Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 19 of 145
Found at i:5991280 original size:19 final size:20
Alignment explanation
Indices: 5991242--5991281 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
5991232 TTTATATAAA
*
5991242 ATAAATAAATATGCGTATAT
1 ATAAATAAATATGCGCATAT
*
5991262 ATAAA-AAATATGTGCATAT
1 ATAAATAAATATGCGCATAT
5991281 A
1 A
5991282 GGTGTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
ATAAATAAATATGCGCATAT
Found at i:5991674 original size:3 final size:3
Alignment explanation
Indices: 5991666--5991727 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
5991656 AATAAATAGG
5991666 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5991714 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
5991728 GGACTAATTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6005182 original size:57 final size:57
Alignment explanation
Indices: 6005094--6005203 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
6005084 TTAAGTTTTT
* * * *
6005094 AATGTAATTTTCTCTAATTTAAGTTAATCCAACTCGACTCATGAACAACTCTATTTG
1 AATGTAATTTTCTCTAATTCAAGTCAATCCAACTCGACTCATAAAAAACTCTATTTG
** * *
6005151 AATGTAATTTTCTCTAATTCGGGTCGATCCAACTCTACTCATAAAAAACTCTA
1 AATGTAATTTTCTCTAATTCAAGTCAATCCAACTCGACTCATAAAAAACTCTA
6005204 ATTACTGATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (57 bp):
AATGTAATTTTCTCTAATTCAAGTCAATCCAACTCGACTCATAAAAAACTCTATTTG
Found at i:6012089 original size:27 final size:27
Alignment explanation
Indices: 6012051--6012104 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6012041 GCAAAAAAAA
6012051 AAAAAAGAGGGGGGTTTAGTTTGTGCG
1 AAAAAAGAGGGGGGTTTAGTTTGTGCG
*
6012078 AAAAAAGAGGGGTGTTTAGTTTGTGCG
1 AAAAAAGAGGGGGGTTTAGTTTGTGCG
6012105 TGTTAGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.39, T:0.28
Consensus pattern (27 bp):
AAAAAAGAGGGGGGTTTAGTTTGTGCG
Found at i:6025563 original size:13 final size:13
Alignment explanation
Indices: 6025545--6025569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6025535 TGTTTATATG
6025545 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
6025558 TTTTTCTTTTTT
1 TTTTTCTTTTTT
6025570 AAATTTCTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:6032040 original size:11 final size:11
Alignment explanation
Indices: 6032024--6032090 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
6032014 TTTTTTTAAA
6032024 TTTTAAAATAC
1 TTTTAAAATAC
6032035 TTTTAAAATAC
1 TTTTAAAATAC
*
6032046 TTTTTTTAAAT--
1 --TTTTAAAATAC
*
6032057 TTTT-TAA-A-
1 TTTTAAAATAC
*
6032065 TTTTAAAATAT
1 TTTTAAAATAC
6032076 TTTTAAAATAC
1 TTTTAAAATAC
6032087 TTTT
1 TTTT
6032091 TTTAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
8 6 0.13
9 6 0.13
10 1 0.02
11 25 0.54
13 8 0.17
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:6032066 original size:41 final size:40
Alignment explanation
Indices: 6032008--6032100 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 40
6031998 ATAATAAATA
*
6032008 TTTTTATTTTTTTAAATTTTAAAATACTTTTAAAATACTT
1 TTTTTAATTTTTTAAATTTTAAAATACTTTTAAAATACTT
*
6032048 TTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATACTT
1 TTTTT-AATTTTTTAAATTTTAAAATACTTTTAAAATACTT
6032089 TTTTTAATTTTT
1 TTTTTAATTTTT
6032101 GTTTTAATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 12 0.24
41 38 0.76
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTAATTTTTTAAATTTTAAAATACTTTTAAAATACTT
Found at i:6045121 original size:6 final size:6
Alignment explanation
Indices: 6045107--6045142 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
6045097 TTTTATTTTG
*
6045107 GCTGCT GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT
1 GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT GCTGTT
6045143 CTTATTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.19, G:0.33, T:0.47
Consensus pattern (6 bp):
GCTGTT
Found at i:6064131 original size:42 final size:42
Alignment explanation
Indices: 6064084--6064164 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
6064074 TGTGAGAAAA
6064084 AAATGAAAAAAAAAAGAGACAATAAGTAAAATATAAAATGGT
1 AAATGAAAAAAAAAAGAGACAATAAGTAAAATATAAAATGGT
6064126 AAATGAAAAAAAAAAGAGACAATAAGTAAAATATAAAAT
1 AAATGAAAAAAAAAAGAGACAATAAGTAAAATATAAAAT
6064165 AGTATTATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.16
Consensus pattern (42 bp):
AAATGAAAAAAAAAAGAGACAATAAGTAAAATATAAAATGGT
Found at i:6069823 original size:12 final size:12
Alignment explanation
Indices: 6069806--6069830 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6069796 TGTTAGTTTG
6069806 TTATTATTTCTA
1 TTATTATTTCTA
6069818 TTATTATTTCTA
1 TTATTATTTCTA
6069830 T
1 T
6069831 ATTCATTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTTCTA
Found at i:6077396 original size:44 final size:44
Alignment explanation
Indices: 6077258--6077411 Score: 143
Period size: 45 Copynumber: 3.5 Consensus size: 44
6077248 GCTGGCGTGA
* * * * * *
6077258 AGTAGATCAAAGATAACAGATCTTGTTTTCCCATACTGGTGGCGA
1 AGTAGATCAAAGAAAACAGATCTTG-GTCCCCATACTAGTGGTGG
* ** * *
6077303 AGTAGATCGAAGAAAACAGATCTT-GTCTTCAT-GTACTGGTGTG
1 AGTAGATCAAAGAAAACAGATCTTGGTCCCCATACTAGTGGTG-G
6077346 AGGTAGATCAAAG-AAACAGATCTTGGCTCCCCATACTAGTGGTGG
1 A-GTAGATCAAAGAAAACAGATCTTGG-TCCCCATACTAGTGGTGG
*
6077391 AGTAGATAAAAGAAAACAGAT
1 AGTAGATCAAAGAAAACAGAT
6077412 ATTATCTTCA
Statistics
Matches: 86, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
42 5 0.06
43 16 0.19
44 21 0.24
45 37 0.43
46 7 0.08
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (44 bp):
AGTAGATCAAAGAAAACAGATCTTGGTCCCCATACTAGTGGTGG
Found at i:6077509 original size:89 final size:89
Alignment explanation
Indices: 6077230--6077843 Score: 482
Period size: 89 Copynumber: 6.9 Consensus size: 89
6077220 TGAAAAGCAG
* *
6077230 CAGATCTTGTCTTCATGTGCTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTTTTCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
6077295 GGTGGCGAAGTAGATCGAAGAAAA
66 GGTGGCGAAGTAGATCGAAGAAAA
* * * *
6077319 CAGATCTTGTCTTCATGTACTGGTGTGAGGTAGATCAAAGA-AACAGATCTTGGCTCCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
* * * **
6077383 AGTGGTGGAGTAGATAAAAGAAAA
66 GGTGGCGAAGTAGATCGAAGAAAA
* * * *
6077407 CAGATATTATCTTCATGTACTGGCGTGAAGTAGATTAAAGATACCAGATCTTGTCTTCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
6077472 GGTGGCGAAGTAGATCGAAGAAAA
66 GGTGGCGAAGTAGATCGAAGAAAA
* ** * *
6077496 TAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATGGCAGATCTTGCCTTCCTATA-T
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
*** * ***
6077560 AGACAGCGAAGCAGATCGAAGATGG
66 -GGTGGCGAAGTAGATCGAAGAAAA
* * * ** ** * * ** * *
6077585 CTGAT-TT-TACCTCCTCGTGGTTACAGTGGAGTACATTGAAG---CCAG-TATT-TCTATCTCC
1 CAGATCTTGT-CTTCAT-GTACTGGC-GTGAAGTAGATCAAAGATAACAGATCTTGTCT-TC-CC
* * * * *
6077643 CTAGGCAGCAGT-G-GAA-TAGATTGTA-AAAG
61 ATA--CTG--GTGGCGAAGTAGATCGAAGAAAA
* * *
6077672 CAGATCTTGTCTTCATGTACTGGCGTGGAGTAGATCAAAGA-AATAGATCTTGTCTCCCCATACT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
* * *
6077736 GGTGGTGGAGTAGGTCGAAGAAAA
66 GGTGGCGAAGTAGATCGAAGAAAA
* * * ** * * * *
6077760 CAGATCGTGTCTTCATATACTGGTGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
* *
6077825 GGTAGCGAAGTGGATCGAA
66 GGTGGCGAAGTAGATCGAA
6077844 TATACATATT
Statistics
Matches: 402, Mismatches: 100, Indels: 46
0.73 0.18 0.08
Matches are distributed among these distances:
84 2 0.00
85 3 0.01
86 22 0.05
87 23 0.06
88 140 0.35
89 196 0.49
90 16 0.04
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (89 bp):
CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACT
GGTGGCGAAGTAGATCGAAGAAAA
Found at i:6077548 original size:44 final size:44
Alignment explanation
Indices: 6077230--6077536 Score: 294
Period size: 44 Copynumber: 6.9 Consensus size: 44
6077220 TGAAAAGCAG
* *
6077230 CAGATCTTGTCTTCATGTGCTGGCGTGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAA
* *** * * *
6077274 CAGATCTTGTTTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAA
* *
6077319 CAGATCTTGTCTTCATGTACTGGTGTGAGGTAGATCAAAG-AAA
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAA
* * *** * *
6077362 CAGATCTTGGCTCCCCATACTAGTG-GTGGAGTAGATAAAAGAAAA
1 CAGATCTTGTCTTCATGTACT-G-GCGTGAAGTAGATCAAAGAAAA
* * * * *
6077407 CAGATATTATCTTCATGTACTGGCGTGAAGTAGATTAAAGATAC
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAA
*** * * *
6077451 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAAAA
*
6077496 TAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
1 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
6077537 TGGCAGATCT
Statistics
Matches: 203, Mismatches: 54, Indels: 12
0.75 0.20 0.04
Matches are distributed among these distances:
43 20 0.10
44 95 0.47
45 88 0.43
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAA
Found at i:6077780 original size:45 final size:44
Alignment explanation
Indices: 6077667--6077800 Score: 153
Period size: 44 Copynumber: 3.0 Consensus size: 44
6077657 AATAGATTGT
* *
6077667 AAAAGCAGATCTTGTCTTCATGTACTGGCGTGGAGTAGATCAAAG
1 AAAA-CAGATCTTGTCTTCATATACTGGTGTGGAGTAGATCAAAG
* * ** * *
6077712 -AAATAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAG
1 AAAACAGATCTTGTCTTCATATACTGGT-GTGGAGTAGATCAAAG
* *
6077756 AAAACAGATCGTGTCTTCATATACTGGTGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATATACTGGTGTGGAGTAGATCAAAG
6077800 A
1 A
6077801 TAGTAGGTCC
Statistics
Matches: 71, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
43 18 0.25
44 31 0.44
45 22 0.31
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (44 bp):
AAAACAGATCTTGTCTTCATATACTGGTGTGGAGTAGATCAAAG
Found at i:6077816 original size:44 final size:43
Alignment explanation
Indices: 6077673--6077827 Score: 139
Period size: 44 Copynumber: 3.5 Consensus size: 43
6077663 TTGTAAAAGC
* * *
6077673 AGATCTTGTCTTCATGTACTGGCGTGGAGTAGATCAAAGAAAT
1 AGATCCTGTCTTCATATACTGGTGTGGAGTAGATCAAAGAAAT
* * ** * * *
6077716 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGAAAAC
1 AGATCCTGTCTTCATATACTGGT-GTGGAGTAGATCAAAG-AAAT
* * *
6077761 AGATCGTGTCTTCATATACTGGTGTGAAGTAGATCAAAGATAGT
1 AGATCCTGTCTTCATATACTGGTGTGGAGTAGATCAAAGA-AAT
* * *
6077805 AGGTCCTGTCTTCCTATATTGGT
1 AGATCCTGTCTTCATATACTGGT
6077828 AGCGAAGTGG
Statistics
Matches: 88, Mismatches: 21, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
43 19 0.22
44 47 0.53
45 22 0.25
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
AGATCCTGTCTTCATATACTGGTGTGGAGTAGATCAAAGAAAT
Found at i:6079425 original size:25 final size:25
Alignment explanation
Indices: 6079397--6079444 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6079387 ATACGCATGG
* *
6079397 TTTTTATATA-ATATATATATATAT
1 TTTTTTTATACATATATACATATAT
*
6079421 TTTTTTTTTACATATATACATATA
1 TTTTTTTATACATATATACATATA
6079445 GTACGCACGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTTTTTATACATATATACATATAT
Found at i:6087548 original size:19 final size:20
Alignment explanation
Indices: 6087506--6087556 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
6087496 AAAAAAACTA
* *
6087506 AAATAAGAAAT-TTAAGAAT
1 AAATAATAAATATTAAAAAT
6087525 AAATAATAAATATTAAAAAT
1 AAATAATAAATATTAAAAAT
6087545 -AATAACTAAATA
1 AAATAA-TAAATA
6087557 AAGAAACGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAATAATAAATATTAAAAAT
Found at i:6088155 original size:6 final size:6
Alignment explanation
Indices: 6088104--6088137 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6088094 ATTCAAGCAA
6088104 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
6088138 GCAGATCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6093818 original size:3 final size:3
Alignment explanation
Indices: 6093810--6093838 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6093800 TCTTAATACT
6093810 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
6093839 TAATACTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:6093924 original size:19 final size:21
Alignment explanation
Indices: 6093900--6093938 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6093890 CTAAAACAAA
*
6093900 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
6093919 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
6093939 ATCAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:6094009 original size:3 final size:3
Alignment explanation
Indices: 6094001--6094025 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6093991 CCGCAGCAAC
6094001 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
6094026 TTTTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:6094127 original size:27 final size:27
Alignment explanation
Indices: 6094097--6094181 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
6094087 CCAAACAATA
6094097 TGGCACCATTGGTGCCGCCAATGGCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
**
6094124 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGGCAT
* *
6094151 TGGCACCTTTGGTGCCGCCAATGCCAT
1 TGGCACCATTGGTGCCGCCAATGGCAT
6094178 TGGC
1 TGGC
6094182 GTGACCAAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCAT
Found at i:6094273 original size:27 final size:28
Alignment explanation
Indices: 6094238--6094308 Score: 128
Period size: 27 Copynumber: 2.6 Consensus size: 28
6094228 TTTGTTTTTT
6094238 TATATATTTTGGTAAATAAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
6094265 TATATATTTTGGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
6094293 TA-ATATTTTGGTAAAT
1 TATATATTTTGGTAAAT
6094309 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
27 38 0.88
28 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAGTTA
Found at i:6094681 original size:58 final size:58
Alignment explanation
Indices: 6094603--6094735 Score: 194
Period size: 58 Copynumber: 2.3 Consensus size: 58
6094593 TGGTAAATTT
* **
6094603 ATAATATAATAATGATAGATTCAAAATAGTAAAATATTATAATATTAAAATAGTATTG
1 ATAATAAAATAAAAATAGATTCAAAATAGTAAAATATTATAATATTAAAATAGTATTG
* * * *
6094661 ATAATAAAATTAAAATAGATTCAAAATATTAATATATTATAATATTGAAATAGTATTG
1 ATAATAAAATAAAAATAGATTCAAAATAGTAAAATATTATAATATTAAAATAGTATTG
*
6094719 ATAATGAAATAAAAATA
1 ATAATAAAATAAAAATA
6094736 TATATTAAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (58 bp):
ATAATAAAATAAAAATAGATTCAAAATAGTAAAATATTATAATATTAAAATAGTATTG
Found at i:6095396 original size:6 final size:6
Alignment explanation
Indices: 6095385--6095413 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6095375 AAAGAAACAC
6095385 AGAGAA AGAGAA AGAGAA AGA-AA AGAGAA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA
6095414 CCACCTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:6095767 original size:26 final size:27
Alignment explanation
Indices: 6095738--6095788 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
6095728 CCACATTAGC
*
6095738 TGGGCTAGGTTAATTGGGT-TTTGGTT
1 TGGGCTAGGTTAAGTGGGTATTTGGTT
6095764 TGGGCTAGGTTAAGTGGGTATTTGG
1 TGGGCTAGGTTAAGTGGGTATTTGG
6095789 GATCTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.14, C:0.04, G:0.41, T:0.41
Consensus pattern (27 bp):
TGGGCTAGGTTAAGTGGGTATTTGGTT
Found at i:6095886 original size:23 final size:23
Alignment explanation
Indices: 6095860--6095905 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6095850 ACTGATGGAC
6095860 TTTTA-ATAATTTTATT-TTTATTT
1 TTTTATAT-ATTTT-TTGTTTATTT
6095883 TTTTATATATTTTTTGTTTATTT
1 TTTTATATATTTTTTGTTTATTT
6095906 ATTTGATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.10
23 17 0.81
24 2 0.10
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTATATATTTTTTGTTTATTT
Found at i:6106285 original size:40 final size:40
Alignment explanation
Indices: 6106240--6106325 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
6106230 GCGTTATACT
* *
6106240 TTCTGTTTGACGTGTTTTAGG-TGGATCAACTCTTATGAGC
1 TTCTGTTTGACATATTTT-GGTTGGATCAACTCTTATGAGC
* * *
6106280 TTCTGTTTGGCATATTTTGGTTGGATTAGCTCTTATGAGC
1 TTCTGTTTGACATATTTTGGTTGGATCAACTCTTATGAGC
6106320 TTCTGT
1 TTCTGT
6106326 CTGGTGTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.15, C:0.14, G:0.24, T:0.47
Consensus pattern (40 bp):
TTCTGTTTGACATATTTTGGTTGGATCAACTCTTATGAGC
Found at i:6108795 original size:12 final size:12
Alignment explanation
Indices: 6108778--6108810 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
6108768 CTAGCACACG
6108778 CCCGTGTGGCCA
1 CCCGTGTGGCCA
6108790 CCCGTGTGGCCA
1 CCCGTGTGGCCA
6108802 CCCGTGTGG
1 CCCGTGTGG
6108811 TCACAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.39, G:0.36, T:0.18
Consensus pattern (12 bp):
CCCGTGTGGCCA
Found at i:6120303 original size:24 final size:24
Alignment explanation
Indices: 6120269--6120316 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6120259 TTTCTAGAAG
* *
6120269 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
6120293 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
6120317 TTAACTTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:6122817 original size:10 final size:10
Alignment explanation
Indices: 6122784--6122824 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
6122774 AAAGAGTTAT
6122784 TAAAAAT-TA
1 TAAAAATATA
*
6122793 T-AGAATATA
1 TAAAAATATA
6122802 -AAAAATATA
1 TAAAAATATA
6122811 TAAAAATATA
1 TAAAAATATA
6122821 TAAA
1 TAAA
6122825 TTAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 4 0.15
9 10 0.37
10 13 0.48
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (10 bp):
TAAAAATATA
Found at i:6122820 original size:19 final size:19
Alignment explanation
Indices: 6122796--6122835 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6122786 AAAATTATAG
*
6122796 AATATAAAAAATATATAAA
1 AATATAAAAAATAAATAAA
* *
6122815 AATATATAAATTAAATAAA
1 AATATAAAAAATAAATAAA
6122834 AA
1 AA
6122836 GAATACGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AATATAAAAAATAAATAAA
Found at i:6123015 original size:21 final size:22
Alignment explanation
Indices: 6122974--6123015 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6122964 TAATATCAAC
*
6122974 TAAAAATTAACATAAACACAGG
1 TAAAAATTAACATAAAAACAGG
*
6122996 TAAAAATTAAGA-AAAAACAG
1 TAAAAATTAACATAAAAACAG
6123016 ATGAAGACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.17
Consensus pattern (22 bp):
TAAAAATTAACATAAAAACAGG
Found at i:6134739 original size:21 final size:21
Alignment explanation
Indices: 6134707--6134747 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6134697 AGGCTCGAGG
6134707 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
6134728 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
6134748 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:6143885 original size:3 final size:3
Alignment explanation
Indices: 6143877--6143935 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
6143867 TAATCCCCAT
*
6143877 TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6143925 TTA TTA TTA TT
1 TTA TTA TTA TT
6143936 GTATTTTCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6144249 original size:32 final size:34
Alignment explanation
Indices: 6144208--6144272 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
6144198 ATGATTTACC
*
6144208 AATACATACACTTATACA-TTTTTTAT-TTTATA
1 AATACATACACATATACATTTTTTTATATTTATA
*
6144240 AATATATACACATATACATTTTTTTATATTTAT
1 AATACATACACATATACATTTTTTTATATTTAT
6144273 TTTATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.55
33 8 0.28
34 5 0.17
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (34 bp):
AATACATACACATATACATTTTTTTATATTTATA
Found at i:6152260 original size:43 final size:43
Alignment explanation
Indices: 6152196--6152444 Score: 354
Period size: 43 Copynumber: 5.8 Consensus size: 43
6152186 GCGTCACTAA
* *
6152196 CTTTAGCGGCGCTTTGCTCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* **
6152239 CTTTAGCGGTGCTTTTTTCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
6152282 CTTTAGCGGCGCTTATCCCACAAATGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* * **
6152325 CTTTAGCGGCGTTTTTCCCACAAATGCCGCTAAAGGTCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* ***
6152368 CTTTAGCGGCACTTTTTTTACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
6152411 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
6152445 AACATGACTT
Statistics
Matches: 181, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 181 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:6152354 original size:129 final size:129
Alignment explanation
Indices: 6152196--6152444 Score: 390
Period size: 129 Copynumber: 1.9 Consensus size: 129
6152186 GCGTCACTAA
* **
6152196 CTTTAGCGGCGCTTTGCTCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTTTTTCACA
1 CTTTAGCGGCGCTTTGCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTTTCACA
* *
6152261 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCCCACAAATGCCGCTAAAGACCAAGAC
66 AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
* * * ** *
6152325 CTTTAGCGGCGTTTTTCCCACAAATGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTTTTACA
1 CTTTAGCGGCGCTTTGCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTTTCACA
*
6152390 AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAA
66 AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTATCCCACAAACGCCGCTAAA
6152445 AACATGACTT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
129 108 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (129 bp):
CTTTAGCGGCGCTTTGCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTTTCACA
AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTATCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:6152666 original size:18 final size:18
Alignment explanation
Indices: 6152643--6152702 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
6152633 TTAAAACAAG
6152643 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
6152661 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
6152678 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
6152696 TTACATT
1 TTACATT
6152703 AGAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:6156256 original size:41 final size:40
Alignment explanation
Indices: 6156196--6156431 Score: 274
Period size: 41 Copynumber: 5.8 Consensus size: 40
6156186 CAAAATATTT
* * *
6156196 TTAGCGGCGCTTCTCCAAAAACGCCGCTACAGACCCCAGCA
1 TTAGCGGCCCTTAT-CAAAAACGCCGCTAAAGACCCCAGCA
* *
6156237 TTAGCGGCACCTTATCAAAAACGCCGCTAAAGATCCCGGCA
1 TTAGCGGC-CCTTATCAAAAACGCCGCTAAAGACCCCAGCA
*
6156278 TTAGCGGCGCTTTATCAAAAACGCCGCTAAAGACCCCAGCA
1 TTAGCGGC-CCTTATCAAAAACGCCGCTAAAGACCCCAGCA
* *
6156319 TTAGCGGCGCTTCTACAAAAACGCCGCTAAAGACCCCAGCA
1 TTAGCGGCCCTTAT-CAAAAACGCCGCTAAAGACCCCAGCA
* * * *
6156360 TTAGCGGCGCTTTTCAAAAAACGTCGCTAAAGATCCCAGCA
1 TTAGCGGCCCTTATC-AAAAACGCCGCTAAAGACCCCAGCA
* * * *
6156401 TTAGCAGCGCTTCTACAAAAATGCCGCTAAA
1 TTAGCGGCCCTTAT-CAAAAACGCCGCTAAA
6156432 TCCCCCAAAG
Statistics
Matches: 172, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
40 4 0.02
41 163 0.95
42 5 0.03
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (40 bp):
TTAGCGGCCCTTATCAAAAACGCCGCTAAAGACCCCAGCA
Found at i:6156438 original size:82 final size:81
Alignment explanation
Indices: 6156196--6156431 Score: 339
Period size: 82 Copynumber: 2.9 Consensus size: 81
6156186 CAAAATATTT
* * * *
6156196 TTAGCGGCGCTTCTCCAAAAACGCCGCTACAGACCCCAGCATTAGCGGCACCT-TATCAAAAACG
1 TTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTCTA-CAAAAACG
* *
6156260 CCGCTAAAGATCCCGGCA
64 CCGCTAAAGACCCCAGCA
6156278 TTAGCGGCGCTTTATCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTCTACAAAAACGC
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTCTACAAAAACGC
6156343 CGCTAAAGACCCCAGCA
65 CGCTAAAGACCCCAGCA
* * * *
6156360 TTAGCGGCGCTTTTCAAAAAACGTCGCTAAAGATCCCAGCATTAGCAGCGCTTCTACAAAAATGC
1 TTAGCGGCGCTTTTC-AAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTCTACAAAAACGC
6156425 CGCTAAA
65 CGCTAAA
6156432 TCCCCCAAAG
Statistics
Matches: 141, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
81 3 0.02
82 136 0.96
83 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (81 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCGCTTCTACAAAAACGCC
GCTAAAGACCCCAGCA
Found at i:6156438 original size:123 final size:123
Alignment explanation
Indices: 6156196--6156431 Score: 368
Period size: 123 Copynumber: 1.9 Consensus size: 123
6156186 CAAAATATTT
* *
6156196 TTAGCGGCGCTTCTCCAAAAACGCCGCTACAGACCCCAGCATTAGCGGCACCTTATCAAAAACGC
1 TTAGCGGCGCTTCTACAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCACCTTATCAAAAACGC
* *
6156261 CGCTAAAGATCCCGGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGACCCCAGCA
66 CGCTAAAGATCCCAGCATTAGCAGCGCTTTATCAAAAACGCCGCTAAAGACCCCAGCA
* *
6156319 TTAGCGGCGCTTCTACAAAAACGCCGCTAAAGACCCCAGCATTAGCGGC-GCTTTTCAAAAAACG
1 TTAGCGGCGCTTCTACAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCACCTTATC-AAAAACG
* *
6156383 TCGCTAAAGATCCCAGCATTAGCAGCGCTTCTA-CAAAAATGCCGCTAAA
65 CCGCTAAAGATCCCAGCATTAGCAGCGCTT-TATCAAAAACGCCGCTAAA
6156432 TCCCCCAAAG
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
122 5 0.05
123 96 0.93
124 2 0.02
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (123 bp):
TTAGCGGCGCTTCTACAAAAACGCCGCTAAAGACCCCAGCATTAGCGGCACCTTATCAAAAACGC
CGCTAAAGATCCCAGCATTAGCAGCGCTTTATCAAAAACGCCGCTAAAGACCCCAGCA
Found at i:6156525 original size:40 final size:40
Alignment explanation
Indices: 6156471--6156607 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 40
6156461 GGGCTTTGGT
6156471 TTTTTA-CGGCGTTTTTCCT-AAAAACGCCGCTAATGCTC-A
1 TTTTTAGCGGCGTTTTT--TGAAAAACGCCGCTAATGCTCGA
*
6156510 TTTTTAGCGGTGTTTTTTGAAAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTTGAAAAACGCCGCTAATGCTCGA
* * ** *
6156550 TCTTTAGTGGCGATTTTCTT--AAAGTGCCACTAATGCTCGA
1 TTTTTAGCGGCG-TTTT-TTGAAAAACGCCGCTAATGCTCGA
* *
6156590 TTTTTACCGGCATTTTTT
1 TTTTTAGCGGCGTTTTTT
6156608 ATCCAAACGC
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.04
39 29 0.35
40 44 0.54
41 4 0.05
42 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGAAAAACGCCGCTAATGCTCGA
Found at i:6162834 original size:19 final size:20
Alignment explanation
Indices: 6162798--6162845 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
6162788 AAAAGCAAAT
6162798 AAAATAAAAATTAGAAAACA
1 AAAATAAAAATTAGAAAACA
* *
6162818 AAAATTAAACTTA-AAAACA
1 AAAATAAAAATTAGAAAACA
6162837 AAAATAAAA
1 AAAATAAAA
6162846 TGCAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAATAAAAATTAGAAAACA
Found at i:6163994 original size:30 final size:30
Alignment explanation
Indices: 6163949--6164053 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 30
6163939 CATGAGCGTA
* *
6163949 TGGCTAGCCCGTGTGGCTCAGACGAGCATG
1 TGGCTAGCCTGTGTGGCTCACACGAGCATG
* *
6163979 TGGCCAGCCTGTGTGGCTCACACGGGCATG
1 TGGCTAGCCTGTGTGGCTCACACGAGCATG
* *
6164009 TGGCTAGCCCT-TGTAGCTCACACGATCATG
1 TGGCTAG-CCTGTGTGGCTCACACGAGCATG
* *
6164039 TGGCTTGCCCGTGTG
1 TGGCTAGCCTGTGTG
6164054 AAAATGCTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 2 0.03
30 57 0.92
31 3 0.05
ACGTcount: A:0.14, C:0.29, G:0.33, T:0.24
Consensus pattern (30 bp):
TGGCTAGCCTGTGTGGCTCACACGAGCATG
Found at i:6165151 original size:3 final size:3
Alignment explanation
Indices: 6165143--6165270 Score: 114
Period size: 3 Copynumber: 42.7 Consensus size: 3
6165133 TAATAGAACA
* * * * * * *
6165143 AGT AGT AGT AGA AGT AGT AGT AGC AGT AGT AGT AGC AGC AGC AGC AGC
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
* * * *
6165191 AGC AGT AGT AGT AGT AGT AGT AGT AGC AGT AGC AGT AGC AGT AAG-
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT -AGT
* * *
6165236 AGT AGT AGT AGT AGC AGT AGC AGT AGC AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
6165271 GAATTCAATC
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
2 2 0.02
3 101 0.96
4 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.34, T:0.21
Consensus pattern (3 bp):
AGT
Found at i:6165159 original size:12 final size:12
Alignment explanation
Indices: 6165143--6165270 Score: 136
Period size: 12 Copynumber: 10.7 Consensus size: 12
6165133 TAATAGAACA
*
6165143 AGTAGTAGTAGA
1 AGTAGTAGTAGC
6165155 AGTAGTAGTAGC
1 AGTAGTAGTAGC
6165167 AGTAGTAGTAGCAGC
1 AGTAGTAGT---AGC
* * *
6165182 AGCAGCAGCAGC
1 AGTAGTAGTAGC
*
6165194 AGTAGTAGTAGT
1 AGTAGTAGTAGC
6165206 AGTAGTAGTAGC
1 AGTAGTAGTAGC
*
6165218 AGTAGCAGTAGC
1 AGTAGTAGTAGC
*
6165230 AGTA--AG-AGT
1 AGTAGTAGTAGC
6165239 AGTAGTAGTAGC
1 AGTAGTAGTAGC
*
6165251 AGTAGCAGTAGC
1 AGTAGTAGTAGC
6165263 AGTAGTAG
1 AGTAGTAG
6165271 GAATTCAATC
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
9 6 0.06
10 2 0.02
11 2 0.02
12 77 0.80
15 9 0.09
ACGTcount: A:0.35, C:0.10, G:0.34, T:0.21
Consensus pattern (12 bp):
AGTAGTAGTAGC
Found at i:6187366 original size:44 final size:43
Alignment explanation
Indices: 6187299--6187384 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
6187289 TGTTTTTAGT
6187299 TTTCCACTTAAACCCTGATTAGTGTAAGTTATTTTAATATTAA
1 TTTCCACTTAAACCCTGATTAGTGTAAGTTATTTTAATATTAA
* *
6187342 TTTCTCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTA
1 TTTC-CACTTAAACCCTGATTAGTGTAAGTTATTTTAATATTA
6187385 TTTGACCTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 4 0.10
44 36 0.90
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (43 bp):
TTTCCACTTAAACCCTGATTAGTGTAAGTTATTTTAATATTAA
Found at i:6187914 original size:24 final size:24
Alignment explanation
Indices: 6187887--6187944 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
6187877 TGGGCCTATG
6187887 TGGCCCAAAATCCGGAATAAATAA
1 TGGCCCAAAATCCGGAATAAATAA
6187911 TGGCCCAAAATCCGGAATAAATAA
1 TGGCCCAAAATCCGGAATAAATAA
6187935 TGGCCCAAAA
1 TGGCCCAAAA
6187945 CAATGTCAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.16
Consensus pattern (24 bp):
TGGCCCAAAATCCGGAATAAATAA
Found at i:6188878 original size:12 final size:12
Alignment explanation
Indices: 6188856--6188936 Score: 85
Period size: 12 Copynumber: 6.8 Consensus size: 12
6188846 TTTCTTTAGT
6188856 TTATT-TTATTA
1 TTATTGTTATTA
**
6188867 ACATTGTTATTA
1 TTATTGTTATTA
*
6188879 TTATTATTATTA
1 TTATTGTTATTA
6188891 TTATTGTTATTA
1 TTATTGTTATTA
*
6188903 TTATTGTTATTG
1 TTATTGTTATTA
*
6188915 TTA-TATTATATA
1 TTATTGTTAT-TA
*
6188927 TTATTATTAT
1 TTATTGTTAT
6188937 ATCTACATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
11 8 0.14
12 44 0.76
13 6 0.10
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (12 bp):
TTATTGTTATTA
Found at i:6188881 original size:3 final size:3
Alignment explanation
Indices: 6188873--6188936 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
6188863 ATTAACATTG
* * *
6188873 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTG TTA TTG TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6188920 TTA TATA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA T
6188937 ATCTACATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6189077 original size:34 final size:34
Alignment explanation
Indices: 6189039--6189120 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
6189029 ATTATCTTGT
*
6189039 TTTCATAATTTTCACATACATATATATTTTTATA
1 TTTCATAATTTTAACATACATATATATTTTTATA
* * * * *
6189073 TTTCATGATTTAAACATGCATGTATATTTTTTTA
1 TTTCATAATTTTAACATACATATATATTTTTATA
*
6189107 TGTTTATAATTTTA
1 T-TTCATAATTTTA
6189121 TTCATTTTCT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
34 29 0.76
35 9 0.24
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTCATAATTTTAACATACATATATATTTTTATA
Found at i:6204774 original size:34 final size:36
Alignment explanation
Indices: 6204735--6204811 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 36
6204725 TTAAAAATAT
6204735 ATATTTTTTAATTAATATA-TTTTTAATA-TTTTTA
1 ATATTTTTTAATTAATATATTTTTTAATATTTTTTA
* ** *
6204769 ATATTTTTTTATTTTTATATTTTTTTATATTTTTTA
1 ATATTTTTTAATTAATATATTTTTTAATATTTTTTA
*
6204805 AAATTTT
1 ATATTTT
6204812 AATTTTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 16 0.44
35 8 0.22
36 12 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (36 bp):
ATATTTTTTAATTAATATATTTTTTAATATTTTTTA
Found at i:6204781 original size:26 final size:26
Alignment explanation
Indices: 6204752--6204803 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
6204742 TTAATTAATA
6204752 TATTTTTA-ATATTTTTAATATTTTTT
1 TATTTTTATAT-TTTTTAATATTTTTT
*
6204778 TATTTTTATATTTTTTTATATTTTTT
1 TATTTTTATATTTTTTAATATTTTTT
6204804 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (26 bp):
TATTTTTATATTTTTTAATATTTTTT
Found at i:6204788 original size:16 final size:16
Alignment explanation
Indices: 6204734--6204801 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
6204724 TTTAAAAATA
* **
6204734 TATATTTTTTAATTAA
1 TATATTTTTTTATTTT
*
6204750 TATATTTTTAATATTTT
1 TATATTTTT-TTATTTT
6204767 TAATATTTTTTTATTTT
1 T-ATATTTTTTTATTTT
6204784 TATATTTTTTTATATTT
1 TATATTTTTTTAT-TTT
6204801 T
1 T
6204802 TTAAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 21 0.48
17 15 0.34
18 8 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATATTTTTTTATTTT
Found at i:6204803 original size:9 final size:9
Alignment explanation
Indices: 6204750--6204804 Score: 69
Period size: 9 Copynumber: 6.2 Consensus size: 9
6204740 TTTTAATTAA
6204750 TATATTTTT
1 TATATTTTT
*
6204759 AATATTTTT
1 TATATTTTT
*
6204768 AATATTTTT
1 TATATTTTT
6204777 T-TA-TTTT
1 TATATTTTT
6204784 TATATTTTTT
1 TATA-TTTTT
6204794 TATATTTTT
1 TATATTTTT
6204803 TA
1 TA
6204805 AAATTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 5 0.12
8 4 0.10
9 24 0.59
10 8 0.20
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TATATTTTT
Found at i:6206922 original size:43 final size:42
Alignment explanation
Indices: 6206817--6206945 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 42
6206807 TGTGGGTTTA
* *
6206817 TACTTCGATTTAGCCGATGATACACTTATGTGCCAGTATATT
1 TACTTCGATTTATCCGATGATACACTTGTGTGCCAGTATATT
* * *
6206859 TGCTTC-ATTTTATCCAATGATACACTGTGTGTGTC--TATATGAT
1 TACTTCGA-TTTATCCGATGATACACT-TGTGTGCCAGTATAT--T
*
6206902 TACTTCGATTTATCCGATGATGCACTATGTGTGCCAGTATATT
1 TACTTCGATTTATCCGATGATACACT-TGTGTGCCAGTATATT
6206945 T
1 T
6206946 CTTTCGGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
41 6 0.09
42 21 0.30
43 37 0.53
44 1 0.01
45 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (42 bp):
TACTTCGATTTATCCGATGATACACTTGTGTGCCAGTATATT
Found at i:6215578 original size:59 final size:60
Alignment explanation
Indices: 6215439--6215589 Score: 139
Period size: 59 Copynumber: 2.5 Consensus size: 60
6215429 GTTTAACTCC
* * * * * *
6215439 AAAAAAGTT-TAGACCCCAATGTGGGAACAATTGCAAGTTTAGGAACTAACTTAGACCCCC
1 AAAAAAGTTCAAG-CCCCAATATGAGAACAATTGCAAGTTCAGGAACTAACTTAGACACCA
* * * * * *
6215499 CAAAATGTTCAAACCTCAATATGAGAACAATTGTCACGTTCAGGGACTAACTT-GA-ACCA
1 AAAAAAGTTCAAGCCCCAATATGAGAACAATTG-CAAGTTCAGGAACTAACTTAGACACCA
6215558 AAAAAAGTTCAAGCCCCAATAT-AGGAACAATT
1 AAAAAAGTTCAAGCCCCAATATGA-GAACAATT
6215590 ACCTAATTCA
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
58 1 0.01
59 28 0.39
60 26 0.36
61 17 0.24
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (60 bp):
AAAAAAGTTCAAGCCCCAATATGAGAACAATTGCAAGTTCAGGAACTAACTTAGACACCA
Found at i:6216555 original size:24 final size:24
Alignment explanation
Indices: 6216522--6216568 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6216512 GCCCATCACT
* *
6216522 CACACGCAGCGCAACCTCATGTAC
1 CACACCCAGCGCAACCGCATGTAC
*
6216546 CACACCCAGCGCCACCGCATGTA
1 CACACCCAGCGCAACCGCATGTA
6216569 TCAAATCACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.45, G:0.17, T:0.11
Consensus pattern (24 bp):
CACACCCAGCGCAACCGCATGTAC
Found at i:6219109 original size:21 final size:21
Alignment explanation
Indices: 6219076--6219120 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
6219066 ATACATGAAT
6219076 AATTTAAATATATATAATAATA
1 AATTTAAATATATATAATAA-A
*
6219098 AATTTAAA-ATATATATTAAA
1 AATTTAAATATATATAATAAA
6219118 AAT
1 AAT
6219121 AAAAAATGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 10 0.45
22 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTAAATATATATAATAAA
Found at i:6219111 original size:23 final size:23
Alignment explanation
Indices: 6219076--6219123 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
6219066 ATACATGAAT
*
6219076 AATTTAAATATATA-TAATAATA
1 AATTTAAATATATATTAAAAATA
6219098 AATTTAAAATATATATTAAAAATA
1 AATTT-AAATATATATTAAAAATA
6219122 AA
1 AA
6219124 AAATGCCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.22
23 9 0.39
24 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTTAAATATATATTAAAAATA
Found at i:6221304 original size:12 final size:12
Alignment explanation
Indices: 6221287--6221331 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
6221277 ATCCAACCCG
6221287 TTCAATTGTCTA
1 TTCAATTGTCTA
* *
6221299 TTCAATTGGTTTG
1 TTCAATT-GTCTA
6221312 TTCAATTGTCTA
1 TTCAATTGTCTA
6221324 TTCAATTG
1 TTCAATTG
6221332 GTTTTTAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.51
Consensus pattern (12 bp):
TTCAATTGTCTA
Found at i:6221320 original size:25 final size:25
Alignment explanation
Indices: 6221286--6221335 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6221276 GATCCAACCC
6221286 GTTCAATTGTCTATTCAATTGGTTT
1 GTTCAATTGTCTATTCAATTGGTTT
6221311 GTTCAATTGTCTATTCAATTGGTTT
1 GTTCAATTGTCTATTCAATTGGTTT
6221336 TTAGCTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (25 bp):
GTTCAATTGTCTATTCAATTGGTTT
Found at i:6224034 original size:114 final size:115
Alignment explanation
Indices: 6223818--6224036 Score: 245
Period size: 114 Copynumber: 1.9 Consensus size: 115
6223808 AATCATTTGA
* * **
6223818 AAAAGGAATAGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGTTTTTGGTGCTTTTTTTTT
1 AAAAGGAATAGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGGTTCTGGTGCTTTTGCTTT
**
6223883 CTGAAGTTGAGAAATTTGTTGATTGAATTGTGTTTGTGTTCTTGGTTTCTC
66 CTGAAGTTGAGAAATTTGTTGATT-AATTGTAATTGTGTTCTTGGTTTCTC
* *
6223934 AAAA-GAAT-GTTGC-TTTGATGACAATTTCTTATTATTCT-ATTCTGGGTTCTGGTTCTTTCTG
1 AAAAGGAATAGTTGCTTTTGATGACAATTTCTT-TT-TTATAATTCT-GGTTCTGGTGCTTT-TG
*
6223995 CTTT-T-AAGTTGAGAATTTTGTTGCTATT-ATTGTAATTGTGTT
62 CTTTCTGAAGTTGAGAAATTTGTTG--ATTAATTGTAATTGTGTT
6224037 ATAGCCAATT
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
113 17 0.19
114 41 0.47
115 19 0.22
116 11 0.12
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.52
Consensus pattern (115 bp):
AAAAGGAATAGTTGCTTTTGATGACAATTTCTTTTTTATAATTCTGGTTCTGGTGCTTTTGCTTT
CTGAAGTTGAGAAATTTGTTGATTAATTGTAATTGTGTTCTTGGTTTCTC
Found at i:6236614 original size:1 final size:1
Alignment explanation
Indices: 6236608--6236642 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
6236598 AACTCCGCCT
**
6236608 CCCCCCCCCCCCAACCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
6236643 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.06, C:0.94, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:6239914 original size:92 final size:90
Alignment explanation
Indices: 6239681--6239942 Score: 269
Period size: 93 Copynumber: 2.8 Consensus size: 90
6239671 ACAAGTCACT
* *
6239681 GCATCTTCACTAAATTAAGATTCAAGAGGAAGTGCTTCAGTTTGGTTTGGTTTTGGACTCCACTA
1 GCATCTTCACTAAA-T-AGA-TCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACT-CACTG
*
6239746 ATCCTTTGAAAACATCAAAAGATACATCA
62 ATCCTTTGAAAGCATCAAAAGATACATCA
* * **
6239775 -CATCTTCACTAGATAAAGGTTCATA-AGGAAGCACTTCAGTTTGGTTTTGTTTTGGACTCAGCT
1 GCATCTTCACTA-A-ATA-GATCA-AGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTCA-CT
* * *
6239838 GATCCCTTGAAAGCAT-AAAAGGTGCATCGCA
61 GATCCTTTGAAAGCATCAAAAGATACAT--CA
* ** *
6239869 GCATCTTCACTAAATAGATCACGAGGAAGTGCTTCAACTTGGTTTTGTTTTGGACTCAAATGATC
1 GCATCTTCACTAAATAGATCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTC-ACTGATC
6239934 CTTTGAAAG
65 CTTTGAAAG
6239943 TACTAAAAAA
Statistics
Matches: 139, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
92 58 0.42
93 63 0.45
94 6 0.04
95 12 0.09
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (90 bp):
GCATCTTCACTAAATAGATCAAGAGGAAGTGCTTCAGTTTGGTTTTGTTTTGGACTCACTGATCC
TTTGAAAGCATCAAAAGATACATCA
Found at i:6240125 original size:15 final size:15
Alignment explanation
Indices: 6240105--6240136 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6240095 CTCGCTAGTC
6240105 GGTTCATGTTTGAAA
1 GGTTCATGTTTGAAA
*
6240120 GGTTCATGTTTGGAA
1 GGTTCATGTTTGAAA
6240135 GG
1 GG
6240137 ACAACTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.34, T:0.38
Consensus pattern (15 bp):
GGTTCATGTTTGAAA
Found at i:6242532 original size:37 final size:37
Alignment explanation
Indices: 6242491--6242563 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
6242481 TCTTAAAAGA
*
6242491 ACATGACAAGTTAACTT-AAGAGTTCATATCTAATTTG
1 ACATGACAAGTTAA-TTCAAGAGTTAATATCTAATTTG
** *
6242528 ACATGGTAAGTTAATTCAATAGTTAATATCTAATTT
1 ACATGACAAGTTAATTCAAGAGTTAATATCTAATTT
6242564 AACTTATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 2 0.06
37 29 0.94
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (37 bp):
ACATGACAAGTTAATTCAAGAGTTAATATCTAATTTG
Found at i:6250594 original size:13 final size:13
Alignment explanation
Indices: 6250576--6250601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6250566 TCCTTTTACT
6250576 ATATATTTTGTAG
1 ATATATTTTGTAG
6250589 ATATATTTTGTAG
1 ATATATTTTGTAG
6250602 GTATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATATATTTTGTAG
Found at i:6251297 original size:20 final size:20
Alignment explanation
Indices: 6251244--6251315 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
6251234 AAATATTAAA
*
6251244 TTAA-ATTAAA-TAATTATC
1 TTAATATTAAATTTATTATC
* *
6251262 TTAATAGT-ATTTTATTAAT-
1 TTAATATTAAATTTATT-ATC
6251281 TTAATATTAAATTTATTATC
1 TTAATATTAAATTTATTATC
6251301 TTAATATTAAATTTA
1 TTAATATTAAATTTA
6251316 ATTTAATGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.11
19 15 0.34
20 24 0.55
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (20 bp):
TTAATATTAAATTTATTATC
Found at i:6251297 original size:25 final size:25
Alignment explanation
Indices: 6251269--6251320 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
6251259 ATCTTAATAG
*
6251269 TATTTTATTAAT-TTAATATTAAATT
1 TATTATATTAATATTAA-ATTAAATT
* *
6251294 TATTATCTTAATATTAAATTTAATT
1 TATTATATTAATATTAAATTAAATT
6251319 TA
1 TA
6251321 ATGTTTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAATT
Found at i:6255929 original size:20 final size:22
Alignment explanation
Indices: 6255904--6255952 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
6255894 ACTTTTTTAT
6255904 ATTTTCATA-ACTTTATA-ACA
1 ATTTTCATATACTTTATATACA
*
6255924 ATTTTC-TATATTTTATATACA
1 ATTTTCATATACTTTATATACA
*
6255945 TTTTTCAT
1 ATTTTCAT
6255953 GATTTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 8 0.33
22 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTCATATACTTTATATACA
Found at i:6255957 original size:21 final size:19
Alignment explanation
Indices: 6255904--6255958 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
6255894 ACTTTTTTAT
*
6255904 ATTTTCATAACTTTATAACA
1 ATTTTCAT-ATTTTATAACA
6255924 ATTTTCTATATTTTATATACA
1 ATTTTC-ATATTTTATA-ACA
*
6255945 TTTTTCATGATTTT
1 ATTTTCAT-ATTTT
6255959 TACATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTTCATATTTTATAACA
Found at i:6256985 original size:102 final size:103
Alignment explanation
Indices: 6256865--6257072 Score: 409
Period size: 102 Copynumber: 2.0 Consensus size: 103
6256855 TAAATTATAA
6256865 TTATTTTTTATTTTAATTACCCACCCCTAACTCTATAAATACTATCTTTTAATTTTTTTAATATG
1 TTATTTTTTATTTTAATTACCCACCCCTAACTCTATAAATACTATCTTTTAATTTTTTTAATATG
6256930 TTTATTTTTATGTCTTTAATGTTCACTTAGGGTATTTT
66 TTTATTTTTATGTCTTTAATGTTCACTTAGGGTATTTT
6256968 TTATTTTTTA-TTTAATTACCCACCCCTAACTCTATAAATACTATCTTTTAATTTTTTTAATATG
1 TTATTTTTTATTTTAATTACCCACCCCTAACTCTATAAATACTATCTTTTAATTTTTTTAATATG
6257032 TTTATTTTTATGTCTTTAATGTTCACTTAGGGTATTTT
66 TTTATTTTTATGTCTTTAATGTTCACTTAGGGTATTTT
6257070 TTA
1 TTA
6257073 CAAATATTTG
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 95 0.90
103 10 0.10
ACGTcount: A:0.25, C:0.13, G:0.06, T:0.55
Consensus pattern (103 bp):
TTATTTTTTATTTTAATTACCCACCCCTAACTCTATAAATACTATCTTTTAATTTTTTTAATATG
TTTATTTTTATGTCTTTAATGTTCACTTAGGGTATTTT
Found at i:6257760 original size:20 final size:21
Alignment explanation
Indices: 6257717--6257761 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
6257707 TTTTGAGCAA
*
6257717 TTTAAATTTTTTTTTATGTTC
1 TTTAAATTTCTTTTTATGTTC
6257738 TTTAAACTTTCTTTTT-T-TTC
1 TTTAAA-TTTCTTTTTATGTTC
6257758 TTTA
1 TTTA
6257762 TTTTCCGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTAAATTTCTTTTTATGTTC
Found at i:6263439 original size:22 final size:22
Alignment explanation
Indices: 6263414--6263456 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6263404 ATAAGTTCCT
*
6263414 TTACATTCAATTAATAAATGTA
1 TTACATTCAATCAATAAATGTA
6263436 TTACATTCAATCAATAAATGT
1 TTACATTCAATCAATAAATGT
6263457 GAATTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATCAATAAATGTA
Found at i:6277677 original size:20 final size:18
Alignment explanation
Indices: 6277649--6277689 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6277639 TAAAAGATAG
6277649 ATAAAATT-AA-T-AACT
1 ATAAAATTAAATTAAACT
6277664 ATAAAATTAAATTAAACT
1 ATAAAATTAAATTAAACT
6277682 ATAAAATT
1 ATAAAATT
6277690 TAAAACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 1 0.04
18 12 0.52
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTAAATTAAACT
Found at i:6278234 original size:31 final size:31
Alignment explanation
Indices: 6278199--6278266 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
6278189 ATTTGATTTG
* *
6278199 ATTATACATATTAAAATTTGATTTTAAATT-A
1 ATTATACAAATAAAAATTTGATTTT-AATTCA
*
6278230 ATTATATAAATAAAAATTTGATTTTAATTCA
1 ATTATACAAATAAAAATTTGATTTTAATTCA
6278261 ATTATA
1 ATTATA
6278267 AATCTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTATACAAATAAAAATTTGATTTTAATTCA
Found at i:6278323 original size:93 final size:93
Alignment explanation
Indices: 6278215--6278395 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 93
6278205 CATATTAAAA
* * * *
6278215 TTTGATTTTAAATTAATTATATAAATAAAAATTTGA-TTTTAATTCAATTATAAATCTTTAGAAA
1 TTTGATTTCAAATTAATTATAAAAAT-AAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAA
*
6278279 AACAAAAAAGTTATGTTATTTAATAATTT
65 AACAAAAAAGTTAAGTTATTTAATAATTT
* * * * *
6278308 TTTGATTTCGAATTAATTATAAAAATAAAATTTTAGTTTTGATTCAATTATAAACCATTATAAAT
1 TTTGATTTCAAATTAATTATAAAAATAAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAAA
* *
6278373 ATAAATAAGTTAAGTTATTTAAT
66 ACAAAAAAGTTAAGTTATTTAAT
6278396 GACTTAGGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
92 8 0.11
93 67 0.89
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (93 bp):
TTTGATTTCAAATTAATTATAAAAATAAAATTTGAGTTTTAATTCAATTATAAACCATTAGAAAA
ACAAAAAAGTTAAGTTATTTAATAATTT
Found at i:6285069 original size:34 final size:34
Alignment explanation
Indices: 6285009--6285075 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
6284999 TCACTATAAT
*
6285009 CAAATAGTGATAATGCAACTATAATAACAACAACA
1 CAAATAGTGATAAT-CAACAATAATAACAACAACA
*
6285044 CAAATAGATGATAAT-AACAATAATAATAACAA
1 CAAATAG-TGATAATCAACAATAATAACAACAA
6285076 TTATGACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.52
35 7 0.24
36 7 0.24
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.21
Consensus pattern (34 bp):
CAAATAGTGATAATCAACAATAATAACAACAACA
Found at i:6285184 original size:21 final size:21
Alignment explanation
Indices: 6285145--6285184 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6285135 TTTAAAGGGC
*
6285145 AAAAATGTAAATAATAAAATT
1 AAAAATGTAAATAACAAAATT
6285166 AAAAATGCTAAA-AACAAAA
1 AAAAATG-TAAATAACAAAA
6285185 ATACACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATGTAAATAACAAAATT
Found at i:6286694 original size:16 final size:15
Alignment explanation
Indices: 6286671--6286702 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
6286661 AATTAATGGA
6286671 TTTTTTATTTTTGTT
1 TTTTTTATTTTTGTT
6286686 TTTTATTATTTTTGTT
1 TTTT-TTATTTTTGTT
6286702 T
1 T
6286703 AGGCCGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (15 bp):
TTTTTTATTTTTGTT
Found at i:6290259 original size:29 final size:30
Alignment explanation
Indices: 6290210--6290294 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 30
6290200 TTTTATGTGT
*
6290210 AATTTAATACATG-AACTTTGATTTGGTGC
1 AATTTGATACATGAAACTTTGATTTGGTGC
*
6290239 AATTTGATACATGAAAC-TTGAATTGTGGTTC
1 AATTTGATACATGAAACTTTG-ATT-TGGTGC
* *
6290270 -ATATGTATACATTAAACTTTGATTT
1 AATTTG-ATACATGAAACTTTGATTT
6290295 TAGTTAAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 15 0.32
30 11 0.23
31 18 0.38
32 3 0.06
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (30 bp):
AATTTGATACATGAAACTTTGATTTGGTGC
Found at i:6292865 original size:32 final size:32
Alignment explanation
Indices: 6292824--6292884 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
6292814 GGCCCATTTT
6292824 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAAG
*
6292856 TATTTTAAAAATATTTTAAAATTAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAA
6292885 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAAG
Found at i:6292886 original size:40 final size:40
Alignment explanation
Indices: 6292837--6292925 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
6292827 TTTAAAAATT
6292837 TTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
**
6292877 TTAAAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
6292917 TTAAAAAAT
1 TTAAAAAAT
6292926 AAATATATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (40 bp):
TTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:6292893 original size:17 final size:17
Alignment explanation
Indices: 6292860--6292892 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6292850 AAAAAGTATT
6292860 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
6292877 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
6292893 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:6294636 original size:19 final size:20
Alignment explanation
Indices: 6294598--6294642 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
6294588 TAATTACTAT
*
6294598 AAAAATTTATTAACACAATA
1 AAAAATTTATAAACACAATA
*
6294618 AAAAATTTCTAAACA-AATA
1 AAAAATTTATAAACACAATA
6294637 ACAAAA
1 A-AAAA
6294643 AATCGTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATTTATAAACACAATA
Found at i:6295500 original size:2 final size:2
Alignment explanation
Indices: 6295493--6295526 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
6295483 ATGAATAAGC
*
6295493 AT AT AT AT AT AT AT AT AT AT AT TT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6295527 GCTTGGACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6295736 original size:19 final size:21
Alignment explanation
Indices: 6295692--6295736 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
6295682 AAATTTATAA
*
6295692 AATATACATAAATTAGTTTTAT
1 AATATACATAAATTA-TTTTAC
6295714 AATATA-ATAAATT-TTTTAC
1 AATATACATAAATTATTTTAC
6295733 AATA
1 AATA
6295737 ACCATCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
AATATACATAAATTATTTTAC
Found at i:6297553 original size:18 final size:18
Alignment explanation
Indices: 6297516--6297558 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6297506 GAATAGGTTT
6297516 TTAATTAAATAAATTTAA
1 TTAATTAAATAAATTTAA
* *
6297534 TTGATTAAA-AATTTTAAA
1 TTAATTAAATAAATTT-AA
6297552 TTAATTA
1 TTAATTA
6297559 CATATTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAATAAATTTAA
Found at i:6300683 original size:17 final size:17
Alignment explanation
Indices: 6300650--6300684 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6300640 TCCTCTATGT
* *
6300650 TAGAATAAATATTAAAA
1 TAGAATAAAAATCAAAA
6300667 TAGAATAAAAATCAAAA
1 TAGAATAAAAATCAAAA
6300684 T
1 T
6300685 CAAATAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (17 bp):
TAGAATAAAAATCAAAA
Found at i:6305331 original size:20 final size:20
Alignment explanation
Indices: 6305306--6305348 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6305296 CAAATCCAAC
6305306 CTCGAACCTCAAATCCTGAA
1 CTCGAACCTCAAATCCTGAA
** *
6305326 CTCGAACCTTGAATCTTGAA
1 CTCGAACCTCAAATCCTGAA
6305346 CTC
1 CTC
6305349 AGGGTTCGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
CTCGAACCTCAAATCCTGAA
Found at i:6306487 original size:13 final size:13
Alignment explanation
Indices: 6306466--6306504 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
6306456 TCTATTATTT
*
6306466 AATATTTTTTTTA
1 AATAATTTTTTTA
6306479 AATAATTTTTTTA
1 AATAATTTTTTTA
6306492 AA-AATTGTTTTTA
1 AATAATT-TTTTTA
6306505 GTGAAACAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
AATAATTTTTTTA
Found at i:6307233 original size:56 final size:57
Alignment explanation
Indices: 6307175--6307364 Score: 177
Period size: 57 Copynumber: 3.2 Consensus size: 57
6307165 TTAAACTTAT
*
6307175 AAAATATTTTCATTTTCAAGAAAATTATTAAAAATTAAAAAGAATGTAATTCTGATA
1 AAAATATTTTCATTTTCAAGAAAATTATTAAAAATTAAAAAAAATGTAATTCTGATA
* * * * * * * *
6307232 AAAATATTTTTTAATATATCCGAAAATAAAAAATATTTAAGAATTTAAAAAAATATTTAA-ACTT
1 AAAATA--TTTTCAT-T-TTC---AA-GAAAATTA-TTAA-AAATTAAAAAAA-ATGTAATTCTG
6307296 AT-
55 ATA
*
6307298 AAAATATTTTCATTTTCAAGAAAATTATTAAAAATTAAAAAAAATGTTATTCTGATA
1 AAAATATTTTCATTTTCAAGAAAATTATTAAAAATTAAAAAAAATGTAATTCTGATA
6307355 AAAATATTTT
1 AAAATATTTT
6307365 TTAATATATT
Statistics
Matches: 102, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
55 4 0.04
56 15 0.15
57 20 0.20
58 6 0.06
59 8 0.08
60 1 0.01
61 2 0.02
62 2 0.02
63 1 0.01
64 8 0.08
65 6 0.06
66 10 0.10
67 14 0.14
68 5 0.05
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (57 bp):
AAAATATTTTCATTTTCAAGAAAATTATTAAAAATTAAAAAAAATGTAATTCTGATA
Found at i:6307283 original size:123 final size:125
Alignment explanation
Indices: 6307124--6307373 Score: 468
Period size: 123 Copynumber: 2.0 Consensus size: 125
6307114 TGAAGTCATC
6307124 ATCCGAAAATTAAAAAAATATTTAAGAATTTAAAAAAATATTTAAACTTATAAAATATTTTCATT
1 ATCCGAAAATTAAAAAAATATTTAAGAATTTAAAAAAATATTTAAACTTATAAAATATTTTCATT
*
6307189 TTCAAGAAAATTATTAAAAATTAAAAAGAATGTAATTCTGATAAAAATATTTTTTAATAT
66 TTCAAGAAAATTATTAAAAATTAAAAAAAATGTAATTCTGATAAAAATATTTTTTAATAT
6307249 ATCCGAAAA-T-AAAAAATATTTAAGAATTTAAAAAAATATTTAAACTTATAAAATATTTTCATT
1 ATCCGAAAATTAAAAAAATATTTAAGAATTTAAAAAAATATTTAAACTTATAAAATATTTTCATT
*
6307312 TTCAAGAAAATTATTAAAAATTAAAAAAAATGTTATTCTGATAAAAATATTTTTTAATAT
66 TTCAAGAAAATTATTAAAAATTAAAAAAAATGTAATTCTGATAAAAATATTTTTTAATAT
6307372 AT
1 AT
6307374 TTTTTCATGA
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
123 113 0.92
124 1 0.01
125 9 0.07
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (125 bp):
ATCCGAAAATTAAAAAAATATTTAAGAATTTAAAAAAATATTTAAACTTATAAAATATTTTCATT
TTCAAGAAAATTATTAAAAATTAAAAAAAATGTAATTCTGATAAAAATATTTTTTAATAT
Found at i:6307301 original size:19 final size:20
Alignment explanation
Indices: 6307257--6307301 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
6307247 ATATCCGAAA
6307257 ATAAAAAATATTTAAGAATT
1 ATAAAAAATATTTAAGAATT
*
6307277 -TAAAAAAATATTTAA-ACTT
1 AT-AAAAAATATTTAAGAATT
6307296 ATAAAA
1 ATAAAA
6307302 TATTTTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAAAAATATTTAAGAATT
Found at i:6310090 original size:20 final size:20
Alignment explanation
Indices: 6310065--6310107 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6310055 CAAATCCAAC
6310065 CTCGAACCTCAAATCCTGAA
1 CTCGAACCTCAAATCCTGAA
** *
6310085 CTCGAACCTTGAATCTTGAA
1 CTCGAACCTCAAATCCTGAA
6310105 CTC
1 CTC
6310108 AGGGTTCGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
CTCGAACCTCAAATCCTGAA
Found at i:6311246 original size:13 final size:13
Alignment explanation
Indices: 6311225--6311263 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
6311215 TCTATTATTT
*
6311225 AATATTTTTTTTA
1 AATAATTTTTTTA
6311238 AATAATTTTTTTA
1 AATAATTTTTTTA
6311251 AA-AATTGTTTTTA
1 AATAATT-TTTTTA
6311264 GTGAAACAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
AATAATTTTTTTA
Found at i:6316828 original size:13 final size:13
Alignment explanation
Indices: 6316810--6316843 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6316800 AAATTATAAA
6316810 ATATATAAAATAT
1 ATATATAAAATAT
*
6316823 ATATATAAAGTAT
1 ATATATAAAATAT
6316836 ATTATATA
1 A-TATATA
6316844 TGTACCTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
ATATATAAAATAT
Found at i:6325673 original size:84 final size:84
Alignment explanation
Indices: 6325585--6325754 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 84
6325575 AAGACTAAAA
*
6325585 TAGTATTAAATAATATAATTTTTAGAAATTATGAAATGATATTTTCGTGATTTATCTAATTAAAA
1 TAGTATTAAATAATATAATTTATAGAAATTATGAAATGATATTTTCGTGATTTATCTAATTAAAA
6325650 TGATACTTAGTTCAATTAT
66 TGATACTTAGTTCAATTAT
6325669 TAGTATTAAATAATATAATTTATAGAAATTATGAAATGATATTTTCGTGATTTATCTAATTAAAA
1 TAGTATTAAATAATATAATTTATAGAAATTATGAAATGATATTTTCGTGATTTATCTAATTAAAA
6325734 TGATACTTAGTTCAATTAT
66 TGATACTTAGTTCAATTAT
6325753 TA
1 TA
6325755 ATAATAAAAG
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (84 bp):
TAGTATTAAATAATATAATTTATAGAAATTATGAAATGATATTTTCGTGATTTATCTAATTAAAA
TGATACTTAGTTCAATTAT
Found at i:6325978 original size:13 final size:13
Alignment explanation
Indices: 6325960--6325984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6325950 TTTAATCAAC
6325960 ACTAAAAAAAAAA
1 ACTAAAAAAAAAA
6325973 ACTAAAAAAAAA
1 ACTAAAAAAAAA
6325985 TATTTTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
ACTAAAAAAAAAA
Found at i:6332058 original size:17 final size:18
Alignment explanation
Indices: 6332020--6332063 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
6332010 TATTTTCAAG
*
6332020 AAAATATAATAATAAATTA
1 AAAATAT-ATAATAAATAA
6332039 AAAATATATAA-AAATAA
1 AAAATATATAATAAATAA
6332056 AAAATATA
1 AAAATATA
6332064 GTTGGCAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 4 0.17
19 7 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATATATAATAAATAA
Found at i:6332930 original size:19 final size:20
Alignment explanation
Indices: 6332906--6332945 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
6332896 NNNNNNATTA
6332906 ATATTAA-A-TAAATATAAAT
1 ATATTAATACTAAATA-AAAT
6332925 ATATTAATACTAAATAAAAT
1 ATATTAATACTAAATAAAAT
6332945 A
1 A
6332946 AAAATCCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 6 0.32
21 6 0.32
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATTAATACTAAATAAAAT
Found at i:6333288 original size:10 final size:10
Alignment explanation
Indices: 6333273--6333315 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
6333263 TTTGAAATAT
6333273 TTTAATATAA
1 TTTAATATAA
6333283 TTTAATATTTAA
1 TTTAATA--TAA
*
6333295 TATTAATTTAA
1 T-TTAATATAA
6333306 TTTAATATAA
1 TTTAATATAA
6333316 AACATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 15 0.54
11 4 0.14
12 4 0.14
13 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTAATATAA
Found at i:6333291 original size:18 final size:18
Alignment explanation
Indices: 6333268--6333306 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6333258 AAATATTTGA
6333268 AATATTTTAATA-TAATTT
1 AATA-TTTAATATTAATTT
6333286 AATATTTAATATTAATTT
1 AATATTTAATATTAATTT
6333304 AAT
1 AAT
6333307 TTAATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATTTAATATTAATTT
Found at i:6333937 original size:22 final size:22
Alignment explanation
Indices: 6333906--6333956 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6333896 TAAACCTTTT
* *
6333906 TTTTGTTGTTGTTTTACTGTCA
1 TTTTGCTGTTGTTTTACTATCA
* *
6333928 TTTTGCTGTTTTTTTTCTATCA
1 TTTTGCTGTTGTTTTACTATCA
6333950 TTTTGCT
1 TTTTGCT
6333957 ATTATATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.08, C:0.12, G:0.14, T:0.67
Consensus pattern (22 bp):
TTTTGCTGTTGTTTTACTATCA
Found at i:6337329 original size:21 final size:21
Alignment explanation
Indices: 6337305--6337354 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
6337295 TTTACCTAAG
*
6337305 ATATAAATTGAATTGAATTGA
1 ATATAAATTGAATTAAATTGA
* *
6337326 ATATGAATTGTATTAAATTGA
1 ATATAAATTGAATTAAATTGA
*
6337347 GT-TAAATT
1 ATATAAATT
6337355 TACTTGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (21 bp):
ATATAAATTGAATTAAATTGA
Found at i:6339522 original size:21 final size:18
Alignment explanation
Indices: 6339494--6339550 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
6339484 CTTTACACCA
6339494 CATTGTGGATAAACCACT
1 CATTGTGGATAAACCACT
**
6339512 CATCGTTGTGGACGAACCACT
1 CA---TTGTGGATAAACCACT
6339533 CATTGTGGATAAACCACT
1 CATTGTGGATAAACCACT
6339551 AGTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 16 0.50
21 16 0.50
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (18 bp):
CATTGTGGATAAACCACT
Found at i:6339735 original size:22 final size:22
Alignment explanation
Indices: 6339705--6339783 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 22
6339695 TTTCTATTAT
*
6339705 AGTGTAGATAAACCACTCAAAC
1 AGTGCAGATAAACCACTCAAAC
*
6339727 AGTGCAGATAAAATCTACTCAAAC
1 AGTGCAGAT-AAA-CCACTCAAAC
* **
6339751 GGTGTGGATAAACCACTC-AAC
1 AGTGCAGATAAACCACTCAAAC
* *
6339772 GGTGCATATAAA
1 AGTGCAGATAAA
6339784 TTGTTCAACT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 12 0.26
22 13 0.28
23 6 0.13
24 15 0.33
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (22 bp):
AGTGCAGATAAACCACTCAAAC
Found at i:6342305 original size:13 final size:13
Alignment explanation
Indices: 6342287--6342312 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6342277 TCCATTCAAC
6342287 TTTGACCTTATAA
1 TTTGACCTTATAA
6342300 TTTGACCTTATAA
1 TTTGACCTTATAA
6342313 GCTGAGGTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTGACCTTATAA
Found at i:6345332 original size:109 final size:108
Alignment explanation
Indices: 6345137--6345463 Score: 489
Period size: 109 Copynumber: 3.0 Consensus size: 108
6345127 TGGATTAAGA
* * *
6345137 TTTAAGAGGATATTTGGCTATTTGGTCCAACGAG--AAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGT
** * *
6345200 TTTCTCGAATTTTCGAACGCAAAACATTGCCTTATTTTGAAAT
66 TTTCTCGAATTCCCAAACGCAAAACATTGCCTTACTTTGAAAT
* *
6345243 TTCTAAAAGGATATTTGGCTATTTGGTCGAATGAGAAAAATCGAAACCCAGCGCATTAGGGCAGG
1 TT-TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACG
*
6345308 TTTTCTCAAATTCCCAAACGCAAAACATTGCCTTACTTTGAAAAT
65 TTTTCTCGAATTCCCAAACGCAAAACATTGCCTTACTTTG-AAAT
**
6345353 TTTAAAATTATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGT
*
6345418 TTTCTCGAA-TCTCCAAACGCAAAACATTGTCTTACTTTGAAAT
66 TTTCTCGAATTC-CCAAACGCAAAACATTGCCTTACTTTGAAAT
6345461 TTT
1 TTT
6345464 TTTTAAAAGG
Statistics
Matches: 200, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
106 2 0.01
107 29 0.14
108 9 0.05
109 154 0.77
110 6 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (108 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGT
TTTCTCGAATTCCCAAACGCAAAACATTGCCTTACTTTGAAAT
Found at i:6346790 original size:12 final size:12
Alignment explanation
Indices: 6346773--6346823 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
6346763 TATATATATT
6346773 AAAATAAAAAGA
1 AAAATAAAAAGA
*
6346785 AAAATAAATAGA
1 AAAATAAAAAGA
* *
6346797 GTAAA-AAGAAGTA
1 -AAAATAAAAAG-A
6346810 AAAATAAAAAGA
1 AAAATAAAAAGA
6346822 AA
1 AA
6346824 CCCTTAGATC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (12 bp):
AAAATAAAAAGA
Found at i:6347585 original size:88 final size:88
Alignment explanation
Indices: 6347466--6347723 Score: 356
Period size: 88 Copynumber: 2.9 Consensus size: 88
6347456 GATTTGTGGT
* * * * * * **
6347466 TTAAATTTACTTCACTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCCCCTCCACTACTG
1 TTAAATATACTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTG
*
6347531 CTTAGGGAGACAGGA-CTAATGGC
66 CTTAGGGAGACAGAATC-AATGGC
* * * *
6347554 TTAAATATATTTTTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATGTGCTCCACTACTG
1 TTAAATATACTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTG
*
6347619 CTTAGGGAGATAGAATCAATGGC
66 CTTAGGGAGACAGAATCAATGGC
*
6347642 TTAAATATGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTG
1 TTAAATATACTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTG
*
6347707 CTTAGGGAGATAGAATC
66 CTTAGGGAGACAGAATC
6347724 TGCAATCTTC
Statistics
Matches: 151, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 150 0.99
89 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (88 bp):
TTAAATATACTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTG
CTTAGGGAGACAGAATCAATGGC
Found at i:6347615 original size:42 final size:42
Alignment explanation
Indices: 6347567--6347703 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 42
6347557 AATATATTTT
*
6347567 TCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATGTGC
1 TCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATGTAC
* ** *
6347609 TCCACTACTGCTTAGGG-AGAT-AGAATCA--ATGGCTTAAATATGCTTC
1 TCCACTA-T-CTT-GGGAAGATAAGATTCACCAT--CTT--CGATG-TAC
*
6347655 TCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTAC
1 TCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATGTAC
6347697 TCCACTA
1 TCCACTA
6347704 CTGCTTAGGG
Statistics
Matches: 74, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
41 2 0.03
42 16 0.22
43 15 0.20
44 14 0.19
45 16 0.22
46 9 0.12
47 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
TCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATGTAC
Found at i:6347741 original size:44 final size:44
Alignment explanation
Indices: 6347684--6347895 Score: 161
Period size: 44 Copynumber: 4.8 Consensus size: 44
6347674 AAGATTCACC
* *
6347684 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTGCA
1 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGAATCTGCA
*
6347728 ATCTTCAACCTACTCCACTACCGCTTAGGGAGATA-AGA-CT--A
1 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGA-ATCTGCA
* * * * * *
6347769 ATGGCTTAAATATGCTTCTCCACTA-T-CTT-GGGAAGATAAGATTC-ACC
1 AT--CTT-CA-A-CCTACTCCACTACTGCTTAGGG-AGAT-AGAATCTGCA
* * * * *
6347816 ATCTTCGATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCA
1 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGAATCTGCA
*
6347860 ATCTTCAACCTACTTCACTACTGCTTAGGGAGATAG
1 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAG
6347896 GACTAGTGGC
Statistics
Matches: 129, Mismatches: 23, Indels: 32
0.70 0.12 0.17
Matches are distributed among these distances:
41 3 0.02
42 10 0.08
43 16 0.12
44 78 0.60
45 8 0.06
46 12 0.09
47 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGAATCTGCA
Found at i:6347819 original size:132 final size:132
Alignment explanation
Indices: 6347608--6347907 Score: 512
Period size: 132 Copynumber: 2.3 Consensus size: 132
6347598 CTTCGATGTG
*
6347608 CTCCACTACTGCTTAGGGAGAT-AGAATCAATGGCTTAAATATGCTTCTCCACTATCTTGGGAAG
1 CTCCACTACTGCTTAGGGAGATAAGACT-AATGGCTTAAATATGCTTCTCCACTATCTTGGGAAG
* *
6347672 ATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAGAATCTGCAATCTTCAAC
65 ATAAGATTCACCATCTTCGATCTACTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCAAC
6347737 CTA
130 CTA
*
6347740 CTCCACTACCGCTTAGGGAGATAAGACTAATGGCTTAAATATGCTTCTCCACTATCTTGGGAAGA
1 CTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATATGCTTCTCCACTATCTTGGGAAGA
*
6347805 TAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTACTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACC
6347870 TA
131 TA
* * *
6347872 CTTCACTACTGCTTAGGGAGATAGGACTAGTGGCTT
1 CTCCACTACTGCTTAGGGAGATAAGACTAATGGCTT
6347908 CCCCGATCTA
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
132 154 0.97
133 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
CTCCACTACTGCTTAGGGAGATAAGACTAATGGCTTAAATATGCTTCTCCACTATCTTGGGAAGA
TAAGATTCACCATCTTCGATCTACTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACC
TA
Found at i:6357440 original size:43 final size:43
Alignment explanation
Indices: 6357379--6357466 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
6357369 GTTCTTCTCT
*
6357379 TGGCCTAAGGATGTTATCATTAATCATTTTACTCTGCCACTCA
1 TGGCCTAAGGATGTTATCATTAATCATTTTACTCTGCCACCCA
*
6357422 TGGCCTAAGGATGTTATCATTAATCCTTTTACTCTGCCACCCA
1 TGGCCTAAGGATGTTATCATTAATCATTTTACTCTGCCACCCA
6357465 TG
1 TG
6357467 ATATTCCGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (43 bp):
TGGCCTAAGGATGTTATCATTAATCATTTTACTCTGCCACCCA
Found at i:6358672 original size:16 final size:16
Alignment explanation
Indices: 6358651--6358685 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6358641 TTTTATAATG
**
6358651 AAATGCCATGTAGTCA
1 AAATGCCATCCAGTCA
6358667 AAATGCCATCCAGTCA
1 AAATGCCATCCAGTCA
6358683 AAA
1 AAA
6358686 CAAAACAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (16 bp):
AAATGCCATCCAGTCA
Found at i:6359938 original size:109 final size:109
Alignment explanation
Indices: 6359617--6359938 Score: 518
Period size: 109 Copynumber: 3.0 Consensus size: 109
6359607 GATTTAAGAG
* * *
6359617 GATATTTGGCTATTTGGTCGAACGAAAAAAATCGAAACTCAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTCGA
* * *
6359682 ATTTCCAAACGCAAAACATTACCTTATTTTGAAAGTTTTAAAAA
66 ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTAAAAA
* *
6359726 GATATTTGGCTATTTGGTCGAACAAGAAAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTTGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTCGA
* * * *
6359791 ATTTTCAAACGCAAAACATTGCCTCACTTTGAACTTTTTAAAAT
66 ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTAAAAA
6359835 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTCGA
* *
6359900 ATCTCCAAACGCAAAACATTGCCTTACTTTGAATTTTTT
66 ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTT
6359939 TTAAAAGGAT
Statistics
Matches: 195, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 195 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (109 bp):
GATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCGCATTAGGGCACGTTTTCTCGA
ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTTAAAAA
Found at i:6360192 original size:14 final size:14
Alignment explanation
Indices: 6360175--6360205 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6360165 AAGTAAAAGT
*
6360175 AAAAATAAAACTAA
1 AAAAATAAAAATAA
6360189 AAAAATAAAAATAA
1 AAAAATAAAAATAA
6360203 AAA
1 AAA
6360206 TAAAAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAATAA
Done.