Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 147 of 250
Found at i:47701954 original size:12 final size:12
Alignment explanation
Indices: 47701921--47701946 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47701911 TGCAACAGAA
47701921 AAACCATTTTTT
1 AAACCATTTTTT
47701933 AAACCATTTTTT
1 AAACCATTTTTT
47701945 AA
1 AA
47701947 GTCATTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (12 bp):
AAACCATTTTTT
Found at i:47711244 original size:18 final size:20
Alignment explanation
Indices: 47711208--47711250 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
47711198 ACTCTTAACC
47711208 TTTTAAAAAGAATCAAATT-T
1 TTTTAAAAAG-ATCAAATTAT
*
47711228 TTTTAAAAAG-TCGAATTAT
1 TTTTAAAAAGATCAAATTAT
47711247 TTTT
1 TTTT
47711251 TTAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 5 0.24
20 10 0.48
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
TTTTAAAAAGATCAAATTAT
Found at i:47718701 original size:15 final size:15
Alignment explanation
Indices: 47718683--47718725 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
47718673 GAAGCCCAGA
47718683 ATAAAGAAATCCATG
1 ATAAAGAAATCCATG
*
47718698 ATAAAAAAATCCATG
1 ATAAAGAAATCCATG
* *
47718713 ATTAGGAAATCCA
1 ATAAAGAAATCCA
47718726 AATTACAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.21
Consensus pattern (15 bp):
ATAAAGAAATCCATG
Found at i:47726123 original size:47 final size:47
Alignment explanation
Indices: 47726057--47726531 Score: 799
Period size: 47 Copynumber: 10.1 Consensus size: 47
47726047 GAAATGATAG
47726057 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47726104 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
47726153 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47726200 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47726247 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47726294 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47726340 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47726387 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47726434 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
47726481 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47726528 TAAG
1 TAAG
47726532 TCCCGAAGGG
Statistics
Matches: 410, Mismatches: 15, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
46 45 0.11
47 318 0.78
49 47 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47726435 original size:187 final size:188
Alignment explanation
Indices: 47726057--47726531 Score: 799
Period size: 187 Copynumber: 2.5 Consensus size: 188
47726047 GAAATGATAG
47726057 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
47726122 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
47726187 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
129 TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
47726247 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
47726312 GTGATGAATGTGAAAGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
47726376 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
47726434 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
47726499 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
47726532 TCCCGAAGGG
Statistics
Matches: 268, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
187 173 0.65
188 14 0.05
190 81 0.30
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47726718 original size:36 final size:37
Alignment explanation
Indices: 47726650--47726727 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
47726640 CCGAGCTCTA
* *
47726650 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
*
47726687 AAGACCCGATAACTTCGTGT-GGAATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
47726723 AAGAC
1 AAGAC
47726728 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:47728154 original size:23 final size:23
Alignment explanation
Indices: 47728128--47728175 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
47728118 TTGAAAGTTA
*
47728128 AATAGGTGATTGCTTTAATGACC
1 AATAGGTGATTACTTTAATGACC
47728151 AATAGGTGATTACTTTAATGACC
1 AATAGGTGATTACTTTAATGACC
47728174 AA
1 AA
47728176 ATGTGCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
AATAGGTGATTACTTTAATGACC
Found at i:47729852 original size:47 final size:47
Alignment explanation
Indices: 47729786--47730306 Score: 893
Period size: 47 Copynumber: 11.1 Consensus size: 47
47729776 GAAATGATAG
47729786 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47729833 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
47729882 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47729929 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47729976 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47730023 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47730070 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47730115 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47730162 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47730209 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
47730256 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
47730303 TAAG
1 TAAG
47730307 TCCCGAAGGG
Statistics
Matches: 456, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
45 12 0.03
46 66 0.14
47 331 0.73
49 47 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47730197 original size:233 final size:236
Alignment explanation
Indices: 47729786--47730306 Score: 895
Period size: 233 Copynumber: 2.2 Consensus size: 236
47729776 GAAATGATAG
47729786 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
47729851 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
47729916 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
130 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
47729981 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
195 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
47730023 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
47730087 GTGATGAATGTGAAAGTG-TATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
47730150 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
131 GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
47730215 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
196 CTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
47730256 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47730307 TCCCGAAGGG
Statistics
Matches: 270, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
233 180 0.67
234 9 0.03
236 24 0.09
237 57 0.21
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (236 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:47730481 original size:37 final size:37
Alignment explanation
Indices: 47730425--47730503 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47730415 CCGAGCTCTA
* *
47730425 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
47730462 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47730499 AAGAC
1 AAGAC
47730504 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47739137 original size:10 final size:10
Alignment explanation
Indices: 47739122--47739148 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
47739112 GTAACCTATT
47739122 CAAAACAAGC
1 CAAAACAAGC
47739132 CAAAACAAGC
1 CAAAACAAGC
47739142 CAAAACA
1 CAAAACA
47739149 TACATATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.63, C:0.30, G:0.07, T:0.00
Consensus pattern (10 bp):
CAAAACAAGC
Found at i:47740134 original size:23 final size:23
Alignment explanation
Indices: 47740078--47740135 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
47740068 ACACCACTCA
* *
47740078 GCACTAAAGTACTTTAATAATAG
1 GCACTAAAGTGCTTTAACAATAG
* *
47740101 GCACCAAAGTGCTTTAACAGTAG
1 GCACTAAAGTGCTTTAACAATAG
47740124 GCACTAAAGTGC
1 GCACTAAAGTGC
47740136 AAGATAGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (23 bp):
GCACTAAAGTGCTTTAACAATAG
Found at i:47740181 original size:44 final size:44
Alignment explanation
Indices: 47740118--47740203 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
47740108 AGTGCTTTAA
* *
47740118 CAGTAGGCACTAAAGTGC-AAGATAGTAAGCACCGAAGTGCAATG
1 CAGTAGGCACTAAACTGCAAAGA-AGTAAGCACCAAAGTGCAATG
* * * *
47740162 CAGTAGTCACTATACTGCAAAGAAGTAGGCACTAAAGTGCAA
1 CAGTAGGCACTAAACTGCAAAGAAGTAAGCACCAAAGTGCAA
47740204 ATCAATAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
44 31 0.89
45 4 0.11
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (44 bp):
CAGTAGGCACTAAACTGCAAAGAAGTAAGCACCAAAGTGCAATG
Found at i:47740244 original size:22 final size:22
Alignment explanation
Indices: 47740119--47740238 Score: 91
Period size: 22 Copynumber: 5.5 Consensus size: 22
47740109 GTGCTTTAAC
47740119 AGTAGGCACTAAAGTGC-AAGAT
1 AGTAGGCACTAAAGTGCAAAG-T
* ** * *
47740141 AGTAAGCACCGAAGTGCAATGC
1 AGTAGGCACTAAAGTGCAAAGT
* * * *
47740163 AGTAGTCACTATACTGCAAAGA
1 AGTAGGCACTAAAGTGCAAAGT
47740185 AGTAGGCACTAAAGTGCAAA-T
1 AGTAGGCACTAAAGTGCAAAGT
* * * *
47740206 CAATAGGGACCATAGTGCAAAGT
1 -AGTAGGCACTAAAGTGCAAAGT
47740229 AGTAGGCACT
1 AGTAGGCACT
47740239 GTAGTGAAGA
Statistics
Matches: 71, Mismatches: 24, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
22 68 0.96
23 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.18
Consensus pattern (22 bp):
AGTAGGCACTAAAGTGCAAAGT
Found at i:47740254 original size:44 final size:44
Alignment explanation
Indices: 47740177--47740270 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
47740167 GTCACTATAC
* *
47740177 TGCAAAGAAGTAGGCACTAAAGTGCAAATCAATAGGGACC-ATA
1 TGCAAAGAAGTAGGCACTAAAGTGCAAAACAATAGGCACCAATA
* **
47740220 GTGCAAAGTAGTAGGCACTGTAGTG-AAGAACAATAGGCACCAATA
1 -TGCAAAGAAGTAGGCACTAAAGTGCAA-AACAATAGGCACCAATA
47740265 TGCAAA
1 TGCAAA
47740271 ACAGTTAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 38 0.88
45 3 0.07
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.17
Consensus pattern (44 bp):
TGCAAAGAAGTAGGCACTAAAGTGCAAAACAATAGGCACCAATA
Found at i:47757621 original size:93 final size:93
Alignment explanation
Indices: 47757462--47757634 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 93
47757452 AGGATATCTG
* *** *
47757462 GGCATCCGAGCTCATTGAGTTGAGTTTGAGTTCACTTATAGATCCAAATGTCCGAGCTCATTGAG
1 GGCATCCGAGCTCATTAAGTTGAGTCCAAGTTCACCTATAGATCCAAATGTCCGAGCTCATTGAG
47757527 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
47757555 GGCATCCGAGCTCGTTAAGTTGAGTCCAAGTTCACCTATGGATGCGAATG-CCTGAGCTCGTTGA
1 GGCATCCGAGCTCATTAAGTTGAGTCCAAGTTCACCTATAGATCCAAATGTCC-GAGCTCATTGA
47757619 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
47757635 CTTATGGGCG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCATTAAGTTGAGTCCAAGTTCACCTATAGATCCAAATGTCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:47762244 original size:20 final size:21
Alignment explanation
Indices: 47762219--47762258 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
47762209 ACATGCAGTT
47762219 TAAAATTTTCAAAT-TTTTCC
1 TAAAATTTTCAAATGTTTTCC
47762239 TAAAATTTTCAAATGTTTTC
1 TAAAATTTTCAAATGTTTTC
47762259 GATTTAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (21 bp):
TAAAATTTTCAAATGTTTTCC
Found at i:47763381 original size:31 final size:30
Alignment explanation
Indices: 47763324--47763382 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
47763314 GTAAATACTC
* * * *
47763324 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAAGGACTAAAGTGCAAATATGA
47763354 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAA-AGTGCAAATAT
47763383 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGCAAATATGA
Found at i:47789711 original size:6 final size:6
Alignment explanation
Indices: 47789681--47789799 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
47789671 AAGAAACACT
* * *
47789681 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * * *
47789730 ATCAGA TTCATA ATCAGA ATTAG- GTGACAGA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
47789781 A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
47789800 GTGAATACAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 67 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:47789726 original size:19 final size:19
Alignment explanation
Indices: 47789702--47789771 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
47789692 AATCAAAATG
47789702 AGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGGTGAC
* *
47789721 AGAATCAGAATCAGAT-TC
1 AGAATCAGAATCAGGTGAC
* *
47789739 ATAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGGTGAC
*
47789758 AGAATCAAAATCAG
1 AGAATCAGAATCAG
47789772 TATCAGGTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.34
19 27 0.66
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (19 bp):
AGAATCAGAATCAGGTGAC
Found at i:47789733 original size:37 final size:37
Alignment explanation
Indices: 47789690--47789770 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
47789680 TATCAGAACT
*
47789690 AGAATCAAAATGAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGGTGACAGAATC
* * * *
47789727 AGAATCAGATTCATAATCAGAATTAGGTGACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGGTGACAGAATC
*
47789764 AAAATCA
1 AGAATCA
47789771 GTATCAGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:47789769 original size:25 final size:25
Alignment explanation
Indices: 47789720--47789799 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
47789710 AATCAGGTGA
* *
47789720 CAGAATCA-G-AATCAGATTCATAAT
1 CAGAATCAGGTAA-CAGAATCAAAAT
* *
47789744 CAGAATTAGGTGACAGAATCAAAAT
1 CAGAATCAGGTAACAGAATCAAAAT
* *
47789769 CAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGGTAACAGAATCAAAAT
47789794 CAGAAT
1 CAGAAT
47789800 GTGAATACAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 7 0.16
25 37 0.82
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (25 bp):
CAGAATCAGGTAACAGAATCAAAAT
Found at i:47789954 original size:27 final size:26
Alignment explanation
Indices: 47789917--47790024 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 26
47789907 AGCATGGCTG
* *
47789917 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
47789943 CCAGATACAGATATTGTGGCAAAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
47789970 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
47789997 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
47790024 C
1 C
47790025 TTAACAGAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 12 0.16
27 53 0.73
28 8 0.11
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:47790007 original size:54 final size:53
Alignment explanation
Indices: 47789917--47790024 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 53
47789907 AGCATGGCTG
* * *
47789917 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAAAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
*
47789970 CCAGAACAGATATTTGTGGCAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
47790024 C
1 C
47790025 TTAACAGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
Found at i:47790050 original size:54 final size:54
Alignment explanation
Indices: 47789917--47790042 Score: 132
Period size: 54 Copynumber: 2.4 Consensus size: 54
47789907 AGCATGGCTG
* * * * * *
47789917 CCAGAACAGATAT-TGTGACAGAGTCACCAGATACAGATATTGTGGCAAAGCCA
1 CCAGAACAGATATACGTGGCAAAGCCACCAGAAACAGATAATGTGGCAAAGCCA
** *
47789970 CCAGAACAGATATTTGTGGCAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATATACGTGGCAAAGCCACCAGAAACAGATAATGTGGCAAAGCCA
**
47790024 -CTTAACAGA-ATACGTGGCA
1 CCAGAACAGATATACGTGGCA
47790043 CAAAGCCATC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
52 8 0.12
53 20 0.31
54 36 0.56
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATACGTGGCAAAGCCACCAGAAACAGATAATGTGGCAAAGCCA
Found at i:47790211 original size:22 final size:22
Alignment explanation
Indices: 47790183--47790231 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
47790173 GCAAATACGT
47790183 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACACAGCCAT-ATGTAGG
*
47790205 TTGGCACAGAGCCATATGTAGG
1 TTGGCACACAGCCATATGTAGG
47790227 TTGGC
1 TTGGC
47790232 GCAAAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (22 bp):
TTGGCACACAGCCATATGTAGG
Found at i:47790241 original size:22 final size:22
Alignment explanation
Indices: 47790183--47790242 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
47790173 GCAAATACGT
* *
47790183 TTGGCACACAGCCATAAT-TAGG
1 TTGGCACAAAACCAT-ATGTAGG
* *
47790205 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAACCATATGTAGG
*
47790227 TTGGCGCAAAACCATA
1 TTGGCACAAAACCATA
47790243 ATCAGAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAACCATATGTAGG
Found at i:47790702 original size:27 final size:27
Alignment explanation
Indices: 47790636--47790716 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
47790626 GGGCAAAATG
* * * *
47790636 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
47790663 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47790690 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
47790717 ATAACTTTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:47795188 original size:24 final size:23
Alignment explanation
Indices: 47795143--47795189 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
47795133 TACAATCAGA
* *
47795143 GAATGAGCTAAAGAAGACAAGGG
1 GAATGAGCAAAAGAAGAAAAGGG
*
47795166 GAATGAGTCAAAAGAATAAAAGGG
1 GAATGAG-CAAAAGAAGAAAAGGG
47795190 AAGATTCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.51, C:0.06, G:0.32, T:0.11
Consensus pattern (23 bp):
GAATGAGCAAAAGAAGAAAAGGG
Found at i:47805585 original size:29 final size:29
Alignment explanation
Indices: 47805543--47805643 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
47805533 CATGAAATTG
47805543 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
47805572 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
47805601 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
47805629 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
47805644 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:47809808 original size:40 final size:40
Alignment explanation
Indices: 47809750--47809897 Score: 199
Period size: 40 Copynumber: 3.7 Consensus size: 40
47809740 ATAACCACAA
* * * * *
47809750 GCACAATTGCCTTTGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
47809790 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
47809830 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
47809870 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
47809898 CTATCATTCA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 94 0.96
41 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:47817943 original size:40 final size:40
Alignment explanation
Indices: 47817888--47818024 Score: 186
Period size: 40 Copynumber: 3.4 Consensus size: 40
47817878 ATAACCACAA
* * *
47817888 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
47817928 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
47817968 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
*
47818008 GCATAAATGCCTTCGGG
1 GCACAAATGCCTTCGGG
47818025 ACCCGGATAT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 85 0.96
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:47824932 original size:31 final size:28
Alignment explanation
Indices: 47824886--47824946 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
47824876 ATTTTAATCC
*
47824886 TTTTATATATAATTTATTTATTTTAAATA
1 TTTTATATATAATTTATTT-TTATAAATA
47824915 TTTTATATATATTATTTATTTTTATAAATA
1 TTTTATATATA--ATTTATTTTTATAAATA
47824945 TT
1 TT
47824947 ATTTATACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.38
30 10 0.34
31 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTATATATAATTTATTTTTATAAATA
Found at i:47824939 original size:19 final size:19
Alignment explanation
Indices: 47824915--47824952 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47824905 ATTTTAAATA
*
47824915 TTTTATATATATTATTTAT
1 TTTTATAAATATTATTTAT
47824934 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
47824953 ACATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:47825019 original size:11 final size:11
Alignment explanation
Indices: 47824980--47825033 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
47824970 ATATAATAAT
*
47824980 TTTTATTTATG
1 TTTTATTTATA
*
47824991 TATTATTTATCA
1 TTTTATTTAT-A
*
47825003 TGTTATTTATA
1 TTTTATTTATA
47825014 TTTTA--TATA
1 TTTTATTTATA
47825023 TTTTATTTATA
1 TTTTATTTATA
47825034 GCTTTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.25
11 18 0.50
12 9 0.25
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (11 bp):
TTTTATTTATA
Found at i:47825070 original size:14 final size:14
Alignment explanation
Indices: 47825049--47825122 Score: 53
Period size: 14 Copynumber: 5.0 Consensus size: 14
47825039 TATTATAAAT
47825049 TATA-TATTTATTA
1 TATATTATTTATTA
47825062 TATATTATTCCCTA-TA
1 TATATTATT---TATTA
* *
47825078 TTATCTTCATTTTTTTA
1 -TATATT-ATTTAT-TA
*
47825095 TATATTATTTTTTA
1 TATATTATTTATTA
47825109 TATATTATTTATTA
1 TATATTATTTATTA
47825123 GTACATATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
13 4 0.08
14 19 0.39
15 7 0.14
16 7 0.14
17 9 0.18
18 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
TATATTATTTATTA
Found at i:47825119 original size:11 final size:11
Alignment explanation
Indices: 47824982--47825120 Score: 55
Period size: 11 Copynumber: 12.7 Consensus size: 11
47824972 ATAATAATTT
*
47824982 TTATTTATGTA
1 TTATTTATATA
*
47824993 TTATTTATCATG
1 TTATTTAT-ATA
47825005 TTATTTATAT-
1 TTATTTATATA
* *
47825015 TT-TATATATT
1 TTATTTATATA
*
47825025 TTATTTATAGCTT
1 TTATTTATA--TA
*
47825038 TTA-TTATAAA
1 TTATTTATATA
47825048 TTA--TATAT-
1 TTATTTATATA
47825056 TTA-TTATATA
1 TTATTTATATA
**
47825066 TTATTCCCTATA
1 TTATT-TATATA
47825078 TTATCTTCAT-T-
1 TTAT-TT-ATATA
47825089 TT-TTTATATA
1 TTATTTATATA
47825099 TTATTTTTTATATA
1 TTA---TTTATATA
47825113 TTATTTAT
1 TTATTTAT
47825121 TAGTACATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 34
0.69 0.08 0.23
Matches are distributed among these distances:
8 5 0.05
9 18 0.18
10 13 0.13
11 23 0.23
12 23 0.23
13 7 0.07
14 11 0.11
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (11 bp):
TTATTTATATA
Found at i:47833047 original size:25 final size:25
Alignment explanation
Indices: 47833019--47833066 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
47833009 TTAATTAGTA
47833019 TAAAATATT-AATAATTC-AATAAATT
1 TAAAA-ATTAAATAA-TCAAATAAATT
47833044 TAAAAATTAAATAATCAAATAAA
1 TAAAAATTAAATAATCAAATAAA
47833067 ATTGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAAATTAAATAATCAAATAAATT
Found at i:47843528 original size:21 final size:21
Alignment explanation
Indices: 47843503--47843544 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47843493 GCATAGGAAG
47843503 AAAAGAAATCCTTTAGGATTC
1 AAAAGAAATCCTTTAGGATTC
47843524 AAAAGAAATCCTTTAGGATTC
1 AAAAGAAATCCTTTAGGATTC
47843545 CTAAGGCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
AAAAGAAATCCTTTAGGATTC
Found at i:47846404 original size:20 final size:20
Alignment explanation
Indices: 47846338--47846404 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
47846328 ATTTTAATAA
*
47846338 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
47846358 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
47846378 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47846398 ACATGAT
1 ACATGAT
47846405 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47846488 original size:25 final size:24
Alignment explanation
Indices: 47846454--47846598 Score: 177
Period size: 25 Copynumber: 6.0 Consensus size: 24
47846444 GAGGAAGTGT
*
47846454 AAAAAGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATG
* *
47846478 ATAAAGGGCTTACGCCCAAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
*
47846503 ATAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATG
*
47846528 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
47846552 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
47846575 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47846599 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
23 19 0.17
24 40 0.36
25 51 0.46
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATG
Found at i:47846537 original size:49 final size:48
Alignment explanation
Indices: 47846454--47846584 Score: 183
Period size: 49 Copynumber: 2.7 Consensus size: 48
47846444 GAGGAAGTGT
* *
47846454 AAAAAGGCTTATGCCCCAGTTATGATAAAGGGCTTACGCCCAAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTACGCCCAAGTTATG
* * *
47846503 ATAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCAAGTTATG
47846552 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCT
47846585 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
47 18 0.24
48 13 0.17
49 22 0.29
50 22 0.29
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTACGCCCAAGTTATG
Found at i:47846827 original size:31 final size:31
Alignment explanation
Indices: 47846792--47846851 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
47846782 CGTTTACAGT
47846792 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
47846823 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
47846852 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:47848819 original size:37 final size:37
Alignment explanation
Indices: 47848769--47848847 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47848759 TTATTACGAA
* * *
47848769 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47848806 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47848843 GTCTT
1 GTCTT
47848848 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47849044 original size:47 final size:47
Alignment explanation
Indices: 47848966--47849807 Score: 1387
Period size: 47 Copynumber: 17.7 Consensus size: 47
47848956 CCCTTCGGGA
* * * * * *
47848966 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47849013 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47849060 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47849107 CTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47849154 CTTATCACATATATATACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47849201 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47849248 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47849295 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47849342 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47849389 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47849438 CTTATCACATATATGCACTTTCACATTCATCACATCGGCTATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47849485 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47849532 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47849581 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47849628 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47849675 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47849722 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47849771 CTTATAACATATATATACATGTTCACATCCATCACAT
1 CTTATCACATATATACAC-T-TTCACATTCATCACAT
47849808 AGAATCCTAA
Statistics
Matches: 750, Mismatches: 37, Indels: 14
0.94 0.05 0.02
Matches are distributed among these distances:
47 596 0.79
48 1 0.00
49 153 0.20
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47849467 original size:143 final size:143
Alignment explanation
Indices: 47848966--47849807 Score: 1376
Period size: 143 Copynumber: 5.9 Consensus size: 143
47848956 CCCTTCGGGA
* * * * * * *
47848966 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
47849029 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47849094 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * *
47849107 CTTA-C-CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
47849170 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47849235 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
47849248 CTTATCAC--ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
47849311 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47849376 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * *
47849389 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGACTTATCACATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
47849454 ACTTTCACATTCATCACATCGGCTATTGGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47849519 TCGGCCATTAGGC
131 TCGGCCATTAGGC
47849532 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
47849597 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
47849662 TCGGCCATTAGGC
131 TCGGCCATTAGGC
47849675 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * *
47849738 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATATACATGTTCACATCCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC-T-TTCACATTCAT
47849803 CACAT
127 CACAT
47849808 AGAATCCTAA
Statistics
Matches: 664, Mismatches: 27, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
139 2 0.00
140 2 0.00
141 310 0.47
142 1 0.00
143 333 0.50
144 1 0.00
145 15 0.02
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:47849881 original size:18 final size:18
Alignment explanation
Indices: 47849860--47849898 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47849850 CAATTATCCA
47849860 ATATAC-TTCACATATCAC
1 ATATACTTTCACATAT-AC
*
47849878 ATATACTTTCACGTATAC
1 ATATACTTTCACATATAC
47849896 ATA
1 ATA
47849899 CTCTCTTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATACTTTCACATATAC
Found at i:47857354 original size:28 final size:27
Alignment explanation
Indices: 47857307--47857410 Score: 95
Period size: 27 Copynumber: 3.8 Consensus size: 27
47857297 GCCAAAACAA
* * *
47857307 ATAATGTGACAGAGTCACCAGATACAG
1 ATAATGTGGCAAAGCCACCAGATACAG
47857334 ATAATCGTGGCAAAGCCACCAGA-ACAG
1 ATAAT-GTGGCAAAGCCACCAGATACAG
* * *
47857361 ATATATGTGGCAGAGCCATCAAAT-CAG
1 ATA-ATGTGGCAAAGCCACCAGATACAG
*
47857388 ATAATTTGTGGCATAGCCACCAG
1 ATAA--TGTGGCAAAGCCACCAG
47857411 GACGCTTCCT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 32 0.51
28 30 0.48
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
ATAATGTGGCAAAGCCACCAGATACAG
Found at i:47860360 original size:37 final size:37
Alignment explanation
Indices: 47860310--47860388 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47860300 TTATTACGAA
* * *
47860310 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
47860347 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
47860384 GTCTT
1 GTCTT
47860389 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:47860585 original size:47 final size:47
Alignment explanation
Indices: 47860507--47861010 Score: 831
Period size: 47 Copynumber: 10.8 Consensus size: 47
47860497 CCCTTCAGGA
* * * * * *
47860507 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47860554 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47860601 CTTATCACATATATACACTTTCACA-T--T--CATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47860643 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47860690 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47860737 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47860784 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47860831 CTTATCACATATATACACTTTCACATTCATCACATCGG-CAGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
47860878 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47860927 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47860974 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
47861011 AATCCTAAAT
Statistics
Matches: 433, Mismatches: 15, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
42 39 0.09
43 1 0.00
44 1 0.00
45 1 0.00
46 2 0.00
47 343 0.79
49 44 0.10
50 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47860937 original size:143 final size:140
Alignment explanation
Indices: 47860507--47861010 Score: 829
Period size: 143 Copynumber: 3.6 Consensus size: 140
47860497 CCCTTCAGGA
* * * * * * * *
47860507 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
47860572 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACA-T--T--CATC
66 TTTCACATTCATCACATCGG-CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
47860632 GGCCATTAGGC
130 GGCCATTAGGC
47860643 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
47860708 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGC-ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
47860773 GGCCATTAGGC
130 GGCCATTAGGC
*
47860784 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
47860849 TTTCACATTCATCACATCGGCAGTTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCA-TTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
47860914 TCGGCCATTAGGC
128 TCGGCCATTAGGC
*
47860927 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
47860992 TTTCACATTCATCACATCG
66 TTTCACATTCATCACATCG
47861011 AATCCTAAAT
Statistics
Matches: 349, Mismatches: 10, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
135 1 0.00
136 108 0.31
137 1 0.00
139 1 0.00
140 1 0.00
141 114 0.33
143 123 0.35
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (140 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:47864220 original size:40 final size:41
Alignment explanation
Indices: 47864132--47864454 Score: 346
Period size: 41 Copynumber: 7.9 Consensus size: 41
47864122 AAACGCTGCA
* * * *
47864132 AAAAACTAAACAATAACGGCGTTTTTGGCCCAAACGTCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* * *
47864173 AAAAACTGATCAATAGCGGCATTTTTAGACC-AACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* * * *
47864213 AAAAACTGATCAATAGCAGCATTTTTGG-ACAAACACCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* * * *
47864253 AAAAACTTATCAATAGCAGTGTTTTTGGCCCAAGCGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
*** *
47864294 AAAAACTGATCAATAGCGGCGTTTTTCTTCCAAACACCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* * *
47864335 AAAAACTTATGAATAGTGGCGTTTTTGGCCCAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* * * ***
47864376 AAAAACTAATCAATAACGGCTTTTTTCTTCCAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
* *
47864417 AAAAACTTG-TGAATAGCGGCGTTTTTGGTCCAAACGCC
1 AAAAAC-TGATCAATAGCGGCGTTTTTGGCCCAAACGCC
47864455 GCAAAAAGTT
Statistics
Matches: 233, Mismatches: 46, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.00
40 67 0.29
41 164 0.70
42 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (41 bp):
AAAAACTGATCAATAGCGGCGTTTTTGGCCCAAACGCCACT
Found at i:47864807 original size:21 final size:21
Alignment explanation
Indices: 47864756--47864816 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
47864746 CCTTAAATCT
* * *
47864756 TAAACATTAAACCCTAAACCC
1 TAAACACTAAACCATAAACCA
** *
47864777 TAAATTCTAAAACATAAACCA
1 TAAACACTAAACCATAAACCA
*
47864798 TAAACACTAATCCATAAAC
1 TAAACACTAAACCATAAAC
47864817 TCTAAAACCC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACACTAAACCATAAACCA
Found at i:47865439 original size:5 final size:5
Alignment explanation
Indices: 47865429--47865458 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
47865419 ATCAATTTTA
47865429 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
47865459 TAGTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:47870161 original size:46 final size:47
Alignment explanation
Indices: 47870084--47870190 Score: 180
Period size: 46 Copynumber: 2.3 Consensus size: 47
47870074 ATCAACGTAG
* *
47870084 ATATATACCATATCTTACATAATTTACATAACTTACATTATACATAA
1 ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
*
47870131 ATAT-TATCATATCTTACATAATTTATATAACTTACATAATACATAA
1 ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
47870177 ATATATATCATATC
1 ATATATATCATATC
47870191 ATAACTTACA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 43 0.77
47 13 0.23
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (47 bp):
ATATATATCATATCTTACATAATTTACATAACTTACATAATACATAA
Found at i:47870169 original size:9 final size:9
Alignment explanation
Indices: 47870092--47870207 Score: 62
Period size: 9 Copynumber: 13.0 Consensus size: 9
47870082 AGATATATAC
*
47870092 CATATCTTA
1 CATAACTTA
*
47870101 CATAATTTA
1 CATAACTTA
47870110 CATAACTTA
1 CATAACTTA
*
47870119 CATTA--TA
1 CATAACTTA
*
47870126 CATAAATATTA
1 CAT-AA-CTTA
*
47870137 TCATATCTTA
1 -CATAACTTA
*
47870147 CATAATTTA
1 CATAACTTA
*
47870156 TATAACTTA
1 CATAACTTA
47870165 CATAA--TA
1 CATAACTTA
*
47870172 CATAA-ATA
1 CATAACTTA
* * *
47870180 TATATCATA
1 CATAACTTA
47870189 TCATAACTTA
1 -CATAACTTA
47870199 CATAACTTA
1 CATAACTTA
47870208 ATTATAGTTA
Statistics
Matches: 82, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
7 12 0.15
8 6 0.07
9 49 0.60
10 9 0.11
11 3 0.04
12 3 0.04
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.40
Consensus pattern (9 bp):
CATAACTTA
Found at i:47875265 original size:13 final size:14
Alignment explanation
Indices: 47875249--47875277 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47875239 TTATAAATAT
47875249 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
47875262 TTATAATGGTTTAA
1 TTATAATGGTTTAA
47875276 TT
1 TT
47875278 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:47882051 original size:108 final size:108
Alignment explanation
Indices: 47881905--47882121 Score: 416
Period size: 108 Copynumber: 2.0 Consensus size: 108
47881895 GATACTTCAT
47881905 TGACCATCAACATTGCTGAAAACTCAATCCAATGTTAGTGAAGAAACACTATCTGTTGGATGTGG
1 TGACCATCAACATTGCTGAAAACTCAATCCAATGTTAGTGAAGAAACACTATCTGTTGGATGTGG
47881970 GAATATTGCCACTAGATTTAACAATTACCCTAAGATTATCCCC
66 GAATATTGCCACTAGATTTAACAATTACCCTAAGATTATCCCC
*
47882013 TGACCATCAACATTGCTGAAAACTTAATCCAATGTTAGTGAAGAAACACTATCTGTTGGATGTGG
1 TGACCATCAACATTGCTGAAAACTCAATCCAATGTTAGTGAAGAAACACTATCTGTTGGATGTGG
*
47882078 GAATATTGGCACTAGATTTAACAATTACCCTAAGATTATCCCC
66 GAATATTGCCACTAGATTTAACAATTACCCTAAGATTATCCCC
47882121 T
1 T
47882122 AAAATTCGTC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (108 bp):
TGACCATCAACATTGCTGAAAACTCAATCCAATGTTAGTGAAGAAACACTATCTGTTGGATGTGG
GAATATTGCCACTAGATTTAACAATTACCCTAAGATTATCCCC
Found at i:47887248 original size:24 final size:25
Alignment explanation
Indices: 47887221--47887281 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
47887211 ACTGATTTCA
*
47887221 CACACATAGTGCTAAT-C-AAATTCG
1 CACACATAGTGCTAATGCTAAA-CCG
*
47887245 CACACATAGTGC-CATGCTAAACCG
1 CACACATAGTGCTAATGCTAAACCG
47887269 CACACATAGTGCT
1 CACACATAGTGCT
47887282 TTGGAAATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 27 0.84
25 3 0.09
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (25 bp):
CACACATAGTGCTAATGCTAAACCG
Found at i:47887274 original size:48 final size:47
Alignment explanation
Indices: 47887221--47887376 Score: 143
Period size: 48 Copynumber: 3.3 Consensus size: 47
47887211 ACTGATTTCA
*
47887221 CACACATAGTGCTAATCAAATTCGCACACATAGTGCCATGCTAAACCG
1 CACACATAGTGCTAATCAAATTCGCACACATAGTGCCATTC-AAACCG
* * * * ** * *
47887269 CACACATAGTGCT-TTGGAAATTCACTCATTTATTGACATTCAAACCAG
1 CACACATAGTGCTAAT-CAAATTCGCACACATAGTGCCATTCAAACC-G
* * * *
47887317 CATACATAGTGCCAATCGATTTCGCACACATAGTGCCATTCAAATCCG
1 CACACATAGTGCTAATCAAATTCGCACACATAGTGCCATTCAAA-CCG
*
47887365 CACACTTAGTGC
1 CACACATAGTGC
47887377 CAATGTTGGC
Statistics
Matches: 81, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
47 6 0.07
48 72 0.89
49 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (47 bp):
CACACATAGTGCTAATCAAATTCGCACACATAGTGCCATTCAAACCG
Found at i:47887352 original size:24 final size:24
Alignment explanation
Indices: 47887320--47887380 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
47887310 AAACCAGCAT
* * *
47887320 ACATAGTGCCAATCGATTTCGCAC
1 ACATAGTGCCAATCAAATCCGCAC
*
47887344 ACATAGTGCCATTCAAATCCGCAC
1 ACATAGTGCCAATCAAATCCGCAC
*
47887368 ACTTAGTGCCAAT
1 ACATAGTGCCAAT
47887381 GTTGGCTCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCAATCAAATCCGCAC
Found at i:47893040 original size:24 final size:25
Alignment explanation
Indices: 47893009--47893070 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
47892999 AACCGATTTT
*
47893009 GCACACATAGTGCTAAT-C-AAATTC
1 GCACACATAGTGCTAATGCTAAA-CC
*
47893033 GCACACATAGTGC-CATGCTAAACC
1 GCACACATAGTGCTAATGCTAAACC
47893057 GCACACATAGTGCT
1 GCACACATAGTGCT
47893071 TTGGAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 28 0.85
25 3 0.09
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (25 bp):
GCACACATAGTGCTAATGCTAAACC
Found at i:47893064 original size:48 final size:46
Alignment explanation
Indices: 47893009--47893165 Score: 136
Period size: 48 Copynumber: 3.3 Consensus size: 46
47892999 AACCGATTTT
*
47893009 GCACACATAGTGCTAATCAAATTCGCACACATAGTGCCATGCTAAACC
1 GCACACATAGTGCTAAT-AAATTCGCACACATAGTGCCATTC-AAACC
* * * ** * *
47893057 GCACACATAGTGCT-TTGGAAATTCACTCATTTATTGACATTCAAACC
1 GCACACATAGTGCTAAT--AAATTCGCACACATAGTGCCATTCAAACC
* * *
47893104 AGCATACATAGTGCCAATAGATTTCGCACACATAGTGCCATTCAAATCC
1 -GCACACATAGTGCTAATA-AATTCGCACACATAGTGCCATTCAAA-CC
*
47893153 GCACACTTAGTGC
1 GCACACATAGTGC
47893166 CAATGTTGGC
Statistics
Matches: 83, Mismatches: 21, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
47 7 0.08
48 73 0.88
49 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (46 bp):
GCACACATAGTGCTAATAAATTCGCACACATAGTGCCATTCAAACC
Found at i:47893141 original size:24 final size:24
Alignment explanation
Indices: 47893109--47893169 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
47893099 AAACCAGCAT
* *
47893109 ACATAGTGCCAAT-AGATTTCGCAC
1 ACATAGTGCCAATCA-AATCCGCAC
*
47893133 ACATAGTGCCATTCAAATCCGCAC
1 ACATAGTGCCAATCAAATCCGCAC
*
47893157 ACTTAGTGCCAAT
1 ACATAGTGCCAAT
47893170 GTTGGCTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (24 bp):
ACATAGTGCCAATCAAATCCGCAC
Found at i:47909030 original size:43 final size:43
Alignment explanation
Indices: 47908908--47909035 Score: 186
Period size: 43 Copynumber: 3.0 Consensus size: 43
47908898 ATCCTAGAAG
* * *
47908908 AAAAAGAATTTAAAAAGAGGAGATGATAATCTTAGGATGTTGA
1 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTTGA
47908951 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTTGA
1 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTTGA
* * *
47908994 AAAATA-AATTTAAAAAGAGGAGAAAATAAACATGGGTTGTTG
1 AAAA-AGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTTG
47909036 GATTTACCTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 77 0.99
44 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.23, T:0.25
Consensus pattern (43 bp):
AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGGTTGTTGA
Found at i:47912784 original size:37 final size:37
Alignment explanation
Indices: 47912725--47912833 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
47912715 AGCTCAGATG
* *
47912725 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
47912762 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47912799 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47912834 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:47913945 original size:47 final size:47
Alignment explanation
Indices: 47913874--47914550 Score: 1052
Period size: 47 Copynumber: 14.2 Consensus size: 47
47913864 CCCTTCGGGA
* * * * * *
47913874 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
47913921 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
47913968 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
47914015 CTTATCACATATATACACTTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
47914061 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
47914110 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
47914157 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
47914206 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
47914253 CTTATCACATATATATGCACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATA--CACTTTCACATTCATCACATTGGCCATTAGGC
*
47914302 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
47914349 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGG
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
47914398 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
47914445 CTTATCAGATATATATACACTTTCACATTCATCACATTGGCCGTTCA-AC
1 CTTATC--ACATATATACACTTTCACATTCATCACATTGGCCATT-AGGC
*
47914494 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
47914541 CTTATCACAT
1 CTTATCACAT
47914551 TTATTCAAAT
Statistics
Matches: 584, Mismatches: 33, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
46 20 0.03
47 342 0.59
48 26 0.04
49 195 0.33
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:47913952 original size:25 final size:25
Alignment explanation
Indices: 47913924--47914002 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
47913914 ACTCGGCCCT
47913924 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
47913949 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
47913971 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
47913996 ATCACAT
1 ATCACAT
47914003 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:47914193 original size:96 final size:96
Alignment explanation
Indices: 47913874--47914550 Score: 1150
Period size: 96 Copynumber: 7.1 Consensus size: 96
47913864 CCCTTCGGGA
* * * * * *
47913874 CTTATCACAT-T-TATATACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
* *
47913937 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
47913968 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
47914031 ACTTTCACATTCATCACAT-GGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47914061 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
47914126 ACTTTCACATTCATCACATCGACCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
47914157 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
47914222 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
47914253 CTTATCACATATATATGCACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
47914318 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
47914349 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGGCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
47914414 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47914445 CTTATCAGATATATATACACTTTCACATTCATCACATTGGCCGTTCA-ACCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
47914509 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
47914541 CTTATCACAT
1 CTTATCACAT
47914551 TTATTCAAAT
Statistics
Matches: 554, Mismatches: 23, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
93 19 0.03
94 72 0.13
95 73 0.13
96 390 0.70
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47917179 original size:48 final size:48
Alignment explanation
Indices: 47917055--47917239 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
47917045 GCACATCGCC
47917055 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
47917105 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
47917153 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
47917201 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
47917240 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 81 0.64
49 4 0.03
50 41 0.33
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:47917244 original size:98 final size:97
Alignment explanation
Indices: 47917055--47917238 Score: 309
Period size: 98 Copynumber: 1.9 Consensus size: 97
47917045 GCACATCGCC
* *
47917055 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATA
47917120 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
47917153 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACACTA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACA-TA
47917217 G-CCATTCGGCTTTACCACATAT
65 GACCATTCGGCTTTACCACATAT
47917239 ATGCATGTTC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
96 34 0.41
97 2 0.02
98 46 0.56
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATAG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:47917288 original size:47 final size:47
Alignment explanation
Indices: 47917217--47917402 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
47917207 TTTCACACTA
* * * *
47917217 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
47917264 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
47917311 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
47917358 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
47917403 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:47917329 original size:22 final size:22
Alignment explanation
Indices: 47917302--47917373 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
47917292 GCTCACATTC
47917302 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
47917324 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
47917348 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
47917371 ATC
1 ATC
47917374 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47939324 original size:178 final size:177
Alignment explanation
Indices: 47939025--47939554 Score: 799
Period size: 177 Copynumber: 3.0 Consensus size: 177
47939015 CGGTGAATTC
* * * * *
47939025 ACAAGTCTTATCTTCTTGAGGTAGCAAAGAAGAAGACTAAAAATTACAGATCTTACCTTCATGTA
1 ACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* * * ** * *
47939090 TTGACTATGGAGTAGATAAAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGAAAATTTT
66 TCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGA-TTT
*
47939155 AGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAT
130 AGCCACCAGCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGAT
* *
47939203 ACAAGTCTTATCTTCCTGAGATAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* *
47939268 TCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATTGGCTATGGAGTAGATTTA
66 TCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGATTTA
* * * * *
47939333 GCTACCCGCATTATCTCTCTAAGGTAGTAAGAGAGCAGGTTGAAGAT
131 GCCACCAGCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGAT
*
47939380 ACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTACAAATCTTATCTCCATGTA
1 ACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
* * *
47939445 TCAGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCGATGTATCGGCTATGGAGCAGAGTTT
66 TCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGA-TTT
*
47939510 AGCCACCAGCCTTATCTCTCTGAAGTAGAAAGAGAGCAGGTTGAA
130 AGCCACCAGCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAA
47939555 AATTGCATGA
Statistics
Matches: 317, Mismatches: 34, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
177 165 0.52
178 152 0.48
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (177 bp):
ACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTA
TCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGGAGAAGATTTA
GCCACCAGCCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTGAAGAT
Found at i:47939459 original size:45 final size:45
Alignment explanation
Indices: 47939410--47939505 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
47939400 GTAGCAAGGA
*
47939410 AGCAGA-CTGAAAATTACAAATCTTATCTCCATGTATCAGCTATGG
1 AGCAGATC-GAAAATGACAAATCTTATCTCCATGTATCAGCTATGG
*** * * *
47939455 AGCAGATCGAAAATGGTGAGTCTTATCTCGATGTATCGGCTATGG
1 AGCAGATCGAAAATGACAAATCTTATCTCCATGTATCAGCTATGG
47939500 AGCAGA
1 AGCAGA
47939506 GTTTAGCCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (45 bp):
AGCAGATCGAAAATGACAAATCTTATCTCCATGTATCAGCTATGG
Found at i:47939556 original size:134 final size:132
Alignment explanation
Indices: 47939417--47939820 Score: 378
Period size: 134 Copynumber: 3.0 Consensus size: 132
47939407 GGAAGCAGAC
47939417 TGAAAATTACA-AATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGTGAGTCTTAT
1 TGAAAATTACAGAA-CTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAAT-GTGAGTCTTAT
*
47939481 CTCGATGTATCGGCTATGGAGCAGAGTTTAGCCACCAGCCTTATCTCTCTGAAGTAGAAAGAGAG
64 CTC-ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGAAAGAGAG
47939546 CAGGT
128 CAGGT
* * * * * * * *
47939551 TGAAAATTGCATG-ACTTATCTCCATGTATCGGCTATAGAGAAAATGGAAAATGATGATTCCTAT
1 TGAAAATTACA-GAACTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATG-TGAGTCTTAT
* * *
47939615 CTTCATGTATCGACTATGGAGCGGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAA-AGA
64 C-TCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAG-AAAGAGA
47939679 GCAGGT
127 GCAGGT
* * * * * * * * * * *
47939685 TGAAGA-TA-AGAGCCTTAACCCCCT-AAGCAG-TAGGGTAACAG-GCTGAAAAT-TACAGATCT
1 TGAAAATTACAGA-ACTTATCTCCATGTATCAGCTATGG-AGCAGATC-GAAAATGT-GAG-TCT
* *
47939744 TATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCT-AAGGTAGCAAG
61 TATCT-CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAA-GTAGAAAG
*
47939808 AGAGTAGGT
124 AGAGCAGGT
47939817 TGAA
1 TGAA
47939821 GATACAAGCC
Statistics
Matches: 219, Mismatches: 37, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
130 1 0.00
131 9 0.04
132 78 0.36
133 10 0.05
134 115 0.53
135 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (132 bp):
TGAAAATTACAGAACTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGTGAGTCTTATCT
CATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGAAAGAGAGCAG
GT
Found at i:47939774 original size:132 final size:132
Alignment explanation
Indices: 47939475--47939904 Score: 498
Period size: 132 Copynumber: 3.2 Consensus size: 132
47939465 AAATGGTGAG
* * *
47939475 TCTTATCTCGATGTATCGGCTATGGAGCAGAGTTTAGCCACCAGCCTTATCTCTCTGAAGTAG-A
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
* * * * ** * * * *
47939539 AAGAGAGCAGGTTGAAAAT-TGCATGACTTATCTCCATGTATCGGCTA-TAGAG-AAAATG--GA
66 AA-AGAGCAGGTTGAAGATAAG-A-GCCTTAAC-CC-CCTA--AGC-AGTAGGGTAACAGGCTGA
* *
47939599 AAATGA-TGA
123 AAATTACAGA
* * * *
47939608 TTCCTATCTTCATGTATCGACTATGGAGCGGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
1 -TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
47939673 AAAAGAGCAGGTTGAAGATAAGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
65 AAAAGAGCAGGTTGAAGATAAGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
47939738 AGA
130 AGA
* *
47939741 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
* *
47939806 AGAGAGTAGGTTGAAGATACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
66 AAAGAGCAGGTTGAAGATA-AGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
47939870 AGA
130 AGA
*
47939873 TCTTATCTCCATGTATCAGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
47939905 CAAAAATGGC
Statistics
Matches: 260, Mismatches: 28, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
128 1 0.00
129 6 0.02
130 4 0.02
131 2 0.01
132 162 0.62
133 9 0.03
134 72 0.28
135 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
AAAGAGCAGGTTGAAGATAAGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
GA
Found at i:47939953 original size:309 final size:307
Alignment explanation
Indices: 47939120--47940075 Score: 987
Period size: 309 Copynumber: 3.1 Consensus size: 307
47939110 AAATGGCGAG
* * * * *
47939120 TCTTATCTCCATGTATCGGCTATGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAAGGTAGCA
* * * *
47939185 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGATAGCAA-GGAAGCAGACTGAAAATTA
66 AGAGAGCAGGTTGAAGATACAAGCCTTATCTCCCTAAG-TAG-AAGGGAA-CAGGCTGAAAATTA
47939249 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTAT
128 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTAT
* * * * * *
47939314 TGGCTATGGAGTAGA-TTTAGCTACCCGCATTATCTCTCTAAGGTAGTAAGAGAGCAGGTTGAAG
193 TCGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
* * ** * * * * * *
47939378 ATACAAGTCTTATCTTCTTGAGGTAGCAAGG-AAGCAGACTGAAAATTACAAA
258 ATA-AAGCCTTAACCCCCT-AAGTAGTAGGGTAA-CAGGCTGAAAATTACAGA
*** ***** * * **
47939430 TCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCGATGTATCG--
1 TCTTATCTCCATGTATCAGCTATGGAGCAGAT-TTTAACCACCAGCCTTATCTC--TCTAAGGTA
* * ** * * * * *
47939493 GCTATG-GAGCAGAGTT-TAGCCACCAGCCTTATCTCTCTGAAGTAGAAAGAGAGCAGGTTGAAA
63 GC-AAGAGAGCAG-GTTGAAGATACAAGCCTTATCTCCCT-AAGTAG-AAGGGAACAGGCTGAAA
* * * * * * * * *
47939556 ATTGCATGA-CTTATCTCCATGTATCGGCTATAGAGAAAATGGAAAATGATGATTCCTATCTTCA
124 ATTACA-GATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCA
* * *
47939620 TGTA-TCGACTATGGAGCGGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGG
188 TGTATTCG-CTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGCAAGAGAGCAGG
*
47939684 TTGAAGATAAGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGA
252 TTGAAGATAA-AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGA
*
47939741 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAAGGTAGCA
* * * * *
47939806 AGAGAGTAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
66 AGAGAGCAGGTTGAAGATACAAGCCTTATCTCCCTAAGTAGAAGGG-AACAGGCTGAAAATTACA
* * *
47939871 GATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAGTCTTATCTCCATGTATTC
130 GATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATTC
* * *
47939936 GCTATGGAGCAGATTTTAGCCA-CTGACTTTATCTCTCTGAGGTAGCAAGAGAACAGGTTGAAGA
195 GCTATGGAGCAGATTTTAGCCACCAG-CATTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * * *
47940000 TGCAAGCCTTAACCCCCTTAGTAGTAGAGTAACAGGCTGAAAATAACAGA
259 T-AAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGA
*
47940050 TCTTACCTCCATGTATCAGCTATGGA
1 TCTTATCTCCATGTATCAGCTATGGA
47940076 TTAGATCGGA
Statistics
Matches: 514, Mismatches: 111, Indels: 43
0.77 0.17 0.06
Matches are distributed among these distances:
308 11 0.02
309 195 0.38
310 69 0.13
311 168 0.33
312 68 0.13
313 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (307 bp):
TCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAGCAGGTTGAAGATACAAGCCTTATCTCCCTAAGTAGAAGGGAACAGGCTGAAAATTACAG
ATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGTGAGTCTTATCTCCATGTATTCG
CTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATA
AAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGA
Found at i:47940037 original size:177 final size:176
Alignment explanation
Indices: 47939741--47940236 Score: 626
Period size: 177 Copynumber: 2.8 Consensus size: 176
47939731 AAATTACAGA
* *
47939741 TCTTATCTCCATGTA-TCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAAGGTAGC
1 TCTTATCTCCATGTATTC-GCTATGGAGCAGATTTTAGCCACGA-CCTTATCTCTCTAAGGTAGC
* * * *
47939805 AAGAGAGTAGGTTGAAGATACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAC
64 AAGAGAGCAGGTTGAAGATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATTAC
47939870 AGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAG
129 AGATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAG
* *
47939918 TCTTATCTCCATGTATTCGCTATGGAGCAGATTTTAGCCACTGACTTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATTCGCTATGGAGCAGATTTTAGCCAC-GACCTTATCTCTCTAAGGTAGCA
* * *
47939983 AGAGAACAGGTTGAAGATGCAAGCCTTAACCCCCTTAGTAGTAGAGTAACAGGCTGAAAATAACA
65 AGAGAGCAGGTTGAAGATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATTACA
* ** **
47940048 GATCTTACCTCCATGTATCAGCTATGGATTAGATCGGAAATGGCGAG
130 GATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAG
* * * *
47940095 TTTTATATCCATGTATT-GTCTATGAAGCAGATTTTAGCCACCGACCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCATGTATTCG-CTATGGAGCAGATTTTAGCCA-CGACCTTATCTCTCTAAG--GTA
* * * ** * *
47940159 G--TG-GAGCAGATCGAAGATGGTGAGCCTTAACTCCCTAAGTAGTAGAGTAACAGGCTGAAATT
62 GCAAGAGAGCAGGTTGAAGAT-GCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAAT
47940221 TACA-AGTCTTATCTCC
126 TACAGA-TCTTATCTCC
47940237 CTAAATAGTA
Statistics
Matches: 278, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
176 14 0.05
177 256 0.92
178 4 0.01
179 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (176 bp):
TCTTATCTCCATGTATTCGCTATGGAGCAGATTTTAGCCACGACCTTATCTCTCTAAGGTAGCAA
GAGAGCAGGTTGAAGATGCAAGCCTTAACCCCCTAAGTAGTAGAGTAACAGGCTGAAAATTACAG
ATCTTATCTCCATGTATCAGCTATGGAGCAGATCAAAAATGGCGAG
Found at i:47947307 original size:23 final size:23
Alignment explanation
Indices: 47947281--47947329 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
47947271 AATCCATAGG
47947281 TAATCATACATTGAGAATTCAAC
1 TAATCATACATTGAGAATTCAAC
47947304 TAATCATACATTGAGAATTCAAC
1 TAATCATACATTGAGAATTCAAC
47947327 TAA
1 TAA
47947330 AAGAACATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (23 bp):
TAATCATACATTGAGAATTCAAC
Found at i:47947337 original size:23 final size:23
Alignment explanation
Indices: 47947288--47947337 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
47947278 AGGTAATCAT
* *
47947288 ACATTGAGAATTCAACTAATCAT
1 ACATTGAGAATTCAACTAATAAA
47947311 ACATTGAGAATTCAACTAA-AAGA
1 ACATTGAGAATTCAACTAATAA-A
47947334 ACAT
1 ACAT
47947338 CAAAGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (23 bp):
ACATTGAGAATTCAACTAATAAA
Found at i:47947930 original size:13 final size:13
Alignment explanation
Indices: 47947912--47947949 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
47947902 CAATAATGGG
47947912 TTAAGGGTTAATA
1 TTAAGGGTTAATA
47947925 TTAAGGGTTAATA
1 TTAAGGGTTAATA
47947938 TTAAGGG-TAATA
1 TTAAGGGTTAATA
47947950 CAAGAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (13 bp):
TTAAGGGTTAATA
Found at i:47955095 original size:30 final size:29
Alignment explanation
Indices: 47955041--47955100 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
47955031 ATTCTCAGCC
47955041 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGC-AAAGTT
* *
47955071 TAGGGGCAAAA-TGTAATTTTTGCAAAGTT
1 TAGGGGCAAAAGTGTAA-ATATGCAAAGTT
47955100 T
1 T
47955101 GAGTAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGCAAAAGTGTAAATATGCAAAGTT
Found at i:47957846 original size:22 final size:22
Alignment explanation
Indices: 47957818--47957861 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47957808 TATACTCTCC
47957818 TAAGTATAAAACATGAAATTAA
1 TAAGTATAAAACATGAAATTAA
47957840 TAAGTATAAAACATGAAATTAA
1 TAAGTATAAAACATGAAATTAA
47957862 GGCATTAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAGTATAAAACATGAAATTAA
Found at i:47959481 original size:50 final size:50
Alignment explanation
Indices: 47959427--47959528 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 50
47959417 TAACACCACG
* * * *
47959427 TAAATACTTACCTATATAAACGAATATACAAGGTCCAATATATCATCCCA
1 TAAATAATTACATATATAAACGAATACACAAGGTCCAATATATCATCACA
* *** * *
47959477 TAAATAATTACATGTATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TAAATAATTACATATATAAACGAATACACAAGGTCCAATATATCATCACA
47959527 TA
1 TA
47959529 TGGCCGAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (50 bp):
TAAATAATTACATATATAAACGAATACACAAGGTCCAATATATCATCACA
Found at i:47959578 original size:35 final size:35
Alignment explanation
Indices: 47959515--47959633 Score: 132
Period size: 35 Copynumber: 3.4 Consensus size: 35
47959505 CAAGGTTCAT
* *
47959515 TATATCATCACATATGGCCGAATATACAAGTTAGA
1 TATAACATCACATATAGCCGAATATACAAGTTAGA
* * * * * *
47959550 TAGACCATCACATGTAGCCAAATTTACAAATTCA-A
1 TATAACATCACATATAGCCGAATATACAAGTT-AGA
* *
47959585 TATATCATCACATATAGCTGAATATACAAGTTAGA
1 TATAACATCACATATAGCCGAATATACAAGTTAGA
47959620 TATAACATCACATA
1 TATAACATCACATA
47959634 AGTACATACC
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 65 0.97
36 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (35 bp):
TATAACATCACATATAGCCGAATATACAAGTTAGA
Found at i:47962173 original size:47 final size:47
Alignment explanation
Indices: 47962121--47962389 Score: 409
Period size: 47 Copynumber: 5.7 Consensus size: 47
47962111 AGTATATATA
* *
47962121 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
47962168 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
47962215 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
** *
47962262 TGTGATAA-GCCTGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGATAAGGCC-GAATGGCCAATGTGATGAATGTGAACATGTGTATG
* * *
47962309 TGAGATAA-GCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
* *
47962355 TATGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
47962390 GAAGTGTAAA
Statistics
Matches: 209, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
45 1 0.00
46 41 0.20
47 167 0.80
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:47962403 original size:140 final size:141
Alignment explanation
Indices: 47962136--47962389 Score: 413
Period size: 140 Copynumber: 1.8 Consensus size: 141
47962126 TAGGGCCGAG
** * *
47962136 TGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
* * *
47962201 TGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTG
66 TGAACATGTATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTG
47962266 ATAAGCCTGAA
131 ATAAGCCTGAA
47962277 TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAA-GCCGAATGGCCAATGTGATGAATG
1 TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
*
47962341 TGAA-AGTGTATATATATGATAAGGCCGAATGGCCAATGTGATGGATGTG
66 TGAACA-TGTATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTG
47962390 GAAGTGTAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
139 1 0.01
140 67 0.64
141 36 0.35
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (141 bp):
TGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
TGAACATGTATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTG
ATAAGCCTGAA
Found at i:47964897 original size:38 final size:38
Alignment explanation
Indices: 47964833--47964906 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
47964823 AATCCGAGTT
*
47964833 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
47964871 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCG
47964907 AATTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:47965028 original size:40 final size:40
Alignment explanation
Indices: 47964961--47965161 Score: 260
Period size: 40 Copynumber: 5.0 Consensus size: 40
47964951 AGGTCTCGAC
47964961 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
47965000 GATGTATCCGGGCTAAGTCTCGAGGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
47965040 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
47965080 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * * *
47965120 GTTATATTCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
47965160 GA
1 GA
47965162 CGTGTATTCG
Statistics
Matches: 138, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 4 0.03
40 134 0.97
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:47968536 original size:47 final size:47
Alignment explanation
Indices: 47968480--47968727 Score: 326
Period size: 47 Copynumber: 5.3 Consensus size: 47
47968470 TACAAGTATA
* *
47968480 TATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
*
47968527 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
* **
47968574 TATGTGTGATAA-GCCTGAATGGCCAATGTGATGAATGTGAACATGCA
1 TATATGTGATAAGGCC-GAATGGCCAATGTGATGAATGTGAACATGTG
* *
47968621 TATATGAGATAAGCCCGAATGGCCAATGTGATGAATGTGAA-A-GTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
* *
47968666 TATATAAGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGA-A-GTG
1 TATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
47968713 TATAAATGTGATAAG
1 TAT--ATGTGATAAG
47968728 TCCCAAAGGG
Statistics
Matches: 181, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
45 6 0.03
46 4 0.02
47 167 0.92
48 2 0.01
49 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTG
Found at i:47970184 original size:38 final size:38
Alignment explanation
Indices: 47970120--47970194 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
47970110 AATTCGAGTT
*
47970120 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
47970158 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
47970195 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:47970307 original size:40 final size:40
Alignment explanation
Indices: 47970248--47970728 Score: 741
Period size: 40 Copynumber: 12.1 Consensus size: 40
47970238 AGGTCTCGAC
*
47970248 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
47970287 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
47970327 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
47970367 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
47970407 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
47970447 GATGTAGCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
47970487 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
47970527 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
47970567 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
47970607 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
47970647 GATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * * *
47970687 GTTATATTCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
47970727 GA
1 GA
47970729 CGTGTATTCG
Statistics
Matches: 412, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
39 5 0.01
40 405 0.98
41 2 0.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:47973643 original size:35 final size:34
Alignment explanation
Indices: 47973604--47973748 Score: 137
Period size: 35 Copynumber: 4.1 Consensus size: 34
47973594 TAGATATGTA
*
47973604 CATATGTGATGTTATATCTAACTTGTATATTCGGC
1 CATATGTGATGATATAT-TAACTTGTATATTCGGC
* * *
47973639 CATATGTGATGATATATTGAATTTGTAAATTTGGC
1 CATATGTGATGATATATT-AACTTGTATATTCGGC
* * * * *
47973674 TACATGTGATGTTCTATCTAACTTGTATATTTGGC
1 CATATGTGATGATATAT-TAACTTGTATATTCGGC
* * *
47973709 CATTTGTGATGATATAATGAACCTTGTGTATTCGGC
1 CATATGTGATGATAT-ATTAA-CTTGTATATTCGGC
47973745 CATA
1 CATA
47973749 CATGTAAGTA
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
34 1 0.01
35 68 0.78
36 18 0.21
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (34 bp):
CATATGTGATGATATATTAACTTGTATATTCGGC
Found at i:47973791 original size:50 final size:50
Alignment explanation
Indices: 47973716--47973812 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
47973706 GGCCATTTGT
* *
47973716 GATGATATAATGAACCTTGTGTATTCGGCCATACATGTAAGTATTTATGA
1 GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTATGA
* * ** *
47973766 GATGATATATTGGACCTTGTATATTCGGTTATATAGGTAAGTATTTA
1 GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTA
47973813 CGTAATGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (50 bp):
GATGATATAATGAACCTTGTATATTCGGCCATACAGGTAAGTATTTATGA
Found at i:47973832 original size:50 final size:50
Alignment explanation
Indices: 47973716--47973834 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
47973706 GGCCATTTGT
* * *
47973716 GATGATATAA-TGAACCTTGTGTATTCGGCCATACATGTAAGTATTTATGA
1 GATGATATAATTG-ACCTTGTATATTCGGCCATACAGGTAAGTATTTACGA
** *
47973766 GATGATAT-ATTGGACCTTGTATATTCGGTTATATAGGTAAGTATTTACGTA
1 GATGATATAATT-GACCTTGTATATTCGGCCATACAGGTAAGTATTTACG-A
*
47973817 -ATGTTATAATTGACCTTG
1 GATGATATAATTGACCTTG
47973835 AACATTCGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
49 1 0.02
50 52 0.90
51 5 0.09
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (50 bp):
GATGATATAATTGACCTTGTATATTCGGCCATACAGGTAAGTATTTACGA
Found at i:47977680 original size:45 final size:45
Alignment explanation
Indices: 47977616--47977709 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
47977606 ATCCAGAACC
* *
47977616 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACGAAATT
1 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
47977661 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
1 TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
47977706 TAAA
1 TAAA
47977710 TGAAAGCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.30
Consensus pattern (45 bp):
TAAAAATTGATATTCCAATGCCCAATTCAGTGTTAAAACAAAACT
Found at i:47978477 original size:19 final size:19
Alignment explanation
Indices: 47978441--47978479 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
47978431 TTTTCATCAT
* *
47978441 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
47978460 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
47978479 A
1 A
47978480 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:47978950 original size:55 final size:56
Alignment explanation
Indices: 47978885--47978999 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 56
47978875 AGCATGGGTG
* * * *
47978885 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCGTTGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCATAGCCA
* * *
47978941 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
47978996 CCAG
1 CCAG
47979000 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 29 0.57
56 22 0.43
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:47978967 original size:27 final size:27
Alignment explanation
Indices: 47978899--47978999 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 27
47978889 ATACAGAAAA
* *
47978899 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* *
47978928 TGTGGC-GTTGCCACCAGAACAGATATA
1 TGTGGCAG-AGCCACCAGAACAGATATT
*
47978955 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
47978983 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
47979000 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.36
28 26 0.43
29 13 0.21
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:47978995 original size:28 final size:28
Alignment explanation
Indices: 47978910--47978999 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
47978900 GTGACAGAGT
* * *
47978910 CACCAGATACAGATATTTTGTGGCGTTGC
1 CACCAGA-ACAGATAATTTGTGGCATAGC
* **
47978939 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCATAGC
47978966 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
47978994 CACCAG
1 CACCAG
47979000 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:47979152 original size:28 final size:28
Alignment explanation
Indices: 47979105--47979172 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
47979095 AAATTAACCC
* *
47979105 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
47979133 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
47979161 TAGGGGTATAAT
1 TAGGGGTATAAT
47979173 AGTACATCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:47979444 original size:8 final size:8
Alignment explanation
Indices: 47979418--47979447 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47979408 CAAAATACCA
47979418 GCTTTTCG
1 GCTTTTCG
*
47979426 GCATTTCG
1 GCTTTTCG
47979434 GCTTTTCG
1 GCTTTTCG
47979442 GCTTTT
1 GCTTTT
47979448 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:47986001 original size:57 final size:57
Alignment explanation
Indices: 47985913--47986028 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
47985903 TGCTGACGCA
*
47985913 TCGAATCCTTAGGCTCCCACGTGGCCTCATCAGTACTATGATTTCACCATAGCACCT
1 TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
47985970 TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
1 TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
47986027 TC
1 TC
47986029 ACTAAAAGGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (57 bp):
TCGAATCCTTAGGCTCCCACATGGCCTCATCAGTACTATGATTTCACCATAGCACCT
Found at i:47993770 original size:23 final size:24
Alignment explanation
Indices: 47993702--47993780 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 24
47993692 AAGCTCCTCC
* *
47993702 TGAGCTGATGAATAGTAAGCTCTAT
1 TGAGCTGA-AAATAGTAAGCTCTAA
**
47993727 TGAGCTG-AAACGGTAAGCTCTAA
1 TGAGCTGAAAATAGTAAGCTCTAA
*
47993750 TGAGCTGAAAATAGTAA-CTCTTA
1 TGAGCTGAAAATAGTAAGCTCTAA
*
47993773 CGAGCTGA
1 TGAGCTGA
47993781 TATATCGGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 31 0.69
24 7 0.16
25 7 0.16
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (24 bp):
TGAGCTGAAAATAGTAAGCTCTAA
Found at i:47998329 original size:12 final size:12
Alignment explanation
Indices: 47998312--47998344 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
47998302 TGACTTGGGT
*
47998312 CACACGGCTAAC
1 CACACGGCCAAC
47998324 CACACGGCCAAC
1 CACACGGCCAAC
47998336 CACACGGCC
1 CACACGGCC
47998345 GTGTGCCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.48, G:0.18, T:0.03
Consensus pattern (12 bp):
CACACGGCCAAC
Found at i:47999554 original size:20 final size:20
Alignment explanation
Indices: 47999526--47999578 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
47999516 ATTCATTTCT
* *
47999526 ATTCGTATAAACTGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
47999546 ATTCATATAACCAGTAGTTC
1 ATTCATATAAACAGTAGTTC
*
47999566 ATCCATATAAACA
1 ATTCATATAAACA
47999579 CCTATCTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (20 bp):
ATTCATATAAACAGTAGTTC
Found at i:47999778 original size:23 final size:23
Alignment explanation
Indices: 47999746--47999849 Score: 88
Period size: 22 Copynumber: 4.6 Consensus size: 23
47999736 TGAGCTGATG
47999746 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATTGAGCTAA
* ** *
47999769 AACGGTAAGCTCTATCAAGCT-G
1 AACAGTAAGCTCTATTGAGCTAA
47999791 AACAGTAAGCTC-ATATGAGC-AA
1 AACAGTAAGCTCTAT-TGAGCTAA
** * * *
47999813 AATGGTAAGCACCAATGAGCTAAA
1 AACAGTAAGCTCTATTGAGCT-AA
47999837 AACAGTAAGCTCT
1 AACAGTAAGCTCT
47999850 TAAGAGCTGA
Statistics
Matches: 60, Mismatches: 16, Indels: 9
0.71 0.19 0.11
Matches are distributed among these distances:
21 2 0.03
22 28 0.47
23 19 0.32
24 11 0.18
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTAA
Found at i:47999801 original size:22 final size:22
Alignment explanation
Indices: 47999744--47999802 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
47999734 CCTGAGCTGA
**
47999744 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCAAGC
* *
47999766 TAAAACGGTAAGCTCTATCAAGC
1 T-GAACAGTAAGCTCTATCAAGC
47999789 TGAACAGTAAGCTC
1 TGAACAGTAAGCTC
47999803 ATATGAGCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCAAGC
Found at i:48004806 original size:31 final size:31
Alignment explanation
Indices: 48004768--48004826 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
48004758 ATGATAAGTA
48004768 AAAAGTGGTAGCTTCAGCTACCTAATCAGTG
1 AAAAGTGGTAGCTTCAGCTACCTAATCAGTG
*
48004799 AAAAGTGGTAGCTTCGGCTACCTAATCA
1 AAAAGTGGTAGCTTCAGCTACCTAATCA
48004827 TCGGCTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCAGCTACCTAATCAGTG
Found at i:48004871 original size:31 final size:31
Alignment explanation
Indices: 48004828--48004896 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
48004818 ACCTAATCAT
*
48004828 CGGCTACTTGATCAGTGAAAAATGGTAACTC
1 CGGCTACCTGATCAGTGAAAAATGGTAACTC
* * * *
48004859 CGGCTACCTGATCAGTGAATAGTGGTAGCTT
1 CGGCTACCTGATCAGTGAAAAATGGTAACTC
48004890 CGGCTAC
1 CGGCTAC
48004897 AAGTGACAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGGTAACTC
Found at i:48006346 original size:26 final size:26
Alignment explanation
Indices: 48006317--48006424 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
48006307 TGATACAAAT
48006317 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48006343 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
48006369 TGATAATGGAATAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48006395 AGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48006421 TGAT
1 TGAT
48006425 GGGAATTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48013537 original size:26 final size:26
Alignment explanation
Indices: 48013508--48013589 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
48013498 TGATACAAAT
48013508 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
48013534 TGATAATGGGTTAGGTAAATGTTTAA
1 TGATAATGGGTTAGGTAAATGTTCCA
48013560 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48013586 TGAT
1 TGAT
48013590 GAGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48015610 original size:137 final size:137
Alignment explanation
Indices: 48015364--48015652 Score: 506
Period size: 137 Copynumber: 2.1 Consensus size: 137
48015354 TTGAGTAGTC
48015364 TCCCCAAATAGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
1 TCCCCAAATAGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
* *
48015429 ACTGTTATCCGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGGAAAGGGCTCTGGCCCAGTA
66 ACTGTTATCCGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGATCTGGCCCAGTA
48015494 CCACTGT
131 CCACTGT
*
48015501 TCCCCAAATAGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
1 TCCCCAAATAGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
* *
48015566 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGATCTGGGCCAGTA
66 ACTGTTATCCGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGATCTGGCCCAGTA
48015631 CCACTGT
131 CCACTGT
* * *
48015638 TACCTAAATGGGCTT
1 TCCCCAAATAGGCTT
48015653 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
TCCCCAAATAGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCAT
ACTGTTATCCGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGATCTGGCCCAGTA
CCACTGT
Found at i:48024823 original size:18 final size:18
Alignment explanation
Indices: 48024800--48024835 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
48024790 TGAAATGATG
48024800 ATTTAACATGCCACGCCA
1 ATTTAACATGCCACGCCA
*
48024818 ATTTAACATGTCACGCCA
1 ATTTAACATGCCACGCCA
48024836 GCTTACCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.25
Consensus pattern (18 bp):
ATTTAACATGCCACGCCA
Found at i:48029326 original size:6 final size:6
Alignment explanation
Indices: 48029296--48029383 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
48029286 AAGAAACACT
* * * *
48029296 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
48029345 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
48029384 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 6 0.09
6 50 0.77
7 5 0.08
8 4 0.06
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:48029351 original size:25 final size:25
Alignment explanation
Indices: 48029317--48029383 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
48029307 AATCAAAATG
* *
48029317 AGAATTAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAAGTAAC
* * *
48029342 AGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAAGTAAC
48029367 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
48029384 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAAGTAAC
Found at i:48029571 original size:26 final size:26
Alignment explanation
Indices: 48029497--48029573 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
48029487 TTGCAACATG
*
48029497 GCTACCAGAACAGATATTGTGACAGA
1 GCTACCAGAACAGATATTGTGGCAGA
* *
48029523 -TTCACCAGATATAGATATTGTGGCAGA
1 GCT-ACCAGA-ACAGATATTGTGGCAGA
*
48029550 GCTACCAGAACAGATAATGTGGCA
1 GCTACCAGAACAGATATTGTGGCA
48029574 AAGCCACTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 19 0.45
27 21 0.50
28 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (26 bp):
GCTACCAGAACAGATATTGTGGCAGA
Found at i:48030293 original size:35 final size:35
Alignment explanation
Indices: 48030236--48030308 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
48030226 CCCCACAAGG
48030236 GTATCTCGATAATTCTACCCTATAGGGATATTTCA
1 GTATCTCGATAATTCTACCCTATAGGGATATTTCA
* * * *
48030271 GTATTTCGGTAATTCTATCCTATAGGGGTATTTCA
1 GTATCTCGATAATTCTACCCTATAGGGATATTTCA
48030306 GTA
1 GTA
48030309 ATTCTACCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (35 bp):
GTATCTCGATAATTCTACCCTATAGGGATATTTCA
Found at i:48030716 original size:27 final size:27
Alignment explanation
Indices: 48030271--48030708 Score: 525
Period size: 27 Copynumber: 16.2 Consensus size: 27
48030261 GGATATTTCA
* *
48030271 GTATTTCGGTAATTCTATCCTATAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
48030298 GTATTTCAGTAATTCTACCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * * *
48030325 GTATTTCGATATTTCTACCCTATAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
48030352 GTATTTCGGTATTTCTATCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
48030379 GTATTTCAGTAATTCTACCCTACAGAG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
48030406 GTATTTCGGTATTTCTACCCTATAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
48030433 GTATTTTGGTATTTCTACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
48030460 GTATTTCGGTAATTCTACCCTATAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
48030487 GTATTTCAGTAATTCTACCCTACAGAG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * * *
48030514 GTATTTTGGTATTTCTACCCTATAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
48030541 GTATTTCGGTATTTCAACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
*
48030568 GTATTTCGGTAATTTTACCCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
48030595 GTATTTCAGTAATTCTACTCTACAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
** * *
48030622 GTATTTCAATATTTCTACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* * *
48030649 GTATTTCGATATTTCTACCCTACAAGG
1 GTATTTCGGTAATTCTACCCTACAGGG
* *
48030676 GTATTTCGATAATTCTACCCTATAGGG
1 GTATTTCGGTAATTCTACCCTACAGGG
48030703 GTATTT
1 GTATTT
48030709 TAATAATTTT
Statistics
Matches: 357, Mismatches: 54, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 357 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GTATTTCGGTAATTCTACCCTACAGGG
Done.