Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008251.1 Hibiscus syriacus cultivar Beakdansim tig00110903_pilon, whole genome shotgun sequence
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: 521115
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:2441 original size:181 final size:183
Alignment explanation
Indices: 1821--2826 Score: 1730
Period size: 183 Copynumber: 5.6 Consensus size: 183
1811 TTTTAAATGG
* *
1821 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1886 TAAAACCGGTATATTTATA-CGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACA-TATAATTATGGGTTCC
1950 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2004 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2069 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATATAATTATGGGTTCCG
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATATAATTATGGGTTCCG
2134 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
2187 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACC--TTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2250 TAAAACCGGTATATTTATACCGGTTATATTA-TAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACA-TATAATTATGGGTTCC
2314 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACA-TTTTCTTCC-A
130 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2366 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2431 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACAT-TAATTATGGGTTCCG
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATATAATTATGGGTTCCG
*
2495 ATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
2548 TATGGACATAAAGTA-CGACACAATATTAAAAAGTGTCGATATA-GTTGT--ACCTATTGGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
* *
2609 TAAAATCGG--TATTTATACCGGTTATATTA-TAAATTATCTATTACATATAATTATGGG-T-CG
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATATAATTATGGGTTCCG
2669 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2722 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATT--CGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2784 TAAGACCGG--TATTTATACCGGTTATATTACAAAATTATCTATT
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
2827 TTATTATAAT
Statistics
Matches: 788, Mismatches: 22, Indels: 33
0.93 0.03 0.04
Matches are distributed among these distances:
174 84 0.11
175 64 0.08
176 42 0.05
177 7 0.01
178 18 0.02
179 56 0.07
180 84 0.11
181 168 0.21
182 31 0.04
183 206 0.26
184 28 0.04
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATATAATTATGGGTTCCG
ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:4273 original size:3 final size:3
Alignment explanation
Indices: 4265--4351 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
4255 ACTTGTTTGG
* * * **
4265 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
4313 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
4352 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:4288 original size:18 final size:18
Alignment explanation
Indices: 4265--4366 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
4255 ACTTGTTTGG
4265 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
4283 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
4301 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
4319 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
4337 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
4355 AGCTTCATCTTC
1 ATCATCATCTTC
4367 TGCGACTGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:4332 original size:42 final size:42
Alignment explanation
Indices: 4273--4363 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
4263 GGATCATCAT
*
4273 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
4315 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
4357 CTTCATC
1 CTTCATC
4364 TTCTGCGACT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:6383 original size:194 final size:196
Alignment explanation
Indices: 5797--7372 Score: 2526
Period size: 193 Copynumber: 8.1 Consensus size: 196
5787 TTTAAATTAG
* * *
5797 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCT-TCATAAAACCGGTATT
1 TATCGACAC-AAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
5861 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
5926 CGACACGTTTTATATATGGATCGACACTTTATGGGGCACCTTG-TTTTAATTCATTCTGGGAAAA
129 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
5990 AAA
194 AAA
5993 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6058 ATTGTACGGTTAGATTGAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACGGTTAGATTG-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6123 CGACAC-TTTT-TATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGG-AA
129 CGACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6185 AAAA
193 AAAA
6189 TATCGACACAAAC-TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
1 TATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
6253 TTGTACCGGTTAGATT-AAAAATTACATATTACATTATAC-TTTGGGTTCGATGA-TTTGGGATC
66 TTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
6315 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTTGTTTTTAATTCATTCTGGGAAAA
130 GACACTTTTTATATATGGATCGACACTTTATGG-TGCACCTTGTTTTTAATTCATTCTGGGAAAA
6380 AAA
194 AAA
6383 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TA-T-TCTCATAAAAACCGGTAT
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAAACCGGTAT
6445 AATTGTACCGGTTAGATTGAAAAATTAC--ATTACATTATAC-TTTGGGTTCGATGA-TTT-GGA
64 AATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
6505 TCGACACTTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
128 TCGACAC-TTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTTAATTCATTCTGGGA
6569 AAAAAA
191 AAAAAA
6575 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6639 ATTGTACCGGTTAGCTTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTA-CGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6704 CGACACTTTTT-TATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCT-GAAAA
129 CGACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6767 AAAA
193 AAAA
6771 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6835 ATTGTACGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
65 ATTGTACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
6899 GACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGGAAAAA
130 GACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
6963 AAA
194 AAA
*
6966 TATCGACACAAACATA-TAGTATCGACACATTATTTAGACTTATTCTCTCATAAAA-CGGTATAA
1 TATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
*
7029 TTGTACGGTTAGATTG-AAAATTACAGATTACATTATAACTTTTGGGTTTCGATGATTTTGGGAT
66 TTGTACGGTTAGATTGAAAAATTACATATTACATTAT-ACTTTTGGG-TTCGATGATTTTGGGAT
*
7093 CGACACTTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAA-TCATTCT-GGAAA
129 CGACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
7155 AAAA
193 AAAA
*
7159 -ATCCACACACAAACTATATTAGTGTCGACACATTA-TTAGACTTA-T-TCTCATAAAA-CGGTA
1 TAT-C-GACACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
7219 TAATTGTACGGTTAGATT-AAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGA
63 TAATTGTACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
* *
7282 TCGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
128 TCGACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGGAA
7346 AAAAA
192 AAAAA
7351 TATCGACACAAACTATATTAGT
1 TATCGACACAAAC-ATATTAGT
7373 ACGACATGAC
Statistics
Matches: 1322, Mismatches: 16, Indels: 89
0.93 0.01 0.06
Matches are distributed among these distances:
189 20 0.02
190 46 0.03
191 49 0.04
192 119 0.09
193 283 0.21
194 252 0.19
195 179 0.14
196 235 0.18
197 128 0.10
198 11 0.01
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (196 bp):
TATCGACACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
TTGTACGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAA
A
Found at i:6762 original size:389 final size:392
Alignment explanation
Indices: 5797--7372 Score: 2590
Period size: 389 Copynumber: 4.1 Consensus size: 392
5787 TTTAAATTAG
* * *
5797 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCT-TCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
5861 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
5926 CGACACGTTTTATATATGGATCGACACTTTATGGGGCACCTTG-TTTTAATTCATTCTGGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCTTGTTTTTAATTCATTCT-GGAAAA
5990 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
6055 ATAATTGTACGGTTAGATTGAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTACGGTTAGATT--AAAAATTACA-ATTACATTATACTTTTGGGTTCGATGATTTTGG
* *
6120 GATCGACACTTTT-TATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGG-G
322 GATCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAA
6183 AAAAAA
387 AAAAAA
6189 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6252 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATAC-TTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
6314 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGG-TGCACCTTGTTTTTAATTCATTCT-GGAAA
6379 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TA-T-TCTCATAAAAACCG
194 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAAACCG
6441 GTATAATTGTACCGGTTAGATTGAAAAATTAC-ATTACATTATAC-TTTGGGTTCGATGA-TTT-
258 GTATAATTGTA-CGGTTAGATT-AAAAATTACAATTACATTATACTTTTGGGTTCGATGATTTTG
* *
6502 GGATCGACACTTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTG
321 GGATCGACAC--TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
*
6566 GGAAAAAAA
384 GAAAAAAAA
6575 TATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6639 ATTGTACCGGTTAGCTTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6704 CGACACTTTTT-TATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
6768 AAATATCGACACAAACTATATTAGTGTCGACACA-TATTTAGACTTATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
6832 ATAATTGTACGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
260 ATAATTGTACGGTTAGATTAAAAATTACA-ATTACATTATACTTTTGGGTTCGATGATTTTGGGA
6897 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTAATTCATTCTGGAAA
324 TCGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
6961 AAAAA
388 AAAAA
*
6966 TATCGACACAAAC-ATA-TAGTATCGACACATTATTTAGACTTATTCTCTCATAAAA-CGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
7028 ATTGTA-CGGTTAGATTG-AAAATTACAGATTACATTATAACTTTTGGGTTTCGATGATTTTGGG
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT-ACTTTTGGG-TTCGATGATTTTGGG
*
7091 ATCGACACTTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAA-TCATTCTGGAA
129 ATCGACACTTTTTATATATGGATCGACACTTTA-TGGTGCACCTTGTTTTTAATTCATTCTGGAA
*
7154 AAAAA-ATCCACACACAAACTATATTAGTGTCGACACATTA-TTAGACTTA-T-TCTCATAAAA-
193 AAAAATAT-C-GACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
7214 CGGTATAATTGTACGGTTAGATTAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTT
256 CGGTATAATTGTACGGTTAGATTAAAAATTACA-ATTACATTATACTTTTGGGTTCGATGATTTT
7278 GGGATCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
320 GGGATCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
7343 AAAAAAAA
385 AAAAAAAA
7351 TATCGACACAAACTATATTAGT
1 TATCGACACAAACTATATTAGT
7373 ACGACATGAC
Statistics
Matches: 1131, Mismatches: 19, Indels: 73
0.92 0.02 0.06
Matches are distributed among these distances:
383 10 0.01
384 40 0.04
385 112 0.10
386 99 0.09
387 108 0.10
388 195 0.17
389 232 0.21
390 207 0.18
391 92 0.08
392 36 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (392 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
TAATTGTACGGTTAGATTAAAAATTACAATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAA
AA
Found at i:7504 original size:19 final size:20
Alignment explanation
Indices: 7458--7501 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
7448 ATATTCACAT
*
7458 AAAAAATATAAATCGTATAC
1 AAAAATTATAAATCGTATAC
*
7478 AAAAATTATAAATCTTATAC
1 AAAAATTATAAATCGTATAC
7498 AAAA
1 AAAA
7502 TTAACTCGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAATCGTATAC
Found at i:9290 original size:33 final size:32
Alignment explanation
Indices: 9253--9317 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
9243 CATCTTAATA
*
9253 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAA-TTCTTTCACCACT
***
9286 TCACCCCTCAACACCTCTATTCTTTCACCACT
1 TCACCCCTCAACACCGAAATTCTTTCACCACT
9318 CCATCTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.25, C:0.45, G:0.02, T:0.29
Consensus pattern (32 bp):
TCACCCCTCAACACCGAAATTCTTTCACCACT
Found at i:12196 original size:220 final size:221
Alignment explanation
Indices: 11832--12264 Score: 680
Period size: 220 Copynumber: 2.0 Consensus size: 221
11822 TTAAAACTGC
11832 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTAATAGTGTTTCATGTTTTCCACCTACAATAT
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTAATAGTGTTTCATGTTTTCCACCTACAATAT
***
11897 TAATTTAATAATTTAATTTACACAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATTTA
66 T-ATTTAATAATTTAATTTACACAAAAATATTTGATTGTTTTGATATTTTATAAAATATTATTTA
* * *
11962 GCATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAGTA
130 GCACTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAAGTA
12027 TGGACAC-TTTATAAAAAGATATATACT
194 TGGACACTTTTATAAAAAGATATATACT
*
12054 TTTTGAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGTG-TTCATG-TTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTC-AATTTATTAATAGTGTTTCATGTTTTCCACCTACAAT
*
12117 ATT-TTTAATAATTTCATTTACACAAAAA-ATTTTGATTGTTTTGATATTTTATAAAATATTATT
64 ATTATTTAATAATTTAATTTACACAAAAATA-TTTGATTGTTTTGATATTTTATAAAATATTATT
* *
12180 TAG-ACTTATTATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
128 TAGCACTTA-AATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
12244 TATGGACACTTTTATAAAAAG
192 TATGGACACTTTTATAAAAAG
12265 GATAGATAAT
Statistics
Matches: 196, Mismatches: 10, Indels: 12
0.90 0.05 0.06
Matches are distributed among these distances:
219 27 0.14
220 106 0.54
222 21 0.11
223 28 0.14
224 14 0.07
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (221 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTAATAGTGTTTCATGTTTTCCACCTACAATAT
TATTTAATAATTTAATTTACACAAAAATATTTGATTGTTTTGATATTTTATAAAATATTATTTAG
CACTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAGTATG
GACACTTTTATAAAAAGATATATACT
Found at i:18529 original size:60 final size:59
Alignment explanation
Indices: 18424--18540 Score: 135
Period size: 60 Copynumber: 2.0 Consensus size: 59
18414 ATTTGAAATA
* * * *** * *
18424 ATGCCTTCAAGTTCTAGGGGAGGCATTCAACTGTGAGATTCTTCGACCTTAATGTCGGG
1 ATGCCTTCAAGTTCAAGGGAAGACATTCAACTACCAGATTCTTCGAACTAAATGTCGGG
* *
18483 ATGCCTTCAAGTTCAAAGGGAAGACATTCAACTACCAGCTTGTTCGAACTAAATGTCG
1 ATGCCTTCAAGTTC-AAGGGAAGACATTCAACTACCAGATTCTTCGAACTAAATGTCG
18541 ACATTGTGGA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 14 0.30
60 33 0.70
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (59 bp):
ATGCCTTCAAGTTCAAGGGAAGACATTCAACTACCAGATTCTTCGAACTAAATGTCGGG
Found at i:20943 original size:16 final size:17
Alignment explanation
Indices: 20909--20942 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
20899 ATACAATTCG
20909 AACATTTAAATAATAAA
1 AACATTTAAATAATAAA
20926 AACA-TTAAAT-ATAAA
1 AACATTTAAATAATAAA
20941 AA
1 AA
20943 ATATTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 6 0.35
17 4 0.24
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AACATTTAAATAATAAA
Found at i:21265 original size:21 final size:21
Alignment explanation
Indices: 21204--21324 Score: 54
Period size: 21 Copynumber: 5.8 Consensus size: 21
21194 GTGAGTTTGG
** *
21204 GATCGATCCCTTCATTAAAAG
1 GATCGATCCCTTTGTTAAAAA
* * *
21225 GATCAATCCC-TAGATGAAAAA
1 GATCGATCCCTTTG-TTAAAAA
*
21246 GATCGATCCCTTTGTTAAAAC
1 GATCGATCCCTTTGTTAAAAA
* **
21267 GGTCGA--AATTT-TTGAAAAA
1 GATCGATCCCTTTGTT-AAAAA
* *
21286 GGATTGATCCCTTTTGTT-AAAG
1 -GATCGATCCC-TTTGTTAAAAA
21308 GATCGATCCCTTGTGTT
1 GATCGATCCCTT-TGTT
21325 TTAAATGTTG
Statistics
Matches: 72, Mismatches: 19, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
18 2 0.03
19 7 0.10
20 7 0.10
21 46 0.64
22 5 0.07
23 3 0.04
24 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (21 bp):
GATCGATCCCTTTGTTAAAAA
Found at i:23144 original size:23 final size:23
Alignment explanation
Indices: 23114--23211 Score: 119
Period size: 23 Copynumber: 4.3 Consensus size: 23
23104 TCGAGAGTTC
**
23114 TATGTGGTCCTTTGGGACAAAAT
1 TATGTGGTCCTTCAGGACAAAAT
*
23137 TATGTGGTCCTTTAGGACAAAAT
1 TATGTGGTCCTTCAGGACAAAAT
* *
23160 TATGTGGTCCTTCAAGACAAAACC
1 TATGTGGTCCTTCAGGACAAAA-T
*
23184 TATGTGGTCCTTCGGGAC--AAT
1 TATGTGGTCCTTCAGGACAAAAT
23205 TATGTGG
1 TATGTGG
23212 CACTTCGGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.10
22 2 0.03
23 42 0.63
24 16 0.24
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (23 bp):
TATGTGGTCCTTCAGGACAAAAT
Found at i:24462 original size:21 final size:21
Alignment explanation
Indices: 24412--24473 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
24402 ATCTAACCTA
* *
24412 GCTGTGGTGGCATCTGAAATG
1 GCTGTGGTGCCATCTGAAACG
* **
24433 G-TCGCGGTGTAATCTGAAACG
1 GCT-GTGGTGCCATCTGAAACG
24454 GCTGTGGTGCCATCTGAAAC
1 GCTGTGGTGCCATCTGAAAC
24474 TATTGCGAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (21 bp):
GCTGTGGTGCCATCTGAAACG
Found at i:27956 original size:21 final size:21
Alignment explanation
Indices: 27930--27969 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27920 CAAAAATTGG
27930 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
*
27951 TAACAATTGATATCTTTTT
1 TAACAATTGATATCATTTT
27970 CATTAAGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:38499 original size:928 final size:925
Alignment explanation
Indices: 36660--38512 Score: 3045
Period size: 928 Copynumber: 2.0 Consensus size: 925
36650 AATGTCCTTG
*
36660 GATAGACTATGAGAACACTGATGAACCTAAATGATGTACTGCCTCTAAAAGTTATGGAGCACGAC
1 GATAGACTATGAGAACACTGATGAACCTAAATGATGTACTGCCTCTAAAAGTTATAGAGCACGAC
* * *
36725 CCAAGTCTTTGGATATTTTGGATTCTATTACAACGTGGAAATGAAATAAATACCAACATAACACA
66 CCAAGTCTTTGGACATTTTGAATTATATTACAACGTGGAAATGAAATAAATACCAACATAACACA
*
36790 TATTTGTCTCCTCAAGAATTGATCAAGGATTATTATGATATTGATCAGATCAGCTGGTGCAATCT
131 TATTTGTCTCCTCAAGAATTGATCAAGGATGATTATGATATTGATCAGATCAGCTGGTGCAATCT
* *
36855 GTAATAAGAAGTGAATAATAGTGAAGTATTACAGTTCGAATGATTGACAAGTATTGTAATATCCC
196 GTAATAAGAAGTGAATAATAGTGAAGTATTACAGTTCGAATGATTGACAAGTAGTGTAACATCCC
* * *
36920 AAAAACCGAACAATTAACTAAAATATAAGTTTTGAAAACTTTGTGGATAATTTTGAAGAATTGAA
261 AAAAACCGAACAAGTAACTAAAATATAAGTTTTGAAAACTTTGTGGATAATTTTAAAGAATTAAA
*
36985 AAGTTCAGGGACTTAATTGAAATATCTTTGTGTAGGATTGAATAGCAAAGAAGTAAGGATGGAAG
326 AAGTTCAGGGACTTAATTGAAATATCTTTGTGTAGGATTGAATAACAAAGAAGTAAGGATGGAAG
37050 GGTATTATAGTCATTTGATAAGAAATAAATTAAAAATTCATTTGGGTGTCTATATATATATATAT
391 GGTATTATAGTCATTTGATAAGAAATAAATTAAAAATTCATTTGGGTG--T-TATATATATATAT
* *
37115 CCACGTGGAGAATGAGGAGAAAAAGAGAAAGAAATATCAGGAGACCTTGGTTCAGCTCTCTCATT
453 CCACATGGAGAATGAAGAGAAAAAGAGAAAGAAATATCAGGAGACCTTGGTTCAGCTCTCTCATT
*
37180 CTTCTTCTCTTCCCGTGACTCCTTTGGTAAGATATAGAATGCAAGCAAGTATCGAATGAGTCAAC
518 CTTCTTCTCTTCCCGTGACTCCTTTGGTAAGATATAGAACGCAAGCAAGTATCGAATGAGTCAAC
* *
37245 GAGATAAGATTGATCAAGTGAGAGATAAGAGTTAAAAGTGTTACTTTGACTAGTGAGGCCAAGGT
583 GAGATAAGATTGATCAAATGAGAGATAAGAGTTAAAAGTGTTACTTTGACTAGTGAAGCCAAGGT
* **
37310 GAGTGCATATACTTATAATATATGGTGATATGGGAAATAAGACTTGCGATGAGTCTATTTCCAAT
648 GAGTGCATATACTTATAATATACGGTGATATAAGAAATAAGACTTGCGATGAGTCTATTTCCAAT
* * *
37375 ATTATGATTTTATGAACAATAGTATGTTGTTAATATGGTTTCTATGTGTGTATGAATAAGAGTAT
713 ATTATAATTTCATGAACAATAATATGTTGTTAATATGGTTTCTATGTGTGTATGAATAAGAGTAT
37440 AGTTAGTAGCTTTTAGTATATGAACATGTATTGTTATATTCTCTATTATGTGATATGATCTATGT
778 AGTTAGTAGCTTTTAGTATATGAACATGTATTGTTATATTCTCTATTATGTGATATGATCTATGT
* ** *
37505 GATTAGGGGAAATTGTGACATAAGCTATATGATATTGAACTAAGTGAAAATATGAGAATTTGATA
843 GATTAGGGGAAATTGCGACATAAGCTATATGATACCGAACTAAGTGAAAATATGAGAATATGATA
37570 TATGTTATATGATCATTA
908 TATGTTATATGATCATTA
* *
37588 GATAGACTATGGGAACACTGATGAACCTAAATGATGTACTGCTTCTAAAAGTTATAGAGCACGAC
1 GATAGACTATGAGAACACTGATGAACCTAAATGATGTACTGCCTCTAAAAGTTATAGAGCACGAC
* *
37653 CCAAGTCTTTGGACATTTTGAATTATATTACAACGTGGAAATGAAATAAATACCAACATAATACC
66 CCAAGTCTTTGGACATTTTGAATTATATTACAACGTGGAAATGAAATAAATACCAACATAACACA
* * *
37718 TATTTGTTTCCTCAAGAATTGGTCAAGGATGATTATGATATTGATCAGATCAGCTGGTGCAGTCT
131 TATTTGTCTCCTCAAGAATTGATCAAGGATGATTATGATATTGATCAGATCAGCTGGTGCAATCT
* *
37783 TTAATAAGAAGTGAATAATAGTGAAGTATTACGGTTCGAATGATTGACAAGTAGTGTAACATCCC
196 GTAATAAGAAGTGAATAATAGTGAAGTATTACAGTTCGAATGATTGACAAGTAGTGTAACATCCC
* ** * * *
37848 AAAAACTGGGCTAGTGACTAAAATGTAAGTTTT-AGAAACTTTGTGG-TCAATTTTAAAGAATTA
261 AAAAACCGAACAAGTAACTAAAATATAAGTTTTGA-AAACTTTGTGGAT-AATTTTAAAGAATTA
* *
37911 AAAAGTTTAGGGACTTAATTGGAATATCTTTGTGTAGGATTGAATAACAAAGAAGTAAGGATGGA
324 AAAAGTTCAGGGACTTAATTGAAATATCTTTGTGTAGGATTGAATAACAAAGAAGTAAGGATGGA
* * * *
37976 AGGGTATTATGGTTATTTGATAAGAAATGAATTAAAAATTCATTT-GG-G-TATCTATATATATC
389 AGGGTATTATAGTCATTTGATAAGAAATAAATTAAAAATTCATTTGGGTGTTATATATATATATC
*
38038 CACATGGAGAATGAAGAGGAAAAA-AGAAAGAAATATCTGGAGACCTTGGTTCAGCTCTCTCATT
454 CACATGGAGAATGAAGA-GAAAAAGAGAAAGAAATATCAGGAGACCTTGGTTCAGCTCTCTCATT
* * *
38102 -TTCTTCTCTTTCCGTGACTCCTTTGGTAAGATATAGAACGCCAGCAAGTATCGGATGAGTCAAC
518 CTTCTTCTCTTCCCGTGACTCCTTTGGTAAGATATAGAACGCAAGCAAGTATCGAATGAGTCAAC
*
38166 GAGATAAGATTGATCAAATGAGAGATAAGAGTTAAAAGTGTTACTTTGACTAGTGAAGTCAAGGT
583 GAGATAAGATTGATCAAATGAGAGATAAGAGTTAAAAGTGTTACTTTGACTAGTGAAGCCAAGGT
*
38231 GAGTGCATATACTTATAATATACGGTGATATAAGAAATAAGACTTGCGATGTGTCTATTTCCAAT
648 GAGTGCATATACTTATAATATACGGTGATATAAGAAATAAGACTTGCGATGAGTCTATTTCCAAT
* *
38296 ATTCTAATTTCATGAACAATAATATGTTGTTAATATGGTTTCTATGTGTGTATGAATATGAGTAT
713 ATTATAATTTCATGAACAATAATATGTTGTTAATATGGTTTCTATGTGTGTATGAATAAGAGTAT
* *
38361 AGTTAGTAGCTTTTAGTATATGAACATGTATTGTTATATTCTTTGTTATGTGATATGATCTATGT
778 AGTTAGTAGCTTTTAGTATATGAACATGTATTGTTATATTCTCTATTATGTGATATGATCTATGT
* * * *
38426 GATTAGGGGAACTTGCGACATAAGCTATATGATACCGAACTAAGTGAAAATCTGAAAATGTGATA
843 GATTAGGGGAAATTGCGACATAAGCTATATGATACCGAACTAAGTGAAAATATGAGAATATGATA
*
38491 TATGATATATGATCATTA
908 TATGTTATATGATCATTA
38509 GATA
1 GATA
38513 TGTAAATACA
Statistics
Matches: 861, Mismatches: 61, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
921 385 0.45
922 67 0.08
923 6 0.01
926 1 0.00
927 4 0.00
928 398 0.46
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (925 bp):
GATAGACTATGAGAACACTGATGAACCTAAATGATGTACTGCCTCTAAAAGTTATAGAGCACGAC
CCAAGTCTTTGGACATTTTGAATTATATTACAACGTGGAAATGAAATAAATACCAACATAACACA
TATTTGTCTCCTCAAGAATTGATCAAGGATGATTATGATATTGATCAGATCAGCTGGTGCAATCT
GTAATAAGAAGTGAATAATAGTGAAGTATTACAGTTCGAATGATTGACAAGTAGTGTAACATCCC
AAAAACCGAACAAGTAACTAAAATATAAGTTTTGAAAACTTTGTGGATAATTTTAAAGAATTAAA
AAGTTCAGGGACTTAATTGAAATATCTTTGTGTAGGATTGAATAACAAAGAAGTAAGGATGGAAG
GGTATTATAGTCATTTGATAAGAAATAAATTAAAAATTCATTTGGGTGTTATATATATATATCCA
CATGGAGAATGAAGAGAAAAAGAGAAAGAAATATCAGGAGACCTTGGTTCAGCTCTCTCATTCTT
CTTCTCTTCCCGTGACTCCTTTGGTAAGATATAGAACGCAAGCAAGTATCGAATGAGTCAACGAG
ATAAGATTGATCAAATGAGAGATAAGAGTTAAAAGTGTTACTTTGACTAGTGAAGCCAAGGTGAG
TGCATATACTTATAATATACGGTGATATAAGAAATAAGACTTGCGATGAGTCTATTTCCAATATT
ATAATTTCATGAACAATAATATGTTGTTAATATGGTTTCTATGTGTGTATGAATAAGAGTATAGT
TAGTAGCTTTTAGTATATGAACATGTATTGTTATATTCTCTATTATGTGATATGATCTATGTGAT
TAGGGGAAATTGCGACATAAGCTATATGATACCGAACTAAGTGAAAATATGAGAATATGATATAT
GTTATATGATCATTA
Found at i:38774 original size:16 final size:16
Alignment explanation
Indices: 38745--38793 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
38735 AATAAGATAT
38745 AATAAATGTCTATGTG
1 AATAAATGTCTATGTG
38761 AA-AAATGATCTATGTG
1 AATAAATG-TCTATGTG
*
38777 AATAAATGTTTATGTG
1 AATAAATGTCTATGTG
38793 A
1 A
38794 TAAGTTATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 5 0.17
16 20 0.67
17 5 0.17
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (16 bp):
AATAAATGTCTATGTG
Found at i:38907 original size:23 final size:22
Alignment explanation
Indices: 38881--38974 Score: 109
Period size: 23 Copynumber: 4.2 Consensus size: 22
38871 GAGTCGAGGG
*
38881 TTCTACGCGGTCATTCGGGACAA
1 TTCTACGCGGTCCTTCGGGAC-A
*
38904 TTCTACGTGGTCCTTCGGGACA
1 TTCTACGCGGTCCTTCGGGACA
* *
38926 TTTCTACGCAGTCCTTCGGAACA
1 -TTCTACGCGGTCCTTCGGGACA
* *
38949 -TCTATGTGGTCCTTCGGGACA
1 TTCTACGCGGTCCTTCGGGACA
38970 TTCTA
1 TTCTA
38975 TATGGCACTT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
21 17 0.28
22 5 0.08
23 38 0.63
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (22 bp):
TTCTACGCGGTCCTTCGGGACA
Found at i:38966 original size:44 final size:46
Alignment explanation
Indices: 38881--38971 Score: 132
Period size: 44 Copynumber: 2.0 Consensus size: 46
38871 GAGTCGAGGG
* *
38881 TTCTACGCGGTCATTCGGGACAATTCTACGTGGTCCTTCGGGACAT
1 TTCTACGCAGTCATTCGGAACAATTCTACGTGGTCCTTCGGGACAT
* *
38927 TTCTACGCAGTCCTTCGGAAC-A-TCTATGTGGTCCTTCGGGACAT
1 TTCTACGCAGTCATTCGGAACAATTCTACGTGGTCCTTCGGGACAT
38971 T
1 T
38972 CTATATGGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 22 0.54
45 1 0.02
46 18 0.44
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (46 bp):
TTCTACGCAGTCATTCGGAACAATTCTACGTGGTCCTTCGGGACAT
Found at i:38985 original size:22 final size:21
Alignment explanation
Indices: 38936--38987 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
38926 TTTCTACGCA
*
38936 GTCCTTCGGAACATCTATGTG
1 GTCCTTCGGAACATCTATATG
*
38957 GTCCTTCGGGACATTCTATATG
1 GTCCTTCGGAACA-TCTATATG
38979 G-CACTTCGG
1 GTC-CTTCGG
38988 TGCAATTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (21 bp):
GTCCTTCGGAACATCTATATG
Found at i:39314 original size:30 final size:31
Alignment explanation
Indices: 39279--39338 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
39269 TGCCTAACAT
*
39279 TATATGTTATTGTTG-TTAAAT-TCATGATGA
1 TATATGTTATGGTTGATTAAATAT-ATGATGA
*
39309 TATATGTTCTGGTTGATTAAATATATGATG
1 TATATGTTATGGTTGATTAAATATATGATG
39339 TTTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 13 0.50
31 12 0.46
32 1 0.04
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (31 bp):
TATATGTTATGGTTGATTAAATATATGATGA
Found at i:39647 original size:23 final size:23
Alignment explanation
Indices: 39621--39673 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
39611 AACCTTACCA
*
39621 TATTTATGCAAATT-ATTAAGTTC
1 TATTTATG-AAATTAATTAAATTC
* *
39644 TATTTTTGAATTTAATTAAATTC
1 TATTTATGAAATTAATTAAATTC
39667 TATTTAT
1 TATTTAT
39674 TCACTTTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (23 bp):
TATTTATGAAATTAATTAAATTC
Found at i:41511 original size:30 final size:30
Alignment explanation
Indices: 41440--41499 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
41430 ACAATTTAAG
41440 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
41470 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
41500 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:41705 original size:21 final size:21
Alignment explanation
Indices: 41679--41754 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
41669 ATGCAATTAG
41679 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
*
41700 TGCATCGATGCATCCTTTCCA
1 TGCATCGATGCATCCTTGCCA
41721 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
41741 TGCATCCATGCATC
1 TGCATCGATGCATC
41755 AAGGCTGCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 17 0.33
21 35 0.67
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:43072 original size:19 final size:20
Alignment explanation
Indices: 43048--43095 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
43038 AACGATTTTC
*
43048 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
43067 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
43087 TTTTGAAAA
1 TTTTGAAAA
43096 ACGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:44269 original size:21 final size:21
Alignment explanation
Indices: 44243--44282 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44233 CAACAATTGG
44243 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
*
44264 TAACAATTGATATCTTTTT
1 TAACAATTGATATCATTTT
44283 CATTAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:44463 original size:30 final size:30
Alignment explanation
Indices: 44394--44451 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
44384 AATTTAAGGA
*
44394 AAAATATTTTTGGACTTGAATTGAATTTGC
1 AAAATGTTTTTGGACTTGAATTGAATTTGC
*
44424 AAAATGTTTTTGGATTTGAATTGAATTT
1 AAAATGTTTTTGGACTTGAATTGAATTT
44452 ATTCAAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTGC
Found at i:44672 original size:20 final size:21
Alignment explanation
Indices: 44631--44685 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
44621 ATGCAATTAG
44631 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
44652 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
44672 TGCATCCATGCATC
1 TGCATCGATGCATC
44686 AAGTCTGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:47374 original size:16 final size:17
Alignment explanation
Indices: 47353--47394 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
47343 ATATGATGAG
*
47353 GATCTATGTG-TTATAT
1 GATCTATGTGTTTACAT
*
47369 GATCTACGTGTTTACAT
1 GATCTATGTGTTTACAT
47386 GAATCTATG
1 G-ATCTATG
47395 ATATAAGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 9 0.43
17 6 0.29
18 6 0.29
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (17 bp):
GATCTATGTGTTTACAT
Found at i:47481 original size:16 final size:16
Alignment explanation
Indices: 47450--47498 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
47440 AATAAGATAT
*
47450 AATAAATGTTTATGTG
1 AATAAATGTCTATGTG
47466 AA-AAATGATCTATGTG
1 AATAAATG-TCTATGTG
47482 AATAAATGTCTATGTG
1 AATAAATGTCTATGTG
47498 A
1 A
47499 TAAGTCATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 5 0.17
16 20 0.67
17 5 0.17
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (16 bp):
AATAAATGTCTATGTG
Found at i:47628 original size:23 final size:23
Alignment explanation
Indices: 47595--47649 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
47585 GTTCTATGCA
* *
47595 GTCATTTGGGACAATTATACGTG
1 GTCATTCGGGACAATTATACGCG
*
47618 GTCATTCGGGACAATTCTACGCG
1 GTCATTCGGGACAATTATACGCG
*
47641 GTCCTTCGG
1 GTCATTCGG
47650 AACATCTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
GTCATTCGGGACAATTATACGCG
Found at i:47664 original size:21 final size:21
Alignment explanation
Indices: 47615--47691 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
47605 ACAATTATAC
* *
47615 GTGGTCATTCGGGACAATTCTAC
1 GTGGTCCTTC-GGAC-ATTCTAT
*
47638 GCGGTCCTTCGGAACA-TCTAT
1 GTGGTCCTTCGG-ACATTCTAT
47659 GTGGTCC-TCAGGACATTCTAT
1 GTGGTCCTTC-GGACATTCTAT
*
47680 GTGGTACTTCGG
1 GTGGTCCTTCGG
47692 TGCAATTTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 5 0.11
21 25 0.56
22 5 0.11
23 10 0.22
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.31
Consensus pattern (21 bp):
GTGGTCCTTCGGACATTCTAT
Found at i:51858 original size:6 final size:6
Alignment explanation
Indices: 51842--51879 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
51832 TTTCCCTAAA
51842 AAAATT AAAAATT AAAA-T -AAATT AAAATT AAAATT AAA
1 AAAATT -AAAATT AAAATT AAAATT AAAATT AAAATT AAA
51880 TTGATAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
4 3 0.10
5 2 0.07
6 18 0.62
7 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:51863 original size:10 final size:12
Alignment explanation
Indices: 51842--51879 Score: 53
Period size: 10 Copynumber: 3.2 Consensus size: 12
51832 TTTCCCTAAA
51842 AAAATTAAAAATT
1 AAAATT-AAAATT
51855 AAAA-T-AAATT
1 AAAATTAAAATT
51865 AAAATTAAAATT
1 AAAATTAAAATT
51877 AAA
1 AAA
51880 TTGATAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.39
11 1 0.04
12 9 0.39
13 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:51868 original size:16 final size:17
Alignment explanation
Indices: 51838--51881 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
51828 ATAGTTTCCC
51838 TAAAA-AAATTAAAAAT
1 TAAAATAAATTAAAAAT
51854 TAAAATAAATT-AAAAT
1 TAAAATAAATTAAAAAT
51870 TAAAATTAAATT
1 TAAAA-TAAATT
51882 GATAGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATAAATTAAAAAT
Found at i:52704 original size:21 final size:21
Alignment explanation
Indices: 52663--52705 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
52653 AACTGGAGAT
* *
52663 AAAAATTGGTACACATTAGTA
1 AAAAATGGGTACACATAAGTA
*
52684 AAAAATGGGTACACGTAAGTA
1 AAAAATGGGTACACATAAGTA
52705 A
1 A
52706 CAGGTTCCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (21 bp):
AAAAATGGGTACACATAAGTA
Found at i:59064 original size:2 final size:2
Alignment explanation
Indices: 59057--59096 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
59047 TAATCATACA
59057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
59097 TTCACTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66030 original size:26 final size:26
Alignment explanation
Indices: 65979--66031 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
65969 ATGCAAAAGA
65979 ATGAGCATTAGATAAAATGATAGACT
1 ATGAGCATTAGATAAAATGATAGACT
66005 ATGAGCATTAGATAAAATGATAGACT
1 ATGAGCATTAGATAAAATGATAGACT
66031 A
1 A
66032 GCCTTTTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (26 bp):
ATGAGCATTAGATAAAATGATAGACT
Found at i:68049 original size:7 final size:7
Alignment explanation
Indices: 68037--68061 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
68027 GCTTCACTTT
68037 GAGAAGA
1 GAGAAGA
68044 GAGAAGA
1 GAGAAGA
68051 GAGAAGA
1 GAGAAGA
68058 GAGA
1 GAGA
68062 GAGTGAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (7 bp):
GAGAAGA
Found at i:69237 original size:36 final size:36
Alignment explanation
Indices: 69162--69459 Score: 320
Period size: 36 Copynumber: 8.1 Consensus size: 36
69152 TTTTCAAAAT
*
69162 TATATAGTTTTCAAAAATGATTT-AAAACTATATA-T-
1 TATATA-TTTTC-AAAATGTTTTAAAAACTATATATTA
*
69197 TATATGTTTTCAAAATGTTTTAAAAACTATATATTA
1 TATATATTTTCAAAATGTTTTAAAAACTATATATTA
*
69233 TATATATTTTCAAAATGTTTTTAAAACTATATA-TA
1 TATATATTTTCAAAATGTTTTAAAAACTATATATTA
* * *
69268 TATATATATTCAGAAGGTTTTAAAAACTATATATTA
1 TATATATTTTCAAAATGTTTTAAAAACTATATATTA
*
69304 TATATATTTTCAAAATGATTTAAAAACTATATTATATATA
1 TATATATTTTCAAAATGTTTTAAAAAC--TA-TATAT-TA
* *
69344 TATATATATATTCAAAACGCTTTAAAAACTATATATTA
1 TATATAT-T-TTCAAAATGTTTTAAAAACTATATATTA
*
69382 TATA-AGTTTTCAAAATATTTTAAAAACTATATATTA
1 TATATA-TTTTCAAAATGTTTTAAAAACTATATATTA
* ** **
69418 TATATATAATTCAAAAATCATTTGCAAACTATATA-TA
1 TATATAT-TTTC-AAAATGTTTTAAAAACTATATATTA
69455 TATAT
1 TATAT
69460 GTATATAAAA
Statistics
Matches: 227, Mismatches: 22, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
33 9 0.04
34 16 0.07
35 37 0.16
36 86 0.38
37 13 0.06
38 27 0.12
39 10 0.04
40 11 0.05
41 1 0.00
42 17 0.07
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
TATATATTTTCAAAATGTTTTAAAAACTATATATTA
Found at i:69457 original size:78 final size:73
Alignment explanation
Indices: 69160--69453 Score: 279
Period size: 78 Copynumber: 4.0 Consensus size: 73
69150 TGTTTTCAAA
* *
69160 ATTATATAGTTTTCAAAA-ATGATTT-AAAACTATATATTATATGT-T-TTC-AAAATGTTTTAA
1 ATTATATA-TTTTCAAAATAT--TTTAAAAACTATATATTATATATATATTCAAAAAT-CTTTAA
69220 AAACTATATATT
62 AAACTATATATT
* * **
69232 A-TATATATTTTCAAAATGTTTTTAAAACTATATA-TATATATATATTCAGAAGGT-TTTAAAAA
1 ATTATATATTTTCAAAATATTTTAAAAACTATATATTATATATATATTCA-AAAATCTTTAAAAA
69294 CTATATATT
65 CTATATATT
**
69303 A-TATATATTTTCAAAATGA-TTTAAAAACTATATTATATATATATATATATATTCAAAACGCTT
1 ATTATATATTTTCAAAAT-ATTTTAAAAAC-----TATATAT-TATATATATATTCAAAAATCTT
69366 TAAAAACTATATATT
59 TAAAAACTATATATT
**
69381 A-TATA-AGTTTTCAAAATATTTTAAAAACTATATATTATATATATAATTCAAAAATCATTTGCA
1 ATTATATA-TTTTCAAAATATTTTAAAAACTATATATTATATATAT-ATTCAAAAATC-TTTAAA
69444 AACTATATAT
63 AACTATATAT
69454 ATATATGTAT
Statistics
Matches: 190, Mismatches: 13, Indels: 36
0.79 0.05 0.15
Matches are distributed among these distances:
69 9 0.05
70 21 0.11
71 52 0.27
72 10 0.05
73 19 0.10
74 14 0.07
76 6 0.03
77 4 0.02
78 55 0.29
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (73 bp):
ATTATATATTTTCAAAATATTTTAAAAACTATATATTATATATATATTCAAAAATCTTTAAAAAC
TATATATT
Found at i:70252 original size:84 final size:85
Alignment explanation
Indices: 70004--70297 Score: 385
Period size: 85 Copynumber: 3.5 Consensus size: 85
69994 AACTCGACAA
* * *
70004 TTTTGTTGACAGATAACCCTTATTGCCTTGAGCTATGCTGTAAATTTGATTTGCCTCTGAGTTGA
1 TTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAA-TTGATATGCCTTTGAGTTGA
*
70069 ATGTAATCGAACTCAAAGGTC
65 ATGTAATCGAACTCGAAGGTC
* * * * *
70090 -TTTGATGACAGATAACCCTTCTCGCCTTGAGTTATACTATAAATTTGATATGCCTTTGAGTTGA
1 TTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAA-TTGATATGCCTTTGAGTTGA
70154 ATGTAATCGAACTCGAAGGTC
65 ATGTAATCGAACTCGAAGGTC
* * ** *
70175 TTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAA-TGACGTGCCTTTGAGTTGAG
1 TTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATTGATATGCCTTTGAGTTGAA
*
70239 TGTAATCAAACTCGAAGGTC
66 TGTAATCGAACTCGAAGGTC
* * * *
70259 TTTTGTTGGCAGATAGCCCTTCTTTCCTTGAGTTATGCT
1 TTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGCT
70298 TTCCTTGAGT
Statistics
Matches: 184, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
84 72 0.39
85 76 0.41
86 36 0.20
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (85 bp):
TTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATTGATATGCCTTTGAGTTGAA
TGTAATCGAACTCGAAGGTC
Found at i:70301 original size:16 final size:16
Alignment explanation
Indices: 70280--70313 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
70270 GATAGCCCTT
70280 CTTTCCTTGAGTTATG
1 CTTTCCTTGAGTTATG
70296 CTTTCCTTGAGTTATG
1 CTTTCCTTGAGTTATG
70312 CT
1 CT
70314 GTAAATGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.50
Consensus pattern (16 bp):
CTTTCCTTGAGTTATG
Found at i:70379 original size:100 final size:100
Alignment explanation
Indices: 70200--70395 Score: 320
Period size: 100 Copynumber: 2.0 Consensus size: 100
70190 ACCCTTCTTG
* *
70200 CCTTGAGCTATGCTGCAAATGACGTGCCTTTGAGTTGAGTGTAATCAAACTCGAAGGTCTTTTGT
1 CCTTGAGCTATGCTGCAAATGACGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTCGT
* *
70265 TGGCAGATAGCCCTTCTTTCCTTGAGTTATGCTTT
66 TGGCAGAAAGCCCTTCTTGCCTTGAGTTATGCTTT
* * *
70300 CCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTCGT
1 CCTTGAGCTATGCTGCAAATGACGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTCGT
*
70365 TGGCAGAAATCCCTTCTTGCCTTGAGTTATG
66 TGGCAGAAAGCCCTTCTTGCCTTGAGTTATG
70396 TTGTAAATGA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (100 bp):
CCTTGAGCTATGCTGCAAATGACGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTCGT
TGGCAGAAAGCCCTTCTTGCCTTGAGTTATGCTTT
Found at i:70435 original size:84 final size:83
Alignment explanation
Indices: 70300--70870 Score: 739
Period size: 84 Copynumber: 6.8 Consensus size: 83
70290 GTTATGCTTT
* * *
70300 CCTTGAGTTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTCGT
1 CCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
70365 TGGCAGAAATCCCTTCTTG
66 TGGCAGAAA-CCCTTCTTG
* * ** * * *
70384 CCTTGAGTTATGTTGTAAATGATACGCCATTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTTAT
1 CCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
* ***
70449 TGGAAGATATTTCTTCTTG
66 TGGCAGA-AACCCTTCTTG
* * * *
70468 CCTTGAGCTATGTTGTAAATGATGTGCATTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTTGT
1 CCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
70533 TGGCAGATAACCCTTCTTG
66 TGGCAGA-AACCCTTCTTG
* *
70552 CCTTGAGCTATGCT-TCAAATGATGTGTCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTG
1 CCTTGAGCTATGCTGT-AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTG
** * *
70616 TTAACAGATAGCCCTTTTTG
65 TTGGCAGA-AACCCTTCTTG
*
70636 CCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
1 CCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
*
70701 TGGCAGATAACCCTTCTTT
66 TGGCAGA-AACCCTTCTTG
* ** *
70720 CCGTGAGCTATGCTACAAATGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
1 CCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
* *
70785 TGGCAGATAGCCCTTCTTA
66 TGGCAGA-AACCCTTCTTG
* * * * *
70804 CCTTGAGATATGATGTAAATGATATGTCTTTGAGCTGAGTGTAATCGAAATCGAAGGTCTTTTGT
1 CCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
70869 TG
66 TG
70871 AAGGTGCTTT
Statistics
Matches: 429, Mismatches: 55, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
83 1 0.00
84 427 1.00
85 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (83 bp):
CCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGT
TGGCAGAAACCCTTCTTG
Found at i:71363 original size:3 final size:3
Alignment explanation
Indices: 71355--71392 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
71345 ATATTATAAA
71355 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
71393 CTATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:71436 original size:9 final size:10
Alignment explanation
Indices: 71424--71462 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
71414 TAATTATTAT
71424 TATTAAAT-A
1 TATTAAATAA
71433 TATTAAATACA
1 TATTAAATA-A
71444 TATATAAATAA
1 TAT-TAAATAA
71455 TATTAAAT
1 TATTAAAT
71463 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:71569 original size:16 final size:16
Alignment explanation
Indices: 71548--71596 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
71538 CCTAATCCCT
*
71548 AGCCGCCTATGTCTCC
1 AGCCGCCTATGCCTCC
*
71564 AGCCGCCTCTGCCTCC
1 AGCCGCCTATGCCTCC
*
71580 AGCCGCCTCTGCCTCC
1 AGCCGCCTATGCCTCC
71596 A
1 A
71597 CAGCTGCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.10, C:0.51, G:0.18, T:0.20
Consensus pattern (16 bp):
AGCCGCCTATGCCTCC
Found at i:84210 original size:17 final size:17
Alignment explanation
Indices: 84190--84261 Score: 68
Period size: 17 Copynumber: 4.6 Consensus size: 17
84180 TGCTTGAAGA
84190 AAAAGAAAAAAAGAGAG
1 AAAAGAAAAAAAGAGAG
*
84207 AAAAG--AAAAAGAAAG
1 AAAAGAAAAAAAGAGAG
84222 -AAAG--AAAAA-AGA-
1 AAAAGAAAAAAAGAGAG
* *
84234 AAAAGAAAAAAAAAGAA
1 AAAAGAAAAAAAGAGAG
84251 AAAAGAAAAAA
1 AAAAGAAAAAA
84262 GGGGGGTCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.12
14 9 0.19
15 14 0.29
16 3 0.06
17 16 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAGAGAG
Found at i:84212 original size:23 final size:22
Alignment explanation
Indices: 84186--84260 Score: 107
Period size: 23 Copynumber: 3.4 Consensus size: 22
84176 ATTATGCTTG
84186 AAGAAAAAGAAAAAAAGAGAGAA
1 AAGAAAAAGAAAAAAAGAGA-AA
*
84209 AAGAAAAAGAAAGAAAGA-AAA
1 AAGAAAAAGAAAAAAAGAGAAA
*
84230 AAGAAAAAGAAAAAAAAAGAAAA
1 AAGAAAAAGAAAAAAAGAG-AAA
84253 AAGAAAAA
1 AAGAAAAA
84261 AGGGGGGTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
21 18 0.38
22 1 0.02
23 28 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (22 bp):
AAGAAAAAGAAAAAAAGAGAAA
Found at i:84217 original size:15 final size:15
Alignment explanation
Indices: 84197--84243 Score: 64
Period size: 13 Copynumber: 3.3 Consensus size: 15
84187 AGAAAAAGAA
84197 AAAAAGAGAGAAAAG
1 AAAAAGAGAGAAAAG
*
84212 AAAAAGAAAG-AAAG
1 AAAAAGAGAGAAAAG
84226 AAAAA-AGA-AAAAG
1 AAAAAGAGAGAAAAG
84239 AAAAA
1 AAAAA
84244 AAAAGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 11 0.38
14 9 0.31
15 9 0.31
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAGAGAGAAAAG
Found at i:84224 original size:27 final size:26
Alignment explanation
Indices: 84189--84254 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 26
84179 ATGCTTGAAG
*
84189 AAAAAGAAAAAAAGAGAGAAAAGAAAA
1 AAAAAGAAAAAAAAAGA-AAAAGAAAA
*
84216 AGAAAGAAAGAAAAAAGAAAAAGAAAA
1 AAAAAGAAA-AAAAAAGAAAAAGAAAA
84243 AAAAAGAAAAAA
1 AAAAAGAAAAAA
84255 GAAAAAAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.09
27 25 0.71
28 7 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (26 bp):
AAAAAGAAAAAAAAAGAAAAAGAAAA
Found at i:85557 original size:83 final size:83
Alignment explanation
Indices: 85418--85921 Score: 990
Period size: 83 Copynumber: 6.1 Consensus size: 83
85408 TGTAATGTAT
*
85418 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
85483 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
85501 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
85566 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
85584 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
85649 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
85667 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
85732 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
85750 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
85815 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
85833 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
85898 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
*
85916 TCATAG
1 TAATAG
85922 TAGAAATAAG
Statistics
Matches: 419, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 419 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
TTTGGAAGATGAATTTGC
Found at i:87020 original size:113 final size:113
Alignment explanation
Indices: 86721--87276 Score: 900
Period size: 113 Copynumber: 4.9 Consensus size: 113
86711 ATTCAAATCT
* *
86721 ATCATTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
86786 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCCTTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAA-CC-TTTTACCTAAATTC
* * *
86836 ATCAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
86901 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTAAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTAAATTC
86949 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
87014 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTAAATTC
87062 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* ** * *
87127 GAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT-GCTCAAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCT-AAATTC
* * * *
87175 ATCACTTGATGGAGCAGCTTTTCTAGAG-AAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
87239 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
87277 GCATAATTCT
Statistics
Matches: 417, Mismatches: 23, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
112 70 0.17
113 251 0.60
114 2 0.00
115 94 0.23
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTAAATTC
Found at i:87613 original size:3 final size:3
Alignment explanation
Indices: 87605--87684 Score: 133
Period size: 3 Copynumber: 26.7 Consensus size: 3
87595 ATATTATAAA
* * *
87605 TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAC TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87653 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
87685 AATATATTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:87692 original size:9 final size:10
Alignment explanation
Indices: 87680--87718 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
87670 TTATTATTAT
87680 TATTAAAT-A
1 TATTAAATAA
87689 TATTAAATACA
1 TATTAAATA-A
87700 TATATAAATAA
1 TAT-TAAATAA
87711 TATTAAAT
1 TATTAAAT
87719 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:87692 original size:12 final size:11
Alignment explanation
Indices: 87595--87693 Score: 60
Period size: 12 Copynumber: 8.5 Consensus size: 11
87585 TTTTTTACCC
*
87595 ATATTATAAAT
1 ATATTATTAAT
*
87606 ATTATTATTATT
1 A-TATTATTAAT
87618 ATTATTA-TAATT
1 A-TATTATTAA-T
*
87630 ATTATTATTACT
1 A-TATTATTAAT
87642 ATAATTATT-AT
1 AT-ATTATTAAT
*
87653 -TATTATTATT
1 ATATTATTAAT
*
87663 ATTATTATTATT
1 A-TATTATTAAT
87675 ATTATTATTAAAT
1 A-TATTATT-AAT
87688 ATATTA
1 ATATTA
87694 AATACATATA
Statistics
Matches: 73, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
11 5 0.07
12 55 0.75
13 5 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:87825 original size:16 final size:16
Alignment explanation
Indices: 87804--87856 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
87794 CCTAATCCCT
*
87804 AGCCGCCTCTATCTCC
1 AGCCGCCTCTACCTCC
*
87820 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTACCTCC
*
87836 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTACCTCC
87852 A-CCGC
1 AGCCGC
87857 TGCCACGTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
15 4 0.11
16 31 0.89
ACGTcount: A:0.09, C:0.55, G:0.17, T:0.19
Consensus pattern (16 bp):
AGCCGCCTCTACCTCC
Found at i:93868 original size:2 final size:2
Alignment explanation
Indices: 93863--93903 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
93853 AAAAAATGTA
93863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93904 ATGTGGAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95289 original size:23 final size:23
Alignment explanation
Indices: 95234--95299 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
95224 CTGGACAATA
*
95234 AAATAAAAAT-AAAAATAAAATT
1 AAATAAAAATAAAAAATAAAAAT
**
95256 AACGAAAAATAAAAAATAAAAAT
1 AAATAAAAATAAAAAATAAAAAT
*
95279 AAATAACAATAATAATAATAA
1 AAATAAAAATAA-AA-AATAA
95300 TATAAAGATA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
22 8 0.23
23 20 0.57
24 2 0.06
25 5 0.14
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATAAAAATAAAAAATAAAAAT
Found at i:95295 original size:29 final size:30
Alignment explanation
Indices: 95228--95305 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
95218 TTGGATCTGG
95228 ACAATAAAAT-AAAAATAAAAATAAAATTA
1 ACAATAAAATAAAAAATAAAAATAAAATTA
*
95257 ACGA-AAAATAAAAAATAAAAAT-AAA-TA
1 ACAATAAAATAAAAAATAAAAATAAAATTA
*
95284 ACAATAATAATAATAATATAAA
1 ACAATAA-AATAA-AAAATAAA
95306 GATATTTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 10 0.24
29 20 0.48
30 7 0.17
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (30 bp):
ACAATAAAATAAAAAATAAAAATAAAATTA
Found at i:95363 original size:36 final size:34
Alignment explanation
Indices: 95317--95507 Score: 155
Period size: 36 Copynumber: 5.6 Consensus size: 34
95307 ATATTTTCCA
95317 AAAACCTATATA-ATATATATTTTCAAAAGTATTTT
1 AAAA-CTATATATATATATATTTTCAAAAGT-TTTT
* * *
95352 AAAATTATATATTATATATATTTTTTAAAAATGTTTT
1 AAAACTATATA-TATATATA-TTTTCAAAAGT-TTTT
* * *
95389 -CAA--A-AT-TATATA-GTTTTCAAAAATGTTTT
1 AAAACTATATATATATATATTTTCAAAAGT-TTTT
* * *
95418 AAAACTATATAT-TATATGTTTTCAAAATGTTGTA
1 AAAACTATATATATATATATTTTCAAAA-GTTTTT
*
95452 AAAACTATATATTATATATATTTTCAAAATGTTTTA
1 AAAACTATATA-TATATATATTTTCAAAA-GTTTTT
95488 AAAACTATATATATATATAT
1 AAAACTATATATATATATAT
95508 ATATACATGT
Statistics
Matches: 131, Mismatches: 13, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
29 15 0.11
30 2 0.02
31 6 0.05
32 1 0.01
33 8 0.06
34 31 0.24
35 15 0.11
36 40 0.31
37 13 0.10
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (34 bp):
AAAACTATATATATATATATTTTCAAAAGTTTTT
Found at i:95421 original size:28 final size:29
Alignment explanation
Indices: 95366--95428 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
95356 TTATATATTA
* * *
95366 TATATATTTTTTAAAAATGTTTTCAAAAT
1 TATATAGTTTTCAAAAATGTTTTCAAAAC
95395 TATATAGTTTTCAAAAATGTTTT-AAAAC
1 TATATAGTTTTCAAAAATGTTTTCAAAAC
95423 TATATA
1 TATATA
95429 TTATATGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (29 bp):
TATATAGTTTTCAAAAATGTTTTCAAAAC
Found at i:95500 original size:100 final size:100
Alignment explanation
Indices: 95317--95498 Score: 253
Period size: 100 Copynumber: 1.8 Consensus size: 100
95307 ATATTTTCCA
* * *
95317 AAAACCTATATAATATATATTTTCAAAAGTATTTTAAAATTATATATTATATATATTTTTTAAAA
1 AAAACCTATATAATATATATTTTCAAAAGTATGTAAAAACTATATATTATATATA-TTTTTAAAA
*
95382 ATGTTTTCAAAATTATATAGTTTTCAAAAATGTTTT
65 ATGTTTTAAAAATTATATAGTTTTCAAAAATGTTTT
* * *
95418 AAAA-CTATATATTATATGTTTTCAAAATGT-TGTAAAAACTATATATTATATATA-TTTTCAAA
1 AAAACCTATATAATATATATTTTCAAAA-GTATGTAAAAACTATATATTATATATATTTTTAAAA
*
95480 ATGTTTTAAAAACTATATA
65 ATGTTTTAAAAATTATATA
95499 TATATATATA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
98 24 0.33
100 42 0.58
101 6 0.08
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (100 bp):
AAAACCTATATAATATATATTTTCAAAAGTATGTAAAAACTATATATTATATATATTTTTAAAAA
TGTTTTAAAAATTATATAGTTTTCAAAAATGTTTT
Found at i:95552 original size:46 final size:46
Alignment explanation
Indices: 95457--95599 Score: 213
Period size: 45 Copynumber: 3.2 Consensus size: 46
95447 TTGTAAAAAC
95457 TATATAT-TATATATATTTTCAAAATGTTTTAAAAACTATATATA-
1 TATATATATATATATATTTTCAAAATGTTTTAAAAACTATATATAT
* * *
95501 TATATATATATACATGTTTTCAAAAGGTTTTAAAAACTATATATAT
1 TATATATATATATATATTTTCAAAATGTTTTAAAAACTATATATAT
* *
95547 TATATATATATATATATATTCAAAATGATTTAAAAAC--TATATAT
1 TATATATATATATATATTTTCAAAATGTTTTAAAAACTATATATAT
95591 TATATATAT
1 TATATATAT
95600 TTTCAAAATG
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.26
45 34 0.38
46 32 0.36
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (46 bp):
TATATATATATATATATTTTCAAAATGTTTTAAAAACTATATATAT
Found at i:95588 original size:44 final size:42
Alignment explanation
Indices: 95423--95712 Score: 223
Period size: 36 Copynumber: 7.2 Consensus size: 42
95413 GTTTTAAAAC
*
95423 TATATAT-TATATGTTTTCAAAATG-TTGTAAAAAC----TA-
1 TATATATATATATATTTTCAAAATGATT-TAAAAACTATATAT
*
95459 TATAT-TATATATATTTTCAAAATGTTTTAAAAACTATATAT
1 TATATATATATATATTTTCAAAATGATTTAAAAACTATATAT
* * *
95500 ATATATATATATACATGTTTTCAAAAGGTTTTAAAAACTATATATAT
1 -TATATATATAT--ATATTTTCAAAATGATTTAAAAAC--TATATAT
95547 TATATATATATATATATATTCAAAATGATTTAAAAAC----TA-
1 TATATATATATATAT-T-TTCAAAATGATTTAAAAACTATATAT
*
95586 TATAT-TATATATATTTTCAAAATGATTTAAAAAAACTATAT-G
1 TATATATATATATATTTTCAAAATGATTT--AAAAACTATATAT
* * *
95628 T-TATATATATATATTTTCAAAACGCTTTGAAAAC--TATA-
1 TATATATATATATATTTTCAAAATGATTTAAAAACTATATAT
*
95666 TAT-TATATA-A-GTTTTC-AAAT-ATTTTAAAAACTATATAT
1 TATATATATATATATTTTCAAAATGA-TTTAAAAACTATATAT
95704 TATATATAT
1 TATATATAT
95713 TTCAAAAATC
Statistics
Matches: 211, Mismatches: 13, Indels: 57
0.75 0.05 0.20
Matches are distributed among these distances:
35 12 0.06
36 46 0.22
37 8 0.04
38 28 0.13
39 11 0.05
40 9 0.04
41 3 0.01
42 28 0.13
43 5 0.02
44 3 0.01
45 23 0.11
46 28 0.13
47 7 0.03
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (42 bp):
TATATATATATATATTTTCAAAATGATTTAAAAACTATATAT
Found at i:95597 original size:36 final size:37
Alignment explanation
Indices: 95547--95750 Score: 215
Period size: 36 Copynumber: 5.5 Consensus size: 37
95537 CTATATATAT
*
95547 TATATATATATATATATATTCAAAATGATTTAAAAAC
1 TATATATATATATATATTTTCAAAATGATTTAAAAAC
95584 TATATAT-TATATATATTTTCAAAATGATTTAAAAAAAC
1 TATATATATATATATATTTTCAAAATGATTT--AAAAAC
* * *
95622 TATATGTTATATATATATATTTTCAAAACGCTTTGAAAAC
1 TATA---TATATATATATATTTTCAAAATGATTTAAAAAC
95662 TATATAT-TATATA-AGTTTTC-AAAT-ATTTTAAAAAC
1 TATATATATATATATA-TTTTCAAAATGA-TTTAAAAAC
* **
95697 TATATAT-TATATATA-TTTCAAAAATCATTTGCAAAC
1 TATATATATATATATATTTTC-AAAATGATTTAAAAAC
95733 TATATCATATATATATAT
1 TATAT-ATATATATATAT
95751 ATATATATAT
Statistics
Matches: 143, Mismatches: 9, Indels: 28
0.79 0.05 0.16
Matches are distributed among these distances:
34 4 0.03
35 25 0.17
36 50 0.35
37 13 0.09
38 18 0.13
40 9 0.06
41 3 0.02
42 21 0.15
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (37 bp):
TATATATATATATATATTTTCAAAATGATTTAAAAAC
Found at i:95672 original size:78 final size:75
Alignment explanation
Indices: 95547--95712 Score: 228
Period size: 78 Copynumber: 2.2 Consensus size: 75
95537 CTATATATAT
*
95547 TATA-TATATATATATATATTCAAAATGATTTAAAAACTATATATTATATATA-TTTTCAAAATG
1 TATATTATATATATATATATTCAAAACGATTTAAAAACTATATATTATATA-AGTTTTC-AAAT-
95610 ATTTAAAAAAACTA
63 ATTT-AAAAAACTA
* * * *
95624 TATGTTATATATATATATTTTCAAAACGCTTTGAAAACTATATATTATATAAGTTTTCAAATATT
1 TATATTATATATATATATATTCAAAACGATTTAAAAACTATATATTATATAAGTTTTCAAATATT
*
95689 TTAAAAACTA
66 TAAAAAACTA
95699 TATATTATATATAT
1 TATATTATATATAT
95713 TTCAAAAATC
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
75 21 0.26
76 4 0.05
77 8 0.10
78 47 0.59
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (75 bp):
TATATTATATATATATATATTCAAAACGATTTAAAAACTATATATTATATAAGTTTTCAAATATT
TAAAAAACTA
Found at i:95746 original size:2 final size:2
Alignment explanation
Indices: 95733--95799 Score: 125
Period size: 2 Copynumber: 33.0 Consensus size: 2
95723 ATTTGCAAAC
95733 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95776 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
95800 AGAATTTGGA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 62 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:96776 original size:2 final size:2
Alignment explanation
Indices: 96769--96793 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
96759 TTTTAGAATT
96769 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 T
96794 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99232 original size:34 final size:35
Alignment explanation
Indices: 99194--99267 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
99184 TTCATGTTCA
99194 AAATTCCAAAACACTTCAATTACATTCTAAACCC-
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCT
* * * *
99228 AAATTCTAAAATACTTTAATTATATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTCTAAACCCT
99263 AAATT
1 AAATT
99268 AAATTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 30 0.86
35 5 0.14
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.34
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCCT
Found at i:112915 original size:6 final size:6
Alignment explanation
Indices: 112906--112935 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
112896 TAACACCTTG
*
112906 TGCATG TGCATT TGCATT TGCATT TGCATT
1 TGCATT TGCATT TGCATT TGCATT TGCATT
112936 CTTATTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (6 bp):
TGCATT
Found at i:119155 original size:42 final size:41
Alignment explanation
Indices: 119089--119195 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
119079 TTCACAATTT
* * * *
119089 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
119130 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* *
119172 ATAAGTCCTTCGGGCCATCCGTAA
1 ATAAATCCTTCGGGCCATCAGTAA
119196 AACCTTCGGG
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:119359 original size:214 final size:214
Alignment explanation
Indices: 118972--119373 Score: 660
Period size: 214 Copynumber: 1.9 Consensus size: 214
118962 GTGAAGCAAA
* * *
118972 CCATCCATAAGACCTTCGGGTAAGATGTTTTCAATAGAATTTGAAAATAAAAAATGATGTTTTAA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
* * *
119037 GAAGATGGAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* * *
119102 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCA
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATCTGTAAGCCTTTAGAGCA
119167 AGATGATAAGTCCTTCGGG
196 AGATGATAAGTCCTTCGGG
* * *
119186 CCATCCGTAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAACGATGTTTTGA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
*
119251 GAAGATGAAATTTTTGAAAACAAATAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
66 GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
* * *
119316 TCCATCAGTAAGTCTTTCGAGCATGATGATTAATTCATTCGGGTAATTTGTAAGCCTT
131 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATCTGTAAGCCTT
119374 CACCGAAGAG
Statistics
Matches: 172, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
214 172 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (214 bp):
CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATAAAAAACGATGTTTTAA
GAAGATGAAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTAATCTGTAAGCCTTTAGAGCA
AGATGATAAGTCCTTCGGG
Found at i:119466 original size:42 final size:40
Alignment explanation
Indices: 119404--119489 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 40
119394 AATCCATCAA
*
119404 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
1 TAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGCCATTT
* *
119445 GTAAGTCTTTCGAGTGA-GATGATAAGTCCTTCGGGCCATTT
1 -TAAGTCTTTCGAG-CATGATGATAAATCCTTCGGGCCATTT
119486 TAAG
1 TAAG
119490 CCTTCTCGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 4 0.10
41 16 0.40
42 19 0.47
43 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (40 bp):
TAAGTCTTTCGAGCATGATGATAAATCCTTCGGGCCATTT
Found at i:119974 original size:53 final size:53
Alignment explanation
Indices: 119861--120017 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 53
119851 AGAATCACAC
* *
119861 CAGAAAATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTAAG
* * ***
119914 CAAAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTAAG
* * * * * *
119967 TAGAAGATTGTTTGAGTTCCTTAATCCCTG-AGAAATAGGGAGTGGACCCGT
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAATAGGGAGCGAACCCGT
120018 CATTTGAAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
53 60 0.69
54 19 0.22
55 8 0.09
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTAAG
Found at i:133366 original size:20 final size:20
Alignment explanation
Indices: 133304--133372 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
133294 ATATATAAAT
*
133304 TATATAGTTTATACATAGTA
1 TATATAATTTATACATAGTA
* *
133324 GTATATAA-GTATA-A-A-CA
1 -TATATAATTTATACATAGTA
133341 -ATATAATTTATACATAGTA
1 TATATAATTTATACATAGTA
133360 TATATAATTTATA
1 TATATAATTTATA
133373 ATTATACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
15 6 0.16
16 4 0.11
17 2 0.05
18 2 0.05
19 2 0.05
20 16 0.42
21 6 0.16
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (20 bp):
TATATAATTTATACATAGTA
Found at i:133441 original size:57 final size:58
Alignment explanation
Indices: 133325--133486 Score: 156
Period size: 57 Copynumber: 2.8 Consensus size: 58
133315 TACATAGTAG
* * * ** *
133325 TATATAAGTATAAACAATATAATTTATACATAGTATAT-ATAATTTATAATTATACATA
1 TATATAACTATAAACTATAT-ATTTATATATAGTATATAATAATAAATAATAATACATA
*
133383 TATATAA-AATAAACTATATAGTTTATATATAGTATATAATAATAAAT-ATAAT-CGATA
1 TATATAACTATAAACTATATA-TTTATATATAGTATATAATAATAAATAATAATAC-ATA
* *
133440 TATATAACTATATAACT-TATATTTATATACTA-TGTATAATTATAAAT
1 TATATAACTATA-AACTATATATTTATATA-TAGTATATAATAATAAAT
133487 TATATATATG
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
56 2 0.02
57 60 0.67
58 23 0.26
59 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (58 bp):
TATATAACTATAAACTATATATTTATATATAGTATATAATAATAAATAATAATACATA
Found at i:133489 original size:24 final size:24
Alignment explanation
Indices: 133462--133507 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
133452 TAACTTATAT
133462 TTATATACTATGTAT-AATTATAAA
1 TTATATA-TATGTATAAATTATAAA
133486 TTATATATATGTATAAATTATA
1 TTATATATATGTATAAATTATA
133508 TAGATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
TTATATATATGTATAAATTATAAA
Found at i:133675 original size:13 final size:11
Alignment explanation
Indices: 133650--133760 Score: 83
Period size: 11 Copynumber: 10.4 Consensus size: 11
133640 TACATAGTAG
133650 TATATAAACTA
1 TATATAAACTA
*
133661 TATATAAACCA
1 TATATAAACTA
*
133672 TATAT--ATTA
1 TATATAAACTA
*
133681 TATGTAAACTA
1 TATATAAACTA
133692 TATATAAACTA
1 TATATAAACTA
133703 TATAT--ACTA
1 TATATAAACTA
*
133712 TATAGT---TTA
1 TATA-TAAACTA
* *
133721 CATATGAACTA
1 TATATAAACTA
133732 TATATAAAAACTA
1 TATAT--AAACTA
133745 TATATAAAACTA
1 TATAT-AAACTA
133757 TATA
1 TATA
133761 AACTATACTT
Statistics
Matches: 81, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.01
9 19 0.23
10 1 0.01
11 39 0.48
12 11 0.14
13 10 0.12
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (11 bp):
TATATAAACTA
Found at i:133682 original size:20 final size:20
Alignment explanation
Indices: 133659--133697 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
133649 GTATATAAAC
133659 TATATATAAACCATATATAT
1 TATATATAAACCATATATAT
* *
133679 TATATGTAAACTATATATA
1 TATATATAAACCATATATA
133698 AACTATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
TATATATAAACCATATATAT
Found at i:133690 original size:31 final size:31
Alignment explanation
Indices: 133654--133714 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
133644 TAGTAGTATA
*
133654 TAAACTATATATAAACCATATATATTATATG
1 TAAACTATATATAAACCATATATACTATATG
*
133685 TAAACTATATATAAACTATATATACTATAT
1 TAAACTATATATAAACCATATATACTATAT
133715 AGTTTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (31 bp):
TAAACTATATATAAACCATATATACTATATG
Found at i:133707 original size:42 final size:42
Alignment explanation
Indices: 133650--133760 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
133640 TACATAGTAG
* *
133650 TATATAAACTATATATAAACCATATATATTATATGTAAACTA
1 TATATAAACTATATATAAACCATATATATTACATATAAACTA
* *
133692 TATATAAACTATATAT--ACTATATAGT-TTACATATGAACTA
1 TATATAAACTATATATAAACCATATA-TATTACATATAAACTA
*
133732 TATATAAAAACTATATATAAAAC-TATATA
1 TATAT--AAACTATATATAAACCATATATA
133761 AACTATACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
40 23 0.40
41 1 0.02
42 28 0.49
43 4 0.07
44 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (42 bp):
TATATAAACTATATATAAACCATATATATTACATATAAACTA
Found at i:133755 original size:12 final size:13
Alignment explanation
Indices: 133727--133760 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
133717 TTTACATATG
133727 AACTATATATAAA
1 AACTATATATAAA
133740 AACTATATAT-AA
1 AACTATATATAAA
133752 AACTATATA
1 AACTATATA
133761 AACTATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (13 bp):
AACTATATATAAA
Found at i:133930 original size:13 final size:14
Alignment explanation
Indices: 133904--133931 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
133894 TAACACAATT
133904 AAAAACGATAAAAA
1 AAAAACGATAAAAA
133918 AAAAACGATAAAAA
1 AAAAACGATAAAAA
133932 TTTCATCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAACGATAAAAA
Found at i:136149 original size:2 final size:2
Alignment explanation
Indices: 136122--136278 Score: 107
Period size: 2 Copynumber: 79.5 Consensus size: 2
136112 ACATATAAAC
* * * *
136122 TA TA TA CTA TA GTT TA TA TT TA TA TA TA GA TA TA TA TA TA TT TA
1 TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
136166 TA TA T- TA TA TA -A TA TA GTT TA TA TT TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
136206 TA TA TA TA CA TA TA -A TA TA -A GTA TA CA T- TA TA -A GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA
*
136246 CA TA TA TA TA -A GTA TA TA -A GTA TA TA TA TA TA T
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA T
136279 GCGTAAGACT
Statistics
Matches: 121, Mismatches: 18, Indels: 32
0.71 0.11 0.19
Matches are distributed among these distances:
1 9 0.07
2 104 0.86
3 8 0.07
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:136149 original size:22 final size:22
Alignment explanation
Indices: 136136--136224 Score: 96
Period size: 21 Copynumber: 4.2 Consensus size: 22
136126 TACTATAGTT
136136 TATATTTATATATAGATATATA
1 TATATTTATATATAGATATATA
*
136158 TATATTTATATAT-TATATA-A
1 TATATTTATATATAGATATATA
* *
136178 TATAGTTTATATTTATATA-ATA
1 TATA-TTTATATATAGATATATA
* *
136200 TATATATATATATACATATA-A
1 TATATTTATATATAGATATATA
136221 TATA
1 TATA
136225 AGTATACATT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
20 5 0.09
21 30 0.52
22 23 0.40
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTTATATATAGATATATA
Found at i:136237 original size:18 final size:17
Alignment explanation
Indices: 136193--136261 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
136183 TTTATATTTA
136193 TATA-ATATATATATATA-
1 TATACATATA-ATATA-AG
136210 TATACATATAATATAAG
1 TATACATATAATATAAG
*
136227 TATACATTATAA-GT-A-
1 TATACA-TATAATATAAG
136242 TATACATAT-ATATAAG
1 TATACATATAATATAAG
136258 TATA
1 TATA
136262 TAAGTATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
13 1 0.02
14 4 0.09
15 7 0.16
16 6 0.14
17 16 0.36
18 10 0.23
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (17 bp):
TATACATATAATATAAG
Found at i:136263 original size:44 final size:45
Alignment explanation
Indices: 136153--136269 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 45
136143 ATATATAGAT
* * * *
136153 ATATATATATTTATATATTATATAATAT-AGTTTATATTTATATA
1 ATATATATATATATATAATATATAATATAAGTATACATTTATATA
*
136197 ATATATATATATATAT-ACATATAATATAAGTATACA-TTATA-A
1 ATATATATATATATATAATATATAATATAAGTATACATTTATATA
* *
136239 GTATATACATATATATAAGTATATAAGTATA
1 ATATATATATATATATAA-TATATAA-TATA
136270 TATATATATG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 15 0.25
43 15 0.25
44 27 0.44
45 4 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (45 bp):
ATATATATATATATATAATATATAATATAAGTATACATTTATATA
Found at i:136830 original size:16 final size:16
Alignment explanation
Indices: 136809--136852 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
136799 ATCTATGGAA
136809 TCCTCACCTTCTCGAC
1 TCCTCACCTTCTCGAC
* *
136825 TCCTCATCTTCTTGAC
1 TCCTCACCTTCTCGAC
136841 T-CTGCACCTTCT
1 TCCT-CACCTTCT
136853 ATAGTTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 2 0.08
16 22 0.92
ACGTcount: A:0.11, C:0.43, G:0.07, T:0.39
Consensus pattern (16 bp):
TCCTCACCTTCTCGAC
Found at i:137337 original size:15 final size:15
Alignment explanation
Indices: 137317--137357 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
137307 GTGTATTTTG
137317 TTTTTTGTTATATGT
1 TTTTTTGTTATATGT
137332 TTTTTTGTTATATGT
1 TTTTTTGTTATATGT
137347 TTTTTTGTTAT
1 TTTTTTGTTAT
137358 TTATTATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTTTTGTTATATGT
Found at i:138432 original size:14 final size:14
Alignment explanation
Indices: 138393--138435 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
138383 TCTATTTCAG
*
138393 TTTGATTTTTTATAA
1 TTTGATTATTT-TAA
*
138408 TCTTAATTATTTTAA
1 T-TTGATTATTTTAA
138423 TTTGATTATTTTA
1 TTTGATTATTTTA
138436 TTTTCACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 11 0.46
15 5 0.21
16 8 0.33
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (14 bp):
TTTGATTATTTTAA
Found at i:138487 original size:25 final size:27
Alignment explanation
Indices: 138453--138502 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
138443 AATTATAACT
*
138453 ATTTTATTTT-ATTTATCT-TTTCATA
1 ATTTTATTTTAATTTAACTGTTTCATA
138478 ATTTTATTTTAATTTAACTGTTTCA
1 ATTTTATTTTAATTTAACTGTTTCA
138503 AGGACTGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 7 0.32
27 5 0.23
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (27 bp):
ATTTTATTTTAATTTAACTGTTTCATA
Found at i:139304 original size:22 final size:21
Alignment explanation
Indices: 139264--139334 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
139254 AGCTTTACCA
*
139264 TTGATTGGATTGGTATGAATG
1 TTGATTGGATTGGTCTGAATG
139285 TTGATTGGACTTGGTCTGAATG
1 TTGATTGGA-TTGGTCTGAATG
* *
139307 CTT-ATTGGAATTCGTCTAAATG
1 -TTGATTGG-ATTGGTCTGAATG
139329 TTGATT
1 TTGATT
139335 AGAAATCGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 11 0.26
22 29 0.67
23 3 0.07
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.44
Consensus pattern (21 bp):
TTGATTGGATTGGTCTGAATG
Found at i:142950 original size:2 final size:2
Alignment explanation
Indices: 142940--142998 Score: 77
Period size: 2 Copynumber: 30.0 Consensus size: 2
142930 TATTTTTTAA
* *
142940 AT AT TT AT AT AT AT AT -T TT GAT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
142981 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
142999 CTCACCTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.04
2 48 0.94
3 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:142956 original size:23 final size:24
Alignment explanation
Indices: 142930--142998 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 24
142920 GTTTCTGAAT
*
142930 TATTTT-TTAAATATTTATATATA
1 TATTTTATTAAATATATATATATA
*
142953 TATTTTGATTATATATATATATATA
1 TATTTT-ATTAAATATATATATATA
* *
142978 TA-TATA-TATATATATATATAT
1 TATTTTATTAAATATATATATAT
142999 CTCACCTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 15 0.37
23 7 0.17
24 2 0.05
25 17 0.41
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TATTTTATTAAATATATATATATA
Found at i:144765 original size:6 final size:6
Alignment explanation
Indices: 144754--144793 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
144744 AGAGGTGGCT
*
144754 GAGGTA GAGGTA AAGGTA GAGGTA GAGGTA GAGGTA GAGG
1 GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGG
144794 GAGGAGATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GAGGTA
Found at i:161979 original size:55 final size:55
Alignment explanation
Indices: 161913--162020 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
161903 ATATTTGGGA
161913 CTTAAGAGTATTTTGAGAAGTTTGGAATTTTAATTAAAGTATGATATAATTATAG
1 CTTAAGAGTATTTTGAGAAGTTTGGAATTTTAATTAAAGTATGATATAATTATAG
161968 CTTAAGAGTATTTTGAGAAGTTTGGAATTTTAATTAAAGTATGATATAATTAT
1 CTTAAGAGTATTTTGAGAAGTTTGGAATTTTAATTAAAGTATGATATAATTAT
162021 CGTATTGATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.43
Consensus pattern (55 bp):
CTTAAGAGTATTTTGAGAAGTTTGGAATTTTAATTAAAGTATGATATAATTATAG
Found at i:162929 original size:17 final size:17
Alignment explanation
Indices: 162890--162931 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
162880 TTGTCTAAAT
*
162890 TATT-TTTATATATATT
1 TATTCTTTATATATATA
162906 TCGATTCTTTATATATATA
1 T--ATTCTTTATATATATA
162925 TATTCTT
1 TATTCTT
162932 ACCTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 1 0.05
17 6 0.27
18 3 0.14
19 12 0.55
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (17 bp):
TATTCTTTATATATATA
Found at i:165383 original size:12 final size:11
Alignment explanation
Indices: 165348--165394 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
165338 TTTTTTCTTC
165348 AAAAAAAC-AA
1 AAAAAAACAAA
***
165358 AAAAAAAGGGA
1 AAAAAAACAAA
*
165369 AAAAAACCAAA
1 AAAAAAACAAA
165380 AAAAAAACAAA
1 AAAAAAACAAA
165391 AAAA
1 AAAA
165395 GCCAAAATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:165392 original size:21 final size:21
Alignment explanation
Indices: 165348--165401 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
165338 TTTTTTCTTC
***
165348 AAAAAAA-CAAAAAAAAAGGG
1 AAAAAAACCAAAAAAAAAACA
165368 AAAAAAACCAAAAAAAAAACA
1 AAAAAAACCAAAAAAAAAACA
*
165389 AAAAAAGCCAAAA
1 AAAAAAACCAAAA
165402 TTTCAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.81, C:0.11, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAAACCAAAAAAAAAACA
Found at i:172624 original size:29 final size:30
Alignment explanation
Indices: 172574--172634 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
172564 TGAGAAAGGA
172574 TATGAACTATATGAGAACATG-TATATGAT
1 TATGAACTATATGAGAACATGTTATATGAT
* * * * *
172603 TATGAGCTATGTGATAAGATGTTATGTGAT
1 TATGAACTATATGAGAACATGTTATATGAT
172633 TA
1 TA
172635 AATGATCAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (30 bp):
TATGAACTATATGAGAACATGTTATATGAT
Found at i:172928 original size:7 final size:7
Alignment explanation
Indices: 172916--172943 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
172906 CCTTCGAGAC
172916 ATATGTG
1 ATATGTG
172923 ATATGTG
1 ATATGTG
172930 ATATGTG
1 ATATGTG
172937 ATATGTG
1 ATATGTG
172944 GTCCTTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
ATATGTG
Found at i:182360 original size:64 final size:66
Alignment explanation
Indices: 182212--182366 Score: 215
Period size: 66 Copynumber: 2.4 Consensus size: 66
182202 TACACTAGGG
* * * *
182212 GTGCATCTGTACACTAATTGCATTCGATGTTTCAAAAAAAACCAGGAGTGCATCGATGCATGGTC
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAAAAACCAAGAGTGCATCGATGCATGGTC
182277 T
66 T
* ** **
182278 GTGCATCGATACACAAAATGCATTCGATGTTTC-AATGAATTCAAGAGTGCATCGATGCATGGT-
1 GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAAAAACCAAGAGTGCATCGATGCATGGTC
182341 T
66 T
182342 GTGCATCGGTACACAAAATGCATTC
1 GTGCATCGGTACACAAAATGCATTC
182367 CAAATAGGGT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 25 0.32
65 25 0.32
66 29 0.37
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (66 bp):
GTGCATCGGTACACAAAATGCATTCGATGTTTCAAAAAAAACCAAGAGTGCATCGATGCATGGTC
T
Found at i:182403 original size:12 final size:9
Alignment explanation
Indices: 182377--182440 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 9
182367 CAAATAGGGT
182377 GTGCATCGA
1 GTGCATCGA
182386 -TGCATCATGAA
1 GTGCATC--G-A
182397 GTGCATCGA
1 GTGCATCGA
182406 GTGCATCGA
1 GTGCATCGA
182415 -TGCATCATGAA
1 GTGCATC--G-A
182426 GTGCATCG-
1 GTGCATCGA
182434 GTGCATC
1 GTGCATC
182441 CCTTCATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
8 19 0.40
9 10 0.21
10 4 0.09
11 2 0.04
12 12 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (9 bp):
GTGCATCGA
Found at i:182411 original size:29 final size:28
Alignment explanation
Indices: 182377--182440 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 28
182367 CAAATAGGGT
182377 GTGCATCGATGCATCATGAAGTGCATCG
1 GTGCATCGATGCATCATGAAGTGCATCG
182405 AGTGCATCGATGCATCATGAAGTGCATCG
1 -GTGCATCGATGCATCATGAAGTGCATCG
182434 GTGCATC
1 GTGCATC
182441 CCTTCATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.20
29 28 0.80
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (28 bp):
GTGCATCGATGCATCATGAAGTGCATCG
Found at i:185077 original size:23 final size:22
Alignment explanation
Indices: 185043--185116 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
185033 CATAGTAGGG
*
185043 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCATGG-A
* *
185066 TGCATCGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCATGGA
*
185087 TGTATCGATGCACATTCATGGGA
1 TGCATCGATGCACATTCAT-GGA
185110 TGCATCG
1 TGCATCG
185117 GTACACTCTC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 16 0.38
22 2 0.05
23 24 0.57
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCATGGA
Found at i:189001 original size:20 final size:21
Alignment explanation
Indices: 188955--189001 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
188945 GAGATTATTT
*
188955 TAATTTTTCAATTTTGAAATA
1 TAATTTTTCAATTTTGAAAAA
* **
188976 TCATTTTTGTATTTT-AAAAA
1 TAATTTTTCAATTTTGAAAAA
188996 TAATTT
1 TAATTT
189002 CTCATAATCC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TAATTTTTCAATTTTGAAAAA
Found at i:201225 original size:35 final size:34
Alignment explanation
Indices: 201140--201226 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
201130 ATTTGGTATT
*
201140 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
201174 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
201212 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
201227 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:201455 original size:15 final size:15
Alignment explanation
Indices: 201437--201469 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
201427 ACTTGTCGCT
201437 GTCATCGTCGTCGTC
1 GTCATCGTCGTCGTC
201452 GTCATCGTCGTCGTC
1 GTCATCGTCGTCGTC
201467 GTC
1 GTC
201470 CTGAGCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.33, G:0.27, T:0.33
Consensus pattern (15 bp):
GTCATCGTCGTCGTC
Found at i:201595 original size:11 final size:12
Alignment explanation
Indices: 201571--201595 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
201561 CCGGCCTGCG
201571 AAAACTGGGAAA
1 AAAACTGGGAAA
201583 AAAACTGGGAAA
1 AAAACTGGGAAA
201595 A
1 A
201596 CCCAGACATC
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:0.60, C:0.08, G:0.24, T:0.08
Consensus pattern (12 bp):
AAAACTGGGAAA
Found at i:201831 original size:18 final size:18
Alignment explanation
Indices: 201808--201847 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
201798 AAAGGCGATG
*
201808 GCGGCATCATATATGGTT
1 GCGGCATCATATATGGCT
201826 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
201844 GCGG
1 GCGG
201848 TGGCTGCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:203475 original size:111 final size:111
Alignment explanation
Indices: 203338--203670 Score: 603
Period size: 111 Copynumber: 3.0 Consensus size: 111
203328 ATTACAAAAA
203338 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
203403 AATTAAAATGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
203449 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATGACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
203514 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCAAGATAT
66 AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
203560 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATAATACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
203625 AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
203671 ATGATTTCAT
Statistics
Matches: 212, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 212 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:203774 original size:17 final size:18
Alignment explanation
Indices: 203731--203771 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
203721 GAATTATATT
203731 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
203748 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
203766 ATTAAA
1 AGTAAA
203772 TACATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:206108 original size:2 final size:2
Alignment explanation
Indices: 206103--206129 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
206093 TTAATTAATA
206103 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
206130 ATGAATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:206426 original size:2 final size:2
Alignment explanation
Indices: 206419--206445 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
206409 GGTGAAATAC
206419 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
206446 AAAGACTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:207132 original size:37 final size:37
Alignment explanation
Indices: 207072--207151 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
207062 TTTATTTTGT
*
207072 TCGGGTCTGGTTTTTTAAGTGTGATATT-GGGTCGAG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
*
207108 TCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTCGGG-TTTTTTAAGTGTGATATTCGGGTCGAG
207146 TCGGGT
1 TCGGGT
207152 TTGGGTTTAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 9 0.22
37 18 0.45
38 13 0.32
ACGTcount: A:0.11, C:0.10, G:0.39, T:0.40
Consensus pattern (37 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:207149 original size:33 final size:35
Alignment explanation
Indices: 207072--207153 Score: 107
Period size: 33 Copynumber: 2.4 Consensus size: 35
207062 TTTATTTTGT
*
207072 TCGGGTCTGG-TTTTTTAAGTGTGATATTGGGTCGAG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATT--GTCGAG
*
207108 TCGGGTCGGGTTTTTTTAAGTGTGATA-T-TCGGG
1 TCGGGTCGGGTTTTTTTAAGTGTGATATTGTCGAG
207141 TCGGGTCGGGTTT
1 TCGGGTCGGGTTT
207154 GGGTTTAGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
33 17 0.40
36 10 0.23
37 16 0.37
ACGTcount: A:0.11, C:0.10, G:0.38, T:0.41
Consensus pattern (35 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATATTGTCGAG
Found at i:208167 original size:3 final size:3
Alignment explanation
Indices: 208161--208195 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
208151 GGTTTTTTTT
208161 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
208196 GTAGTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:208403 original size:34 final size:34
Alignment explanation
Indices: 208360--208426 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
208350 TGATGACGAT
*
208360 GGTGGCTCGGCGACGACTGGAACGTTGGCTCGTC
1 GGTGGCTCGGCGACGACTGGAACGTGGGCTCGTC
*
208394 GGTGGCTCGGTGACGACTGGAACGTGGGCTCGT
1 GGTGGCTCGGCGACGACTGGAACGTGGGCTCGT
208427 GGAACTGAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.12, C:0.24, G:0.43, T:0.21
Consensus pattern (34 bp):
GGTGGCTCGGCGACGACTGGAACGTGGGCTCGTC
Done.