTTCCCAAAATTCCATTTTTAACCCTA
1 AAACTTCCAAAAATTACA-TTTTGACCCCA
* * * *
43697537 AAACTTCCCAAAATTA-TTTTTTACCCCT
1 AAACTTCCAAAAATTACATTTTGACCCCA
* * * *
43697565 AAACTTTCAAAAATTCCATTTTAACCCCG
1 AAACTTCCAAAAATTACATTTTGACCCCA
* **
43697594 AAACTTCCAAAAATTACATATTTG-TCCGT
1 AAACTTCCAAAAATTACAT-TTTGACCCCA
* *
43697623 AAACTTCCAAAAATTTCATTTTTGACCCCG
1 AAACTTCCAAAAATTACA-TTTTGACCCCA
* * * *
43697653 AAACTTCAAAAAATTCCATTTTTTACCCTA
1 AAACTTCCAAAAATTACA-TTTTGACCCCA
43697683 AAA-TTCTC-AAAATTACTATTTT-ACCC
1 AAACTTC-CAAAAATTAC-ATTTTGACCC
43697709 TCGGATATCC
Statistics
Matches: 256, Mismatches: 48, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
27 9 0.04
28 34 0.13
29 114 0.45
30 92 0.36
31 5 0.02
32 2 0.01
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTGACCCCA
Found at i:43697576 original size:116 final size:114
Alignment explanation
Indices: 43697369--43697708 Score: 326
Period size: 116 Copynumber: 2.9 Consensus size: 114
43697359 TAAACTATCC
* * * * *
43697369 AAAAATTACATTTTGACCCTCAAACATCTCTAAAATTACA-TTTTAA-CCTCAAAACTTTTCCAA
1 AAAAATTACATTTTTACCCCCAAACTTC-CAAAAATTACATTTTTAACCCT-AAAAC-TTCCCAA
* * *
43697432 AATTACATTTTTGCCCTAAACTTCCAAAAATTACATTTTGACCCCAAAACTTAA
63 AATTA-TTTTTTACCCTAAACTTTCAAAAATTACATTTT-ACCCCAAAACTTAA
* *
43697486 AAAAATTACATTTTTACCCCCAAACTTCCCAAAATTCCATTTTTAACCCTAAAACTTCCCAAAAT
1 AAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTAACCCTAAAACTTCCCAAAAT
* * **
43697551 TATTTTTTACCCCTAAACTTTCAAAAATTCCATTTTAACCCCGAAACTTCC
66 TATTTTTTA-CCCTAAACTTTCAAAAATTACATTTT-ACCCCAAAACTTAA
* ** ** * * ** **
43697602 AAAAATTACATATTTGTCCGTAAACTTCCAAAAATTTCATTTTTGACCCCGAAACTTCAAAAAAT
1 AAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTAACCCTAAAACTTCCCAAAAT
*
43697667 TCCATTTTTTACCCTAAAATTCTC-AAAATTACTATTTTACCC
66 T--ATTTTTTACCCTAAACTT-TCAAAAATTAC-ATTTTACCC
43697709 TCGGATATCC
Statistics
Matches: 188, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
115 5 0.03
116 109 0.58
117 56 0.30
118 18 0.10
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.34
Consensus pattern (114 bp):
AAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTAACCCTAAAACTTCCCAAAAT
TATTTTTTACCCTAAACTTTCAAAAATTACATTTTACCCCAAAACTTAA
Found at i:43700547 original size:22 final size:21
Alignment explanation
Indices: 43700507--43700547 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43700497 TTGAATTTTT
* *
43700507 TTTTTCAAACTCCCTAATTTC
1 TTTTTCAAAATCCCCAATTTC
43700528 TTTTTCAAAATCCTCCAATT
1 TTTTTCAAAATCC-CCAATT
43700548 CCCTGTACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTTCAAAATCCCCAATTTC
Found at i:43703975 original size:23 final size:23
Alignment explanation
Indices: 43703944--43703998 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
43703934 TCCATCCTTA
* *
43703944 CTGATTGGACCTTTTAGAAGCTG
1 CTGACTGGACCTTCTAGAAGCTG
43703967 CTGACTGGACCTTCTAGAAGCTG
1 CTGACTGGACCTTCTAGAAGCTG
43703990 CTGACTGGA
1 CTGACTGGA
43703999 TGCCACGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (23 bp):
CTGACTGGACCTTCTAGAAGCTG
Found at i:43709435 original size:16 final size:16
Alignment explanation
Indices: 43709411--43709442 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43709401 TTATAAAATA
43709411 TGATATTATTTGATCT
1 TGATATTATTTGATCT
*
43709427 TGATTTTATTTGATCT
1 TGATATTATTTGATCT
43709443 ACAATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TGATATTATTTGATCT
Found at i:43711019 original size:20 final size:20
Alignment explanation
Indices: 43710996--43711041 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
43710986 ATTTAACAAT
*
43710996 TAATAATA-CAATTATAATAA
1 TAATAATATC-ATGATAATAA
43711016 TAATAATATCATGATAATAA
1 TAATAATATCATGATAATAA
*
43711036 AAATAA
1 TAATAA
43711042 CAACATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
TAATAATATCATGATAATAA
Found at i:43711052 original size:20 final size:20
Alignment explanation
Indices: 43711009--43711053 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
43710999 TAATACAATT
* * * *
43711009 ATAATAATAATAATATCATG
1 ATAATAAAAATAACAACATA
43711029 ATAATAAAAATAACAACATA
1 ATAATAAAAATAACAACATA
43711049 ATAAT
1 ATAAT
43711054 TACTAGCATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATAAAAATAACAACATA
Found at i:43711205 original size:17 final size:17
Alignment explanation
Indices: 43711183--43711235 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
43711173 TTTAAAGTGT
43711183 TAAAAATAAATAAAAAA
1 TAAAAATAAATAAAAAA
43711200 TAAAAATAAA-AAAATAA
1 TAAAAATAAATAAAA-AA
43711217 -AACAAAT-AAT-AAAAA
1 TAA-AAATAAATAAAAAA
43711232 TAAA
1 TAAA
43711236 GTAAAGAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.09
16 13 0.41
17 16 0.50
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (17 bp):
TAAAAATAAATAAAAAA
Found at i:43711208 original size:13 final size:13
Alignment explanation
Indices: 43711190--43711235 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
43711180 TGTTAAAAAT
43711190 AAATAAAAAATAA
1 AAATAAAAAATAA
43711203 AAATAAAAAA-ATA
1 AAATAAAAAATA-A
* *
43711216 AAACAAATAATAA
1 AAATAAAAAATAA
43711229 AAATAAA
1 AAATAAA
43711236 GTAAAGAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:43711227 original size:26 final size:25
Alignment explanation
Indices: 43711184--43711235 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 25
43711174 TTAAAGTGTT
43711184 AAAAATAAATAAAAAATAAAAATAA
1 AAAAATAAATAAAAAATAAAAATAA
43711209 AAAAATAAA-ACAAATAATAAAAATAA
1 AAAAATAAATA-AAA-AATAAAAATAA
43711235 A
1 A
43711236 GTAAAGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 1 0.04
25 12 0.48
26 12 0.48
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (25 bp):
AAAAATAAATAAAAAATAAAAATAA
Found at i:43711275 original size:31 final size:32
Alignment explanation
Indices: 43711224--43711304 Score: 137
Period size: 31 Copynumber: 2.5 Consensus size: 32
43711214 TAAAACAAAT
43711224 AATAAAAATAAAGTAAAGAATTGAATTGAAGAA
1 AATAAAAA-AAAGTAAAGAATTGAATTGAAGAA
43711257 AATAAAAAAAA-TAAAGAATTGAATTGAAGAA
1 AATAAAAAAAAGTAAAGAATTGAATTGAAGAA
*
43711288 AATAAAAAAAATTAAAG
1 AATAAAAAAAAGTAAAG
43711305 TATAAATTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
31 31 0.66
32 8 0.17
33 8 0.17
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (32 bp):
AATAAAAAAAAGTAAAGAATTGAATTGAAGAA
Found at i:43711910 original size:222 final size:221
Alignment explanation
Indices: 43711517--43711960 Score: 771
Period size: 222 Copynumber: 2.0 Consensus size: 221
43711507 GATTAAATTG
43711517 CAAAGAAAATAAAATTAAAGGGTAAAATTAAAAGCAAGAAAAAAAATAAAATCAGGAGGCAATTA
1 CAAAGAAAATAAAATTAAAGGGTAAAATTAAAAGCAAGAAAAAAAATAAAATCAGGAGGCAATTA
* *
43711582 AAGAGGCTTTAAAAGTGGAAGGACCAAGCTTGCAATTTGACCCTCCCCTTGAAAACACGCAGATT
66 AAGAGGCTTAAAAAGCGGAAGGACCAAGCTTGCAATTTGACCCTCCCCTTGAAAACACGCAGATT
* * *
43711647 CTTGGGGATCAAGGTCGGGTCCTCGGGTCGATAATAAAATGACTCCATTTTAGGGGTTTTGAACC
131 CTTGGGGATCAAGGTCGGGTCCTCGGGTCGACAACAAAATGACGCCATTTTAGGGGTTTTGAACC
43711712 CAAGCCAAAACGATGTTGTTTCTATA
196 CAAGCCAAAACGATGTTGTTTCTATA
*
43711738 CAAAGAAAATAAAATTAAAGGGTAAAATTAAAAGTAAGAAAAAAAAATAAAATCAGGAGGCAATT
1 CAAAGAAAATAAAATTAAAGGGTAAAATTAAAAGCAAG-AAAAAAAATAAAATCAGGAGGCAATT
* *
43711803 AAAGAGGCTTAAAAAGCGGAAGGACCAAGCTTGCAATTTGACCCTTCCCTTGAAAACACGCGGAT
65 AAAGAGGCTTAAAAAGCGGAAGGACCAAGCTTGCAATTTGACCCTCCCCTTGAAAACACGCAGAT
* *
43711868 TCTTGGGGATCAAGGTCGGGTCCTCGGGTCGACAACAAAATGACGCCATTTTAGTGTTTTTGAAC
130 TCTTGGGGATCAAGGTCGGGTCCTCGGGTCGACAACAAAATGACGCCATTTTAGGGGTTTTGAAC
* *
43711933 CCAAGCTAAAATGATGTTGTTTCTATA
195 CCAAGCCAAAACGATGTTGTTTCTATA
43711960 C
1 C
43711961 CTAGGCCAAA
Statistics
Matches: 210, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
221 37 0.18
222 173 0.82
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (221 bp):
CAAAGAAAATAAAATTAAAGGGTAAAATTAAAAGCAAGAAAAAAAATAAAATCAGGAGGCAATTA
AAGAGGCTTAAAAAGCGGAAGGACCAAGCTTGCAATTTGACCCTCCCCTTGAAAACACGCAGATT
CTTGGGGATCAAGGTCGGGTCCTCGGGTCGACAACAAAATGACGCCATTTTAGGGGTTTTGAACC
CAAGCCAAAACGATGTTGTTTCTATA
Found at i:43713401 original size:94 final size:94
Alignment explanation
Indices: 43713290--43713506 Score: 249
Period size: 94 Copynumber: 2.3 Consensus size: 94
43713280 GCTATAGTAG
* * * *
43713290 TTTCAATCTGATCCACTATAACTTCAGGGATAT-GAGATTTGTAGCTTAATTTTGCCTCACTACA
1 TTTCAATCCGATCCACTAGAACTTCAGGGATATAG-GATTTGTAGCTTAATCTTGCCCCACTACA
* *
43713354 TCTTCATG-GAGATAGTACTTGTTATTATAA
65 TCTTCA-GAGAGATAGGACTTGTTAATATAA
* * * *
43713384 TTTCAATCCGATGCACTAGAGCTTCAGGGATATAGGATTTGTAGCTTCATCTTGCCCCACTACGT
1 TTTCAATCCGATCCACTAGAACTTCAGGGATATAGGATTTGTAGCTTAATCTTGCCCCACTACAT
* *
43713449 CTTTAGAGAGATAGGACTTGTTAATGTAA
66 CTTCAGAGAGATAGGACTTGTTAATATAA
* * * * *
43713478 TTTCATTCCAACCCGCTACAACTTCAGGG
1 TTTCAATCCGATCCACTAGAACTTCAGGG
43713507 GGACTGGAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 1 0.01
94 100 0.98
95 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (94 bp):
TTTCAATCCGATCCACTAGAACTTCAGGGATATAGGATTTGTAGCTTAATCTTGCCCCACTACAT
CTTCAGAGAGATAGGACTTGTTAATATAA
Found at i:43715712 original size:58 final size:58
Alignment explanation
Indices: 43715649--43715864 Score: 176
Period size: 60 Copynumber: 3.7 Consensus size: 58
43715639 GTAAAATGAT
* *
43715649 AATTTTGGACTCTCGAGGGTAAAATGGTAATTTTAGAAAAATTTGGGATTAAAAAT-G
1 AATTTTGGACTCTCGAGGGTAAAATGATAATTTTAGAAAAATTTGGGATAAAAAATAG
* **
43715706 ACATTTTAGAC-CTCGAGGGTAAAACAATAATTTCTAGAAAAA-TTGGGATAAAAAAATAG
1 A-ATTTTGGACTCTCGAGGGTAAAATGATAATTT-TAGAAAAATTTGGGAT-AAAAAATAG
* * * * * *
43715765 ATTTTTTGGACACTCG-GGGCTAAAAATGATAATTTT-TAAAAGTTTCGGTG-TCAAAAATGG
1 A-ATTTTGGACTCTCGAGGG-T-AAAATGATAATTTTAGAAAAATTT-GG-GATAAAAAATAG
* *
43715825 AATTTTTGGACATC-CGAGGGTAAAATGGTAATTTTTGAAA
1 AA-TTTTGGAC-TCTCGAGGGTAAAATGATAATTTTAGAAA
43715865 GTTTTGAGGT
Statistics
Matches: 127, Mismatches: 18, Indels: 25
0.75 0.11 0.15
Matches are distributed among these distances:
57 27 0.21
58 22 0.17
59 29 0.23
60 30 0.24
61 18 0.14
62 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (58 bp):
AATTTTGGACTCTCGAGGGTAAAATGATAATTTTAGAAAAATTTGGGATAAAAAATAG
Found at i:43715829 original size:30 final size:31
Alignment explanation
Indices: 43715786--43716106 Score: 248
Period size: 30 Copynumber: 10.7 Consensus size: 31
43715776 ACTCGGGGCT
* *
43715786 AAAAATGATAATTTTTAAAAGTTTCG-GTGTC
1 AAAAATG-TAATTTTTGAAAGTTTCGAGGGTC
* * *
43715817 AAAAATGGAATTTTTGGACA--TCCGAGGGT-
1 AAAAATGTAATTTTT-GAAAGTTTCGAGGGTC
*
43715846 -AAAATGGTAATTTTTGAAAGTTTTGA-GGTC
1 AAAAAT-GTAATTTTTGAAAGTTTCGAGGGTC
*
43715876 AAAAATGTAATTTTTGGAAGTTT-GAGGGTC
1 AAAAATGTAATTTTTGAAAGTTTCGAGGGTC
* *
43715906 AAAAATGTAATTTTTGGAAGTTT-AAGGGT-
1 AAAAATGTAATTTTTGAAAGTTTCGAGGGTC
* * *
43715935 AAAAATGTAATTTTTAAAAGTTTTGA-GGTT
1 AAAAATGTAATTTTTGAAAGTTTCGAGGGTC
* *
43715965 AAAAATGTAATTTTTGGACA--TTCG-GGGGC
1 AAAAATGTAATTTTT-GAAAGTTTCGAGGGTC
43715994 --AAATGGTAATTTTTTGAAAGTTTCGA-GGTC
1 AAAAAT-GTAA-TTTTTGAAAGTTTCGAGGGTC
* * * *
43716024 AAAAATGTAATTATTGGAAGTTT-GGGGGTT
1 AAAAATGTAATTTTTGAAAGTTTCGAGGGTC
* * *
43716054 AAAAATGTAATATTTAAAAGTTTAG-GGGTC
1 AAAAATGTAATTTTTGAAAGTTTCGAGGGTC
*
43716084 -AAAATGTAATTTTCGAACAGTTT
1 AAAAATGTAATTTTTGAA-AGTTT
43716107 AAGGACCTCT
Statistics
Matches: 235, Mismatches: 33, Indels: 45
0.75 0.11 0.14
Matches are distributed among these distances:
27 4 0.02
28 15 0.06
29 65 0.28
30 126 0.54
31 21 0.09
32 4 0.02
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.37
Consensus pattern (31 bp):
AAAAATGTAATTTTTGAAAGTTTCGAGGGTC
Found at i:43715868 original size:59 final size:59
Alignment explanation
Indices: 43715757--43715949 Score: 182
Period size: 59 Copynumber: 3.3 Consensus size: 59
43715747 ATTGGGATAA
* * * * *
43715757 AAAAATAGATTTTTTGGACA-CTCG-GGGCTAAAAATGATAATTTTTAAAAGTTTCGGTGTC
1 AAAAATGGAATTTTTGGACATC-CGAGGG-TAAAAATGGTAATTTTTGAAAGTTTAGG-GTC
*
43715817 AAAAATGGAATTTTTGGACATCCGAGGGT-AAAATGGTAATTTTTGAAAGTTTTGAGGTC
1 AAAAATGGAATTTTTGGACATCCGAGGGTAAAAATGGTAATTTTTGAAAGTTTAG-GGTC
* ** *
43715876 AAAAATGTAATTTTTGGA-AGTTTGAGGGTCAAAAAT-GTAATTTTTGGAAGTTTAAGGGT-
1 AAAAATGGAATTTTTGGACA-TCCGAGGGT-AAAAATGGTAATTTTTGAAAGTTT-AGGGTC
*
43715935 AAAAATGTAATTTTT
1 AAAAATGGAATTTTT
43715950 AAAAGTTTTG
Statistics
Matches: 116, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
58 1 0.01
59 64 0.55
60 41 0.35
61 10 0.09
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (59 bp):
AAAAATGGAATTTTTGGACATCCGAGGGTAAAAATGGTAATTTTTGAAAGTTTAGGGTC
Found at i:43715956 original size:59 final size:57
Alignment explanation
Indices: 43715846--43716096 Score: 238
Period size: 59 Copynumber: 4.2 Consensus size: 57
43715836 ATCCGAGGGT
* * **
43715846 AAAATGGTAATTTTTGAAAGTTTTGAGGTCAAAAATGTAATTTTTGGAAGTTTGAGGGTCA
1 AAAAT-GTAATTTTTGGAAGTTTAG-GGT-AAAAATGTAATTTTTAAAAGTTTGA-GGTCA
*
43715907 AAAATGTAATTTTTGGAAGTTTAAGGGTAAAAATGTAATTTTTAAAAGTTTTGAGGTTA
1 AAAATGTAATTTTTGGAAGTTT-AGGGTAAAAATGTAATTTTTAAAAG-TTTGAGGTCA
* *** *
43715966 AAAATGTAATTTTTGGACA--TTCGGGGGCAAATGGTAATTTTTTGAAAGTTTCGAGGTCA
1 AAAATGTAATTTTTGGA-AGTTTAGGGTAAAAAT-GTAA-TTTTTAAAAGTTT-GAGGTCA
* * * *
43716025 AAAATGTAATTATTGGAAGTTTGGGGGTTAAAAATGTAATATTTAAAAGTTTAGGGGTC-
1 AAAATGTAATTTTTGGAAGTTT-AGGG-TAAAAATGTAATTTTTAAAAGTTT-GAGGTCA
43716084 AAAATGTAATTTT
1 AAAATGTAATTTT
43716097 CGAACAGTTT
Statistics
Matches: 159, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
57 7 0.04
58 10 0.06
59 82 0.52
60 43 0.27
61 13 0.08
62 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (57 bp):
AAAATGTAATTTTTGGAAGTTTAGGGTAAAAATGTAATTTTTAAAAGTTTGAGGTCA
Found at i:43715980 original size:89 final size:88
Alignment explanation
Indices: 43715785--43716110 Score: 297
Period size: 89 Copynumber: 3.6 Consensus size: 88
43715775 CACTCGGGGC
* * * ***
43715785 TAAAAATGATAATTTTTAAAAGTTTCGGTGTCAAAAATGGAATTTTTGGACA-TCCGAGGGT-AA
1 TAAAAATG-TAATTTTTAAAAGTTT-GGGGTC-AAAATGTAATTTTTGAACAGTTTAAGGGTAAA
43715848 AATGGTAATTTTTGAAAGTTTTGAGGT
63 AAT-GTAATTTTTGAAAGTTTTGAGGT
* ** *
43715875 CAAAAATGTAATTTTTGGAAGTTTGAGGGTCAAAAATGTAATTTTTGGA-AGTTTAAGGGTAAAA
1 TAAAAATGTAATTTTTAAAAGTTTG-GGGTC-AAAATGTAATTTTTGAACAGTTTAAGGGTAAAA
*
43715939 ATGTAATTTTTAAAAGTTTTGAGGT
64 ATGTAATTTTTGAAAGTTTTGAGGT
* * * * *
43715964 TAAAAATGTAATTTTTGGACA-TTCGGGGGC-AAATGGTAATTTTTTGAA-AGTTT-CGAGGTCA
1 TAAAAATGTAATTTTT-AAAAGTTTGGGGTCAAAAT-GTAA-TTTTTGAACAGTTTAAG-GGT-A
* * * *
43716025 AAAATGTAATTATTGGAAGTTTGGGGGT
61 AAAATGTAATTTTTGAAAGTTTTGAGGT
* *
43716053 TAAAAATGTAATATTTAAAAGTTTAGGGGTCAAAATGTAATTTTCGAACAGTTTAAGG
1 TAAAAATGTAATTTTTAAAAGTTT-GGGGTCAAAATGTAATTTTTGAACAGTTTAAGG
43716111 ACCTCTAGAA
Statistics
Matches: 195, Mismatches: 28, Indels: 26
0.78 0.11 0.10
Matches are distributed among these distances:
86 4 0.02
87 5 0.03
88 23 0.12
89 129 0.66
90 29 0.15
91 5 0.03
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.37
Consensus pattern (88 bp):
TAAAAATGTAATTTTTAAAAGTTTGGGGTCAAAATGTAATTTTTGAACAGTTTAAGGGTAAAAAT
GTAATTTTTGAAAGTTTTGAGGT
Found at i:43717757 original size:20 final size:20
Alignment explanation
Indices: 43717732--43717772 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
43717722 ACAAGTGGGA
43717732 TTTGGTTAGGGCCTTGGGTG
1 TTTGGTTAGGGCCTTGGGTG
43717752 TTTGGTTAGGGCCTTGGGTG
1 TTTGGTTAGGGCCTTGGGTG
43717772 T
1 T
43717773 AATTGGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.10, G:0.44, T:0.41
Consensus pattern (20 bp):
TTTGGTTAGGGCCTTGGGTG
Found at i:43717915 original size:11 final size:12
Alignment explanation
Indices: 43717898--43717953 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 12
43717888 AATTGGACTT
43717898 CTTAAA-TTAAA
1 CTTAAATTTAAA
*
43717909 TTTAAATTTAAA
1 CTTAAATTTAAA
43717921 CTTAGTAAAGTTTAAA
1 C-T--TAAA-TTTAAA
43717937 CTTAAA-TTAAA
1 CTTAAATTTAAA
43717948 CTTAAA
1 CTTAAA
43717954 CCTAAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 16 0.42
12 5 0.13
13 5 0.13
15 5 0.13
16 7 0.18
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (12 bp):
CTTAAATTTAAA
Found at i:43717936 original size:16 final size:15
Alignment explanation
Indices: 43717911--43717940 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43717901 AAATTAAATT
43717911 TAAATTTAAACTTAG
1 TAAATTTAAACTTAG
43717926 TAAAGTTTAAACTTA
1 TAAA-TTTAAACTTA
43717941 AATTAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
TAAATTTAAACTTAG
Found at i:43718364 original size:49 final size:49
Alignment explanation
Indices: 43718292--43718413 Score: 217
Period size: 49 Copynumber: 2.5 Consensus size: 49
43718282 GCTTGGCCTT
*
43718292 CTTCTTTATATCTCATCAGGAAGATGACCGTGTTACTTGTTTTAATCCG
1 CTTCTCTATATCTCATCAGGAAGATGACCGTGTTACTTGTTTTAATCCG
* *
43718341 CTTCTCTGTATCTCATCAGGAAGATGATCGTGTTACTTGTTTTAATCCG
1 CTTCTCTATATCTCATCAGGAAGATGACCGTGTTACTTGTTTTAATCCG
43718390 CTTCTCTATATCTCATCAGGAAGA
1 CTTCTCTATATCTCATCAGGAAGA
43718414 CGAATTTGGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (49 bp):
CTTCTCTATATCTCATCAGGAAGATGACCGTGTTACTTGTTTTAATCCG
Found at i:43718856 original size:201 final size:199
Alignment explanation
Indices: 43718341--43719332 Score: 1206
Period size: 201 Copynumber: 4.9 Consensus size: 199
43718331 TTTTAATCCG
* * * * * *
43718341 CTTCTCTGTATCTCATCAGGAAGATGATCGTGTTACTTGTTTTAATCCGCTTCTCTATATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCG-CTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
*
43718406 CAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCGTTTTATTGCTTCGA
65 C-GGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * **
43718471 CCTGCTTCTTAGTATCTCATCAGGAAGTTGGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTT
129 CCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGGTTCGAAGATTTGCTCACATCGAGCCTAAGTT
* *
43718536 TGATTTGGT
193 GGA-TT-GA
*
43718545 CTTCTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCACTTCTCTGTA--T
1 CTTC-TC-T-GTATCTCATCAGGAAGATGACCGC-TCACTTGTTTCAATTCGCTTCTCTGTATCT
43718608 CA--GGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
62 CATCGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * * *
43718671 GACTTGCTTCTCAATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCATTGAGCCTCAAG
127 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCCT-AAG
43718736 TTGGCA-T-A
191 TTGG-ATTGA
* *
43718744 CTTCTCTGTATCTCATCAAGAAGATGACTGTCTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCG-CTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
* * * *
43718809 CTGGAAGACGAATTTGGTCCACTTCTCAATATCTCATTAGAAAGCTAACCATTTTATTGCTTCAA
65 C-GGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * *
43718874 CCTGCTTCTCAGTATCTCATCAAGAA-CTTGGGGTTCGAAGATTTGCTCGCATTGAGCCTCAAGT
129 CCTGCTTCTCAGTATCTCATCAGGAAGC-TGGGGTTCGAAGATTTGCTCACATCGAGCCT-AAGT
43718938 TGGCA-T-A
192 TGG-ATTGA
* *
43718945 CTTCTCTATATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGCTTCTATGTATCTCAT
1 CTTCTCTGTATCTCATCAGGAAGATGACCG-CTCACTTGTTTCAATTCGCTTCTCTGTATCTCAT
*
43719010 CAGGAAGACGAATTTGGTCCACTTCTCAGCATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
65 C-GGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGA
* * * **
43719075 CTTGCTTCTCAGTATATCATCAGGAAGCTAGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTT
129 CCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGGTTCGAAGATTTGCTCACATCGAGCCTAAGTT
* *
43719140 TGATTTGGT
193 GGA-TT-GA
*
43719149 CTTCTTCTTAGTATCTCATCAGGAAGATGA-CGCATCACTTGTTTCAATTCGCTTCTCGGTA--T
1 CTTC-TC-T-GTATCTCATCAGGAAGATGACCGC-TCACTTGTTTCAATTCGCTTCTCTGTATCT
* * * * * *
43719211 CA--GGAAGATGAATTTGGTCCACTTCTTAGTATCCCATCAAGAAGCTAACCGTTTTATTACTTC
62 CATCGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
* * **
43719274 GACCTACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGGCTTG--CACATCGAGCCT
127 GACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCCT
43719333 TGTTTCATTA
Statistics
Matches: 698, Mismatches: 67, Indels: 52
0.85 0.08 0.06
Matches are distributed among these distances:
196 47 0.07
197 2 0.00
198 16 0.02
199 4 0.01
200 15 0.02
201 382 0.55
202 120 0.17
203 1 0.00
204 11 0.02
205 8 0.01
206 29 0.04
207 63 0.09
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (199 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCGCTCACTTGTTTCAATTCGCTTCTCTGTATCTCATC
GGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACC
TGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCCTAAGTTGGA
TTGA
Found at i:43729624 original size:58 final size:59
Alignment explanation
Indices: 43729551--43729671 Score: 140
Period size: 58 Copynumber: 2.1 Consensus size: 59
43729541 ACATAAGGGC
* * * * * *
43729551 AAAATGGTAATTTTAGAC-TCTCGAGGGCAAAATGGTAATTT-TGGAAAATTTTGGGATTA
1 AAAATGATAATTTTAGACAT-TCAAGGGCAAAACGGTAATTTCTAGAAAA-ATTGGGATCA
*
43729610 AAAATGAT-ATTTTAGACATTCAAGGGTAAAACGGTAATTTCTAGAAAAATTGGGATCA
1 AAAATGATAATTTTAGACATTCAAGGGCAAAACGGTAATTTCTAGAAAAATTGGGATCA
43729668 AAAA
1 AAAA
43729672 CGGATTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
58 39 0.74
59 14 0.26
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (59 bp):
AAAATGATAATTTTAGACATTCAAGGGCAAAACGGTAATTTCTAGAAAAATTGGGATCA
Found at i:43729739 original size:30 final size:29
Alignment explanation
Indices: 43729692--43730073 Score: 236
Period size: 30 Copynumber: 12.9 Consensus size: 29
43729682 GGACATACGG
43729692 GGGTAAAAATTGTAATTTTTGAAAGTTTCA
1 GGGTAAAAA-TGTAATTTTTGAAAGTTTCA
* * * *
43729722 AGGTCAAAAATGGAATTTTTGGACA---TCC
1 GGGT-AAAAATGTAATTTTT-GAAAGTTTCA
* *
43729750 GGGGATAAAATGGTAATTTTTGAAAGTTTTA
1 GGGTA-AAAAT-GTAATTTTTGAAAGTTTCA
** *
43729781 GGGTCAAAAATGTAAGCTTTGGAAG-TTCGA
1 GGGT-AAAAATGTAATTTTTGAAAGTTTC-A
*
43729811 GGGTTAAAAATGT-ATATTTTGGAAGTTT-A
1 GGG-TAAAAATGTAAT-TTTTGAAAGTTTCA
*
43729840 GGGGTAAAAATGTAA--TTTGAAAAGTTTTA
1 -GGGTAAAAATGTAATTTTTG-AAAGTTTCA
* *
43729869 GGGTAAAAAATGTAATTTTTGGACA--TTCGG
1 GGGT-AAAAATGTAATTTTT-GAAAGTTTC-A
*
43729899 GGGT-AAAATGGTAATTTTTGAAAGTTTTA
1 GGGTAAAAAT-GTAATTTTTGAAAGTTTCA
*
43729928 GGGTAAAAATGTAATTTTTG-GA-TATTCA
1 GGGTAAAAATGTAATTTTTGAAAGT-TTCA
* * * * **
43729956 AGCTTAAAATGGTAATTTTTAAAAGTTTTG
1 GGGTAAAAAT-GTAATTTTTGAAAGTTTCA
*
43729986 GGGTTAAAAATGTAATTTTTGAAAGTTTAA
1 GGG-TAAAAATGTAATTTTTGAAAGTTTCA
*
43730016 GGATCAAAAATGTAATTTTTGGAAA--TTCA
1 GGGT-AAAAATGTAATTTTT-GAAAGTTTCA
* *
43730045 GGGGTCAAAATGTAATTTTCGAACAGTTT
1 -GGGTAAAAATGTAATTTTTGAA-AGTTT
43730074 AAGGACCTCC
Statistics
Matches: 272, Mismatches: 44, Indels: 71
0.70 0.11 0.18
Matches are distributed among these distances:
27 6 0.02
28 44 0.16
29 84 0.31
30 98 0.36
31 38 0.14
32 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGAAAGTTTCA
Found at i:43729880 original size:58 final size:57
Alignment explanation
Indices: 43729756--43730034 Score: 228
Period size: 58 Copynumber: 4.7 Consensus size: 57
43729746 ATCCGGGGAT
* * * **
43729756 AAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAAGCTTTGGAAGTTCGAGGGTTA
1 AAAAT-GTAATTTTTGGAAG-TTTAGGGT-AAAAATGTAA-TTTTGAAAGTTTTAGGGTTA
*
43729817 AAAATGT-ATATTTTGGAAGTTTAGGGGTAAAAATGTAA-TTTGAAAAGTTTTAGGGTAA
1 AAAATGTAAT-TTTTGGAAGTTTA-GGGTAAAAATGTAATTTTG-AAAGTTTTAGGGTTA
**
43729875 AAAATGTAATTTTTGGACA-TTCGGGGGT-AAAATGGTAATTTTTGAAAGTTTTAGGG-TA
1 AAAATGTAATTTTTGGA-AGTT-TAGGGTAAAAAT-GTAA-TTTTGAAAGTTTTAGGGTTA
* * * * * *
43729933 AAAATGTAATTTTTGGATA-TTCAAGCTTAAAATGGTAATTTTTAAAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGGA-AGTTTAGGGTAAAAAT-GTAA-TTTTGAAAGTTTTAGGGTTA
* *
43729992 AAAATGTAATTTTTGAAAGTTTAAGGATCAAAAATGTAATTTT
1 AAAATGTAATTTTTGGAAGTTT-AGGGT-AAAAATGTAATTTT
43730035 TGGAAATTCA
Statistics
Matches: 184, Mismatches: 20, Indels: 30
0.79 0.09 0.13
Matches are distributed among these distances:
57 11 0.06
58 83 0.45
59 55 0.30
60 25 0.14
61 10 0.05
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (57 bp):
AAAATGTAATTTTTGGAAGTTTAGGGTAAAAATGTAATTTTGAAAGTTTTAGGGTTA
Done.