Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008110.1 Hibiscus syriacus cultivar Beakdansim tig00110646_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: 844371
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 5
Found at i:94 original size:29 final size:29
Alignment explanation
Indices: 55--135 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
45 TATATGATAT
55 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
85 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
114 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
136 ACATATAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.14
29 39 0.76
30 5 0.10
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:536 original size:22 final size:21
Alignment explanation
Indices: 511--565 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
501 ATGGTAAGAA
511 TGCATATTCATTAAAATATTGT
1 TGCATATTCATTAAAATA-TGT
*
533 TGCATATTCATGAAAATATGT
1 TGCATATTCATTAAAATATGT
*
554 TACATATTCATT
1 TGCATATTCATT
566 TATTGCCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (21 bp):
TGCATATTCATTAAAATATGT
Found at i:7963 original size:20 final size:20
Alignment explanation
Indices: 7938--7977 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7928 GATTTAACCA
*
7938 TTTGATTAAAA-ATTATACAT
1 TTTGATCAAAAGATTA-ACAT
7958 TTTGATCAAAAGATTAACAT
1 TTTGATCAAAAGATTAACAT
7978 GAAACATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTGATCAAAAGATTAACAT
Found at i:8203 original size:16 final size:17
Alignment explanation
Indices: 8162--8205 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
8152 TCACGGAATG
8162 TAAGATTACTAGTGGGAA
1 TAAGATTACTAG-GGGAA
*
8180 TAAAATTACTA-GGGAA
1 TAAGATTACTAGGGGAA
*
8196 TAGGATTACT
1 TAAGATTACT
8206 GGAATGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 13 0.57
18 10 0.43
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (17 bp):
TAAGATTACTAGGGGAA
Found at i:8963 original size:2 final size:2
Alignment explanation
Indices: 8956--8989 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8946 ATCTTCCATG
8956 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
8990 GGTTCATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10205 original size:11 final size:11
Alignment explanation
Indices: 10171--10214 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
10161 TAAAAAATAC
* *
10171 TATTTATTATA
1 TATTTAATAAA
*
10182 TATTTATAAAAA
1 TATTTA-ATAAA
10194 TATTTAATAAA
1 TATTTAATAAA
10205 TATTTAATAA
1 TATTTAATAA
10215 TAATAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TATTTAATAAA
Found at i:10274 original size:18 final size:19
Alignment explanation
Indices: 10251--10291 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
10241 AATATATTTA
10251 AAAACA-ATAAAATAAATG
1 AAAACATATAAAATAAATG
10269 AAAACATATAAAATAAATG
1 AAAACATATAAAATAAATG
10288 AAAA
1 AAAA
10292 ATAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAACATATAAAATAAATG
Found at i:11579 original size:3 final size:3
Alignment explanation
Indices: 11571--11632 Score: 108
Period size: 3 Copynumber: 20.7 Consensus size: 3
11561 AATATATATT
11571 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11616 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
11633 TGGATAAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12297 original size:112 final size:112
Alignment explanation
Indices: 11943--12607 Score: 1125
Period size: 113 Copynumber: 5.9 Consensus size: 112
11933 TGATAGTATC
* *
11943 AAACAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*** * * * *
12008 CATTATGAACCTTCTCTGGCAAAAATAATCCATCCAGTGATGAATTC
66 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
*
12055 AAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
12120 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
65 TCATT-ATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
*
12169 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCT
1 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
12234 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
*
12281 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCT
1 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
12346 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
12393 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAAC-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
12458 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
65 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
*
12506 AAACAAAAAGTTGAACAAGTTCTTCTCATTATG-ACTTCTTCTTCCTTTTTCAGATGAGTTCTTC
1 AAAC-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
12570 TCATTATGAACCTTATCTGGCAATGAATGATCCATCAA
65 TCATTATGAACCTTCTCTGGCAATG-TTGATCCATCAA
12608 GTGGATTTGA
Statistics
Matches: 529, Mismatches: 20, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
112 218 0.41
113 268 0.51
114 43 0.08
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.38
Consensus pattern (112 bp):
AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
Found at i:12430 original size:225 final size:224
Alignment explanation
Indices: 11943--12607 Score: 1134
Period size: 225 Copynumber: 3.0 Consensus size: 224
11933 TGATAGTATC
* *
11943 AAACAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*** * * * *
12008 CATTATGAACCTTCTCTGGCAAAAATAATCCATCCAGTGATGAATTCAAACAAAAGGTTGAACAA
66 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAA-GTTGAACAA
* * *
12073 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTC
130 GTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATT-ATGAACCTTCTC
12138 TGGCAATGTTGATCCATCAAATGATGAATTT
194 TGGCAATGTTGATCCATCAAATGATGAATTT
*
12169 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCT
1 AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
12234 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAAG
66 CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAAG
12299 TTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
12364 GCAATGTTGATCCATCAAATGATGAATTT
196 GCAATGTTGATCCATCAAATGATGAATTT
12393 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAAC-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
12458 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
65 TCATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAAC-AAAAGTTGAACA
*
12523 AGTTCTTCTCATTATG-ACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTATC
129 AGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
*
12587 TGGCAATGAATGATCCATCAA
194 TGGCAATG-TTGATCCATCAA
12608 GTGGATTTGA
Statistics
Matches: 419, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
224 46 0.11
225 224 0.53
226 149 0.36
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.38
Consensus pattern (224 bp):
AAACAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACCTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAAG
TTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
GCAATGTTGATCCATCAAATGATGAATTT
Found at i:13446 original size:84 final size:84
Alignment explanation
Indices: 13315--13999 Score: 1286
Period size: 84 Copynumber: 8.2 Consensus size: 84
13305 TTCATCTTTT
* * *
13315 AATTCCAACGATTGGTTCTGTCC-AACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 AATT-CAATGATTGGTTCTG-CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
13379 ATTGAGCAAATTCATCTTCCA
64 ATTGAGCAAATTCATCTTCCA
13400 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
13465 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
13484 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
13549 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
*
13568 AATTCAATGATTGGTTCTTCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
13633 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
*
13652 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAGCACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
13717 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
13736 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
13801 TG-GCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
13819 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
13884 TGAGCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
13903 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
13968 TG-GCAAATTCATCTTCCA
66 TGAGCAAATTCATCTTCCA
13986 AATTCAATGATTGG
1 AATTCAATGATTGG
14000 ACTAAGATAT
Statistics
Matches: 591, Mismatches: 7, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
83 115 0.19
84 472 0.80
85 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (84 bp):
AATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
TGAGCAAATTCATCTTCCA
Found at i:15132 original size:15 final size:15
Alignment explanation
Indices: 15114--15204 Score: 69
Period size: 15 Copynumber: 5.9 Consensus size: 15
15104 ACCTTGACCC
15114 CTTTCTTTTTCTTCT
1 CTTTCTTTTTCTTCT
*
15129 CTTT-TTTTTCATTTT
1 CTTTCTTTTTC-TTCT
* *
15144 CTATTTTTTTTCTTTT
1 CT-TTCTTTTTCTTCT
* *
15160 CTTTTTTCTTTTTTCT
1 CTTTCTT-TTTCTTCT
* *
15176 -TTTCTTTTTTTTTT
1 CTTTCTTTTTCTTCT
15190 CTTTCTTTTTTCTTC
1 CTTTC-TTTTTCTTC
15205 AAGCATAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
14 13 0.21
15 23 0.37
16 21 0.33
17 6 0.10
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (15 bp):
CTTTCTTTTTCTTCT
Found at i:15154 original size:19 final size:17
Alignment explanation
Indices: 15115--15200 Score: 88
Period size: 16 Copynumber: 4.9 Consensus size: 17
15105 CCTTGACCCC
15115 TTTCTTTTTCTTCTCTTTTT
1 TTTC-TTTTCTT-T-TTTTT
*
15135 TTTCATTTTC-TATTTTT
1 TTTC-TTTTCTTTTTTTT
15152 TTTCTTTTCTTTTTTCTTT
1 TTTCTTTTC-TTTTT-TTT
15171 TTTCTTTTC-TTTTTTT
1 TTTCTTTTCTTTTTTTT
15187 TTTC-TTTCTTTTTT
1 TTTCTTTTCTTTTTT
15201 CTTCAAGCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
15 4 0.07
16 17 0.29
17 13 0.22
18 3 0.05
19 13 0.22
20 9 0.15
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTCTTTTCTTTTTTTT
Found at i:15189 original size:16 final size:16
Alignment explanation
Indices: 15125--15200 Score: 91
Period size: 17 Copynumber: 4.6 Consensus size: 16
15115 TTTCTTTTTC
*
15125 TTCTCTTTTTTTTCATT
1 TTCTTTTTTTTTTC-TT
*
15142 TTCTATTTTTTTTCTT
1 TTCTTTTTTTTTTCTT
15158 TTCTTTTTTCTTTTTTCTT
1 TTC--TTTT-TTTTTTCTT
15177 TTCTTTTTTTTTTC-T
1 TTCTTTTTTTTTTCTT
15192 TTCTTTTTT
1 TTCTTTTTT
15201 CTTCAAGCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
15 10 0.19
16 12 0.22
17 17 0.31
18 3 0.06
19 12 0.22
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTCTTTTTTTTTTCTT
Found at i:15200 original size:11 final size:11
Alignment explanation
Indices: 15114--15203 Score: 82
Period size: 11 Copynumber: 8.3 Consensus size: 11
15104 ACCTTGACCC
15114 CTTTC-TTTTT
1 CTTTCTTTTTT
15124 C-TTCTCTTTTT
1 CTTTCT-TTTTT
*
15135 -TTTC-ATTTT
1 CTTTCTTTTTT
15144 CTATT-TTTTTT
1 CT-TTCTTTTTT
15155 CTTTTCTTTTTT
1 C-TTTCTTTTTT
*
15167 CTTTTTTCTTTT
1 CTTTCTT-TTTT
*
15179 CTTTTTTTTTT
1 CTTTCTTTTTT
15190 CTTTCTTTTTT
1 CTTTCTTTTTT
15201 CTT
1 CTT
15204 CAAGCATAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
9 7 0.10
10 2 0.03
11 39 0.58
12 19 0.28
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTCTTTTTT
Found at i:25588 original size:13 final size:15
Alignment explanation
Indices: 25566--25602 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
25556 TTTGACAGAA
25566 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
25578 AAATAAAATACTTGC
1 AAATAAAATACTTGC
25593 AAATAAAATA
1 AAATAAAATA
25603 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:26355 original size:13 final size:13
Alignment explanation
Indices: 26331--26365 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
26321 TATTTATTAT
26331 ATATTT-ATAAAA
1 ATATTTAATAAAA
26343 ATATTTAAT-AAA
1 ATATTTAATAAAA
26355 ATATTTAATAA
1 ATATTTAATAA
26366 TATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTTAATAAAA
Found at i:26433 original size:19 final size:18
Alignment explanation
Indices: 26405--26453 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
26395 AATATATTTA
26405 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAATG
26423 AAAACATATAAAATAAATG
1 AAAACA-ATAAAATAAATG
26442 AAAA-AATAAAAT
1 AAAACAATAAAAT
26454 TAAAAATCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 16 0.53
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAACAATAAAATAAATG
Found at i:27294 original size:18 final size:19
Alignment explanation
Indices: 27253--27294 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
27243 TACTAGTTTG
* *
27253 TTTTTTTTTTTTCTCTGTC
1 TTTTTTCTTCTTCTCTGTC
27272 -TTTTTCTTCTTCTCT-TC
1 TTTTTTCTTCTTCTCTGTC
27289 TTTTTT
1 TTTTTT
27295 TTTTTTCGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTCTTCTCTGTC
Found at i:27743 original size:3 final size:3
Alignment explanation
Indices: 27735--27796 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
27725 AATATATATT
* *
27735 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27783 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
27797 TGGATAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:32178 original size:25 final size:25
Alignment explanation
Indices: 32148--32198 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
32138 ATTATACTTC
32148 TATTGAATTTGTTCTATTTTGAGTA
1 TATTGAATTTGTTCTATTTTGAGTA
32173 TATTGAATTTGTTCTATTTTGAGTA
1 TATTGAATTTGTTCTATTTTGAGTA
32198 T
1 T
32199 CTTATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.57
Consensus pattern (25 bp):
TATTGAATTTGTTCTATTTTGAGTA
Found at i:35666 original size:7 final size:7
Alignment explanation
Indices: 35654--35757 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
35644 TATGTGATAA
35654 GGTTTAG
1 GGTTTAG
35661 GGTTTAG
1 GGTTTAG
*
35668 GATTTAG
1 GGTTTAG
*
35675 AGTTTA-
1 GGTTTAG
* *
35681 TGTGATAG
1 GGT-TTAG
* *
35689 GATTTAA
1 GGTTTAG
*
35696 GGTTTAA
1 GGTTTAG
*
35703 AGTTTAG
1 GGTTTAG
*
35710 AGTTTAG
1 GGTTTAG
35717 GGTTTA-
1 GGTTTAG
* *
35723 TGTGTTAA
1 GGT-TTAG
35731 GGTTTAG
1 GGTTTAG
35738 GGTTTA-
1 GGTTTAG
*
35744 TGTGTTAG
1 GGT-TTAG
35752 GGTTTA
1 GGTTTA
35758 AGTTATGCCA
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
6 6 0.08
7 62 0.85
8 5 0.07
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:35689 original size:21 final size:21
Alignment explanation
Indices: 35664--35761 Score: 80
Period size: 21 Copynumber: 4.7 Consensus size: 21
35654 GGTTTAGGGT
35664 TTAGGATTTAGAGTTTATGTG
1 TTAGGATTTAGAGTTTATGTG
* *
35685 ATAGGATTTA-AGGTTTAAAGT-
1 TTAGGATTTAGA-GTTT-ATGTG
*
35706 TTA-GAGTTTAGGGTTTATGTG
1 TTAGGA-TTTAGAGTTTATGTG
*
35727 TTAAGG-TTTAGGGTTTATGTG
1 TT-AGGATTTAGAGTTTATGTG
*
35748 TTAGGGTTTA-AGTT
1 TTAGGATTTAGAGTT
35762 ATGCCATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
20 12 0.19
21 46 0.73
22 4 0.06
23 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTAGGATTTAGAGTTTATGTG
Found at i:35700 original size:35 final size:35
Alignment explanation
Indices: 35643--35715 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
35633 TCATAACTAA
* *
35643 TTATGTGATAAGGTTTAGGGTTT-AGGATTTAGAGT
1 TTATGTGATAAGGTTTAAGGTTTAAAG-TTTAGAGT
35678 TTATGTGAT-AGGATTTAAGGTTTAAAGTTTAGAGT
1 TTATGTGATAAGG-TTTAAGGTTTAAAGTTTAGAGT
35713 TTA
1 TTA
35716 GGGTTTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 3 0.09
35 29 0.85
36 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (35 bp):
TTATGTGATAAGGTTTAAGGTTTAAAGTTTAGAGT
Found at i:35716 original size:42 final size:42
Alignment explanation
Indices: 35651--35743 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
35641 AATTATGTGA
**
35651 TAAGGTTTAGGGTTTAGGATTTAGAGTTTATGTGAT-AGGATT
1 TAAGGTTTAAAGTTTAGGATTTAGAGTTTATGTGATAAGG-TT
* *
35693 TAAGGTTTAAAGTTTA-GAGTTTAGGGTTTATGTGTTAAGGTT
1 TAAGGTTTAAAGTTTAGGA-TTTAGAGTTTATGTGATAAGGTT
*
35735 TAGGGTTTA
1 TAAGGTTTA
35744 TGTGTTAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.05
42 39 0.89
43 3 0.07
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (42 bp):
TAAGGTTTAAAGTTTAGGATTTAGAGTTTATGTGATAAGGTT
Found at i:37477 original size:26 final size:26
Alignment explanation
Indices: 37437--37523 Score: 129
Period size: 26 Copynumber: 3.3 Consensus size: 26
37427 CCTAGTATTG
*
37437 GTTTTGGTGTTTGGTTCTCTGTCCCTT
1 GTTTT-GTGCTTGGTTCTCTGTCCCTT
* *
37464 ATTTTTTGCTTGGTTCTCTGTCCCTT
1 GTTTTGTGCTTGGTTCTCTGTCCCTT
*
37490 GTTTTGTGCTTGGTGCTCTGTCCCTT
1 GTTTTGTGCTTGGTTCTCTGTCCCTT
37516 GTTTTGTG
1 GTTTTGTG
37524 TGTGTCTGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
26 50 0.93
27 4 0.07
ACGTcount: A:0.01, C:0.20, G:0.24, T:0.55
Consensus pattern (26 bp):
GTTTTGTGCTTGGTTCTCTGTCCCTT
Found at i:37918 original size:17 final size:17
Alignment explanation
Indices: 37896--37932 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
37886 ATTCGAGTTT
*
37896 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
37913 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
37930 GAG
1 GAG
37933 CTCAAAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:37931 original size:11 final size:11
Alignment explanation
Indices: 37917--37981 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
37907 TTAATCGAGT
*
37917 TCGAGCTTGAA
1 TCGAGCTTCAA
37928 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
37940 TCGAGCTTCAA
1 TCGAGCTTCAA
*
37951 TCGAGC-TCGAGTC
1 TCGAGCTTC-A--A
37964 TCGAGCTTCAA
1 TCGAGCTTCAA
37975 TCGAGCT
1 TCGAGCT
37982 CTTGAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.07
11 22 0.50
12 8 0.18
13 9 0.20
14 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (11 bp):
TCGAGCTTCAA
Found at i:37972 original size:24 final size:23
Alignment explanation
Indices: 37911--37982 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
37901 CGAGCTTTAA
*
37911 TCGAGTTCGAGCTTGAATCGAGC
1 TCGAGTTCGAGCTTCAATCGAGC
* **
37934 TCAAAATCGAGCTTCAATCGAGC
1 TCGAGTTCGAGCTTCAATCGAGC
37957 TCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGT-TCGAGCTTCAATCGAGC
37981 TC
1 TC
37983 TTGAATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 22 0.54
24 19 0.46
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (23 bp):
TCGAGTTCGAGCTTCAATCGAGC
Found at i:39129 original size:19 final size:18
Alignment explanation
Indices: 39107--39153 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
39097 CATAAAAACG
*
39107 ATAAAAAAAATCAGCAAAA
1 ATAAAAAAAAACAG-AAAA
39126 ATAAAAACAAAACAGAAAA
1 ATAAAAA-AAAACAGAAAA
39145 A-AAAAAAAA
1 ATAAAAAAAA
39154 CAAAAAGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 5 0.19
19 12 0.46
20 6 0.23
ACGTcount: A:0.81, C:0.09, G:0.04, T:0.06
Consensus pattern (18 bp):
ATAAAAAAAAACAGAAAA
Found at i:39147 original size:16 final size:15
Alignment explanation
Indices: 39121--39159 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 15
39111 AAAAAATCAG
39121 CAAAAATAAAAACAAAA
1 CAAAAA-AAAAA-AAAA
39138 CAGAAAAAAAAAAAAA
1 CA-AAAAAAAAAAAAA
39154 CAAAAA
1 CAAAAA
39160 GGGGAGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 7 0.33
18 4 0.19
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Found at i:40185 original size:6 final size:6
Alignment explanation
Indices: 40163--40201 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
40153 TTTACAAAAA
40163 TATTTT TATTATAT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATT-T-T TATTTT TATTTT TATTTT TATTTT T
40202 TTAGACCCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 24 0.77
7 2 0.06
8 5 0.16
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:40202 original size:14 final size:14
Alignment explanation
Indices: 40163--40204 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
40153 TTTACAAAAA
* *
40163 TATTTTTATTATAT
1 TATTTTTATTTTTT
40177 TATTTTTA--TTTT
1 TATTTTTATTTTTT
40189 TATTTTTATTTTTT
1 TATTTTTATTTTTT
40203 TA
1 TA
40205 GACCCAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTATTTTTT
Found at i:40204 original size:20 final size:20
Alignment explanation
Indices: 40163--40201 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
40153 TTTACAAAAA
40163 TATTTTTATTATATTATTTT
1 TATTTTTATTATATTATTTT
40183 TATTTTTATT-T-TTATTTT
1 TATTTTTATTATATTATTTT
40201 T
1 T
40202 TTAGACCCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (20 bp):
TATTTTTATTATATTATTTT
Found at i:47000 original size:13 final size:13
Alignment explanation
Indices: 46977--47020 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
46967 ATCATAATGG
46977 ACAAT-TTTGAAA
1 ACAATGTTTGAAA
*
46989 ACTATGTTTGAAA
1 ACAATGTTTGAAA
47002 ACAATGTTTGAAA
1 ACAATGTTTGAAA
47015 ATCAAT
1 A-CAAT
47021 ATGTAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 4 0.14
13 20 0.71
14 4 0.14
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (13 bp):
ACAATGTTTGAAA
Found at i:47519 original size:23 final size:23
Alignment explanation
Indices: 47489--47548 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
47479 GTACCCTTAT
47489 AGGGTATCGATACACATTCAAAG
1 AGGGTATCGATACACATTCAAAG
* *
47512 AGGGTATCGATACACGTTGAAAG
1 AGGGTATCGATACACATTCAAAG
47535 -GGGTATCGATACAC
1 AGGGTATCGATACAC
47549 GTTGAAAGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.22
Consensus pattern (23 bp):
AGGGTATCGATACACATTCAAAG
Found at i:47575 original size:21 final size:22
Alignment explanation
Indices: 47490--47569 Score: 108
Period size: 22 Copynumber: 3.6 Consensus size: 22
47480 TACCCTTATA
* *
47490 GGGTATCGATACACATTCAAAG
1 GGGTATCGATACACGTTGAAAG
47512 AGGGTATCGATACACGTTGAAAG
1 -GGGTATCGATACACGTTGAAAG
47535 GGGTATCGATACACGTTGAAAG
1 GGGTATCGATACACGTTGAAAG
* *
47557 TGG-ATTGATACAC
1 GGGTATCGATACAC
47570 TCTGAACAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 9 0.17
22 24 0.45
23 20 0.38
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (22 bp):
GGGTATCGATACACGTTGAAAG
Found at i:53035 original size:74 final size:74
Alignment explanation
Indices: 52957--53142 Score: 255
Period size: 74 Copynumber: 2.5 Consensus size: 74
52947 TTAAATGACT
* * * *
52957 AAGGGTATCGGTACCTCAAAGGGGGTATCGGTACCTGTTAGACATTTTGTTTTTCTCGGAGCCAA
1 AAGGGTATCGGTACCTCTATGGGGGTATCGGTACCTATTAGACATTCTGTTTTTCTCGGAGCCAA
53022 AATTGACAC
66 AATTGACAC
* * *
53031 AAGGGTATCGGTACCTCTATGGGGGTATCGGTACCCATTGGGCATTCTGTTTTTCTCGGAGCCAA
1 AAGGGTATCGGTACCTCTATGGGGGTATCGGTACCTATTAGACATTCTGTTTTTCTCGGAGCCAA
* *
53096 AATTGGCAT
66 AATTGACAC
* *
53105 AGGGGTATCGGTACACCCTATGAGGGGTATCGGTACCT
1 AAGGGTATCGGTAC-CTCTATG-GGGGTATCGGTACCT
53143 CACTATTTAA
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
74 78 0.80
75 6 0.06
76 14 0.14
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (74 bp):
AAGGGTATCGGTACCTCTATGGGGGTATCGGTACCTATTAGACATTCTGTTTTTCTCGGAGCCAA
AATTGACAC
Found at i:54399 original size:20 final size:21
Alignment explanation
Indices: 54374--54427 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
54364 CGTTATACAA
*
54374 GGGGGAATTGGTA-CCCCTTG
1 GGGGGAATCGGTACCCCCTTG
54394 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTT-G
54416 GGGGGAATCGGT
1 GGGGGAATCGGT
54428 TCCCTCTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 12 0.39
21 6 0.19
22 13 0.42
ACGTcount: A:0.15, C:0.20, G:0.44, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTTG
Found at i:56668 original size:26 final size:26
Alignment explanation
Indices: 56634--56683 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
56624 AAACCACAAT
*
56634 AATTTGAAAA-TTAACATTTTTTTAA
1 AATTTGAAAATTTAAAATTTTTTTAA
56659 AATTTCGAAAATTTAAAATTTTTTT
1 AATTT-GAAAATTTAAAATTTTTTT
56684 GGAAAATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 12 0.55
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (26 bp):
AATTTGAAAATTTAAAATTTTTTTAA
Found at i:56892 original size:20 final size:20
Alignment explanation
Indices: 56855--56893 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56845 AGATTGAGTG
* * *
56855 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
56875 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
56894 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:68903 original size:31 final size:31
Alignment explanation
Indices: 68847--68913 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
68837 CAGATGGTAA
* *
68847 AGAGATTAGAAGGGGAAAGAGAAGATGGTGG
1 AGAGATTAGAAGGAGAAAGAGAAGATGATGG
* *
68878 CGAGATTAGAAAGGAG-AAGATAAGATGATGG
1 AGAGATTAG-AAGGAGAAAGAGAAGATGATGG
68909 AGAGA
1 AGAGA
68914 GTTTTGAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.45, C:0.01, G:0.40, T:0.13
Consensus pattern (31 bp):
AGAGATTAGAAGGAGAAAGAGAAGATGATGG
Found at i:69261 original size:28 final size:28
Alignment explanation
Indices: 69211--69271 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
69201 TTTATCGTTT
69211 TAAAAATTCAAAAATAAAAATTA-TATTA
1 TAAAAATTCAAAAATAAAAATTACTA-TA
**
69239 TAAAAATTCAAAAGA-AATTATTACTATA
1 TAAAAATTCAAAA-ATAAAAATTACTATA
69267 TAAAA
1 TAAAA
69272 TATATCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (28 bp):
TAAAAATTCAAAAATAAAAATTACTATA
Found at i:69310 original size:14 final size:14
Alignment explanation
Indices: 69288--69328 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
69278 AATTTAAACT
69288 ATAATAAAATATAA
1 ATAATAAAATATAA
* *
69302 ATAAAAAAAATATAT
1 AT-AATAAAATATAA
69317 ATAATAAAATAT
1 ATAATAAAATAT
69329 TTTATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAATAAAATATAA
Found at i:70090 original size:2 final size:2
Alignment explanation
Indices: 70083--70116 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
70073 TAAACATTTA
70083 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
70117 TATTTAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70911 original size:54 final size:53
Alignment explanation
Indices: 70862--71175 Score: 365
Period size: 54 Copynumber: 5.9 Consensus size: 53
70852 CTATACGGAA
* * *
70862 ATTCATCAACTCATGATAAATTCTGTGGGTTGCACACATAGTGCTTATACGGTG
1 ATTCATCAACTCATGATGAATT-TGTGGGTTGCACACATAGTGCATGTACGGTG
* *
70916 ATTCAT-AACTCATGA-GAATTCCGTGGGTTTGCACACATGGTGTC-TGTACGGTG
1 ATTCATCAACTCATGATGAATT-TGTGGG-TTGCACACATAGTG-CATGTACGGTG
*
70969 ATTCATCAACTCATGGTGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTG
1 ATTCATCAACTCATGATGAATTT-GTGGGTTGCACACATAGTGCATGTACGGTG
*
71023 ATTCATCAACTCATGATGAATTTGTGGGTTG--CACATA-TGCATGTAC-G-C
1 ATTCATCAACTCATGATGAATTTGTGGGTTGCACACATAGTGCATGTACGGTG
* * * *
71071 ATTCATCAACTAATTATGAATTTCGTGGGTTTGCACACAAAGTGCATGTACGATG
1 ATTCATCAACTCATGATGAATTT-GTGGG-TTGCACACATAGTGCATGTACGGTG
* * *
71126 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTA
1 ATTCATCAACTCATGATGAATT-TGTGG-GTTGCACACATAGTGCATGTA
71176 ATACACATAG
Statistics
Matches: 227, Mismatches: 18, Indels: 29
0.83 0.07 0.11
Matches are distributed among these distances:
48 21 0.09
49 6 0.03
50 12 0.05
51 6 0.03
52 15 0.07
53 54 0.24
54 59 0.26
55 54 0.24
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (53 bp):
ATTCATCAACTCATGATGAATTTGTGGGTTGCACACATAGTGCATGTACGGTG
Found at i:70983 original size:107 final size:106
Alignment explanation
Indices: 70862--71175 Score: 392
Period size: 107 Copynumber: 3.0 Consensus size: 106
70852 CTATACGGAA
* * *
70862 ATTCATCAACTCATGAT-AAATTCTGTGGGTTGCACACATAGTGCTTATACGGTGATTCAT-AAC
1 ATTCATCAACTCATGATGAATTTC-GTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAAC
* *
70925 TCATGA-GAATTCCGTGGGTTTGCACACATGGTGTC-TGTACGGTG
65 TCATGATGAATTCCGTGGGTTTGCACACAT-ATG-CATGTAC-G-C
*
70969 ATTCATCAACTCATGGTGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAACT
1 ATTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAACT
*
71034 CATGATGAATT-TGTGGG-TTG--CACATATGCATGTACGC
66 CATGATGAATTCCGTGGGTTTGCACACATATGCATGTACGC
* * * *
71071 ATTCATCAACTAATTATGAATTTCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATCAAC
1 ATTCATCAACTCATGATGAATTTCGTGGG-TTGCACACATAGTGCATGTACGGTGATTCATCAAC
* *
71136 TCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTA
65 TCATGATGAATTCCGTGGGTTTGCACACATA-TGCATGTA
71176 ATACACATAG
Statistics
Matches: 182, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
102 26 0.14
103 47 0.26
104 11 0.06
105 8 0.04
107 58 0.32
108 27 0.15
109 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (106 bp):
ATTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAACT
CATGATGAATTCCGTGGGTTTGCACACATATGCATGTACGC
Found at i:71090 original size:48 final size:52
Alignment explanation
Indices: 70862--71162 Score: 285
Period size: 53 Copynumber: 5.7 Consensus size: 52
70852 CTATACGGAA
* * * *
70862 ATTCATCAACTCATGAT-AAATTCTGTGGGTTGCACACATAGTGCTTATACGGTG
1 ATTCATCAACTCATGATGAATTTC-GTGGGTTG--CACATAGTGCATGTACGGTC
* * *
70916 ATTCAT-AACTCATGA-GAATTCCGTGGGTTTGCACACATGGTGTC-TGTACGGTG
1 ATTCATCAACTCATGATGAATTTCGTGGG-TTG--CACATAGTG-CATGTACGGTC
* *
70969 ATTCATCAACTCATGGTGAATTTCGTGGGTTGCACACATAGTGCATGTACGGTG
1 ATTCATCAACTCATGATGAATTTCGTGGGTTG--CACATAGTGCATGTACGGTC
71023 ATTCATCAACTCATGATGAATTT-GTGGGTTGCACATA-TGCATGTAC-G-C
1 ATTCATCAACTCATGATGAATTTCGTGGGTTGCACATAGTGCATGTACGGTC
* * * * *
71071 ATTCATCAACTAATTATGAATTTCGTGGGTTTGCACACAAAGTGCATGTACGATG
1 ATTCATCAACTCATGATGAATTTCGTGGG-TTG--CACATAGTGCATGTACGGTC
* *
71126 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACA
1 ATTCATCAACTCATGATGAATTTCGTGG-GTTGCACA
71163 CAAAGTGCAT
Statistics
Matches: 215, Mismatches: 18, Indels: 29
0.82 0.07 0.11
Matches are distributed among these distances:
48 21 0.10
49 6 0.03
50 12 0.06
51 6 0.03
52 10 0.05
53 62 0.29
54 59 0.27
55 39 0.18
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
ATTCATCAACTCATGATGAATTTCGTGGGTTGCACATAGTGCATGTACGGTC
Found at i:71100 original size:157 final size:161
Alignment explanation
Indices: 70862--71175 Score: 417
Period size: 157 Copynumber: 2.0 Consensus size: 161
70852 CTATACGGAA
* * *
70862 ATTCATCAACTCATGATAAATTCTGTGGGTTGCACACATAGTGCTTATACGGTGATTCATAACTC
1 ATTCATCAACTCATGATAAATTCTGTGGGTTG-ACACATAGTGCATATACGGTCATTCATAACTA
** * *
70927 ATGAGAATTCCGTGGGTTTGCACACATGGTGTC-TGTACGGTGATTCATCAACTCATGGTGAATT
65 ATGAGAATTCCGTGGGTTTGCACACAAAGTG-CATGTACGATGATTCATCAACTCATGATGAATT
* *
70991 TCGTGG-GTTGCACACATAGTGCATGTACGGTG
129 CCGTGGAGTTGCACACAAAGTGCATGTACGGTG
* *
71023 ATTCATCAACTCATGATGAATT-TGTGGGTTG-CACATA-TGCATGTAC-G-CATTCATCAACTA
1 ATTCATCAACTCATGATAAATTCTGTGGGTTGACACATAGTGCATATACGGTCATTCAT-AACTA
* *
71083 ATTATGAATTTCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATCAACTCATGATGAATT
65 ATGA-GAATTCCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATCAACTCATGATGAATT
*
71148 CCGTGGATTTGCACACAAAGTGCATGTA
129 CCGTGGAGTTGCACACAAAGTGCATGTA
71176 ATACACATAG
Statistics
Matches: 135, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
155 6 0.04
156 9 0.07
157 65 0.48
158 25 0.19
160 9 0.07
161 21 0.16
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (161 bp):
ATTCATCAACTCATGATAAATTCTGTGGGTTGACACATAGTGCATATACGGTCATTCATAACTAA
TGAGAATTCCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATCAACTCATGATGAATTCC
GTGGAGTTGCACACAAAGTGCATGTACGGTG
Found at i:71623 original size:20 final size:20
Alignment explanation
Indices: 71598--71666 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 20
71588 TGATGTTGCC
71598 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
* *
71618 TGGTATCGATACTACCCTACTA
1 TGGTATCGATAC--CCTTACCA
*
71640 TGGTACCGATACCCCTT-CCA
1 TGGTATCGATA-CCCTTACCA
71660 -GGTATCG
1 TGGTATCG
71667 GTACAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 6 0.15
20 14 0.35
21 3 0.08
22 16 0.40
23 1 0.03
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (20 bp):
TGGTATCGATACCCTTACCA
Found at i:71685 original size:95 final size:95
Alignment explanation
Indices: 71543--71728 Score: 286
Period size: 95 Copynumber: 2.0 Consensus size: 95
71533 ACTTCTTTAT
* * *
71543 TATGGTACTGATACCCCCTTCTGGTATCGATACCAAAAATAGGTTTGATGTTGCCTGGTATCGAT
1 TATGGTACCGATACCCCCTTCAGGTATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGAT
71608 ACCCTTACCATGGTATCGATACTACCCTAC
66 ACCCTTACCATGGTATCGATACTACCCTAC
* * *
71638 TATGGTACCGATA-CCCCTTCCAGGTATCGGTA-CAAAAATTAGATTTGATGTTTCTTGGTATCG
1 TATGGTACCGATACCCCCTT-CAGGTATCGATACCAAAAA-TAGATTTGATGTTGCCTGGTATCG
71701 ATACCCTTACCATGGTATCGATACTACC
64 ATACCCTTACCATGGTATCGATACTACC
71729 TCGACGGTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
94 12 0.14
95 71 0.86
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (95 bp):
TATGGTACCGATACCCCCTTCAGGTATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGAT
ACCCTTACCATGGTATCGATACTACCCTAC
Found at i:71761 original size:95 final size:95
Alignment explanation
Indices: 71567--71749 Score: 237
Period size: 95 Copynumber: 1.9 Consensus size: 95
71557 CCCCTTCTGG
*
71567 TATCGATACCAAAAATAGGTTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACTA
1 TATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACTA
* * ** *
71632 CCCTACTATGGTACCGATACCCCTTCCAGG
66 CCCTACGACGGTACCGATACCAATTCCAGA
* * *
71662 TATCGGTA-CAAAAATTAGATTTGATGTTTCTTGGTATCGATACCCTTACCATGGTATCGATACT
1 TATCGATACCAAAAA-TAGATTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACT
* *
71726 A-CCT-CGACGGTATCGATACTAATT
65 ACCCTACGACGGTACCGATACCAATT
71750 GAATCAATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
93 14 0.18
94 9 0.12
95 54 0.70
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (95 bp):
TATCGATACCAAAAATAGATTTGATGTTGCCTGGTATCGATACCCTTACCATGGTATCGATACTA
CCCTACGACGGTACCGATACCAATTCCAGA
Found at i:77678 original size:36 final size:35
Alignment explanation
Indices: 77627--77738 Score: 181
Period size: 34 Copynumber: 3.2 Consensus size: 35
77617 ATCCCATTAT
* *
77627 CATTTTTCAACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAGAAACATTTACCAAACTTTG-AAAAC
*
77663 TATTTTTCAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAGAAACATTTACCAAACTTTGAAAAC
77698 CA-TTTTCAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAGAAACATTTACCAAACTTTGAAAAC
77732 CATTTTT
1 CATTTTT
77739 TCAAAGTTGG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 34 0.48
35 10 0.14
36 27 0.38
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (35 bp):
CATTTTTCAAGAAACATTTACCAAACTTTGAAAAC
Found at i:82295 original size:37 final size:36
Alignment explanation
Indices: 82233--82351 Score: 161
Period size: 35 Copynumber: 3.3 Consensus size: 36
82223 TCCCATTATC
* * *
82233 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACA
* *
82269 ATTTTTCAAAGAAACATTTACTAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACA
82305 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACA
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACA
82340 ATTTTTTCAAAG
1 A-TTTTTCAAAG
82352 TTGGTTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 33 0.45
36 13 0.18
37 28 0.38
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACA
Found at i:82984 original size:165 final size:163
Alignment explanation
Indices: 82728--83027 Score: 474
Period size: 165 Copynumber: 1.8 Consensus size: 163
82718 CTATACGAAA
*
82728 ATTCATCAACTCATGATAAATTCCGTGAGTTGCACACATAGTGCTTATACGGTGATTCATCAACT
1 ATTCATCAACTCATGATAAATTCCGTGAGTTGCACACATAGTGCATATACGGTGATTCATCAACT
* ** * * *
82793 CATGATGAATTCCGTGGGTTTGCACACATGGTGCCTGTACGGTGATTCATAAACTCATATGATGA
66 AATGATGAATTCCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATAAAC-C-CATGATGA
82858 ATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
129 ATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
* * *
82893 ATTCATCAACTCATGATGAATTCCGTGGGTTGCACACATAGTGCATGTACGGTGATTCATCAACT
1 ATTCATCAACTCATGATAAATTCCGTGAGTTGCACACATAGTGCATATACGGTGATTCATCAACT
* *
82958 AATGATGAATTCTGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATCAACCCATGATGAAT
66 AATGATGAATTCCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATAAACCCATGATGAAT
83023 TCTGT
131 TCTGT
83028 AGATTTGCAC
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
163 14 0.11
164 1 0.01
165 108 0.88
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (163 bp):
ATTCATCAACTCATGATAAATTCCGTGAGTTGCACACATAGTGCATATACGGTGATTCATCAACT
AATGATGAATTCCGTGGGTTTGCACACAAAGTGCATGTACGATGATTCATAAACCCATGATGAAT
TCTGTGGGTTGCACACATAGTGCCTGTACGGTG
Found at i:83042 original size:55 final size:54
Alignment explanation
Indices: 82728--83024 Score: 432
Period size: 54 Copynumber: 5.4 Consensus size: 54
82718 CTATACGAAA
* * * *
82728 ATTCATCAACTCATGATAAATTCCGTGAGTTGCACACATAGTGCTTATACGGTG
1 ATTCATCAACTCATGATGAATTCCGTGGGTTGCACACATAGTGCATGTACGGTG
* *
82782 ATTCATCAACTCATGATGAATTCCGTGGGTTTGCACACATGGTGCCTGTACGGTG
1 ATTCATCAACTCATGATGAATTCCGTGGG-TTGCACACATAGTGCATGTACGGTG
* * *
82837 ATTCATAAACTCATATGATGAATTCTGTGGGTTGCACACATAGTGCCTGTACGGTG
1 ATTCATCAACTC--ATGATGAATTCCGTGGGTTGCACACATAGTGCATGTACGGTG
82893 ATTCATCAACTCATGATGAATTCCGTGGGTTGCACACATAGTGCATGTACGGTG
1 ATTCATCAACTCATGATGAATTCCGTGGGTTGCACACATAGTGCATGTACGGTG
* * * *
82947 ATTCATCAACTAATGATGAATTCTGTGGGTTTGCACACAAAGTGCATGTACGATG
1 ATTCATCAACTCATGATGAATTCCGTGGG-TTGCACACATAGTGCATGTACGGTG
*
83002 ATTCATCAACCCATGATGAATTC
1 ATTCATCAACTCATGATGAATTC
83025 TGTAGATTTG
Statistics
Matches: 222, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
54 94 0.42
55 77 0.35
56 35 0.16
57 16 0.07
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (54 bp):
ATTCATCAACTCATGATGAATTCCGTGGGTTGCACACATAGTGCATGTACGGTG
Found at i:83491 original size:20 final size:20
Alignment explanation
Indices: 83466--83522 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
83456 AGCGATGTTG
*
83466 CATGGTATCGATACCCTTAC
1 CATGGTATCGATACCCCTAC
83486 CATGGTATCGATACTACCCTAC
1 CATGGTATCGATAC--CCCTAC
* *
83508 TATGGTACCGATACC
1 CATGGTATCGATACC
83523 GGGTACCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (20 bp):
CATGGTATCGATACCCCTAC
Found at i:83527 original size:13 final size:13
Alignment explanation
Indices: 83511--83535 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83501 ACCCTACTAT
83511 GGTACCGATACCG
1 GGTACCGATACCG
83524 GGTACCGATACC
1 GGTACCGATACC
83536 CCCTCCCGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.16
Consensus pattern (13 bp):
GGTACCGATACCG
Found at i:107058 original size:31 final size:30
Alignment explanation
Indices: 107018--107075 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
107008 AAATGACTAC
107018 ATATATTATACATAATACACTTAAATTCTTA
1 ATATATTATACATAATA-ACTTAAATTCTTA
* * * *
107049 ATATTTTATATATCATAATTTAAATTC
1 ATATATTATACATAATAACTTAAATTC
107076 ACGTATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 9 0.39
31 14 0.61
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATATTATACATAATAACTTAAATTCTTA
Found at i:107192 original size:28 final size:29
Alignment explanation
Indices: 107121--107256 Score: 177
Period size: 29 Copynumber: 4.7 Consensus size: 29
107111 AAATATTTTT
* *
107121 TTATCTTAACTTATTAAATATATTTTATTC
1 TTATTTTAACTTA-AAAATATATTTTATTC
* *
107151 TTTTTTTAACCTAAAAATATATTTTATTC
1 TTATTTTAACTTAAAAATATATTTTATTC
107180 TT-TTTTAA-TCTAAAAATATATTTTATTC
1 TTATTTTAACT-TAAAAATATATTTTATTC
* *
107208 TTATTTTAACTTTAAAATATATTTTAATC
1 TTATTTTAACTTAAAAATATATTTTATTC
*
107237 TTATCTTAACTTAAAAATAT
1 TTATTTTAACTTAAAAATAT
107257 TTATTTTGCC
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
28 26 0.28
29 57 0.61
30 11 0.12
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (29 bp):
TTATTTTAACTTAAAAATATATTTTATTC
Found at i:107199 original size:57 final size:58
Alignment explanation
Indices: 107121--107256 Score: 186
Period size: 57 Copynumber: 2.3 Consensus size: 58
107111 AAATATTTTT
* * *
107121 TTATCTTAACTTATTAAATATATTTTATTCTTTTTTTAACCTAAAAATATATTTTATTC
1 TTATCTTAACTTA-AAAATATATTTTATTCTTATTTTAACCTAAAAATATATTTTAATC
* * *
107180 TT-TTTTAA-TCTAAAAATATATTTTATTCTTATTTTAACTTTAAAATATATTTTAATC
1 TTATCTTAACT-TAAAAATATATTTTATTCTTATTTTAACCTAAAAATATATTTTAATC
107237 TTATCTTAACTTAAAAATAT
1 TTATCTTAACTTAAAAATAT
107257 TTATTTTGCC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
57 43 0.64
58 21 0.31
59 3 0.04
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (58 bp):
TTATCTTAACTTAAAAATATATTTTATTCTTATTTTAACCTAAAAATATATTTTAATC
Found at i:107408 original size:54 final size:53
Alignment explanation
Indices: 107330--107449 Score: 186
Period size: 54 Copynumber: 2.2 Consensus size: 53
107320 AATTAAGAAA
* * *
107330 AAAATATAATATATATTTTTAGTTAAGATAAAAGTAAAATATGTATTTTTAGTT
1 AAAATA-AAAATATATTTTTAGTTAAGATAAAAATAAAATATATATTTTTAGTT
107384 AAAATAAAAATATATTTTTGAGTTAAGATAAAAATAAAATATATATTTTTAGTT
1 AAAATAAAAATATATTTTT-AGTTAAGATAAAAATAAAATATATATTTTTAGTT
*
107438 AAAATAAGAATA
1 AAAATAAAAATA
107450 AATTATATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 12 0.20
54 49 0.80
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (53 bp):
AAAATAAAAATATATTTTTAGTTAAGATAAAAATAAAATATATATTTTTAGTT
Found at i:107416 original size:23 final size:23
Alignment explanation
Indices: 107358--107416 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 23
107348 TTAGTTAAGA
107358 TAAAAGTAAAATATGTATTTTTAGT
1 TAAAA-TAAAATA-GTATTTTTAGT
107383 TAAAATAAAAATA-TATTTTTGAGT
1 TAAAAT-AAAATAGTATTTTT-AGT
*
107407 TAAGATAAAA
1 TAAAATAAAA
107417 ATAAAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 11 0.35
24 9 0.29
25 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (23 bp):
TAAAATAAAATAGTATTTTTAGT
Found at i:107470 original size:60 final size:60
Alignment explanation
Indices: 107350--107666 Score: 199
Period size: 60 Copynumber: 5.4 Consensus size: 60
107340 ATATATTTTT
* * * *
107350 AGTTAAGATAAAAGTAAAATATGTATTTTTAGTTAAAAT----A-AAAATATATTT-TTG
1 AGTTAAGATAAAAATAAAATATATATTTTTAGTTAAAATAAGAATAAAATATATTTAATA
*
107404 AGTTAAGATAAAAATAAAATATATATTTTTAGTTAAAATAAGAATAAATTATATTTAATA
1 AGTTAAGATAAAAATAAAATATATATTTTTAGTTAAAATAAGAATAAAATATATTTAATA
* * * ** * * * ** * * * * *
107464 ATTTAAGGTAAGAATATGATATAT-TTCATAATTTAATTTAGGAACATAATTTATGTAATA
1 AGTTAAGATAAAAATAAAATATATATT-TTTAGTTAAAATAAGAATAAAATATATTTAATA
* * * * * * * *
107524 AATTAATATAAGAATAAAATATAT-TCTTTAAGTTAAGATAAAGAGTAAAACATATTT-TTA
1 AGTTAAGATAAAAATAAAATATATAT-TTTTAGTTAAAAT-AAGAATAAAATATATTTAATA
* * * * *
107584 AGTTAAAATGAGAAT-AAA-ATATATTTTTAGATTAAGACAATG-ATAAAATATATTTAATA
1 AGTTAAGATAAAAATAAAATATATATTTTTAG-TTAAAATAA-GAATAAAATATATTTAATA
*
107643 AGTTAATATAAAAATAAAATATAT
1 AGTTAAGATAAAAATAAAATATAT
107667 TCGTATTGTT
Statistics
Matches: 199, Mismatches: 49, Indels: 23
0.73 0.18 0.08
Matches are distributed among these distances:
54 37 0.19
58 23 0.12
59 37 0.19
60 87 0.44
61 15 0.08
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (60 bp):
AGTTAAGATAAAAATAAAATATATATTTTTAGTTAAAATAAGAATAAAATATATTTAATA
Found at i:107586 original size:30 final size:30
Alignment explanation
Indices: 107311--107667 Score: 176
Period size: 30 Copynumber: 12.2 Consensus size: 30
107301 TATTATGATA
* * *
107311 ATATTTTAAAATTAAGA-AAAAAATATAATAT
1 ATATTTTTAAGTTAAGATAAAGAATA-AA-AT
*
107342 ATATTTTT-AGTTAAGATAAA-AGTAAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
*
107370 ATGTATTTTT-AGTT---A-AAA-TA-AAAAT
1 A--TATTTTTAAGTTAAGATAAAGAATAAAAT
*
107395 ATATTTTTGAGTTAAGATAAA-AATAAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
* * *
107424 ATATATTTTTAGTTAAAAT-AAGAATAAATT
1 ATAT-TTTTAAGTTAAGATAAAGAATAAAAT
* * * **
107454 ATATTTAATAATTTAAGGT-AAGAATATGAT
1 ATATTT-TTAAGTTAAGATAAAGAATAAAAT
* * * * * * *
107484 ATATTTCATAATTTAA-TTTAGGAACATAAT
1 ATATTT-TTAAGTTAAGATAAAGAATAAAAT
* ** * *
107514 TTATGTAATAAATTAATAT-AAGAATAAAAT
1 ATAT-TTTTAAGTTAAGATAAAGAATAAAAT
* *
107544 ATATTCTTTAAGTTAAGATAAAGAGTAAAAC
1 ATATT-TTTAAGTTAAGATAAAGAATAAAAT
* *
107575 ATATTTTTAAGTTAAAAT-GAGAATAAAAT
1 ATATTTTTAAGTTAAGATAAAGAATAAAAT
* *
107604 ATATTTTT-AGATTAAGACAATG-ATAAAAT
1 ATATTTTTAAG-TTAAGATAAAGAATAAAAT
* *
107633 ATATTTAATAAGTTAATATAAA-AATAAAAT
1 ATATTT-TTAAGTTAAGATAAAGAATAAAAT
107663 ATATT
1 ATATT
107668 CGTATTGTTA
Statistics
Matches: 256, Mismatches: 48, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
23 7 0.03
24 4 0.02
25 6 0.02
26 3 0.01
27 2 0.01
28 9 0.04
29 51 0.20
30 146 0.57
31 28 0.11
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.39
Consensus pattern (30 bp):
ATATTTTTAAGTTAAGATAAAGAATAAAAT
Found at i:107659 original size:59 final size:61
Alignment explanation
Indices: 107519--107668 Score: 191
Period size: 59 Copynumber: 2.5 Consensus size: 61
107509 ATAATTTATG
* *
107519 TAATAAATTAATATAAGAATAAAATATATTCTTTAAGTTAAGATAAAGAGTAAAACATATT
1 TAATAAGTTAATATAAGAATAAAATATATTCTTTAAGTTAAGACAAAGAGTAAAACATATT
* * * * *
107580 T-TTAAGTTAAAATGAGAATAAAATATATT-TTT-AGATTAAGACAATGA-TAAAATATATT
1 TAATAAGTTAATATAAGAATAAAATATATTCTTTAAG-TTAAGACAAAGAGTAAAACATATT
*
107638 TAATAAGTTAATATAAAAATAAAATATATTC
1 TAATAAGTTAATATAAGAATAAAATATATTC
107669 GTATTGTTAG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
58 13 0.17
59 37 0.49
60 24 0.32
61 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (61 bp):
TAATAAGTTAATATAAGAATAAAATATATTCTTTAAGTTAAGACAAAGAGTAAAACATATT
Found at i:111431 original size:3 final size:3
Alignment explanation
Indices: 111423--111487 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
111413 TTTTTACCCA
111423 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
111471 CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
111488 AATATATATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:111662 original size:16 final size:16
Alignment explanation
Indices: 111641--111695 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
111631 TAATCCCATG
111641 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
111657 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
111673 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
111689 CCA-CCGC
1 CCAGCCGC
111696 TGCCACGTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
15 4 0.10
16 35 0.90
ACGTcount: A:0.07, C:0.58, G:0.18, T:0.16
Consensus pattern (16 bp):
CCAGCCGCCTCTGCCT
Found at i:111885 original size:18 final size:18
Alignment explanation
Indices: 111862--111908 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
111852 ACCTGCAAAC
111862 AAAAAGAG-GACGGAGAAA
1 AAAAAGAGAGA-GGAGAAA
*
111880 AAAAAGAGAGAGGAGAAC
1 AAAAAGAGAGAGGAGAAA
*
111898 ACAAAGAGAGA
1 AAAAAGAGAGA
111909 TACAGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.62, C:0.06, G:0.32, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAGAGGAGAAA
Found at i:111996 original size:15 final size:15
Alignment explanation
Indices: 111976--112017 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
111966 ATCATTCAGC
*
111976 AAAGAAACAG-AATAG
1 AAAGAAA-AGAAAAAG
111991 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
112006 AAAGAAGAGAAA
1 AAAGAAAAGAAA
112018 CTTACTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:112001 original size:20 final size:20
Alignment explanation
Indices: 111976--112017 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
111966 ATCATTCAGC
*
111976 AAAGAAACAGAATAGAA-AGA
1 AAAGAAAAAGAA-AGAAGAGA
111996 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
112016 AA
1 AA
112018 CTTACTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:124634 original size:16 final size:16
Alignment explanation
Indices: 124608--124652 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
124598 TTTGAATACA
*
124608 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
124625 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
124640 ATTCAATTTATTT
1 ATTCAATTTATTT
124653 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:125534 original size:83 final size:83
Alignment explanation
Indices: 125395--126325 Score: 1628
Period size: 83 Copynumber: 11.2 Consensus size: 83
125385 TAATTGGAAT
* *
125395 AGATGAATTTTCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
* *
125460 TCAACCATTGAATTTGGA
66 CCAATCATTGAATTTGGA
125478 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
* *
125543 TCAACCATTGAATTTGGA
66 CCAATCATTGAATTTGGA
125561 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
*
125626 CCAATCATTGAATTTAGA
66 CCAATCATTGAATTTGGA
* *
125644 AGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
125709 CCAATCATTGAATTTGGA
66 CCAATCATTGAATTTGGA
* *
125727 AGATGAATTTGCTCATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATATGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
*
125792 CCAATCATTGAATTTAGA
66 CCAATCATTGAATTTGGA
*
125810 AGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
*
125875 CCAATCATTGAATTTAGA
66 CCAATCATTGAATTTGGA
* *
125893 AGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
125958 CCAATCATTGAATTTGGA
66 CCAATCATTGAATTTGGA
* *
125976 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATAGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
126041 CCAATCATTGAATTTGGA
66 CCAATCATTGAATTTGGA
*
126059 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGACAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
126124 CCAATCATTGAATTTGGA
66 CCAATCATTGAATTTGGA
*
126142 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
* *
126207 CCAACCATTGAATTTGAA
66 CCAATCATTGAATTTGGA
* * * *
126225 AGATGATTTTGCTAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTTGGCAGAA
1 AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
126290 CCAATCATTGAATTTGGA
66 CCAATCATTGAATTTGGA
126308 AGATGAATTTGCTCATAG
1 AGATGAATTTGCTCATAG
126326 TAGAAATAAG
Statistics
Matches: 818, Mismatches: 30, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 818 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (83 bp):
AGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAA
CCAATCATTGAATTTGGA
Found at i:126419 original size:104 final size:105
Alignment explanation
Indices: 126238--126493 Score: 487
Period size: 104 Copynumber: 2.4 Consensus size: 105
126228 TGATTTTGCT
* *
126238 AATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAACCATTGAAT
126303 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAATTC
66 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAATTC
126343 -ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAACCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAACCATTGAAT
126407 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAATTC
66 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAATTC
126447 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
126494 TAAGAACTAC
Statistics
Matches: 148, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
104 102 0.69
105 46 0.31
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (105 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAACCATTGAAT
TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAATTC
Found at i:127670 original size:116 final size:115
Alignment explanation
Indices: 127222--127779 Score: 801
Period size: 116 Copynumber: 4.9 Consensus size: 115
127212 ATTCAAATCT
* *
127222 ATCATTTGATGGATTATCTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGGA
1 ATCACTTGATGGATTAT-TTTTGCCAGAGAAGGTTCATAATGAGAAGAACTC-TCATCTGAAGAA
127286 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
64 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
127338 ATCACTTGATGGATTATTTTTGCCAGAGAA-GTTCATAATGAGAAGAA--CTCATCTGAAGAAGG
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCTCATCTGAAGAAGG
* *
127400 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTC
66 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
* * * *
127450 ATCAAATTGATGGATTAGCTTTT-CCAGAAAAAGTTCATAATGAGAAGAA--CTCATCTGAAGAA
1 ATC-ACTTGATGGATTA-TTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCTCATCTGAAGAA
*
127512 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCCGAATTC
64 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
127564 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTC-TCATCTGAAGAAG
* * * *
127629 GAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
65 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
* *** *
127680 ATCA-TTGGATGGATCAACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 ATCACTT-GATGGATTATTTTTGCCAGAGAAG-GTTCATAATGAGAAGAACTC-TCATCTGAAGA
* *
127743 AGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
63 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAA
127780 TAATTCTATC
Statistics
Matches: 406, Mismatches: 26, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
112 68 0.17
113 56 0.14
114 86 0.21
115 28 0.07
116 168 0.41
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (115 bp):
ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCTCATCTGAAGAAGG
AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
Found at i:128104 original size:3 final size:3
Alignment explanation
Indices: 128096--128139 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
128086 TTTTTACCCA
*
128096 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
128140 AAAATATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:128522 original size:18 final size:19
Alignment explanation
Indices: 128479--128527 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 19
128469 CAAACCTGCA
128479 AACAAAAAGAG-GACGGAG
1 AACAAAAAGAGAGACGGAG
128497 AA-AAAAAGAGAGA-GGAG
1 AACAAAAAGAGAGACGGAG
*
128514 AACACAAAGAGAGA
1 AACAAAAAGAGAGA
128528 TACAGAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.61, C:0.08, G:0.31, T:0.00
Consensus pattern (19 bp):
AACAAAAAGAGAGACGGAG
Found at i:136184 original size:37 final size:37
Alignment explanation
Indices: 136048--136417 Score: 423
Period size: 37 Copynumber: 9.8 Consensus size: 37
136038 TGCAAATGGG
136048 TTTTTGAAAATACGTATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAATA--TATATAATATATAGTTTTTAAAACA
136087 -TTTTGAAAATATATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
136123 TTTTTGAAAA-CTATATAATATATAGTTTTTAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* * * *
136159 TTTTAGAAAATATATATAATATATAGGTATGAAAATCA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAA-CA
* *
136197 -TTTTGAAACCT-TATATAATATATAGTTTTTAAAATA
1 TTTTTGAAA-ATATATATAATATATAGTTTTTAAAACA
* * *
136233 TTTTTAAAACATTTATATATTATATAGTTTTTAAAAACA
1 TTTTTGAAA-ATATATATAATATATAGTTTTT-AAAACA
*
136272 -TTTTGAAAATGTATATAATATATAGGTTTTT-AAACA
1 TTTTTGAAAATATATATAATATATA-GTTTTTAAAACA
136308 TTTTTGAAATATATATATATATATATTTATAGTTTTCTAAAACA
1 TTTTTG-AA-A-ATATATATA-ATA--TATAGTTTT-TAAAACA
* *
136352 TTTTTGAAAACATGTATAATATATAGTTTTTAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
136389 TTTTGGAAAAT-TATATATTATAT-GTTTTT
1 TTTTTGAAAATATATATAATATATAGTTTTT
136418 GAAGTATTTT
Statistics
Matches: 288, Mismatches: 26, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
35 6 0.02
36 75 0.26
37 100 0.35
38 56 0.19
39 6 0.02
40 11 0.04
41 10 0.03
42 6 0.02
43 7 0.02
44 11 0.04
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:136463 original size:7 final size:7
Alignment explanation
Indices: 136453--136498 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
136443 TAGTATATTG
136453 TTATTAT
1 TTATTAT
136460 TTATTAT
1 TTATTAT
136467 TTATTAT
1 TTATTAT
136474 TTA-TAT
1 TTATTAT
136480 TTATT-T
1 TTATTAT
*
136486 CTTATTTT
1 -TTATTAT
136494 TTATT
1 TTATT
136499 CTTTGTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 7 0.19
7 28 0.78
8 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTAT
Found at i:136480 original size:20 final size:20
Alignment explanation
Indices: 136457--136497 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
136447 ATATTGTTAT
136457 TATTTATTAT-TTATTATTTA
1 TATTTATT-TCTTATTATTTA
*
136477 TATTTATTTCTTATTTTTTA
1 TATTTATTTCTTATTATTTA
136497 T
1 T
136498 TCTTTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTATTTCTTATTATTTA
Found at i:138590 original size:46 final size:46
Alignment explanation
Indices: 138523--138610 Score: 176
Period size: 46 Copynumber: 1.9 Consensus size: 46
138513 AAATGTATCT
138523 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGCTTAATCC
1 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGCTTAATCC
138569 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGCTTA
1 TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGCTTA
138611 GGACTAAGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (46 bp):
TCTCGAGTTTAACTTAGTCCACATAAGCTTGTAATGGGCTTAATCC
Found at i:138965 original size:20 final size:22
Alignment explanation
Indices: 138935--138975 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
138925 CACACTAACT
138935 TTTTCCTTTCATTTTT-TTTTG
1 TTTTCCTTTCATTTTTATTTTG
138956 TTTT-CTTTCATTTTTATTTT
1 TTTTCCTTTCATTTTTATTTT
138976 TATCATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCCTTTCATTTTTATTTTG
Found at i:139921 original size:29 final size:29
Alignment explanation
Indices: 139883--139942 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
139873 CTGGAAGAAA
139883 AGATAAATCA-GAATAA-CC-AGAGTGCCTT
1 AGATAAATCATGAA-AAGCCAAGAGT-CCTT
139911 AGATACAATCATGAAAAGCCAAGAGTCCTT
1 AGATA-AATCATGAAAAGCCAAGAGTCCTT
139941 AG
1 AG
139943 TCGATCAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 5 0.18
29 7 0.25
30 11 0.39
31 5 0.18
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.20
Consensus pattern (29 bp):
AGATAAATCATGAAAAGCCAAGAGTCCTT
Found at i:142726 original size:84 final size:84
Alignment explanation
Indices: 142583--143735 Score: 1375
Period size: 84 Copynumber: 13.8 Consensus size: 84
142573 ACCTTTAACG
* *
142583 AAAGACCTTCGAGTTCGATTACACTCATCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
142648 GAAGGGCTATCTGCCAATA
66 GAAGGGCTATCTGCCAACA
* * * *
142667 AAAGACCTTCGAGTTCGACTACACTCAGCTAAAAGGCATATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
142732 GAAGGGTTA-CTTGCCAACA
66 GAAGGGCTATC-TGCCAACA
* * * * *
142751 AAAGACCTTAGAGTTCGATTACACTCAACTCAAAGACACTTCATTTGCAGCACAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
142816 GAAGGGATATCTGCCAATA
66 GAAGGGCTATCTGCCAACA
* * * *
142835 AAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACATATCATTTGCAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * *
142900 GAAGTGTTATCTTCCAACA
66 GAAGGGCTATCTGCCAACA
* * * *
142919 AAAGACCTTTGAGTTTGATTACACTCAGCTTAAAGGCACATCATTTGCAGTATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
142984 TAAGGGCTATCTACCAACA
66 GAAGGGCTATCTGCCAACA
* * **
143003 AATGACCTTCGAGTTCTATTACACTCAGCTCAAAGAAACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
143068 TAAGGGCTATCTGCCAACA
66 GAAGGGCTATCTGCCAACA
* *
143087 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
143152 AAAGGGCTATCTGCCAACA
66 GAAGGGCTATCTGCCAACA
* * ** * **
143171 AAAGACCTTCGAGTTTGATTACACTTAGCTCAAAGATACATAATTTGCAATATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
143236 GATGGGCTATCTGCCAACA
66 GAAGGGCTATCTGCCAACA
*
143255 AAAGACCTTCGAGTTCGATT--A---AGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
143315 GAAGGGCTATCTGCCAATA
66 GAAGGGCTATCTGCCAACA
* * * * * *
143334 AAAGACCTTCGAGTTCGATTACATTCAGCTCAACGGCATATCAAATTTACAACATAACTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGGC
* * * **
143399 GAGAAGGGTTATGTGTTATA-A
64 AAGAAGGGCTATCTGCCA-ACA
* * * * * * * *
143420 AAA-ACCTTTGAGTTTGATTACATTCAACTCAGAGGTAAATCAAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGGC
* *
143484 GAGAAGGGTTATCTG-C--C-
64 AAGAAGGGCTATCTGCCAACA
* * *
143501 AAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGAATAGCTCAAGACAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
** * *
143566 GAATAGCTATCTGCTAACG
66 GAAGGGCTATCTGCCAACA
* * * *
143585 AAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATGATTTGAAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
143650 GAAGGGCTATCTG-C--C-
66 GAAGGGCTATCTGCCAACA
* * * * * * *
143665 AAAGACCTTTGAGTTCAATTACACTCGGCTCAAATGCACATCATTTGCAGCATAACTTAAGGCGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
143730 GAAGGG
66 GAAGGG
143736 TCATCAATCA
Statistics
Matches: 922, Mismatches: 131, Indels: 36
0.85 0.12 0.03
Matches are distributed among these distances:
79 70 0.08
80 89 0.10
81 5 0.01
82 33 0.04
83 2 0.00
84 620 0.67
85 67 0.07
86 35 0.04
87 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (84 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGCTATCTGCCAACA
Found at i:144370 original size:36 final size:36
Alignment explanation
Indices: 144311--144675 Score: 342
Period size: 36 Copynumber: 10.1 Consensus size: 36
144301 TACAAATGGT
144311 TTTTGAAAATACGTATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATA--TATATAATATATAGTTTTTAAAACA
144349 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
144385 TTTTTGAAAA-CTATATAATATATAGCTTTTAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTTAAAACA
* *
144421 TTTTAGAAAATATATATAATATACA-ATTTTAAAATCA
1 TTTT-GAAAATATATATAATATATAGTTTTTAAAA-CA
*
144458 TTTTGAAAACT-TATATAATATATAG-TTTTGAAA-A
1 TTTTGAAAA-TATATATAATATATAGTTTTTAAAACA
*
144492 ---T----ATTTATATAATATATAGTTTTTAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTT-AAAACA
* * *
144522 TTTTGAAAATGTATATAATATATAGTTTTTTTTTAAATA
1 TTTTGAAAATATATATAATATATAG---TTTTTAAAACA
* *
144561 TTTTTGAAAAAAATATATATTATATAGTGTTTTAAAACA
1 -TTTTG-AAAATATATATAATATATAGT-TTTTAAAACA
* * *
144600 TTTTTTAAAACATGTATAATATATAGTTTTTAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTTAAAACA
* * * * *
144637 TTTTGGAAATTTATATATTATAT-GTTTTTGAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA
144672 TTTT
1 TTTT
144676 TATATATATA
Statistics
Matches: 276, Mismatches: 28, Indels: 49
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.00
27 15 0.05
28 4 0.01
29 3 0.01
30 1 0.00
31 1 0.00
33 1 0.00
34 1 0.00
35 18 0.07
36 103 0.37
37 54 0.20
38 30 0.11
39 17 0.06
40 10 0.04
41 17 0.06
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:144499 original size:25 final size:27
Alignment explanation
Indices: 144458--144518 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
144448 TTTAAAATCA
144458 TTTTGAAAAC-TT-ATATAATATATAG
1 TTTTGAAAACTTTAATATAATATATAG
*
144483 TTTTGAAAA-TATTTATATAATATATAG
1 TTTTGAAAACT-TTAATATAATATATAG
*
144510 TTTTTAAAA
1 TTTTGAAAA
144519 ACATTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 9 0.28
26 2 0.06
27 21 0.66
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (27 bp):
TTTTGAAAACTTTAATATAATATATAG
Found at i:144524 original size:64 final size:62
Alignment explanation
Indices: 144421--144550 Score: 183
Period size: 64 Copynumber: 2.1 Consensus size: 62
144411 TTTTAAAACA
*
144421 TTTTAGAAAATATATATAATATACAATTTTAAAATCATTTTGAAAACT-TATATAATATATAG
1 TTTTAGAAAATATATATAATATACAATTTTAAAAACATTTTGAAAA-TGTATATAATATATAG
* *
144483 TTTT-GAAAATATTTATATAATATATAGTTTTTAAAAACATTTTGAAAATGTATATAATATATAG
1 TTTTAGAAAATA--TATATAATATACA-ATTTTAAAAACATTTTGAAAATGTATATAATATATAG
144547 TTTT
1 TTTT
144551 TTTTTAAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
61 7 0.11
62 4 0.07
63 13 0.21
64 37 0.61
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (62 bp):
TTTTAGAAAATATATATAATATACAATTTTAAAAACATTTTGAAAATGTATATAATATATAG
Found at i:144526 original size:39 final size:38
Alignment explanation
Indices: 144483--144676 Score: 168
Period size: 37 Copynumber: 5.1 Consensus size: 38
144473 TAATATATAG
144483 TTTTGAAAATATTTATATAATATATAGTTTTTAAAAACA-
1 TTTTGAAAA-ATTTATATAATATATAGTTTTT-AAAACAT
* * *
144522 TTTTG-AAAATGTATATAATATATAGTTTTTTTTTAAATAT
1 TTTTGAAAAATTTATATAATATATAG---TTTTTAAAACAT
** *
144562 TTTTGAAAAAAATATATATTATATAGTGTTTTAAAACAT
1 TTTTGAAAAATTTATATAATATATAGT-TTTTAAAACAT
* *
144601 TTTTTAAAACA--TGTATAATATATAGTTTTTAAAACA-
1 TTTTGAAAA-ATTTATATAATATATAGTTTTTAAAACAT
* * * *
144637 TTTTG-GAAATTTATATATTATAT-GTTTTTGAAATAT
1 TTTTGAAAAATTTATATAATATATAGTTTTTAAAACAT
144673 TTTT
1 TTTT
144677 ATATATATAG
Statistics
Matches: 128, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
34 1 0.01
35 12 0.09
36 18 0.14
37 26 0.20
38 17 0.13
39 26 0.20
40 11 0.09
41 17 0.13
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (38 bp):
TTTTGAAAAATTTATATAATATATAGTTTTTAAAACAT
Found at i:144542 original size:37 final size:37
Alignment explanation
Indices: 144483--144676 Score: 178
Period size: 39 Copynumber: 5.1 Consensus size: 37
144473 TAATATATAG
144483 TTTTGAAAATATTTATATAATATATAGTTTTTAAAAACA-
1 TTTTGAAAATA--TATATAATATATAGTTTTT-AAAACAT
* * *
144522 TTTTGAAAATGTATATAATATATAGTTTTTTTTTAAATAT
1 TTTTGAAAATATATATAATATATAG---TTTTTAAAACAT
* *
144562 TTTTGAAAAAAATATATATTATATAGTGTTTTAAAACAT
1 TTTTG-AAAATATATATAATATATAGT-TTTTAAAACAT
* * *
144601 TTTTTAAAACATGTATAATATATAGTTTTTAAAACA-
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACAT
* * * * *
144637 TTTTGGAAATTTATATATTATAT-GTTTTTGAAATAT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACAT
144673 TTTT
1 TTTT
144677 ATATATATAG
Statistics
Matches: 128, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
35 10 0.08
36 21 0.16
37 24 0.19
38 19 0.15
39 27 0.21
40 10 0.08
41 17 0.13
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACAT
Found at i:144713 original size:16 final size:16
Alignment explanation
Indices: 144689--144721 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
144679 ATATATAGTA
*
144689 TATTGTTATTATTTAT
1 TATTATTATTATTTAT
144705 TATTATTATTATTTAT
1 TATTATTATTATTTAT
144721 T
1 T
144722 TATTTCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TATTATTATTATTTAT
Found at i:151592 original size:20 final size:21
Alignment explanation
Indices: 151539--151597 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
151529 TACCCAATCA
151539 ATGA-GGTATCGATACCATAG
1 ATGAGGGTATCGATACCATAG
* *
151559 CTTAGGGATATCGATACCAT-G
1 ATGAGGG-TATCGATACCATAG
151580 ATGAGGGTATCGATACCA
1 ATGAGGGTATCGATACCA
151598 GGTTACTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.39
21 8 0.24
22 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (21 bp):
ATGAGGGTATCGATACCATAG
Found at i:151664 original size:22 final size:22
Alignment explanation
Indices: 151634--151696 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 22
151624 TGATACATGA
* *
151634 AGGGAGTATCGATACCCTAA-T
1 AGGGAGTATCGATACCATAAGC
151655 AGGGTAGTATCGATACCATAAGC
1 AGGG-AGTATCGATACCATAAGC
151678 AGGG-GTATCGATACC-TAAG
1 AGGGAGTATCGATACCATAAG
151697 GGCTGGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 4 0.11
21 15 0.39
22 15 0.39
23 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.22
Consensus pattern (22 bp):
AGGGAGTATCGATACCATAAGC
Found at i:152109 original size:59 final size:58
Alignment explanation
Indices: 152012--152178 Score: 246
Period size: 59 Copynumber: 2.9 Consensus size: 58
152002 ATTACCAAAT
* * *
152012 GGCACTTCGTGTGCAAAATGTTAAGAAATTTATACTAAGTGTATGAATTTCAGTATAG
1 GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCAGTATAG
* * *
152070 GGCACTTCGTGTTCTAACATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATCG
1 GGCACTTCGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCAGTATAG
*
152129 GGCACCTT-GTGTGCTAAATGATAAGAAATTCATACTAAGTGTAGGAATTT
1 GGCA-CTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTT
152179 TCGTATGGAA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
58 47 0.47
59 49 0.49
60 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (58 bp):
GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCAGTATAG
Found at i:152821 original size:68 final size:68
Alignment explanation
Indices: 152561--152812 Score: 425
Period size: 68 Copynumber: 3.7 Consensus size: 68
152551 GAATAAAGGT
*
152561 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTATCTTTGA
1 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
152626 GGC
66 GGC
* *
152629 CTAACTGTGCATATGACAGAAAGGAGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTAA
1 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
*
152694 AGC
66 GGC
*
152697 CTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
1 CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
152762 GGC
66 GGC
* *
152765 CTAACTGTGCAATTTG-CAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 CTAACTGTGC-ATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
152813 CGGTTAAGTA
Statistics
Matches: 172, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
68 168 0.98
69 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (68 bp):
CTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTTTGA
GGC
Found at i:152897 original size:81 final size:81
Alignment explanation
Indices: 152762--153050 Score: 436
Period size: 81 Copynumber: 3.6 Consensus size: 81
152752 GTGTCTTTGA
*
152762 GGCCTAACTGTGCAATTTGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
152827 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
152843 GGCCTAATTGTGCAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATAAACGGTTAAGTACCTT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
152908 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
152924 GGCCTAACTGTGTAATTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATTAAGTATCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
152989 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
153005 GGCCTAATTGTAC-ATGGGCAGAAAGGTGTCAATTATACCAATTAGA
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGA
153051 CAAATTTTAC
Statistics
Matches: 188, Mismatches: 20, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
80 29 0.15
81 159 0.85
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
TGAGTAAAAGAATAAT
Found at i:154083 original size:22 final size:21
Alignment explanation
Indices: 154058--154098 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
154048 AGTAAAACTT
154058 AGTGAGACAATAACATAACTAA
1 AGTGAGACAA-AACATAACTAA
* *
154080 AGTGATATAAAACATAACT
1 AGTGAGACAAAACATAACT
154099 TTCGTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (21 bp):
AGTGAGACAAAACATAACTAA
Found at i:159728 original size:2 final size:2
Alignment explanation
Indices: 159721--159762 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
159711 CATACTACTA
159721 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
159763 ACCAATATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:162236 original size:369 final size:369
Alignment explanation
Indices: 161557--162298 Score: 1430
Period size: 369 Copynumber: 2.0 Consensus size: 369
161547 TGTAAGAATC
161557 TTCATGGAACCCATCCACCACTCCCAATAACAACATAGGAAACATTGTAAGAAGTATTGAAAATA
1 TTCATGGAACCCATCCACCACTCCCAATAACAACATAGGAAACATTGTAAGAAGTATTGAAAATA
* *
161622 TGAAATAAAAAATGTTATCAGTAGAAAATCACACACACAAAATACAAGTTCTCAGACTTAAGATT
66 TGAAATAAAAAATGTTATCAGTAGAAAACCACACACACAAAATACAAGTTCCCAGACTTAAGATT
161687 GAACTCTAATTGTTTGATGGAACAAATCCTAGGGATTGGGTCAACGAGTACCAAAAATACTTCTA
131 GAACTCTAATTGTTTGATGGAACAAATCCTAGGGATTGGGTCAACGAGTACCAAAAATACTTCTA
*
161752 AATTTTTTATATGAACACTATAAGTTATAAATTGTTGCTATATACCTAGATGGATAGGCATAATT
196 AATTTTTTATATGAACACTAGAAGTTATAAATTGTTGCTATATACCTAGATGGATAGGCATAATT
161817 TTGGTTTTATGGTTACATAATGCAGAAAAACAAAATTACATGGTATGAATTTATGGCAGACCTAT
261 TTGGTTTTATGGTTACATAATGCAGAAAAACAAAATTACATGGTATGAATTTATGGCAGACCTAT
161882 GCCATAGATTTTGTGATATGAACTATTCAGATGTGATAGATGAA
326 GCCATAGATTTTGTGATATGAACTATTCAGATGTGATAGATGAA
161926 TTCATGGAACCCATCCACCACTCCCAATAACAACATAGGAAACATTGTAAGAAGTATTGAAAATA
1 TTCATGGAACCCATCCACCACTCCCAATAACAACATAGGAAACATTGTAAGAAGTATTGAAAATA
161991 TGAAATAAAAAATGTTATCAGTAGAAAACCACACACACAAAATACAAGTTCCCAGACTTAAGATT
66 TGAAATAAAAAATGTTATCAGTAGAAAACCACACACACAAAATACAAGTTCCCAGACTTAAGATT
*
162056 GAACTCTAATTGTTTGATGGAACAAATCCTAGGGGTTGGGTCAACGAGTACCAAAAATACTTCTA
131 GAACTCTAATTGTTTGATGGAACAAATCCTAGGGATTGGGTCAACGAGTACCAAAAATACTTCTA
*
162121 AATTTTTTATATGAACACTAGAAGTTATAAATTGTTGCTATGTACCTAGATGGATAGGCATAATT
196 AATTTTTTATATGAACACTAGAAGTTATAAATTGTTGCTATATACCTAGATGGATAGGCATAATT
162186 TTGGTTTTATGGTTACATAATGCAGAAAAACAAAATTACATGGTATGAATTTATGGCAGACCTAT
261 TTGGTTTTATGGTTACATAATGCAGAAAAACAAAATTACATGGTATGAATTTATGGCAGACCTAT
*
162251 TCCATAGATTTTGTGATATGAACTATTCAGATGTGATAGATGAA
326 GCCATAGATTTTGTGATATGAACTATTCAGATGTGATAGATGAA
162295 TTCA
1 TTCA
162299 ACAAACTGAT
Statistics
Matches: 367, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
369 367 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (369 bp):
TTCATGGAACCCATCCACCACTCCCAATAACAACATAGGAAACATTGTAAGAAGTATTGAAAATA
TGAAATAAAAAATGTTATCAGTAGAAAACCACACACACAAAATACAAGTTCCCAGACTTAAGATT
GAACTCTAATTGTTTGATGGAACAAATCCTAGGGATTGGGTCAACGAGTACCAAAAATACTTCTA
AATTTTTTATATGAACACTAGAAGTTATAAATTGTTGCTATATACCTAGATGGATAGGCATAATT
TTGGTTTTATGGTTACATAATGCAGAAAAACAAAATTACATGGTATGAATTTATGGCAGACCTAT
GCCATAGATTTTGTGATATGAACTATTCAGATGTGATAGATGAA
Found at i:164022 original size:5 final size:5
Alignment explanation
Indices: 164012--164037 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
164002 CTCACTAATA
164012 ACTAT ACTAT ACTAT ACTAT ACTAT A
1 ACTAT ACTAT ACTAT ACTAT ACTAT A
164038 TGTATTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
ACTAT
Found at i:168410 original size:40 final size:40
Alignment explanation
Indices: 168332--168419 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
168322 TTCCACAAGT
* * *** *
168332 TTCTAGAGAGTTCTACACTTCTCTAGAGTTCTCCAGAATG
1 TTCTAGAAAATTCTACACTTCTCTAGAAAGCACCAGAATG
* *
168372 TTCTAGAAAATTCTACACTTCTCTAGAAAGCACTAGAATT
1 TTCTAGAAAATTCTACACTTCTCTAGAAAGCACCAGAATG
168412 TTCTAGAA
1 TTCTAGAA
168420 CCTCTCCAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (40 bp):
TTCTAGAAAATTCTACACTTCTCTAGAAAGCACCAGAATG
Found at i:182688 original size:10 final size:10
Alignment explanation
Indices: 182675--182702 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
182665 CTTCCACTCC
182675 CTTCCATATT
1 CTTCCATATT
182685 CTTCCATATT
1 CTTCCATATT
182695 CTTCCATA
1 CTTCCATA
182703 AGGTTCCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.46
Consensus pattern (10 bp):
CTTCCATATT
Found at i:182840 original size:40 final size:40
Alignment explanation
Indices: 182756--182843 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
182746 TTCCATAAGC
* * *** *
182756 TTCTAGAGAGTTCTACACTTCTCTAGAGTTCTCCGGAATG
1 TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCCAGAATG
* *
182796 TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCTAGAATT
1 TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCCAGAATG
182836 TTCTAGAA
1 TTCTAGAA
182844 CCTCTCCAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (40 bp):
TTCTAGAAAATTCTACACTTCTCTAGAAAGCTCCAGAATG
Found at i:183385 original size:80 final size:82
Alignment explanation
Indices: 183161--183482 Score: 533
Period size: 83 Copynumber: 3.9 Consensus size: 82
183151 ACTGCAATTA
* *
183161 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCACAATGACGAGAGACGTTTGAAAGAA
1 AAAAACTTCAACAATTA-CTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
183226 GAA-TTTTATCTATACCG
65 GAATTTTTATCTATACCG
*
183243 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAAAGAAGAGAGACGTTTGAAAGAA
1 AAAAACTTCAACAATTA-CTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
*
183308 GAATTTTTATCTATATCG
65 GAATTTTTATCTATACCG
*
183326 AAAAACTTCAACAATTA-TATCG-CGATCCACTATCTCCCAATGAAGAAAGACGTTTGAAAGAAG
1 AAAAACTTCAACAATTACTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAAG
183389 AATTTTTATCTATACCG
66 AATTTTTATCTATACCG
* *
183406 AAAAAATTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAGAGAGAAGTTTGAAAGAA
1 AAAAACTTCAACAATTA-CTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAA
183471 GAATTTTTATCT
65 GAATTTTTATCT
183483 GGTTCTATAC
Statistics
Matches: 226, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
80 71 0.31
81 5 0.02
82 70 0.31
83 80 0.35
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (82 bp):
AAAAACTTCAACAATTACTATCGACGATCCACTATCTCCCAATGAAGAGAGACGTTTGAAAGAAG
AATTTTTATCTATACCG
Found at i:183433 original size:163 final size:164
Alignment explanation
Indices: 183161--183482 Score: 558
Period size: 163 Copynumber: 2.0 Consensus size: 164
183151 ACTGCAATTA
* *
183161 AAAAACTTCAACAATTATCTATCGACGATCCACTATCTCACAATGACGAGAGACGTTTGAAAGAA
1 AAAAACTTCAACAATTA-CTATCGACGATCCACTATCTCACAATGAAGAAAGACGTTTGAAAGAA
*
183226 GAATTTTATCTATACCGAAAAACTTCAACAATTATCTATCGACGATCCACTATCTCCCAAAGAAG
65 GAATTTTATCTATACCGAAAAAATTCAACAATTATCTATCGACGATCCACTATCTCCCAAAGAAG
*
183291 AGAGACGTTTGAAAGAAGAATTTTTATCTATATCG
130 AGAGAAGTTTGAAAGAAGAATTTTTATCTATATCG
*
183326 AAAAACTTCAACAATTA-TATCG-CGATCCACTATCTCCCAATGAAGAAAGACGTTTGAAAGAAG
1 AAAAACTTCAACAATTACTATCGACGATCCACTATCTCACAATGAAGAAAGACGTTTGAAAGAAG
*
183389 AATTTTTATCTATACCGAAAAAATTCAACAATTATCTATCGACGATCCACTATCTCCCAATGAAG
66 AA-TTTTATCTATACCGAAAAAATTCAACAATTATCTATCGACGATCCACTATCTCCCAAAGAAG
183454 AGAGAAGTTTGAAAGAAGAATTTTTATCT
130 AGAGAAGTTTGAAAGAAGAATTTTTATCT
183483 GGTTCTATAC
Statistics
Matches: 150, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
162 40 0.27
163 93 0.62
165 17 0.11
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (164 bp):
AAAAACTTCAACAATTACTATCGACGATCCACTATCTCACAATGAAGAAAGACGTTTGAAAGAAG
AATTTTATCTATACCGAAAAAATTCAACAATTATCTATCGACGATCCACTATCTCCCAAAGAAGA
GAGAAGTTTGAAAGAAGAATTTTTATCTATATCG
Found at i:186177 original size:3 final size:3
Alignment explanation
Indices: 186169--186232 Score: 103
Period size: 3 Copynumber: 21.7 Consensus size: 3
186159 TTAATATATT
* *
186169 TAA TAA TAA TAA TGA TAA T-A TAA TAA TAA TAA TAA AAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
186216 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
186233 TGGGTAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:186673 original size:114 final size:114
Alignment explanation
Indices: 186547--187100 Score: 728
Period size: 113 Copynumber: 4.9 Consensus size: 114
186537 TGATAGAATT
* *
186547 TTGAACAAGTTCTTCTTATTAT-AAC-T-TTCTTTCTTCTTCAGATGACGAGTTTCTTCTCATTA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAG-TTCTTCTCATTA
* * *
186609 TGAACTCTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAA
62 TGAACTCTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAGA
*
186661 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * *
186726 GAACTCTAC-CTGGCAATGTAGATCCATCAAATGATGAATTCAAGCAAAAGA
63 GAACTCTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAGA
186777 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *** *
186842 C-CTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGG
66 CTCTTCTCTGGAAATGTTGATCCATCAA-ATGATGAATTCAAACAAAAGA
* *
186891 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** * * * *
186956 CT-TTCTCTGGAAAAATTAATCCATCAAGTGATGAATTCAGACAAAAGG
66 CTCTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAGA
*
187004 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
187069 CT-TTCTCTGGAAATGATGATCCATCAAATGAT
66 CTCTTCTCTGGAAATGTTGATCCATCAAATGAT
187101 AGATTTGAAT
Statistics
Matches: 403, Mismatches: 30, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
112 3 0.01
113 145 0.36
114 125 0.31
115 3 0.01
116 106 0.26
117 21 0.05
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (114 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTCTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAACAAAAGA
Found at i:187020 original size:227 final size:227
Alignment explanation
Indices: 186547--187100 Score: 732
Period size: 227 Copynumber: 2.4 Consensus size: 227
186537 TGATAGAATT
* *
186547 TTGAACAAGTTCTTCTTATTAT-AAC-T-TTCTTTCTTCTTCAGATGACGAGTTTCTTCTCATTA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAG-TTCTTCTCATTA
* * * *
186609 TGAACTCTACT-TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAGTTC
62 TGAAC-CTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAATTC
186673 TTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGACGAGTTCTTCTCATTATGAACTCTACCTG
126 TTCTCATTATGAACTTCTTCTTCCTTCTTTAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTG
*
186738 GCAATGTAGATCCATCAAATGATGAATTCAAGCAAAAGA
189 GAAATGTAGATCCATCAAATGATGAATTCAAGCAAAAGA
186777 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *** **
186842 CCTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCT
66 CCTTCTCTGGAAATGATGATCCATCAA-ATGATGAATTCAAACAAAAAATTGAACAAATTCTTCT
*
186907 CATTATGAACTTCTTCTTCCTT-TTTCAGAT-GAGTTCTTCTCATTATGAACT-TTCTCTGGAAA
130 CATTATGAACTTCTTCTTCCTTCTTT-AGATAGAGTTCTTCTCATTATGAACTCTAC-CTGG--A
* *
186969 AAT-TA-ATCCATCAAGTGATGAATTC-AGACAAAAGG
191 AATGTAGATCCATCAAATGATGAATTCAAG-CAAAAGA
*
187004 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
187069 CTTTCTCTGGAAATGATGATCCATCAAATGAT
66 CCTTCTCTGGAAATGATGATCCATCAAATGAT
187101 AGATTTGAAT
Statistics
Matches: 290, Mismatches: 24, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
226 8 0.03
227 137 0.47
228 6 0.02
229 39 0.13
230 80 0.28
231 3 0.01
232 1 0.00
233 16 0.06
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (227 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CCTTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAAATTCTTCTC
ATTATGAACTTCTTCTTCCTTCTTTAGATAGAGTTCTTCTCATTATGAACTCTACCTGGAAATGT
AGATCCATCAAATGATGAATTCAAGCAAAAGA
Found at i:187970 original size:83 final size:83
Alignment explanation
Indices: 187736--188680 Score: 1779
Period size: 83 Copynumber: 11.4 Consensus size: 83
187726 TCTCCTATGA
*
187736 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
187801 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
187819 GCAAATTCATCTTCC-AATTCAATGATTGGTTCTGCC-AATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
187882 TTCCAGAAAATGCTATTG
66 TTCCAGAAGATGCTATTG
187900 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
187965 TTCCAGAAAATGCTATTG
66 TTCCAGAAGATGCTATTG
*
187983 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTC-AAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
188047 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
188065 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
188130 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
188148 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
188213 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
188231 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
188296 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
188314 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
188379 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
188397 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
188462 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
* *
188480 GCAAATTCATCTTCTAAATTCAATGATTAGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
188545 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
188563 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
*
188628 TTCTAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
188646 GCAAATTCATCTTCTAAATTCAATGATTGGTTCTG
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTG
188681 AGATATCACA
Statistics
Matches: 844, Mismatches: 15, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
81 58 0.07
82 122 0.14
83 664 0.79
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:189464 original size:16 final size:18
Alignment explanation
Indices: 189422--189465 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
189412 CATATAAAAG
189422 AATAATTGAATTTCCAAA
1 AATAATTGAATTTCCAAA
189440 AATAATTGAATTT-CAAA
1 AATAATTGAATTTCCAAA
*
189457 TA-AATTGAA
1 AATAATTGAA
189466 CTTGAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.28
17 5 0.20
18 13 0.52
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (18 bp):
AATAATTGAATTTCCAAA
Found at i:189812 original size:10 final size:10
Alignment explanation
Indices: 189797--189826 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
189787 TGACCCCCCC
189797 TTTTTCTTTT
1 TTTTTCTTTT
189807 TTTTTCTTTT
1 TTTTTCTTTT
189817 TTTTTCTTTT
1 TTTTTCTTTT
189827 CAAGCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:200488 original size:18 final size:17
Alignment explanation
Indices: 200440--200490 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
200430 AAATACTTGC
*
200440 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
200458 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
200476 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
200491 TTGACAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:201187 original size:13 final size:13
Alignment explanation
Indices: 201143--201189 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
201133 CTTTTCTTTG
*
201143 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
201157 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
201169 TTTATTTAAAATAA
1 -ATATTTAAAATAA
201183 ATATTTA
1 ATATTTA
201190 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:202626 original size:3 final size:3
Alignment explanation
Indices: 202618--202730 Score: 208
Period size: 3 Copynumber: 37.7 Consensus size: 3
202608 AATATATATT
* *
202618 TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
202666 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
202714 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
202731 TGGGTAAAAA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 108 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:203668 original size:7 final size:7
Alignment explanation
Indices: 203624--203706 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
203614 TATATTTATT
*
203624 TATAGTG
1 TATAGTA
203631 TATAGTA
1 TATAGTA
203638 TATATGTA
1 TATA-GTA
* *
203646 TATTGTT
1 TATAGTA
*
203653 TATATTA
1 TATAGTA
203660 TATAGTA
1 TATAGTA
203667 TATATGTA
1 TATA-GTA
* *
203675 TTATATTG
1 -TATAGTA
*
203683 TATACTA
1 TATAGTA
*
203690 TA-ATTA
1 TATAGTA
*
203696 TATAATA
1 TATAGTA
203703 TATA
1 TATA
203707 TATTAGGCCG
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
6 5 0.08
7 40 0.68
8 10 0.17
9 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.51
Consensus pattern (7 bp):
TATAGTA
Found at i:203768 original size:15 final size:15
Alignment explanation
Indices: 203750--203796 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
203740 AGCATATATA
*
203750 TATATATTATATCAT
1 TATATATTACATCAT
203765 TATATA-TACA-CAT
1 TATATATTACATCAT
203778 TATATTATTACAT-AT
1 TATA-TATTACATCAT
203793 TATA
1 TATA
203797 CATATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.25
14 5 0.18
15 16 0.57
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (15 bp):
TATATATTACATCAT
Found at i:203770 original size:21 final size:21
Alignment explanation
Indices: 203744--203796 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
203734 TTACATAGCA
203744 TATATATATATATTATATCAT
1 TATATATATATATTATATCAT
* * *
203765 TATATATACACATTATATTAT
1 TATATATATATATTATATCAT
*
203786 TACATAT-TATA
1 TATATATATATA
203797 CATATACATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATATATATATTATATCAT
Found at i:204886 original size:20 final size:20
Alignment explanation
Indices: 204861--204899 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
204851 TTTTTTTGTT
*
204861 TTTTTACTTTATTTCTTTTA
1 TTTTTACTTTATTTATTTTA
*
204881 TTTTTATTTTATTTATTTT
1 TTTTTACTTTATTTATTTT
204900 CCTTTTTTAA
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:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTACTTTATTTATTTTA
Found at i:204905 original size:20 final size:20
Alignment explanation
Indices: 204862--204905 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
204852 TTTTTTGTTT
* *
204862 TTTTACTTTATTTCTTTTAT
1 TTTTACTTTATTTATTTTAC
* *
204882 TTTTATTTTATTTATTTTCC
1 TTTTACTTTATTTATTTTAC
204902 TTTT
1 TTTT
204906 TTAAATTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTACTTTATTTATTTTAC
Found at i:210880 original size:75 final size:75
Alignment explanation
Indices: 210782--210920 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 75
210772 GCTCAATGAG
* * * * * * *
210782 AGAACGGCTATTTGTCAACAAAAACCTTCGAGTTTGATTCTATTCAGCTTAAGGTCATATCAAAA
1 AGAACGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAAA
210847 TTTTAAGGCA
66 TTTTAAGGCA
*
210857 AGAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAA
1 AGAACGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAA
210921 TTTACAGTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 56 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (75 bp):
AGAACGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATATCAAAA
TTTTAAGGCA
Found at i:210994 original size:85 final size:85
Alignment explanation
Indices: 210851--211325 Score: 570
Period size: 85 Copynumber: 5.7 Consensus size: 85
210841 TCAAAATTTT
* * * * * *
210851 AAGGCAAGAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGCATA
1 AAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTGATTCCATTCAGCTCAAGGGCATA
*
210916 TCAAATTTACAGTATAGCTC
66 TCAAATTTACAGCATAGCTC
* * * * * * *
210936 AAGGCGAAAATGAATATCTATCAACGAAAACCTTCGAGTTTGATTACATTCAGCTCAAGGGCATA
1 AAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTGATTCCATTCAGCTCAAGGGCATA
* *
211001 TCAAATTTACAGCATAGTTT
66 TCAAATTTACAGCATAGCTC
* * *
211021 AAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT--A---AGCTCAAGGGCATA
1 AAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTGATTCCATTCAGCTCAAGGGCATA
211081 TCAAATTTACAGCATAGCTC
66 TCAAATTTACAGCATAGCTC
* * *
211101 AAGGCTAGAAGGGTTATATGTCAACAAAAACCTTCGAGCTTGATTCCATTCAGCTCAAGGGCATA
1 AAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTGATTCCATTCAGCTCAAGGGCATA
*
211166 TCAAATTTACAGCATAGTTC
66 TCAAATTTACAGCATAGCTC
* * * * * * *
211186 AAGGTGAGAAGGGTTATATGTCAAAAAAAACTTTCGA-TTTCGATTCCATTCAGCTCGATGACAT
1 AAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTT-GATTCCATTCAGCTCAAGGGCAT
* *
211250 GTCAAATTTACAGTATA-CTC
65 ATCAAATTTACAGCATAGCTC
* *
211270 AAGGCGAGAAGGGATATATGTCAACAAAAACCTTTGA-TTTCAATTCCATTCAGCTC
1 AAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTT-GATTCCATTCAGCTC
211326 GATGACATAT
Statistics
Matches: 340, Mismatches: 44, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
80 72 0.21
82 1 0.00
83 1 0.00
84 54 0.16
85 212 0.62
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (85 bp):
AAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTGATTCCATTCAGCTCAAGGGCATA
TCAAATTTACAGCATAGCTC
Done.