Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004614.1 Hibiscus syriacus cultivar Beakdansim tig00010320_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: 491648
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
File 1 of 2
Found at i:25308 original size:5 final size:5
Alignment explanation
Indices: 25298--25371 Score: 61
Period size: 5 Copynumber: 15.8 Consensus size: 5
25288 GAACTTCTCT
**
25298 TTTTC TTTTC TTTTC TTTTC TTCTTC TTTTC --TTC TTTTC TGAT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC
* *
25346 TCTTC -TTT- TTGTC TTTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
25372 TGCACTCCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 36 0.67
6 5 0.09
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:25311 original size:11 final size:11
Alignment explanation
Indices: 25295--25366 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
25285 TTTGAACTTC
25295 TCTTTTTCTTT
1 TCTTTTTCTTT
25306 TC-TTTTCTTT
1 TCTTTTTCTTT
*
25316 TCTTCTTCTTT
1 TCTTTTTCTTT
*
25327 TCTTCTTT-TCT
1 TCTT-TTTCTTT
** *
25338 GATTTTTCTCT
1 TCTTTTTCTTT
25349 TCTTTTTGTCTTT
1 TC-TTTT-TCTTT
25362 TCTTT
1 TCTTT
25367 CTTTTTGCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 13 0.27
11 20 0.42
12 9 0.19
13 6 0.12
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:25316 original size:16 final size:17
Alignment explanation
Indices: 25295--25330 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
25285 TTTGAACTTC
25295 TCTTTTTCTT-TTCTTT
1 TCTTTTTCTTCTTCTTT
25311 TC-TTTTCTTCTTCTTT
1 TCTTTTTCTTCTTCTTT
25327 TCTT
1 TCTT
25331 CTTTTCTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.39
16 10 0.56
17 1 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TCTTTTTCTTCTTCTTT
Found at i:25321 original size:8 final size:8
Alignment explanation
Indices: 25305--25371 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
25295 TCTTTTTCTT
25305 TTCTTTTC
1 TTCTTTTC
25313 TT-TTCTTC
1 TTCTT-TTC
25321 TTCTTTTC
1 TTCTTTTC
25329 TTCTTTTC
1 TTCTTTTC
*
25337 TGATTTTTCTC
1 T--TCTTT-TC
25348 TTCTTTT-
1 TTCTTTTC
25355 TGTCTTTTC
1 T-TCTTTTC
25364 TTTCTTTT
1 -TTCTTTT
25372 TGCACTCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 3 0.06
8 26 0.53
9 12 0.24
10 5 0.10
11 3 0.06
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.75
Consensus pattern (8 bp):
TTCTTTTC
Found at i:25337 original size:16 final size:17
Alignment explanation
Indices: 25306--25371 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 17
25296 CTTTTTCTTT
25306 TCTTTTCTT-TTCTTCT-
1 TCTTTTCTTCTT-TTCTG
25322 TCTTTTCTTCTTTTCTG
1 TCTTTTCTTCTTTTCTG
*
25339 ATTTTTCTCTTCTTTT-TG
1 -TCTTT-TCTTCTTTTCTG
25357 TCTTTTCTTTCTTTT
1 TCTTTTC-TTCTTTT
25372 TGCACTCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
16 15 0.35
17 13 0.30
18 6 0.14
19 9 0.21
ACGTcount: A:0.02, C:0.21, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTCTTCTTTTCTG
Found at i:25343 original size:27 final size:27
Alignment explanation
Indices: 25291--25364 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
25281 TCTTTTTGAA
**
25291 CTTCTCTTTT-TCTTTTCTTTTCTTTTCTT
1 CTTCT-TTTTGTCTTTTCTGAT-TTTTC-T
25320 CTTCTTTTCT-TCTTTTCTGATTTTTCT
1 CTTCTTTT-TGTCTTTTCTGATTTTTCT
25347 CTTCTTTTTGTCTTTTCT
1 CTTCTTTTTGTCTTTTCT
25365 TTCTTTTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 1 0.02
27 17 0.41
28 8 0.20
29 15 0.37
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (27 bp):
CTTCTTTTTGTCTTTTCTGATTTTTCT
Found at i:25370 original size:17 final size:18
Alignment explanation
Indices: 25322--25373 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
25312 CTTTTCTTCT
25322 TCTTTTC-TTCTTTTCTGA
1 TCTTTTCTTTCTTTT-TGA
25340 T-TTTTCTCTTCTTTTTG-
1 TCTTTTCT-TTCTTTTTGA
25357 TCTTTTCTTTCTTTTTG
1 TCTTTTCTTTCTTTTTG
25374 CACTCCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 15 0.48
18 9 0.29
19 7 0.23
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.73
Consensus pattern (18 bp):
TCTTTTCTTTCTTTTTGA
Found at i:31750 original size:21 final size:20
Alignment explanation
Indices: 31718--31760 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
31708 AAGCAACAAA
*
31718 AAGAGAAAAAAAAGAGAAAG
1 AAGAAAAAAAAAAGAGAAAG
31738 AAGAAAAACAAAAAGAGAAAG
1 AAGAAAAA-AAAAAGAGAAAG
31759 AA
1 AA
31761 AAAGACTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAAAAGAGAAAG
Found at i:31761 original size:18 final size:18
Alignment explanation
Indices: 31712--31763 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
31702 CAACAAAAGC
31712 AACAAAAAGAGAAA-AAA
1 AACAAAAAGAGAAAGAAA
* *
31729 AA-GAGAA-AG-AAGAAA
1 AACAAAAAGAGAAAGAAA
31744 AACAAAAAGAGAAAGAAA
1 AACAAAAAGAGAAAGAAA
31762 AA
1 AA
31764 GACTCCTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.07
15 7 0.26
16 6 0.22
17 4 0.15
18 8 0.30
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (18 bp):
AACAAAAAGAGAAAGAAA
Found at i:31764 original size:6 final size:6
Alignment explanation
Indices: 31715--31765 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
31705 CAAAAGCAAC
* *
31715 AAAAAG AGAAAA- AAAAGAG AAAGAAG AAAAAC AAAAAG AGAAAG AAAAAG
1 AAAAAG A-AAAAG AAAA-AG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG
31765 A
1 A
31766 CTCCTACAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 3 0.08
6 21 0.57
7 12 0.32
8 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:33188 original size:90 final size:89
Alignment explanation
Indices: 33031--33206 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 89
33021 ACCTAACACG
* * * * * *
33031 CCCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTTAAATTAATTAAATTTA
1 CCCTTTTATAGCCAAGATACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
*
33096 TATTTAATTAATTAGAATTTAATAA
66 TATTTAATTAATT-GAAATTAATAA
*
33121 CCCTTTTATATCCAAGATACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
1 CCCTTTTATAGCCAAGATACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
33186 TATTTAATTAATTGAAATTAA
66 TATTTAATTAATTGAAATTAA
33207 ATATTCGGGA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 7 0.09
90 71 0.91
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (89 bp):
CCCTTTTATAGCCAAGATACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTA
TATTTAATTAATTGAAATTAATAA
Found at i:35545 original size:20 final size:22
Alignment explanation
Indices: 35510--35551 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
35500 CATGCTTAAT
35510 CATTCATTTGTTAGCTCATATG
1 CATTCATTTGTTAGCTCATATG
35532 CATTCA-TT-TTAGCTCATATG
1 CATTCATTTGTTAGCTCATATG
35552 TCTTACACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (22 bp):
CATTCATTTGTTAGCTCATATG
Found at i:48428 original size:1 final size:1
Alignment explanation
Indices: 48424--48461 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
48414 CTTTTTTGGC
* *
48424 TTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
48462 GAAAAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:50259 original size:9 final size:10
Alignment explanation
Indices: 50242--50285 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
50232 TTCTTTAAAA
*
50242 TTTTGGCTTT
1 TTTTGCCTTT
*
50252 TTTTGCTTTT
1 TTTTGCCTTT
50262 TTTTGCCTTT
1 TTTTGCCTTT
50272 TTTTGCCTTT
1 TTTTGCCTTT
50282 TTTT
1 TTTT
50286 TTTGTTTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.75
Consensus pattern (10 bp):
TTTTGCCTTT
Found at i:58794 original size:36 final size:36
Alignment explanation
Indices: 58747--58851 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
58737 GATACAATCT
58747 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
58783 GTCCATCACCATTATCACGCCTATATCATCATCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
58819 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
58852 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 19 0.30
36 45 0.70
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:62804 original size:36 final size:36
Alignment explanation
Indices: 62757--62861 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
62747 GATACAATCT
*
62757 GTCCATCACCATTATCACGCCTATGTCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
62793 GTCCATCACCATTATCACGCCTATATCATCATCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
62829 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
62862 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 19 0.30
36 44 0.70
ACGTcount: A:0.30, C:0.36, G:0.06, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:66809 original size:36 final size:36
Alignment explanation
Indices: 66762--66864 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 36
66752 TACAATCTGC
*
66762 CCATCACCATTATCATGCCTATATCATCACCATAGT
1 CCATCACCATTATCACGCCTATATCATCACCATAGT
* *
66798 CCATCACCATTATCACGCCTATATCATCATCATATT
1 CCATCACCATTATCACGCCTATATCATCACCATAGT
* *
66834 CCATCACCA-TATCACGCCCATATTATCACCA
1 CCATCACCATTATCACGCCTATATCATCACCA
66865 ACTTATAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 19 0.31
36 42 0.69
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (36 bp):
CCATCACCATTATCACGCCTATATCATCACCATAGT
Found at i:69193 original size:11 final size:11
Alignment explanation
Indices: 69168--69239 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
69158 GTGCAAAAAG
69168 AAAGAAAAGACAA
1 AAAGAAAAG--AA
*
69181 AAAGAAGAGAA
1 AAAGAAAAGAA
* *
69192 AAATTAGAA-AA
1 AAA-GAAAAGAA
*
69203 GAAGAAAAGAA
1 AAAGAAAAGAA
*
69214 GAAGAAAAG-A
1 AAAGAAAAGAA
69224 AAAGAAAAGAA
1 AAAGAAAAGAA
69235 AAAGA
1 AAAGA
69240 GAAGTTCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 12 0.25
11 26 0.54
12 2 0.04
13 8 0.17
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:69202 original size:19 final size:19
Alignment explanation
Indices: 69163--69243 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
69153 TTGGAGTGCA
69163 AAAAGAA-AG-AAAAGACA-
1 AAAAGAAGAGAAAAAGA-AG
**
69180 AAAAGAAGAGAAAAATTAG
1 AAAAGAAGAGAAAAAGAAG
69199 AAAAGAAGA-AAAGAAGAAG
1 AAAAGAAGAGAAA-AAGAAG
*
69218 AAAAGAAAAG-AAAAGAA-
1 AAAAGAAGAGAAAAAGAAG
69235 AAAGAGAAG
1 AAA-AGAAG
69244 TTCAAAAAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.19
18 15 0.29
19 27 0.52
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.02
Consensus pattern (19 bp):
AAAAGAAGAGAAAAAGAAG
Found at i:69205 original size:5 final size:5
Alignment explanation
Indices: 69163--69236 Score: 61
Period size: 5 Copynumber: 15.8 Consensus size: 5
69153 TTGGAGTGCA
* * **
69163 AAAAG -AAAG AAAAG -ACA- AAAAG AAGAG AAAA- ATTAG AAAAG --AAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
69207 AAAAG AAGAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AA-AAG AAAAG AAAAG AAAAG AAAA
69237 AGAGAAGTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 36 0.67
6 5 0.09
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:69208 original size:8 final size:8
Alignment explanation
Indices: 69163--69229 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
69153 TTGGAGTGCA
69163 AAAAGAAAG
1 AAAAG-AAG
69172 AAAAGACA-
1 AAAAGA-AG
69180 AAAAGAAG
1 AAAAGAAG
*
69188 AGAAAAATTAG
1 A-AAAGA--AG
69199 AAAAGAAG
1 AAAAGAAG
69207 AAAAGAAG
1 AAAAGAAG
69215 AAGAA-AAG
1 AA-AAGAAG
69223 AAAAGAA
1 AAAAGAA
69230 AAGAAAAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
7 3 0.06
8 27 0.55
9 12 0.24
10 4 0.08
11 3 0.06
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (8 bp):
AAAAGAAG
Found at i:69229 original size:16 final size:15
Alignment explanation
Indices: 69163--69236 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 15
69153 TTGGAGTGCA
69163 AAAAG-AAAGAAAAG
1 AAAAGAAAAGAAAAG
* *
69177 -ACA-AAAAGAAGAG
1 AAAAGAAAAGAAAAG
**
69190 AAAA-ATTAGAAAAG
1 AAAAGAAAAGAAAAG
69204 --AAGAAAAGAAGAAG
1 AAAAGAAAAGAA-AAG
69218 AAAAGAAAAGAAAAG
1 AAAAGAAAAGAAAAG
69233 AAAA
1 AAAA
69237 AGAGAAGTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
12 2 0.04
13 15 0.33
14 12 0.26
15 7 0.15
16 10 0.22
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAGAAAAG
Found at i:69239 original size:16 final size:16
Alignment explanation
Indices: 69204--69236 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
69194 ATTAGAAAAG
69204 AAGAAAAGAAGAAGAA
1 AAGAAAAGAAGAAGAA
69220 AAGAAAAGAA-AAGAA
1 AAGAAAAGAAGAAGAA
69235 AA
1 AA
69237 AGAGAAGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAGAAGAA
Found at i:78040 original size:36 final size:36
Alignment explanation
Indices: 77993--78097 Score: 167
Period size: 36 Copynumber: 2.9 Consensus size: 36
77983 GATACAATCT
77993 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
78029 GTCCATCACCATTATCACGCCTATATCATCATCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
78065 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
78098 ACTTATAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 19 0.30
36 45 0.70
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:82074 original size:36 final size:36
Alignment explanation
Indices: 82027--82123 Score: 160
Period size: 36 Copynumber: 2.7 Consensus size: 36
82017 GATACAATCT
82027 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
82063 GTCCATCACCATTATCACGCCTATATCATCATCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
82099 TTCCATCACCA-TATCACGCCCATAT
1 GTCCATCACCATTATCACGCCTATAT
82124 TAACACCAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
35 13 0.22
36 45 0.78
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:84659 original size:11 final size:11
Alignment explanation
Indices: 84636--84720 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
84626 ACAATCTGTC
84636 CATCACCATTAT
1 CATCACCA-TAT
84648 CA-CACCTATAT
1 CATCACC-ATAT
84659 CATCACCATAGT
1 CATCACCATA-T
84671 CCATCACCATTAT
1 -CATCACCA-TAT
*
84684 CA-CGCCTATAT
1 CATCACC-ATAT
*
84695 CATCATCATATT
1 CATCACCATA-T
84707 CCATCACCATAT
1 -CATCACCATAT
84719 CA
1 CA
84721 CGCCCATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 25 0.42
12 15 0.25
13 18 0.30
14 2 0.03
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:84680 original size:36 final size:36
Alignment explanation
Indices: 84633--84737 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
84623 GATACAATCT
*
84633 GTCCATCACCATTATCACACCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
84669 GTCCATCACCATTATCACGCCTATATCATCATCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
84705 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
84738 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 19 0.30
36 44 0.70
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:95230 original size:19 final size:20
Alignment explanation
Indices: 95206--95256 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
95196 CGGCCAAGAG
* *
95206 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
95225 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
95245 CATGTATTTTCA
1 CATGTATTTTCA
95257 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:101035 original size:35 final size:36
Alignment explanation
Indices: 100996--101075 Score: 135
Period size: 35 Copynumber: 2.2 Consensus size: 36
100986 AAATGGAATT
**
100996 TGGTGATGATATAGGCGTGAT-ATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
101031 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
101067 TGGTGATGA
1 TGGTGATGA
101076 ACAGATTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 21 0.50
36 21 0.50
ACGTcount: A:0.28, C:0.04, G:0.39, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
Found at i:105523 original size:35 final size:36
Alignment explanation
Indices: 105479--105558 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
105469 AAATGGAATT
* **
105479 TGGTAATGATATAGGCGTGAT-ATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
105514 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
105550 TGGTGATGA
1 TGGTGATGA
105559 ACAGATTGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 20 0.49
36 21 0.51
ACGTcount: A:0.29, C:0.04, G:0.38, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAAGA
Found at i:108203 original size:20 final size:22
Alignment explanation
Indices: 108168--108207 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
108158 CATGCTTAAT
108168 CATTCATTTGTTAGCTCATATG
1 CATTCATTTGTTAGCTCATATG
108190 CATTCA-TT-TTAGCTCATA
1 CATTCATTTGTTAGCTCATA
108208 GGTCTTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (22 bp):
CATTCATTTGTTAGCTCATATG
Found at i:109584 original size:11 final size:11
Alignment explanation
Indices: 109560--109604 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
109550 TTGGTGCTGG
109560 AAACAAGATAA
1 AAACAAGATAA
* *
109571 AAATAAGATTA
1 AAACAAGATAA
109582 AAACAAGATAA
1 AAACAAGATAA
109593 AGAA-AAGATAA
1 A-AACAAGATAA
109604 A
1 A
109605 TGAATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:109588 original size:22 final size:22
Alignment explanation
Indices: 109560--109601 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
109550 TTGGTGCTGG
109560 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
109582 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
109602 AAATGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:115861 original size:12 final size:11
Alignment explanation
Indices: 115832--115859 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
115822 AAATTTTGGC
115832 TTTTTTGTTTT
1 TTTTTTGTTTT
115843 TTTTTTGTTTT
1 TTTTTTGTTTT
115854 TTTTTT
1 TTTTTT
115860 TGAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:116205 original size:11 final size:11
Alignment explanation
Indices: 116181--116225 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
116171 TTGGTGCTGG
116181 AAACAAGATAA
1 AAACAAGATAA
* *
116192 AAATAAGATTA
1 AAACAAGATAA
116203 AAACAAGATAA
1 AAACAAGATAA
116214 AGAA-AAGATAA
1 A-AACAAGATAA
116225 A
1 A
116226 TGAATTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 27 0.93
12 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.11, T:0.13
Consensus pattern (11 bp):
AAACAAGATAA
Found at i:116209 original size:22 final size:22
Alignment explanation
Indices: 116181--116222 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
116171 TTGGTGCTGG
116181 AAACAAGATAAA-AATAAGATTA
1 AAACAAGATAAAGAA-AAGATTA
116203 AAACAAGATAAAGAAAAGAT
1 AAACAAGATAAAGAAAAGAT
116223 AAATGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
AAACAAGATAAAGAAAAGATTA
Found at i:136894 original size:21 final size:23
Alignment explanation
Indices: 136858--136900 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
136848 TCTTTTCTTT
136858 TTTTTTTTTGAATTTTC-GGATA
1 TTTTTTTTTGAATTTTCAGGATA
*
136880 TTTTTTTTT-ACTTTTCAGGAT
1 TTTTTTTTTGAATTTTCAGGAT
136901 GAATTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.16, C:0.07, G:0.12, T:0.65
Consensus pattern (23 bp):
TTTTTTTTTGAATTTTCAGGATA
Found at i:145923 original size:22 final size:22
Alignment explanation
Indices: 145883--145924 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
145873 AAATATCTGG
* *
145883 TTCATAATAATAACTTCATATA
1 TTCATAATAACAACATCATATA
*
145905 TTCATAATAACATCATCATA
1 TTCATAATAACAACATCATA
145925 ACTATAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (22 bp):
TTCATAATAACAACATCATATA
Found at i:146395 original size:45 final size:45
Alignment explanation
Indices: 146304--146395 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
146294 TTCTTCGAAA
* * **
146304 GACACATTCTTTGAATGAAAAATGGTGTCCTTTTACTGTTTGATG
1 GACACATCCTTTGAATGAAAAATGGTGTCCTTTTACTGCTCAATG
* * **
146349 GACACATCCTTTGACTGAAAAATTGTGTCCTTTTGTTGCTCAATG
1 GACACATCCTTTGAATGAAAAATGGTGTCCTTTTACTGCTCAATG
146394 GA
1 GA
146396 TATTTCTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (45 bp):
GACACATCCTTTGAATGAAAAATGGTGTCCTTTTACTGCTCAATG
Found at i:150093 original size:13 final size:13
Alignment explanation
Indices: 150071--150100 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
150061 ACTAAACACC
150071 TTTC-ACATACCT
1 TTTCAACATACCT
150083 TTTCAACATACCT
1 TTTCAACATACCT
150096 TTTCA
1 TTTCA
150101 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:158800 original size:16 final size:16
Alignment explanation
Indices: 158779--158810 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
158769 TCTTCTACCA
158779 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
158795 ATGTTAGAATGCAAAT
1 ATGTTAGAATGCAAAT
158811 GAGCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
ATGTTAGAATGCAAAT
Found at i:163863 original size:16 final size:16
Alignment explanation
Indices: 163842--163874 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
163832 TTCTTCCACC
163842 TATGTTAGAATGCAAA
1 TATGTTAGAATGCAAA
163858 TATGTTAGAATGCAAA
1 TATGTTAGAATGCAAA
163874 T
1 T
163875 GAGCTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (16 bp):
TATGTTAGAATGCAAA
Found at i:166374 original size:24 final size:21
Alignment explanation
Indices: 166340--166382 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
166330 TGCACAAGAT
*
166340 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
166362 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
166383 AGAATGAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:168249 original size:91 final size:91
Alignment explanation
Indices: 168083--168254 Score: 233
Period size: 91 Copynumber: 1.9 Consensus size: 91
168073 CCCATGTGCC
* * **
168083 TTGCATATGACTAGCCCCCATGTGCCTTGCATGTGGATCATTTAGGTGCCAAGATGAAGAGTTCT
1 TTGCATATGACTAGCCCCCATGTGCCTTGCATATGGATCATTTAGGCGCCAAGATGAAGACATCT
*
168148 CTCCCTATTCGGCCAAGCCATGTATT
66 ATCCCTATTCGGCCAAGCCATGTATT
* *
168174 TTGCATATGA-TCAGCCCCCATGTGCCTTGCATATGGTTCATTTAGGCGCCGAGATGAATGACCA
1 TTGCATATGACT-AGCCCCCATGTGCCTTGCATATGGATCATTTAGGCGCCAAGATGAA-GA-CA
168238 TCTAT-CC-ATTCGGCCAA
63 TCTATCCCTATTCGGCCAA
168255 TCACCATTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
90 1 0.01
91 62 0.87
92 4 0.06
93 4 0.06
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.30
Consensus pattern (91 bp):
TTGCATATGACTAGCCCCCATGTGCCTTGCATATGGATCATTTAGGCGCCAAGATGAAGACATCT
ATCCCTATTCGGCCAAGCCATGTATT
Found at i:180142 original size:20 final size:20
Alignment explanation
Indices: 180099--180142 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
180089 ATGGTCTTAA
*
180099 GAAATGAATAGATAATAAAG
1 GAAATGAATAGATAAGAAAG
*
180119 GAAATGAAATAGA-AAGAAAT
1 GAAATG-AATAGATAAGAAAG
180139 GAAA
1 GAAA
180143 GAGAGATGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (20 bp):
GAAATGAATAGATAAGAAAG
Found at i:183385 original size:285 final size:285
Alignment explanation
Indices: 182875--183446 Score: 1144
Period size: 285 Copynumber: 2.0 Consensus size: 285
182865 GTGCTTGTAC
182875 CCCTTCAAGTTGGCGCCAAATTGGAGAGAAAGGAGTGCTTGGCCGAATGGTAAGAGGACTCTTCA
1 CCCTTCAAGTTGGCGCCAAATTGGAGAGAAAGGAGTGCTTGGCCGAATGGTAAGAGGACTCTTCA
182940 TCTTGGCGCCTAAATGAAGTCACACGCCTATCACATGGTGGTCTGGTCACAAGGTGTGCACATGG
66 TCTTGGCGCCTAAATGAAGTCACACGCCTATCACATGGTGGTCTGGTCACAAGGTGTGCACATGG
183005 CCTCTCTAGGATGCTTGTGGTGTAGCCTTGCGCATGGAATGATGGCTGGTCATGTGCTCCATCTT
131 CCTCTCTAGGATGCTTGTGGTGTAGCCTTGCGCATGGAATGATGGCTGGTCATGTGCTCCATCTT
183070 GGGCGTGCATGTGTCTCCTTCCAAGCTAGCTTGAGTGTTGAGCTAGCTAGCAAGAATGGGGTTGT
196 GGGCGTGCATGTGTCTCCTTCCAAGCTAGCTTGAGTGTTGAGCTAGCTAGCAAGAATGGGGTTGT
183135 TTATGAATGATCTTCCTAGCCGAGT
261 TTATGAATGATCTTCCTAGCCGAGT
183160 CCCTTCAAGTTGGCGCCAAATTGGAGAGAAAGGAGTGCTTGGCCGAATGGTAAGAGGACTCTTCA
1 CCCTTCAAGTTGGCGCCAAATTGGAGAGAAAGGAGTGCTTGGCCGAATGGTAAGAGGACTCTTCA
183225 TCTTGGCGCCTAAATGAAGTCACACGCCTATCACATGGTGGTCTGGTCACAAGGTGTGCACATGG
66 TCTTGGCGCCTAAATGAAGTCACACGCCTATCACATGGTGGTCTGGTCACAAGGTGTGCACATGG
183290 CCTCTCTAGGATGCTTGTGGTGTAGCCTTGCGCATGGAATGATGGCTGGTCATGTGCTCCATCTT
131 CCTCTCTAGGATGCTTGTGGTGTAGCCTTGCGCATGGAATGATGGCTGGTCATGTGCTCCATCTT
183355 GGGCGTGCATGTGTCTCCTTCCAAGCTAGCTTGAGTGTTGAGCTAGCTAGCAAGAATGGGGTTGT
196 GGGCGTGCATGTGTCTCCTTCCAAGCTAGCTTGAGTGTTGAGCTAGCTAGCAAGAATGGGGTTGT
183420 TTATGAATGATCTTCCTAGCCGAGT
261 TTATGAATGATCTTCCTAGCCGAGT
183445 CC
1 CC
183447 TTTTGAGCTC
Statistics
Matches: 287, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 287 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (285 bp):
CCCTTCAAGTTGGCGCCAAATTGGAGAGAAAGGAGTGCTTGGCCGAATGGTAAGAGGACTCTTCA
TCTTGGCGCCTAAATGAAGTCACACGCCTATCACATGGTGGTCTGGTCACAAGGTGTGCACATGG
CCTCTCTAGGATGCTTGTGGTGTAGCCTTGCGCATGGAATGATGGCTGGTCATGTGCTCCATCTT
GGGCGTGCATGTGTCTCCTTCCAAGCTAGCTTGAGTGTTGAGCTAGCTAGCAAGAATGGGGTTGT
TTATGAATGATCTTCCTAGCCGAGT
Found at i:184169 original size:6 final size:6
Alignment explanation
Indices: 184158--184204 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
184148 GATATAGGAG
*
184158 TCTTTT TC-TTT TCTTTT TGTTTT TCTTCTT TC-TTT T-TTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT-TT TCTTTT TCTTTT TCTTTT
184204 T
1 T
184205 GTTACTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 12 0.34
6 19 0.54
7 4 0.11
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:184182 original size:17 final size:16
Alignment explanation
Indices: 184160--184204 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
184150 TATAGGAGTC
184160 TTTTTC-TTTTCTTTTT
1 TTTTTCTTTTTC-TTTT
184176 GTTTTTCTTCTTTCTTTT
1 -TTTTTCTT-TTTCTTTT
184194 TTTTTCTTTTT
1 TTTTTCTTTTT
184205 GTTACTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 5 0.19
19 4 0.15
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTT
Found at i:184212 original size:24 final size:24
Alignment explanation
Indices: 184158--184204 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
184148 GATATAGGAG
*
184158 TCTT-TTTCTTTTCTTTTTGTTTT
1 TCTTCTTTCTTTTCTTTTTCTTTT
184181 TCTTCTTTCTTTT-TTTTTCTTTT
1 TCTTCTTTCTTTTCTTTTTCTTTT
184204 T
1 T
184205 GTTACTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (24 bp):
TCTTCTTTCTTTTCTTTTTCTTTT
Found at i:186969 original size:30 final size:31
Alignment explanation
Indices: 186928--186987 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
186918 ACATGCTACC
**
186928 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
* *
186959 ATGA-ATCTAAAACATATGTAAACTTAATA
1 ATGATATCTAAAACATATGCAAACATAATA
186988 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.30
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:192035 original size:11 final size:11
Alignment explanation
Indices: 192011--192044 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
192001 TGTTTTTCAT
* *
192011 AATGATGATAA
1 AATGAAGATGA
192022 AATGAAGATGA
1 AATGAAGATGA
192033 AATGAAGATGA
1 AATGAAGATGA
192044 A
1 A
192045 GAGTTAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.21
Consensus pattern (11 bp):
AATGAAGATGA
Found at i:192654 original size:11 final size:11
Alignment explanation
Indices: 192630--192663 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
192620 TATTTTTCAT
* *
192630 AATGATGATTA
1 AATGAAGATGA
192641 AATGAAGATGA
1 AATGAAGATGA
192652 AATGAAGATGA
1 AATGAAGATGA
192663 A
1 A
192664 GAGTTAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (11 bp):
AATGAAGATGA
Found at i:194186 original size:808 final size:815
Alignment explanation
Indices: 192115--194208 Score: 2722
Period size: 827 Copynumber: 2.6 Consensus size: 815
192105 GATGCTATGC
* * * * *
192115 AAAACAAAGGCATGTGAAGTAGTTGAAAATGAGAATAATGAAGAGATAGAGTGTGAAGAAAAATA
1 AAAACAAAGGTATTTGAAGTAGTTGAAAATGAGAATATTGAAGAGATTGAGTGTGAAGAAAAACA
* * * *
192180 TGAGTGTGAGAGAGGAATTCAAAAAGAATAAGAGTGTAAAGAGAGTATACGAGAGGAGTATAAAG
66 TGAGTGTGAGAGTGGAAATCAAAAAGAATAAGAGTGTAAAGAGAGCATACGAGAGGAGTATGAAG
*
192245 AAGAGAAATTTCAAAAGGGACATGAACATGAGAGAAAAGAATGCGAGGAGAATGAAGTTTTGTTC
131 AAGAGAAATTTCAAAAGGGACATGAGCATGAGAGAAAAGAATGCGAGGAGAATGAA------TT-
* * *
192310 TCTACTAAACAATATTTTCTTCCTATTCTTTCATTTGATTTGCAGGTTATTCCAAATGACATACC
189 TCTACTAATCAATCTTTTCTTCCTATTCTTTCATTTGATTTGCAGGTTATTCCAAATGCCATACC
* * *
192375 ATTGCAAATTGATGAATCAAAAATTTCCATTGAAATTCTAAAGGTTGTAACATTTGGTATTCCAA
254 ATTGCAAATTGATGAATC-AAATTTTCCATTGAAGTTCCAAAGGTTGTAACATTTGGTATTCCAA
* *
192440 AACATGTGCTCTTTGACATTCATAGTACGTTCATTCTACATTCAAAGTTCAAACAATCTCAAGAA
318 AACATGTGCTCTTTGATATTCAAAGTACGTTCATTCTACATTCAAAGTTCAAACAATCTCAAGAA
* * * *
192505 AGGGAAGTTTCAATGCACCTATCCAAGGAGGGCTTCAAACT-CTCAAATTCATTCATTCATGAAA
383 AGGGAAGTTTCAATGAACCTATCCAAGGAGGACCTCAAA-TGCACAAATTCATTCATTCATGAAA
* * *
192569 TTGATTATTTCATTTTCTATGATTTTCAATTATCTACTTCTAACTATTCTTTATTTTTCATAATG
447 TTGATCAATTCATTTTCTATGATTTTCAATTATATACTTCTAACTATTCTTTATTTTT-AT-ATG
* *
192634 ATGATTAAATGAAGATGAAATGAAGATGAAGAGTTAGAAGACATAGAGCAAGTACTAATGTCCTT
510 ATG---AAATGAAGATGAAATGAAGATGAACAGTTAGAAGACATAGAGCAAGTACTAATGCCCTT
** * * *
192699 TTCAATTGGGAGATATGAAGATGAAGTCTTGTGTGATGTTGCTTCCATGAGTTCAAGCCATCTAC
572 TTCAATTACGAGATATGAAGATGAAGTCTTGTGTGATGTTGCTTCAATGAATTCAAACCATCTAC
* *
192764 TTCTCGGACTTCCTTGGCAGTTTGATAAACGAGCTTTGTATGATGGGTTCCTAAATCATTATTCA
637 TTCTCGGACTTCCTTGGAAGTTTGATAAACGAGCATTGTATGATGGGTTCCTAAATCATTATTCA
192829 TTCATCCATTGGAGAAGAAGAATCACGTTAGTACCAATGCCATCACACCAAGTACTTCAAGATCA
702 TTCATCCATTGGAGAAGAAGAATCACGTTAGTACCAATGCCATCACACCAAGTACTTCAAGATCA
* * *
192894 ACAAAAGCTTAAGAAAAACTTTGATGCTATGAAAAAATAAAATTGTGAT
767 ACAAAAGCTTAAGAAAAAATTTGATGATATGAAAAAATAAAATTGTGAG
* * * * * **
192943 AAAACAAA-GTCATTTGGAGTAGTTGAAAATTAGAATATTAAAGAGATTAAGCGCAAAGAAAAAC
1 AAAACAAAGGT-ATTTGAAGTAGTTGAAAATGAGAATATTGAAGAGATTGAGTGTGAAGAAAAAC
* * * *
193007 ATGAGTATGAGAGT-GAAA-CTAAAAGAAATAAGAGTGTAAATAGAGCATACAAGAGGAGTATGA
65 ATGAGTGTGAGAGTGGAAATCAAAAAG-AATAAGAGTGTAAAGAGAGCATACGAGAGGAGTATGA
* * * *
193070 AGAAGAGAAATTTCAAAAAGGACATGAGCATAAGAGAAAATAATGTGAGGAGAATGAAGTTTTAC
129 AGAAGAGAAATTTCAAAAGGGACATGAGCATGAGAGAAAAGAATGCGAGGAGAATG-A-----A-
* * *
193135 TTTCTACTAATGAATCTTTTCTTCTTATT-TTTCCATTTGATTTGTAGGTTATTCCAAATGCCAT
187 TTTCTACTAATCAATCTTTTCTTCCTATTCTTT-CATTTGATTTGCAGGTTATTCCAAATGCCAT
* * * * * * *
193199 ACCATTGCTAATTTATTAATAAAATTTCTCCATTGATGTTCCAATGGTTGTAACGTTTGGTATTC
251 ACCATTGCAAATTGATGAATCAAATTT-TCCATTGAAGTTCCAAAGGTTGTAACATTTGGTATTC
* * * ** ** ** * * *
193264 CTAAGCATGTCCAATTTGATATTTGAAGTATATTCATTCTACATTAAAAATTCAAACAATCTCAG
315 CAAAACATGTGCTCTTTGATATTCAAAGTACGTTCATTCTACATTCAAAGTTCAAACAATCTCAA
* *
193329 GACAGGGAAGTTTCAATGAACCTATCCAAGGAGGACCTCAAACGCACAAATTCATTCATTCATGA
380 GAAAGGGAAGTTTCAATGAACCTATCCAAGGAGGACCTCAAATGCACAAATTCATTCATTCATGA
* * *
193394 AATTGATCAATTCATTTTCTTTGATTTTGAATTATATACATT-TAACT-TTGTTT-TATTTT-T-
445 AATTGATCAATTCATTTTCTATGATTTTCAATTATATAC-TTCTAACTATTCTTTAT-TTTTATA
* ** * ** *
193454 T-A-G-AATGATGATTCAATGAAGATGAACAGTTAGAAGTCATAGAGCAAGTTTTTATGCCCTTT
508 TGATGAAATGAAGATGAAATGAAGATGAACAGTTAGAAGACATAGAGCAAGTACTAATGCCCTTT
* *
193516 TGAATTACGAGATGTGAAGATGAAGTCTTGTGTGATGTTGCTTCAATGAATTCAAACCATCTACT
573 TCAATTACGAGATATGAAGATGAAGTCTTGTGTGATGTTGCTTCAATGAATTCAAACCATCTACT
*
193581 TCTCGGACGTT-CTTGGAAGTTTGATAAACGAGCATTGTATGATGGGTTCCTAAATCTTTATTCA
638 TCTCGGAC-TTCCTTGGAAGTTTGATAAACGAGCATTGTATGATGGGTTCCTAAATCATTATTCA
193645 TTCATCCA-TGGAATAAGAAGAAGAATCACGTTAGTACCAATGCCATCACACCAAGTACTTCAAG
702 TTCATCCATTGG----AGAAGAAGAATCACGTTAGTACCAATGCCATCACACCAAGTACTTCAAG
* * * *
193709 ATTAACAACAA-CTTAAGAAAAAATTTGATGATAT-ATAGAATGAACATTGTGAG
763 ATCAACAA-AAGCTTAAGAAAAAATTTGATGATATGAAAAAAT-AAAATTGTGAG
* *
193762 AAAACAAAGGTATTTAAAATAGTTGAAAATGAGAATATTGAAGAGATTGAGTGTGAAGAAAAACA
1 AAAACAAAGGTATTTGAAGTAGTTGAAAATGAGAATATTGAAGAGATTGAGTGTGAAGAAAAACA
* * *
193827 TGAGTGTGAGAGTGGAAATCAAAAAGAACAAGAGTGCAAAGAGAGCATAGGAGAGGAGTATGAAG
66 TGAGTGTGAGAGTGGAAATCAAAAAGAATAAGAGTGTAAAGAGAGCATACGAGAGGAGTATGAAG
*
193892 AAGAGAAATTTC-ATAGGGACATGAGCATGAGAGAAAAAGAATGCGA-G-G-A-GAA-TTCTACT
131 AAGAGAAATTTCAAAAGGGACATGAGCATGAGAG-AAAAGAATGCGAGGAGAATGAATTTCTACT
*
193951 AATCAATCTTTTCTTCCTATTCTTTCATTTGATTTGCAGGTTATTCCAAAGGCCATACCATTGCA
195 AATCAATCTTTTCTTCCTATTCTTTCATTTGATTTGCAGGTTATTCCAAATGCCATACCATTGCA
* *
194016 AATTGAAGATTCAAATTTGTCCATTGAAGTTCCAAAGGTTGTAACATTTGGTATTCCAAAACATG
260 AATTGATGAATCAAATTT-TCCATTGAAGTTCCAAAGGTTGTAACATTTGGTATTCCAAAACATG
* * * *
194081 TGCTCTTTGTTATTCAAAGTACGTTCATTCTACATTCAAAGTTCTAACAATCTCAAAAAAGGGTA
324 TGCTCTTTGATATTCAAAGTACGTTCATTCTACATTCAAAGTTCAAACAATCTCAAGAAAGGGAA
* * *
194146 GTTTCAATGAACTTATCCAAGGAGTACCTCAAATGCACAAATTCATTCATTCACGAAATTGAT
389 GTTTCAATGAACCTATCCAAGGAGGACCTCAAATGCACAAATTCATTCATTCATGAAATTGAT
194209 AATGATGTAA
Statistics
Matches: 1091, Mismatches: 150, Indels: 70
0.83 0.11 0.05
Matches are distributed among these distances:
808 226 0.21
809 3 0.00
810 1 0.00
815 4 0.00
816 175 0.16
817 3 0.00
818 6 0.01
819 170 0.16
820 65 0.06
821 7 0.01
822 1 0.00
824 1 0.00
825 1 0.00
826 23 0.02
827 337 0.31
828 67 0.06
833 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (815 bp):
AAAACAAAGGTATTTGAAGTAGTTGAAAATGAGAATATTGAAGAGATTGAGTGTGAAGAAAAACA
TGAGTGTGAGAGTGGAAATCAAAAAGAATAAGAGTGTAAAGAGAGCATACGAGAGGAGTATGAAG
AAGAGAAATTTCAAAAGGGACATGAGCATGAGAGAAAAGAATGCGAGGAGAATGAATTTCTACTA
ATCAATCTTTTCTTCCTATTCTTTCATTTGATTTGCAGGTTATTCCAAATGCCATACCATTGCAA
ATTGATGAATCAAATTTTCCATTGAAGTTCCAAAGGTTGTAACATTTGGTATTCCAAAACATGTG
CTCTTTGATATTCAAAGTACGTTCATTCTACATTCAAAGTTCAAACAATCTCAAGAAAGGGAAGT
TTCAATGAACCTATCCAAGGAGGACCTCAAATGCACAAATTCATTCATTCATGAAATTGATCAAT
TCATTTTCTATGATTTTCAATTATATACTTCTAACTATTCTTTATTTTTATATGATGAAATGAAG
ATGAAATGAAGATGAACAGTTAGAAGACATAGAGCAAGTACTAATGCCCTTTTCAATTACGAGAT
ATGAAGATGAAGTCTTGTGTGATGTTGCTTCAATGAATTCAAACCATCTACTTCTCGGACTTCCT
TGGAAGTTTGATAAACGAGCATTGTATGATGGGTTCCTAAATCATTATTCATTCATCCATTGGAG
AAGAAGAATCACGTTAGTACCAATGCCATCACACCAAGTACTTCAAGATCAACAAAAGCTTAAGA
AAAAATTTGATGATATGAAAAAATAAAATTGTGAG
Found at i:200099 original size:23 final size:24
Alignment explanation
Indices: 200068--200112 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
200058 GTAATCTCTA
*
200068 TCTTTTTATTTA-TTTCATTACAT
1 TCTTATTATTTATTTTCATTACAT
200091 TCTTATTATTTATTTTCATTAC
1 TCTTATTATTTATTTTCATTAC
200113 TTATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.64
Consensus pattern (24 bp):
TCTTATTATTTATTTTCATTACAT
Found at i:200399 original size:11 final size:11
Alignment explanation
Indices: 200374--200445 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
200364 GTGCAAAAAG
200374 AAAGAAAAGACAA
1 AAAGAAAAG--AA
*
200387 AAAGAAGAGAA
1 AAAGAAAAGAA
* *
200398 AAATCAGAA-AA
1 AAA-GAAAAGAA
*
200409 GAAGAAAAGAA
1 AAAGAAAAGAA
*
200420 CAAGAAAAG-A
1 AAAGAAAAGAA
200430 AAAGAAAAGAA
1 AAAGAAAAGAA
200441 AAAGA
1 AAAGA
200446 GAAGTTCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
10 12 0.26
11 25 0.53
12 2 0.04
13 8 0.17
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.01
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:200408 original size:19 final size:18
Alignment explanation
Indices: 200369--200437 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 18
200359 TTGGAGTGCA
200369 AAAAGAA-AGAAAAGACA-
1 AAAAGAAGAGAAAA-ACAG
200386 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGAGAAAAA-CAG
200405 AAAAGAAGA-AAAGAACAAG
1 AAAAGAAGAGAAA-AAC-AG
*
200424 AAAAGAAAAGAAAA
1 AAAAGAAGAGAAAA
200438 GAAAAAGAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
17 8 0.18
18 12 0.27
19 22 0.49
20 3 0.07
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.01
Consensus pattern (18 bp):
AAAAGAAGAGAAAAACAG
Found at i:200411 original size:5 final size:5
Alignment explanation
Indices: 200369--200442 Score: 61
Period size: 5 Copynumber: 15.8 Consensus size: 5
200359 TTGGAGTGCA
* * **
200369 AAAAG -AAAG AAAAG -ACA- AAAAG AAGAG AAAA- ATCAG AAAAG --AAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
200413 AAAAG AACAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AA-AAG AAAAG AAAAG AAAAG AAAA
200443 AGAGAAGTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
3 3 0.06
4 10 0.19
5 36 0.67
6 5 0.09
ACGTcount: A:0.76, C:0.04, G:0.19, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:200443 original size:27 final size:27
Alignment explanation
Indices: 200370--200448 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
200360 TGGAGTGCAA
*
200370 AAAG-AAAGAAAAGACAAAAAGAAGAGA
1 AAAGAAAAGAAAAGA-AAAAAGAAAAGA
**
200397 AAA-ATCAGAAAAGAAGAAAAGAACAAGA
1 AAAGAAAAGAAAAGAA-AAAAGAA-AAGA
200425 AAAGAAAAGAAAAGAAAAAGAGAA
1 AAAGAAAAGAAAAGAAAAA-AGAA
200449 GTTCAAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
26 1 0.02
27 18 0.43
28 9 0.21
29 14 0.33
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.01
Consensus pattern (27 bp):
AAAGAAAAGAAAAGAAAAAAGAAAAGA
Found at i:200445 original size:16 final size:16
Alignment explanation
Indices: 200410--200442 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
200400 ATCAGAAAAG
200410 AAGAAAAGAACAAGAA
1 AAGAAAAGAACAAGAA
200426 AAGAAAAGAA-AAGAA
1 AAGAAAAGAACAAGAA
200441 AA
1 AA
200443 AGAGAAGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAACAAGAA
Found at i:204119 original size:13 final size:13
Alignment explanation
Indices: 204097--204126 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
204087 ACTAAACACC
204097 TTTC-ACATACCT
1 TTTCAACATACCT
204109 TTTCAACATACCT
1 TTTCAACATACCT
204122 TTTCA
1 TTTCA
204127 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:214994 original size:8 final size:8
Alignment explanation
Indices: 214981--215054 Score: 89
Period size: 8 Copynumber: 9.0 Consensus size: 8
214971 ATTTTTTTTT
214981 CAAAAAAA
1 CAAAAAAA
214989 CAAAAAAA
1 CAAAAAAA
214997 C-AAAAAA
1 CAAAAAAA
215004 CAAAAAAA
1 CAAAAAAA
*
215012 -AGGCAAAAA
1 CA--AAAAAA
215021 CAAAAAAA
1 CAAAAAAA
215029 CAAAAAAA
1 CAAAAAAA
215037 GGCAAAAAAA
1 --CAAAAAAA
215047 CAAAAAAA
1 CAAAAAAA
215055 GAGCCAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
7 8 0.14
8 36 0.62
9 5 0.09
10 9 0.16
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:215047 original size:18 final size:20
Alignment explanation
Indices: 215021--215065 Score: 76
Period size: 18 Copynumber: 2.4 Consensus size: 20
215011 AAGGCAAAAA
215021 CAAAAAAACAAAAAAAG-G-
1 CAAAAAAACAAAAAAAGAGC
215039 CAAAAAAACAAAAAAAGAGC
1 CAAAAAAACAAAAAAAGAGC
215059 CAAAAAA
1 CAAAAAA
215066 GCCAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 17 0.68
19 1 0.04
20 7 0.28
ACGTcount: A:0.78, C:0.13, G:0.09, T:0.00
Consensus pattern (20 bp):
CAAAAAAACAAAAAAAGAGC
Found at i:222328 original size:27 final size:27
Alignment explanation
Indices: 222281--222340 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
222271 GCTTGCTTTC
*
222281 TTTTT-TGAATTTCTTTTTCTTTTT-T
1 TTTTTCTGAATTTCTTCTTCTTTTTGT
222306 TTTTTCTGAATTTTCTTCTTCTTTTTGT
1 TTTTTCTGAA-TTTCTTCTTCTTTTTGT
*
222334 CTTTTCT
1 TTTTTCT
222341 TTCTTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 4 0.13
27 14 0.47
28 7 0.23
ACGTcount: A:0.07, C:0.13, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTTTCTGAATTTCTTCTTCTTTTTGT
Found at i:230102 original size:13 final size:13
Alignment explanation
Indices: 230080--230115 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
230070 CTTGGCTTGC
*
230080 TTTCTCTTTTTTT
1 TTTCTTTTTTTTT
230093 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
*
230106 CTTCTTTTTT
1 TTTCTTTTTT
230116 GAATGTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:241438 original size:19 final size:20
Alignment explanation
Indices: 241391--241441 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
241381 GAAACCCCTT
**
241391 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
241411 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
241430 TGAAGATACATG
1 TGAAAATACATG
241442 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:245038 original size:19 final size:20
Alignment explanation
Indices: 244991--245041 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
244981 GAAACCCCTT
**
244991 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
245011 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
245030 TGAAGATACATG
1 TGAAAATACATG
245042 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:245483 original size:30 final size:30
Alignment explanation
Indices: 245448--245517 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
245438 GTGTTTGAGC
245448 TGAAGATGAGCTGGCCATAGATAAATTACA
1 TGAAGATGAGCTGGCCATAGATAAATTACA
*
245478 TGAAGATGAGCTGGCCATAGATGAATTACA
1 TGAAGATGAGCTGGCCATAGATAAATTACA
245508 TGAAGATGAG
1 TGAAGATGAG
245518 TCATAGGTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (30 bp):
TGAAGATGAGCTGGCCATAGATAAATTACA
Found at i:248223 original size:23 final size:22
Alignment explanation
Indices: 248172--248214 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
248162 GTTGTAGGAG
248172 TCTC-TTCTTTCTCTCTTTTTT
1 TCTCTTTCTTTCTCTCTTTTTT
*
248193 TCTTCTTTCTTTTTCTCTTTTT
1 TC-TCTTTCTTTCTCTCTTTTT
248215 GTTGCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 2 0.11
23 15 0.79
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTCTTTCTTTCTCTCTTTTTT
Found at i:250667 original size:19 final size:20
Alignment explanation
Indices: 250620--250670 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
250610 GAAATCCCTT
**
250620 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
250640 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
250659 TGAAGATACATG
1 TGAAAATACATG
250671 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:254676 original size:19 final size:20
Alignment explanation
Indices: 254629--254679 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
254619 GAAATCCCTT
**
254629 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
254649 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
254668 TGAAGATACATG
1 TGAAAATACATG
254680 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:261639 original size:14 final size:14
Alignment explanation
Indices: 261620--261647 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
261610 ATACTATCTA
261620 TTTCCATCACCATC
1 TTTCCATCACCATC
261634 TTTCCATCACCATC
1 TTTCCATCACCATC
261648 CTTCATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:262350 original size:19 final size:20
Alignment explanation
Indices: 262309--262359 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
262299 GAAACCCCTT
**
262309 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTAAA
262329 TGAAAATACATG-TTTTAAA
1 TGAAAATACATGATTTTAAA
*
262348 TGAAGATACATG
1 TGAAAATACATG
262360 CTCTTGGCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:262547 original size:17 final size:17
Alignment explanation
Indices: 262525--262567 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
262515 GTCTCCTCCT
262525 AGCTAGCTTGAATATGA
1 AGCTAGCTTGAATATGA
* *
262542 AGCTAGCTTGAATGTGG
1 AGCTAGCTTGAATATGA
262559 AGCTAGCTT
1 AGCTAGCTT
262568 AGCAAGCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (17 bp):
AGCTAGCTTGAATATGA
Found at i:264459 original size:90 final size:91
Alignment explanation
Indices: 264306--264487 Score: 267
Period size: 90 Copynumber: 2.0 Consensus size: 91
264296 GGGAAATGAT
*
264306 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
264370 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
* * * * *
264396 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGTGCCTAAATGATCCTCATGGAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* **
264461 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
264487 G
1 G
264488 GTGTTCTAGG
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 58 0.72
91 23 0.28
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:264684 original size:10 final size:10
Alignment explanation
Indices: 264669--264695 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
264659 CAATATTATG
264669 TTCAGCTATA
1 TTCAGCTATA
264679 TTCAGCTATA
1 TTCAGCTATA
264689 TTCAGCT
1 TTCAGCT
264696 CCAAATAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (10 bp):
TTCAGCTATA
Found at i:267872 original size:23 final size:24
Alignment explanation
Indices: 267830--267882 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
267820 TTTCTTTCTT
267830 TTTCTTCTTTTCGAGTGCTTTCAA
1 TTTCTTCTTTTCGAGTGCTTTCAA
* *
267854 TTTCTTCTTTT-GAGTGCTTTTAT
1 TTTCTTCTTTTCGAGTGCTTTCAA
267877 TTTCTT
1 TTTCTT
267883 TGCTTTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.09, C:0.17, G:0.11, T:0.62
Consensus pattern (24 bp):
TTTCTTCTTTTCGAGTGCTTTCAA
Found at i:271473 original size:14 final size:14
Alignment explanation
Indices: 271453--271488 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
271443 AGTGCTTCAA
271453 CTTCTTTTCTTTCT
1 CTTCTTTTCTTTCT
* *
271467 TTTCTTTGCTTTCT
1 CTTCTTTTCTTTCT
271481 CTTCTTTT
1 CTTCTTTT
271489 GAGTGCTGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (14 bp):
CTTCTTTTCTTTCT
Found at i:271527 original size:23 final size:24
Alignment explanation
Indices: 271475--271530 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
271465 CTTTTCTTTG
*
271475 CTTTCTCTTCTTTTGAGTGCTGGAT
1 CTTTCT-TTCTTTTGAGTGCTGCAT
* *
271500 TTTTCTTTCTTTTGAGTGCTTCA-
1 CTTTCTTTCTTTTGAGTGCTGCAT
271523 CTTTCTTT
1 CTTTCTTT
271531 TCTGATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 7 0.26
24 15 0.56
25 5 0.19
ACGTcount: A:0.07, C:0.20, G:0.14, T:0.59
Consensus pattern (24 bp):
CTTTCTTTCTTTTGAGTGCTGCAT
Found at i:275482 original size:16 final size:16
Alignment explanation
Indices: 275448--275496 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
275438 GTAAGTTATC
* * *
275448 TTCACTTTCTTACTAT
1 TTCATTTTCTTATTCT
275464 TTCATTTTCTTATTCT
1 TTCATTTTCTTATTCT
275480 TTCATCTATTCTTATTC
1 TTCAT-T-TTCTTATTC
275497 CATTACCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCATTTTCTTATTCT
Found at i:276523 original size:19 final size:20
Alignment explanation
Indices: 276495--276534 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
276485 GCATAATAAT
276495 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
276515 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
276534 A
1 A
276535 AGAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:279421 original size:13 final size:13
Alignment explanation
Indices: 279399--279428 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
279389 ACTAAACACC
279399 TTTC-ACATACCT
1 TTTCAACATACCT
279411 TTTCAACATACCT
1 TTTCAACATACCT
279424 TTTCA
1 TTTCA
279429 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:283641 original size:10 final size:10
Alignment explanation
Indices: 283626--283656 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
283616 GCTTGCTTTC
283626 TCTTTTTTTT
1 TCTTTTTTTT
283636 TCTTTTTTTT
1 TCTTTTTTTT
283646 TCTTCTTTTTT
1 TCTT-TTTTTT
283657 GAATGTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:283646 original size:13 final size:13
Alignment explanation
Indices: 283623--283656 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
283613 TAAGCTTGCT
*
283623 TTCTCTTTTTTT-
1 TTCTTTTTTTTTC
283635 TTCTTTTTTTTTC
1 TTCTTTTTTTTTC
283648 TTCTTTTTT
1 TTCTTTTTT
283657 GAATGTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:289974 original size:151 final size:151
Alignment explanation
Indices: 289700--290010 Score: 604
Period size: 151 Copynumber: 2.1 Consensus size: 151
289690 AGAAGATGGA
289700 GTAGAAGATGAGGAAGGATTTGAAGTATTACCTTGATAAGAGAATGAAGTACCTTGGTAATGTTC
1 GTAGAAGATGAGGAAGGATTTGAAGTATTACCTTGATAAGAGAATGAAGTACCTTGGTAATGTTC
289765 TCTGAATCAGAATCTCCTTTGTATTTGTGCTTCGATTGTCATTGCTTTCTTTAGTGTATCTTCGA
66 TCTGAATCAGAATCTCCTTTGTATTTGTGCTTCGATTGTCATTGCTTTCTTTAGTGTATCTTCGA
289830 GGTTTTTGTACCCATGGAGAT
131 GGTTTTTGTACCCATGGAGAT
289851 GTAGAAGATGAGGAAGGATTTGAAGTATTACCTTGATAAGAGAATGAAGTACCTTGGTAATGTTC
1 GTAGAAGATGAGGAAGGATTTGAAGTATTACCTTGATAAGAGAATGAAGTACCTTGGTAATGTTC
289916 TCTGAATCAGAATCTCCTTTGTATTTGTGCTTCGATTGTCATTGCTTTCTTTAGTGTATCTTCGA
66 TCTGAATCAGAATCTCCTTTGTATTTGTGCTTCGATTGTCATTGCTTTCTTTAGTGTATCTTCGA
289981 GGTTTTTGTACCCATGGAGAT
131 GGTTTTTGTACCCATGGAGAT
**
290002 CAAGAAGAT
1 GTAGAAGAT
290011 CAGTGATGTT
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 158 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (151 bp):
GTAGAAGATGAGGAAGGATTTGAAGTATTACCTTGATAAGAGAATGAAGTACCTTGGTAATGTTC
TCTGAATCAGAATCTCCTTTGTATTTGTGCTTCGATTGTCATTGCTTTCTTTAGTGTATCTTCGA
GGTTTTTGTACCCATGGAGAT
Found at i:299989 original size:12 final size:12
Alignment explanation
Indices: 299968--300001 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
299958 CTTGGCTTGC
*
299968 TTTCTCTTTTTT
1 TTTCTTTTTTTT
299980 TTTCTTTTTTTT
1 TTTCTTTTTTTT
*
299992 CTTCTTTTTT
1 TTTCTTTTTT
300002 GAATGTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:304565 original size:12 final size:13
Alignment explanation
Indices: 304544--304580 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
304534 CTTGGCTTGC
304544 TTTC-TCTTTTTT
1 TTTCTTCTTTTTT
304556 TTT-TTCTTTTTT
1 TTTCTTCTTTTTT
304568 TTTCTTCTTTTTT
1 TTTCTTCTTTTTT
304581 GAATGTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTCTTCTTTTTT
Found at i:304568 original size:13 final size:13
Alignment explanation
Indices: 304544--304580 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
304534 CTTGGCTTGC
304544 TTTCTCTTTTTTTT
1 TTTCT-TTTTTTTT
304558 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
*
304571 CTTCTTTTTT
1 TTTCTTTTTT
304581 GAATGTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:309138 original size:11 final size:12
Alignment explanation
Indices: 309118--309152 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
309108 CTTGGCTTGC
309118 TTTC-TCTTTTT
1 TTTCTTCTTTTT
309129 TTT-TTCTTTTT
1 TTTCTTCTTTTT
309140 TTTCTTCTTTTT
1 TTTCTTCTTTTT
309152 T
1 T
309153 GAATGTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTCTTCTTTTT
Found at i:309141 original size:12 final size:12
Alignment explanation
Indices: 309118--309152 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
309108 CTTGGCTTGC
309118 TTTCTCTTTTTTT
1 TTTCT-TTTTTTT
309131 TTTCTTTTTTTT
1 TTTCTTTTTTTT
*
309143 CTTCTTTTTT
1 TTTCTTTTTT
309153 GAATGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:315895 original size:19 final size:20
Alignment explanation
Indices: 315848--315898 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
315838 GAAACTCCTT
**
315848 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
315868 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
315887 TGAAGATACATG
1 TGAAAATACATG
315899 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:319498 original size:19 final size:20
Alignment explanation
Indices: 319451--319501 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
319441 GAAACCCCTT
**
319451 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
319471 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
319490 TGAAGATACATG
1 TGAAAATACATG
319502 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:319944 original size:30 final size:30
Alignment explanation
Indices: 319908--319977 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
319898 GTGTTTGAGC
*
319908 TGAAGATGAGCTGGCCATAGATGAATTACA
1 TGAAGATGAGCTGGCCATAGAAGAATTACA
319938 TGAAGATGAGCTGGCCATAGAAGAATTACA
1 TGAAGATGAGCTGGCCATAGAAGAATTACA
319968 TGAAGATGAG
1 TGAAGATGAG
319978 TCATAGGTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (30 bp):
TGAAGATGAGCTGGCCATAGAAGAATTACA
Found at i:324956 original size:19 final size:21
Alignment explanation
Indices: 324913--324964 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
324903 GAAACCCCTT
324913 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
324934 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
324953 TGAAGATACATG
1 TGAAAATACATG
324965 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:329056 original size:19 final size:21
Alignment explanation
Indices: 329013--329064 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
329003 GAAACCCCTT
329013 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
329034 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
329053 TGAAGATACATG
1 TGAAAATACATG
329065 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:331057 original size:19 final size:20
Alignment explanation
Indices: 331010--331060 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
331000 GAAATCCCTT
**
331010 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
331030 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
331049 TGAAGATACATG
1 TGAAAATACATG
331061 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:354800 original size:14 final size:14
Alignment explanation
Indices: 354781--354808 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
354771 ATACTATCTA
354781 TTTCCATCACCATC
1 TTTCCATCACCATC
354795 TTTCCATCACCATC
1 TTTCCATCACCATC
354809 CTTCATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:355511 original size:19 final size:20
Alignment explanation
Indices: 355470--355520 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
355460 GAAACCCCTT
**
355470 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTAAA
355490 TGAAAATACATG-TTTTAAA
1 TGAAAATACATGATTTTAAA
*
355509 TGAAGATACATG
1 TGAAAATACATG
355521 CTCTTGGCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:355708 original size:17 final size:17
Alignment explanation
Indices: 355686--355762 Score: 136
Period size: 17 Copynumber: 4.5 Consensus size: 17
355676 GTCTCCTCCT
* *
355686 AGCTAGCTTGAATATGA
1 AGCTAGCTTGAATGTGG
355703 AGCTAGCTTGAATGTGG
1 AGCTAGCTTGAATGTGG
355720 AGCTAGCTTGAATGTGG
1 AGCTAGCTTGAATGTGG
355737 AGCTAGCTTGAATGTGG
1 AGCTAGCTTGAATGTGG
355754 AGCTAGCTT
1 AGCTAGCTT
355763 AGCAAGCATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 58 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (17 bp):
AGCTAGCTTGAATGTGG
Found at i:357618 original size:90 final size:91
Alignment explanation
Indices: 357502--357683 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 91
357492 GGGAAATGAT
* *
357502 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGTCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
357566 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
* * * * *
357592 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGTGCCTAAATGATCCTCATGGAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* **
357657 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
357683 G
1 G
357684 GTGTTCTAGG
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 57 0.71
91 23 0.29
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:361086 original size:23 final size:24
Alignment explanation
Indices: 361044--361096 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
361034 TTTCTTTATT
361044 TTTCTTCTTTTCGAGTGCTTTCAA
1 TTTCTTCTTTTCGAGTGCTTTCAA
* *
361068 TTTCTTCTTTT-GAGTGCTTTTAT
1 TTTCTTCTTTTCGAGTGCTTTCAA
361091 TTTCTT
1 TTTCTT
361097 TGATGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.09, C:0.17, G:0.11, T:0.62
Consensus pattern (24 bp):
TTTCTTCTTTTCGAGTGCTTTCAA
Found at i:374394 original size:22 final size:22
Alignment explanation
Indices: 374347--374394 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
374337 AATTCATCTT
* ***
374347 GAAAATTCAAAAAATAAAATCC
1 GAAAATTCAAAAAAAAAAAAAA
374369 GAAAATTCAAAAAAAAAAAAAA
1 GAAAATTCAAAAAAAAAAAAAA
374391 GAAA
1 GAAA
374395 TTCTGGTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.73, C:0.08, G:0.06, T:0.12
Consensus pattern (22 bp):
GAAAATTCAAAAAAAAAAAAAA
Found at i:379825 original size:16 final size:16
Alignment explanation
Indices: 379791--379839 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
379781 GTAAGTTATC
* * *
379791 TTCACTTTCTTACTAT
1 TTCATTTTCTTATTCT
379807 TTCATTTTCTTATTCT
1 TTCATTTTCTTATTCT
379823 TTCATCTATTCTTATTC
1 TTCAT-T-TTCTTATTC
379840 CATTACCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 18 0.64
17 1 0.04
18 9 0.32
ACGTcount: A:0.16, C:0.22, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCATTTTCTTATTCT
Found at i:381613 original size:167 final size:166
Alignment explanation
Indices: 381280--381616 Score: 592
Period size: 169 Copynumber: 2.0 Consensus size: 166
381270 TGATAAGGCT
381280 ATGGTTATGGTGATGAAATAAAAGGATGGTTGTGAGGATAGTATCTTGAAGAAATCTCAAAGAAC
1 ATGGTTATGGTGATGAAATAAAAGGATGGTTGTGAGGATAGTA-CTTGAAGAAATCTCAAAGAAC
381345 AATGCTATATAGAGCAGACCCAATCTTTATATTGTTTCTTCAAGGGATGGTGTTAAGTACTTTGA
65 AATGCTATATAGAGCAGACCCAATCTTTATATTGTTTCTTCAAGGGATGGTGTTAAGTACTTTGA
381410 CCCACTAGTTTATGAACTAGGAACCAGAAGTATCAAG
130 CCCACTAGTTTATGAACTAGGAACCAGAAGTATCAAG
381447 ATGGTTATGGTGATG-AATAAAAGGATGGTTGTGAGGATAGTA-TTGAAGAAATCTCAAAGAAGA
1 ATGGTTATGGTGATGAAATAAAAGGATGGTTGTGAGGATAGTACTTGAAGAAATCTC--A-AAGA
381510 ACCAATGCTATATAGAGCAAGACCCAATCTTTATATTGTTTCTTCAAGGGATGGTGTTAAGTACT
63 A-CAATGCTATATAGAGC-AGACCCAATCTTTATATTGTTTCTTCAAGGGATGGTGTTAAGTACT
381575 TTGACCC-CTAG-TTATGAACTAGGAACCAGAAGTATCAAG
126 TTGACCCACTAGTTTATGAACTAGGAACCAGAAGTATCAAG
381614 ATG
1 ATG
381617 AAAGGAAGGG
Statistics
Matches: 165, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
164 13 0.08
166 28 0.17
167 51 0.31
168 20 0.12
169 53 0.32
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (166 bp):
ATGGTTATGGTGATGAAATAAAAGGATGGTTGTGAGGATAGTACTTGAAGAAATCTCAAAGAACA
ATGCTATATAGAGCAGACCCAATCTTTATATTGTTTCTTCAAGGGATGGTGTTAAGTACTTTGAC
CCACTAGTTTATGAACTAGGAACCAGAAGTATCAAG
Found at i:383882 original size:13 final size:13
Alignment explanation
Indices: 383860--383889 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
383850 ACTAAACACC
383860 TTTC-ACATACCT
1 TTTCAACATACCT
383872 TTTCAACATACCT
1 TTTCAACATACCT
383885 TTTCA
1 TTTCA
383890 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:385427 original size:19 final size:20
Alignment explanation
Indices: 385386--385437 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
385376 GAAACCCCTT
385386 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGA-TTTTAAA
*
385407 TGAAAATACATG-TTTTTAA
1 TGAAAATACATGATTTTAAA
*
385426 TGAAGATACATG
1 TGAAAATACATG
385438 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
21 12 0.41
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:389529 original size:19 final size:20
Alignment explanation
Indices: 389488--389539 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
389478 GAAACCCCTT
389488 TGAAAATACATGACTTTTAAA
1 TGAAAATACATGA-TTTTAAA
*
389509 TGAAAATACATG-TTTTTAA
1 TGAAAATACATGATTTTAAA
*
389528 TGAAGATACATG
1 TGAAAATACATG
389540 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
21 12 0.41
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:395065 original size:23 final size:23
Alignment explanation
Indices: 395039--395083 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
395029 TTGGCCGAAT
395039 GGTTATGTGTTGGTTCGGCCCTC
1 GGTTATGTGTTGGTTCGGCCCTC
395062 GGTTATGTGTTGGTTCGGCCCT
1 GGTTATGTGTTGGTTCGGCCCT
395084 AAGGATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.04, C:0.20, G:0.36, T:0.40
Consensus pattern (23 bp):
GGTTATGTGTTGGTTCGGCCCTC
Found at i:400548 original size:90 final size:90
Alignment explanation
Indices: 400368--400532 Score: 253
Period size: 90 Copynumber: 1.8 Consensus size: 90
400358 GGGAAATGAT
*
400368 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGCCTAAATAAATCACATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAATCACATGCAAGGCACATG
*
400433 GGGCTGTTCACTTGCAAAACACATG
66 GGGCTGGTCACTTGCAAAACACATG
* * *
400458 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAAT-GATCCTCATG-AAGGCATAT
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAAT-CACATGCAAGGCACAT
400521 GGGGGCTGGTCA
65 -GGGGCTGGTCA
400533 TATGCAAGGC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
89 10 0.15
90 58 0.85
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (90 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAATCACATGCAAGGCACATG
GGGCTGGTCACTTGCAAAACACATG
Found at i:402418 original size:13 final size:13
Alignment explanation
Indices: 402396--402425 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
402386 ACTAAACACC
402396 TTTC-ACATACCT
1 TTTCAACATACCT
402408 TTTCAACATACCT
1 TTTCAACATACCT
402421 TTTCA
1 TTTCA
402426 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:408434 original size:25 final size:26
Alignment explanation
Indices: 408406--408466 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
408396 ATTGGAGTGC
408406 AAAAAGAAAGAAAAG-ACAAAAGAAG
1 AAAAAGAAAGAAAAGAACAAAAGAAG
*
408431 AAAAAG-AAGAAAAGAAGAAAAGAAG
1 AAAAAGAAAGAAAAGAACAAAAGAAG
*
408456 AAAAAAAAAGA
1 AAAAAGAAAGA
408467 TTCCAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 8 0.25
25 20 0.62
26 4 0.12
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (26 bp):
AAAAAGAAAGAAAAGAACAAAAGAAG
Found at i:408443 original size:8 final size:8
Alignment explanation
Indices: 408407--408459 Score: 72
Period size: 8 Copynumber: 6.5 Consensus size: 8
408397 TTGGAGTGCA
408407 AAAAGAAAG
1 AAAAG-AAG
*
408416 AAAAG-AC
1 AAAAGAAG
408423 AAAAGAAG
1 AAAAGAAG
408431 AAAAAGAAG
1 -AAAAGAAG
408440 AAAAGAAG
1 AAAAGAAG
408448 AAAAGAAG
1 AAAAGAAG
408456 AAAA
1 AAAA
408460 AAAAAGATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
7 6 0.15
8 21 0.52
9 13 0.32
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAAGAAG
Found at i:411863 original size:19 final size:18
Alignment explanation
Indices: 411839--411895 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
411829 TTGGAGTGCA
*
411839 AAAAGAAGACAAAAATCAG
1 AAAAGAAGA-AAAAATAAG
*
411858 AAAAGAAGAGAAAATAAG
1 AAAAGAAGAAAAAATAAG
*
411876 -AAAGAAGAAAATA-AAG
1 AAAAGAAGAAAAAATAAG
411892 AAAA
1 AAAA
411896 AGAGAAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 3 0.09
17 14 0.42
18 7 0.21
19 9 0.27
ACGTcount: A:0.74, C:0.04, G:0.18, T:0.05
Consensus pattern (18 bp):
AAAAGAAGAAAAAATAAG
Found at i:411886 original size:15 final size:15
Alignment explanation
Indices: 411866--411903 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
411856 AGAAAAGAAG
411866 AGAAAAT-AAGAAAGA
1 AGAAAATAAAGAAA-A
411881 AGAAAATAAAGAAAA
1 AGAAAATAAAGAAAA
411896 AGAGAAAT
1 AGA-AAAT
411904 TCAAAAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (15 bp):
AGAAAATAAAGAAAA
Found at i:411912 original size:32 final size:34
Alignment explanation
Indices: 411837--411916 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 34
411827 AATTGGAGTG
411837 CAAAAAGAAGACAAAAATCAGAAAAGAAGAGAAAAT
1 CAAAAAGAAGA-AAAAA-CAGAAAAGAAGAGAAAAT
*
411873 -AAGAAAGAAGAAAATAA-AG-AAA-AAGAGAAATT
1 CAA-AAAGAAGAAAA-AACAGAAAAGAAGAGAAAAT
411905 CAAAAAG-AGAAA
1 CAAAAAGAAGAAA
411917 GCAAGCCAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
31 5 0.12
32 13 0.32
33 5 0.12
34 2 0.05
35 5 0.12
36 10 0.25
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.06
Consensus pattern (34 bp):
CAAAAAGAAGAAAAAACAGAAAAGAAGAGAAAAT
Found at i:419240 original size:36 final size:36
Alignment explanation
Indices: 419190--419294 Score: 140
Period size: 36 Copynumber: 2.9 Consensus size: 36
419180 GATACAATCT
*
419190 GTCCATCACCATTATCATGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
** *
419226 GTCCATCATTATTATCACGCCTATATCATCATCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
419262 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
419295 ACTTATAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
35 19 0.32
36 40 0.68
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.31
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:424797 original size:154 final size:154
Alignment explanation
Indices: 424517--424826 Score: 584
Period size: 154 Copynumber: 2.0 Consensus size: 154
424507 TGTGCACGCC
424517 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTAGGCGCCAAGATGAAGAGTCCTCT
1 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTAGGCGCCAAGATGAAGAGTCCTCT
* *
424582 TACCATTCGGCTAAGCACTCCTTTCTCTCCAATTTGGCGCCAACTTGAAGGGGTACAAGCACTAT
66 TACCATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCACCAACTTGAAGGGGTACAAGCACTAT
*
424647 TTGGCCAAAGGATATTTTCCTCCA
131 TCGGCCAAAGGATATTTTCCTCCA
*
424671 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTAGGTGCCAAGATGAAGAGTCCTCT
1 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTAGGCGCCAAGATGAAGAGTCCTCT
424736 TACCATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCACCAACTTGAAGGGGTACAAGCACTAT
66 TACCATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCACCAACTTGAAGGGGTACAAGCACTAT
424801 TCGGCCAAAGGATATTTTCCTCCA
131 TCGGCCAAAGGATATTTTCCTCCA
424825 TT
1 TT
424827 TAAACCGAAC
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 152 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (154 bp):
TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTAGGCGCCAAGATGAAGAGTCCTCT
TACCATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCACCAACTTGAAGGGGTACAAGCACTAT
TCGGCCAAAGGATATTTTCCTCCA
Found at i:429139 original size:147 final size:150
Alignment explanation
Indices: 428887--429188 Score: 538
Period size: 147 Copynumber: 2.0 Consensus size: 150
428877 TGTGCACGCC
428887 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTAGGCGCCAAGATGAAGAGTCCTCT
1 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTT--G-GCCAAGATGAAGAGTCCTCT
*
428952 TACCATTCGGCTAAGCACTCCTTTCTCTCCAATTTGGCGCCAACTTGAAGGGGTACAAGCACTAT
63 TACCATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCGCCAACTTGAAGGGGTACAAGCACTAT
*
429017 TTGGCCAAAGGATATTTCCTCCA
128 TCGGCCAAAGGATATTTCCTCCA
429040 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTT-GCCAAGATG-A-AGTCCTCTTAC
1 TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTGGCCAAGATGAAGAGTCCTCTTAC
429102 CATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCGCCAACTTGAAGGGGTACAAGCACTATTCG
66 CATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCGCCAACTTGAAGGGGTACAAGCACTATTCG
429167 GCCAAAGGATATTTCCTCCA
131 GCCAAAGGATATTTCCTCCA
429187 TT
1 TT
429189 TAAACCGAAC
Statistics
Matches: 147, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
147 96 0.65
148 1 0.01
149 9 0.06
153 41 0.28
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (150 bp):
TTGTGACCAGACCACCATGTGATAGGCGTGTGACTTCATTTGGCCAAGATGAAGAGTCCTCTTAC
CATTCGGCCAAGCACTCCTTTCTCTCCAATTTGGCGCCAACTTGAAGGGGTACAAGCACTATTCG
GCCAAAGGATATTTCCTCCA
Found at i:430205 original size:184 final size:184
Alignment explanation
Indices: 429896--430266 Score: 742
Period size: 184 Copynumber: 2.0 Consensus size: 184
429886 TATAATTGGA
429896 GTCAATAAGCTTGGAAATCTTACATAAGATGACTCAGGAGATCATGAAGAACAAATGATGAAAAG
1 GTCAATAAGCTTGGAAATCTTACATAAGATGACTCAGGAGATCATGAAGAACAAATGATGAAAAG
429961 TTGTCAGCGGACCTCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACTTCA
66 TTGTCAGCGGACCTCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACTTCA
430026 TTTCAGCTGGAGAGTTGCACCATCATCTTCACCACATAGAGCACTACAAATATG
131 TTTCAGCTGGAGAGTTGCACCATCATCTTCACCACATAGAGCACTACAAATATG
430080 GTCAATAAGCTTGGAAATCTTACATAAGATGACTCAGGAGATCATGAAGAACAAATGATGAAAAG
1 GTCAATAAGCTTGGAAATCTTACATAAGATGACTCAGGAGATCATGAAGAACAAATGATGAAAAG
430145 TTGTCAGCGGACCTCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACTTCA
66 TTGTCAGCGGACCTCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACTTCA
430210 TTTCAGCTGGAGAGTTGCACCATCATCTTCACCACATAGAGCACTACAAATATG
131 TTTCAGCTGGAGAGTTGCACCATCATCTTCACCACATAGAGCACTACAAATATG
430264 GTC
1 GTC
430267 TAGGTCAATT
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 187 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (184 bp):
GTCAATAAGCTTGGAAATCTTACATAAGATGACTCAGGAGATCATGAAGAACAAATGATGAAAAG
TTGTCAGCGGACCTCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACTTCA
TTTCAGCTGGAGAGTTGCACCATCATCTTCACCACATAGAGCACTACAAATATG
Found at i:432754 original size:11 final size:11
Alignment explanation
Indices: 432731--432815 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
432721 ACAATCTGTC
432731 CATCACCATTAT
1 CATCACCA-TAT
432743 CA-CACCTATAT
1 CATCACC-ATAT
432754 CATCACCATAGT
1 CATCACCATA-T
432766 CCATCACCATTAT
1 -CATCACCA-TAT
*
432779 CA-CGCCTATAT
1 CATCACC-ATAT
*
432790 CATCATCATATT
1 CATCACCATA-T
432802 CCATCACCATAT
1 -CATCACCATAT
432814 CA
1 CA
432816 CGCCCATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 25 0.42
12 15 0.25
13 18 0.30
14 2 0.03
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.29
Consensus pattern (11 bp):
CATCACCATAT
Found at i:432775 original size:36 final size:36
Alignment explanation
Indices: 432728--432832 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
432718 GATACAATCT
*
432728 GTCCATCACCATTATCACACCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
*
432764 GTCCATCACCATTATCACGCCTATATCATCATCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* * *
432800 TTCCATCACCA-TATCACGCCCATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
432833 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
35 19 0.30
36 44 0.70
ACGTcount: A:0.31, C:0.36, G:0.04, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Done.