Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1639
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: 98589
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:2208 original size:14 final size:14
Alignment explanation
Indices: 2184--2218 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
2174 TTTAGCTTCC
2184 AAAAGAAAAAAAAAG
1 AAAA-AAAAAAAAAG
*
2199 AAAAAAAAAACAAG
1 AAAAAAAAAAAAAG
2213 AAAAAA
1 AAAAAA
2219 GAGAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:12924 original size:27 final size:27
Alignment explanation
Indices: 12886--12938 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
12876 ACATGTGTGT
12886 GCTTAATTTTCATCTCATAGGCTAATA
1 GCTTAATTTTCATCTCATAGGCTAATA
*
12913 GCTTAATTTTCATCTCATAGGTTAAT
1 GCTTAATTTTCATCTCATAGGCTAAT
12939 GGGGAACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (27 bp):
GCTTAATTTTCATCTCATAGGCTAATA
Found at i:14550 original size:20 final size:19
Alignment explanation
Indices: 14525--14583 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
14515 TACTGCCAGT
*
14525 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACA-ATG
14545 TTCATGTATCGATACAATG
1 TTCATGTATCGATACAATG
**
14564 AACATGTATCGATACAATG
1 TTCATGTATCGATACAATG
14583 T
1 T
14584 ATCAATACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:16481 original size:2 final size:2
Alignment explanation
Indices: 16476--16510 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
16466 ATCACTTTTT
16476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16511 TTCTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16959 original size:17 final size:17
Alignment explanation
Indices: 16937--16979 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
16927 ATCGGGTATG
* *
16937 AAATAATTTTTAATAAA
1 AAATAATATTAAATAAA
*
16954 AAATAAAAATTAAATAAA
1 AAAT-AATATTAAATAAA
16972 AAATAATA
1 AAATAATA
16980 GAAGTAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAATATTAAATAAA
Found at i:17674 original size:150 final size:151
Alignment explanation
Indices: 17403--17701 Score: 354
Period size: 150 Copynumber: 2.0 Consensus size: 151
17393 TTTGCAACTA
* * * * *
17403 TTTTCAAGTCTCTTAAGATCATCGGTCACTTCTAAGTCAATAGTAAATCTTAGGGATATTTTAAT
1 TTTTCAAGTCTCTTAAGATCACCGGCCACTTCTAAGTCAATAGTAAATCTTAAGAATATTTTAAC
* * ** ** *
17468 ATTTTTTTCGAAACCTAGTCTTATAAAACTACCGAGTCTGCTTCTATGCTGAAGGTAT-GAATTA
66 ATTTTCTTCGAAACCTAGTCCTATAAAACTACCGAGTCTGCTTCTACACCAAAGGTATAAAATTA
*
17532 GAAGTGAGTTTGTTTTTATCT
131 GAAGTGAGTTTGCTTTTATCT
* * * * *
17553 TTTTCAAGT-TCCTTAGGATCACCGGCCACTTCTAAGTCGATGGTAAATGTTAAGAATATTTTAG
1 TTTTCAAGTCT-CTTAAGATCACCGGCCACTTCTAAGTCAATAGTAAATCTTAAGAATATTTTAA
*
17617 CATTTTCCTT-GAAACTTAGTCCTATAAAACTACCG-GCTCTGCTTCTACACCAAAGGTATAAAA
65 CATTTT-CTTCGAAACCTAGTCCTATAAAACTACCGAG-TCTGCTTCTACACCAAAGGTATAAAA
* *
17680 TTAGCAGTGGGTTTGCTTTTAT
128 TTAGAAGTGAGTTTGCTTTTAT
17702 TCCAAGTCCT
Statistics
Matches: 124, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
149 2 0.02
150 99 0.80
151 23 0.19
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (151 bp):
TTTTCAAGTCTCTTAAGATCACCGGCCACTTCTAAGTCAATAGTAAATCTTAAGAATATTTTAAC
ATTTTCTTCGAAACCTAGTCCTATAAAACTACCGAGTCTGCTTCTACACCAAAGGTATAAAATTA
GAAGTGAGTTTGCTTTTATCT
Found at i:18832 original size:17 final size:17
Alignment explanation
Indices: 18806--18839 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18796 CGTCGTGATG
*
18806 ATGTTTACCTTGTTACT
1 ATGTTCACCTTGTTACT
18823 ATGTTCACCTTGTTACT
1 ATGTTCACCTTGTTACT
18840 GTTTCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.50
Consensus pattern (17 bp):
ATGTTCACCTTGTTACT
Found at i:20076 original size:80 final size:80
Alignment explanation
Indices: 19986--20145 Score: 216
Period size: 80 Copynumber: 2.0 Consensus size: 80
19976 AAAGATGGAG
* *
19986 AAGGATGAAAA-AGTTATACATGGATTCAAATATTTTAAAAGGCAAAATGAAAAGAAAGATAAGC
1 AAGGAAGAAAACA-TTATACATAGATTCAAATATTTTAAAAGGCAAAATGAAAAGAAAGATAAG-
20050 G-TAGATGAAAAAATGA
64 GTTAGATGAAAAAATGA
* * * * *
20066 AAGGAAGAAAACATTATACGTAGATTCAGATGTTTTAAAAGGCAAAATGAAAAGAAAGGTATGGT
1 AAGGAAGAAAACATTATACATAGATTCAAATATTTTAAAAGGCAAAATGAAAAGAAAGATAAGG-
20131 TTAGATGAAAAAATG
65 TTAGATGAAAAAATG
20146 GCAGTGAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 54 0.77
81 15 0.21
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (80 bp):
AAGGAAGAAAACATTATACATAGATTCAAATATTTTAAAAGGCAAAATGAAAAGAAAGATAAGGT
TAGATGAAAAAATGA
Found at i:26121 original size:10 final size:10
Alignment explanation
Indices: 26082--26124 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
26072 TAAATTTTCT
26082 ATTTTT-AAA
1 ATTTTTAAAA
*
26091 ATTTTTTAAA
1 ATTTTTAAAA
26101 ATTTTCTAAAA
1 ATTTT-TAAAA
*
26112 ATTTTAAAAA
1 ATTTTTAAAA
26122 ATT
1 ATT
26125 AACCGTCGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 6 0.20
10 15 0.50
11 9 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:26980 original size:165 final size:167
Alignment explanation
Indices: 26682--27045 Score: 502
Period size: 166 Copynumber: 2.2 Consensus size: 167
26672 ATTTAATCAC
* * * *
26682 TATTAAATAAATTTTCAAAAATTAATTTATTTTCATGAGTTTTAATATTTTTTCCTTGAAATTTC
1 TATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTAATATTTTTTCCTTGAAATTAC
* * * * * **
26747 CTTATTCTCGAAATATAGAGTTTTTTACTCCGTAAATGTTTTTAGGGAGATTTTTCTTGGTTTTT
66 CTTATTCTCGAAATACAGAGTTTTCTACTCCATAAATCTTTTCAGGGAGATTTTTCTTGGCATTT
* *
26812 AATTTTTAAAATT-ATAAAATATATTTATTTATTTTA
131 AATTTTTAAAATTCATAAAATAGATTTATTTATTTCA
*
26848 TATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTGA-ATTTTTTCCTTGAAA-TAC
1 TATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTAATATTTTTTCCTTGAAATTAC
* * *
26911 CTT-TGTTTCCGAAATACAGAGTTTTCTATTCCATAAATCTTTTCGGGGAGATTTTTCTTGGCAT
66 CTTAT-TCT-CGAAATACAGAGTTTTCTACTCCATAAATCTTTTCAGGGAGATTTTTCTTGGCAT
* *
26975 TTAATTTTTAAAATTCATCAAATAGATTTTTTTATTTCA
129 TTAATTTTTAAAATTCATAAAATAGATTTATTTATTTCA
*
27014 TATTAAATTATTTTTCAAAAATTCATTTATTT
1 TATTAAATTAATTTTCAAAAATTCATTTATTT
27046 TCATCAAATA
Statistics
Matches: 175, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
163 1 0.01
164 7 0.04
165 76 0.43
166 91 0.52
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (167 bp):
TATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTAATATTTTTTCCTTGAAATTAC
CTTATTCTCGAAATACAGAGTTTTCTACTCCATAAATCTTTTCAGGGAGATTTTTCTTGGCATTT
AATTTTTAAAATTCATAAAATAGATTTATTTATTTCA
Found at i:27055 original size:57 final size:57
Alignment explanation
Indices: 26988--27106 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 57
26978 ATTTTTAAAA
*
26988 TTCATCAAATAGATTTTTTTATTTCATATTAAATTA-TTTTTCAAAAATTCATTTATT
1 TTCATCAAATAGATTTGTTTATTTCATATTAAATTAGTTTTT-AAAAATTCATTTATT
27045 TTCATCAAATAGATTTGTTTATTTCATATTAAATTAGTTTTTAAAAATTCATTTATT
1 TTCATCAAATAGATTTGTTTATTTCATATTAAATTAGTTTTTAAAAATTCATTTATT
27102 TTCAT
1 TTCAT
27107 GAGTTTTTAA
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 55 0.92
58 5 0.08
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.54
Consensus pattern (57 bp):
TTCATCAAATAGATTTGTTTATTTCATATTAAATTAGTTTTTAAAAATTCATTTATT
Found at i:27244 original size:223 final size:220
Alignment explanation
Indices: 26828--27276 Score: 538
Period size: 223 Copynumber: 2.0 Consensus size: 220
26818 TAAAATTATA
* *
26828 AAATATATTTATTTATTTTATATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTGA
1 AAATAGATTTATTTATTTCATATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTGA
* *
26893 ATTTTTTCCTTGAAATACCTTTGTTTCCGAAATACAGAGTTTTCTATTCCATAAATCTTTTCGGG
66 ATTTTTTCCTTGAAATACCTTTGTTT-CGAAATACAGAGTTTTCTATTCCATAAATATTTTCAGG
** *
26958 GAGATTTTTCTTGGCATTTAATTTTTAAAATTCATCAAATAGATTTTTTTATTTCATATTAAATT
130 GAGATTTTTCTTGGCATTTAATTTTTAAAATTCATCAAATA-ATTTTTTTAACTCACATTAAATT
*
27023 ATTTTTCAAAAATTC-ATTTATTTTCAT
194 AGTTTTCAAAAATTCAATTTA-TTTCAT
* * * * *
27050 CAAATAGATTTGTTTATTTCATATTAAATTAGTTTTTAAAAATTCATTTATTTTCATGAGTTTTT
1 -AAATAGATTTATTTATTTCATATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTG
* *
27115 AATTTTTTTCCTTGAAATGCGACTATT-TTT-GAAA-AGTCA-AGTTTTCTATTCTATAAATATT
65 AA-TTTTTTCCTTGAAATAC--CT-TTGTTTCGAAATA--CAGAGTTTTCTATTCCATAAATATT
* * *
27176 TTTAGGGAGA-TTTTCTT-G-ATTTAAAATTTTTAAAATTCATCTAAT-ATTGTTATTTAACTCC
124 TTCAGGGAGATTTTTCTTGGCATTT--AATTTTTAAAATTCATCAAATAATT-TT-TTTAACTCA
*
27237 CATTAAATTAGTTTTGAAAAATTCAATTTATTTCAT
185 CATTAAATTAGTTTTCAAAAATTCAATTTATTTCAT
27273 AAAT
1 AAAT
27277 TTTAAAATTT
Statistics
Matches: 196, Mismatches: 19, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
221 7 0.04
222 7 0.04
223 120 0.61
224 53 0.27
225 2 0.01
226 5 0.03
227 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.50
Consensus pattern (220 bp):
AAATAGATTTATTTATTTCATATTAAATTAATTTTCAAAAATTCATTTATTTGCATGAGTTTTGA
ATTTTTTCCTTGAAATACCTTTGTTTCGAAATACAGAGTTTTCTATTCCATAAATATTTTCAGGG
AGATTTTTCTTGGCATTTAATTTTTAAAATTCATCAAATAATTTTTTTAACTCACATTAAATTAG
TTTTCAAAAATTCAATTTATTTCAT
Found at i:27661 original size:21 final size:21
Alignment explanation
Indices: 27600--27661 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
27590 TAATTTAACT
27600 GAAAAAGAAGAGAGAAAAGGAGA
1 GAAAAA-AAGAGAGAAAA-GAGA
* *
27623 GAAACAAAAGAAACAAAA-AGA
1 GAAA-AAAAGAGAGAAAAGAGA
27644 GAAAAAATAGAGAGAAAA
1 GAAAAAA-AGAGAGAAAA
27662 TTGGAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.09
21 15 0.45
23 13 0.39
24 2 0.06
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.02
Consensus pattern (21 bp):
GAAAAAAAGAGAGAAAAGAGA
Found at i:29107 original size:143 final size:147
Alignment explanation
Indices: 28854--29166 Score: 381
Period size: 143 Copynumber: 2.1 Consensus size: 147
28844 TTTTCGGGCT
* *
28854 TCCATTAAGGTACGAGATGAATTTTGAAAAAAATAAAATAGATAACAATAATAAAGATTTTTTTT
1 TCCATTAAGGTACGAAATGAATTTT-AAAAAAATAAAATAGAT-A-AATAATAAAGATTTTTATT
** * *
28919 ACGTTGGTGATTAAGGAGTTTAATATTCCTATGGGCATTCGTAGGGGTAATAAAG-TCTTAAAAA
63 ACGTTAATAATTAAGGAGTTTAATATTCCTATGGGCATTCATAGGGGTAATAAAGTTC-T-AAAA
28983 AATTTT-GTATCTTTTT-AGACA
126 AATTTTCGTATCTTTTTGAG-CA
* * *
29004 TCCATTAAGGTACGATATGAATTTT-AAATAA-AAAATGGAT-AATAATAAAGA-TTTTATTACG
1 TCCATTAAGGTACGAAATGAATTTTAAAAAAATAAAATAGATAAATAATAAAGATTTTTATTACG
* * * *
29065 TTAATAATTAAGGATTTTAATATTCCTATGGGTA-TCTATAGGGGTAATAAGGTTCTAAAAACTT
66 TTAATAATTAAGGAGTTTAATATTCCTATGGGCATTC-ATAGGGGTAATAAAGTTCTAAAAAATT
*
29129 TTCGTATCTTTTTGAGCT
130 TTCGTATCTTTTTGAGCA
29147 TCCATTAAGGTACGAAATGA
1 TCCATTAAGGTACGAAATGA
29167 TTTCTTTTGA
Statistics
Matches: 145, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
142 11 0.08
143 82 0.57
144 15 0.10
147 8 0.06
148 5 0.03
150 24 0.17
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.37
Consensus pattern (147 bp):
TCCATTAAGGTACGAAATGAATTTTAAAAAAATAAAATAGATAAATAATAAAGATTTTTATTACG
TTAATAATTAAGGAGTTTAATATTCCTATGGGCATTCATAGGGGTAATAAAGTTCTAAAAAATTT
TCGTATCTTTTTGAGCA
Found at i:29736 original size:155 final size:154
Alignment explanation
Indices: 29519--29928 Score: 402
Period size: 155 Copynumber: 2.6 Consensus size: 154
29509 TTGTTTTTGT
* * *
29519 CCTTTTT-AGTCTTTTAGGGGTATCAGACACTTCTACGTCGAAGGTATCTCCTAAGGGTATTTTC
1 CCTTTTTAAGTCCTTTAGGGGTATCAGACACTTCTACATCGAAGGTATC-CCTTAGGGTATTTTC
* ** *
29583 ATTATTTTTTAAAACCGAGTCCTAGGTTGTCACCGGATTCGT-TTTTATGCCGAAGCT-GGTCAT
65 ATAATTTTTTAAAACCGAGTCCTAGGTTGTCACCAAAGTC-TATTTTATGCCGAAGCTGGGT-AT
*
29646 TTAAGATAGGTTCGGCCCCATCT-TAAA
128 TTAAGATAGGTTC-ACCCCATCTATAAA
* * * * *
29673 CCTTTTTAAGTCCTTTAAGGGTATCGGGCACTTCTACATC-AATGGTATGCCTTAGGTGCATTTT
1 CCTTTTTAAGTCCTTTAGGGGTATCAGACACTTCTACATCGAA-GGTATCCCTTAGG-GTATTTT
* ** * * * *
29737 CGTAATTTTCCAAAACCAACTCTTAGGTTGTCA-CAAAGTCTACTTTTATGCCGAAGGTGGGTAT
64 CATAATTTTTTAAAACCGAGTCCTAGGTTGTCACCAAAGTCTA-TTTTATGCCGAAGCTGGGTAT
* * * *
29801 TTAGGATAGGTTCATCCCATCTATTAT
128 TTAAGATAGGTTCACCCCATCTATAAA
* * *
29828 CC-TTTTAAGTCCTTTAGGGGTATCATGATACTTTTACATCGAAGGTATCCCCTAGGAGTATTTT
1 CCTTTTTAAGTCCTTTAGGGGTATCA-GACACTTCTACATCGAAGGTATCCCTTAGG-GTATTTT
* * * *
29892 AATAATTTTCTTAAAATCGAGTCCTATGTTATCACCA
64 CATAATTTT-TTAAAACCGAGTCCTAGGTTGTCACCA
29929 GGTTCGCTTT
Statistics
Matches: 202, Mismatches: 43, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
153 1 0.00
154 47 0.23
155 131 0.65
156 21 0.10
157 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (154 bp):
CCTTTTTAAGTCCTTTAGGGGTATCAGACACTTCTACATCGAAGGTATCCCTTAGGGTATTTTCA
TAATTTTTTAAAACCGAGTCCTAGGTTGTCACCAAAGTCTATTTTATGCCGAAGCTGGGTATTTA
AGATAGGTTCACCCCATCTATAAA
Found at i:30201 original size:20 final size:20
Alignment explanation
Indices: 30176--30249 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
30166 TACCCAGATA
30176 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * * *
30196 TATCGATACATGTATGAATA
1 TATCGATACATTTTTCAATG
*
30216 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
30236 TATCGATACATTTT
1 TATCGATACATTTT
30250 GTCTTTTTAC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:30875 original size:11 final size:11
Alignment explanation
Indices: 30859--30890 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
30849 CCTAAACATC
30859 CATTTTTTCAT
1 CATTTTTTCAT
30870 CATTTTTTCAT
1 CATTTTTTCAT
30881 CATTTTTTCA
1 CATTTTTTCA
30891 CTTGTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (11 bp):
CATTTTTTCAT
Found at i:37281 original size:16 final size:16
Alignment explanation
Indices: 37251--37292 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
37241 AGTAAAAGCA
37251 CAAAAAAAATGAAAAG
1 CAAAAAAAATGAAAAG
*
37267 -AAAAAAAGTGCAAAAG
1 CAAAAAAAATG-AAAAG
37283 CAAAATAAAA
1 CAAAA-AAAA
37293 AGGGAACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 4 0.19
18 3 0.14
ACGTcount: A:0.74, C:0.07, G:0.12, T:0.07
Consensus pattern (16 bp):
CAAAAAAAATGAAAAG
Found at i:38662 original size:28 final size:28
Alignment explanation
Indices: 38584--39716 Score: 1319
Period size: 28 Copynumber: 40.0 Consensus size: 28
38574 TGGCATTTCT
* * * *
38584 TTTCAAAGTCCACAACTCTGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
38612 TTT-TAAGTCCC-CAAGTTAGTGGCACCC
1 TTTCAAAG-CCCACAAGTCAGTGGCACCC
* * * *
38639 TTTCAAAGCCCATAATTTAGTGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
38667 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
38695 TTTCCAAAGCCCAAAAGTCAGTGGCACCC
1 TTT-CAAAGCCCACAAGTCAGTGGCACCC
* *
38724 TTTCAAAGCCCACAAGACAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
38753 TTTCAAAGCCCACAAGACAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
**
38781 TTTCCAAAGCCCACAAGTCAGTGGCACAT
1 TTT-CAAAGCCCACAAGTCAGTGGCACCC
*
38810 TTTCAAAACCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
38838 TTTCAAAGCCCATAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
38867 TTTCAAAGCCCATAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
38896 TTTCAAAGCCTACAAGTCAGTGACACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
38924 TTTCAAAGCCTACAAGTCAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
38953 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
38981 TTTCAAAGCCCATAAGTGAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
39010 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
39038 TTTCAAAGCCCACAAGTCAGTGACACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
39067 TTTCAAAGCCCACAAGTTAGTGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
39095 TTTCAAAGCCCACAAGTCAGTGG-----
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
39118 TTTCAAAGCACATAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
39147 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
39175 -TTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
39202 TTTCAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
39230 TTTCAAAGCCCACAAGTTAATGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
39259 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
39287 TTTCAAAGCCCACATGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
39315 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* ** *
39343 TATCAAAGCCCACAAGTCAGTGATACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
39371 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
39400 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
39428 TTTCAAAGCCCACAAGTCAGTAGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
39456 TTTTAAAGCCCACAAGTGAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
39485 TTTCAAAGCCCACAAGTTAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
39513 TTTTAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
39541 TTTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
39569 TTTTAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * **
39597 TTTCAAAGCCCCCAAGTCAGTAGCACTTT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * ** * *
39626 TTTCAAGGCCCATAAACCAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTCAGTGG-CAC-CC
* *
39656 TTTCAAAGCCCACACGAGTCGGTGGCAACTCT
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CC
*
39688 TTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACC
39717 TTTTTTTAAA
Statistics
Matches: 964, Mismatches: 113, Indels: 54
0.85 0.10 0.05
Matches are distributed among these distances:
23 21 0.02
27 47 0.05
28 517 0.54
29 327 0.34
30 17 0.02
31 2 0.00
32 27 0.03
33 2 0.00
34 4 0.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:38722 original size:57 final size:56
Alignment explanation
Indices: 38584--39716 Score: 1319
Period size: 57 Copynumber: 20.0 Consensus size: 56
38574 TGGCATTTCT
* * * * * *
38584 TTTCAAAGTCCACAACTCTGTGGCATCCTTT-TAAGTCCC-CAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CCCACAAGTCAGTGGCACCC
* * * * *
38639 TTTCAAAGCCCATAATTTAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
38695 TTTCCAAAGCCCAAAAGTCAGTGGCACCCTTTCAAAGCCCACAAGACAGTGGCACTCT
1 TTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * **
38753 TTTCAAAGCCCACAAGACAGTGGCACTCTTTCCAAAGCCCACAAGTCAGTGGCACAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACCC
* *
38810 TTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCC
* * * *
38867 TTTCAAAGCCCATAAGTCAGTGGCACTCCTTTCAAAGCCTACAAGTCAGTGACACCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
38924 TTTCAAAGCCTACAAGTCAGTGGTACTCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
38981 TTTCAAAGCCCATAAGTGAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
39038 TTTCAAAGCCCACAAGTCAGTGACACTCTTTTCAAAGCCCACAAGTTAGTGGCACCA
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
39095 TTTCAAAGCCCACAAGTCAGTGG-----TTTCAAAGCACATAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCC
*
39147 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
39202 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAATGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
39259 TTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACATGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * ** *
39315 TTTCAAAGCCCACAAGTTAGTGGCACCCTATCAAAGCCCACAAGTCAGTGATACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
*
39371 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
39428 TTTCAAAGCCCACAAGTCAGTAGCACCCTTTTAAAGCCCACAAGTGAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * *
39485 TTTCAAAGCCCACAAGTTAGTGACACCCTTTTAAAGCCTACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * * * *
39541 TTTTAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * ** * * ** * *
39597 TTTCAAAGCCCCCAAGTCAGTAGCACTTTTTTCAAGGCCCATAAACCAGTGGTAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGG-CAC-CC
* * *
39656 TTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 TTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGCACC
39717 TTTTTTTAAA
Statistics
Matches: 928, Mismatches: 125, Indels: 43
0.85 0.11 0.04
Matches are distributed among these distances:
51 22 0.02
52 24 0.03
55 54 0.06
56 259 0.28
57 472 0.51
58 50 0.05
59 14 0.02
61 8 0.01
62 12 0.01
63 4 0.00
64 9 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:38731 original size:85 final size:84
Alignment explanation
Indices: 38584--39622 Score: 1320
Period size: 85 Copynumber: 12.3 Consensus size: 84
38574 TGGCATTTCT
* * * * * *
38584 TTTCAAAGTCCACAACTCTGTGGCATCCTTT-TAAGTCCC-CAAGTTAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
38647 CCCATAATTTAGTGGCACCA
65 CCCACAAGTTAGTGGCACCC
* *
38667 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCCAAAGCCCAAAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
** *
38732 CCCACAAGACAGTGGCACTCT
65 CCCACAAGTTAGTGGCAC-CC
* * ** *
38753 TTTCAAAGCCCACAAGACAGTGGCACTCTTTCCAAAGCCCACAAGTCAGTGGCACATTTTCAAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
38818 CCCACAAGTCAGTGGCACCC
65 CCCACAAGTTAGTGGCACCC
* *
38838 TTTCAAAGCCCATAAGTCAGTGGCACCCCTTTCAAAGCCCATAAGTCAGTGGCACTCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
* * * *
38903 GCCTACAAGTCAGTGACACCT
64 GCCCACAAGTTAGTGGCACCC
* * *
38924 TTTCAAAGCCTACAAGTCAGTGGTACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
38989 CCCATAAGTGAGTGGCACTCC
65 CCCACAAGTTAGTGGCAC-CC
* * *
39010 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGACACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
*
39075 CCCACAAGTTAGTGGCACCA
65 CCCACAAGTTAGTGGCACCC
* * * *
39095 TTTCAAAGCCCACAAGTCAGTGG-----TTTCAAAGCACATAAGTCAGTGGCATTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAG
* *
39155 CCCACAAGTCAGTGGCATCC
65 CCCACAAGTTAGTGGCACCC
*
39175 -TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
39239 CCACAAGTTAATGGCACTCC
66 CCACAAGTTAGTGGCAC-CC
* *
39259 TTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACATGTCAGTGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
39324 CCACAAGTTAGTGGCACCC
66 CCACAAGTTAGTGGCACCC
* ** * *
39343 TATCAAAGCCCACAAGTCAGTGATACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
*
39408 CCCACAAGTCAGTGGCACCC
65 CCCACAAGTTAGTGGCACCC
* * *
39428 TTTCAAAGCCCACAAGTCAGTAGCACCCTTTTAAAGCCCACAAGTGAGTGGCACTCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
*
39493 CCCACAAGTTAGTGACACCC
65 CCCACAAGTTAGTGGCACCC
* * * * * *
39513 TTTTAAAGCCTACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCATCCTTTTAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
39578 CCATAAGTTAGTGGCATCC
66 CCACAAGTTAGTGGCACCC
* *
39597 TTTCAAAGCCCCCAAGTCAGTAGCAC
1 TTTCAAAGCCCACAAGTCAGTGGCAC
39623 TTTTTTCAAG
Statistics
Matches: 840, Mismatches: 98, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
79 22 0.03
80 49 0.06
83 51 0.06
84 126 0.15
85 388 0.46
86 204 0.24
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAGTTAGTGGCACCC
Found at i:45977 original size:28 final size:28
Alignment explanation
Indices: 45945--46000 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
45935 ATGTAACAAC
45945 AAATGCTATTTCT-TTAAGTAAACTTATA
1 AAATGCTATTT-TATTAAGTAAACTTATA
* *
45973 AAATGCTATTTTATTAATTATACTTATA
1 AAATGCTATTTTATTAAGTAAACTTATA
46001 TATTAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (28 bp):
AAATGCTATTTTATTAAGTAAACTTATA
Found at i:49141 original size:12 final size:11
Alignment explanation
Indices: 49124--49172 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
49114 AAGAAGAATG
49124 AAAGAAAGAAA
1 AAAGAAAGAAA
49135 AAGAGAAAGAAA
1 AA-AGAAAGAAA
49147 AAATGAAA-AAA
1 AAA-GAAAGAAA
49158 AAA-AAA-AAA
1 AAAGAAAGAAA
49167 GAAAGA
1 -AAAGA
49173 GGGAAAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.18
10 3 0.09
11 10 0.29
12 15 0.44
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:49720 original size:11 final size:11
Alignment explanation
Indices: 49704--49737 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
49694 TCGTTTATAT
49704 TATTTTAATTA
1 TATTTTAATTA
49715 TATTTTTATATTA
1 TA-TTTTA-ATTA
49728 TATTTTAATT
1 TATTTTAATT
49738 TATCTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.24
12 10 0.48
13 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTTTAATTA
Found at i:49739 original size:17 final size:17
Alignment explanation
Indices: 49719--49796 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
49709 TAATTATATT
49719 TTTATATTAT-ATTTTAA
1 TTTAT-TTATAATTTTAA
*
49736 TTTATCTTAT-ATTTAAA
1 TTTAT-TTATAATTTTAA
* * **
49753 ATTATTTATCATAATAA
1 TTTATTTATAATTTTAA
49770 TTTAATTT-TAATTTTAAA
1 TTT-ATTTATAATTTT-AA
49788 TTTATTTAT
1 TTTATTTAT
49797 TTAATAATTA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.09
17 33 0.70
18 10 0.21
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATTTATAATTTTAA
Found at i:49789 original size:34 final size:35
Alignment explanation
Indices: 49719--49816 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 35
49709 TAATTATATT
** *
49719 TTTATATTATATTTTAATTT-ATCTTATATTTAAAA
1 TTTAT-TTATATAATAATTTAATTTTATATTTAAAA
*
49754 -TTATTTATCATAATAATTTAATTTTA-ATTTTAAA
1 TTTATTTAT-ATAATAATTTAATTTTATATTTAAAA
* *
49788 TTTATTTATTTAATAATTAAATTATTATA
1 TTTATTTATATAATAATTTAATT-TTATA
49817 CTATCATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
33 4 0.08
34 31 0.60
35 16 0.31
36 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (35 bp):
TTTATTTATATAATAATTTAATTTTATATTTAAAA
Found at i:50255 original size:15 final size:15
Alignment explanation
Indices: 50235--50313 Score: 51
Period size: 15 Copynumber: 5.3 Consensus size: 15
50225 ATTTATAATT
50235 TTTAAA-ATATTTAAA
1 TTTAAATATATTT-AA
*
50250 TTTAAATTTATTTAA
1 TTTAAATATATTTAA
**
50265 TTTATCTGATATTTTAA
1 TTTAAAT-ATA-TTTAA
50282 TTT--ATATA-TT-A
1 TTTAAATATATTTAA
50293 TTTAAATTTATATTTAA
1 TTTAAA--TATATTTAA
50310 TTTA
1 TTTA
50314 GATAATATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
11 4 0.08
12 2 0.04
13 1 0.02
14 3 0.06
15 18 0.36
16 9 0.18
17 13 0.26
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
TTTAAATATATTTAA
Found at i:50312 original size:17 final size:16
Alignment explanation
Indices: 50242--50313 Score: 74
Period size: 17 Copynumber: 4.4 Consensus size: 16
50232 ATTTTTAAAA
*
50242 TATTTAAATTTAAATT
1 TATTTAAATTTATATT
* *
50258 TATTT-AATTTATCTGA
1 TATTTAAATTTATAT-T
*
50274 TATTTTAATTTATATAT
1 TATTTAAATTTATAT-T
50291 TATTTAAATTTATATT
1 TATTTAAATTTATATT
50307 TAATTTA
1 T-ATTTA
50314 GATAATATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
15 7 0.15
16 12 0.26
17 27 0.59
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (16 bp):
TATTTAAATTTATATT
Found at i:50349 original size:17 final size:17
Alignment explanation
Indices: 50325--50365 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50315 ATAATATATG
50325 TAAAATATCTAAATCTA
1 TAAAATATCTAAATCTA
* * *
50342 TTAAATATTTAAATTTA
1 TAAAATATCTAAATCTA
50359 TAAAATA
1 TAAAATA
50366 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATATCTAAATCTA
Found at i:50574 original size:21 final size:21
Alignment explanation
Indices: 50537--50577 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50527 TATTTTAATT
50537 TATTATAAATAATAAATTTAA
1 TATTATAAATAATAAATTTAA
*
50558 TATT-TAAATTATAAAATTTA
1 TATTATAAATAAT-AAATTTA
50578 TAAATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTATAAATAATAAATTTAA
Found at i:51144 original size:2 final size:2
Alignment explanation
Indices: 51139--51171 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
51129 CTTCTGTTAT
*
51139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51172 TACTAGGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:55249 original size:78 final size:79
Alignment explanation
Indices: 55086--55424 Score: 279
Period size: 78 Copynumber: 4.3 Consensus size: 79
55076 CCAAAGCATC
* * * * * *
55086 AATTATTCATCTCGAGGATACTCTAACCCCATCAATTCTGAGGGGATACTCTAACCT--GCTTTT
1 AATTTTTCATCTCG-GGATACTCCAACCTCATTAATTCTGAGGGGATACTCCAACCTCCGTTTTT
* **
55149 ATTTCTAAAATGCTA
65 ATTTCAAAAATATTA
* * *
55164 ATTTTTTCATCTCGGGATACTCCAACCTCATTAATTCTAAGGGGATACTCCAACCT-CATTTTTA
1 AATTTTTCATCTCGGGATACTCCAACCTCATTAATTCTGAGGGGATACTCCAACCTCCGTTTTTA
55228 TTTTC-AAAATATTA
66 -TTTCAAAAATATTA
* * * * * * *
55242 AATTTTTC-TC-GGGGGTACTCCAATCCT-ATT-ATTTTCGAGAGGATACTCTAGCC-CTGTTTT
1 AATTTTTCATCTCGGGATACTCCAA-CCTCATTAATTCT-GAGGGGATACTCCAACCTCCGTTTT
55302 TATTTCCAAAAATATT-
64 TATTT-CAAAAATATTA
* * ** * * * *
55318 GATTTTTCATCTTGAGGATACTTTAACCTCGTTATTTTTGA-GGGATACTCCAA-TTCCGTTTTT
1 AATTTTTCATCTCG-GGATACTCCAACCTCATTAATTCTGAGGGGATACTCCAACCTCCGTTTTT
55381 ATTTCAAAAATATTA
65 ATTTCAAAAATATTA
55396 AATTTTTCATCATCGGGAGTACTCCAACC
1 AATTTTTCATC-TCGGGA-TACTCCAACC
55425 CCGTATTTAG
Statistics
Matches: 208, Mismatches: 37, Indels: 31
0.75 0.13 0.11
Matches are distributed among these distances:
75 7 0.03
76 41 0.20
77 62 0.30
78 68 0.33
79 26 0.12
80 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (79 bp):
AATTTTTCATCTCGGGATACTCCAACCTCATTAATTCTGAGGGGATACTCCAACCTCCGTTTTTA
TTTCAAAAATATTA
Found at i:58148 original size:61 final size:62
Alignment explanation
Indices: 58080--58206 Score: 238
Period size: 61 Copynumber: 2.1 Consensus size: 62
58070 GTTTACCTCC
58080 TTTGTGAGGTTGTAATCAAGTTGAAAAATAGGTTA-TTGGGTCATAGTATGAAGGGAAATGG
1 TTTGTGAGGTTGTAATCAAGTTGAAAAATAGGTTATTTGGGTCATAGTATGAAGGGAAATGG
*
58141 TTTGTGAGGTTGTAATCAAGTTGAAAAATGGGTTATTTGGGTCATAGTATGAAGGGAAATGG
1 TTTGTGAGGTTGTAATCAAGTTGAAAAATAGGTTATTTGGGTCATAGTATGAAGGGAAATGG
58203 TTTG
1 TTTG
58207 GAGTGGTGTA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 34 0.53
62 30 0.47
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.35
Consensus pattern (62 bp):
TTTGTGAGGTTGTAATCAAGTTGAAAAATAGGTTATTTGGGTCATAGTATGAAGGGAAATGG
Found at i:58578 original size:22 final size:22
Alignment explanation
Indices: 58544--58606 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
58534 TTTTTTATAT
*
58544 AAAATTAAAAATAATAAAACAA
1 AAAAATAAAAATAATAAAACAA
* * *
58566 AAAAATAATAATAATCAAA-TA
1 AAAAATAAAAATAATAAAACAA
*
58587 AAAAATCAAAAATAAAAAAA
1 AAAAAT-AAAAATAATAAAA
58607 ATCGTGAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 7 0.21
22 26 0.79
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAAATAAAAATAATAAAACAA
Found at i:58604 original size:14 final size:15
Alignment explanation
Indices: 58542--58605 Score: 57
Period size: 14 Copynumber: 4.4 Consensus size: 15
58532 GATTTTTTAT
*
58542 ATAAAATTAAAAATA
1 ATAAAATCAAAAATA
58557 ATAAAA-CAAAAA-A
1 ATAAAATCAAAAATA
58570 ATAATAAT-AATCAAATA
1 ATAA-AATCAA--AAATA
58587 A-AAAATCAAAAATA
1 ATAAAATCAAAAATA
58601 A-AAAA
1 ATAAAA
58606 AATCGTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 5 0.12
14 19 0.45
15 9 0.21
16 7 0.17
17 2 0.05
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAAATCAAAAATA
Found at i:65215 original size:13 final size:13
Alignment explanation
Indices: 65197--65222 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65187 ACAAAGATCC
65197 ATGTATCGATACA
1 ATGTATCGATACA
65210 ATGTATCGATACA
1 ATGTATCGATACA
65223 TTTCCTTGGC
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:67381 original size:33 final size:33
Alignment explanation
Indices: 67317--67381 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
67307 TTAGAAGTAA
* *
67317 TGTATCGATACAATTCATCATGTATTAATACAT
1 TGTATCGATACAATTCACCATGTATCAATACAT
*
67350 TGTATCGATACAATGT-ACCATGTATCGATACA
1 TGTATCGATACAAT-TCACCATGTATCAATACA
67382 AACAGTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATTCACCATGTATCAATACAT
Found at i:67459 original size:19 final size:18
Alignment explanation
Indices: 67410--67467 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
67400 ACTGCCAGTT
67410 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
67429 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
67448 ATCATATATCGATACAATG
1 -TCATGTATCGATACAATG
67467 T
1 T
67468 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:68074 original size:44 final size:44
Alignment explanation
Indices: 68011--68094 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
68001 TCAAAGTTTC
*
68011 GTTTTTCTCCCCTTTATAAAATAGTTAAGGCTCTCCCCCTAAAA
1 GTTTTTCCCCCCTTTATAAAATAGTTAAGGCTCTCCCCCTAAAA
68055 GTTTTTCCCCCCTTTATAAAATAGTTAAGGCTCTCCCCCT
1 GTTTTTCCCCCCTTTATAAAATAGTTAAGGCTCTCCCCCT
68095 GGATAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.37
Consensus pattern (44 bp):
GTTTTTCCCCCCTTTATAAAATAGTTAAGGCTCTCCCCCTAAAA
Found at i:69105 original size:19 final size:18
Alignment explanation
Indices: 69076--69115 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
69066 AACTTCGTTG
69076 CTATCGTTATGCTCGAGA
1 CTATCGTTATGCTCGAGA
69094 CTATCAGTTATGCTCGAGA
1 CTATC-GTTATGCTCGAGA
69113 CTA
1 CTA
69116 GAATTACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (18 bp):
CTATCGTTATGCTCGAGA
Found at i:73200 original size:19 final size:18
Alignment explanation
Indices: 73154--73238 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 18
73144 TTTCAACCAT
73154 TTGTATCGATACA-AATAG
1 TTGTATCGATACATAAT-G
73172 TAAATGTATCGATACATAAGTG
1 T---TGTATCGATACATAA-TG
73194 TTGTATCGATAC--AA--
1 TTGTATCGATACATAATG
*
73208 -TGCATCGATACATAACTG
1 TTGTATCGATACATAA-TG
73226 TTGTATCGATACA
1 TTGTATCGATACA
73239 ATGTATTGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 21
0.70 0.03 0.27
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 2 0.04
18 1 0.02
19 22 0.41
21 12 0.22
22 4 0.07
23 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (18 bp):
TTGTATCGATACATAATG
Found at i:73220 original size:32 final size:32
Alignment explanation
Indices: 73174--73241 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
73164 ACAAATAGTA
* *
73174 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGCATCGATACATAACTGTTGTATCGATAC
73206 AATGCATCGATACATAACTGTTGTATCGATAC
1 AATGCATCGATACATAACTGTTGTATCGATAC
73238 AATG
1 AATG
73242 TATTGCTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
AATGCATCGATACATAACTGTTGTATCGATAC
Found at i:79637 original size:13 final size:13
Alignment explanation
Indices: 79618--79648 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
79608 ACAATTCATC
79618 ATGTATCGATACA
1 ATGTATCGATACA
*
79631 TTGTATCGATACA
1 ATGTATCGATACA
79644 ATGTA
1 ATGTA
79649 CCATGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:79643 original size:33 final size:33
Alignment explanation
Indices: 79601--79663 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
79591 AGAAGCAATA
*
79601 TATCGATACAAT-TCATCATGTATCGATACATTG
1 TATCGATACAATGT-ACCATGTATCGATACATTG
79634 TATCGATACAATGTACCATGTATCGATACA
1 TATCGATACAATGTACCATGTATCGATACA
79664 AACAGTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (33 bp):
TATCGATACAATGTACCATGTATCGATACATTG
Found at i:79718 original size:20 final size:20
Alignment explanation
Indices: 79692--79747 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
79682 AATGCTAGTT
79692 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATTGA
79711 TCCATGTATCGATACAA-TGA
1 T-CATGTATCGATACAATTGA
*
79731 TCATGTATCGAGACAAT
1 TCATGTATCGATACAAT
79748 GTATCAATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:79737 original size:19 final size:19
Alignment explanation
Indices: 79692--79753 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
79682 AATGCTAGTT
79692 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
79711 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
*
79731 TCATGTATCGAGACAATGTA
1 TCATGTATCGATACAATG-A
79751 TCA
1 TCA
79754 ATACAAAGCA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 19 0.49
20 20 0.51
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:81664 original size:2 final size:2
Alignment explanation
Indices: 81659--81684 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
81649 AGGGGCAATT
81659 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
81685 CCTTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:81820 original size:10 final size:10
Alignment explanation
Indices: 81805--81840 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
81795 ATCTCTCTTC
81805 AAAAAAGGAA
1 AAAAAAGGAA
*
81815 AAAAAAGAAA
1 AAAAAAGGAA
*
81825 AAAAAAAGAA
1 AAAAAAGGAA
81835 AAAAAA
1 AAAAAA
81841 CCTTTGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAGGAA
Found at i:81827 original size:11 final size:11
Alignment explanation
Indices: 81813--81840 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
81803 TCAAAAAAGG
81813 AAAAAAAAGAA
1 AAAAAAAAGAA
81824 AAAAAAAAGAA
1 AAAAAAAAGAA
81835 AAAAAA
1 AAAAAA
81841 CCTTTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:84776 original size:95 final size:95
Alignment explanation
Indices: 84455--85396 Score: 1006
Period size: 95 Copynumber: 10.2 Consensus size: 95
84445 TTATCCTTTC
* * * * *
84455 TTGACTGTATTCTGTCAAGACCTTTCTTAGTCGGCTGTACTCAGTCGAATAGAATCCACACTTGC
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
*
84520 TTAATTGTA-TCGGTTGAGCCTTTTCCTAT
66 TTAACTGTATTCGGTTGAGCCTTTTCCTAT
* * * * *
84549 TTGACTGTATTTGATCAAGATC-TTCTTTAGTCGGCTGTACTCGATCGAATAGAATCCACCCTTA
1 TTGACTGTATTCGGTCAAGATCTTTC-TTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTG
84613 CTTAACTGTATTCGGTTGAGCC-TTTCCTAT
65 CTTAACTGTATTCGGTTGAGCCTTTTCCTAT
* * * *
84643 TTGACTGTATTCGATCAAGATCTTCCTTAGTCGATTGTACTCGGTCGAATAGAATCCCCCCTTGC
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
* * *
84708 CTAACTGTATTCAGTTGAGCATTTTCCTAT
66 TTAACTGTATTCGGTTGAGCCTTTTCCTAT
** *
84738 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGGTTGTACTCGATCGAATAGAATCCACCCTTGC
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
84803 TTAACTGTATTCGGTTGAGCCTTTTCCTAT
66 TTAACTGTATTCGGTTGAGCCTTTTCCTAT
* * * *
84833 TTGACTGTATTCGATCAAGATC-TTCTTTAGTCAACTGTACTCGATTGAATAGAATCCACCCTTG
1 TTGACTGTATTCGGTCAAGATCTTTC-TTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTG
* *
84897 CTTAATTGTATTCGATTGAGCCTTTTCCTAT
65 CTTAACTGTATTCGGTTGAGCCTTTTCCTAT
* * * * *
84928 TTGACTGTATTTGGTCAAGATCTTCCTTAGTCGACTGTACTCGGTCAAATAGAATCCACCTTTAC
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
*
84993 TTAACTGTACTT-GGTTAAGCCTTTT-C---
66 TTAACTGTA-TTCGGTTGAGCCTTTTCCTAT
* * * *
85019 ----C--TA-TCGGTCAAGATCTTCCTTAGTCGACTGTGCTCGGTCGAATAGAATCTATCCTTGC
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
* * *
85077 TTAACTGTACTCAGTTAAGCCTTTTCCTAT
66 TTAACTGTATTCGGTTGAGCCTTTTCCTAT
* * * * * * * * *
85107 TTGACTATATTCGTTCAAGATCTTCCGTAGTCGACTATA--C--TCG-ATCGAATCTACTCTTGT
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
**
85167 TTAACTGTATTCAATTGAGCCTTTTCCTAT
66 TTAACTGTATTCGGTTGAGCCTTTTCCTAT
* * ** * * * *
85197 TTAACTATATTTAGTCAATATCTTTCTTAGTTGGCTGTACTCGGTTGAATAGAATCCACCCTTGC
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
* *
85262 TTAATTGTATTTGGTTGAGCCTTTTCCTAT
66 TTAACTGTATTCGGTTGAGCCTTTTCCTAT
* * * * *
85292 TTGACTATATTCAGTCAATATCTTTCTTAGTC-AGCTATA-TGCGGT----T-GAATCCACCCTC
1 TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGA-CTGTACT-CGGTCGAATAGAATCCACCCTT
* *
85350 GCTTAACTGTATTTGGTTAAG-CTTTTCCCTAT
64 GCTTAACTGTATTCGGTTGAGCCTTTT-CCTAT
*
85382 TTGACAGTATTCGGT
1 TTGACTGTATTCGGT
85397 TAAATCGTAC
Statistics
Matches: 725, Mismatches: 96, Indels: 58
0.82 0.11 0.07
Matches are distributed among these distances:
83 1 0.00
84 69 0.10
85 3 0.00
87 1 0.00
89 5 0.01
90 116 0.16
91 4 0.01
92 2 0.00
93 4 0.01
94 151 0.21
95 365 0.50
96 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (95 bp):
TTGACTGTATTCGGTCAAGATCTTTCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGC
TTAACTGTATTCGGTTGAGCCTTTTCCTAT
Found at i:85081 original size:84 final size:84
Alignment explanation
Indices: 84940--85106 Score: 264
Period size: 84 Copynumber: 2.0 Consensus size: 84
84930 GACTGTATTT
*
84940 GGTCAAGATCTTCCTTAGTCGACTGTACTCGGTCAAATAGAATCCACCTTTACTTAACTGTACTT
1 GGTCAAGATCTTCCTTAGTCGACTGTACTCGGTCAAATAGAATCCACCTTTACTTAACTGTACTC
*
85005 GGTTAAGCCTTTTCCTATC
66 AGTTAAGCCTTTTCCTATC
* * * *
85024 GGTCAAGATCTTCCTTAGTCGACTGTGCTCGGTCGAATAGAATCTATCC-TTGCTTAACTGTACT
1 GGTCAAGATCTTCCTTAGTCGACTGTACTCGGTCAAATAGAATCCA-CCTTTACTTAACTGTACT
85088 CAGTTAAGCCTTTTCCTAT
65 CAGTTAAGCCTTTTCCTAT
85107 TTGACTATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
84 74 0.97
85 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (84 bp):
GGTCAAGATCTTCCTTAGTCGACTGTACTCGGTCAAATAGAATCCACCTTTACTTAACTGTACTC
AGTTAAGCCTTTTCCTATC
Found at i:85294 original size:364 final size:369
Alignment explanation
Indices: 84469--85323 Score: 1091
Period size: 364 Copynumber: 2.3 Consensus size: 369
84459 CTGTATTCTG
* * * *
84469 TCAAGACCTTTCTTAGTCGGCTGTACTCAGTCGAATAGAATCCACACTTGCTTAATTGTA-TCGG
1 TCAAGATCTTTCTTAGTCGGCTGTACTCGGTTGAATAGAATCCACCCTTGCTTAATTGTATTCGG
* * * *
84533 TTGAGCCTTTTCCTATTTGACTGTATTTGATCAAGATCTTCTTTAGTCGGCTGTACTCGATCGAA
66 TTGAGCCTTTTCCTATTTGACTGTATTTGGTCAAGATCTTCCTTAGTCGACTGTACTCGATCAAA
*
84598 TAGAATCCACCCTTACTTAACTGTATTCGGTTGAGCCTTTCCTATTTGACTGTATTCGATCAAGA
131 TAGAATCCACCCTTACTTAACTGTATTCGGTTAAGCCTTTCCTA-TT-ACTG---T-GATCAAGA
* * * *
84663 TCTTCCTTAGTCGATTGTACTCGGTCGAATAGAATCCCCCCTTGCCTAACTGTATTCAGTTGAGC
190 TCTTCCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGCCTAACTGTACTCAGTTAAGC
* * * ** *
84728 ATTTTCCTATTTGACTGTATTCGGTCAAGATCTTTCTTAGTCGGTTGTACTCGATCGAATAGAAT
255 ATTTTCCTATTTGACTATATTCGGTCAAGATCTTCCGTAGTCGACTATACTCGATC----AGAAT
** * * *
84793 CCACCCTTGCTTAACTGTATTCGGTTGAGCCTTTTCCTATTTGACTGTATTCGA
316 CCACCCTTGCTTAACTGTATTCAATTGAGCCTTTTCCTATTTAACTATATTAGA
** *
84847 TCAAGATC-TTCTTTAGTCAACTGTACTCGATTGAATAGAATCCACCCTTGCTTAATTGTATTCG
1 TCAAGATCTTTC-TTAGTCGGCTGTACTCGGTTGAATAGAATCCACCCTTGCTTAATTGTATTCG
* *
84911 ATTGAGCCTTTTCCTATTTGACTGTATTTGGTCAAGATCTTCCTTAGTCGACTGTACTCGGTCAA
65 GTTGAGCCTTTTCCTATTTGACTGTATTTGGTCAAGATCTTCCTTAGTCGACTGTACTCGATCAA
*
84976 ATAGAATCCACCTTTACTTAACTGTACTT-GGTTAAGCCTTTTCCTA-T-C-G-G-TCAAGATCT
130 ATAGAATCCACCCTTACTTAACTGTA-TTCGGTTAAGCC-TTTCCTATTACTGTGATCAAGATCT
* * * * *
85035 TCCTTAGTCGACTGTGCTCGGTCGAATAGAATCTATCCTTGCTTAACTGTACTCAGTTAAGCCTT
193 TCCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGCCTAACTGTACTCAGTTAAGCATT
* * *
85100 TTCCTATTTGACTATATTCGTTCAAGATCTTCCGTAGTCGACTATACTCGATC-GAATCTACTCT
258 TTCCTATTTGACTATATTCGGTCAAGATCTTCCGTAGTCGACTATACTCGATCAGAATCCACCCT
*
85164 TGTTTAACTGTATTCAATTGAGCCTTTTCCTATTTAACTATATTTAG-
323 TGCTTAACTGTATTCAATTGAGCCTTTTCCTATTTAACTATA-TTAGA
* * *
85211 TCAATATCTTTCTTAGTTGGCTGTACTCGGTTGAATAGAATCCACCCTTGCTTAATTGTATTTGG
1 TCAAGATCTTTCTTAGTCGGCTGTACTCGGTTGAATAGAATCCACCCTTGCTTAATTGTATTCGG
* ** * *
85276 TTGAGCCTTTTCCTATTTGACTATATTCAGTCAATATCTTTCTTAGTC
66 TTGAGCCTTTTCCTATTTGACTGTATTTGGTCAAGATCTTCCTTAGTC
85324 AGCTATATGC
Statistics
Matches: 420, Mismatches: 51, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
364 143 0.34
365 6 0.01
369 111 0.26
370 1 0.00
375 1 0.00
376 1 0.00
377 3 0.01
378 50 0.12
379 95 0.23
380 9 0.02
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (369 bp):
TCAAGATCTTTCTTAGTCGGCTGTACTCGGTTGAATAGAATCCACCCTTGCTTAATTGTATTCGG
TTGAGCCTTTTCCTATTTGACTGTATTTGGTCAAGATCTTCCTTAGTCGACTGTACTCGATCAAA
TAGAATCCACCCTTACTTAACTGTATTCGGTTAAGCCTTTCCTATTACTGTGATCAAGATCTTCC
TTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGCCTAACTGTACTCAGTTAAGCATTTTC
CTATTTGACTATATTCGGTCAAGATCTTCCGTAGTCGACTATACTCGATCAGAATCCACCCTTGC
TTAACTGTATTCAATTGAGCCTTTTCCTATTTAACTATATTAGA
Found at i:85383 original size:185 final size:185
Alignment explanation
Indices: 85025--85362 Score: 421
Period size: 185 Copynumber: 1.8 Consensus size: 185
85015 TTTCCTATCG
* * *
85025 GTCAAGATCTTCCTTAGTCGACTGTGCTCGGTCGAATAGAATCTATCCTTGCTTAACTGTACTCA
1 GTCAAGATCTTCCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGCTTAACTGTACTCA
85090 GTTAAGCCTTTTCCTATTTGACTATATTCGTTCAAGATCTTCCGTAGTCGACTATACTCGATCGA
66 GTTAAGCCTTTTCCTATTTGACTATATTCGTTCAAGATCTTCCGTAGTCGACTATACTCGATCGA
* * * * *
85155 ATCTACTCTTGTTTAACTGTATTCAATTGAGCCTTTTCCTATTTAACTATATTTA
131 ATCCACCCTCGCTTAACTGTATTCAATTAAGCCTTTTCCTATTTAACTATATTTA
* * * * * * * **
85210 GTCAATATCTTTCTTAGTTGGCTGTACTCGGTTGAATAGAATCCACCCTTGCTTAATTGTATTTG
1 GTCAAGATCTTCCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGCTTAACTGTACTCA
* * * * *
85275 GTTGAGCCTTTTCCTATTTGACTATATTCAG-TCAATATCTTTCTTAGTC-AGCTATA-TGCGGT
66 GTTAAGCCTTTTCCTATTTGACTATATTC-GTTCAAGATCTTCCGTAGTCGA-CTATACT-CGAT
*
85337 TGAATCCACCCTCGCTTAACTGTATT
128 CGAATCCACCCTCGCTTAACTGTATT
85363 TGGTTAAGCT
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
184 2 0.02
185 125 0.98
186 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (185 bp):
GTCAAGATCTTCCTTAGTCGACTGTACTCGGTCGAATAGAATCCACCCTTGCTTAACTGTACTCA
GTTAAGCCTTTTCCTATTTGACTATATTCGTTCAAGATCTTCCGTAGTCGACTATACTCGATCGA
ATCCACCCTCGCTTAACTGTATTCAATTAAGCCTTTTCCTATTTAACTATATTTA
Found at i:85427 original size:90 final size:90
Alignment explanation
Indices: 85075--85408 Score: 225
Period size: 90 Copynumber: 3.7 Consensus size: 90
85065 ATCTATCCTT
* ** * *
85075 GCTTAACTGTACTCAGTTAAGCCTTTTCCTATTTGACTATATTC-GTTCAAGATC-TTCCGTAGT
1 GCTTAACTGTATTTGGTTAAGCCTTTTCCTATTTGACTATATTCAG-TCAATATCGTACC-TAGT
* * * * *
85138 C-GACTATACT-CGATCGAATCTACTCTT
64 CAG-CTATA-TGCGGTTGAATCCACCCTC
* *** * * * * * * **
85165 GTTTAACTGTATTCAATTGAGCCTTTTCCTATTTAACTATATTTAGTCAATATCTTTCTTAGTTG
1 GCTTAACTGTATTTGGTTAAGCCTTTTCCTATTTGACTATATTCAGTCAATATCGTACCTAGTCA
* *
85230 GCTGTACT-CGGTTGAATAGAATCCACCCTT
66 GCTATA-TGCGG-T---T-GAATCCACCCTC
* * * * *
85260 GCTTAATTGTATTTGGTTGAGCCTTTTCCTATTTGACTATATTCAGTCAATATCTTTCTTAGTCA
1 GCTTAACTGTATTTGGTTAAGCCTTTTCCTATTTGACTATATTCAGTCAATATCGTACCTAGTCA
85325 GCTATATGCGGTTGAATCCACCCTC
66 GCTATATGCGGTTGAATCCACCCTC
* *
85350 GCTTAACTGTATTTGGTTAAG-CTTTTCCCTATTTGAC-AGTATTCGGTTAA-ATCGTACCT
1 GCTTAACTGTATTTGGTTAAGCCTTTT-CCTATTTGACTA-TATTCAGTCAATATCGTACCT
85409 GTCTTGACTG
Statistics
Matches: 201, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
89 12 0.06
90 106 0.53
91 7 0.03
94 2 0.01
95 74 0.37
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (90 bp):
GCTTAACTGTATTTGGTTAAGCCTTTTCCTATTTGACTATATTCAGTCAATATCGTACCTAGTCA
GCTATATGCGGTTGAATCCACCCTC
Found at i:85658 original size:48 final size:48
Alignment explanation
Indices: 85582--85712 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 48
85572 AACCCTTGTA
* * * *
85582 TGACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTTTCACACTTGCT
1 TGACTGTATTGGCATTAGGACATGGTCAAACTCTTTTTCACACTCGCT
* *
85630 TGACTGTATTGGCATTAGGACATGGTCAAACT-TTTTTCACTCTCGTT
1 TGACTGTATTGGCATTAGGACATGGTCAAACTCTTTTTCACACTCGCT
* * * ** *
85677 TGACTATGTTGGCATTAAGATTTGGTCAAGCTCTTT
1 TGACTGTATTGGCATTAGGACATGGTCAAACTCTTT
85713 ACCCTTAAGC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
47 38 0.54
48 32 0.46
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (48 bp):
TGACTGTATTGGCATTAGGACATGGTCAAACTCTTTTTCACACTCGCT
Found at i:85689 original size:47 final size:48
Alignment explanation
Indices: 85582--85693 Score: 136
Period size: 48 Copynumber: 2.4 Consensus size: 48
85572 AACCCTTGTA
* * * *
85582 TGACTGTATTGGCGTTAGGACCTAGTCAAACTCTTTTTCACACTTGCT
1 TGACTATATTGGCATTAGGACATAGTCAAACTCTTTTTCACACTCGCT
* * * *
85630 TGACTGTATTGGCATTAGGACATGGTCAAACT-TTTTTCACTCTCGTT
1 TGACTATATTGGCATTAGGACATAGTCAAACTCTTTTTCACACTCGCT
*
85677 TGACTATGTTGGCATTA
1 TGACTATATTGGCATTA
85694 AGATTTGGTC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 27 0.48
48 29 0.52
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (48 bp):
TGACTATATTGGCATTAGGACATAGTCAAACTCTTTTTCACACTCGCT
Found at i:85879 original size:43 final size:43
Alignment explanation
Indices: 85723--86140 Score: 244
Period size: 42 Copynumber: 9.8 Consensus size: 43
85713 ACCCTTAAGC
* * *
85723 CTGCTTGTCAGCTTTGACCCTGGAAACTTTCCTTTCCTTTTAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGAC-TTCCTTTCCTTTCAGT
** ** * * *
85767 CTGCCAGTTGGCTTCGACCTTGGAGACTTCATTATCC-ATC-GT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTCCTT-TCCTTTCAGT
** * *
85809 CTGCTCATCAACTTAGACAC-TGAGAGACTTCCTTTCCTTTCAGT
1 CTGCTTGTCAGCTTTGAC-CTTG-GAGACTTCCTTTCCTTTCAGT
* *
85853 CTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACC-TTCAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTCCTTTCCTTTCAGT
* ** * *** *
85895 CTACTTGTTGGCTTTGACCTTGGAGACTACC--TCAACTCAAGA
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTCCTTTCCTTTC-AGT
* * ** * * * * *
85937 CTGCCTATTGGTTTTGACCCTGTAGACTTTC-TTACTTTCAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTCCTTTCCTTTCAGT
* * * * *
85979 CTGCCTATCAGCTTTGACCTTAGAGACTGCCTTACCTTT-AGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTCCTTTCCTTTCAGT
* * * * * *
86021 TTGCTTGTCGGCTTTAACCTTGGAGACTTCATTTCCCTTAAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTCCTTTCCTTTCAGT
* * * * *
86064 CTGCTTGTCAACTTTTG-TCTTGGAAACTTCCTTTCCCTTAAGT
1 CTGCTTGTCAGC-TTTGACCTTGGAGACTTCCTTTCCTTTCAGT
**
86107 CTGCTAATC-GACTTTGACCTTGGAGACTTCCTTT
1 CTGCTTGTCAG-CTTTGACCTTGGAGACTTCCTTT
86141 ATCCTTAAGT
Statistics
Matches: 281, Mismatches: 79, Indels: 29
0.72 0.20 0.07
Matches are distributed among these distances:
40 1 0.00
41 2 0.01
42 136 0.48
43 98 0.35
44 44 0.16
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (43 bp):
CTGCTTGTCAGCTTTGACCTTGGAGACTTCCTTTCCTTTCAGT
Found at i:85895 original size:42 final size:42
Alignment explanation
Indices: 85723--86219 Score: 211
Period size: 42 Copynumber: 11.6 Consensus size: 42
85713 ACCCTTAAGC
* * * *
85723 CTGCTTGTCAGCTTTGACCCTGGAAACTTTCCTTTCCTTTTAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTT-CTTACC-TTCAGT
** ** * *
85767 CTGCCAGTTGGCTTCGACCTTGGAGAC-TTCATTATCCATC-GT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTTC-TTA-CCTTCAGT
** * * * *
85809 CTGCTCATCAACTTAGACAC-TGAGAGACTTCCTTTCCTTTCAGT
1 CTGCTTGTCAGCTTTGAC-CTTG-GAGACTTTCTTACC-TTCAGT
85853 CTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTCAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTCAGT
* ** ** * * *
85895 CTACTTGTTGGCTTTGACCTTGGAGACTACCTCAAC-TCAAGA
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTC-AGT
* * ** * * * *
85937 CTGCCTATTGGTTTTGACCCTGTAGACTTTCTTACTTTCAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTCAGT
* * * ** *
85979 CTGCCTATCAGCTTTGACCTTAGAGACTGCCTTACCTTTAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTCAGT
* * * * *
86021 TTGCTTGTCGGCTTTAACCTTGGAGAC-TTCATTTCCCTTAAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTTC--TTACCTTCAGT
* * * * * *
86064 CTGCTTGTCAACTTTTG-TCTTGGAAACTTCCTTTCCCTTAAGT
1 CTGCTTGTCAGC-TTTGACCTTGGAGACTTTC-TTACCTTCAGT
** * *
86107 CTGCTAATC-GACTTTGACCTTGGAGACTTCCTTTATCCTTAAGT
1 CTGCTTGTCAG-CTTTGACCTTGGAGACTTTC-TTA-CCTTCAGT
* * * * * * *
86151 TTGCCTATTAGCTTTGACCCTAGAGA-TTTCTTTACCATTAAGT
1 CTGCTTGTCAGCTTTGACCTTGGAGACTTTC-TTACC-TTCAGT
* *
86194 CTG-TCTGTCAGCTCTGACCCTGGAGA
1 CTGCT-TGTCAGCTTTGACCTTGGAGA
86220 TTTTTTTTCC
Statistics
Matches: 341, Mismatches: 92, Indels: 41
0.72 0.19 0.09
Matches are distributed among these distances:
41 3 0.01
42 141 0.41
43 123 0.36
44 73 0.21
45 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (42 bp):
CTGCTTGTCAGCTTTGACCTTGGAGACTTTCTTACCTTCAGT
Found at i:86506 original size:170 final size:171
Alignment explanation
Indices: 86262--86624 Score: 516
Period size: 170 Copynumber: 2.1 Consensus size: 171
86252 CTAGGTCAGC
* * *
86262 CTTTCTTACGCTTTGTTTACCTGTCGGCTATGTTCTCAGTAAACTTTTTACTCTTGGTGACCTGT
1 CTTTTTTACCCTTTGTTTACCTGTCGGCTATGTTCTCAGTAAACTTTTTACTCTTGGGGACCTGT
* * **
86327 CAGCTTTGTCCCCGGTCAGCCTTTTCTTCTCTCAAGTCTGCCTGTCGATTTTGACCCTAGAGGCT
66 CAGCTTTGTCCCCGGTCAGCCTTTTCTTCTCTCAAGTCTGCCTGTCGACTTTAACCCTAGAAACT
* * * *
86392 TCCTTTCCCTTAAGTCTTCCTGTCGACTTTGACCATGGAGA
131 TCCTTTCACTTAAGTCTGCCTATCAACTTTGACCATGGAGA
*
86433 CTTTTTTACCCTTTGTTTACCTGTCGGCTATGTTCTCAGTAAAC-TTTTACTCTTGGGGACTTGT
1 CTTTTTTACCCTTTGTTTACCTGTCGGCTATGTTCTCAGTAAACTTTTTACTCTTGGGGACCTGT
* * * *
86497 C-GACTTTGTCCCTGGTCAGCCTTTTTTTCTCTCAAGTCTGCCTGTCGACTTTAACCTTGGAAAC
66 CAG-CTTTGTCCCCGGTCAGCCTTTTCTTCTCTCAAGTCTGCCTGTCGACTTTAACCCTAGAAAC
* *
86561 TTTCTTTCACTTAAGTCTGCCTATCAACTTTGACCTTGGAGA
130 TTCCTTTCACTTAAGTCTGCCTATCAACTTTGACCATGGAGA
*
86603 -TTTCTTTAACCTTTGTTTACCT
1 CTTT-TTTACCCTTTGTTTACCT
86625 CTCAGCTTTA
Statistics
Matches: 171, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
169 4 0.02
170 125 0.73
171 42 0.25
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.42
Consensus pattern (171 bp):
CTTTTTTACCCTTTGTTTACCTGTCGGCTATGTTCTCAGTAAACTTTTTACTCTTGGGGACCTGT
CAGCTTTGTCCCCGGTCAGCCTTTTCTTCTCTCAAGTCTGCCTGTCGACTTTAACCCTAGAAACT
TCCTTTCACTTAAGTCTGCCTATCAACTTTGACCATGGAGA
Found at i:87199 original size:16 final size:15
Alignment explanation
Indices: 87163--87210 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
87153 ATATAAAATT
*
87163 AAAAATAATAAAACAA
1 AAAAATAAT-AATCAA
87179 AAAAATAATAATCAA
1 AAAAATAATAATCAA
87194 ATAAAA-AA-AATCAA
1 A-AAAATAATAATCAA
87208 AAA
1 AAA
87211 TAAAAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 2 0.07
14 7 0.23
15 8 0.27
16 13 0.43
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAATAATAATCAA
Found at i:87207 original size:14 final size:14
Alignment explanation
Indices: 87157--87217 Score: 56
Period size: 14 Copynumber: 4.3 Consensus size: 14
87147 TTTTTTATAT
*
87157 AAAATTAAAAATAA
1 AAAATCAAAAATAA
87171 TAAAA-CAAAAA-AA
1 -AAAATCAAAAATAA
87184 TAATAATCAAATAA-AA
1 -AA-AATCAAA-AATAA
87200 AAAATCAAAAATAA
1 AAAATCAAAAATAA
87214 AAAA
1 AAAA
87218 AGAAAAATCA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
13 7 0.17
14 20 0.49
15 10 0.24
16 4 0.10
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATCAAAAATAA
Found at i:91132 original size:21 final size:21
Alignment explanation
Indices: 91106--91157 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
91096 CATGGTCCTA
91106 TATCGATACATTTCAAGCATG
1 TATCGATACATTTCAAGCATG
***
91127 TATCGATACA-TTCACTTATG
1 TATCGATACATTTCAAGCATG
91147 TATCGATACAT
1 TATCGATACAT
91158 CACCTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
TATCGATACATTTCAAGCATG
Found at i:91171 original size:21 final size:20
Alignment explanation
Indices: 91124--91174 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
91114 CATTTCAAGC
91124 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
91144 ATGTATCGATACA-TCACCTT
1 ATGTATCGATACATTCA-CTT
91164 ATTGTATCGAT
1 A-TGTATCGAT
91175 GCAAATTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 3 0.10
20 17 0.59
21 9 0.31
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:91910 original size:52 final size:53
Alignment explanation
Indices: 91836--91979 Score: 145
Period size: 52 Copynumber: 2.8 Consensus size: 53
91826 GCTGATAAGG
* * * *
91836 GTGCCAATATG-TTGATTCAAGGCCAGTGATATCGGACTTAAAGATGACAAAG-
1 GTGCCAATGTGCTAGATTCAAGGCCAATGATATAGGACTTAAAGATGA-AAAGA
* * * *
91888 GTGTCAATGTGC-AGATTCAAGGCTAACGATATTAGG-CTTAAAGATGAGAAGA
1 GTGCCAATGTGCTAGATTCAAGGCCAATGATA-TAGGACTTAAAGATGAAAAGA
* *
91940 GTGCCAATGTGCTA-ATTCAAGGCCAATGACATTGGACTTA
1 GTGCCAATGTGCTAGATTCAAGGCCAATGATATAGGACTTA
91980 GAAAGAGATG
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
51 6 0.08
52 64 0.86
53 4 0.05
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (53 bp):
GTGCCAATGTGCTAGATTCAAGGCCAATGATATAGGACTTAAAGATGAAAAGA
Found at i:92122 original size:31 final size:31
Alignment explanation
Indices: 92053--92156 Score: 109
Period size: 31 Copynumber: 3.3 Consensus size: 31
92043 GATACCACCG
* * *
92053 ACTTGTGTGGGATTTTGAGAGGTTTTCCATCA
1 ACTTGTGTGGGCTTTTGA-AGGGTTGCCATCA
* *
92085 ACTTGTGTTGGCTTTTGAAGGGTTGCCATCG
1 ACTTGTGTGGGCTTTTGAAGGGTTGCCATCA
* * * * *
92116 ATTTGTGTGGGCTTTTGAAAGGTTGTCACCC
1 ACTTGTGTGGGCTTTTGAAGGGTTGCCATCA
92147 ACTTGTGTGG
1 ACTTGTGTGG
92157 TTACCACCGA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
31 44 0.73
32 16 0.27
ACGTcount: A:0.15, C:0.14, G:0.31, T:0.39
Consensus pattern (31 bp):
ACTTGTGTGGGCTTTTGAAGGGTTGCCATCA
Found at i:92240 original size:32 final size:32
Alignment explanation
Indices: 92155--92227 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
92145 CCACTTGTGT
*
92155 GGTTACCACCGACTTGTGTAGGCTTTGAAAAG
1 GGTTACCACCGACTTGTGTGGGCTTTGAAAAG
*
92187 GGTTGCCACCGACTTGTGTGGGCTTTGAAAAG
1 GGTTACCACCGACTTGTGTGGGCTTTGAAAAG
92219 GGTTACCAC
1 GGTTACCAC
92228 TAACTTATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (32 bp):
GGTTACCACCGACTTGTGTGGGCTTTGAAAAG
Found at i:92489 original size:30 final size:30
Alignment explanation
Indices: 92345--92648 Score: 146
Period size: 32 Copynumber: 10.1 Consensus size: 30
92335 GGATTTCAAC
* * *
92345 AAAAGGGTGCCAC-GAAGTTGTAGTCTTTAAA
1 AAAAAGGTGCCACAG-AGTTATAGACTTT-AA
* *
92376 AAAATGAGGTGCCACAAAGTTATGGACTTTAAGAA
1 AAAA--AGGTGCCACAGAGTTATAGACTTT---AA
92411 AAAAAGGTGCCACAGAGTTATAGACTTT--
1 AAAAAGGTGCCACAGAGTTATAGACTTTAA
* * *
92439 AAAAAGGTTGCCA-TGAAGTTGTGGACTTTAA
1 AAAAAGG-TGCCACAG-AGTTATAGACTTTAA
* * * *
92470 AAAAAGGTACCACGGAGTTGTCGACTTTAAGA
1 AAAAAGGTGCCACAGAGTTATAGACTTT-A-A
*
92502 AAAAAGGTGCCATAGAGTTATAGACTTTAA
1 AAAAAGGTGCCACAGAGTTATAGACTTTAA
* * * *
92532 GAAAAATGGTGCCATAAAGTTATGGGCTTT-A
1 -AAAAA-GGTGCCACAGAGTTATAGACTTTAA
** *
92563 AAAGGGGTGCCAC-GAAGTTGTAGAC-TT-A
1 AAAAAGGTGCCACAG-AGTTATAGACTTTAA
*** * *
92591 AATGGGGTGCCACAGAGTTGTGGAC-TT--
1 AAAAAGGTGCCACAGAGTTATAGACTTTAA
* * *
92618 AAGAGGGTGCCATAGAGTTATAGAC-TTAA
1 AAAAAGGTGCCACAGAGTTATAGACTTTAA
92647 AA
1 AA
92649 GGGTACTACG
Statistics
Matches: 219, Mismatches: 36, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
27 22 0.10
28 34 0.16
29 33 0.15
30 20 0.09
31 20 0.09
32 44 0.20
33 40 0.18
35 6 0.03
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
AAAAAGGTGCCACAGAGTTATAGACTTTAA
Found at i:92520 original size:32 final size:31
Alignment explanation
Indices: 92345--92565 Score: 157
Period size: 32 Copynumber: 7.0 Consensus size: 31
92335 GGATTTCAAC
* * *
92345 AAAAGGGTGCCAC-GAAGTTGTAGTCTTTAAA
1 AAAAAGGTGCCACAG-AGTTATAGACTTTAAA
* *
92376 AAAATGAGGTGCCACAAAGTTATGGACTTTAAGAA
1 AAAA--AGGTGCCACAGAGTTATAGACTTT-A-AA
92411 AAAAAGGTGCCACAGAGTTATAGACTTT---
1 AAAAAGGTGCCACAGAGTTATAGACTTTAAA
* * *
92439 AAAAAGGTTGCCA-TGAAGTTGTGGACTTT-AA
1 AAAAAGG-TGCCACAG-AGTTATAGACTTTAAA
* * * *
92470 AAAAAGGTACCACGGAGTTGTCGACTTTAAGA
1 AAAAAGGTGCCACAGAGTTATAGACTTTAA-A
*
92502 AAAAAGGTGCCATAGAGTTATAGACTTTAAGA
1 AAAAAGGTGCCACAGAGTTATAGACTTTAA-A
* * * * *
92534 AAAATGGTGCCATAAAGTTATGGGCTTTAAA
1 AAAAAGGTGCCACAGAGTTATAGACTTTAAA
92565 A
1 A
92566 GGGGTGCCAC
Statistics
Matches: 156, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
28 8 0.05
29 16 0.10
30 16 0.10
31 15 0.10
32 54 0.35
33 40 0.26
34 1 0.01
35 6 0.04
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAAAGGTGCCACAGAGTTATAGACTTTAAA
Found at i:92531 original size:91 final size:94
Alignment explanation
Indices: 92345--92531 Score: 254
Period size: 91 Copynumber: 2.0 Consensus size: 94
92335 GGATTTCAAC
* * *
92345 AAAAGGGTGCCACGAAGTTGTAGTCTTTAAAAAAATGAGGTGCCACAAAGTTATGGACTTTAAGA
1 AAAAGGGTGCCACGAAGTTGTAGACTTTAAAAAAA-GAGGTACCACAAAGTTATCGACTTTAAGA
92410 AAAAAAGGTGCCACAGAGTTATAGACTTTA
65 AAAAAAGGTGCCACAGAGTTATAGACTTTA
* * * ** *
92440 AAAAGGTTGCCATGAAGTTGTGGACTTT-AAAAAA-AGGTACCACGGAGTTGTCGACTTTAAG-A
1 AAAAGGGTGCCACGAAGTTGTAGACTTTAAAAAAAGAGGTACCACAAAGTTATCGACTTTAAGAA
*
92502 AAAAAGGTGCCATAGAGTTATAGACTTTA
66 AAAAAGGTGCCACAGAGTTATAGACTTTA
92531 A
1 A
92532 GAAAAATGGT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
91 30 0.37
92 22 0.27
94 6 0.07
95 24 0.29
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (94 bp):
AAAAGGGTGCCACGAAGTTGTAGACTTTAAAAAAAGAGGTACCACAAAGTTATCGACTTTAAGAA
AAAAAGGTGCCACAGAGTTATAGACTTTA
Found at i:92566 original size:91 final size:90
Alignment explanation
Indices: 92400--92589 Score: 231
Period size: 91 Copynumber: 2.1 Consensus size: 90
92390 CAAAGTTATG
* *
92400 GACTTTAAGAAAAAAAGGTGCCACAGAGTTATAGACTTTAAAAAGGTTGCCATGAAGTTGTGGAC
1 GACTTTAAGAAAAAAAGGTGCCACAGAGTTATAGACTTTAAAAAGGTTGCCATAAAGTTATGGAC
92465 TTTAAAAAAAGGTACCACGGAGTTGTC
66 TTT--AAAAAGGTACCACGGAGTTGTC
*
92492 GACTTTAAG-AAAAAAGGTGCCATAGAGTTATAGACTTTAAGAAAAATGG-TGCCATAAAGTTAT
1 GACTTTAAGAAAAAAAGGTGCCACAGAGTTATAGACTTT---AAAAA-GGTTGCCATAAAGTTAT
* * * * *
92555 GGGCTTTAAAAGGGGTGCCACGAAGTTGTA
62 GGACTTTAAAA-AGGTACCACGGAGTTGTC
92585 GACTT
1 GACTT
92590 AAATGGGGTG
Statistics
Matches: 85, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
91 28 0.33
92 13 0.15
93 19 0.22
94 23 0.27
95 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (90 bp):
GACTTTAAGAAAAAAAGGTGCCACAGAGTTATAGACTTTAAAAAGGTTGCCATAAAGTTATGGAC
TTTAAAAAGGTACCACGGAGTTGTC
Found at i:92574 original size:123 final size:126
Alignment explanation
Indices: 92332--92589 Score: 310
Period size: 123 Copynumber: 2.1 Consensus size: 126
92322 GCCTCTGAGC
* * *
92332 TGTGGA-TTTCAACAAAAGGGTGCCACGAAGTTGTAGTCTTTAAAAAAATGAGGTGCCACAAAGT
1 TGTGGACTTTCAACAAAAAGGTACCACGAAGTTGTAGACTTTAAAAAAA-GAGGTGCCACAAAGT
* * * *
92396 TATGGACTTTAAGAAAAAAAGGTGCCACAGAGTTATAGACTTTAAAAAGGTTGCCATGAAGT
65 TATAGACTTTAAGAAAAAAAGGTGCCACAAAGTTATAGACTTTAAAAAGGGTGCCACGAAGT
* * * *
92458 TGTGGACTTT-AA-AAAAAGGTACCACGGAGTTGTCGACTTTAAGAAAAA-AGGTGCCATAGAGT
1 TGTGGACTTTCAACAAAAAGGTACCACGAAGTTGTAGACTTTAA-AAAAAGAGGTGCCACAAAGT
* * * * *
92520 TATAGACTTTAAG-AAAAATGGTGCCATAAAGTTATGGGCTTTAAAAGGGGTGCCACGAAGT
65 TATAGACTTTAAGAAAAAAAGGTGCCACAAAGTTATAGACTTTAAAAAGGGTGCCACGAAGT
*
92581 TGTAGACTT
1 TGTGGACTT
92590 AAATGGGGTG
Statistics
Matches: 113, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
123 48 0.42
124 24 0.21
125 25 0.22
126 13 0.12
127 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (126 bp):
TGTGGACTTTCAACAAAAAGGTACCACGAAGTTGTAGACTTTAAAAAAAGAGGTGCCACAAAGTT
ATAGACTTTAAGAAAAAAAGGTGCCACAAAGTTATAGACTTTAAAAAGGGTGCCACGAAGT
Found at i:92580 original size:29 final size:28
Alignment explanation
Indices: 92539--92651 Score: 102
Period size: 28 Copynumber: 4.0 Consensus size: 28
92529 TAAGAAAAAT
* * *
92539 GGTGCCATAAAGTTATGGGCTTTAAAAGG
1 GGTGCCACAAAGTTATAGAC-TTAAAAGG
* * *
92568 GGTGCCACGAAGTTGTAGACTTAAATGG
1 GGTGCCACAAAGTTATAGACTTAAAAGG
* * * *
92596 GGTGCCACAGAGTTGTGGACTTAAGA-G
1 GGTGCCACAAAGTTATAGACTTAAAAGG
* *
92623 GGTGCCATAGAGTTATAGACTTAAAAGG
1 GGTGCCACAAAGTTATAGACTTAAAAGG
92651 G
1 G
92652 TACTACGAAG
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
27 23 0.34
28 30 0.44
29 15 0.22
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (28 bp):
GGTGCCACAAAGTTATAGACTTAAAAGG
Found at i:92592 original size:28 final size:28
Alignment explanation
Indices: 92560--92651 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
92550 GTTATGGGCT
92560 TTAAAAGGGGTGCCAC-GAAGTTGTAGAC
1 TTAAAAGGGGTGCCACAG-AGTTGTAGAC
* *
92588 TTAAATGGGGTGCCACAGAGTTGTGGAC
1 TTAAAAGGGGTGCCACAGAGTTGTAGAC
* * *
92616 TTAAGA-GGGTGCCATAGAGTTATAGAC
1 TTAAAAGGGGTGCCACAGAGTTGTAGAC
92643 TTAAAAGGG
1 TTAAAAGGG
92652 TACTACGAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.43
28 30 0.56
29 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.24
Consensus pattern (28 bp):
TTAAAAGGGGTGCCACAGAGTTGTAGAC
Found at i:92634 original size:27 final size:26
Alignment explanation
Indices: 92567--92652 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
92557 GCTTTAAAAG
92567 GGGTGCCAC-GAAGTTGTAGACTTAAA
1 GGGTGCCACAG-AGTTGTAGACTTAAA
*
92593 TGGGGTGCCACAGAGTTGTGGACTTAAGA
1 --GGGTGCCACAGAGTTGTAGACTTAA-A
* *
92622 GGGTGCCATAGAGTTATAGACTTAAAA
1 GGGTGCCACAGAGTTGTAGACTT-AAA
92649 GGGT
1 GGGT
92653 ACTACGAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
27 25 0.49
28 24 0.47
29 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (26 bp):
GGGTGCCACAGAGTTGTAGACTTAAA
Found at i:92697 original size:32 final size:32
Alignment explanation
Indices: 92661--92815 Score: 122
Period size: 30 Copynumber: 4.8 Consensus size: 32
92651 GTACTACGAA
92661 GTCATGGACTTTGAAAAAAAAGATGCCACTAG
1 GTCATGGACTTTGAAAAAAAAGATGCCACTAG
* ** *
92693 GTCATGGACTTTG--AGAGGAGATGCCATTTA-
1 GTCATGGACTTTGAAAAAAAAGATGCCA-CTAG
* * *
92723 ATCATGGACTTTG-AAGAAAAGATGTCACT-G
1 GTCATGGACTTTGAAAAAAAAGATGCCACTAG
* * *
92753 ACTCGTGGACTTTGAAAGAAAAAGATGCCACTAA
1 -GTCATGGACTTTGAAA-AAAAAGATGCCACTAG
*
92787 GTCATGGACTTGGAGGAAAAAAAAGATGC
1 GTCATGGACTT---TGAAAAAAAAGATGC
92816 GATTGAGTCG
Statistics
Matches: 96, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
30 23 0.24
31 23 0.24
32 15 0.16
33 21 0.22
35 10 0.10
36 4 0.04
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (32 bp):
GTCATGGACTTTGAAAAAAAAGATGCCACTAG
Found at i:92797 original size:64 final size:62
Alignment explanation
Indices: 92659--92806 Score: 149
Period size: 64 Copynumber: 2.4 Consensus size: 62
92649 GGGTACTACG
* * ** *
92659 AAGTCATGGACTTTGAAAAAAAAGATGCCACTAGGTCATGGACTTTGAGAGGAGATGCCATTT
1 AAGTCATGGACTTTG-AAGAAAAGATGCCACTAGCTCATGGACTTTGAGAAAAGATGCCATCT
* *
92722 AA-TCATGGACTTTGAAGAAAAGATGTCACT-GACTCGTGGACTTTGAAAGAAAAAGATGCCA-C
1 AAGTCATGGACTTTGAAGAAAAGATGCCACTAG-CTCATGGACTTTG--AG-AAAAGATGCCATC
92784 T
62 T
* *
92785 AAGTCATGGACTTGGAGGAAAA
1 AAGTCATGGACTTTGAAGAAAA
92807 AAAAGATGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
60 1 0.01
61 25 0.35
62 12 0.17
63 7 0.10
64 26 0.37
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (62 bp):
AAGTCATGGACTTTGAAGAAAAGATGCCACTAGCTCATGGACTTTGAGAAAAGATGCCATCT
Found at i:92865 original size:99 final size:98
Alignment explanation
Indices: 92662--92911 Score: 240
Period size: 99 Copynumber: 2.5 Consensus size: 98
92652 TACTACGAAG
* * ** *
92662 TCATGGACTTTGAAAAAAAAGATGCCACTAGGTCATGGACTTTGA-G----AGGAGATGCCATTT
1 TCATGGACTTTGAAAAAAAAGATGCCACTAAGTCATGGACTTGGAGGAAAAAAAAGATGCCATTG
* * *
92722 AATCATGGACTTTGAAGAAAAGATGTCACTGAC
66 AATCATGAACTTTAAAGAAAAGATGACACTGAC
* *
92755 TCGTGGACTTTGAAAGAAAAAGATGCCACTAAGTCATGGACTTGGAGGAAAAAAAAGATGCGATT
1 TCATGGACTTTGAAA-AAAAAGATGCCACTAAGTCATGGACTTGGAGGAAAAAAAAGATGCCATT
* * ** *
92820 GAGTCGTGAACTTTAAAGAAGGGATGACATTGAC
65 GAATCATGAACTTTAAAGAAAAGATGACACTGAC
** * *
92854 TCATGGACTTTGAAGAAAAAAAAAGATGCCTTTGAGTCATGGACTTTGTAGGAAAAAA
1 TCATGGACTTT---G-AAAAAAAAGATGCCACTAAGTCATGGAC-TTGGAGGAAAAAA
92912 TATGCCACTG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
93 14 0.11
94 28 0.22
95 1 0.01
99 45 0.36
102 23 0.18
103 15 0.12
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (98 bp):
TCATGGACTTTGAAAAAAAAGATGCCACTAAGTCATGGACTTGGAGGAAAAAAAAGATGCCATTG
AATCATGAACTTTAAAGAAAAGATGACACTGAC
Found at i:92924 original size:34 final size:35
Alignment explanation
Indices: 92660--92930 Score: 132
Period size: 31 Copynumber: 8.3 Consensus size: 35
92650 GGTACTACGA
92660 AGTCATGGACTTT---GAAAAAAAAGATGCCACT-
1 AGTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
** * *
92691 AGGTCATGGACTTTG-AG----AGGAGATGCCATTT
1 A-GTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
* *
92722 AATCATGGACTTTGAAG----AAAAGATGTCACTG
1 AGTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
* * * *
92753 ACTCGTGGACTTTG-A-AAGAAAAAGATGCCACTA
1 AGTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
* * * *
92786 AGTCATGGACTTGGAGGAAAAAAAAGATGCGATTG
1 AGTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
* * * ** * *
92821 AGTCGTGAACTTT----AAAGAAGGGATGACATTG
1 AGTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
* **
92852 ACTCATGGACTTTGAAGAAAAAAAAAGATGCCTTTG
1 AGTCATGGACTTTGAAG-AAAAAAAAGATGCCACTG
* * *
92888 AGTCATGGACTTTGTAG-GAAAAAATATGCCACTG
1 AGTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
*
92922 AGTCGTGGA
1 AGTCATGGA
92931 TTTTAGAAAA
Statistics
Matches: 180, Mismatches: 44, Indels: 29
0.71 0.17 0.11
Matches are distributed among these distances:
30 23 0.13
31 48 0.27
32 12 0.07
33 23 0.13
34 22 0.12
35 24 0.13
36 28 0.16
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (35 bp):
AGTCATGGACTTTGAAGAAAAAAAAGATGCCACTG
Found at i:96131 original size:13 final size:13
Alignment explanation
Indices: 96113--96138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96103 TACACCAAGT
96113 ATGTATCGATACA
1 ATGTATCGATACA
96126 ATGTATCGATACA
1 ATGTATCGATACA
96139 CAAAAAATTG
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:96136 original size:32 final size:33
Alignment explanation
Indices: 96095--96158 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
96085 TAGCCAAACT
* **
96095 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
96127 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
96159 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:96659 original size:34 final size:35
Alignment explanation
Indices: 96596--96662 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
96586 CTAAGTGATT
96596 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
96632 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
96663 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Done.