Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold18
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: 4432388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 63034 characters in sequence are not A, C, G, or T
File 5 of 27
Found at i:606089 original size:51 final size:51
Alignment explanation
Indices: 605941--606327 Score: 260
Period size: 52 Copynumber: 7.4 Consensus size: 51
605931 GAAAAAACGA
* * * * *
605941 GGTTGGAGTATCCTCGATTGTGTAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * *
605993 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGGAAATAAAACCGG
* * * *
606045 GGTTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGA
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * *
606096 GGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTGGAAATAAAACCGG
* * ** * * ***** * *
606147 GGTTGGAGTATCCCCTCGGAGGTAACGG--GGTTGGAGTTTCCCCGATGAAATAACGA
1 GGTTGGAGTAT-CCC-C-GA--TTATGGAAAATTAGTGTTTTGGAAAT-AAA-ACCGG
* * * * * *
606203 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * *
606255 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGGAAATAAAACCGG
*
606307 GGTTGGA-AATCCCCGATTATG
1 GGTTGGAGTATCCCCGATTATG
606328 AACAATTGAG
Statistics
Matches: 254, Mismatches: 67, Indels: 30
0.72 0.19 0.09
Matches are distributed among these distances:
50 4 0.02
51 88 0.35
52 95 0.37
53 33 0.13
54 13 0.05
55 5 0.02
56 15 0.06
57 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:606299 original size:262 final size:262
Alignment explanation
Indices: 605834--606313 Score: 924
Period size: 262 Copynumber: 1.8 Consensus size: 262
605824 GAAATAACGG
605834 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
*
605899 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAAAAACGAGGTTGGAGTATCCTCGATTGTGT
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAAAAACGAGGTTGGAGTATCCTCGATTGTGA
*
605964 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
131 AAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
606029 TTGAAAATAAAACCGGGGTTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
196 TTGAAAATAAAACCGGGGTTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
606094 GA
261 GA
606096 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
* *
606161 CTCGGAGGTAACGGGGTTGGAGTTTCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAAAAACGAGGTTGGAGTATCCTCGATTGTGA
606226 AAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
131 AAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
606291 TTGAAAATAAAACCGGGGTTGGA
196 TTGAAAATAAAACCGGGGTTGGA
606314 AATCCCCGAT
Statistics
Matches: 214, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
262 214 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (262 bp):
GGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCC
CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAAAAACGAGGTTGGAGTATCCTCGATTGTGA
AAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
TTGAAAATAAAACCGGGGTTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
GA
Found at i:611204 original size:52 final size:52
Alignment explanation
Indices: 611056--611184 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
611046 CGAAATATGA
611056 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
611108 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
611160 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
611185 AAGATTAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:615892 original size:21 final size:20
Alignment explanation
Indices: 615866--615904 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
615856 GTATCGATAC
615866 AATGTATCAATACACTTTCTT
1 AATGTATCAATACA-TTTCTT
*
615887 AATGTATCGATACATTTC
1 AATGTATCAATACATTTC
615905 CTTGGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
AATGTATCAATACATTTCTT
Found at i:616079 original size:6 final size:6
Alignment explanation
Indices: 616068--616108 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
616058 GACAAAAATG
616068 TTTTAT TTTTAT TTTTAT TTTTA- -TTTA- TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
616109 ATTTTATCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 4 0.12
6 25 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:616096 original size:10 final size:10
Alignment explanation
Indices: 616075--616113 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
616065 ATGTTTTATT
616075 TTTATTTTTA
1 TTTATTTTTA
616085 TTT-TTATTTA
1 TTTATT-TTTA
616095 TTTTATTTTTA
1 -TTTATTTTTA
616106 TTTATTTT
1 TTTATTTT
616114 ATCCTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.08
10 15 0.58
11 7 0.27
12 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:616100 original size:15 final size:15
Alignment explanation
Indices: 616068--616115 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
616058 GACAAAAATG
616068 TTTTATTTTTA--T-
1 TTTTATTTTTATTTA
616080 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
616095 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
616110 TTTTAT
1 TTTTAT
616116 CCTTTTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.33
14 1 0.03
15 21 0.64
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:617023 original size:55 final size:55
Alignment explanation
Indices: 616823--617236 Score: 413
Period size: 55 Copynumber: 7.3 Consensus size: 55
616813 ATAAAATGCA
* * *
616823 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG---A--AAA-GCG
* ** * * *
616884 TCCTGCTCGTTGAGGACTGGAAGGTGCCATCAACTCGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCG
* * * * *
616945 TCCTGCTTTTTGAGAACTAGAAAATGCCACCAACTTGTGCGAGCTTTGAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* *
617000 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGCGTGGGCTTT-AAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* * * *
617055 TCCTGCTTTTTGAGGACAGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCG
* * *
617110 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGG-TTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GCG
* **
617165 TCCTACTCTTTGAGGACT-GAAAACTGCCACCGTCTTGTGTGGGCTTTGAAAAGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGCG
*
617220 CCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
617237 AAAAAGGCAA
Statistics
Matches: 296, Mismatches: 46, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
54 13 0.04
55 186 0.63
56 12 0.04
61 77 0.26
62 6 0.02
63 1 0.00
66 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGCG
Found at i:617176 original size:165 final size:169
Alignment explanation
Indices: 616814--617237 Score: 466
Period size: 165 Copynumber: 2.5 Consensus size: 169
616804 AAGAGGAAAA
* * * *
616814 TAAAATGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTTGAAAAGGAA
1 TAAAA-GCGTCCTGCTCTTTGAGGACTGAAAACTGCCACCAACTTGTGTGGGCTTTG---A--AA
* * * ** *
616879 AGGCATCCTGCTCGTTGAGGACTGGAAGGTGCCATCAACTCGTGTGGGCTTTGCAAAGAGAAAGC
60 AGGCGTCCTGCTCTTTGAGGACAGGAAAATGCCACCAACTCGTGTGGGCTTTG-AAAGAG--AGC
*
616944 ATCCTGCTTTTTGAGAACTAGAAAATGCCACCAACTTGTGCGAGCTTT
122 ATCCTGCTCTTTGAGAACTAGAAAATGCCACCAACTTGTGCGAGCTTT
* * *
616992 GAAAAGCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGCGTGGGCTTT-AAAAGGTG
1 TAAAAGCGTCCTGCTCTTTGAGGACT-GAAAACTGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
* *
617055 TCCTGCTTTTTGAGGACAGGAAAATGCCACCAACTCGTGTGGGCTTTG-AA-AG-GCGTCCTGCT
65 TCCTGCTCTTTGAGGACAGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGAGAGCATCCTGCT
* * * * * *
617117 CTTTGAGGACTGGGAAGTGCCACCAACTTGTGTG-GGTTT
130 CTTTGAGAACTAGAAAATGCCACCAACTTGTGCGAGCTTT
* **
617156 TAAAAGGCGTCCTACTCTTTGAGGACTGAAAACTGCCACCGTCTTGTGTGGGCTTTGAAAA-GCG
1 TAAAA-GCGTCCTGCTCTTTGAGGACTGAAAACTGCCACCAACTTGTGTGGGCTTTGAAAAGGCG
*
617220 CCCTGCTCTTTGAGGACA
65 TCCTGCTCTTTGAGGACA
617238 AAAAGGCAAA
Statistics
Matches: 213, Mismatches: 29, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
164 13 0.06
165 95 0.45
166 4 0.02
168 2 0.01
169 2 0.01
171 47 0.22
173 1 0.00
177 41 0.19
178 8 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (169 bp):
TAAAAGCGTCCTGCTCTTTGAGGACTGAAAACTGCCACCAACTTGTGTGGGCTTTGAAAAGGCGT
CCTGCTCTTTGAGGACAGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGAGAGCATCCTGCTC
TTTGAGAACTAGAAAATGCCACCAACTTGTGCGAGCTTT
Found at i:617320 original size:55 final size:54
Alignment explanation
Indices: 617255--617439 Score: 280
Period size: 55 Copynumber: 3.4 Consensus size: 54
617245 AAAAGGAGAG
617255 AGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AGCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
617310 AGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AGCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * * *
617365 GGCGTCCTGCTTTTTGAGGACTGAAAGGTGCCCCCAACTTGTGTGGGCTTTGAAA
1 AGCGTCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAA
* *
617420 AGTGCCCTGCTCTTTGAGGA
1 AGCGTCCTGCTCTTTGAGGA
617440 AAAAAAGGCG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
54 3 0.03
55 116 0.97
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (54 bp):
AGCGTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:617392 original size:149 final size:149
Alignment explanation
Indices: 617107--617385 Score: 443
Period size: 149 Copynumber: 1.9 Consensus size: 149
617097 GCTTTGAAAG
* * *
617107 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGCGTCCTACT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTACT
**
617172 CTTTGAGGACTGAAAACTGCCACCGTCTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGGAC
66 CTTTGAGGACTGAAAACTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGGAC
617237 AAAAAGGCAAAAGGAGAGA
131 AAAAAGGCAAAAGGAGAGA
*
617256 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTACT
** * * *
617321 CTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTTTTTGAGGA
66 CTTTGAGGACTGAAAACTGCCACCAACTTGTGTGGGCTTTGAAAA-GCGCCCTGCTCTTTGAGGA
617385 C
130 C
617386 TGAAAGGTGC
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
148 4 0.03
149 114 0.97
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (149 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTACT
CTTTGAGGACTGAAAACTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGGAC
AAAAAGGCAAAAGGAGAGA
Found at i:617408 original size:204 final size:204
Alignment explanation
Indices: 617054--617631 Score: 881
Period size: 204 Copynumber: 2.8 Consensus size: 204
617044 TTTAAAAGGT
* * * * *
617054 GTCCTGCTTTTTGAGGAC-AGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 GTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTC
* * *
617118 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGCGTCCTACTCTTTGAGGACT
65 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACT
* ** *
617183 GAAAACTGCCACCGTCTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGGACAAAAAGGCAAA
130 GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGGAAAAAAAGGCAAA
*
617248 AGGAGAGAGC
195 AGGAGAGAAC
617258 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
617323 TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACTG
66 TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACTG
* * * *
617388 AAAGGTGCCCCCAACTTGTGTGGGCTTTGAAAAGTGCCCTGCTCTTTGAGGAAAAAAAGGCGAAA
131 AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGGAAAAAAAGGCAAAA
617453 GGAGAGAAC
196 GGAGAGAAC
617462 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
* * * *
617527 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCCGCTTTTTGA
66 TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTTTTTGA
617592 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
125 GGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
617632 GAAAAGGCAT
Statistics
Matches: 343, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
204 284 0.83
205 3 0.01
210 29 0.08
211 27 0.08
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (204 bp):
GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCCTGCTCT
TTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTTTTTGAGGACTG
AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCGCCCTGCTCTTTGAGGAAAAAAAGGCAAAA
GGAGAGAAC
Found at i:617618 original size:62 final size:61
Alignment explanation
Indices: 617463--617666 Score: 289
Period size: 62 Copynumber: 3.4 Consensus size: 61
617453 GGAGAGAACG
* *
617463 TCCTGCTCTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTT--A--AAAA-GCG
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCA
*
617518 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGGCA
* *
617579 TCCCGCTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGGCA
617641 TCCTGCTCTTTGAGGACT-GAAAAGTG
1 TCCTGCTCTTTGAGGACTAGAAAAGTG
617667 GAAGGAGAAG
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
55 42 0.32
56 2 0.02
58 1 0.01
60 4 0.03
61 31 0.23
62 52 0.39
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGGCA
Found at i:618644 original size:10 final size:10
Alignment explanation
Indices: 618641--618705 Score: 89
Period size: 10 Copynumber: 6.4 Consensus size: 10
618631 TTTTTCTTTG
618641 TTTTGTTTTT
1 TTTTGTTTTT
618651 TTTTG--TTT
1 TTTTGTTTTT
618659 TTTTGTTTTT
1 TTTTGTTTTT
618669 TTTTGTTTCTT
1 TTTTGTTT-TT
618680 TTTTGCTTTTGT
1 TTTTG-TTTT-T
618692 TTTTGTTTTT
1 TTTTGTTTTT
618702 TTTT
1 TTTT
618706 TTAGAAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.16
10 21 0.42
11 12 0.24
12 9 0.18
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:618650 original size:1 final size:1
Alignment explanation
Indices: 618630--618707 Score: 57
Period size: 1 Copynumber: 78.0 Consensus size: 1
618620 CTTTTCTCTC
* * * * * * * ** *
618630 TTTTTTCTTTGTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTTGTTTCTTTTTTGCTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
618695 TGTTTTTTTTTTT
1 TTTTTTTTTTTTT
618708 AGAAGAGAAG
Statistics
Matches: 56, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:618667 original size:23 final size:22
Alignment explanation
Indices: 618630--618707 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
618620 CTTTTCTCTC
*
618630 TTTTTTCTTTGTTTTGTTTTTT
1 TTTTTTTTTTGTTTTGTTTTTT
*
618652 TTTGTTTTTTTGTTTT-TTTTTG
1 TTT-TTTTTTTGTTTTGTTTTTT
*
618674 TTTCTTTTTTGCTTTTGTTTTTGT
1 TTTTTTTTTTG-TTTTGTTTTT-T
618698 TTTTTTTTTT
1 TTTTTTTTTT
618708 AGAAGAGAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
21 7 0.15
22 15 0.32
23 16 0.34
24 9 0.19
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (22 bp):
TTTTTTTTTTGTTTTGTTTTTT
Found at i:618674 original size:33 final size:34
Alignment explanation
Indices: 618630--618707 Score: 99
Period size: 35 Copynumber: 2.3 Consensus size: 34
618620 CTTTTCTCTC
*
618630 TTTTTTCTTTGTTT-TGTTTTT-TTTTGTTTTT-T
1 TTTTTTTTTTGTTTCT-TTTTTCTTTTGTTTTTGT
618662 TGTTTTTTTTTGTTTCTTTTTTGCTTTTGTTTTTGT
1 T-TTTTTTTTTGTTTCTTTTTT-CTTTTGTTTTTGT
618698 TTTTTTTTTT
1 TTTTTTTTTT
618708 AGAAGAGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 1 0.03
33 17 0.43
34 1 0.03
35 19 0.47
36 2 0.05
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (34 bp):
TTTTTTTTTTGTTTCTTTTTTCTTTTGTTTTTGT
Found at i:618707 original size:18 final size:17
Alignment explanation
Indices: 618630--618707 Score: 84
Period size: 18 Copynumber: 4.4 Consensus size: 17
618620 CTTTTCTCTC
*
618630 TTTTTTCTTTGTTTTGTTT
1 TTTTTTGTTT-TTTT-TTT
618649 TTTTTTGTTTTTTTGTTT
1 TTTTTTGTTTTTTT-TTT
*
618667 TTTTTTGTTTCTTTTTT
1 TTTTTTGTTTTTTTTTT
**
618684 GCTTTTGTTTTTGTTTTT
1 TTTTTTGTTTTT-TTTTT
618702 TTTTTT
1 TTTTTT
618708 AGAAGAGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
17 12 0.24
18 30 0.59
19 9 0.18
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTTT
Found at i:621313 original size:4 final size:4
Alignment explanation
Indices: 621306--621330 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
621296 CAAAACAAAC
621306 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
621331 CCTCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:623518 original size:79 final size:79
Alignment explanation
Indices: 623387--623567 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 79
623377 TTTTGGAGAT
** * * * *
623387 AATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGATTAGGAAATAAAATCGGGATTGG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGGGATTGC
623452 AGTATCCCCTCGGA
66 AGTATCCCCTCGGA
* * * *
623466 AATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGAAATAAAGCCGGGGTTG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTAGGAAATAAAACCGGGATTG
623530 CAGTATCCCCTCGGA
65 CAGTATCCCCTCGGA
** **
623545 GGTAACGGGGTTAAAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
623568 GATGAAATAA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 1 0.01
79 86 0.99
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGGGATTGC
AGTATCCCCTCGGA
Found at i:623639 original size:52 final size:52
Alignment explanation
Indices: 623581--623975 Score: 279
Period size: 52 Copynumber: 7.6 Consensus size: 52
623571 GAAATAAGAG
* * *
623581 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* * *
623633 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* * * * *
623684 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAG-AAATAAAACCGGG
1 -GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* *** * * ** *
623736 GTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTTGGAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* * * ** * *
623787 GTTGGAGTATCCCCTCA-GAGGTAACAGGGTTGGAGTTTTCCCGATGAAAT-AAA---GA
1 GTTGGAGTATCCCC-GATTATG-AA-A-AATTGGTGTTTT--TGA--AAATAAAATCGGA
* * *
623842 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* * * * *
623895 GTGGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATTGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* *
623947 GTTGGAATATCCCCGATTATGAACAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
623976 AGAAACTTAA
Statistics
Matches: 265, Mismatches: 57, Indels: 43
0.73 0.16 0.12
Matches are distributed among these distances:
49 4 0.02
50 7 0.03
51 85 0.32
52 105 0.40
53 34 0.13
54 2 0.01
55 7 0.03
56 14 0.05
57 1 0.00
58 2 0.01
59 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
Found at i:623935 original size:262 final size:261
Alignment explanation
Indices: 623471--623974 Score: 846
Period size: 262 Copynumber: 1.9 Consensus size: 261
623461 TCGGAAATAA
623471 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGCAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGCAGTAT
* *
623536 CCCCTCGGAGGTAACGGGGTTAAAGTATCCCCGATGAAATAAGAGGTTGGAGTATCCTCGATTGT
66 CCCCTCAGAGGTAACAGGGTTAAAGTATCCCCGATGAAATAAGAGGTTGGAGTATCCTCGATTGT
*
623601 GAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
131 GAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTGGGAGTATCCCCGATTAAAGGAAAATTGGTG
* *
623666 TTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAA
196 TTTTGAAAATAAAACCGAGGTTGGAATATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAA
623731 C
261 C
* *
623732 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGCAGTAT
** * *
623797 CCCCTCAGAGGTAACAGGGTTGGAGTTTTCCCGATGAAATAAAGAGGTTGGAGTATCCTCGATTG
66 CCCCTCAGAGGTAACAGGGTTAAAGTATCCCCGATGAAAT-AAGAGGTTGGAGTATCCTCGATTG
* *
623862 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTGGGAGTATCCCCGATTAAAGGAAAATTGGT
130 TGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTGGGAGTATCCCCGATTAAAGGAAAATTGGT
** * *
623927 GTTTTGAAAATAAAATTGGGGTTGGAATATCCCCGATTATGAACAATT
195 GTTTTGAAAATAAAACCGAGGTTGGAATATCCCCGATTATGAAAAATT
623975 GAGAAACTTA
Statistics
Matches: 225, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
261 97 0.43
262 128 0.57
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (261 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGCAGTAT
CCCCTCAGAGGTAACAGGGTTAAAGTATCCCCGATGAAATAAGAGGTTGGAGTATCCTCGATTGT
GAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTGGGAGTATCCCCGATTAAAGGAAAATTGGTG
TTTTGAAAATAAAACCGAGGTTGGAATATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAA
C
Found at i:626328 original size:21 final size:21
Alignment explanation
Indices: 626302--626342 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
626292 ACAAAGATCG
626302 ATGTATCGATACACTTCCTTA
1 ATGTATCGATACACTTCCTTA
*
626323 ATGTATCGATACATTTCCTT
1 ATGTATCGATACACTTCCTT
626343 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACACTTCCTTA
Found at i:626391 original size:19 final size:20
Alignment explanation
Indices: 626367--626420 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
626357 AGCGATACAT
*
626367 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
626386 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
626407 TGTATCGATACAAA
1 TGTATCGATACAAA
626421 TTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:626514 original size:6 final size:6
Alignment explanation
Indices: 626503--626546 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
626493 GACAAAAATG
*
626503 TATTTT TATTTT TATTTT TATTTT TATTTT TATTAT T-TTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TAT
626547 CCTTTTTGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TATTTT
Found at i:633303 original size:17 final size:16
Alignment explanation
Indices: 633277--633333 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
633267 ATTTATTTTC
633277 AAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAACA
*
633293 AAAAAACAAAAAAAA-T
1 AAAAAA-AAAAAAAACA
*
633309 AAAAAAAAACAAAACA
1 AAAAAAAAAAAAAACA
633325 AAGAAAAAA
1 AA-AAAAAA
633334 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 7 0.20
16 14 0.40
17 14 0.40
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAAAAACA
Found at i:633307 original size:27 final size:28
Alignment explanation
Indices: 633277--633333 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
633267 ATTTATTTTC
633277 AAAAAAAAAAAAAACAAAA-AAACAAAA
1 AAAAAAAAAAAAAACAAAACAAACAAAA
* *
633304 AAAATAAAAAAAAACAAAACAAAGAAAA
1 AAAAAAAAAAAAAACAAAACAAACAAAA
633332 AA
1 AA
633334 GAGAGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (28 bp):
AAAAAAAAAAAAAACAAAACAAACAAAA
Found at i:633331 original size:19 final size:19
Alignment explanation
Indices: 633277--633333 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
633267 ATTTATTTTC
*
633277 AAAAA-AAAAAAAA-ACAA
1 AAAAACAAAAAAAAGAAAA
*
633294 AAAAACAAAAAAAATAAAA
1 AAAAACAAAAAAAAGAAAA
*
633313 AAAAACAAAACAAAGAAAA
1 AAAAACAAAAAAAAGAAAA
633332 AA
1 AA
633334 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
17 5 0.14
18 8 0.23
19 22 0.63
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (19 bp):
AAAAACAAAAAAAAGAAAA
Found at i:633348 original size:1 final size:1
Alignment explanation
Indices: 633277--633333 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
633267 ATTTATTTTC
* * * * * *
633277 AAAAAAAAAAAAAACAAAAAAACAAAAAAAATAAAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
633334 GAGAGAAAAG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:634195 original size:20 final size:20
Alignment explanation
Indices: 634167--634216 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
634157 TACAGCATTA
* **
634167 TATCAATACATGACTAAATG
1 TATCGATACATGAAAAAATG
*
634187 TATCGATACTTGAAAAAATG
1 TATCGATACATGAAAAAATG
634207 TATCGATACA
1 TATCGATACA
634217 GGTCATTGGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (20 bp):
TATCGATACATGAAAAAATG
Found at i:634291 original size:32 final size:33
Alignment explanation
Indices: 634250--634312 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
634240 AGCCAAATTT
*
634250 GTATCGATACACAC-AATATGTATCGATACAAA
1 GTATCGATACACACAAAAATGTATCGATACAAA
*
634282 GTATCGATACACCCAAAAATGTATCGATACA
1 GTATCGATACACACAAAAATGTATCGATACA
634313 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (33 bp):
GTATCGATACACACAAAAATGTATCGATACAAA
Found at i:640480 original size:13 final size:13
Alignment explanation
Indices: 640462--640499 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
640452 CAGCATTCTC
*
640462 TGTATCGATACAT
1 TGTATCGATACAG
*
640475 TGTATCGATATAG
1 TGTATCGATACAG
640488 TGTATCGATACA
1 TGTATCGATACA
640500 AGGGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:640973 original size:20 final size:21
Alignment explanation
Indices: 640933--640984 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
640923 CCCCTAGGCA
*
640933 GCACCCACCAAGTCGCGACC-G
1 GCACCC-CCAAGTCGCAACCGG
*
640954 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAAGTCGCAACCGG
640975 GCAGCCCCCA
1 GCA-CCCCCA
640985 CACTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.21, C:0.50, G:0.25, T:0.04
Consensus pattern (21 bp):
GCACCCCCAAGTCGCAACCGG
Found at i:642370 original size:21 final size:22
Alignment explanation
Indices: 642330--642374 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
642320 CGAAATTGTC
642330 AAATTATTTTATTAAGGGGGAG
1 AAATTATTTTATTAAGGGGGAG
642352 AAATT-TTTTGATTAAGGGGGAG
1 AAATTATTTT-ATTAAGGGGGAG
642374 A
1 A
642375 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (22 bp):
AAATTATTTTATTAAGGGGGAG
Found at i:642970 original size:20 final size:20
Alignment explanation
Indices: 642945--642996 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
642935 GATACAGCAT
* **
642945 TGTATCAATACATGACTAAA
1 TGTATCGATACATGAAAAAA
*
642965 TGTATCGATACTTGAAAAAA
1 TGTATCGATACATGAAAAAA
642985 TGTATCGATACA
1 TGTATCGATACA
642997 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATGAAAAAA
Found at i:643071 original size:32 final size:33
Alignment explanation
Indices: 643030--643092 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
643020 AGCCAAATTT
*
643030 GTATCGATACACAC-AATATGTATCGATACAAA
1 GTATCGATACACACAAAAATGTATCGATACAAA
*
643062 GTATCGATACACCCAAAAATGTATCGATACA
1 GTATCGATACACACAAAAATGTATCGATACA
643093 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (33 bp):
GTATCGATACACACAAAAATGTATCGATACAAA
Found at i:644453 original size:55 final size:54
Alignment explanation
Indices: 644396--644934 Score: 630
Period size: 55 Copynumber: 9.5 Consensus size: 54
644386 TCCTTTCACC
644396 TTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
644449 CCTTTCAGTCCTCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
644504 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGG--A-C--GCC-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
644565 CTTTTCAGTCCTCAAAGAGCATGACACCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCA-G-GA-C--GCC-TTTCAAAGCCCACACAAGTTGGTGGCA
* *
644626 CTTTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
644681 TTTTCCAATCCTCAAAGAGCAGGGCACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
644736 TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
644791 TTTTCCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACGAGTTGGTTGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
644846 TTTTCCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCA
*
644907 TTTTCCCAGTCCTCAAAGAGTAGGACGC
1 TTTT--CAGTCCTCAAAGAGCAGGACGC
644935 TCCCTCCTTT
Statistics
Matches: 433, Mismatches: 33, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
54 10 0.02
55 262 0.61
56 2 0.00
57 1 0.00
58 1 0.00
59 1 0.00
60 4 0.01
61 127 0.29
62 25 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:644837 original size:27 final size:27
Alignment explanation
Indices: 644756--644837 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
644746 CTCAAAGAGC
644756 AGGATGCCTTTCAAAGCCCACACGAGT
1 AGGATGCCTTTCAAAGCCCACACGAGT
* * * *
644783 TGG-TGGCATTTTC-CAGTCCTCA-AAGAGT
1 AGGAT-GC-CTTTCAAAG-CC-CACACGAGT
644811 AGGATGCCTTTCAAAGCCCACACGAGT
1 AGGATGCCTTTCAAAGCCCACACGAGT
644838 TGGTTGCATT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
26 3 0.08
27 17 0.43
28 17 0.43
29 3 0.08
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (27 bp):
AGGATGCCTTTCAAAGCCCACACGAGT
Found at i:644997 original size:211 final size:215
Alignment explanation
Indices: 644400--645368 Score: 843
Period size: 211 Copynumber: 4.4 Consensus size: 215
644390 TTCACCTTTT
*
644400 AGTCCTCAAAGAGCAGGACGC---C-TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCC
1 AGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCC
* * ** *
644460 TCAAAGAGCAAGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
65 TCAAAGAGCAGGACGCC-TT---A-CCCACAC-A-TT-GTCACACTTT-CAGTCCTCAAAGAGCA
* *
644525 GGACACCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCATGA
121 GG--A---TGCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGTA-G-
* * *
644589 CACCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-T
177 GA---TGCC-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
644632 AGTCCTCAAAGAGTAGGACGC---C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCT
1 AGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
* * ** *
644693 CAAAGAGCAGGGCACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
66 CAAAGAGCAGGACGCC--TT--A-CCCACAC-A-TT-GTCACACTTT-CAGTCCTCAAAGAGCAG
* *
644758 GATGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCCTTTC
122 GATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCCTTTC
* *
644823 AAAGCCCACACGAGTTGGTTGCATTTTCC
187 AAAGCCCACACAAGTTGGTGGCATTTTCC
* *
644852 AGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCCAGT
1 AGTCCTCAAAGAGCAGGACGC--TTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CCAGT
* * *
644917 CCTCAAAGAGTAGGACG-C-T-CCCTC-C-TT-TCACCCTTT-AGTCCTCAAAGAGCAGGATGCC
63 CCTCAAAGAGCAGGACGCCTTACCCACACATTGTCACACTTTCAGTCCTCAAAGAGCAGGATGCC
* * *
644975 TTTTAAAGCCCATACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTCTT-AAAGC
128 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCCT-TTCAAAGC
645039 CCACACAAGTTGGTGGCATTTTCC
192 CCACACAAGTTGGTGGCATTTTCC
* *
645063 AGTCCTCAAAGAGCAGGACGC---C-TTTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCTT
1 AGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
* ** *
645124 TAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAGCA
66 CAAAGAGCAGGACG-C-CTT--A-CCCACAC-A-TT-GTCACACTTT--CAGTCCTCAAAGAGCA
* * *
645189 GGATGCCTCTTAAAGCCCACACAAGTTGGTGGCCTTTTCCAGTCCTCAAAGAGCAGGATGCTTTC
121 GGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATG----C
* **
645254 TCTTTGCAAAGCCTACACAAGTTGGTGGCACCTTCC
182 -CTTT-CAAAGCCCACACAAGTTGGTGGCATTTTCC
* * * * *
645290 AGTCCTCAAAGAACAGGACACCTTTCCTTTTCAAAGCCCACACGAGTTAGTGGCACTTTT-TAGT
1 AGTCCTCAAAGAGCAGGAC-GCTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGT
645354 CCTCAAAGAGCAGGA
63 CCTCAAAGAGCAGGA
645369 TGCACTTTAT
Statistics
Matches: 631, Mismatches: 63, Indels: 85
0.81 0.08 0.11
Matches are distributed among these distances:
204 19 0.03
205 30 0.05
206 1 0.00
207 1 0.00
208 1 0.00
211 119 0.19
212 6 0.01
213 6 0.01
215 2 0.00
216 2 0.00
218 6 0.01
219 8 0.01
220 43 0.07
221 72 0.11
223 1 0.00
224 1 0.00
225 9 0.01
226 71 0.11
227 68 0.11
228 1 0.00
230 1 0.00
231 3 0.00
232 113 0.18
233 43 0.07
234 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (215 bp):
AGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
CAAAGAGCAGGACGCCTTACCCACACATTGTCACACTTTCAGTCCTCAAAGAGCAGGATGCCTTT
TAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCAC
ACAAGTTGGTGGCATTTTCC
Found at i:645010 original size:156 final size:149
Alignment explanation
Indices: 644797--645246 Score: 470
Period size: 166 Copynumber: 2.9 Consensus size: 149
644787 GGCATTTTCC
* * * * *
644797 AGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACGAGTTGGTTGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
*
644862 GAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCCAGTCCTCAAAGAG
66 GAGCAAGATGC-----CTCTT-AAAGCCCACACAAGTTGGTGGCATTTT-CCAGTCCTCAAAGAG
*
644927 TAGGACGCTCCCTCCTTTCACCCTTT
124 CAGGACGCTCCCTCCTTTCACCCTTT
* *
644953 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCATACAAGTTGGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
* *
645018 GAGTAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
66 GAGCAAGATGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
* ** **
645083 CCTTTCAAAGCCCATACAAGTTGGTGGCATTTT
131 -C--T-----CCC-T-C--CTT--TCACCCTTT
* * * *
645116 CCAGTCTTTAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCCCAGTCCT
1 --AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCT
* *
645180 CAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCCTTTTCCAGTCCTCAAAGAGCAG
62 CAAAGAGCAAGATGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
645245 GA
127 GA
645247 TGCTTTCTCT
Statistics
Matches: 253, Mismatches: 23, Indels: 26
0.84 0.08 0.09
Matches are distributed among these distances:
149 21 0.08
150 28 0.11
151 4 0.02
152 1 0.00
156 67 0.26
157 3 0.01
158 1 0.00
159 1 0.00
161 2 0.01
163 5 0.02
165 42 0.17
166 78 0.31
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (149 bp):
AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAA
GAGCAAGATGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
CTCCCTCCTTTCACCCTTT
Found at i:645040 original size:376 final size:377
Alignment explanation
Indices: 644596--645301 Score: 1125
Period size: 376 Copynumber: 1.9 Consensus size: 377
644586 TGACACCTTT
***
644596 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAA
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACGCCTTTCAAA
* *
644661 GCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGGCACCTTTTAAAGCCCACACAA
66 GCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAA
* *
644726 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACGAGTTGGTGGC
131 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGC
* * *
644790 ATTTT-CCAGTCCTCAAAGAGTAGGATGCCT-TTCAAAGCCCACACGAGTTGGTTGCATTTTCCA
195 ATTTTCCCAGTCCTCAAAGAGCAGGATGCCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCCA
* * **
644853 GTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCCAGTC
259 GTCCTCAAAGAGCAAGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTC
644918 CTCAAAGAGTAGGACGCTCCCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGATG
323 CTCAAAGAGTAGGACGCTCCCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGATG
* *
644973 CCTTTT-AAAGCCCATACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGATGCCTCTT-AA
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACGCCT-TTCAA
* * *
645036 AGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACA
65 AGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACA
* *
645101 AGTTGGTGGCATTTTCCAGTCTTTAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGC
130 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGC
*
645166 ATTTTCCCAGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCCTTTTCCAG
195 ATTTTCCCAGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* *
645231 TCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCTACACAAGTTGGTGGCACCTTCCAGTCCT
260 TCCTCAAAGAGCAAGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
645296 CAAAGA
325 CAAAGA
645302 ACAGGACACC
Statistics
Matches: 301, Mismatches: 24, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
376 186 0.62
377 113 0.38
378 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (377 bp):
CCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGACGCCTTTCAAA
GCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAA
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
TTTTCCCAGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
CCTCAAAGAGCAAGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
AAAGAGTAGGACGCTCCCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGATG
Found at i:645382 original size:61 final size:56
Alignment explanation
Indices: 644953--645376 Score: 502
Period size: 55 Copynumber: 7.4 Consensus size: 56
644943 TTCACCCTTT
* *
644953 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCATACAAGTTGGTGGCAC-TTCCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
* *
645008 AGTCCTCAAAGAGTAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * *
645063 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * * *
645118 AGTCTTTAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CC
*
645174 AGTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGTTGGTGGC-CTTTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
* *
645229 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCTACACAAGTTGGTGGCAC-CTTCC
1 AGTCCTCAAAGAGCAGGATGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCACTTTTCC
* * * * *
645290 AGTCCTCAAAGAACAGGACACCTTTCCTTTTCAAAGCCCACACGAGTTAGTGGCACTTTT-T
1 AGTCCTCAAAGAGCAGG--A---TGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCC
645351 AGTCCTCAAAGAGCAGGATGCACTTT
1 AGTCCTCAAAGAGCAGGATGC-CTTT
645377 ATTTTCCTCT
Statistics
Matches: 323, Mismatches: 29, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
55 171 0.53
56 53 0.16
57 4 0.01
58 2 0.01
59 3 0.01
61 79 0.24
62 6 0.02
63 3 0.01
66 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (56 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
Found at i:645424 original size:41 final size:41
Alignment explanation
Indices: 645346--645430 Score: 109
Period size: 42 Copynumber: 2.1 Consensus size: 41
645336 TTAGTGGCAC
* * *
645346 TTTTTAGTCCTCAAAGAGCAGGATGCACTTTATTTTCCTCTT
1 TTTTTAGTCCTCAAAGAGCAAGACGCACTTCATTTTCC-CTT
* *
645388 TTTTTCGTCCTCAAAGAGCAAGACGTACTTCA-TTTCCCTT
1 TTTTTAGTCCTCAAAGAGCAAGACGCACTTCATTTTCCCTT
645428 TTT
1 TTT
645431 CCTTTATCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 6 0.16
41 5 0.13
42 27 0.71
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (41 bp):
TTTTTAGTCCTCAAAGAGCAAGACGCACTTCATTTTCCCTT
Found at i:645557 original size:40 final size:42
Alignment explanation
Indices: 645461--645558 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
645451 GACGTACTCT
* *
645461 TTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * * *
645504 TCTTCCTTGGTCCTCAAGGAGCAAGAC-CTATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
645544 TTTTCCTTTGTCCTC
1 TTTTCCTTTGTCCTC
645559 GAAAAGTGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 15 0.33
41 5 0.11
42 22 0.48
43 4 0.09
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Found at i:646260 original size:32 final size:32
Alignment explanation
Indices: 646212--646283 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
646202 ACAAATAGTA
*
646212 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCAATACATAAGTGTTGTATCGATAC
* *
646244 AATGTATCAATGCATAAGTTTTGTATCGATAC
1 AATGTATCAATACATAAGTGTTGTATCGATAC
646276 AATGTATC
1 AATGTATC
646284 GCTACAAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
AATGTATCAATACATAAGTGTTGTATCGATAC
Found at i:646346 original size:13 final size:13
Alignment explanation
Indices: 646328--646353 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
646318 CATTTTTCAA
646328 TGTATCGATACAT
1 TGTATCGATACAT
646341 TGTATCGATACAT
1 TGTATCGATACAT
646354 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:648762 original size:51 final size:52
Alignment explanation
Indices: 648707--648841 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 52
648697 TAAGTTTCTA
* * * * * *
648707 AATTTTTCATAATCGAGGG-TACTCCAACCCCGGTTTTATTTC-TAAAATACT
1 AATTTTTCACAATCG-GGGATACTCCAACCCCGATTTTATATCAAAAAACACC
* * *
648758 AATTTTCCACAATCGGGGATAC-CCTAACTCTGATTTTATATCAAAAAACACC
1 AATTTTTCACAATCGGGGATACTCC-AACCCCGATTTTATATCAAAAAACACC
*
648810 ATTTTTTCACAATCGGGGATACTCCAACCCCG
1 AATTTTTCACAATCGGGGATACTCCAACCCCG
648842 TTATTTCCGA
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
50 5 0.07
51 29 0.43
52 31 0.46
53 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATATCAAAAAACACC
Found at i:648916 original size:79 final size:78
Alignment explanation
Indices: 648816--648999 Score: 287
Period size: 79 Copynumber: 2.3 Consensus size: 78
648806 CACCATTTTT
*
648816 TCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCG
1 TCACAAT-AGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCG
648881 AAAATATTGATTTC
65 AAAATATTGATTTC
* * * *
648895 TCATAATTAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCT
1 TCACAA-TAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCG
648960 AAAATATTGATTTC
65 AAAATATTGATTTC
*
648974 TCACAATCGAGGATACTCCAACCCCG
1 TCACAATAG-GGATACTCCAACCCCG
649000 ACTTTATTCC
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
78 2 0.02
79 93 0.97
80 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (78 bp):
TCACAATAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCGA
AAATATTGATTTC
Found at i:649005 original size:51 final size:51
Alignment explanation
Indices: 648933--649047 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
648923 ATTTTCGAGG
* *
648933 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGA
1 GGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGA
*
648984 GGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGG
1 GGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGA
649035 GGATACTCCAACC
1 GGATACTCCAACC
649048 TTGTTATTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (51 bp):
GGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGA
Found at i:649005 original size:130 final size:129
Alignment explanation
Indices: 648854--649126 Score: 429
Period size: 130 Copynumber: 2.1 Consensus size: 129
648844 ATTTCCGAGG
* * *
648854 GGATACTCCAACCCCGGCTTTATTCCGAAAATATTGATTTCTCATAATTAGGGATACTCCAACCC
1 GGATACTCCAACCCCGACTTTATTCCGAAAATATTGATTTCTCACAATCAGGGATACTCCAACCC
* * *
648919 CGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGA
66 CGTTATTTCCGAGGGGATACTCCAACCCC-ACTTTATTCCTAAAATATTGATTTCTCACAATCGA
* * *
648984 GGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGACTTTATTCCGAAAATATTGATTTCTCACAATCAGGGATACTCCAACCC
* * *
649049 TGTTATTTCCGAGGGGATACTCCAACCCCATTTTATTCCTAAAATATTGATTTCTCACAATCGG
66 CGTTATTTCCGAGGGGATACTCCAACCCCACTTTATTCCTAAAATATTGATTTCTCACAATCGA
649113 GGATACTCCAACCC
1 GGATACTCCAACCC
649127 TGTTATTTTC
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
129 45 0.34
130 86 0.66
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (129 bp):
GGATACTCCAACCCCGACTTTATTCCGAAAATATTGATTTCTCACAATCAGGGATACTCCAACCC
CGTTATTTCCGAGGGGATACTCCAACCCCACTTTATTCCTAAAATATTGATTTCTCACAATCGA
Found at i:649114 original size:78 final size:79
Alignment explanation
Indices: 648984--649322 Score: 450
Period size: 79 Copynumber: 4.3 Consensus size: 79
648974 TCACAATCGA
* *
648984 GGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
649049 TGTTATTTCCGAGG
66 TGTTATTTCCGAGG
649063 GGATACTCCAACCCC-ATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
*
649127 TGTTATTTTCGAGG
66 TGTTATTTCCGAGG
* *
649141 GGATACTCCAACCCCGATTTTGTTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
* **
649206 CGTTATTTTTGAGG
66 TGTTATTTCCGAGG
* * * * * *** * **
649220 GGATACTCCAATCCTGTTTTTATT-TTCAAAACACCAATTT-TCTATAATTAGGGATACTCCAAC
1 GGATACTCCAACCCCGATTTTATTCCT-AAAATATTGATTTCTC-ACAATCGGGGATACTCCAAC
* *
649283 CTTGTTATTTCCAAGG
64 CCTGTTATTTCCGAGG
649299 GGATACTCCAACCCCGATTTTATT
1 GGATACTCCAACCCCGATTTTATT
649323 TCCAGAACAC
Statistics
Matches: 230, Mismatches: 27, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
78 78 0.34
79 152 0.66
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
TGTTATTTCCGAGG
Found at i:649134 original size:208 final size:210
Alignment explanation
Indices: 648719--649207 Score: 686
Period size: 208 Copynumber: 2.3 Consensus size: 210
648709 TTTTTCATAA
* *
648719 TCGA-GGG-TACTCCAACCCCGGTTTTATTTCTAAAATACTAATTT-TCCACAATCGGGGATAC-
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCT-CACAATCGGGGATACT
* * * *
648780 CCTAACTCTGATTTTATATCAAAAAACACCATTTTTTCACAATCGGGGATACTCCAACCCCGTTA
65 CC-AACCCCGACTTTATATCAAAAAACACCATTTTCTCACAATCGGGGATACTCCAACCCCGTTA
* * *
648845 TTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCGAAAATATTGATTTCTCATAATTAGGGATA
129 TTTCCGAGGGGATACTCCAACCCCGACTTTATTCCGAAAATATTGATTTCTCACAATCAGGGATA
648910 CTCCAACCCCGTTATTT
194 CTCCAACCCCGTTATTT
* *
648927 TCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGAGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTC
** * ** **
648992 CAACCCCGACTTTAT-TCCTAAAATATTGA-TTTCTCACAATCGGGGATACTCCAACCTTGTTAT
66 CAACCCCGACTTTATATCAAAAAACA-CCATTTTCTCACAATCGGGGATACTCCAACCCCGTTAT
* * *
649055 TTCCGAGGGGATACTCCAACCCC-ATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATAC
130 TTCCGAGGGGATACTCCAACCCCGACTTTATTCCGAAAATATTGATTTCTCACAATCAGGGATAC
*
649119 TCCAACCCTGTTATTT
195 TCCAACCCCGTTATTT
* *
649135 TCGAGGGGATACTCCAACCCCGATTTTGTTTCTAAAATATTGATTTCTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTC
649200 CAACCCCG
66 CAACCCCG
649208 TTATTTTTGA
Statistics
Matches: 250, Mismatches: 26, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
208 123 0.49
209 64 0.26
210 60 0.24
211 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (210 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTC
CAACCCCGACTTTATATCAAAAAACACCATTTTCTCACAATCGGGGATACTCCAACCCCGTTATT
TCCGAGGGGATACTCCAACCCCGACTTTATTCCGAAAATATTGATTTCTCACAATCAGGGATACT
CCAACCCCGTTATTT
Found at i:649191 original size:157 final size:158
Alignment explanation
Indices: 648984--649324 Score: 454
Period size: 157 Copynumber: 2.2 Consensus size: 158
648974 TCACAATCGA
* * *
648984 GGATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCT
1 GGATACTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
* * ***
649049 TGTTATTTCCGAGGGGATACTCCAA-CCCCATTTTATTC-CTAAAATATTGA-TTTCTCACAATC
66 CGTTATTTCCGAGGGGATACTCCAATCCCCATTTTATTCTC-AAAACACCAATTTTCT-ACAATC
* * *
649111 GGGGATACTCCAACCCTGTTATTTTCGAGG
129 AGGGATACTCCAACCCTGTTATTTCCAAGG
*
649141 GGATACTCCAACCCCGATTTTGTTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
** *** * * *
649206 CGTTATTTTTGAGGGGATACTCCAATCCTGTTTTTATTTTCAAAACACCAATTTTCTATAATTAG
66 CGTTATTTCCGAGGGGATACTCCAATCCCCATTTTATTCTCAAAACACCAATTTTCTACAATCAG
*
649271 GGATACTCCAACCTTGTTATTTCCAAGG
131 GGATACTCCAACCCTGTTATTTCCAAGG
649299 GGATACTCCAACCCCGATTTTATTTC
1 GGATACTCCAACCCCGATTTTATTTC
649325 CAGAACACCG
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
157 83 0.52
158 70 0.44
159 6 0.04
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (158 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
CGTTATTTCCGAGGGGATACTCCAATCCCCATTTTATTCTCAAAACACCAATTTTCTACAATCAG
GGATACTCCAACCCTGTTATTTCCAAGG
Found at i:650692 original size:20 final size:20
Alignment explanation
Indices: 650650--650703 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
650640 TTCTATAATT
* * *
650650 TGTATTGATACAATAAGTTAA
1 TGTATCGATAC-ATAAATGAA
650671 TGTATCGATACATAAATGAA
1 TGTATCGATACATAAATGAA
650691 TGTATCGATACAT
1 TGTATCGATACAT
650704 GCTTGTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATAAATGAA
Found at i:653369 original size:79 final size:79
Alignment explanation
Indices: 653173--653414 Score: 258
Period size: 79 Copynumber: 3.1 Consensus size: 79
653163 TCAAGAAGGG
* ** *
653173 TACTCCAACCCCATTTTTACTTCTAAAACACCACATTTTTCATCTCTGGGGATACTCCAACCCCA
1 TACTCCAATCCCATTTTTACTTCTAAAACATTACATTTTTCATCT-TTGGGATACTCCAACCCCA
* *
653238 CCATCTCTGTGGGGA
65 CAATCTCTGAGGGGA
* * * *
653253 TACTCCAATCCCATTTTTACTTCT-AAAC-TGTCACATTTTCCATCTTTGGGATGCTTCAATCCC
1 TACTCCAATCCCATTTTTACTTCTAAAACAT-T-ACATTTTTCATCTTTGGGATACTCCAACCCC
*
653316 ACAAT-TTTGGAGGGGA
64 ACAATCTCT-GAGGGGA
* * * * *
653332 TACTCCATTCCTATTTTTACTTCTAAAACATTGCATTTTTCATCTCTGGGGATACTCTAACCCCA
1 TACTCCAATCCCATTTTTACTTCTAAAACATTACATTTTTCATCT-TTGGGATACTCCAACCCCA
*
653397 C-ATCTCTGAGGGAA
65 CAATCTCTGAGGGGA
653411 TACT
1 TACT
653415 TTTTCTCTAA
Statistics
Matches: 133, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
78 2 0.02
79 73 0.55
80 57 0.43
81 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.35
Consensus pattern (79 bp):
TACTCCAATCCCATTTTTACTTCTAAAACATTACATTTTTCATCTTTGGGATACTCCAACCCCAC
AATCTCTGAGGGGA
Found at i:661564 original size:20 final size:20
Alignment explanation
Indices: 661539--661594 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
661529 ACTGCCAAGG
661539 AAATGTATAGATACATTCAT
1 AAATGTATAGATACATTCAT
* *
661559 AAATGTATTGATACATTGAT
1 AAATGTATAGATACATTCAT
* * *
661579 CATTGTATCGATACAT
1 AAATGTATAGATACAT
661595 CTGGGTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (20 bp):
AAATGTATAGATACATTCAT
Found at i:665815 original size:132 final size:130
Alignment explanation
Indices: 665663--665902 Score: 293
Period size: 132 Copynumber: 1.8 Consensus size: 130
665653 AAATCACCAC
* * * * ** * *
665663 ATTTTTCATGTCTAGGGATACT-CAAGCCTTGTTTTTACTTCTAAAATGCCATATTTTTCATCGC
1 ATTTTTCATCTCTAGGGATACTCCAA-CCCTATTTTTACTTCCAAAACACCAAAATTTTCATCGC
* * *
665727 TAGGGATACTCTAAGCCCACCATCTCTGAGAGGATACTCTAGCCCCGTTTTTACTTCTAAAATGT
65 T-GGGATACTCAAACCCCA-CATCTCTGAGAGGATACTCTAACCCCGTTTTTACTTCTAAAATGT
665792 TGT
128 TGT
* *
665795 ATTTTTCATCTCTAGTGATACTCCAACCCTATTTTTACTTCCAAAACACCAAAATTTTCATCTCT
1 ATTTTTCATCTCTAGGGATACTCCAACCCTATTTTTACTTCCAAAACACCAAAATTTTCATCGCT
* * * *
665860 GGGATACTGAAACCCCACATCTTTGAGGGGGTACTCTAACCCC
66 GGGATACTCAAACCCCACATCTCTGAGAGGATACTCTAACCCC
665903 AATTTTCATT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
130 22 0.24
131 14 0.16
132 51 0.57
133 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (130 bp):
ATTTTTCATCTCTAGGGATACTCCAACCCTATTTTTACTTCCAAAACACCAAAATTTTCATCGCT
GGGATACTCAAACCCCACATCTCTGAGAGGATACTCTAACCCCGTTTTTACTTCTAAAATGTTGT
Found at i:667405 original size:19 final size:19
Alignment explanation
Indices: 667378--667420 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
667368 ATAAAAAATT
667378 AAAAA-TCAAAGAA-ATCAA
1 AAAAATTCAAA-AAGATCAA
667396 AAAAATTCAAAAAGATCAA
1 AAAAATTCAAAAAGATCAA
667415 AAAAAT
1 AAAAAT
667421 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAATTCAAAAAGATCAA
Found at i:667407 original size:10 final size:9
Alignment explanation
Indices: 667378--667420 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
667368 ATAAAAAATT
667378 AAAAATCAA
1 AAAAATCAA
*
667387 AGAAATCAA
1 AAAAATCAA
667396 AAAAATTCAA
1 AAAAA-TCAA
*
667406 AAAGATCAA
1 AAAAATCAA
667415 AAAAAT
1 AAAAAT
667421 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (9 bp):
AAAAATCAA
Found at i:667427 original size:11 final size:11
Alignment explanation
Indices: 667413--667451 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
667403 CAAAAAGATC
667413 AAAAAAATAAT
1 AAAAAAATAAT
667424 AAAAAAATAAT
1 AAAAAAATAAT
667435 AAAAAAATAAT
1 AAAAAAATAAT
667446 AAAAAA
1 AAAAAA
667452 TATGATGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:667612 original size:15 final size:15
Alignment explanation
Indices: 667594--667630 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
667584 GGGGGATAGT
667594 AATGAAATGGACA-GC
1 AATGAAATGG-CATGC
667609 AATGAAATGGCATGC
1 AATGAAATGGCATGC
667624 AATGAAA
1 AATGAAA
667631 GGAAGAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.49, C:0.11, G:0.24, T:0.16
Consensus pattern (15 bp):
AATGAAATGGCATGC
Found at i:669351 original size:79 final size:79
Alignment explanation
Indices: 669219--669388 Score: 207
Period size: 79 Copynumber: 2.2 Consensus size: 79
669209 TCCATCATCG
* * * * * * *
669219 GGGATACTCTAATCTCACTATTTCTGAGGGGATACTCCAACCTCGGTTCTATTTCCATAATATCG
1 GGGATACTCCAATCCCACTATTTCTGAAGGGATACTCAAACCTCGATTCTATTTCCAAAATACCG
669284 ATTTTTCACAATCA
66 ATTTTTCACAATCA
** * **
669298 GGGATACTCCAATCCCGTTATTTCTGAAGGGATACTCAAACC-CAGATTTTATTTTTAAAATACC
1 GGGATACTCCAATCCCACTATTTCTGAAGGGATACTCAAACCTC-GATTCTATTTCCAAAATACC
*
669362 GATTTTTCACCATCA
65 GATTTTTCACAATCA
669377 GGGATACTCCAA
1 GGGATACTCCAA
669389 CCTTGGTTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 1 0.01
79 76 0.99
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAATCCCACTATTTCTGAAGGGATACTCAAACCTCGATTCTATTTCCAAAATACCG
ATTTTTCACAATCA
Found at i:678289 original size:20 final size:20
Alignment explanation
Indices: 678264--678420 Score: 80
Period size: 20 Copynumber: 7.8 Consensus size: 20
678254 TTTTCACAAT
678264 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
678284 TTGTATCGATACATTCTGGGTTTACCTA
1 TTGTATCGATACA-T-T--G-TT--C-A
* *
678312 GATGTATCGATGCATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
* *
678333 TTGTATCGATACATTGCTCC
1 TTGTATCGATACATTGTTCA
*
678353 TTTTATCGAT--A-----CA
1 TTGTATCGATACATTGTTCA
* *
678366 TTGTATCGATATATTGCTCA
1 TTGTATCGATACATTGTTCA
678386 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
678406 ATGTATCGATACATT
1 TTGTATCGATACATT
678421 CAAGCATTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 36
0.68 0.08 0.23
Matches are distributed among these distances:
13 10 0.09
15 1 0.01
18 1 0.01
19 1 0.01
20 68 0.64
21 3 0.03
22 2 0.02
23 2 0.02
24 1 0.01
25 2 0.02
27 2 0.02
28 2 0.02
29 11 0.10
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:678373 original size:33 final size:33
Alignment explanation
Indices: 678331--678400 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
678321 ATGCATTTTG
* *
678331 CATTGTATCGATACATTGCTCCTTTTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
678364 CATTGTATCGATATATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
678397 CATT
1 CATT
678401 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:680868 original size:51 final size:51
Alignment explanation
Indices: 680793--680913 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
680783 GTTATTTCCG
* * * *
680793 AGGGGATACTCTAACCCCGGTTTTATTTCTAAAATACCAATTTTCCACAAT
1 AGGGGATACGCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAAT
* * *
680844 CGGGGATACGCCAACTCCGATTTTATTTCTAAAACACCAATTTTTCACAAT
1 AGGGGATACGCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAAT
* *
680895 AGGGGATACTCTAACCCCG
1 AGGGGATACGCCAACCCCG
680914 TTATTTCTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
AGGGGATACGCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAAT
Found at i:680928 original size:79 final size:79
Alignment explanation
Indices: 680845--681063 Score: 232
Period size: 77 Copynumber: 2.8 Consensus size: 79
680835 TTCCACAATC
* * *
680845 GGGGATACGCCAA-CTCCGATTTTATTTCTAAAACACCAATTTTTCACAATAGGGGATACTCTAA
1 GGGGATACTCCAACCT-CGGTTTTATTTCTAAAACACCAATTTTTCATAATAGGGGATACTCTAA
680909 CCCCGTTATTTCTAA
65 CCCCGTTATTTCTAA
* ** * * *
680924 GGGGATACTTCAACCTCGGCCTTATTTCT-AAATACCGATTTTT-ATAATCA-GGGATACTCTAT
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTTCATAAT-AGGGGATACTCTAA
* * *
680986 CTCTGTTATTTCTGA
65 CCCCGTTATTTCTAA
* * * *
681001 GGGGATACTCCAACCTCGGTTTTATTTCCAGAACA-CAGATTTTCCATAATCGGGGATACTCTA
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCA-ATTTTTCATAATAGGGGATACTCTA
681064 GCCTCGTTGT
Statistics
Matches: 113, Mismatches: 21, Indels: 12
0.77 0.14 0.08
Matches are distributed among these distances:
77 53 0.47
78 21 0.19
79 37 0.33
80 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTTTTCATAATAGGGGATACTCTAAC
CCCGTTATTTCTAA
Found at i:685974 original size:27 final size:28
Alignment explanation
Indices: 685926--685987 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
685916 AGCAAACTTG
* *
685926 TTGTCAAGAAATTTTCGCCAAGAAATGT
1 TTGTCAAGAAATCTTCACCAAGAAATGT
*
685954 TTGTCAAGAAA-CTTCATCAAGAAATGT
1 TTGTCAAGAAATCTTCACCAAGAAATGT
685981 TTGTCAA
1 TTGTCAA
685988 CACGAATCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (28 bp):
TTGTCAAGAAATCTTCACCAAGAAATGT
Found at i:686064 original size:28 final size:28
Alignment explanation
Indices: 686013--686069 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
686003 AAAGCTCACT
686013 AGTCAGTGGCACCTCTTTGAAGTCCACA
1 AGTCAGTGGCACCTCTTTGAAGTCCACA
* *
686041 AGTCAGTGGCATCT-TTTCGTAGTCCACA
1 AGTCAGTGGCACCTCTTT-GAAGTCCACA
686069 A
1 A
686070 TCAATGACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (28 bp):
AGTCAGTGGCACCTCTTTGAAGTCCACA
Found at i:686296 original size:32 final size:32
Alignment explanation
Indices: 686251--686333 Score: 139
Period size: 32 Copynumber: 2.6 Consensus size: 32
686241 CTAGTGGAGA
686251 AACCTTCTCTAAAGCCCACACAAGTTGGTGGC
1 AACCTTCTCTAAAGCCCACACAAGTTGGTGGC
* *
686283 AACTTTCTCTAAAGCCCATACAAGTTGGTGGC
1 AACCTTCTCTAAAGCCCACACAAGTTGGTGGC
*
686315 AACCTTCTCCAAAGCCCAC
1 AACCTTCTCTAAAGCCCAC
686334 GAGTCGGTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.23
Consensus pattern (32 bp):
AACCTTCTCTAAAGCCCACACAAGTTGGTGGC
Found at i:686366 original size:28 final size:29
Alignment explanation
Indices: 686251--687441 Score: 690
Period size: 28 Copynumber: 41.7 Consensus size: 29
686241 CTAGTGGAGA
* **
686251 AACCTTCTCTAAAGCCCACACAAGTTGGTGGC
1 AACCTTTTC-AAAG-CC-CACAAGTCAGTGGC
**
686283 AA-CTTTCTCTAAAGCCCATACAAGTTGGTGGC
1 AACCTTT-TC-AAAGCCC--ACAAGTCAGTGGC
* * *
686315 AACCTTCTCCAAAGCCCACGAGTCGGTGGC
1 AACCTT-TTCAAAGCCCACAAGTCAGTGGC
* * *
686345 -ACCTTTTCCAAGCCCGCAAGTCAGTGAC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
686373 AACCTTTT-AAAGCCCACAAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
*
686401 AACCTTTT-AAAGCCCACGAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686429 -ACCTTTTCAAAGCTCACCAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * * *
686457 -ACCCTTTCTAAGCCCATAACTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * * ** *
686485 ATCCTTCT-AATGCCCATGAGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
** * *
686513 GTCCTTCT-AAAGCCCACGAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686541 -ACCTTTTCAAAGCCCATAAGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *** *
686569 ACCCTTTT-AAAGCCCATGTGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
686597 ACCCTTTT-AAAGCCCACGAGTCAATGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
686625 -ACCCTTTCAAAGCCCACGAGTCAATGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
686653 -ACCCTTCCAAAGCCCATAAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
** * *
686681 -ACCCATTCAAAGCCCACATGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* ** * **
686709 ATCCACTT-AAGGCCCACAAGTCAGT-TA
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686736 AATCCTTTT-AAAGCCCACGAGTTAGTGGC
1 AA-CCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686765 -ACCTTTTCAAAGCCCACCAGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686793 AACC-TTTCTAAGCCCACAAGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * ** *
686821 ATCC-TTTCAATGCCCATGAGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686849 ATCC-TTCCAAAGCCCACAAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686877 -A-CTCATTCAAACCCCACAAGTCAGTGGC
1 AACCT-TTTCAAAGCCCACAAGTCAGTGGC
* *
686905 -A-CTCGTTCAAAGCCCACAAGTTAGTGGC
1 AACCT-TTTCAAAGCCCACAAGTCAGTGGC
** **
686933 ATTCGCTT-AAAGCCCACAAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
686961 ATCCTTTT-AAAGCCTACAAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * * * *
686989 -ATCATTTCAAAGCACACAAGTAATTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* *
687017 -ATCTTTTCAAAGCCCACAAGTCAGCGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * ** *
687045 -GCCCTTTCAAAGCCCATGAGTTAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
687073 -ACCTTTTCAAAGCCCACGACTCAGTGAC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * * * **
687101 -ATCATTTCAAAAGCCTATAAGTCAGTTAC
1 AACCTTTTC-AAAGCCCACAAGTCAGTGGC
* * * *
687130 -ACCCTTTCAAAGCCCATAAGTCACTAGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * * *
687158 ATCC-TTTCAAAACCCACAGGTCAGTGCC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* * *
687186 ATCC-TTTCAAAAAGCCTACAAGTCAATGGC
1 AACCTTTTC--AAAGCCCACAAGTCAGTGGC
* * *
687216 ATCC-TTTCAAAGGCCTACAAGTCAATGGC
1 AACCTTTTCAAA-GCCCACAAGTCAGTGGC
* *
687245 ATCC-TTTCAAAGCCTACAAGTCAGTGGC
1 AACCTTTTCAAAGCCCACAAGTCAGTGGC
* **
687273 ATCC-TTTCAAAAGTACACAAG-CTAGTGGC
1 AACCTTTTC-AAAGCCCACAAGTC-AGTGGC
**
687302 AACCCTTTT-AAAGCCCATGAGTCAGTGGC
1 AA-CCTTTTCAAAGCCCACAAGTCAGTGGC
* **
687331 ACCCTTTT-AAAGCCCACACAAGTTGGTGGC
1 AACCTTTTCAAAG-CC-CACAAGTCAGTGGC
* *
687361 -AGC-TTTCTAAAGCCCACACAAG-CTGGTGGC
1 AACCTTTTC-AAAG-CC-CACAAGTC-AGTGGC
*
687391 AACCTTTATCAAAGCCCACACAAGTCGGTGGC
1 AACCTTT-TCAAAG-CC-CACAAGTCAGTGGC
687423 AACCCTTTT-AAAGCCCACA
1 AA-CCTTTTCAAAGCCCACA
687442 TAACCCTTCT
Statistics
Matches: 949, Mismatches: 169, Indels: 85
0.79 0.14 0.07
Matches are distributed among these distances:
26 1 0.00
27 28 0.03
28 646 0.68
29 120 0.13
30 71 0.07
31 14 0.01
32 56 0.06
33 12 0.01
34 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (29 bp):
AACCTTTTCAAAGCCCACAAGTCAGTGGC
Found at i:686451 original size:84 final size:84
Alignment explanation
Indices: 686269--687440 Score: 769
Period size: 84 Copynumber: 13.7 Consensus size: 84
686259 CTAAAGCCCA
** * **
686269 CACAAGTTGGTGGCAACTTTCTCTAAAGCCCATACAAGTTGGTGGCAACCTTCTCCAAAGCCCAC
1 CACAAGTCAGTGGCAACCTT-T-TAAAGCCC--ACAAGTCAGTGGCAACCTT-T-CAAAGCCCAC
* *
686334 GAGTCGGTGGCACCTTTTCCAAGCC
60 GAGTCAGTGGCACCTTTTCAAAGCC
* * *
686359 CGCAAGTCAGTGACAACCTTTTAAAGCCCACAAGTCAGTGGCAACCTTTTAAAGCCCACGAGTCA
1 CACAAGTCAGTGGCAACCTTTTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGAGTCA
*
686424 GTGGCACCTTTTCAAAGCT
66 GTGGCACCTTTTCAAAGCC
* * * * * * *
686443 CACCAGTCAGTGGCACCCTTTCT-AAGCCCATAACTCAGTGGCATCC-TTCTAATGCCCATGAGT
1 CACAAGTCAGTGGCAACCTTT-TAAAGCCCACAAGTCAGTGGCAACCTTTC-AAAGCCCACGAGT
* * *
686506 TAGTGGCGTCCTTCT-AAAGCC
64 CAGTGGC-ACCTTTTCAAAGCC
* * * * * * * *
686527 CACGAGTCAGTGGC-ACCTTTTCAAAGCCCATAAGTTAGTGGCACCCTTTTAAAGCCCATGTGTT
1 CACAAGTCAGTGGCAACCTTTT-AAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGAGTC
686591 AGTGGCACCCTTTT-AAAGCC
65 AGTGGCA-CCTTTTCAAAGCC
* * * * * * * * **
686611 CACGAGTCAATGGCACCCTTTCAAAGCCCACGAGTCAATGGCACCCTTCCAAAGCCCATAAGTCA
1 CACAAGTCAGTGGCAACCTTTTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGAGTCA
**
686676 GTGGCACCCATTCAAAGCC
66 GTGGCACCTTTTCAAAGCC
* * * ** * ** * *
686695 CACATGTTAGTGGCATCCACTTAAGGCCCACAAGTCAGT-TAAATCCTTTTAAAGCCCACGAGTT
1 CACAAGTCAGTGGCAACCTTTTAAAGCCCACAAGTCAGTGGCAA-CCTTTCAAAGCCCACGAGTC
686759 AGTGGCACCTTTTCAAAGCC
65 AGTGGCACCTTTTCAAAGCC
* * * * * * *
686779 CACCAGTTAGTGGCAACCTTTCT-AAGCCCACAAGTTAGTGGCATCCTTTCAATGCCCATGAGTT
1 CACAAGTCAGTGGCAACCTTT-TAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGAGTC
*
686843 AGTGGCATCC-TTCCAAAGCC
65 AGTGGCA-CCTTTTCAAAGCC
* * * * *
686863 CACAAGTCAGTGGC-ACTCATTCAAACCCCACAAGTCAGTGGC-ACTCGTTCAAAGCCCACAAGT
1 CACAAGTCAGTGGCAAC-CTTTTAAAGCCCACAAGTCAGTGGCAAC-CTTTCAAAGCCCACGAGT
* * **
686926 TAGTGGCATTCGCTT-AAAGCC
64 CAGTGGCA-CCTTTTCAAAGCC
* * * * * * *
686947 CACAAGTCAGTGGCATCCTTTTAAAGCCTACAAGTCAGTGGCATCATTTCAAAGCACACAAGTAA
1 CACAAGTCAGTGGCAACCTTTTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGAGTCA
* *
687012 TTGGCATCTTTTCAAAGCC
66 GTGGCACCTTTTCAAAGCC
* ** * ** * *
687031 CACAAGTCAGCGGCGCCCTTTCAAAGCCCATGAGTTAGTGGC-ACCTTTTCAAAGCCCACGACTC
1 CACAAGTCAGTGGCAACCTTTTAAAGCCCACAAGTCAGTGGCAACC-TTTCAAAGCCCACGAGTC
* * *
687095 AGTGACATCATTTCAAAAGCC
65 AGTGGCACCTTTTC-AAAGCC
* * ** * * * * * * *
687116 TATAAGTCAGTTACACCCTTTCAAAGCCCATAAGTCACTAGCATCCTTTCAAAACCCAC-AGGTC
1 CACAAGTCAGTGGCAACCTTTTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGA-GTC
*
687180 AGTGCCATCC-TTTCAAAAAGCC
65 AGTGGCA-CCTTTTC--AAAGCC
* * * * * * * * *
687202 TACAAGTCAATGGCATCCTTTCAAAGGCCTACAAGTCAATGGCATCCTTTCAAAGCCTACAAGTC
1 CACAAGTCAGTGGCAACCTTTTAAA-GCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGAGTC
**
687267 AGTGGCATCC-TTTCAAAAGTA
65 AGTGGCA-CCTTTTC-AAAGCC
** * * *
687288 CACAAG-CTAGTGGCAACCCTTTTAAAGCCCATGAGTCAGTGGCACCCTTTTAAAGCCCACACAA
1 CACAAGTC-AGTGGCAA-CCTTTTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAG-CC-CACGA
** *
687352 GTTGGTGGCAGC-TTTCTAAAGCCC
62 GTCAGTGGCACCTTTTC-AAAG-CC
* * *
687376 ACACAAG-CTGGTGGCAACCTTTATCAAAGCCCACACAAGTCGGTGGCAACCCTTTTAAAGCCCA
1 -CACAAGTC-AGTGGCAACCTTT-T-AAAG-CC-CACAAGTCAGTGGCAA-CCTTTCAAAGCCCA
687440 C
59 C
687441 ATAACCCTTC
Statistics
Matches: 864, Mismatches: 179, Indels: 77
0.77 0.16 0.07
Matches are distributed among these distances:
82 1 0.00
83 20 0.02
84 519 0.60
85 84 0.10
86 86 0.10
87 63 0.07
88 26 0.03
89 17 0.02
90 19 0.02
91 5 0.01
92 14 0.02
93 10 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (84 bp):
CACAAGTCAGTGGCAACCTTTTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACGAGTCA
GTGGCACCTTTTCAAAGCC
Found at i:687372 original size:30 final size:30
Alignment explanation
Indices: 687287--687441 Score: 154
Period size: 30 Copynumber: 5.1 Consensus size: 30
687277 TTTCAAAAGT
* *
687287 ACACAAGCTAGTGGCAACCCTTTTAAAG-CC
1 ACACAAGTTGGTGGCAA-CCTTTTAAAGCCC
** ** *
687317 -CATGAGTCAGTGGCACCCTTTTAAAGCCC
1 ACACAAGTTGGTGGCAACCTTTTAAAGCCC
*
687346 ACACAAGTTGGTGGC-AGCTTTCTAAAGCCC
1 ACACAAGTTGGTGGCAACCTTT-TAAAGCCC
*
687376 ACACAAGCTGGTGGCAACCTTTATCAAAGCCC
1 ACACAAGTTGGTGGCAACCTTT-T-AAAGCCC
*
687408 ACACAAGTCGGTGGCAACCCTTTTAAAGCCC
1 ACACAAGTTGGTGGCAA-CCTTTTAAAGCCC
687439 ACA
1 ACA
687442 TAACCCTTCT
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
28 10 0.10
29 17 0.17
30 32 0.31
31 16 0.16
32 23 0.22
33 5 0.05
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (30 bp):
ACACAAGTTGGTGGCAACCTTTTAAAGCCC
Found at i:687411 original size:62 final size:61
Alignment explanation
Indices: 687297--687441 Score: 165
Period size: 62 Copynumber: 2.4 Consensus size: 61
687287 ACACAAGCTA
** * * *
687297 GTGGCAACCCTTTTAAAG-CC-CATGAG-TCAGTGGCACCCTTTTAAAGCCCACACAAGTTG
1 GTGGCAACCCTTTTAAAGCCCACACAAGCT-GGTGGCAACCTTTTAAAGCCCACACAAGTCG
*
687356 GTGGC-A-GCTTTCTAAAGCCCACACAAGCTGGTGGCAACCTTTATCAAAGCCCACACAAGTCG
1 GTGGCAACCCTTT-TAAAGCCCACACAAGCTGGTGGCAACCTTT-T-AAAGCCCACACAAGTCG
687418 GTGGCAACCCTTTTAAAGCCCACA
1 GTGGCAACCCTTTTAAAGCCCACA
687442 TAACCCTTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
57 4 0.06
58 6 0.08
59 7 0.10
60 15 0.21
61 2 0.03
62 21 0.30
63 12 0.17
64 4 0.06
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (61 bp):
GTGGCAACCCTTTTAAAGCCCACACAAGCTGGTGGCAACCTTTTAAAGCCCACACAAGTCG
Found at i:687690 original size:121 final size:119
Alignment explanation
Indices: 687451--687701 Score: 317
Period size: 121 Copynumber: 2.1 Consensus size: 119
687441 ATAACCCTTC
* * **
687451 TAAGCCCAATGTCGTTGGCCTTGAATCAACACATTGGCACTTGTTAAATCTTCATCTTTAAGTTC
1 TAAGCCCGATGTCGTTGGCCTTGAATCAACAAATTGGCACTTGTTAAATCTTCATCTTTAAGCCC
* * *
687516 AGTATCGTTGGCCTTGAATCAGCATAGTGGCACCTTTATCAGTTTTCTCATCTT
66 AATATCGCTGACCTTGAATCAGCATAGTGGCACCTTTATCAGTTTTCTCATCTT
* * * * *
687570 TAAGCCCGATGTCGTTGGTCTTGAATTAACAAATTGGTACTT-TTCAAGTCTTCTTTCTTTGAAG
1 TAAGCCCGATGTCGTTGGCCTTGAATCAACAAATTGGCACTTGTT-AAATCTTC-ATCTTT-AAG
* *
687634 CCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATC-GTTCTTCTTATCTT
63 CCCAATATCGCTGACCTTGAATCAGCATAGTGGCACCTTTATCAGTT-TTCTCATCTT
687691 TCAAGCCCGAT
1 T-AAGCCCGAT
687702 ATCACTGACC
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
118 2 0.02
119 44 0.39
120 8 0.07
121 50 0.44
122 9 0.08
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (119 bp):
TAAGCCCGATGTCGTTGGCCTTGAATCAACAAATTGGCACTTGTTAAATCTTCATCTTTAAGCCC
AATATCGCTGACCTTGAATCAGCATAGTGGCACCTTTATCAGTTTTCTCATCTT
Found at i:687704 original size:62 final size:62
Alignment explanation
Indices: 687518--687756 Score: 213
Period size: 62 Copynumber: 3.9 Consensus size: 62
687508 TTAAGTTCAG
* * * *
687518 TATCGTTGGCCTTGAATCAGCATAGTGGCACCTTTATCAGTT-TTCTCATCTTTAAGCCCGA
1 TATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCAGTTCTTCTTATCTTTAAGCCCGA
* * ** * * * * *
687579 TGTCGTTGGTCTTGAATTAACAAATTGGTA-CTTT-TCAAG-TCTTCTT-TCTTTGAAGCCCAA
1 TATCGCTGACCTTGAATCAGCATATTGGCACCTTTATC-AGTTCTTCTTATCTTT-AAGCCCGA
687639 TATCGCTGACCTTGAATCAGCATATTGGCACCTTTATC-GTTCTTCTTATCTTTCAAGCCCGA
1 TATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCAGTTCTTCTTATCTTT-AAGCCCGA
* * * ** * **
687701 TATCACTGACCGTGAATTAGCATAACGGCACCTTTATTA-TTCTTCACATCTTTAAG
1 TATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCAGTTCTTCTTATCTTTAAG
687757 TCCAAAGTCA
Statistics
Matches: 143, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
59 8 0.06
60 40 0.28
61 37 0.26
62 58 0.41
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (62 bp):
TATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCAGTTCTTCTTATCTTTAAGCCCGA
Found at i:688024 original size:85 final size:84
Alignment explanation
Indices: 687858--688040 Score: 217
Period size: 85 Copynumber: 2.2 Consensus size: 84
687848 CCTGGAGATT
* * * *
687858 TTCTTACCCTTGTTGACCTGTCGACTTTGTCCTCGGTCAACCATTCCTCTATTTGTTTACCTGTC
1 TTCTTACCCTAGGTGACCTGTCGACTTTGTCCTCGGTCAACCATTCCCCTATTTGTTTACCTATC
* *
687923 GACTTTGTCCCTAGTAAAC
66 GACCTTGTCCCCAGTAAAC
* * *
687942 TTCTTACTCCTAGGTGACTTGTCGGCTTTGT-CTCTGGTCAACCA-TCCCCATCTTTGTTTACCT
1 TTCTTAC-CCTAGGTGACCTGTCGACTTTGTCCTC-GGTCAACCATTCCCC-TATTTGTTTACCT
* *
688005 ATCGGCCTTGTCCCCAGTAAGC
63 ATCGACCTTGTCCCCAGTAAAC
688027 TTCTTACCTCTAGG
1 TTCTTACC-CTAGG
688041 GTTACCAATT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
84 15 0.18
85 69 0.82
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.39
Consensus pattern (84 bp):
TTCTTACCCTAGGTGACCTGTCGACTTTGTCCTCGGTCAACCATTCCCCTATTTGTTTACCTATC
GACCTTGTCCCCAGTAAAC
Found at i:688579 original size:14 final size:14
Alignment explanation
Indices: 688560--688586 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
688550 AAGATCAAAA
688560 AATAAAAAAATAAT
1 AATAAAAAAATAAT
688574 AATAAAAAAATAA
1 AATAAAAAAATAA
688587 AAAATGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AATAAAAAAATAAT
Found at i:690484 original size:79 final size:79
Alignment explanation
Indices: 690340--690603 Score: 268
Period size: 79 Copynumber: 3.3 Consensus size: 79
690330 CTGAAACACC
* * * **
690340 GATTTTCCACCATTAGGGATACTTCAAT-CTCATTATTTTTGAGGGGATACTCCAA-CCTCGGTT
1 GATTTTCCACAATCAGGGATACTCCAATCCT-ATTATTTTCAAGGGGATACTCCAACCCT-GGTT
* *
690403 TTATTTTCATAACATT
64 TTATTTTCAAAATATT
* * *
690419 GATTTTCCACAATCAAGGATACTCCAATCCTATTATTTTCAAGGGGATACTCTAACCCTGATTTT
1 GATTTTCCACAATCAGGGATACTCCAATCCTATTATTTTCAAGGGGATACTCCAACCCTGGTTTT
690484 A-TTTCAAAAATATT
66 ATTTTC-AAAATATT
* * * * ** *
690498 AATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTCCGAA-GGGATACTCCAACCCTGGTTT
1 GATTTTCCACAATCAGGGATACTCCAATCCTATTATTTTC-AAGGGGATACTCCAACCCTGGTTT
690562 T-TTTTCCAAAATATT
65 TATTTT-CAAAATATT
* * *
690577 GGTTTTTCACAATCGGGGATACTCCAA
1 GATTTTCCACAATCAGGGATACTCCAA
690604 CCTTGCTTTT
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
78 4 0.03
79 143 0.92
80 8 0.05
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (79 bp):
GATTTTCCACAATCAGGGATACTCCAATCCTATTATTTTCAAGGGGATACTCCAACCCTGGTTTT
ATTTTCAAAATATT
Found at i:698365 original size:140 final size:143
Alignment explanation
Indices: 698126--698590 Score: 396
Period size: 144 Copynumber: 3.3 Consensus size: 143
698116 AAAGTGCACC
* * *
698126 TTTAGGAT-GGTT-ATCCTTCTCGAGTCCTTTAGGGGTTACTGACATG---TCAAGATGAAAGTA
1 TTTAGGATAGGTTCATCCTTCTAGAGTCCTTTA-GGGTTACTGAGATGCTTTCAAGATGAAGGTA
* * * *
698186 ATCTTTAAGGGC-ATTTTGATAA-TTTTCTTAGAGCCAAGTCTTA-GTCA-TCAT-AATGCTTTT
65 ATCCTTAA-AGCTATTTTGGTAAGTTTTCTTAGAACCAAGTCTTAGGT-AGTCATGAATGCTTTT
* *
698246 ATGCTAAATACATACA
128 ATACTAAAGACATACA
* *
698262 TTTAGGATAGGTTCATTCTTCTAAAGTCCTTTAGGGTTACTGAGATGCTTTCAAGATGAAGGTAA
1 TTTAGGATAGGTTCATCCTTCTAGAGTCCTTTAGGGTTACTGAGATGCTTTCAAGATGAAGGTAA
** *
698327 TCCTTAAAGCTATTTTGGTAAGTTTT-TTAGAATTAAGTCTTAGGTAGTCATCGGGATGCTTTTA
66 TCCTTAAAGCTATTTTGGTAAGTTTTCTTAGAACCAAGTCTTAGGTAGTCAT--GAATGCTTTTA
*** *
698391 TACTAAAGGTGTACC
129 TACTAAAGACATACA
* * * * * * *
698406 TTTAGGACAGGTGCATCCTTTTAGAGTCCTTTAAGGTCA-TCGGGATGCTTTCAAGATGTAGGTA
1 TTTAGGATAGGTTCATCCTTCTAGAGTCCTTTAGGGTTACT-GAGATGCTTTCAAGATGAAGGTA
* * * * * * * * *
698470 GTCCCTAAAGGTATTTTTGTAAGTTTCCTTAAAATCGAGTCTTAGGTAGTCACTGGGATGCTTTT
65 ATCCTTAAAGCTATTTTGGTAAGTTTTCTTAGAACCAAGTCTTAGGTAGTCA-T-GAATGCTTTT
* *** *
698535 ATGCTAAAGGTGTACC
128 ATACTAAAGACATACA
* * *
698551 TTTAGGATAGGTTAATCTTTCTAGAGTCCTTTAGAGTTAC
1 TTTAGGATAGGTTCATCCTTCTAGAGTCCTTTAGGGTTAC
698591 CAAGATACTT
Statistics
Matches: 269, Mismatches: 44, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
136 8 0.03
137 17 0.06
138 16 0.06
139 2 0.01
140 43 0.16
141 10 0.04
143 1 0.00
144 93 0.35
145 78 0.29
146 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (143 bp):
TTTAGGATAGGTTCATCCTTCTAGAGTCCTTTAGGGTTACTGAGATGCTTTCAAGATGAAGGTAA
TCCTTAAAGCTATTTTGGTAAGTTTTCTTAGAACCAAGTCTTAGGTAGTCATGAATGCTTTTATA
CTAAAGACATACA
Found at i:698435 original size:144 final size:145
Alignment explanation
Indices: 698262--698603 Score: 424
Period size: 145 Copynumber: 2.4 Consensus size: 145
698252 AATACATACA
* *
698262 TTTAGGATAGGTTCATTCTTCTAAAGTCCTTTAGGGTTACT-GAGATGCTTTCAAGATGAAGGTA
1 TTTAGGATAGGTTCA-TCTTTTAGAGTCCTTTAGGGTTACTCGAGATGCTTTCAAGATGAAGGTA
* * * *
698326 ATCCTTAAAGCTATTTTGGTAAGTTT-TTTAGAATTAAGTCTTAGGTAGTCA-TCGGGATGCTTT
65 ATCCCTAAAGCTATTTTGGTAAGTTTCCTTAAAATCAAGTCTTAGGTAGTCACT-GGGATGCTTT
698389 TATACTAAAGGTGTACC
129 TATACTAAAGGTGTACC
* * * * * *
698406 TTTAGGACAGGTGCATCCTTTTAGAGTCCTTTAAGGTCA-TCGGGATGCTTTCAAGATGTAGGTA
1 TTTAGGATAGGTTCAT-CTTTTAGAGTCCTTTAGGGTTACTCGAGATGCTTTCAAGATGAAGGTA
* * * *
698470 GTCCCTAAAGGTATTTTTGTAAGTTTCCTTAAAATCGAGTCTTAGGTAGTCACTGGGATGCTTTT
65 ATCCCTAAAGCTATTTTGGTAAGTTTCCTTAAAATCAAGTCTTAGGTAGTCACTGGGATGCTTTT
*
698535 ATGCTAAAGGTGTACC
130 ATACTAAAGGTGTACC
* * * *
698551 TTTAGGATAGGTTAATCTTTCTAGAGTCCTTTAGAGTTAC-CAAGATACTTTCA
1 TTTAGGATAGGTTCATCTTT-TAGAGTCCTTTAGGGTTACTCGAGATGCTTTCA
698604 TGTTAAAGGA
Statistics
Matches: 166, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
143 2 0.01
144 78 0.47
145 85 0.51
146 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (145 bp):
TTTAGGATAGGTTCATCTTTTAGAGTCCTTTAGGGTTACTCGAGATGCTTTCAAGATGAAGGTAA
TCCCTAAAGCTATTTTGGTAAGTTTCCTTAAAATCAAGTCTTAGGTAGTCACTGGGATGCTTTTA
TACTAAAGGTGTACC
Found at i:698602 original size:145 final size:144
Alignment explanation
Indices: 698238--698603 Score: 425
Period size: 144 Copynumber: 2.5 Consensus size: 144
698228 AGTCATCATA
**** * * *
698238 ATGCTTTTATGCTAAATACATACATTTAGGATAGGTTCAT-TCTTCTAAAGTCCTTTAGGGTTAC
1 ATGCTTTTATGCTAAAGGTGTACCTTTAGGATAGGTTCATCT-TTCTAGAGTCCTTTAGAGTTAC
* * * * *
698302 TGAGATGCTTTCAAGATGAAGGTAATCCTTAAAGCTATTTTGGTAAGTTTTTTAGAATTAAGTCT
65 CGAGATGCTTTCAAGATGAAGGTAATCCCTAAAGCTATTTTGGTAAGTTTCTTAAAATCAAGTCT
698367 TAGGTAGTCATCGGG
130 TAGGTAGTCATCGGG
* * * *
698382 ATGCTTTTATACTAAAGGTGTACCTTTAGGACAGGTGCATCCTTT-TAGAGTCCTTTA-AGGTCA
1 ATGCTTTTATGCTAAAGGTGTACCTTTAGGATAGGTTCAT-CTTTCTAGAGTCCTTTAGA-GTTA
* * * * * * *
698445 TCGGGATGCTTTCAAGATGTAGGTAGTCCCTAAAGGTATTTTTGTAAGTTTCCTTAAAATCGAGT
64 CCGAGATGCTTTCAAGATGAAGGTAATCCCTAAAGCTATTTTGGTAAGTTT-CTTAAAATCAAGT
698510 CTTAGGTAGTCA-CTGGG
128 CTTAGGTAGTCATC-GGG
*
698527 ATGCTTTTATGCTAAAGGTGTACCTTTAGGATAGGTTAATCTTTCTAGAGTCCTTTAGAGTTACC
1 ATGCTTTTATGCTAAAGGTGTACCTTTAGGATAGGTTCATCTTTCTAGAGTCCTTTAGAGTTACC
* *
698592 AAGATACTTTCA
66 GAGATGCTTTCA
698604 TGTTAAAGGA
Statistics
Matches: 183, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
144 94 0.51
145 87 0.48
146 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (144 bp):
ATGCTTTTATGCTAAAGGTGTACCTTTAGGATAGGTTCATCTTTCTAGAGTCCTTTAGAGTTACC
GAGATGCTTTCAAGATGAAGGTAATCCCTAAAGCTATTTTGGTAAGTTTCTTAAAATCAAGTCTT
AGGTAGTCATCGGG
Found at i:701909 original size:19 final size:19
Alignment explanation
Indices: 701881--701923 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
701871 AAATTTCCTC
701881 TAAAAAG-AAACAAAAAAA
1 TAAAAAGAAAACAAAAAAA
*
701899 TAAAAATGAAAAGAAAAAAA
1 TAAAAA-GAAAACAAAAAAA
*
701919 GAAAA
1 TAAAA
701924 CAAGCATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 1 0.05
20 14 0.67
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (19 bp):
TAAAAAGAAAACAAAAAAA
Found at i:703435 original size:88 final size:88
Alignment explanation
Indices: 703251--703589 Score: 366
Period size: 88 Copynumber: 3.9 Consensus size: 88
703241 TGACACTGGC
* * * * * ***
703251 ATTTGCACCATTTTATATGCATTTG-CATCTTTATTGATGCTTTGCAATTCCATCTTTTCACATA
1 ATTTGCATCATTTCATATGCATTTGCCA-CTTTATTGATGC-TTGCATTTACATCGTTTCATGCA
* *
703315 CATCTGCACTTTCA-ATGACATTAGC
64 CATCTACACTTT-AGATGACATTAGT
* * * * * *
703340 ATTTGCATCATTTAATATGTATTTGCCACCTTATTGATGCTTACACTTGCATCGTTTCATGCACA
1 ATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTACATCGTTTCATGCACA
703405 TCTACACTTTAGATGACATTAGT
66 TCTACACTTTAGATGACATTAGT
* *
703428 ATTTGCAT-ATTTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTATATCATTTC-T-CAC
1 ATTTGCATCA-TTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTACATCGTTTCATGCAC
* *
703490 ATCTACA-TTGTAGATAACATTGGT
65 ATCTACACTT-TAGATGACATTAGT
** * **
703514 ATTTGCATTTTTTCATATGCATTTGCCACTTTATTGATACTTGCATTTACATCGTTTCATGTGCA
1 ATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTACATCGTTTCATGCACA
703579 TCTACACTTTA
66 TCTACACTTTA
703590 AAAGAAATTC
Statistics
Matches: 213, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
85 2 0.01
86 75 0.35
87 4 0.02
88 95 0.45
89 35 0.16
90 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (88 bp):
ATTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTACATCGTTTCATGCACA
TCTACACTTTAGATGACATTAGT
Found at i:704065 original size:29 final size:29
Alignment explanation
Indices: 704005--704076 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
703995 TCTAGTTTTA
* *
704005 TCTAGGCCATTTCCTTGAGTTTTGGTTTTG
1 TCTAAGCCATTT-CTTGAGTTTTGGTTCTG
*
704035 TCTAAGCCATTTCTTGA-TTTCTTGTTCTG
1 TCTAAGCCATTTCTTGAGTTT-TGGTTCTG
704064 TCT-AGACCATTTC
1 TCTAAG-CCATTTC
704077 ATTAAATCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.14
29 21 0.57
30 11 0.30
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.49
Consensus pattern (29 bp):
TCTAAGCCATTTCTTGAGTTTTGGTTCTG
Found at i:704191 original size:60 final size:59
Alignment explanation
Indices: 704127--704284 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 59
704117 TCATTTAGTT
* *
704127 GAGTCTTGGTTTTGGCCAAGTCATTGTTTAGGTTTTTAGTTTTATTCAGGCCATTTCACC
1 GAGTCTTGGTTTTGCCCAAGTCATTGTTTAGGTTTTTAGTTTCATT-AGGCCATTTCACC
** * * *
704187 GAGTCTAT-GTTTCACCCAAGTCATTATTT-GGTTTTTGGTTTCATTAGGCCATTTCATC
1 GAGTCT-TGGTTTTGCCCAAGTCATTGTTTAGGTTTTTAGTTTCATTAGGCCATTTCACC
* *
704245 AAGTCTTGGTTTTGCCCAAGTC-TTGTTGTAGGTTTGTAGT
1 GAGTCTTGGTTTTGCCCAAGTCATTGTT-TAGGTTTTTAGT
704285 GCCATCATTC
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
57 5 0.06
58 30 0.37
59 22 0.27
60 23 0.28
61 1 0.01
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (59 bp):
GAGTCTTGGTTTTGCCCAAGTCATTGTTTAGGTTTTTAGTTTCATTAGGCCATTTCACC
Found at i:704542 original size:76 final size:76
Alignment explanation
Indices: 704450--704639 Score: 200
Period size: 76 Copynumber: 2.5 Consensus size: 76
704440 TAGGAGATTT
* * * * *
704450 TAGAAGCCATATATTCCCCATCATGTTTTTCTTTTTCAACTTATTATCAGTTTGTTTTGGCAGTT
1 TAGAAACCATATATTCCCCATCATGTTCTTCTTTTTCAACTTATTATCAATTTATCTTGGCAGTT
*
704515 AATGAAAATTG
66 AATGAAAATTA
* ** * * * *
704526 TAGAAACCATATATTCCTCATCACATTCTTCTTTTTTAGCTTCTTATCAATTTATCTTGGCTGTT
1 TAGAAACCATATATTCCCCATCATGTTCTTCTTTTTCAACTTATTATCAATTTATCTTGGCAGTT
* *
704591 GATGGAAATTA
66 AATGAAAATTA
* * * * *
704602 AAGAAATCACATATTTCCAATCATGTTCTTCTTTTTCA
1 TAGAAACCATATATTCCCCATCATGTTCTTCTTTTTCA
704640 GCTCTTAGAT
Statistics
Matches: 90, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
76 90 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (76 bp):
TAGAAACCATATATTCCCCATCATGTTCTTCTTTTTCAACTTATTATCAATTTATCTTGGCAGTT
AATGAAAATTA
Found at i:705195 original size:41 final size:41
Alignment explanation
Indices: 705089--705271 Score: 160
Period size: 41 Copynumber: 4.5 Consensus size: 41
705079 TCTGGTTATT
* * *
705089 TTTTCACTTTTTA-TTGACTTGTCGGTTTCATCCCAA--CAGC
1 TTTTCAC-TCTTAGTTGACTTGTTGGTTTCAT-CCAAGTCAAC
* * *** *
705129 TTCTCACTCTTTA-TTGACTTATTGGTTTCATCTTGGTTAAC
1 TTTTCACTC-TTAGTTGACTTGTTGGTTTCATCCAAGTCAAC
* *
705170 TTTTCATTCTTAGTTGACTTGTTGGTTTCATCCAAGTCAAT
1 TTTTCACTCTTAGTTGACTTGTTGGTTTCATCCAAGTCAAC
* *
705211 TTTTCACTCTTAGTTGACTTGTTGATTTCATTCCGA-TCAAC
1 TTTTCACTCTTAGTTGACTTGTTGGTTTCA-TCCAAGTCAAC
* *
705252 CTTTCACTTTTAGTTGACTT
1 TTTTCACTCTTAGTTGACTT
705272 TACCAGTTTC
Statistics
Matches: 115, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.02
40 28 0.24
41 81 0.70
42 4 0.03
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.49
Consensus pattern (41 bp):
TTTTCACTCTTAGTTGACTTGTTGGTTTCATCCAAGTCAAC
Found at i:705412 original size:67 final size:67
Alignment explanation
Indices: 705329--705515 Score: 211
Period size: 67 Copynumber: 2.8 Consensus size: 67
705319 CCTTTTTTGG
705329 TTGACTTTATCGATTTTGTCCTAGTCAACCTACTTTTTGACTTAGGTTTTACCTTGGTCTCCTTT
1 TTGACTTTATCGATTTTGTCCTAGTCAACCTACTTTTTGACTTAGGTTTTACCTTGGTCTCCTTT
705394 AA
66 AA
* * * * * * * ** * *
705396 TTGACTCTATCAATTTTGCCCAAGTTAA-C-ACCTTTTTTGGCTTATGTTTCGCCTTTGTCTTCT
1 TTGACTTTATCGATTTTGTCCTAGTCAACCTA-C-TTTTTGACTTAGGTTTTACCTTGGTCTCCT
*
705459 TTAG
64 TTAA
*
705463 TTGACTTTATCGATTTTGTCTTAGTCAACCT--TTTTTGACTTAGGTTTTACCTT
1 TTGACTTTATCGATTTTGTCCTAGTCAACCTACTTTTTGACTTAGGTTTTACCTT
705516 AGTCAACCTC
Statistics
Matches: 94, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
65 19 0.20
66 2 0.02
67 72 0.77
68 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.49
Consensus pattern (67 bp):
TTGACTTTATCGATTTTGTCCTAGTCAACCTACTTTTTGACTTAGGTTTTACCTTGGTCTCCTTT
AA
Found at i:705916 original size:34 final size:31
Alignment explanation
Indices: 705873--705939 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
705863 ATTTTATCGA
705873 TTTTGCCCTAGACAACACCTTTTTCAACTTAGG
1 TTTTGCCCTAGAC-A-ACCTTTTTCAACTTAGG
* **
705906 TTTTGCCCCTAGTCAACCTTTTTTTACTTAGG
1 TTTTG-CCCTAGACAACCTTTTTCAACTTAGG
705938 TT
1 TT
705940 CTGTCCTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 17 0.57
33 6 0.20
34 7 0.23
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.43
Consensus pattern (31 bp):
TTTTGCCCTAGACAACCTTTTTCAACTTAGG
Found at i:705939 original size:99 final size:99
Alignment explanation
Indices: 705805--706017 Score: 254
Period size: 99 Copynumber: 2.1 Consensus size: 99
705795 GACTTTATTA
* * *
705805 GTTTTGCCCTAGTCAACTTCCTTTTTTATTTAGGTTTTATCCTAGTCACCTTTAGTCAATTTTAT
1 GTTTTGCCCTAGTCAAC-TCCTTTTTTACTTAGGTTCTATCCTAGTCACCTTTAGTCAACTTTAT
705870 C-GATTTTGCCCTAGACAACA-CCTTTTTCAACTTAG
65 CAG-TTTTGCCCTAGACAACACCCTTTTT-AACTTAG
* * * * *
705905 GTTTTGCCCCTAGTCAAC-CTTTTTTTACTTAGGTTCTGTCCTGGTCTCCTTTAGTTAACTTTAT
1 GTTTTG-CCCTAGTCAACTCCTTTTTTACTTAGGTTCTATCCTAGTCACCTTTAGTCAACTTTAT
* *
705969 CAGTTTTGCCCTAGTCAACACCCTTTTTGACTTAG
65 CAGTTTTGCCCTAGACAACACCCTTTTTAACTTAG
*
706004 GCTTTT-TCCTAGTC
1 G-TTTTGCCCTAGTC
706018 TCCTTTAGTT
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
98 7 0.07
99 62 0.63
100 18 0.18
101 11 0.11
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (99 bp):
GTTTTGCCCTAGTCAACTCCTTTTTTACTTAGGTTCTATCCTAGTCACCTTTAGTCAACTTTATC
AGTTTTGCCCTAGACAACACCCTTTTTAACTTAG
Found at i:706019 original size:67 final size:67
Alignment explanation
Indices: 705905--706080 Score: 171
Period size: 67 Copynumber: 2.6 Consensus size: 67
705895 TTCAACTTAG
* * * **
705905 GTTTTGCCCCTAGTC-A-ACCTTTTTTTACTTAGGTTCTGTCCTGGTCTCCTTTAGTTAACTTTA
1 GTTTTG-CCCTAGTCAACACCCTTTTTGACTTAGGTTCTGTCCTAGTCTCCTTTAGTTAACAATA
705968 TCA
65 TCA
* *
705971 GTTTTGCCCTAGTCAACACCCTTTTTGACTTAGGCTT-TTTCCTAGTCTCCTTTAGTTGACAATA
1 GTTTTGCCCTAGTCAACACCCTTTTTGACTTAGG-TTCTGTCCTAGTCTCCTTTAGTTAACAATA
**
706035 TTG
65 TCA
** * * *
706038 GTTTCACCCTAGTCAACA-CCTTTTTCAACTTATGTTTTGTCCT
1 GTTTTGCCCTAGTCAACACCCTTTTT-GACTTAGGTTCTGTCCT
706081 CATCACCTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
65 8 0.09
66 16 0.18
67 65 0.71
68 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.13, T:0.45
Consensus pattern (67 bp):
GTTTTGCCCTAGTCAACACCCTTTTTGACTTAGGTTCTGTCCTAGTCTCCTTTAGTTAACAATAT
CA
Found at i:706246 original size:230 final size:232
Alignment explanation
Indices: 705694--706255 Score: 579
Period size: 230 Copynumber: 2.4 Consensus size: 232
705684 GGTTAACACT
* *
705694 TTTTTTGACTTAGGTTTTGCCCTAGTCTCCTTTAGTTGACTTTGTCAGTTTCGCCTTAGTC-AC-
1 TTTTTTG-CTTAGGTTTTGCCCTAGTCTCCTTTAGTTGACTTTATCAGTTTCGCCCTAGTCAACA
** * * ** ** **
705757 CC-TTTTC-AAAATAGGCTTTGTCTTGGTCTTTTTTAGTTGACTTTATTAGTTTTGCCCTAGTCA
65 CCTTTTTCGACTA-AGGCTTTGTCCTAGTCTCCTTTAGTTGACAATATTAGTTTCACCCTAGTCA
* * * *
705820 ACTTCCTTTTTTATTTAGGTTTTATCCTAGTCACCTTTAGTCAATTTTATCGATTTTGCCCTAGA
129 ACTACCTTTTTAACTTAGGTTTTATCCTAGTCACCTTTAGTCAATTTTATCGATTTCGCCCTAGA
** *
705885 CAACACCTTTTTCAACTTAGGTTTTGCCCCTAGTCAACC
194 CAACACCTTTTTCAACTTAGGTTCCGCCCCTAGCCAACC
* * * * * *
705924 TTTTTTTACTTAGGTTCTGTCCTGGTCTCCTTTAGTTAACTTTATCAGTTTTGCCCTAGTCAACA
1 -TTTTTTGCTTAGGTTTTGCCCTAGTCTCCTTTAGTTGACTTTATCAGTTTCGCCCTAGTCAACA
* * *
705989 CCCTTTTT-GACTTAGGCTTTTTCCTAGTCTCCTTTAGTTGACAATATTGGTTTCACCCTAGTCA
65 -CCTTTTTCGACTAAGGCTTTGTCCTAGTCTCCTTTAGTTGACAATATTAGTTTCACCCTAGTCA
* * * ** * *
706053 AC-ACCTTTTTCAACTTATGTTTTGTCCTCA-TCACCTTTGGTTGATTTTAT-TACTTTCGTCCT
129 ACTACCTTTTT-AACTTAGGTTTTATCCT-AGTCACCTTTAGTCAATTTTATCGA-TTTCGCCCT
* ** * *
706115 A-ACCAACATCTTTTTTGACTTAGGTTCCG-CCTTAGCCATCC
191 AGA-CAACACCTTTTTCAACTTAGGTTCCGCCCCTAGCCAACC
* * *
706156 -TTTTTGCTTAGGTTTTGCCCTAGTCTCTTTTAGTTGACTTTATTAGTTTCACCCTAGTCAACAC
1 TTTTTTGCTTAGGTTTTGCCCTAGTCTCCTTTAGTTGACTTTATCAGTTTCGCCCTAGTCAACAC
*
706220 CTTTTTCGACTAAGGCTTTGTCCTAGTTTCCTTTAG
66 CTTTTTCGACTAAGGCTTTGTCCTAGTCTCCTTTAG
706256 GTTTTGTTAT
Statistics
Matches: 269, Mismatches: 52, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
229 7 0.03
230 126 0.47
231 8 0.03
232 18 0.07
233 104 0.39
234 6 0.02
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (232 bp):
TTTTTTGCTTAGGTTTTGCCCTAGTCTCCTTTAGTTGACTTTATCAGTTTCGCCCTAGTCAACAC
CTTTTTCGACTAAGGCTTTGTCCTAGTCTCCTTTAGTTGACAATATTAGTTTCACCCTAGTCAAC
TACCTTTTTAACTTAGGTTTTATCCTAGTCACCTTTAGTCAATTTTATCGATTTCGCCCTAGACA
ACACCTTTTTCAACTTAGGTTCCGCCCCTAGCCAACC
Found at i:706305 original size:28 final size:30
Alignment explanation
Indices: 706252--706311 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
706242 CTAGTTTCCT
* *
706252 TTAGGTTTTGTTATGTATGAAAATTT-TAA
1 TTAGGATTTGTTATCTATGAAAATTTCTAA
706281 TTAGGATTT-TTATCTA-GAAATATTTCTAA
1 TTAGGATTTGTTATCTATGAAA-ATTTCTAA
706310 TT
1 TT
706312 TTCAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 10 0.37
29 13 0.48
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (30 bp):
TTAGGATTTGTTATCTATGAAAATTTCTAA
Found at i:708118 original size:143 final size:143
Alignment explanation
Indices: 707900--708285 Score: 354
Period size: 143 Copynumber: 2.7 Consensus size: 143
707890 CCTTAAGGAT
* * * * * ** *
707900 ATTTTGGTAATTT-TATTAGAACCAAGTTTTAGGTAATCACCG-GGTCAATTTTATTCCAAAGGT
1 ATTTTAGTAATTTCT-TTAGAACCAACTCTTAGGTAGTCACCGAGAT-TGTTTTATGCCAAAGGT
* * * * *
707963 GTTTCTTCAGGATAGGGTAATCTTTCTAGAGTCTTTTA-GGTCAC-CGAGATGCTTTCAAAACGA
64 GTATCTTTAGGATAGGGTAATCCTTCTAGAGTCCTTTAGGGTCACACG-GATGCTTTCAAAACAA
* *
708026 AGATAGTTCTTAAAGGG
128 AGATA-TCCATAAAGGG
* * *
708043 ATTTTAGTAATTTCATTT-GAACCCACTCTTAGGTAGTCACTGGGA-TGCTTTTATGCCAAAGGT
1 ATTTTAGTAATTTC-TTTAGAACCAACTCTTAGGTAGTCACCGAGATTG-TTTTATGCCAAAGGT
* * * * **
708106 GTATCTTTAGGATAGGTTTATCCTTCTAGAGTCCTTTAGGGTTACATGGATGCTTTCATGACAAA
64 GTATCTTTAGGATAGGGTAATCCTTCTAGAGTCCTTTAGGGTCACACGGATGCTTTCAAAACAAA
* *
708171 GGTATCCATAAAGGT
129 GATATCCATAAAGGG
* * *
708186 ATTTTGGTAATTTCTTTAGAACCAAGTTTTAGGTAGTCACCGAGATTGTTTTATGCCAAAGGTGT
1 ATTTTAGTAATTTCTTTAGAACCAACTCTTAGGTAGTCACCGAGATTGTTTTATGCCAAAGGTGT
* * * * *
708251 A-CTTTTAAGATAGGTTCATCCTTCCACAGTCCTTT
66 ATC-TTTAGGATAGGGTAATCCTTCTAGAGTCCTTT
708286 TGAGTTATCG
Statistics
Matches: 199, Mismatches: 35, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
142 4 0.02
143 166 0.83
144 27 0.14
145 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (143 bp):
ATTTTAGTAATTTCTTTAGAACCAACTCTTAGGTAGTCACCGAGATTGTTTTATGCCAAAGGTGT
ATCTTTAGGATAGGGTAATCCTTCTAGAGTCCTTTAGGGTCACACGGATGCTTTCAAAACAAAGA
TATCCATAAAGGG
Found at i:708305 original size:143 final size:143
Alignment explanation
Indices: 708036--708417 Score: 395
Period size: 143 Copynumber: 2.7 Consensus size: 143
708026 AGATAGTTCT
* * * * *
708036 TAAAGGGATTTTAGTAATTTCATTT-GAACCCACTCTTAGGTAGTCACTGGGATGCTTTTATGCC
1 TAAAGGTATTTTAGTAATTTC-TTTAGAACCAAGTCTTAGGTAGTCACCGAGATGCTTTTATGCC
* * * * **
708100 AAAGGTGTA-TCTTTAGGATAGGTTTATCCTTCTAGAGTCCTTTAGGGTTACATGGATGCTTTCA
65 AAAGGTGTACT-TTTAGGATAGGTTCATCCTTCCACAGTCCTTTAGAGTTACA-GGACACTTTCA
*
708164 TGA-CAAAGGTA-TCCA
128 AGATCAAA-GTAGTCCA
* *
708179 TAAAGGTATTTTGGTAATTTCTTTAGAACCAAGTTTTAGGTAGTCACCGAGATTG-TTTTATGCC
1 TAAAGGTATTTTAGTAATTTCTTTAGAACCAAGTCTTAGGTAGTCACCGAGA-TGCTTTTATGCC
* *
708243 AAAGGTGTACTTTTAAGATAGGTTCATCCTTCCACAGTCCTTTTGAGTTATC-GAGACACTTTCA
65 AAAGGTGTACTTTTAGGATAGGTTCATCCTTCCACAGTCCTTTAGAGTTA-CAG-GACACTTTCA
** *
708307 AGATGGAAGTAGTCCC
128 AGATCAAAGTAGTCCA
* * * *
708323 TAAAGGTATTTTCA-TAATTT-TTTAAAAATCGAGTCTTAGGTAGTCGCCGA-ATGCTTTTATGC
1 TAAAGGTATTTT-AGTAATTTCTTT-AGAACCAAGTCTTAGGTAGTCACCGAGATGCTTTTATGC
* *
708385 CAAAGGTGTACATTTAGGATAAGTTCATCCTTC
64 CAAAGGTGTACTTTTAGGATAGGTTCATCCTTC
708418 TAGAGTTTTT
Statistics
Matches: 201, Mismatches: 28, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
142 6 0.03
143 147 0.73
144 48 0.24
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (143 bp):
TAAAGGTATTTTAGTAATTTCTTTAGAACCAAGTCTTAGGTAGTCACCGAGATGCTTTTATGCCA
AAGGTGTACTTTTAGGATAGGTTCATCCTTCCACAGTCCTTTAGAGTTACAGGACACTTTCAAGA
TCAAAGTAGTCCA
Found at i:708618 original size:18 final size:18
Alignment explanation
Indices: 708590--708626 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
708580 GGATGTTTTA
708590 TTAATATTTTTAATAAAAT
1 TTAATATTTTTAA-AAAAT
708609 TTAA-ATTTTTAAAAAAT
1 TTAATATTTTTAAAAAAT
708626 T
1 T
708627 AAGGCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 8 0.44
19 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATATTTTTAAAAAAT
Found at i:711463 original size:32 final size:32
Alignment explanation
Indices: 711403--711502 Score: 164
Period size: 33 Copynumber: 3.1 Consensus size: 32
711393 TTACAACAAG
* *
711403 ATAGAACATTCAATTGCTTTTTTGCATAACCAT
1 ATAGAACATTCAATTGC-ATTTTGCATAAACAT
711436 ATAGAACATTCAATTGCATTTTGCATAAACAT
1 ATAGAACATTCAATTGCATTTTGCATAAACAT
711468 ATAGAACATTCAATTGCATTTTTGCATAAACAT
1 ATAGAACATTCAATTGCA-TTTTGCATAAACAT
711501 AT
1 AT
711503 CATGCTCAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 31 0.48
33 33 0.52
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (32 bp):
ATAGAACATTCAATTGCATTTTGCATAAACAT
Found at i:716676 original size:20 final size:20
Alignment explanation
Indices: 716651--716703 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
716641 TTTGGGCACA
* *
716651 ATGTATCGATACTCTTTAC-C
1 ATGTATCGATACACTGT-CGC
716671 ATGTATCGATACACTGTCGC
1 ATGTATCGATACACTGTCGC
716691 ATGTATCGATACA
1 ATGTATCGATACA
716704 TTTCACTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACACTGTCGC
Found at i:717636 original size:42 final size:42
Alignment explanation
Indices: 717526--717622 Score: 135
Period size: 42 Copynumber: 2.4 Consensus size: 42
717516 AAATAAAAAT
* * *
717526 AATTTCTTCCCTTTTGT--AATGCTAAAATTTATTTTTCAAA
1 AATTTCTCCCCCTTTGTCAAATGCCAAAATTTATTTTTCAAA
717566 AATTTCTCCCCCTTTGTCAAATGCCAAAATTTATTTTTCAAA
1 AATTTCTCCCCCTTTGTCAAATGCCAAAATTTATTTTTCAAA
* *
717608 AGTTTCTCCCTCTTT
1 AATTTCTCCCCCTTT
717623 TTGTTATAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 15 0.30
42 35 0.70
ACGTcount: A:0.27, C:0.22, G:0.05, T:0.46
Consensus pattern (42 bp):
AATTTCTCCCCCTTTGTCAAATGCCAAAATTTATTTTTCAAA
Found at i:717838 original size:15 final size:16
Alignment explanation
Indices: 717818--717850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
717808 CTAACCCTAT
717818 GACTCA-TCATCACTA
1 GACTCATTCATCACTA
*
717833 GACTCATTCGTCACTA
1 GACTCATTCATCACTA
717849 GA
1 GA
717851 GGAAAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (16 bp):
GACTCATTCATCACTA
Found at i:725548 original size:20 final size:20
Alignment explanation
Indices: 725523--725577 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
725513 CTGCTAGTTT
*
725523 TATGTATCGATACAATTGAG
1 TATGTATCGATACAATTGAA
725543 TATGTATCGATACAA-TGAA
1 TATGTATCGATACAATTGAA
*
725562 CATGTATCGATACAAT
1 TATGTATCGATACAAT
725578 GTATCGATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (20 bp):
TATGTATCGATACAATTGAA
Found at i:725581 original size:13 final size:13
Alignment explanation
Indices: 725563--725589 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
725553 TACAATGAAC
725563 ATGTATCGATACA
1 ATGTATCGATACA
725576 ATGTATCGATACA
1 ATGTATCGATACA
725589 A
1 A
725590 AGCATAATAT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:729628 original size:22 final size:22
Alignment explanation
Indices: 729588--729629 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
729578 ATTTGCTATT
*
729588 TTTTATGTATTTTTTCATATGA
1 TTTTATGTATTTTTGCATATGA
729610 TTTTATG-ATTTTTAGCATAT
1 TTTTATGTATTTTT-GCATAT
729630 TTTACCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (22 bp):
TTTTATGTATTTTTGCATATGA
Found at i:730662 original size:157 final size:157
Alignment explanation
Indices: 730246--730761 Score: 590
Period size: 157 Copynumber: 3.3 Consensus size: 157
730236 AACTTTGATT
** * * *
730246 TTTCATGTCCAAAGTATACTCACAGGGGCATTTTCGTAATGTTTCCTAGAATTGAGTCCTAGGTT
1 TTTCATGTTGAAAGTATACCCATAGGGGCATTTTCGTAAT-TTTTCTAGAATTGAGTCCTAGGTT
* * *
730311 ATCACCAAGATGCTTTTATGTCAAAGATGGGTATTTAGGATAGGTTTATCATATTTATGATCATT
65 ATCATCGAGATGCTTTTATGCCAAAGATGGGTATTTAGGATAGGTTTATCATATTTATGATCATT
730376 TTTAAGTCCTTTAAGGTTATCAGGATAC
130 TTTAAGTCCTTTAAGGTTATCAGGATAC
* * * ***
730404 TTTCATGTTGAAGGTATACAACCATAGGGGCATTTTCATAATTTTTCTAAAACCAAGTCCTAGGT
1 TTTCATGTTGAAAGTATAC--CCATAGGGGCATTTTCGTAATTTTTCTAGAATTGAGTCCTAGGT
* * * * *
730469 TATCATTGAGATGCTTTTATGCCAAAAATGGGTATTTA-GTTAGGTTCATCTTATCTT-TGATCC
64 TATCATCGAGATGCTTTTATGCCAAAGATGGGTATTTAGGATAGGTTTATCATAT-TTATGAT-C
* * *
730532 TTTTTTAAGTCCTTTAGGGTTATCGGGATAC
127 ATTTTTAAGTCCTTTAAGGTTATCAGGATAC
* * * ** *
730563 TTTCATGTTGAAAGCATACCCATAGGAGCATTTTCGTAATTTTTCTAGAATTGAGTCTTAAATTG
1 TTTCATGTTGAAAGTATACCCATAGGGGCATTTTCGTAATTTTTCTAGAATTGAGTCCTAGGTTA
* * **
730628 TCATCGAGATGCTTTTATGCCAAAGGTAGGTATTTAGGATAGGTTTATCCCATTTATGATCATTT
66 TCATCGAGATGCTTTTATGCCAAAGATGGGTATTTAGGATAGGTTTATCATATTTATGATCATTT
* **
730693 TTAAGTCCTTAAAGGTTATCAACATAC
131 TTAAGTCCTTTAAGGTTATCAGGATAC
* * * * *
730720 TTTCACGTTGAAGGTAGA-CCATAAGGGTATTTT-GATAATTTT
1 TTTCATGTTGAAAGTATACCCATAGGGGCATTTTCG-TAATTTT
730762 ACATTAAAAC
Statistics
Matches: 296, Mismatches: 55, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
155 1 0.00
156 19 0.06
157 110 0.37
158 49 0.17
159 99 0.33
160 18 0.06
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (157 bp):
TTTCATGTTGAAAGTATACCCATAGGGGCATTTTCGTAATTTTTCTAGAATTGAGTCCTAGGTTA
TCATCGAGATGCTTTTATGCCAAAGATGGGTATTTAGGATAGGTTTATCATATTTATGATCATTT
TTAAGTCCTTTAAGGTTATCAGGATAC
Found at i:737097 original size:12 final size:12
Alignment explanation
Indices: 737082--737106 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
737072 TTGTTTATAT
737082 TACATATATGCA
1 TACATATATGCA
737094 TACATATATGCA
1 TACATATATGCA
737106 T
1 T
737107 TACTTTCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TACATATATGCA
Found at i:738959 original size:13 final size:13
Alignment explanation
Indices: 738941--738965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
738931 AGATTGCACA
738941 GTATCGATACATT
1 GTATCGATACATT
738954 GTATCGATACAT
1 GTATCGATACAT
738966 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:738978 original size:20 final size:21
Alignment explanation
Indices: 738953--739005 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
738943 ATCGATACAT
*
738953 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
738973 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
738994 TGTATCGATACA
1 TGTATCGATACA
739006 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:739083 original size:13 final size:13
Alignment explanation
Indices: 739065--739090 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
739055 TACACACAAG
739065 ATGTATCGATACA
1 ATGTATCGATACA
739078 ATGTATCGATACA
1 ATGTATCGATACA
739091 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:739107 original size:33 final size:32
Alignment explanation
Indices: 739047--739110 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
739037 CTTAACTGTT
*
739047 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
739079 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
739111 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:739903 original size:16 final size:15
Alignment explanation
Indices: 739883--739922 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
739873 AAAAAGAGAG
739883 AAAAAAAAGGGAAAA
1 AAAAAAAAGGGAAAA
* *
739898 AGAAAAAAGTGAAAA
1 AAAAAAAAGGGAAAA
739913 AAATAAAAAG
1 AAA-AAAAAG
739923 AACGAAGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (15 bp):
AAAAAAAAGGGAAAA
Found at i:739920 original size:15 final size:14
Alignment explanation
Indices: 739865--739920 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
739855 CACAATAAAA
*
739865 GAAAACAAAAAAAGA
1 GAAAA-AAAAAAAGG
*
739880 G-AGAAAAAAAAGG
1 GAAAAAAAAAAAGG
*
739893 GAAAAAGAAAAAAGT
1 GAAAAA-AAAAAAGG
739908 GAAAAAAATAAAA
1 GAAAAAAA-AAAA
739921 AGAACGAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 18 0.53
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
GAAAAAAAAAAAGG
Found at i:741259 original size:59 final size:59
Alignment explanation
Indices: 741176--741315 Score: 253
Period size: 59 Copynumber: 2.4 Consensus size: 59
741166 TTAGTTTCAC
* * *
741176 CTAAGTCATTGTGTAGGCTTCTGGTTTCATCCAAGCCATTTACATAGGTCTAATTTCTT
1 CTAAATCATTGTTTAGGTTTCTGGTTTCATCCAAGCCATTTACATAGGTCTAATTTCTT
741235 CTAAATCATTGTTTAGGTTTCTGGTTTCATCCAAGCCATTTACATAGGTCTAATTTCTT
1 CTAAATCATTGTTTAGGTTTCTGGTTTCATCCAAGCCATTTACATAGGTCTAATTTCTT
741294 CTAAATCATTGTTTAGGTTTCT
1 CTAAATCATTGTTTAGGTTTCT
741316 TTAGGATTCT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (59 bp):
CTAAATCATTGTTTAGGTTTCTGGTTTCATCCAAGCCATTTACATAGGTCTAATTTCTT
Found at i:741303 original size:29 final size:29
Alignment explanation
Indices: 741212--741303 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
741202 TCATCCAAGC
741212 CATTTACATAGGTCTAATTTCTTCTAAAT
1 CATTTACATAGGTCTAATTTCTTCTAAAT
* ** * * **
741241 CATTGT--TTAGGTTTCTGGTTTCATCCAAGC
1 CATT-TACATAGG--TCTAATTTCTTCTAAAT
741271 CATTTACATAGGTCTAATTTCTTCTAAAT
1 CATTTACATAGGTCTAATTTCTTCTAAAT
741300 CATT
1 CATT
741304 GTTTAGGTTT
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
28 4 0.09
29 20 0.45
30 16 0.36
31 4 0.09
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (29 bp):
CATTTACATAGGTCTAATTTCTTCTAAAT
Found at i:742814 original size:66 final size:67
Alignment explanation
Indices: 742744--742909 Score: 232
Period size: 66 Copynumber: 2.5 Consensus size: 67
742734 TTGACGTGAT
* *
742744 GGTTTTGCCTTGGTCACCTATTAGTTGATGTGATTA-TTTCAT-CC-TGGTCAACCTTCTTTCGA
1 GGTTTTGCCTTGGTCACCTATTAGTTGATGTGATTAGTTT--TGCCTTGGTCAACCTCCTTTCAA
742806 CTTA
64 CTTA
* *
742810 GGTTTTGCCTTGGCCACCTATTAGTTGACGTGA-TAGTTTTGCCTTGGTCAACCTCCTTTCAACT
1 GGTTTTGCCTTGGTCACCTATTAGTTGATGTGATTAGTTTTGCCTTGGTCAACCTCCTTTCAACT
742874 TA
66 TA
* *
742876 GATTTTGCCCTGGTCACCTATTAGTTGATGTGAT
1 GGTTTTGCCTTGGTCACCTATTAGTTGATGTGAT
742910 GGTTTCACCC
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 1 0.01
65 4 0.05
66 83 0.94
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (67 bp):
GGTTTTGCCTTGGTCACCTATTAGTTGATGTGATTAGTTTTGCCTTGGTCAACCTCCTTTCAACT
TA
Found at i:742911 original size:166 final size:166
Alignment explanation
Indices: 742725--743091 Score: 482
Period size: 166 Copynumber: 2.2 Consensus size: 166
742715 AGCCCTACTT
* * ** * * *
742725 ACCTATTAGTTGACGTGATGGTTTTGCCTTGGTCACCTATTAGTTGATGTGATTATTTCATCCTG
1 ACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCACCTATTAGTTGACGCAATGATTTCACCCTA
* * * * * *
742790 GTCAACCTTCTTTCGACTTAGGTTTTGCCTTGGCCACCTATTAGTTGACGTGATAGTTTTGCCTT
66 GTCAAACTCCTTTCGACTTAGGTTTTACCCTGGCCACCAATTAGTTGACGTGATAGTTTTGCCCT
*
742855 GGTCAACCTCCTTTCAACTTAGATTTTGCCCTGGTC
131 GGTCAACCTCCTTTCAACTTAGATTTCGCCCTGGTC
* ** * *
742891 ACCTATTAGTTGATGTGATGGTTTCACCCTAGTCACCTATTAGTTGACGCAATGGTTTCACCCTA
1 ACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCACCTATTAGTTGACGCAATGATTTCACCCTA
* * * *
742956 GTCAAACTCCTTTTGATTTAGGTTTTACCCTGGTCACCAATTAGTTGACGTGATGGTTTTGCCCT
66 GTCAAACTCCTTTCGACTTAGGTTTTACCCTGGCCACCAATTAGTTGACGTGATAGTTTTGCCCT
* *
743021 GGTCAACCTCCTTTCAACTTAGGTTTCGCCTTGGTC
131 GGTCAACCTCCTTTCAACTTAGATTTCGCCCTGGTC
* * *
743057 ACCTATTAATTAACGTGAGGGTTTTGCCCTGGTCA
1 ACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCA
743092 ACCTCTTTTT
Statistics
Matches: 169, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
166 169 1.00
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.39
Consensus pattern (166 bp):
ACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCACCTATTAGTTGACGCAATGATTTCACCCTA
GTCAAACTCCTTTCGACTTAGGTTTTACCCTGGCCACCAATTAGTTGACGTGATAGTTTTGCCCT
GGTCAACCTCCTTTCAACTTAGATTTCGCCCTGGTC
Found at i:742914 original size:100 final size:100
Alignment explanation
Indices: 742810--743020 Score: 242
Period size: 100 Copynumber: 2.1 Consensus size: 100
742800 TTTCGACTTA
* * ** ** * * *
742810 GGTTTTGCCTTGGCCACCTATTAGTTGACGTGATAGTTTTGCCTTGGTCAACCTCCTTTCAACTT
1 GGTTTTGCCCTAGCCACCTATTAGTTGACGCAATAGTTTCACCCTAGTCAAACTCCTTTCAACTT
* * *
742875 AGATTTTGCCCTGGTCACCTATTAGTTGATGTGAT
66 AGATTTTACCCTGGTCACCAATTAGTTGACGTGAT
** * * ** *
742910 GGTTTCACCCTAGTCACCTATTAGTTGACGCAATGGTTTCACCCTAGTCAAACTCCTTTTGATTT
1 GGTTTTGCCCTAGCCACCTATTAGTTGACGCAATAGTTTCACCCTAGTCAAACTCCTTTCAACTT
*
742975 AGGTTTTACCCTGGTCACCAATTAGTTGACGTGAT
66 AGATTTTACCCTGGTCACCAATTAGTTGACGTGAT
743010 GGTTTTGCCCT
1 GGTTTTGCCCT
743021 GGTCAACCTC
Statistics
Matches: 89, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
100 89 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.38
Consensus pattern (100 bp):
GGTTTTGCCCTAGCCACCTATTAGTTGACGCAATAGTTTCACCCTAGTCAAACTCCTTTCAACTT
AGATTTTACCCTGGTCACCAATTAGTTGACGTGAT
Found at i:743026 original size:66 final size:66
Alignment explanation
Indices: 742910--743212 Score: 311
Period size: 66 Copynumber: 4.6 Consensus size: 66
742900 TTGATGTGAT
* * ** ** * * * *
742910 GGTTTCACCCTAGTCACCTATTAGTTGACGCAATGGTTTCACCCTAGTCAAACTCCTTTTGATTT
1 GGTTTCGCCCTGGTCACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCAACCTCCTTTTAACTT
742975 A
66 A
** * *
742976 GGTTTTACCCTGGTCACCAATTAGTTGACGTGATGGTTTTGCCCTGGTCAACCTCCTTTCAACTT
1 GGTTTCGCCCTGGTCACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCAACCTCCTTTTAACTT
743041 A
66 A
* * * * * *
743042 GGTTTCGCCTTGGTCACCTATTAATTAACGTGAGGGTTTTGCCCTGGTCAACCTCTTTTTGACTT
1 GGTTTCGCCCTGGTCACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCAACCTCCTTTTAACTT
743107 A
66 A
* * * * * * *
743108 GGTTTCGTCTTGGTCGCCTATTAGTTGGCATGATGGTTTTTCCTTGGTCAACCT-CTTTTCAACT
1 GGTTTCGCCCTGGTCACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCAACCTCCTTTT-AACT
743172 TA
65 TA
* * * *
743174 AGTTTCGCCCTGATCACCTATTATTTGAAGTGATGGTTT
1 GGTTTCGCCCTGGTCACCTATTAGTTGACGTGATGGTTT
743213 CACTTTTTTC
Statistics
Matches: 194, Mismatches: 42, Indels: 2
0.82 0.18 0.01
Matches are distributed among these distances:
65 4 0.02
66 190 0.98
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.39
Consensus pattern (66 bp):
GGTTTCGCCCTGGTCACCTATTAGTTGACGTGATGGTTTTGCCCTGGTCAACCTCCTTTTAACTT
A
Found at i:743393 original size:66 final size:66
Alignment explanation
Indices: 743308--743942 Score: 596
Period size: 66 Copynumber: 9.7 Consensus size: 66
743298 TTTCTACTTA
* * ** * *
743308 GGTTTTGCCCTGGTTAACCTCCTTTCGACTTAGGTTTAACCCTGATCACCTATTAGTTCATGTGA
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTGA
743373 T
66 T
* * * *
743374 AGTTTTGCCTTAGTCAACCTCCTTTTGACTTAGGTTTCAG-CCTGGTCACCTATTAGTTGACGTG
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTC-GCCCTGGTCACCTATTAGTTGATGTG
743438 AT
65 AT
* * * * * **
743440 GGTTTTGCCCTAGTCAACCACTTTTCAACTTAGATTTCACCCTGGTCACCTATTAGTTGACATGA
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTGA
743505 T
66 T
* ** ** * * * * * * *
743506 GATTTCACTTTCGTCAACTTACTTTAG-CTTAGGTTTCGCCTTGGTCACCTATTAGTTAATGTAA
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTGA
743570 T
66 T
* *** * ** *
743571 GGTTTCGTTGTGGTCAA-CTTTTTTCGACTTAGGTTT-GCCCTCGTCACCTATTAGTTGATGTGA
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTGA
743634 T
66 T
* * * * * ** * *
743635 GGTTTTG-CCTCAATCAAACTCTTTTCAATTTAGGTTTTTCCCTGGTCGCCTATTAGTTGACGTG
1 GGTTTTGCCCT-AGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTG
743699 AT
65 AT
* * *
743701 GGTTTCTACCCTCGTCAACCTCCTTTCAACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTG
1 GGTTT-TGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTG
743766 AT
65 AT
* * * * * *
743768 GGTTTTTCCCTAGTCAACTTCCTTTCAACTTAGGTTTTGCTCTGGTCGCCTATTAGTTGATGTGA
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTGA
*
743833 A
66 T
** ** * *
743834 GGTTTTGCCCTAGTCAACCTTTTTTCGACTTAGGTTTTTCCCTGGTCTCCTATTAGTTAATGTGA
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTGA
743899 T
66 T
** * * * *
743900 GGTTTCACCTTGGTCAACCTCTTTTCGACTTAGGTTTCCCCCT
1 GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCT
743943 AATCAACCTC
Statistics
Matches: 464, Mismatches: 97, Indels: 16
0.80 0.17 0.03
Matches are distributed among these distances:
63 1 0.00
64 39 0.08
65 68 0.15
66 301 0.65
67 52 0.11
68 3 0.01
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.41
Consensus pattern (66 bp):
GGTTTTGCCCTAGTCAACCTCCTTTCGACTTAGGTTTCGCCCTGGTCACCTATTAGTTGATGTGA
T
Found at i:743587 original size:65 final size:64
Alignment explanation
Indices: 743518--743639 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
743508 TTTCACTTTC
* *
743518 GTCAACTTACTTTAG-CTTAGGTTTCGCCTTGGTCACCTATTAGTTAATGTAATGGTTTCGTTGT
1 GTCAACTT-CTTTAGACTTAGGTTT-GCCCTCGTCACCTATTAGTTAATGTAATGGTTTCGTTGT
743582 G
64 G
* * * *
743583 GTCAACTTTTTTCGACTTAGGTTTGCCCTCGTCACCTATTAGTTGATGTGATGGTTT
1 GTCAACTTCTTTAGACTTAGGTTTGCCCTCGTCACCTATTAGTTAATGTAATGGTTT
743640 TGCCTCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 33 0.66
65 17 0.34
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.43
Consensus pattern (64 bp):
GTCAACTTCTTTAGACTTAGGTTTGCCCTCGTCACCTATTAGTTAATGTAATGGTTTCGTTGTG
Found at i:744086 original size:66 final size:66
Alignment explanation
Indices: 744007--744327 Score: 292
Period size: 66 Copynumber: 4.9 Consensus size: 66
743997 ATTTTGCCTA
* * * * *
744007 GTTAATCTCCTTTCGACCTTA-GTTTCACCCTAGTTACTTATTAGTTGACATGATGGTTTCACCT
1 GTTAACCTTCTTTCGA-CTTAGGTTTCACCCTGGTTACTTATTAGTTGACGTGATGGTTTCACCC
744071 TG
65 TG
* * * ** * *
744073 GTTAACCTTCTTTCGGCTTAGGTTTCACCCCGATCGCCTATTAGTTGACGTGATGGTTTCGCCCT
1 GTTAACCTTCTTTCGACTTAGGTTTCACCCTGGTTACTTATTAGTTGACGTGATGGTTTCACCCT
744138 G
66 G
* * ** * * * *
744139 GTCAACCTTCTTTCCACTTAGGTTTCGTCGTGGTCT-CATATTAGTTAACGTCATGGTTTCACCC
1 GTTAACCTTCTTTCGACTTAGGTTTCACCCTGGT-TACTTATTAGTTGACGTGATGGTTTCACCC
744203 TG
65 TG
** * * *
744205 GTTAACC-TCTTTTCGACTTAGGTTTTTCCGTGGTTGCTTATTAGTTGACATGATGGTTTCGA-C
1 GTTAACCTTC-TTTCGACTTAGGTTTCACCCTGGTTACTTATTAGTTGACGTGATGGTTTC-ACC
*
744268 TTG
64 CTG
* * * *
744271 GTCAACCTTCTTTCGACTTAGGTTTCGCCCTGGTCA-TCTATTAGTTGATGTGATGGT
1 GTTAACCTTCTTTCGACTTAGGTTTCACCCTGGTTACT-TATTAGTTGACGTGATGGT
744328 CCTTTCGACT
Statistics
Matches: 205, Mismatches: 43, Indels: 14
0.78 0.16 0.05
Matches are distributed among these distances:
65 8 0.04
66 194 0.95
67 3 0.01
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
GTTAACCTTCTTTCGACTTAGGTTTCACCCTGGTTACTTATTAGTTGACGTGATGGTTTCACCCT
G
Done.