Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 35 of 206
Found at i:10323018 original size:31 final size:32
Alignment explanation
Indices: 10322982--10323044 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
10322972 AGATAATTTT
10322982 AAAGAG-TTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
*
10323013 AAAGAGTTTTTATTAGGATTTAATTACTCTTG
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTG
10323045 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 6 0.20
32 24 0.80
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTG
Found at i:10331241 original size:45 final size:44
Alignment explanation
Indices: 10331131--10331301 Score: 197
Period size: 44 Copynumber: 3.9 Consensus size: 44
10331121 GATCGCATCT
* *
10331131 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-GACA
* * *
10331175 AGTCTTATC-CTCCTAAAGTTGCAGT-AAGGCAGATTGAAGATGACA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TGACA
* *
10331220 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGA-T
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TGACA
*
10331264 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
10331302 ACATTAGATC
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.02
44 63 0.58
45 40 0.37
46 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGACA
Found at i:10331314 original size:44 final size:43
Alignment explanation
Indices: 10331093--10331328 Score: 161
Period size: 44 Copynumber: 5.4 Consensus size: 43
10331083 GGATCTCAGA
* * **
10331093 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACAT-TAG
*
10331133 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAGTAAACA--AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-TA--AAACATTAG
* * * *
10331177 TCTTATC-CTCCTAAAGTTGCAGT-AAGGCAGATTGAAGATGACA--AA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-A--ACATTAG
* *
10331222 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-TGATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACAT--TAG
10331266 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACATTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACATTAG
* *
10331309 ATCTTATCTCTCTAAAGTTG
1 -TCTTATCTCCCTGAAGTTG
10331329 TAGAGAGCAG
Statistics
Matches: 157, Mismatches: 18, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
40 21 0.13
41 8 0.05
42 1 0.01
43 7 0.04
44 84 0.54
45 32 0.20
46 2 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACATTAG
Found at i:10331664 original size:45 final size:44
Alignment explanation
Indices: 10331562--10331676 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 44
10331552 TCCCATCTAG
* *
10331562 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAATAAGCAAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTAAATAAGCAAA
* * *
10331606 TTTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGAT-GGCAAA
1 TCTTATCTC-CCTGAAGTTGTAGTGGA-GCAAACT-AA-ATAAGCAAA
10331651 TCTTATCTCCCTGAAGTTGTAGTGGA
1 TCTTATCTCCCTGAAGTTGTAGTGGA
10331677 ATAGATTGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
43 3 0.05
44 25 0.42
45 26 0.44
46 5 0.08
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTAAATAAGCAAA
Found at i:10331961 original size:14 final size:15
Alignment explanation
Indices: 10331933--10331961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10331923 CTAAAATCCG
10331933 GTGGCCCAAATACAA
1 GTGGCCCAAATACAA
10331948 GTGGCCCAAA-ACAA
1 GTGGCCCAAATACAA
10331962 ATGAAGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.41, C:0.28, G:0.21, T:0.10
Consensus pattern (15 bp):
GTGGCCCAAATACAA
Found at i:10336156 original size:3 final size:3
Alignment explanation
Indices: 10336135--10336207 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
10336125 TGTTATTAAG
* *
10336135 TTA TTC TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10336183 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
10336208 ATACATGCAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10340502 original size:25 final size:26
Alignment explanation
Indices: 10340459--10340519 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
10340449 TACATCTTAG
** *
10340459 CATTCATTTTTGAGCTAA-TATTTTTT
1 CATTC-TTTTTGAAATAATTATTCTTT
10340485 CATTCTTTTTGAAATAATTATTCTTT
1 CATTCTTTTTGAAATAATTATTCTTT
10340511 CATTCTTTT
1 CATTCTTTT
10340520 GGATTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (26 bp):
CATTCTTTTTGAAATAATTATTCTTT
Found at i:10341369 original size:14 final size:15
Alignment explanation
Indices: 10341343--10341375 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10341333 TCCCAAGCTG
10341343 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
10341358 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
10341372 GGAA
1 GGAA
10341376 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:10342971 original size:43 final size:42
Alignment explanation
Indices: 10342844--10343066 Score: 101
Period size: 44 Copynumber: 5.1 Consensus size: 42
10342834 GCCTTACCTC
*
10342844 CCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTT
1 CCTGGGTTACAGCGGAGCAGGTT-AAAATAGCAGATCTTGCC-T
**** * * * * * * * *
10342888 CCTGTACCGACAGCGAAGTAGATCGAAGACACCAG-CCTTGCCT
1 CCTG-GGTTACAGCGGAGCAGGT-TAAAATAGCAGATCTTGCCT
10342931 CTCTGGGTTACAGCGGAGCAGGTTAAAATAGCAGATCTTGCCGT
1 C-CTGGGTTACAGCGGAGCAGGTTAAAATAGCAGATCTTGCC-T
**** * * * * *
10342975 CCTGCACCGACAGCGAAGCAGATCGAAGATATC--ATCCTTGCCT
1 CCTG-GGTTACAGCGGAGCAGGT-TAAAATAGCAGAT-CTTGCCT
* *
10343018 CCCTAGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTT
1 -CCTGGGTTACAGCGGAGCAGGTT-AAAATAGCAGATCTTGCC-T
10343063 CCTG
1 CCTG
10343067 CACCGATAGC
Statistics
Matches: 120, Mismatches: 46, Indels: 26
0.62 0.24 0.14
Matches are distributed among these distances:
42 7 0.06
43 42 0.35
44 45 0.38
45 26 0.22
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (42 bp):
CCTGGGTTACAGCGGAGCAGGTTAAAATAGCAGATCTTGCCT
Found at i:10343302 original size:43 final size:42
Alignment explanation
Indices: 10343249--10343389 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 42
10343239 CCTGTACCGA
10343249 CAGCGAAGCAGATCGAAGACACTAGCCTTACCTCCCTGGGTTG
1 CAGCGAAGCAGATCGAAGACAC-AGCCTTACCTCCCTGGGTTG
* * ** * * * * ****
10343292 CAGCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCG
1 CAGCGAAGCAGATCGAAGACA-CAG-CCTTACCTCCCTGGGTTG
* *
10343336 ACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTG
1 -CAGCGAAGCAGATCGAAGACA-CAGCCTTACCTCCCTGGGTTG
*
10343380 CAGCGGAGCA
1 CAGCGAAGCA
10343390 AGTTAAAAAT
Statistics
Matches: 67, Mismatches: 28, Indels: 6
0.66 0.28 0.06
Matches are distributed among these distances:
43 26 0.39
44 23 0.34
45 18 0.27
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.18
Consensus pattern (42 bp):
CAGCGAAGCAGATCGAAGACACAGCCTTACCTCCCTGGGTTG
Found at i:10343657 original size:88 final size:88
Alignment explanation
Indices: 10342702--10343627 Score: 1264
Period size: 88 Copynumber: 10.5 Consensus size: 88
10342692 AAGATAACAA
* * * * * *
10342702 ATCTTACCTTCCTGCACCGATAGCGAAACAGATCAAAGATACCAGCCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
*
10342767 GCTGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * * * *
10342790 ACCTTGCCTTCCTGCACCAACGGCGAAGTAGATCGAAGACACTAGCCTTACCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
10342855 GCGGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * *
10342878 ATCTTGCCTTCCTGTACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTACA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
10342943 GCGGAGCAGGTT-AAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * * *
10342965 ATCTTGCCGTCCTGCACCGACAGCGAAGCAGATCGAAGATATCATCCTTGCCTCCCTAGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
10343030 GCGGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * * * *
10343053 ATCTTGCCTTCCTGCACCGATAGCGAAGTAGATCAAAGACACCAGCCTTGCTTTCCTGGGTTACA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
* *
10343118 GCAGAGCAAGTTAAAAATTA-CAG
66 GCGGAGCAGGTTAAAAA-TAGCAG
* * * * * *
10343141 ATCTTGCCTTCCT-CAATCGACAGCGAAGAAGATCGAAGAAACCAGTCTTGCTTCCCTGGGTTGT
1 ATCTTGCCTTCCTGC-ACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGC
*
10343205 AGTGGAGCAGGTTAAAAATAGCAG
65 AGCGGAGCAGGTTAAAAATAGCAG
* * * *
10343229 ATCTTGCCATCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTACCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
10343294 GCGGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* *
10343317 ATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
*
10343382 GCGGAGCAAGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * * * **
10343405 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCTTAGACTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
*
10343470 GCAGAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* * *
10343493 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAACCTTGCCTCCCTAGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
*
10343558 GCGAAGCAGGTTAAAAATAGCAG
66 GCGGAGCAGGTTAAAAATAGCAG
* ** * * *
10343581 ATCTTGTCTTCCAACACCGACAGCGAAGTAGATCGATGACCCCAGCC
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
10343628 CTATCTCCCT
Statistics
Matches: 733, Mismatches: 100, Indels: 10
0.87 0.12 0.01
Matches are distributed among these distances:
87 81 0.11
88 650 0.89
89 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
GCGGAGCAGGTTAAAAATAGCAG
Found at i:10343676 original size:44 final size:43
Alignment explanation
Indices: 10343627--10343748 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 43
10343617 TGACCCCAGC
*
10343627 CCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCT-GACAGCAGTGGAATAGGTTGAAGATTATGAA-T
*
10343671 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAAT
1 CCTATCTCCCT-GACAGCAGTGGAATAGGTTGAAGATTATGAAT
* * *
10343715 CTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAA
1 CCTATCTCCCTGA-CAGCAGTGGAATAGGTTGAA
10343749 AATAGTAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.01
44 66 0.96
45 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
CCTATCTCCCTGACAGCAGTGGAATAGGTTGAAGATTATGAAT
Found at i:10343753 original size:264 final size:264
Alignment explanation
Indices: 10342702--10343797 Score: 771
Period size: 264 Copynumber: 4.2 Consensus size: 264
10342692 AAGATAACAA
* * * * * * * * * * *
10342702 ATCTTACCTTCCTGCACCGATAGCGAAACAGATCAAAGATACCAGCCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAACCTTACCTCCCTAGGTTGCA
* * ** * * *
10342767 GCTG-AGCAGGTTAAAAATAGCAGACCTTGCCTTCCTGCACCAACGGCGAAGTAGATCGAAGACA
66 GC-GAAGCAGGTTAAAAATAGCAGATCTTACCTTCCAACACCGACAGCGAAGCAGATCGAAGACA
* * * *** * * * * * * * *
10342831 CTAGCCTTACCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGTACC
130 CCAGCCCTACCTCCCTAGACAGCAGCGGAACAAGTTAAAAATAGAAGATCCTACCTCCCTGCACA
* * * ** *** *
10342896 GACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCTCTG-GGTTACAGCGGAGCAGGTT-AAAA
195 GACAGCGAAGCAGATCGAAGATACCAACCTTATCTC-CTGAGACAACAGTGGAGCAGGTTAAAAA
10342959 TAGCAG
259 TAGCAG
* * * * *
10342965 ATCTTGCCGTCCTGCACCGACAGCGAAGCAGATCGAAGATA-TCATCCTTGCCTCCCTAGGTTGC
1 ATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACT-AACCTTACCTCCCTAGGTTGC
* * ** * * *
10343029 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGATAGCGAAGTAGATCAAAGACA
65 AGCGAAGCAGGTTAAAAATAGCAGATCTTACCTTCCAACACCGACAGCGAAGCAGATCGAAGACA
* * * * * ** * * * * * *
10343094 CCAGCCTTGCTTTCCTGGGTTA-CAGCAGAGCAAGTTAAAAATTA-CAGATCTTGCCTTCCT-CA
130 CCAGCCCTACCTCCCT-AGACAGCAGCGGAACAAGTTAAAAA-TAGAAGATCCTACCTCCCTGCA
* * ** * *****
10343156 -ATCGACAGCGAAGAAGATCGAAGAAACCAGTCTT-GCTTCCCTG-GGTTGTAGTGGAGCAGGTT
193 CA--GACAGCGAAGCAGATCGAAGATACCAACCTTATC-T-CCTGAGACAACAGTGGAGCAGGTT
10343218 AAAAATAGCAG
254 AAAAATAGCAG
* * *
10343229 ATCTTGCCATCCTGTACCGACAGCGAAGCAGATCGAAGACACTAGCCTTACCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAACCTTACCTCCCTAGGTTGCA
* **
10343294 GCGGAGCAGGTTAAAAATAGCAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACAC
66 GCGAAGCAGGTTAAAAATAGCAGATCTTACCTTCCAACACCGACAGCGAAGCAGATCGAAGACAC
* * * * *** * * * * * *
10343359 CAGCCTTGCCTCTCTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCACCG
131 CAGCCCTACCTCCCTAGACAGCAGCGGAACAAGTTAAAAATAGAAGATCCTACCTCCCTGCACAG
* * * ** **
10343424 ACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCTTAGACTGCAGCAGAGCAGGTTAAAAATA
196 ACAGCGAAGCAGATCGAAGATACCAACCTTATCTCCTGAGACAACAGTGGAGCAGGTTAAAAATA
10343489 GCAG
261 GCAG
* *
10343493 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAACCTTGCCTCCCTAGGTTGCA
1 ATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAACCTTACCTCCCTAGGTTGCA
** * * *
10343558 GCGAAGCAGGTTAAAAATAGCAGATCTTGTCTTCCAACACCGACAGCGAAGTAGATCGATGACCC
66 GCGAAGCAGGTTAAAAATAGCAGATCTTACCTTCCAACACCGACAGCGAAGCAGATCGAAGACAC
* * * * * * * * **
10343623 CAGCCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTAAG-TCCTATCTCCCTGGTCA
131 CAGCCCTACCTCCCTAGACAGCAGCGGAACAAGTTAAAAATAG-AAGATCCTACCTCCCTGCACA
* * * * ** * * *
10343687 G-CAGTGGAA-TAGGTTGAAGATTATGAATCTTATCTCCCTGAG-CAACAGTGGAGTAGGTTGAA
195 GACAG-CGAAGCAGATCGAAGA-TACCAACCTTATCT-CCTGAGACAACAGTGGAGCAGGTTAAA
*
10343749 AATAGTAG
257 AATAGCAG
* * * * *
10343757 ATCTTGCCTTCTTGTACTGGCAGTGAAGCAGATCAAAGACA
1 ATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACA
10343798 TCAGTCTTAT
Statistics
Matches: 696, Mismatches: 117, Indels: 39
0.82 0.14 0.05
Matches are distributed among these distances:
262 3 0.00
263 224 0.32
264 458 0.66
265 11 0.02
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (264 bp):
ATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACTAACCTTACCTCCCTAGGTTGCA
GCGAAGCAGGTTAAAAATAGCAGATCTTACCTTCCAACACCGACAGCGAAGCAGATCGAAGACAC
CAGCCCTACCTCCCTAGACAGCAGCGGAACAAGTTAAAAATAGAAGATCCTACCTCCCTGCACAG
ACAGCGAAGCAGATCGAAGATACCAACCTTATCTCCTGAGACAACAGTGGAGCAGGTTAAAAATA
GCAG
Found at i:10344117 original size:44 final size:44
Alignment explanation
Indices: 10344062--10344220 Score: 148
Period size: 44 Copynumber: 3.7 Consensus size: 44
10344052 GAAGATGACG
* *
10344062 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAAT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTCAAACCAAT
* * * *
10344106 AATCCTATCTCCCTGAAGTTATAGTGGAG-TGAATTCAAACCACT
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAG-ATTCAAACCAAT
* * * * *
10344150 AATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACATC--T
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTCAAACCAAT
* * *
10344190 AGTGTTATCTCCCTGAAGTTGCAGTGGAGCA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCA
10344221 TACCAAGAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
40 22 0.23
41 5 0.05
42 5 0.05
43 5 0.05
44 57 0.61
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTCAAACCAAT
Found at i:10345798 original size:27 final size:27
Alignment explanation
Indices: 10345768--10345820 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
10345758 TATTATTATT
10345768 ATTATTTATAT-ATATATATACATACAC
1 ATTATTTATATAATA-ATATACATACAC
*
10345795 ATTATTTTTATAATAATATACATACA
1 ATTATTTATATAATAATATACATACA
10345821 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTATTTATATAATAATATACATACAC
Found at i:10347285 original size:2 final size:2
Alignment explanation
Indices: 10347278--10347310 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10347268 TAAGATACAT
10347278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10347311 TAACTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10352894 original size:2 final size:2
Alignment explanation
Indices: 10352887--10352915 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10352877 TTTGCCCCAC
10352887 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10352916 AAGTGAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10355723 original size:11 final size:11
Alignment explanation
Indices: 10355707--10355735 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10355697 ATAAATAAGT
10355707 TCATTTAAAGC
1 TCATTTAAAGC
10355718 TCATTTAAAGC
1 TCATTTAAAGC
10355729 TCATTTA
1 TCATTTA
10355736 TTATTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (11 bp):
TCATTTAAAGC
Found at i:10370756 original size:29 final size:30
Alignment explanation
Indices: 10370714--10370779 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
10370704 AGTTGCATTG
*
10370714 CCGTGTGGCTAGA-CGTGTAACTTACTATA
1 CCGTGTGGCTAGACCGTGTAACTCACTATA
* *
10370743 CCGTGTGGCTAGACCGTGTAACTCACTGTG
1 CCGTGTGGCTAGACCGTGTAACTCACTATA
10370773 CCGTGTG
1 CCGTGTG
10370780 ACAAAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (30 bp):
CCGTGTGGCTAGACCGTGTAACTCACTATA
Found at i:10373802 original size:22 final size:22
Alignment explanation
Indices: 10373776--10373819 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10373766 ATATGTAAGA
10373776 ACATCATTTTGGTGCAACATTT
1 ACATCATTTTGGTGCAACATTT
10373798 ACATCATTTTGGTGCAACATTT
1 ACATCATTTTGGTGCAACATTT
10373820 CAGGTGGATG
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:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (22 bp):
ACATCATTTTGGTGCAACATTT
Found at i:10378717 original size:16 final size:16
Alignment explanation
Indices: 10378696--10378729 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10378686 TTAGAATAAA
10378696 TTGAAGTAAACAATTT
1 TTGAAGTAAACAATTT
10378712 TTGAAGTAAACAATTT
1 TTGAAGTAAACAATTT
10378728 TT
1 TT
10378730 CCAACTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (16 bp):
TTGAAGTAAACAATTT
Found at i:10381617 original size:42 final size:42
Alignment explanation
Indices: 10381535--10381621 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
10381525 CACAAAAAAA
***
10381535 TATTTTAAAATTAAAAAAATAAAAATAAAAATATTTTTAAAG
1 TATTTTAAAATTAAAAAAATAAAAATAAAAATAAAATTAAAG
10381577 TATTTTAAAATT-AAAAAATAAAAATAAAAATAAAAATTAAAG
1 TATTTTAAAATTAAAAAAATAAAAATAAAAAT-AAAATTAAAG
10381619 TAT
1 TAT
10381622 ATTCGGGCAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 19 0.46
42 22 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAATAAAAATAAAAATAAAATTAAAG
Found at i:10382732 original size:22 final size:22
Alignment explanation
Indices: 10382702--10382744 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10382692 ACACCAAAAC
* *
10382702 AGGCTTTTAGTGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
10382724 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
10382745 AGCGCCGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:10382946 original size:43 final size:42
Alignment explanation
Indices: 10382894--10383094 Score: 188
Period size: 43 Copynumber: 4.7 Consensus size: 42
10382884 AAAATTAGGG
* **
10382894 TCTTTAGCGGCGCTTTTCCCTAAAACGCCGTAAAAGACCCTGA
1 TCTTTAGCGGCGCTTTTACC-AAAACGCCGCGAAAGACCCTGA
* * ** * * * *
10382937 TCTATAGCGGTGCTTCGACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTTTTACCA-AAACGCCGCGAAAGACCCTGA
** *
10382980 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCGAAAGACCATGA
1 TCTTTAGCGGCGCTTTTACCA-AAACGCCGCGAAAGACCCTGA
* * *
10383023 TCTTTAAG-GGCGCTTTTTCCGCAAACGCCGCGAAAGACCCTTA
1 TCTTT-AGCGGCGCTTTTACC-AAAACGCCGCGAAAGACCCTGA
10383066 TCTTTAGCGGCGCTTTTACCAAAAACGCC
1 TCTTTAGCGGCGCTTTTACC-AAAACGCC
10383095 ACTAAATTTG
Statistics
Matches: 126, Mismatches: 28, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.02
43 121 0.96
44 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTTTACCAAAACGCCGCGAAAGACCCTGA
Found at i:10382990 original size:86 final size:86
Alignment explanation
Indices: 10382894--10383094 Score: 233
Period size: 86 Copynumber: 2.3 Consensus size: 86
10382884 AAAATTAGGG
* * * *
10382894 TCTTTAGCGGCGCTTTTCCCTAAAACGCCGTAAAAGACCCTGATCTAT-AGCGGTGCTTCGACCA
1 TCTTTAGCGGCGCTTTTCCCAAAAACGCCGCAAAAGACCATGATCTATAAG-GGCGCTTCGACCA
*
10382958 CAAACGCCACTAAAGAACCTAA
65 CAAACGCCACGAAAGAACCTAA
* * * * *** *
10382980 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCGAAAGACCATGATCTTTAAGGGCGCTTTTTCCGC
1 TCTTTAGCGGCGCTTTTCCCAAAAACGCCGCAAAAGACCATGATCTATAAGGGCGCTTCGACCAC
* * *
10383045 AAACGCCGCGAAAGACCCTTA
66 AAACGCCACGAAAGAACCTAA
*
10383066 TCTTTAGCGGCGCTTTTACCAAAAACGCC
1 TCTTTAGCGGCGCTTTTCCCAAAAACGCC
10383095 ACTAAATTTG
Statistics
Matches: 95, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
86 93 0.98
87 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (86 bp):
TCTTTAGCGGCGCTTTTCCCAAAAACGCCGCAAAAGACCATGATCTATAAGGGCGCTTCGACCAC
AAACGCCACGAAAGAACCTAA
Found at i:10383434 original size:21 final size:21
Alignment explanation
Indices: 10383408--10383509 Score: 123
Period size: 21 Copynumber: 4.9 Consensus size: 21
10383398 TTTGACGCTG
10383408 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
10383429 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
10383450 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * **
10383471 CTATACTTCTCTCGCTGCTTC
1 CTCTGCTTCCCTCGCTGCAGC
* *
10383492 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
10383510 CGCATCTGTT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.05, C:0.43, G:0.16, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:10383575 original size:66 final size:66
Alignment explanation
Indices: 10383491--10383637 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
10383481 CTCGCTGCTT
* * *
10383491 CCTCTGCTTCTCTTGCTGCCGCATCTGTTTTAAGCTGCT-GCTGGACTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGACTTCTTCATATCTTT-GTT
10383554 GAA
64 GAA
* * * *
10383557 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGACTTCTTCATATCTTTGTTGA
10383622 A
66 A
10383623 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
10383638 ATGTTGCCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGACTTCTTCATATCTTTGTTGA
A
Found at i:10383653 original size:66 final size:66
Alignment explanation
Indices: 10383530--10383660 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
10383520 TTAAGCTGCT
* *
10383530 GCTGGACTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGACTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
10383595 A
66 A
* * * *
10383596 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGACTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
10383660 T
65 T
10383661 GTAATTTGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 54 0.93
67 4 0.07
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (66 bp):
GCTGGACTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:10388612 original size:9 final size:9
Alignment explanation
Indices: 10388598--10388758 Score: 82
Period size: 9 Copynumber: 19.4 Consensus size: 9
10388588 ATAATTAAAC
10388598 TATGTAAGT
1 TATGTAAGT
10388607 TATGT-A-T
1 TATGTAAGT
10388614 TATGTAAGT
1 TATGTAAGT
*
10388623 TAT-TTA-T
1 TATGTAAGT
* *
10388630 TATGAAAAT
1 TATGTAAGT
10388639 TATGTAAGT
1 TATGTAAGT
*
10388648 TGTGT-A-T
1 TATGTAAGT
10388655 TATG-AA--
1 TATGTAAGT
* *
10388661 AACTCTAA--
1 TA-TGTAAGT
10388669 TATGTAAGT
1 TATGTAAGT
10388678 TATGTAAGT
1 TATGTAAGT
* *
10388687 CATATAAGT
1 TATGTAAGT
10388696 TATGT-A-T
1 TATGTAAGT
10388703 TATGTAAGT
1 TATGTAAGT
10388712 TATGTAAGT
1 TATGTAAGT
*
10388721 TAT-TTA-T
1 TATGTAAGT
* *
10388728 TATGAAAAT
1 TATGTAAGT
*
10388737 TAAGTAAGT
1 TATGTAAGT
* *
10388746 TAAGTAATT
1 TATGTAAGT
10388755 TATG
1 TATG
10388759 AATAANNNNN
Statistics
Matches: 116, Mismatches: 23, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
6 1 0.01
7 30 0.26
8 14 0.12
9 71 0.61
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:10388619 original size:16 final size:16
Alignment explanation
Indices: 10388598--10388717 Score: 80
Period size: 16 Copynumber: 7.9 Consensus size: 16
10388588 ATAATTAAAC
10388598 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
10388614 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
10388630 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
10388639 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
10388655 TATG-AA--AACTCTAA
1 TATGTAAGTTA-TGTAT
10388669 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
10388687 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
10388703 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
10388718 AGTTATTTAT
Statistics
Matches: 78, Mismatches: 13, Indels: 26
0.67 0.11 0.22
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 7 0.09
15 6 0.08
16 41 0.53
17 3 0.04
18 12 0.15
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:10388743 original size:25 final size:25
Alignment explanation
Indices: 10388612--10388747 Score: 93
Period size: 25 Copynumber: 5.5 Consensus size: 25
10388602 TAAGTTATGT
* *
10388612 ATTATGTAAGTTATTTATTATGAAA
1 ATTAAGTAAGTTATGTATTATGAAA
* *
10388637 ATTATGTAAGTTGTGTATTATGAAA
1 ATTAAGTAAGTTATGTATTATGAAA
* * *
10388662 ACT--CTAA--TATGTAAGTTATGTAA
1 ATTAAGTAAGTTATGT-A-TTATGAAA
* * *
10388685 GTCATA-TAAGTTATGTATTATGTAA
1 ATTA-AGTAAGTTATGTATTATGAAA
* * *
10388710 GTTATGTAAGTTATTTATTATGAAA
1 ATTAAGTAAGTTATGTATTATGAAA
10388735 ATTAAGTAAGTTA
1 ATTAAGTAAGTTA
10388748 AGTAATTTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.05
22 1 0.01
23 10 0.11
25 67 0.76
26 1 0.01
27 5 0.06
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.44
Consensus pattern (25 bp):
ATTAAGTAAGTTATGTATTATGAAA
Found at i:10388744 original size:34 final size:34
Alignment explanation
Indices: 10388638--10388757 Score: 91
Period size: 34 Copynumber: 3.4 Consensus size: 34
10388628 ATTATGAAAA
* *
10388638 TTATGTAAGTTGTGTATTATGAAAACTCTAATATGTAAG
1 TTATGTAAGTTATTTATTATGAAAA-T-T-A-A-GTAAG
* * * *
10388677 TTATGTAAGTCATATAAGTTATG--TATTATGTAAG
1 TTATGTAAGTTAT-TTA-TTATGAAAATTAAGTAAG
10388711 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
* *
10388745 TTAAGTAATTTAT
1 TTATGTAAGTTAT
10388758 GAATAANNNN
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
32 5 0.08
33 2 0.03
34 37 0.57
36 1 0.02
37 1 0.02
38 1 0.02
39 12 0.18
40 1 0.02
41 5 0.08
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (34 bp):
TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
Found at i:10388930 original size:9 final size:9
Alignment explanation
Indices: 10388916--10389404 Score: 66
Period size: 9 Copynumber: 52.3 Consensus size: 9
10388906 ATAATTAAGC
10388916 TATGTAATT
1 TATGTAATT
10388925 TATGT-A-T
1 TATGTAATT
*
10388932 TATGTAAGT
1 TATGTAATT
*
10388941 TATGTAAGT
1 TATGTAATT
*
10388950 TAT-TTA-T
1 TATGTAATT
* *
10388957 TATGAAAAT
1 TATGTAATT
* *
10388966 TAAGTAAGT
1 TATGTAATT
*
10388975 TAAGTAATT
1 TATGTAATT
10388984 TATGAATAATT
1 TATG--TAATT
* *
10388995 TAAAAAAGTAAGT
1 T----ATGTAATT
*
10389008 TATGTAA-G
1 TATGTAATT
*
10389016 T-TGTAAGT
1 TATGTAATT
*
10389024 TATGTAAGT
1 TATGTAATT
*
10389033 TATGT-ATAA
1 TATGTAAT-T
10389042 TAT-TAATT
1 TATGTAATT
* *
10389050 AAT-TAAGT
1 TATGTAATT
10389058 TATGTAATT
1 TATGTAATT
10389067 TATGTATTGCATT
1 TATGTA----ATT
* *
10389080 AATGTAAGT
1 TATGTAATT
10389089 TATGTAATT
1 TATGTAATT
10389098 TATG-AA-T
1 TATGTAATT
* **
10389105 AAT-TAAAAA
1 TATGT-AATT
* * *
10389114 AAAGTAAGT
1 TATGTAATT
*
10389123 TATGTAAGT
1 TATGTAATT
*
10389132 TATGT-ATAA
1 TATGTAAT-T
10389141 TAT-TAATT
1 TATGTAATT
* *
10389149 AAT-TAAGT
1 TATGTAATT
10389157 TATGTAATT
1 TATGTAATT
10389166 TATGTATTGCATT
1 TATGTA----ATT
* *
10389179 AATGTAAGT
1 TATGTAATT
* *
10389188 TACGTAACT
1 TATGTAATT
10389197 TATGTATAATAT
1 TATG--TAAT-T
* *
10389209 TAATGCAAGT
1 T-ATGTAATT
10389219 TATGTAATT
1 TATGTAATT
*
10389228 TATGT-ATAA
1 TATGTAAT-T
10389237 TAT-TAATT
1 TATGTAATT
* *
10389245 AAT-TAAGT
1 TATGTAATT
10389253 TATGTAATT
1 TATGTAATT
10389262 TATGTATAATAT
1 TATG--TAAT-T
*
10389274 TAATGTAAGT
1 T-ATGTAATT
10389284 TATGTAATT
1 TATGTAATT
*
10389293 CCGGTATTTTAATT
1 ----TA-TGTAATT
* *
10389307 AAT-TAAGT
1 TATGTAATT
10389315 TATGTAATT
1 TATGTAATT
10389324 TATGTATAATAT
1 TATG--TAAT-T
*
10389336 TAATGTAAGT
1 T-ATGTAATT
10389346 TATGTAATT
1 TATGTAATT
10389355 TATGTTTAATAT
1 TATG--TAAT-T
*
10389367 TAATGTAAGT
1 T-ATGTAATT
*
10389377 TATGTAA-G
1 TATGTAATT
*
10389385 T-TGTAAGT
1 TATGTAATT
*
10389393 TATGTAAGT
1 TATGTAATT
10389402 TAT
1 TAT
10389405 ATATAATATT
Statistics
Matches: 356, Mismatches: 67, Indels: 114
0.66 0.12 0.21
Matches are distributed among these distances:
7 23 0.06
8 50 0.14
9 190 0.53
10 10 0.03
11 32 0.09
12 8 0.02
13 35 0.10
14 6 0.02
15 2 0.01
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TATGTAATT
Found at i:10388937 original size:16 final size:16
Alignment explanation
Indices: 10388916--10388946 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10388906 ATAATTAAGC
*
10388916 TATGTAATTTATGTAT
1 TATGTAAGTTATGTAT
10388932 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
10388947 AGTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:10388939 original size:25 final size:25
Alignment explanation
Indices: 10388911--10388960 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10388901 TAAGTATAAT
*
10388911 TAAGCTATGTAATTTATGTATTATG
1 TAAGCTATGTAAGTTATGTATTATG
* *
10388936 TAAGTTATGTAAGTTATTTATTATG
1 TAAGCTATGTAAGTTATGTATTATG
10388961 AAAATTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (25 bp):
TAAGCTATGTAAGTTATGTATTATG
Found at i:10388972 original size:25 final size:25
Alignment explanation
Indices: 10388919--10388994 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
10388909 ATTAAGCTAT
* * * *
10388919 GTAATTTATGTATTATGTAAGTTAT
1 GTAAGTTATGTATTATGAAAATTAA
*
10388944 GTAAGTTATTTATTATGAAAATTAA
1 GTAAGTTATGTATTATGAAAATTAA
*
10388969 GTAAGTTAAGTAATTTATGAATAATT
1 GTAAGTTATGT-A-TTATGAA-AATT
10388995 TAAAAAAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 29 0.71
26 1 0.02
27 7 0.17
28 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (25 bp):
GTAAGTTATGTATTATGAAAATTAA
Found at i:10388973 original size:34 final size:35
Alignment explanation
Indices: 10388930--10389017 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 35
10388920 TAATTTATGT
* ** *
10388930 ATTATGTAAGTTATGTAAGTTATTTATTA-TGAAA
1 ATTAAGTAAGTTATGTAAGTTATGAATAATTGAAA
* * *
10388964 ATTAAGTAAGTTAAGTAATTTATGAATAATTTAAA
1 ATTAAGTAAGTTATGTAAGTTATGAATAATTGAAA
10388999 A--AAGTAAGTTATGTAAGTT
1 ATTAAGTAAGTTATGTAAGTT
10389018 GTAAGTTATG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 16 0.36
34 23 0.52
35 5 0.11
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (35 bp):
ATTAAGTAAGTTATGTAAGTTATGAATAATTGAAA
Found at i:10389023 original size:16 final size:16
Alignment explanation
Indices: 10389002--10389033 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10388992 ATTTAAAAAA
10389002 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
10389018 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
10389034 ATGTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:10389088 original size:65 final size:64
Alignment explanation
Indices: 10389017--10389383 Score: 426
Period size: 65 Copynumber: 5.7 Consensus size: 64
10389007 TTATGTAAGT
* ***
10389017 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTGCATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-TTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* * ** * *
10389082 TGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATT-TAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* ** * *
10389147 TTAATTAAGTTATGTAATTTATG--T-ATTGCATTAATGTAAGTTACGTAACTTATGTATAATAT
1 -T--GTAAGTTATGTAATTTATGTATAATTTAATTAAT-TAAGTTATGTAATTTATGTATAATAT
10389209 TAA
62 TAA
*
10389212 TGCAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAAT-TTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
***
10389277 TGTAAGTTATGTAATTCCGGTAT--TTTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTAATTTATGTATAATTTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
10389339 TGTAAGTTATGTAATTTATGTTTAA--T-ATTAATGTAAGTTATGTAA
1 TGTAAGTTATGTAATTTATGTATAATTTAATTAAT-TAAGTTATGTAA
10389384 GTTGTAAGTT
Statistics
Matches: 258, Mismatches: 32, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
61 6 0.02
62 87 0.34
63 1 0.00
64 6 0.02
65 131 0.51
66 9 0.03
68 18 0.07
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (64 bp):
TGTAAGTTATGTAATTTATGTATAATTTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
Found at i:10389091 original size:31 final size:31
Alignment explanation
Indices: 10389042--10389383 Score: 342
Period size: 31 Copynumber: 10.8 Consensus size: 31
10389032 TTATGTATAA
10389042 TATT-AATTAAT-TAAGTTATGTAATTTATG
1 TATTAAATTAATGTAAGTTATGTAATTTATG
**
10389071 TATTGCATTAATGTAAGTTATGTAATTTATG
1 TATTAAATTAATGTAAGTTATGTAATTTATG
** * *
10389102 AATAATTAAAAAAAAGTAAGTTATGTAAGTTATG
1 --T-ATTAAATTAATGTAAGTTATGTAATTTATG
10389136 TATAATATTAATTAAT-TAAGTTATGTAATTTATG
1 TAT--TA--AATTAATGTAAGTTATGTAATTTATG
** * *
10389170 TATTGCATTAATGTAAGTTACGTAACTTATG
1 TATTAAATTAATGTAAGTTATGTAATTTATG
*
10389201 TA-TAATATTAATGCAAGTTATGTAATTTATG
1 TATTAA-ATTAATGTAAGTTATGTAATTTATG
10389232 TATAATATTAATTAAT-TAAGTTATGTAATTTATG
1 TAT--TA--AATTAATGTAAGTTATGTAATTTATG
***
10389266 TA-TAATATTAATGTAAGTTATGTAATTCCGG
1 TATTAA-ATTAATGTAAGTTATGTAATTTATG
*
10389297 TATTTTAATTAAT-TAAGTTATGTAATTTATG
1 TA-TTAAATTAATGTAAGTTATGTAATTTATG
10389328 TA-TAATATTAATGTAAGTTATGTAATTTATG
1 TATTAA-ATTAATGTAAGTTATGTAATTTATG
10389359 T-TTAATATTAATGTAAGTTATGTAA
1 TATTAA-ATTAATGTAAGTTATGTAA
10389384 GTTGTAAGTT
Statistics
Matches: 261, Mismatches: 29, Indels: 44
0.78 0.09 0.13
Matches are distributed among these distances:
29 7 0.03
30 25 0.10
31 140 0.54
32 8 0.03
33 5 0.02
34 65 0.25
35 10 0.04
36 1 0.00
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (31 bp):
TATTAAATTAATGTAAGTTATGTAATTTATG
Found at i:10389391 original size:16 final size:16
Alignment explanation
Indices: 10389370--10389402 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10389360 TTAATATTAA
10389370 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
10389386 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
10389402 T
1 T
10389403 ATATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:10389522 original size:16 final size:16
Alignment explanation
Indices: 10389501--10389533 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10389491 AACTCAATTA
10389501 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
10389517 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
10389533 T
1 T
10389534 CTACAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:10390915 original size:32 final size:34
Alignment explanation
Indices: 10390873--10390973 Score: 152
Period size: 32 Copynumber: 2.9 Consensus size: 34
10390863 GACAGGAAGT
10390873 TGAAATTATTCAAACAAACCGGATAAATGACT-G
1 TGAAATTATTCAAACAAACCGGATAAATGACTAG
10390906 -GAAATTATTCAAACAAACCGGATAAATGACTGGAAG
1 TGAAATTATTCAAACAAACCGGATAAATGACT---AG
10390942 TTGAAATTATTCAAACAAACCGGATAAATGAC
1 -TGAAATTATTCAAACAAACCGGATAAATGAC
10390974 AGGATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
32 31 0.50
36 1 0.02
38 30 0.48
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.23
Consensus pattern (34 bp):
TGAAATTATTCAAACAAACCGGATAAATGACTAG
Found at i:10390948 original size:38 final size:38
Alignment explanation
Indices: 10390856--10390973 Score: 176
Period size: 38 Copynumber: 3.3 Consensus size: 38
10390846 AATTTGTAAT
* *
10390856 GATACATGACAGGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGACTGGAAGTTGAAATTATTCAAACAAACCG
10390894 GATAAATGACT----G--GAAATTATTCAAACAAACCG
1 GATAAATGACTGGAAGTTGAAATTATTCAAACAAACCG
10390926 GATAAATGACTGGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGACTGGAAGTTGAAATTATTCAAACAAACCG
10390964 GATAAATGAC
1 GATAAATGAC
10390974 AGGATTATCT
Statistics
Matches: 72, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
32 31 0.43
34 1 0.01
36 1 0.01
38 39 0.54
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (38 bp):
GATAAATGACTGGAAGTTGAAATTATTCAAACAAACCG
Found at i:10392837 original size:41 final size:41
Alignment explanation
Indices: 10392780--10393105 Score: 521
Period size: 41 Copynumber: 8.0 Consensus size: 41
10392770 NNNNNNNTAC
10392780 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
1 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
* *
10392821 GAGCATTCGCGGCGCTTACTAAAAAACGCCGCTAAAGACCT
1 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
*
10392862 GAGAATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
1 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
* * *
10392903 AAGCATTAGCGGCGCTTATTGAAAAATGCCGCTAAAGACCT
1 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
*
10392944 GAGCATTAGCGGCGCTTACT-AAAAACGCCGCTAAAGACCT
1 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
* *
10392984 GAGAATTAGCGGCGCTTATTAAAAAACGTCGCTAAAGACCT
1 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
*
10393025 GAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCT
1 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
* *
10393066 GAGCATTAGCGGCGCTT-TTCAGAAAATGCCGCTAAAGACC
1 GAGCATTAGCGGCGCTTATT-AAAAAACGCCGCTAAAGACC
10393106 CCAAAAACTC
Statistics
Matches: 262, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
40 39 0.15
41 223 0.85
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCT
Found at i:10393052 original size:163 final size:164
Alignment explanation
Indices: 10392780--10393105 Score: 548
Period size: 163 Copynumber: 2.0 Consensus size: 164
10392770 NNNNNNNTAC
* * *
10392780 GAGCATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTGAGCATTCGCGGCGCTTACTAAAA
1 GAGCATTAGCGGCGCTTACTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTACTAAAA
10392845 AACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTAAGCATT
66 AACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTAAGCATT
*
10392910 AGCGGCGCTTATTGA-AAAATGCCGCTAAAGACCT
131 AGCGGCGCTT-TTCAGAAAATGCCGCTAAAGACCT
*
10392944 GAGCATTAGCGGCGCTTACT-AAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTAAAA
1 GAGCATTAGCGGCGCTTACTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTACTAAAA
* * * *
10393008 AACGTCGCTAAAGACCTGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCTGAGCATT
66 AACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTAAGCATT
10393073 AGCGGCGCTTTTCAGAAAATGCCGCTAAAGACC
131 AGCGGCGCTTTTCAGAAAATGCCGCTAAAGACC
10393106 CCAAAAACTC
Statistics
Matches: 152, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
162 3 0.02
163 130 0.86
164 19 0.12
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (164 bp):
GAGCATTAGCGGCGCTTACTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTACTAAAA
AACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTATTAAAAAACGCCGCTAAAGACCTAAGCATT
AGCGGCGCTTTTCAGAAAATGCCGCTAAAGACCT
Found at i:10393255 original size:40 final size:40
Alignment explanation
Indices: 10393131--10393265 Score: 114
Period size: 40 Copynumber: 3.4 Consensus size: 40
10393121 GGGCTTAGGC
* * * **
10393131 TTTTT-GCGGCGCTTTCCAAAAAACGCCACTAATGCTT-A
1 TTTTTAGCGGCGTTTTTCAAAAAGCGCTGCTAATGCTTGA
* * * *
10393169 TTTTTAGCGGCGTTTTTTAAAAATCGCTGCTAATGATCGA
1 TTTTTAGCGGCGTTTTTCAAAAAGCGCTGCTAATGCTTGA
** * *
10393209 CCTTTAGCGGCGTTTTTCCAAAAGCG-TCGCTATTGCTTGA
1 TTTTTAGCGGCGTTTTTCAAAAAGCGCT-GCTAATGCTTGA
*
10393249 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
10393266 TGTCCAAACG
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
38 5 0.07
39 25 0.33
40 45 0.60
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCAAAAAGCGCTGCTAATGCTTGA
Found at i:10399177 original size:18 final size:17
Alignment explanation
Indices: 10399154--10399190 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10399144 AATTATTATT
10399154 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
10399170 AAATATATGATTTAATA
1 AAATATATGATTTAATA
10399187 AAAT
1 AAAT
10399191 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:10399239 original size:47 final size:45
Alignment explanation
Indices: 10399179--10399504 Score: 176
Period size: 47 Copynumber: 7.1 Consensus size: 45
10399169 AAAATATATG
*
10399179 ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCTTATATGA
1 ATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCTTA-ATGA
* * *
10399227 ATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-TTAAT-A
1 ATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCTTAATGA
* * * *
10399270 ATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCTTACATGA
1 AT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCTTA-ATGA
* *
10399318 ATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-TTAAT-A
1 ATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCTTAATGA
* * * * *
10399361 ATGATATATAGTTTCATAA-AATTATTGATAACAAATTTTCTTATATGA
1 AT-TTATATAATTT-AAAATAATTA-TAATAATAAATTTTCTTA-ATGA
* *
10399409 ATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-TTAAT-A
1 ATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCTTAATGA
* * * * *
10399452 ATGATATATAATTTCATATAATTCTTAATAATAAATGTTCTTATATGA
1 AT-TTATATAATTTAAAATAATT-ATAATAATAAATTTTCTTA-ATGA
10399500 ATTTA
1 ATTTA
10399505 CTAAAATCAT
Statistics
Matches: 211, Mismatches: 36, Indels: 63
0.68 0.12 0.20
Matches are distributed among these distances:
43 9 0.04
44 69 0.33
45 24 0.11
46 22 0.10
47 74 0.35
48 13 0.06
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (45 bp):
ATTTATATAATTTAAAATAATTATAATAATAAATTTTCTTAATGA
Found at i:10399282 original size:44 final size:43
Alignment explanation
Indices: 10399232--10399474 Score: 181
Period size: 44 Copynumber: 5.4 Consensus size: 43
10399222 TATGAATTTG
10399232 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
10399276 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTACATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
10399323 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * ** *
10399367 TATAGTTTCATAA-AATTATTGA-TAACAAATTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAA-ATATAAT-TTA-AT-AATATA
*
10399414 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* *
10399458 TATAATTTCATATAATT
1 TATAATTTAAAATAATT
10399475 CTTAATAATA
Statistics
Matches: 154, Mismatches: 25, Indels: 40
0.70 0.11 0.18
Matches are distributed among these distances:
43 6 0.04
44 58 0.38
45 21 0.14
46 21 0.14
47 42 0.27
48 6 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:10399303 original size:91 final size:91
Alignment explanation
Indices: 10399207--10399504 Score: 506
Period size: 91 Copynumber: 3.3 Consensus size: 91
10399197 TAATTATAAC
* *
10399207 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10399272 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
10399298 TAATAAATTTTCTTACATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
10399363 GATATATAGTTTCATAAAATTATTGA
66 GATATATAATTTCATAAAATTCTTGA
*
10399389 TAACAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
10399454 GATATATAATTTCATATAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
10399480 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
10399505 CTAAAATCAT
Statistics
Matches: 193, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 193 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:10405102 original size:14 final size:14
Alignment explanation
Indices: 10405083--10405117 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
10405073 TGAAATAAAA
10405083 TTATTTATAAAATT
1 TTATTTATAAAATT
10405097 TTATTT-TAAAATT
1 TTATTTATAAAATT
*
10405110 TTTTTTAT
1 TTATTTAT
10405118 CACAAGTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTATAAAATT
Found at i:10405115 original size:12 final size:12
Alignment explanation
Indices: 10405078--10405116 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10405068 TTTTTTGAAA
* *
10405078 TAAAATTATTTA
1 TAAAATTTTTTT
10405090 TAAAATTTTATTT
1 TAAAATTTT-TTT
10405103 TAAAATTTTTTT
1 TAAAATTTTTTT
10405115 TA
1 TA
10405117 TCACAAGTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TAAAATTTTTTT
Found at i:10416007 original size:34 final size:35
Alignment explanation
Indices: 10415941--10416007 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10415931 CAAACACCAG
* *
10415941 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAAGATTTTCCAGTAAATCATTTTACAGAAAAGT
*
10415976 AAAAGATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAAGATTTTCCAGTAAATCATTTTACAGAAAA
10416008 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAAGATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10416152 original size:9 final size:9
Alignment explanation
Indices: 10416108--10416168 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
10416098 ATCGTCATCC
*
10416108 AAAAATTTT
1 AAAAAATTT
10416117 AAAAAATCTT
1 AAAAAAT-TT
* *
10416127 TACAAATTGT
1 AAAAAATT-T
*
10416137 GAAAAAAATT
1 -AAAAAATTT
10416147 AAAAAATTT
1 AAAAAATTT
10416156 AAAAAATTT
1 AAAAAATTT
10416165 AAAA
1 AAAA
10416169 TTTGAGAAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 28 0.67
10 9 0.21
11 5 0.12
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAAATTT
Found at i:10419645 original size:13 final size:13
Alignment explanation
Indices: 10419627--10419653 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10419617 TCAACTTCAG
10419627 ATTTATAAACTTT
1 ATTTATAAACTTT
10419640 ATTTATAAACTTT
1 ATTTATAAACTTT
10419653 A
1 A
10419654 AATTTATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTATAAACTTT
Found at i:10425366 original size:21 final size:21
Alignment explanation
Indices: 10425342--10425383 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10425332 AACAAGCTAA
*
10425342 CAAATCTCCCTAGGACTTAGT
1 CAAATCTCCCTAAGACTTAGT
10425363 CAAATCTCCCTAAGACTTAGT
1 CAAATCTCCCTAAGACTTAGT
10425384 TTTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (21 bp):
CAAATCTCCCTAAGACTTAGT
Found at i:10447180 original size:94 final size:95
Alignment explanation
Indices: 10447015--10447268 Score: 338
Period size: 95 Copynumber: 2.7 Consensus size: 95
10447005 AACCAAGTGG
* * * *
10447015 TGGCGCCATTTAGAATGGCTACACCAAATAAAATATTATTTTTCAAAA-ATTTTAAATA-TAA-A
1 TGGCGCCATTTAGAATGGCTCCACCAAA-AAAATA-TATATTT-AAAATATTATAAA-ACAAATA
*
10447077 A-AAATAAA-TTTAAAAAAAATTAAATGAACTGA
62 ATAAACAAATTTTAAAAAAAATTAAATGAACTGA
*
10447109 TGGCGCCATTTAGAATGGCTCCACCAAAAAAATATACATTTAAAATATTATAAAACAAATAATAA
1 TGGCGCCATTTAGAATGGCTCCACCAAAAAAATATATATTTAAAATATTATAAAACAAATAATAA
** *
10447174 ACAAATTTTAAAAAAGTTTAAATGAATTGA
66 ACAAATTTTAAAAAAAATTAAATGAACTGA
* *
10447204 TGGCGCCATTTAGAATGGCTCCACCAAAAATATATATATTTAAAATATTATGAAACAAATAATAA
1 TGGCGCCATTTAGAATGGCTCCACCAAAAAAATATATATTTAAAATATTATAAAACAAATAATAA
10447269 TAAAAAGGAC
Statistics
Matches: 143, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
91 5 0.03
92 14 0.10
93 8 0.06
94 33 0.23
95 83 0.58
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (95 bp):
TGGCGCCATTTAGAATGGCTCCACCAAAAAAATATATATTTAAAATATTATAAAACAAATAATAA
ACAAATTTTAAAAAAAATTAAATGAACTGA
Found at i:10448247 original size:6 final size:6
Alignment explanation
Indices: 10448238--10448264 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10448228 CACTTCTGCC
10448238 TTTGTT TTTGTT TTTGTT TTTGTT TTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTT
10448265 TTTAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTGTT
Found at i:10456886 original size:16 final size:16
Alignment explanation
Indices: 10456862--10456892 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10456852 GCAAGTTATT
*
10456862 TATGCATACATGTATA
1 TATGAATACATGTATA
10456878 TATGAATACATGTAT
1 TATGAATACATGTAT
10456893 GTATATGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (16 bp):
TATGAATACATGTATA
Found at i:10457661 original size:6 final size:6
Alignment explanation
Indices: 10457650--10457680 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10457640 TGAAGCGGAT
10457650 GATGGG GATGGG GATGGG GATGGG GATGGG G
1 GATGGG GATGGG GATGGG GATGGG GATGGG G
10457681 CTGATGAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GATGGG
Found at i:10460306 original size:15 final size:15
Alignment explanation
Indices: 10460286--10460315 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10460276 TAATAAAAAT
*
10460286 GATAATGTGAACAAA
1 GATAATATGAACAAA
10460301 GATAATATGAACAAA
1 GATAATATGAACAAA
10460316 AAAAATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
GATAATATGAACAAA
Found at i:10460354 original size:4 final size:4
Alignment explanation
Indices: 10460345--10460376 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
10460335 ATACCATAGC
10460345 AAAT AAAT AAAT AAAT AAAT AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
10460377 GCATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:10460623 original size:15 final size:16
Alignment explanation
Indices: 10460590--10460628 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10460580 TTTATGCAAG
*
10460590 TATGTATATACACGTT
1 TATGTATATACAAGTT
10460606 TATGTATATA-AAGTT
1 TATGTATATACAAGTT
*
10460621 TATATATA
1 TATGTATA
10460629 AAAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (16 bp):
TATGTATATACAAGTT
Found at i:10460677 original size:10 final size:10
Alignment explanation
Indices: 10460621--10460685 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
10460611 ATATAAAGTT
10460621 TATATATAAA
1 TATATATAAA
* *
10460631 -AAATATAAG
1 TATATATAAA
*
10460640 TATATATATA
1 TATATATAAA
* *
10460650 TATTCGTAAAAA
1 TA-T-ATATAAA
*
10460662 TGTATATAAA
1 TATATATAAA
10460672 TATATATAAA
1 TATATATAAA
10460682 TATA
1 TATA
10460686 GATATATACG
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
9 7 0.17
10 26 0.65
11 2 0.05
12 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (10 bp):
TATATATAAA
Found at i:10460684 original size:48 final size:48
Alignment explanation
Indices: 10460622--10460719 Score: 112
Period size: 48 Copynumber: 2.0 Consensus size: 48
10460612 TATAAAGTTT
*
10460622 ATATATAAAAAATATA-AGTATATA-TATATATTCGTAAAAATGTATATAA
1 ATATATAAAAAATATAGA-TATATACTATATATT-AT-AAAATGTATATAA
* *
10460671 ATATAT-ATAAATATAGATATATACGTATATATTATAAAGTGTATATAA
1 ATATATAAAAAATATAGATATATAC-TATATATTATAAAATGTATATAA
10460719 A
1 A
10460720 CATGCGCGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
48 27 0.63
49 8 0.19
50 8 0.19
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (48 bp):
ATATATAAAAAATATAGATATATACTATATATTATAAAATGTATATAA
Found at i:10460978 original size:31 final size:31
Alignment explanation
Indices: 10460940--10461000 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
10460930 GGCCCATTTT
10460940 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAG
*
10460971 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
10461001 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (31 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAG
Found at i:10460980 original size:11 final size:11
Alignment explanation
Indices: 10460940--10461031 Score: 65
Period size: 11 Copynumber: 8.9 Consensus size: 11
10460930 GGCCCATTTT
10460940 TATTTT-AAAA
1 TATTTTAAAAA
10460950 -ATTTTAAAAA
1 TATTTTAAAAA
**
10460960 -ATTAAAAAAA
1 TATTTTAAAAA
10460970 GTATTTTAAAAA
1 -TATTTTAAAAA
10460982 TATTTT--AAA
1 TATTTTAAAAA
10460991 -A--TTAAAAA
1 TATTTTAAAAA
* **
10460999 AATTAAAAAAA
1 TATTTTAAAAA
10461010 GTATTTTAAAAA
1 -TATTTTAAAAA
10461022 TATTTTAAAA
1 TATTTTAAAA
10461032 TTAAAAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
6 2 0.03
8 4 0.06
9 9 0.14
10 12 0.19
11 21 0.33
12 16 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:10461007 original size:39 final size:40
Alignment explanation
Indices: 10460940--10461084 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
10460930 GGCCCATTTT
* *
10460940 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAA-TTAAAAAAAATAAAAAAAGTATTTTAAAAA
*
10460982 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATAAAAAAAGTATTTTAAAAA
* *
10461022 TATTTTAAAATTAAAAAAAAT-AAAAAAGTATGTAAAAAA
1 TATTTTAAAATTAAAAAAAATAAAAAAAGTATTTTAAAAA
10461061 TATTTTAAAATTAAAAAAAATAAA
1 TATTTTAAAATTAAAAAAAATAAA
10461085 TATATTTATT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 37 0.38
40 51 0.52
41 4 0.04
42 6 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAATAAAAAAAGTATTTTAAAAA
Found at i:10461009 original size:29 final size:31
Alignment explanation
Indices: 10460977--10461043 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
10460967 AAAGTATTTT
10460977 AAAAATATTTT-AAAAT-TAAAAAAATTAAA
1 AAAAATATTTTAAAAATATAAAAAAATTAAA
* ***
10461006 AAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAAATATAAAAAAATTAAA
10461037 AAAAATA
1 AAAAATA
10461044 AAAAAGTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 10 0.32
30 5 0.16
31 16 0.52
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (31 bp):
AAAAATATTTTAAAAATATAAAAAAATTAAA
Found at i:10462097 original size:20 final size:20
Alignment explanation
Indices: 10462067--10462104 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10462057 GTTCGAAAGA
10462067 AAAAAATAAAGAGAAAAAATT
1 AAAAAATAAAGA-AAAAAATT
10462088 AAAAAA-AAAGAAAAAAA
1 AAAAAATAAAGAAAAAAA
10462105 GAAAAGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (20 bp):
AAAAAATAAAGAAAAAAATT
Found at i:10462527 original size:28 final size:28
Alignment explanation
Indices: 10462496--10462588 Score: 98
Period size: 28 Copynumber: 3.2 Consensus size: 28
10462486 TTTGGGCTGA
10462496 TGGGTAAGGTCTAGGTGGTTTTGGGTAT
1 TGGGTAAGGTCTAGGTGGTTTTGGGTAT
* * *
10462524 TGGGTATTGGGT-TAGTGTTGGGTTTGGTTAT
1 TGGGTA--AGGTCTAG-G-TGGTTTTGGGTAT
*
10462555 TGGGTAATGTCTAGGTGGTTTTGGGTAT
1 TGGGTAAGGTCTAGGTGGTTTTGGGTAT
*
10462583 TAGGTA
1 TGGGTA
10462589 TTGGGTTAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
28 22 0.42
29 6 0.12
30 7 0.13
31 17 0.33
ACGTcount: A:0.14, C:0.02, G:0.41, T:0.43
Consensus pattern (28 bp):
TGGGTAAGGTCTAGGTGGTTTTGGGTAT
Found at i:10462556 original size:31 final size:31
Alignment explanation
Indices: 10462515--10462624 Score: 129
Period size: 31 Copynumber: 3.6 Consensus size: 31
10462505 TCTAGGTGGT
*
10462515 TTTGGGTATTGGGTATTGGGTTAGTGTTGGG
1 TTTGGGTATTGGGTAATGGGTTAGTGTTGGG
* *
10462546 TTTGGTTATTGGGTAAT--GTCTAG-G-TGGT
1 TTTGGGTATTGGGTAATGGGT-TAGTGTTGGG
* *
10462574 TTTGGGTATTAGGTATTGGGTTAGTGTTGGG
1 TTTGGGTATTGGGTAATGGGTTAGTGTTGGG
*
10462605 TTTGGTTATTGGGTAATGGG
1 TTTGGGTATTGGGTAATGGG
10462625 CCTCGGGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
28 17 0.27
29 6 0.09
30 6 0.09
31 35 0.55
ACGTcount: A:0.13, C:0.01, G:0.41, T:0.45
Consensus pattern (31 bp):
TTTGGGTATTGGGTAATGGGTTAGTGTTGGG
Found at i:10462567 original size:59 final size:59
Alignment explanation
Indices: 10462496--10462622 Score: 236
Period size: 59 Copynumber: 2.2 Consensus size: 59
10462486 TTTGGGCTGA
* *
10462496 TGGGTAAGGTCTAGGTGGTTTTGGGTATTGGGTATTGGGTTAGTGTTGGGTTTGGTTAT
1 TGGGTAATGTCTAGGTGGTTTTGGGTATTAGGTATTGGGTTAGTGTTGGGTTTGGTTAT
10462555 TGGGTAATGTCTAGGTGGTTTTGGGTATTAGGTATTGGGTTAGTGTTGGGTTTGGTTAT
1 TGGGTAATGTCTAGGTGGTTTTGGGTATTAGGTATTGGGTTAGTGTTGGGTTTGGTTAT
10462614 TGGGTAATG
1 TGGGTAATG
10462623 GGCCTCGGGC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.13, C:0.02, G:0.41, T:0.44
Consensus pattern (59 bp):
TGGGTAATGTCTAGGTGGTTTTGGGTATTAGGTATTGGGTTAGTGTTGGGTTTGGTTAT
Found at i:10462976 original size:50 final size:50
Alignment explanation
Indices: 10462893--10463322 Score: 328
Period size: 50 Copynumber: 8.9 Consensus size: 50
10462883 TTCTATTCCG
* * * *
10462893 CTGCAACGTCAGGG-GGTAAGA-CCTGCTATTGTAGCTTTAATATTTTTAA
1 CTGCAACGTCAGGGAAGTAAGATCC-GCTGTTGTAGCTTCAATCTTTTTAA
* * * **
10462942 TTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCA
1 CTGCAACGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
* * *
10462992 CTGCAACG-CTAGGAAAGTAATATCCGCTGTTGTAGCTTTAATCTTTTTAA
1 CTGCAACGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
* * * **
10463042 CTG--TCG--A-GGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
* *
10463087 CTGCGACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
1 CTGCAACGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
* * **
10463137 CTGC--CG---GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA
1 CTGCAACGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
* * *
10463182 CTGCAAC-ACTAGGAAAGTAAGATTCGCTGTTGTAGCTTCAAT-TTTTTAA
1 CTGCAACGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
* * * * * * **
10463231 -T--TAC--CGGGGAAGCAAGATCTGTTGTTGTAGCTTCAATCTATTCCA
1 CTGCAACGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
* * *
10463276 CTGCAACG-CTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTT
1 CTGCAACGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTT
10463323 AATTTGCAAT
Statistics
Matches: 300, Mismatches: 61, Indels: 39
0.75 0.15 0.10
Matches are distributed among these distances:
44 26 0.09
45 77 0.26
46 4 0.01
47 3 0.01
48 7 0.02
49 19 0.06
50 162 0.54
51 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
CTGCAACGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAA
Found at i:10463306 original size:189 final size:190
Alignment explanation
Indices: 10462953--10463322 Score: 589
Period size: 189 Copynumber: 2.0 Consensus size: 190
10462943 TGCAATGTCA
* * *
10462953 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGAAAGTAATATCCG
1 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACACTAGGAAAGTAAGATCCG
* ** *
10463018 CTGTTGTAGCTTTAATCTTTTTAACTGTCGAGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGT
66 CTGTTGTAGCTTCAATCTTTTTAACTACCGAGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTAT
* * *
10463083 TCCACTGCGACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGCCG
131 TCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAACTGCCG
* *
10463143 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATTCG
1 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACACTAGGAAAGTAAGATCCG
* * * *
10463208 CTGTTGTAGCTTCAAT-TTTTTAATTACCGGGGAAGCAAGATCTGTTGTTGTAGCTTCAATCTAT
66 CTGTTGTAGCTTCAATCTTTTTAACTACCGAGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTAT
10463272 TCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTT
131 TCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTT
10463323 AATTTGCAAT
Statistics
Matches: 164, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
189 89 0.54
190 75 0.46
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (190 bp):
GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACACTAGGAAAGTAAGATCCG
CTGTTGTAGCTTCAATCTTTTTAACTACCGAGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTAT
TCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATATTTTTAACTGCCG
Found at i:10463326 original size:94 final size:95
Alignment explanation
Indices: 10462953--10463322 Score: 589
Period size: 95 Copynumber: 3.9 Consensus size: 95
10462943 TGCAATGTCA
* *
10462953 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGAAAGTAATATCCG
1 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGAAAGTAAGATCCG
* *
10463018 CTGTTGTAGCTTTAATCTTTTTAACTGTCG
66 CTGTTGTAGCTTCAATCTTTTTAACTGCCG
* * *
10463048 AGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCGACGCTAGGAAAGTAAGATCCG
1 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGAAAGTAAGATCCG
10463113 CTGTTGTAGCTTCAATCTTTTTAACTGCCG
66 CTGTTGTAGCTTCAATCTTTTTAACTGCCG
* * *
10463143 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATTCG
1 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGAAAGTAAGATCCG
* *
10463208 CTGTTGTAGCTTCAAT-TTTTTAATTACCG
66 CTGTTGTAGCTTCAATCTTTTTAACTGCCG
* * *
10463237 GGGAAGCAAGATCTGTTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAAGAAAGTAAGATCCG
1 GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGAAAGTAAGATCCG
*
10463302 CTGTTGTAGCTTCAATATTTT
66 CTGTTGTAGCTTCAATCTTTT
10463323 AATTTGCAAT
Statistics
Matches: 255, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 86 0.34
95 169 0.66
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (95 bp):
GGGAAGCAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGAAAGTAAGATCCG
CTGTTGTAGCTTCAATCTTTTTAACTGCCG
Found at i:10463331 original size:50 final size:50
Alignment explanation
Indices: 10462956--10463317 Score: 360
Period size: 50 Copynumber: 7.6 Consensus size: 50
10462946 AATGTCAGGG
* *
10462956 AAGTAAGATCCGCTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
* * * * *
10463006 AAGTAATATCCGCTGTTGTAGCTTTAATCTTTTTAACTG--TCG--AGG-
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
* * *
10463051 AAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCGACGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
* * *
10463101 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAACTGC--CG---GGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
* * *
10463146 AAGCAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACACTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
* * * * * *
10463196 AAGTAAGATTCGCTGTTGTAGCTTCAAT-TTTTTAA-T--TAC-C-GGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
* * * * * *
10463240 AAGCAAGATCTGTTGTTGTAGCTTCAATCTATTCCACTGCAACGCTAAGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
10463290 AAGTAAGATCCGCTGTTGTAGCTTCAAT
1 AAGTAAGATCCGCTGTTGTAGCTTCAAT
10463318 ATTTTAATTT
Statistics
Matches: 250, Mismatches: 46, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
44 26 0.10
45 76 0.30
46 6 0.02
47 3 0.01
48 7 0.03
49 8 0.03
50 124 0.50
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (50 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCAACTGCAACGCTAGGA
Found at i:10463423 original size:46 final size:46
Alignment explanation
Indices: 10463366--10464219 Score: 1282
Period size: 46 Copynumber: 18.6 Consensus size: 46
10463356 ACTGTCAGCT
* * * * *
10463366 CAGGAAAACAAGACCTGCCATCTTCGATCTACTCTGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * * *
10463412 CAGGAAGACAAGATCTACTATCTTTGATCTCTTTCGCT-CCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* *
10463457 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCACTGCTAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
*
10463503 CAAGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * *
10463549 CAGGAAGACAAAATCTGCTATCTTCAATCTCCTCTGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * * *
10463595 TAGGAAGACAAGATCTGCCATCTTTGATCTCTTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * *
10463641 CGGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCTACCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * *
10463687 CAGTAAGACAAGATCTGCCATCTTCGATCTCCTTCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * *
10463733 CAGGAAGACAAGATCTTCCATCTTCGATCTCCTCCACTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
10463779 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * *
10463825 CAGAAAGATAAGATCTGCCATCTTCGATCTCCTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* * *
10463871 CAGAAAGACAAGATCTGCTATCTTCGATCTCCTTCGCTGCCAAACA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
*
10463917 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAACA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
*
10463963 CAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
*
10464009 CAGAAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAAT-
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* *
10464054 CAGGAAGACAAGATCTACTATCTTCGATCTCCCCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
**
10464100 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCTACTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
* *
10464146 TAGGAAGACAATG-TCTGCTATCTTCGATCTCCTCTGCTGCCAAATA
1 CAGGAAGACAA-GATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
*
10464192 CAGGAAGATAAGATCTGCTATCTTCGAT
1 CAGGAAGACAAGATCTGCTATCTTCGAT
10464220 GATTTGTTTT
Statistics
Matches: 733, Mismatches: 71, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
45 83 0.11
46 649 0.89
47 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (46 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATA
Found at i:10465334 original size:21 final size:21
Alignment explanation
Indices: 10465308--10465354 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10465298 ATTGTAGCAA
10465308 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
10465329 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
*
10465350 AATCA
1 GATCA
10465355 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:10465464 original size:15 final size:16
Alignment explanation
Indices: 10465439--10465490 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
10465429 AGCCTCGCCA
10465439 TTTTTACTTTTTCATT
1 TTTTTACTTTTTCATT
* *
10465455 TTTTTATTTTTTTATT
1 TTTTTACTTTTTCATT
**
10465471 TTTTT-CAGTTTCATT
1 TTTTTACTTTTTCATT
10465486 TTTTT
1 TTTTT
10465491 TGACTCAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTACTTTTTCATT
Found at i:10465465 original size:9 final size:8
Alignment explanation
Indices: 10465439--10465475 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
10465429 AGCCTCGCCA
*
10465439 TTTTTACT
1 TTTTTATT
*
10465447 TTTTCATT
1 TTTTTATT
10465455 TTTTTATT
1 TTTTTATT
10465463 TTTTTATT
1 TTTTTATT
10465471 TTTTT
1 TTTTT
10465476 CAGTTTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:10466359 original size:20 final size:18
Alignment explanation
Indices: 10466325--10466372 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
10466315 TCTCTTATGA
*
10466325 TTTTTTTGATTTTTTGTT
1 TTTTTTTGATTTTTTATT
10466343 TGTTTTTTGATTTTTTTATT
1 T-TTTTTTGA-TTTTTTATT
10466363 TTTCTTTTGA
1 TTT-TTTTGA
10466373 GTCTGAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 10 0.38
20 15 0.58
ACGTcount: A:0.08, C:0.02, G:0.10, T:0.79
Consensus pattern (18 bp):
TTTTTTTGATTTTTTATT
Found at i:10468835 original size:109 final size:109
Alignment explanation
Indices: 10468650--10469047 Score: 600
Period size: 109 Copynumber: 3.7 Consensus size: 109
10468640 GTCAATCGAG
* * * * * * ** *
10468650 AAATCGAAACCCAGCACCTTAGGGTACG-TTTATCAAATTTCCAAACGCAAAATATTATCTTACT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*** *
10468714 TCGGAATTTTTAAAAGGGTATTTAGCCATTTGGTTGAATGAGAA
66 TTAAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
*
10468758 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
10468823 TTAAAATCTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTAAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
10468867 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
10468932 TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAC
66 TTAAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
*
10468976 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAATGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
10469041 TTTAAAA
65 TTTAAAA
10469048 AATTTTCTTT
Statistics
Matches: 265, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
108 25 0.09
109 212 0.80
110 28 0.11
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
Found at i:10469120 original size:15 final size:15
Alignment explanation
Indices: 10469100--10469129 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10469090 TAATAAAAAT
*
10469100 GATAATGTGAACAAA
1 GATAATATGAACAAA
10469115 GATAATATGAACAAA
1 GATAATATGAACAAA
10469130 AACGAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
GATAATATGAACAAA
Found at i:10469177 original size:4 final size:4
Alignment explanation
Indices: 10469168--10469246 Score: 52
Period size: 4 Copynumber: 18.8 Consensus size: 4
10469158 ATACCATAGC
* ** *
10469168 AAAT AAAT AAAT AAAT AAAT AAAAT AAAGC ATAA- AAAT GGAC AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAA-T A-AAT AAAT AAAT AAAT AAAT
* *
10469218 AAAT ACAT AAAT GAACAT AAAA AAAT AAA
1 AAAT AAAT AAAT -AA-AT AAAT AAAT AAA
10469247 GGAAAATAGA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
3 2 0.03
4 43 0.74
5 9 0.16
6 4 0.07
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:10469420 original size:16 final size:15
Alignment explanation
Indices: 10469399--10469437 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10469389 TTTATGCAAG
*
10469399 TATGTATATACATGTT
1 TATGTATATA-AAGTT
10469415 TATGTATATAAAGTT
1 TATGTATATAAAGTT
*
10469430 TATATATA
1 TATGTATA
10469438 AAAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (15 bp):
TATGTATATAAAGTT
Found at i:10469486 original size:10 final size:10
Alignment explanation
Indices: 10469430--10469494 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
10469420 ATATAAAGTT
10469430 TATATATAAA
1 TATATATAAA
* *
10469440 -AAATATAAG
1 TATATATAAA
*
10469449 TATATATATA
1 TATATATAAA
* *
10469459 TATTCGTAAAAA
1 TA-T-ATATAAA
*
10469471 TGTATATAAA
1 TATATATAAA
10469481 TATATATAAA
1 TATATATAAA
10469491 TATA
1 TATA
10469495 GATATATACG
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
9 7 0.17
10 26 0.65
11 2 0.05
12 5 0.12
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (10 bp):
TATATATAAA
Found at i:10469493 original size:48 final size:48
Alignment explanation
Indices: 10469431--10469528 Score: 112
Period size: 48 Copynumber: 2.0 Consensus size: 48
10469421 TATAAAGTTT
*
10469431 ATATATAAAAAATATA-AGTATATA-TATATATTCGTAAAAATGTATATAA
1 ATATATAAAAAATATAGA-TATATACTATATATT-AT-AAAATGTATATAA
* *
10469480 ATATAT-ATAAATATAGATATATACGTATATATTATAAAGTGTATATAA
1 ATATATAAAAAATATAGATATATAC-TATATATTATAAAATGTATATAA
10469528 A
1 A
10469529 CATGCGCGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
48 27 0.63
49 8 0.19
50 8 0.19
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (48 bp):
ATATATAAAAAATATAGATATATACTATATATTATAAAATGTATATAA
Found at i:10470430 original size:14 final size:13
Alignment explanation
Indices: 10470406--10470452 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
10470396 AAATAGTTCG
10470406 AAAGAAAAAAAAT
1 AAAGAAAAAAAAT
*
10470419 AAAGAGAAAAAATT
1 AAAGA-AAAAAAAT
10470433 AAA-AAAATAAAA-
1 AAAGAAAA-AAAAT
10470445 AAAGAAAA
1 AAAGAAAA
10470453 GGAAAATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 6 0.21
13 13 0.45
14 10 0.34
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAGAAAAAAAAT
Found at i:10470452 original size:22 final size:22
Alignment explanation
Indices: 10470411--10470452 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10470401 GTTCGAAAGA
*
10470411 AAAAAAATAAAGAGAAAAAATT
1 AAAAAAATAAAGAAAAAAAATT
10470433 AAAAAAATAAA-AAAAGAAAA
1 AAAAAAATAAAGAAAA-AAAA
10470453 GGAAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (22 bp):
AAAAAAATAAAGAAAAAAAATT
Found at i:10470458 original size:22 final size:22
Alignment explanation
Indices: 10470406--10470458 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
10470396 AAATAGTTCG
*
10470406 AAAGAAAAAAAATAAAGAGAAA
1 AAAGAAAAAAAATAAAGAAAAA
**
10470428 AAATTAAAAAAATAAA-AAAAGA
1 AAAGAAAAAAAATAAAGAAAA-A
*
10470450 AAAGGAAAA
1 AAAGAAAAA
10470459 TAGATATACC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (22 bp):
AAAGAAAAAAAATAAAGAAAAA
Found at i:10470894 original size:31 final size:31
Alignment explanation
Indices: 10470844--10470959 Score: 141
Period size: 31 Copynumber: 3.8 Consensus size: 31
10470834 CTAGGTGGTT
*
10470844 TTGGGTTTGGGGTATTGGGTATTGGGTTAGTG
1 TTGGGTTT-GGGTATTGGGTAATGGGTTAGTG
*
10470876 TTGGGTTTGGTTATTGGGTAAT--GTCTAG-G
1 TTGGGTTTGGGTATTGGGTAATGGGT-TAGTG
* *
10470905 -TGGTTTTGGGTATTGGGTATTGGGTTAGTG
1 TTGGGTTTGGGTATTGGGTAATGGGTTAGTG
*
10470935 TTGGGTTTGGTTATTGGGTAATGGG
1 TTGGGTTTGGGTATTGGGTAATGGG
10470960 CCTCGGGCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
28 18 0.25
29 6 0.08
30 6 0.08
31 33 0.46
32 8 0.11
ACGTcount: A:0.11, C:0.01, G:0.43, T:0.45
Consensus pattern (31 bp):
TTGGGTTTGGGTATTGGGTAATGGGTTAGTG
Found at i:10470902 original size:66 final size:59
Alignment explanation
Indices: 10470847--10470957 Score: 213
Period size: 59 Copynumber: 1.9 Consensus size: 59
10470837 GGTGGTTTTG
*
10470847 GGTTTGGGGTATTGGGTATTGGGTTAGTGTTGGGTTTGGTTATTGGGTAATGTCTAGGT
1 GGTTTTGGGTATTGGGTATTGGGTTAGTGTTGGGTTTGGTTATTGGGTAATGTCTAGGT
10470906 GGTTTTGGGTATTGGGTATTGGGTTAGTGTTGGGTTTGGTTATTGGGTAATG
1 GGTTTTGGGTATTGGGTATTGGGTTAGTGTTGGGTTTGGTTATTGGGTAATG
10470958 GGCCTCGGGC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.12, C:0.01, G:0.42, T:0.45
Consensus pattern (59 bp):
GGTTTTGGGTATTGGGTATTGGGTTAGTGTTGGGTTTGGTTATTGGGTAATGTCTAGGT
Found at i:10475973 original size:17 final size:17
Alignment explanation
Indices: 10475938--10475974 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10475928 AAAAATTTTA
*
10475938 AAACACGAAAATTGGTG
1 AAACACGAAAATCGGTG
*
10475955 AAACACGAAAATCGTTG
1 AAACACGAAAATCGGTG
10475972 AAA
1 AAA
10475975 ACATGACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.19, T:0.16
Consensus pattern (17 bp):
AAACACGAAAATCGGTG
Found at i:10475997 original size:37 final size:37
Alignment explanation
Indices: 10475955--10476030 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
10475945 AAAATTGGTG
*
10475955 AAACACGAAAATCGTT-GAAAACATGACATTTTTTTTA
1 AAACACGAAAATCGTTAGAAAACACGA-ATTTTTTTTA
* **
10475992 AAACACGGAAATTTTTAGAAAACACGAATTTTTTTTA
1 AAACACGAAAATCGTTAGAAAACACGAATTTTTTTTA
10476029 AA
1 AA
10476031 TCACCGGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 25 0.74
38 9 0.26
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (37 bp):
AAACACGAAAATCGTTAGAAAACACGAATTTTTTTTA
Found at i:10476006 original size:19 final size:19
Alignment explanation
Indices: 10475984--10476044 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
10475974 AACATGACAT
10475984 TTTTTTTAAAACACGGAAA
1 TTTTTTTAAAACACGGAAA
** *
10476003 TTTTTAGAAAACAC-GAAT
1 TTTTTTTAAAACACGGAAA
*
10476021 TTTTTTTAAATCACCGG-AA
1 TTTTTTTAAAACA-CGGAAA
10476040 TTTTT
1 TTTTT
10476045 GGGAACACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 13 0.39
19 19 0.58
20 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (19 bp):
TTTTTTTAAAACACGGAAA
Found at i:10476024 original size:18 final size:18
Alignment explanation
Indices: 10475971--10476025 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
10475961 GAAAATCGTT
* *
10475971 GAAAACATGACATTTTTTT
1 GAAAACACGA-ATTTTTTA
* *
10475990 TAAAACACGGAAATTTTTA
1 GAAAACAC-GAATTTTTTA
10476009 GAAAACACGAATTTTTT
1 GAAAACACGAATTTTTT
10476026 TTAAATCACC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 8 0.28
19 19 0.66
20 2 0.07
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (18 bp):
GAAAACACGAATTTTTTA
Found at i:10476042 original size:37 final size:38
Alignment explanation
Indices: 10475971--10476044 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
10475961 GAAAATCGTT
*
10475971 GAAAACATGACATTTTTTTTAAAACACGGAAATTTTTA
1 GAAAACACGACATTTTTTTTAAAACACGGAAATTTTTA
*
10476009 GAAAACACGA-ATTTTTTTTAAATCACCGG-AATTTTT
1 GAAAACACGACATTTTTTTTAAAACA-CGGAAATTTTT
10476045 GGGAACACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 21 0.64
38 12 0.36
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (38 bp):
GAAAACACGACATTTTTTTTAAAACACGGAAATTTTTA
Found at i:10476149 original size:18 final size:18
Alignment explanation
Indices: 10475928--10476176 Score: 107
Period size: 18 Copynumber: 14.0 Consensus size: 18
10475918 AAAAACATAA
*
10475928 AAAAATTTT-AAAACACG
1 AAAATTTTTGAAAACACG
**
10475945 AAAATTGGTG-AAACACG
1 AAAATTTTTGAAAACACG
** *
10475962 AAAATCGTTGAAAACATG
1 AAAATTTTTGAAAACACG
** *
10475980 ACATTTTTTTTAAAACACG
1 A-AAATTTTTGAAAACACG
*
10475999 GAAATTTTTAGAAAACACG
1 AAAATTTTT-GAAAACACG
** * *
10476018 AATTTTTTTTAAATCACCG
1 AAAATTTTTGAAAACA-CG
* ** *
10476037 -GAATTTTTGGGAACACT
1 AAAATTTTTGAAAACACG
* * *
10476054 AAGACTTTTGAAAACATG
1 AAAATTTTTGAAAACACG
*
10476072 AAGATTTTTG-AAAC-CG
1 AAAATTTTTGAAAACACG
* * *
10476088 AGAATTTTTTGAAAACGCA
1 A-AAATTTTTGAAAACACG
* * *
10476107 AAAAATTTT-AAAAAATG
1 AAAATTTTTGAAAACACG
* *
10476124 GAATTTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
** * *
10476142 AGCATTTTTGAAATCATG
1 AAAATTTTTGAAAACACG
10476160 AAAATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
10476177 GGATTTTTTT
Statistics
Matches: 160, Mismatches: 62, Indels: 20
0.66 0.26 0.08
Matches are distributed among these distances:
16 2 0.01
17 48 0.30
18 81 0.51
19 29 0.18
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:10476740 original size:8 final size:8
Alignment explanation
Indices: 10476727--10476791 Score: 64
Period size: 8 Copynumber: 8.1 Consensus size: 8
10476717 ACTTTTCTTG
10476727 TCTTTTTC
1 TCTTTTTC
10476735 TCTTTTT-
1 TCTTTTTC
*
10476742 TCCTTTTTTT
1 T-C-TTTTTC
10476752 TCTTTTTC
1 TCTTTTTC
*
10476760 TTTTTTTC
1 TCTTTTTC
10476768 TCTTTTT-
1 TCTTTTTC
10476775 TCCTTTTTC
1 T-CTTTTTC
10476784 T-TTTTTC
1 TCTTTTTC
10476791 T
1 T
10476792 TCTCTCTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 9 0.18
8 32 0.65
9 7 0.14
10 1 0.02
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TCTTTTTC
Found at i:10476742 original size:10 final size:10
Alignment explanation
Indices: 10476729--10476806 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 10
10476719 TTTTCTTGTC
10476729 TTTTTCTC-T
1 TTTTTCTCTT
10476738 TTTTTC-CTT
1 TTTTTCTCTT
10476747 TTTTT-TC--
1 TTTTTCTCTT
10476754 -TTTT-TCTT
1 TTTTTCTCTT
10476762 TTTTTCTC-T
1 TTTTTCTCTT
10476771 TTTTTC-CTT
1 TTTTTCTCTT
10476780 TTTCTT-T-TT
1 TTT-TTCTCTT
*
10476789 TCTTCTCTCTT
1 T-TTTTCTCTT
10476800 TTTTTCT
1 TTTTTCT
10476807 GCTGGGCTGC
Statistics
Matches: 55, Mismatches: 2, Indels: 23
0.69 0.03 0.29
Matches are distributed among these distances:
6 6 0.11
8 2 0.04
9 32 0.58
10 12 0.22
11 3 0.05
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:10476749 original size:16 final size:16
Alignment explanation
Indices: 10476728--10476789 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
10476718 CTTTTCTTGT
10476728 CTTTTTCTCTTTTTTC
1 CTTTTTCTCTTTTTTC
*
10476744 CTTTTT-TTTCTTTTTC
1 CTTTTTCTCT-TTTTTC
*
10476760 TTTTTTTCTCTTTTTTC
1 -CTTTTTCTCTTTTTTC
10476777 CTTTTTCT-TTTTT
1 CTTTTTCTCTTTTT
10476790 CTTCTCTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.18
16 19 0.49
17 11 0.28
18 2 0.05
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTTCTCTTTTTTC
Found at i:10476765 original size:23 final size:24
Alignment explanation
Indices: 10476730--10476790 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
10476720 TTTCTTGTCT
*
10476730 TTTTCTCTTTTTTCCT-TTTTTTTC
1 TTTT-TCTTTTTTCCTCTTTTTTCC
*
10476754 TTTTTCTTTTTTTCTCTTTTTTCC
1 TTTTTCTTTTTTCCTCTTTTTTCC
10476778 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
10476791 TTCTCTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTCTTTTTTCCTCTTTTTTCC
Found at i:10477126 original size:15 final size:15
Alignment explanation
Indices: 10477093--10477161 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 15
10477083 AAAAGAATAT
*
10477093 TTTT-TTCTTTCCTTT
1 TTTTCTTCTTTTC-TT
10477108 TTTTCTT-TTTTCTT
1 TTTTCTTCTTTTCTT
10477122 CTTTTCTTTCCTTTTCTT
1 -TTTTC-TT-CTTTTCTT
10477140 TTTTCTTC-TTTCTT
1 TTTTCTTCTTTTCTT
10477154 TCTTTCTT
1 T-TTTCTT
10477162 TATTTCTTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.19
15 20 0.43
16 6 0.13
17 5 0.11
18 7 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTCTTTTCTT
Found at i:10477135 original size:28 final size:28
Alignment explanation
Indices: 10477095--10477173 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 28
10477085 AAGAATATTT
10477095 TTTTCTTTCCTTTTTTTCTTTTTTCTTC
1 TTTTCTTTCCTTTTTTTCTTTTTTCTTC
10477123 TTTTCTTTCC---TTTTCTTTTTTCTTC
1 TTTTCTTTCCTTTTTTTCTTTTTTCTTC
* * *
10477148 -TTTCTTT-CTTTCTTTATTTCTTCTTC
1 TTTTCTTTCCTTTTTTTCTTTTTTCTTC
10477174 CCTTTTTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
23 1 0.02
24 7 0.16
25 15 0.33
26 12 0.27
28 10 0.22
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTCTTTCCTTTTTTTCTTTTTTCTTC
Found at i:10477154 original size:4 final size:4
Alignment explanation
Indices: 10477096--10477169 Score: 66
Period size: 4 Copynumber: 18.5 Consensus size: 4
10477086 AGAATATTTT
*
10477096 TTTC TTTCC TTTT TTTC TTT- TTTC -TTC TTTTC TTTCC TTTTC TTT-
1 TTTC TTT-C TTTC TTTC TTTC TTTC TTTC -TTTC TTT-C -TTTC TTTC
*
10477141 TTTC -TTC TTTC TTTC TTTC TTTA TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
10477170 CTTCCCTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
3 12 0.21
4 34 0.59
5 9 0.16
6 3 0.05
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:10477171 original size:15 final size:14
Alignment explanation
Indices: 10477109--10477189 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 14
10477099 CTTTCCTTTT
10477109 TTTCTTTTTTCTTC
1 TTTCTTTTTTCTTC
*
10477123 TTTTCTTTCCTTTTCTTT
1 -TTTC-TT--TTTTCTTC
*
10477141 TTTCTTCTTTCTTTC
1 TTTCTTTTTTC-TTC
10477156 TTTCTTTATTTCTTC
1 TTTCTTT-TTTCTTC
* *
10477171 TTCCCTTTTTCTTC
1 TTTCTTTTTTCTTC
*
10477185 CTTCT
1 TTTCT
10477190 CCGTTCAACA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
14 13 0.25
15 20 0.38
16 8 0.15
17 4 0.08
18 7 0.13
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCTTTTTTCTTC
Found at i:10477732 original size:29 final size:29
Alignment explanation
Indices: 10477682--10477822 Score: 104
Period size: 29 Copynumber: 4.8 Consensus size: 29
10477672 AAACTTCTTG
* * *
10477682 GGTCAAAGTGTAATTTTGAAAAGTTTAAA
1 GGTCAAAATGCAATTTTAAAAAGTTTAAA
* * * ***
10477711 GGTCAAAATGTAATTTCAAAAAAGCTTGGG
1 GGTCAAAATGCAATTT-TAAAAAGTTTAAA
* * *
10477741 GGTCATAGTGCAATTTTAAAAATTTTAAA
1 GGTCAAAATGCAATTTTAAAAAGTTTAAA
* *
10477770 GGTAAAAATGCAATTTTAAAAA-TTTAAGG
1 GGTCAAAATGCAATTTTAAAAAGTTTAA-A
*
10477799 GGTTAAAATGCAAATTTTTAAAAA
1 GGTCAAAATGC-AA-TTTTAAAAA
10477823 ATGAAATCGA
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
28 5 0.06
29 51 0.59
30 22 0.25
31 9 0.10
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.33
Consensus pattern (29 bp):
GGTCAAAATGCAATTTTAAAAAGTTTAAA
Found at i:10481150 original size:20 final size:20
Alignment explanation
Indices: 10481122--10481161 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10481112 AAATAAACAC
* *
10481122 ATAATTATTCATTTAATATT
1 ATAACTATTCATATAATATT
10481142 ATAACTATTCATATAATATT
1 ATAACTATTCATATAATATT
10481162 GTTTGAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAACTATTCATATAATATT
Found at i:10488342 original size:22 final size:22
Alignment explanation
Indices: 10488314--10488373 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 22
10488304 AATACATCAA
10488314 AAATATTAAAAAACATT-AAAAT
1 AAATATTAAAAAA-ATTGAAAAT
*
10488336 AAATATTTCCAAACAAATTGAAAAT
1 AAATA-TT--AAAAAAATTGAAAAT
*
10488361 AAATTTTAAAAAA
1 AAATATTAAAAAA
10488374 TATGTATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 10 0.32
23 2 0.06
24 5 0.16
25 14 0.45
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATATTAAAAAAATTGAAAAT
Found at i:10488997 original size:18 final size:19
Alignment explanation
Indices: 10488948--10489004 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
10488938 GCATATTAGG
*
10488948 TTTTATTATTTAGTATAATAT
1 TTTTATT-TTTA-TATTATAT
*
10488969 TTTTACATTTTATATTA-AT
1 TTTTA-TTTTTATATTATAT
*
10488988 TTTTATTTTTTTATTAT
1 TTTTATTTTTATATTAT
10489005 GTTTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 9 0.30
19 7 0.23
20 4 0.13
21 9 0.30
22 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTATTTTTATATTATAT
Found at i:10489850 original size:16 final size:16
Alignment explanation
Indices: 10489829--10489860 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10489819 ACTTGTAATA
10489829 CATATATAAATTCATT
1 CATATATAAATTCATT
*
10489845 CATATATATATTCATT
1 CATATATAAATTCATT
10489861 TTGAACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (16 bp):
CATATATAAATTCATT
Found at i:10489990 original size:28 final size:28
Alignment explanation
Indices: 10489949--10490031 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 28
10489939 CATGAAACTG
* * *
10489949 ATTTGACCATACGAGCTGTGATATTTGA
1 ATTTGATCACACGAGTTGTGATATTTGA
10489977 ATTTGATCACACGAGTTGTGATATTTGA
1 ATTTGATCACACGAGTTGTGATATTTGA
** * *
10490005 ATTTTCTCACACAAGTTGTGACATTTG
1 ATTTGATCACACGAGTTGTGATATTTG
10490032 GGATACTCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (28 bp):
ATTTGATCACACGAGTTGTGATATTTGA
Found at i:10494285 original size:2 final size:2
Alignment explanation
Indices: 10494278--10494334 Score: 55
Period size: 2 Copynumber: 29.0 Consensus size: 2
10494268 TATGAGTATG
* * *
10494278 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA -A TGC TA GA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
*
10494319 TA TA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA
10494335 AAAGTTATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
1 2 0.04
2 42 0.93
3 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (2 bp):
TA
Found at i:10494463 original size:2 final size:2
Alignment explanation
Indices: 10494404--10494445 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
10494394 CAAAGGTATG
10494404 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10494445 T
1 T
10494446 GGTGCGAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10495035 original size:41 final size:41
Alignment explanation
Indices: 10494941--10495085 Score: 177
Period size: 41 Copynumber: 3.6 Consensus size: 41
10494931 AGGCTAAGTG
* ** * *
10494941 CCTAGCAGGCTAAATGCCGGTGAAT-T-TTTCAGACCATAAA
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTGAATCAGGCTATAAA
* * *
10494981 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTGTAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAA
* *
10495022 CCTAGCAGACTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAA
10495063 CCTAGCAGGCTAAGTGCCGGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
10495086 ATATGTTAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 21 0.24
41 66 0.74
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAA
Found at i:10498815 original size:14 final size:14
Alignment explanation
Indices: 10498796--10498830 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10498786 GCTATGCATG
*
10498796 CAAAATATAAAAGA
1 CAAAATACAAAAGA
10498810 CAAAATACAAAAGA
1 CAAAATACAAAAGA
*
10498824 CATAATA
1 CAAAATA
10498831 GTGAAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (14 bp):
CAAAATACAAAAGA
Found at i:10500482 original size:20 final size:18
Alignment explanation
Indices: 10500435--10500514 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 18
10500425 CAAGATAAAC
10500435 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
10500452 GTT-AATATAATCACTTTAAT
1 ATTAAAT-TAAT-A-TTTAAT
** *
10500472 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
10500491 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10500508 ATTAAAT
1 ATTAAAT
10500515 ATATTAAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
16 3 0.06
17 16 0.33
19 14 0.29
20 13 0.27
21 3 0.06
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10503218 original size:42 final size:42
Alignment explanation
Indices: 10503161--10503289 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
10503151 TTAGGGTTAC
*
10503161 CGAGATTACGTGTAAGACCATATTTGGGATATGACATTGATA
1 CGAGATTACGTGTAAGACCATATCTGGGATATGACATTGATA
* ** * * *
10503203 TGAGACTT-CGTGTAAGACCATGGCTGGGCTATTGGCATCGATA
1 CGAGA-TTACGTGTAAGACCATATCTGGGATA-TGACATTGATA
* * *
10503246 CGAGATTACATGTAAGACCATATCTGGGATATGTCATTGTTA
1 CGAGATTACGTGTAAGACCATATCTGGGATATGACATTGATA
10503288 CG
1 CG
10503290 GTACTATGTG
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
42 35 0.51
43 34 0.49
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
CGAGATTACGTGTAAGACCATATCTGGGATATGACATTGATA
Done.