Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006053.1 Hibiscus syriacus cultivar Beakdansim tig00014324_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: 70843
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:234 original size:97 final size:97
Alignment explanation
Indices: 75--331 Score: 271
Period size: 96 Copynumber: 2.7 Consensus size: 97
65 AGTTGAATCT
* * * * * *
75 ATAAAGCCGGGCGTTTAACTAATTGCTCTAGA-GGACAACTTAA--TATCACTGTATAGATATAA
1 ATAAAGCAGAGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTGTAT--ATATAA
*
137 TAATCACC-TTTATCAGGCTAGCTGAATATTATCC
63 TAATCACCTTTTATCAGGCTAGCTGAATATCATCC
171 --AAAGACAGAGCGTTTAAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T-AT
1 ATAAAG-CAGAGCGTTT-AACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATATAAT
*
232 AATCACCTTTTATCAGGCTAGCTGAATCTCATCC
64 AATCACCTTTTATCAGGCTAGCTGAATATCATCC
** * * * *
266 ATAAAGTTGGGACGTTTAACCAATTGCTTTATAGGGACATCTCAAGCTTTATTGTATATAT-ATA
1 ATAAAGCAGAG-CGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATATAATA
330 AT
65 AT
332 ATTATAATTT
Statistics
Matches: 137, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
94 13 0.09
95 33 0.24
96 58 0.42
97 25 0.18
98 7 0.05
99 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (97 bp):
ATAAAGCAGAGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATATAATAA
TCACCTTTTATCAGGCTAGCTGAATATCATCC
Found at i:2951 original size:11 final size:11
Alignment explanation
Indices: 2922--2962 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2912 AGAAGGAAAA
2922 AAATAAAAA-T
1 AAATAAAAACT
* *
2932 GAATTAAAACT
1 AAATAAAAACT
2943 AAATAAAAACT
1 AAATAAAAACT
2954 AAATAAAAA
1 AAATAAAAA
2963 TATTTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 7 0.27
11 19 0.73
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (11 bp):
AAATAAAAACT
Found at i:2960 original size:21 final size:21
Alignment explanation
Indices: 2922--2961 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2912 AGAAGGAAAA
*
2922 AAATAAAAATGAATTAAAACT
1 AAATAAAAATGAAATAAAACT
2943 AAATAAAAACT-AAATAAAA
1 AAATAAAAA-TGAAATAAAA
2962 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAAAAATGAAATAAAACT
Found at i:4494 original size:38 final size:38
Alignment explanation
Indices: 4413--4575 Score: 191
Period size: 37 Copynumber: 4.5 Consensus size: 38
4403 AAAAAAAATC
**
4413 AAAACTATATATTATAT-AGTTTTCAAAAT-T-AATTT
1 AAAACTATATATTATATAAGTTTTCAAAATATGTTTTT
*
4448 -AAA--A-ATATTATATAAGTTTGCAAAATATGTTTTT
1 AAAACTATATATTATATAAGTTTTCAAAATATGTTTTT
* *
4482 AAAACTATATATTATATAATTTTTCAAAA-ATGTTTTA
1 AAAACTATATATTATATAAGTTTTCAAAATATGTTTTT
*
4519 AAAACTATATATTATATAAGTTTTCAAAAAATG-TTTT
1 AAAACTATATATTATATAAGTTTTCAAAATATGTTTTT
4556 AAAACTATATTATATATATA
1 AAAACTATA-TAT-TATATA
4576 TATATATATA
Statistics
Matches: 110, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
31 9 0.08
32 12 0.11
33 1 0.01
34 6 0.05
35 3 0.03
37 48 0.44
38 25 0.23
39 6 0.05
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (38 bp):
AAAACTATATATTATATAAGTTTTCAAAATATGTTTTT
Found at i:4524 original size:37 final size:37
Alignment explanation
Indices: 4413--4757 Score: 169
Period size: 38 Copynumber: 9.1 Consensus size: 37
4403 AAAAAAAATC
* * **
4413 AAAACTATATATTATAT-AGTTTTCAAAATTAATTT-
1 AAAACTATATATTATATAATTTTTCAAAAATGTTTTA
* * *
4448 -AAA--A-ATATTATATAAGTTTGCAAAATATGTTTTT
1 AAAACTATATATTATATAATTTTTCAAAA-ATGTTTTA
4482 AAAACTATATATTATATAATTTTTCAAAAATGTTTTA
1 AAAACTATATATTATATAATTTTTCAAAAATGTTTTA
*
4519 AAAACTATATATTATATAAGTTTTCAAAAAATGTTTT-
1 AAAACTATATATTATATAATTTTTC-AAAAATGTTTTA
* * * *
4556 AAAACTATATTATATATATATATATATATATATATATTCAAAATGATTTC
1 AAAACTATA-TAT-TATATA-AT-T-T-T-T-CA-A---AAAT-GTTTTA
*
4606 AAAACTATATATTATAT-ATATTTTCAAAAGCAT-TTTCA
1 AAAACTATATATTATATAAT-TTTTCAAAA--ATGTTTTA
* * *
4644 AAAATTATACATTATAT-ATGTTTTC-AAAAT-TTTTT
1 AAAACTATATATTATATAAT-TTTTCAAAAATGTTTTA
* * *
4679 AAAACTATATAATATAT-ATATTTTC-GAAATGTTTTC
1 AAAACTATATATTATATAAT-TTTTCAAAAATGTTTTA
* * * ** **
4715 GAAACTATATAGTATACATATTTTAGAAAACCGTTTTA
1 AAAACTATATATTATATA-ATTTTTCAAAAATGTTTTA
4753 AAAAC
1 AAAAC
4758 ATTTTCAAAA
Statistics
Matches: 244, Mismatches: 38, Indels: 53
0.73 0.11 0.16
Matches are distributed among these distances:
31 9 0.04
32 11 0.05
33 4 0.02
34 3 0.01
35 33 0.14
36 18 0.07
37 47 0.19
38 72 0.30
39 6 0.02
40 2 0.01
41 2 0.01
42 2 0.01
43 2 0.01
44 3 0.01
45 2 0.01
46 4 0.02
48 8 0.03
49 7 0.03
50 9 0.04
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (37 bp):
AAAACTATATATTATATAATTTTTCAAAAATGTTTTA
Found at i:4573 original size:2 final size:2
Alignment explanation
Indices: 4561--4592 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4551 GTTTTAAAAC
4561 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4593 TCAAAATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4624 original size:36 final size:36
Alignment explanation
Indices: 4574--4738 Score: 172
Period size: 36 Copynumber: 4.5 Consensus size: 36
4564 ATTATATATA
*
4574 TATATATATATATATATATTCAAAATGATTTCAAAAC
1 TATATAT-TATATATATTTTCAAAATGATTTCAAAAC
*
4611 TATATATTATATATATTTTCAAAA-GCATTTTCAAAAAT
1 TATATATTATATATATTTTCAAAATG-A-TTTC-AAAAC
* * * *
4649 TATACATTATATATGTTTTCAAAAT-TTTTTAAAAC
1 TATATATTATATATATTTTCAAAATGATTTCAAAAC
* * * *
4684 TATATAATATATATATTTTCGAAATGTTTTCGAAAC
1 TATATATTATATATATTTTCAAAATGATTTCAAAAC
* *
4720 TATATAGTATACATATTTT
1 TATATATTATATATATTTT
4739 AGAAAACCGT
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
35 26 0.24
36 45 0.42
37 11 0.10
38 26 0.24
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATTATATATATTTTCAAAATGATTTCAAAAC
Found at i:4996 original size:97 final size:98
Alignment explanation
Indices: 4838--5026 Score: 240
Period size: 97 Copynumber: 1.9 Consensus size: 98
4828 TGTCTACAAT
* *
4838 AGGAAACAAAGAAACACTAGATACAAACAAAGATATCTAACAACCTAATACAACCAATCCCAATG
1 AGGAAACAAAGAAACACTAGATACAAACAAAGACAACTAACAACCTAATACAACCAATCCCAATG
*
4903 AACAAGCAACA-TCTACACAAACAATGACTACAG
66 AACAACCAACAGT-TACACAAACAATGACTACAG
* * * * * *
4936 AGGAAACAAATAAACACTAGCTGCTAAC-AAGACAACTAACGACCCT-ATACAACCATTCCCAAT
1 AGGAAACAAAGAAACACTAGATACAAACAAAGACAACTAAC-AACCTAATACAACCAATCCCAAT
* *
4999 GAACAACCAGCAGTTATACAAACAATGA
65 GAACAACCAACAGTTACACAAACAATGA
5027 ATTATAACAA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
97 49 0.63
98 29 0.37
ACGTcount: A:0.50, C:0.25, G:0.10, T:0.14
Consensus pattern (98 bp):
AGGAAACAAAGAAACACTAGATACAAACAAAGACAACTAACAACCTAATACAACCAATCCCAATG
AACAACCAACAGTTACACAAACAATGACTACAG
Found at i:5057 original size:19 final size:20
Alignment explanation
Indices: 5016--5060 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
5006 CAGCAGTTAT
*
5016 ACAAACAATGAATTATAACAA
1 ACAAACAAT-AATTAAAACAA
*
5037 ACAAACAAT-ATTAAAATAA
1 ACAAACAATAATTAAAACAA
5056 ACAAA
1 ACAAA
5061 ATGAATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.18
Consensus pattern (20 bp):
ACAAACAATAATTAAAACAA
Found at i:5454 original size:6 final size:6
Alignment explanation
Indices: 5388--5463 Score: 55
Period size: 6 Copynumber: 12.8 Consensus size: 6
5378 TTAGGTTCGA
* * * * * **
5388 GTTTGG ATTTTG GTTCGG GTATGG GTTT-G GTTTGG ATTTGG GTTCAG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * *
5435 ATTTGG GTTCGG GTTTGG GTTCGG GTTTG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTG
5464 AGTTACAGAA
Statistics
Matches: 49, Mismatches: 20, Indels: 2
0.69 0.28 0.03
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.07, C:0.05, G:0.42, T:0.46
Consensus pattern (6 bp):
GTTTGG
Found at i:5463 original size:24 final size:24
Alignment explanation
Indices: 5410--5463 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
5400 GTTCGGGTAT
*
5410 GGGTTT-GGTTTGGATTTGGGTTC
1 GGGTTTGGGTTCGGATTTGGGTTC
* * *
5433 AGATTTGGGTTCGGGTTTGGGTTC
1 GGGTTTGGGTTCGGATTTGGGTTC
5457 GGGTTTG
1 GGGTTTG
5464 AGTTACAGAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.06, C:0.06, G:0.44, T:0.44
Consensus pattern (24 bp):
GGGTTTGGGTTCGGATTTGGGTTC
Found at i:6201 original size:6 final size:6
Alignment explanation
Indices: 6190--6253 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
6180 ATCACTTATA
*
6190 ATTAAT ATTAAT A-TAA- ATTATAG ATT-AT AATTAAT ATTAAT ATTAA-
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT
*
6236 CTT-AT ATTAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT AT
6254 AGTTTATAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
4 2 0.04
5 15 0.32
6 25 0.53
7 5 0.11
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:6205 original size:29 final size:28
Alignment explanation
Indices: 6168--6321 Score: 133
Period size: 29 Copynumber: 5.5 Consensus size: 28
6158 ATTAATAGTG
6168 TTAATATAAATTATCACTTATAATTAATA
1 TTAATATAAATTAT-ACTTATAATTAATA
*
6197 TTAATATAAATTATAGATTATAATTAATA
1 TTAATATAAATTATA-CTTATAATTAATA
6226 TT-A-AT--ATTA-ACTTAT-ATTAATA
1 TTAATATAAATTATACTTATAATTAATA
** * *
6248 -TAATATAGTTTATAATTTGTAATTAATA
1 TTAATATAAATTAT-ACTTATAATTAATA
* *
6276 TTAATATAAAATATAGTTTATAAAATTAATA
1 TTAATATAAATTATA-CTTAT--AATTAATA
*
6307 TTAATATAAACTATA
1 TTAATATAAATTATA
6322 TTTTATAAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 22
0.76 0.07 0.16
Matches are distributed among these distances:
21 1 0.01
22 8 0.08
23 6 0.06
24 1 0.01
25 7 0.07
27 6 0.06
28 10 0.10
29 42 0.41
31 22 0.21
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (28 bp):
TTAATATAAATTATACTTATAATTAATA
Found at i:6244 original size:16 final size:16
Alignment explanation
Indices: 6183--6248 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
6173 ATAAATTATC
6183 ACTTATAATTAATATTA
1 ACTTAT-ATTAATATTA
* *
6200 A-TATAAATTATAGATTA
1 ACT-TATATTA-ATATTA
*
6217 TAATTAATATTAATATTA
1 -ACTT-ATATTAATATTA
6235 ACTTATATTAATAT
1 ACTTATATTAATAT
6249 AATATAGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 15 0.38
17 11 0.28
18 7 0.18
19 6 0.15
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (16 bp):
ACTTATATTAATATTA
Found at i:6271 original size:50 final size:52
Alignment explanation
Indices: 6183--6282 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 52
6173 ATAAATTATC
6183 ACTTATAATTAATATTAATATAAATTATAGATTATAATTAATATTAATATTA
1 ACTTATAATTAATATTAATATAAATTATAGATTATAATTAATATTAATATTA
** *
6235 ACTTAT-ATTAATA-TAATATAGTTTATA-ATTTGTAATTAATATTAATAT
1 ACTTATAATTAATATTAATATAAATTATAGA-TTATAATTAATATTAATAT
6283 AAAATATAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 1 0.02
50 30 0.68
51 7 0.16
52 6 0.14
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (52 bp):
ACTTATAATTAATATTAATATAAATTATAGATTATAATTAATATTAATATTA
Found at i:6306 original size:31 final size:31
Alignment explanation
Indices: 6268--6569 Score: 165
Period size: 31 Copynumber: 9.5 Consensus size: 31
6258 TATAATTTGT
*
6268 AATTAATATTAATATAAAATATAGTTTATAA
1 AATTAATATTAATATAAACTATAGTTTATAA
*
6299 AATTAATATTAATATAAACTATATTTTAT-A
1 AATTAATATTAATATAAACTATAGTTTATAA
* * *
6329 AATTATATAGTACAATTTATAAACTATAGTTAATAT
1 AATTA-ATA-T-TAA--TATAAACTATAGTTTATAA
* *
6365 AATTAATATTAATAT--AGTATATGATTTATAG
1 AATTAATATTAATATAAACTATA-G-TTTATAA
* *
6396 AA-T-ATAATTAATATTAA-TATTAATATTAT-A
1 AATTAAT-ATTAATATAAACTA-TAGT-TTATAA
* * *
6426 TACT-ATATTAATATAAACTATAGTTAAT-A
1 AATTAATATTAATATAAACTATAGTTTATAA
** *
6455 TGTTAATATTAATGTAAACTATAGTTTATAA
1 AATTAATATTAATATAAACTATAGTTTATAA
* * * *
6486 CTATCTACTACATTAATACAAATTATAGTTTATAA
1 -AAT-TA--ATATTAATATAAACTATAGTTTATAA
* * *
6521 CTATATAATATATAATATAAATTATAG-TTAAAA
1 -AAT-TAATAT-TAATATAAACTATAGTTTATAA
*
6554 TAATTAACATTAATAT
1 -AATTAATATTAATAT
6570 TAAGTATAAT
Statistics
Matches: 217, Mismatches: 32, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
29 13 0.06
30 53 0.24
31 58 0.27
32 11 0.05
33 16 0.07
34 15 0.07
35 46 0.21
36 5 0.02
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (31 bp):
AATTAATATTAATATAAACTATAGTTTATAA
Found at i:6380 original size:24 final size:23
Alignment explanation
Indices: 6353--6467 Score: 89
Period size: 24 Copynumber: 5.0 Consensus size: 23
6343 ATTTATAAAC
6353 TATAGTTAATATAATTAATATTAA
1 TATAGTTAATAT-ATTAATATTAA
* *
6377 TATAG-T-ATATGATTTATA-GAA
1 TATAGTTAATAT-ATTAATATTAA
*
6398 TATAATT-A-ATATTAATATTAA
1 TATAGTTAATATATTAATATTAA
* *
6419 TATTA-TATACTATATTAATATAAA
1 TA-TAGT-TAATATATTAATATTAA
*
6443 CTATAGTTAATATGTTAATATTAA
1 -TATAGTTAATATATTAATATTAA
6467 T
1 T
6468 GTAAACTATA
Statistics
Matches: 72, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
20 6 0.08
21 13 0.18
22 15 0.21
23 2 0.03
24 33 0.46
25 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (23 bp):
TATAGTTAATATATTAATATTAA
Found at i:6413 original size:6 final size:6
Alignment explanation
Indices: 6402--6439 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
6392 ATAGAATATA
*
6402 ATTAAT ATTAAT ATTAAT ATTATAT ACT-AT ATTAAT AT
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTAAT ATTAAT AT
6440 AAACTATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.14
6 20 0.71
7 4 0.14
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTAAT
Found at i:6433 original size:18 final size:16
Alignment explanation
Indices: 6412--6455 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
6402 ATTAATATTA
6412 ATATTAATATTATATACT
1 ATATTAATATTA-A-ACT
6430 ATATTAATA-TAAACT
1 ATATTAATATTAAACT
6445 ATAGTTAATAT
1 ATA-TTAATAT
6456 GTTAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.25
16 7 0.29
17 2 0.08
18 9 0.38
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (16 bp):
ATATTAATATTAAACT
Found at i:6475 original size:156 final size:151
Alignment explanation
Indices: 6273--6665 Score: 361
Period size: 156 Copynumber: 2.6 Consensus size: 151
6263 TTTGTAATTA
* * * *
6273 ATATTAATATAAAATATAGTTTATAAAATTAATATTAATATAAACTATATTTTATAAATTATATA
1 ATATTAATATAAACTATAGTTAATAAAATTAATATTAATATAAACTATAGTTTAT-AACTATATA
* * * * * *
6338 GTACAATT-TATAAACTATAGTTAATATAATTAATATTAATATAGT-ATATGATTTATAG-AATA
65 CTAC-ATTATACAAACTATAGTT--TATAACT-ATA-TAATATA-TAATATAAATTATAGTAAAA
*
6400 TAATTAATATTAATATTAA-TATTATATAC
124 TAATTAACATTAATATTAAGTA-TA-ATAC
** * *
6429 TATATTAATATAAACTATAGTTAAT-ATGTTAATATTAATGTAAACTATAGTTTATAACTATCTA
1 -ATATTAATATAAACTATAGTTAATAAAATTAATATTAATATAAACTATAGTTTATAACTATATA
*
6493 CTACATTAATACAAATTATAGTTTATAACTATATAATATATAATATAAATTATAGTTAAAATAAT
65 CTACATT-ATACAAACTATAGTTTATAACTATATAATATATAATATAAATTATAG-TAAAATAAT
6558 TAACATTAATATTAAGTATAATAC
128 TAACATTAATATTAAGTATAATAC
*
6582 --ATTAATATAAACTATAGTT--T---A-TAA-ATT-ATAT--ACTATAGGTTATAAACTATATA
1 ATATTAATATAAACTATAGTTAATAAAATTAATATTAATATAAACTATAGTTTAT-AACTATATA
* * * *
6635 GTACACTATATAAACTATTGTTTATAACTAT
65 CTACATTATACAAACTATAGTTTATAACTAT
6666 GTTACATATA
Statistics
Matches: 204, Mismatches: 25, Indels: 30
0.79 0.10 0.12
Matches are distributed among these distances:
141 32 0.16
142 13 0.06
143 3 0.01
144 3 0.01
145 3 0.01
148 1 0.00
150 19 0.09
151 1 0.00
152 18 0.09
153 7 0.03
154 32 0.16
155 12 0.06
156 38 0.19
157 22 0.11
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (151 bp):
ATATTAATATAAACTATAGTTAATAAAATTAATATTAATATAAACTATAGTTTATAACTATATAC
TACATTATACAAACTATAGTTTATAACTATATAATATATAATATAAATTATAGTAAAATAATTAA
CATTAATATTAAGTATAATAC
Found at i:6513 original size:35 final size:34
Alignment explanation
Indices: 6474--6549 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 34
6464 TAATGTAAAC
* *
6474 TATAGTTTATAACTATCTACTACATTAATACAAAT
1 TATAGTTTATAACTATATAATACA-TAATACAAAT
* *
6509 TATAGTTTATAACTATATAATATATAATATAAAT
1 TATAGTTTATAACTATATAATACATAATACAAAT
6543 TATAGTT
1 TATAGTT
6550 AAAATAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 16 0.43
35 21 0.57
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (34 bp):
TATAGTTTATAACTATATAATACATAATACAAAT
Found at i:6597 original size:20 final size:20
Alignment explanation
Indices: 6560--6597 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6550 AAAATAATTA
* *
6560 ACATTAATATTAAGTATAAT
1 ACATTAATATAAACTATAAT
6580 ACATTAATATAAACTATA
1 ACATTAATATAAACTATA
6598 GTTTATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (20 bp):
ACATTAATATAAACTATAAT
Found at i:6633 original size:21 final size:21
Alignment explanation
Indices: 6587--6634 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
6577 AATACATTAA
* * *
6587 TATAAACTATAGTTTATAAAT
1 TATATACTATAGGTTATAAAC
6608 TATATACTATAGGTTATAAAC
1 TATATACTATAGGTTATAAAC
6629 TATATA
1 TATATA
6635 GTACACTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (21 bp):
TATATACTATAGGTTATAAAC
Found at i:6737 original size:16 final size:16
Alignment explanation
Indices: 6716--6776 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
6706 ATATACATAA
6716 TACATATACTATAGGT
1 TACATATACTATAGGT
*
6732 TACATATA-TAGTTTACATGT
1 TACATATACTA---T--AGGT
6752 ATACATATACTATAGGT
1 -TACATATACTATAGGT
6769 TACATATA
1 TACATATA
6777 TTAACTATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
15 2 0.06
16 16 0.44
17 3 0.08
18 1 0.03
19 1 0.03
20 3 0.08
21 8 0.22
22 2 0.06
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (16 bp):
TACATATACTATAGGT
Found at i:12741 original size:3 final size:3
Alignment explanation
Indices: 12735--12781 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
12725 TATTATTGTT
12735 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12782 TCAGTTGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13252 original size:12 final size:12
Alignment explanation
Indices: 13237--13262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13227 ACGATAGTTA
13237 ATATTATAGTAC
1 ATATTATAGTAC
13249 ATATTATAGTAC
1 ATATTATAGTAC
13261 AT
1 AT
13263 CCCCTGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
ATATTATAGTAC
Found at i:15600 original size:40 final size:39
Alignment explanation
Indices: 15515--15826 Score: 203
Period size: 40 Copynumber: 7.8 Consensus size: 39
15505 AAATGACCAA
* * * **
15515 CAAATTCGCAACGCGAACTCCAATTTCGCAACCCAG-TTT
1 CAAATTCGCAACGCGAAGT-CAAATTCGCAACACAGAAGT
15554 CAAAATTCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGT
1 C-AAATTCGCAACGCGAA---GTCAAATTCGCAACACAGAAGT
* *** *
15595 TAAATTCGCAACAAATAAGTCAAATTCGCAACGC-GATAGT
1 CAAATTCGCAAC-GCGAAGTCAAATTCGCAACACAGA-AGT
* *
15635 CAAATTCGCAACACTGAAGTCAAATTCGCAA-AGCAAAAGT
1 CAAATTCGCAACGC-GAAGTCAAATTCGCAACA-CAGAAGT
* *
15675 CAAATTCACAACGCGAA-TCTGTAAA-TCGCAACGC-GAATTTGT
1 CAAATTCGCAACGCGAAGTC---AAATTCGCAACACAGAA---GT
** *
15717 -AAA-TCGCAATACAGAAGTCAAATTCGCAACACATAAGT
1 CAAATTCGCAACGC-GAAGTCAAATTCGCAACACAGAAGT
* *
15755 CAAATTCGCAACGCGATAGTCAAATTCGCAACACTGAATTT
1 CAAATTCGCAACGCGA-AGTCAAATTCGCAACACAGAA-GT
*
15796 CAAATTCGCAACGCGATATTCAAATTCGCAA
1 CAAATTCGCAACGCGA-AGTCAAATTCGCAA
15827 AGCGCGTTTA
Statistics
Matches: 216, Mismatches: 30, Indels: 52
0.72 0.10 0.17
Matches are distributed among these distances:
38 6 0.03
39 20 0.09
40 137 0.63
41 48 0.22
42 4 0.02
43 1 0.00
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (39 bp):
CAAATTCGCAACGCGAAGTCAAATTCGCAACACAGAAGT
Found at i:15603 original size:20 final size:20
Alignment explanation
Indices: 15580--15826 Score: 181
Period size: 20 Copynumber: 12.3 Consensus size: 20
15570 AATTTGTAAA
*
15580 TCGCAACACAGAAGTTAAAT
1 TCGCAACACAGAAGTCAAAT
* *
15600 TCGCAACAAATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
15620 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
15640 TCGCAACACTGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
15660 TCGCAA-AGCAAAAGTCAAAT
1 TCGCAACA-CAGAAGTCAAAT
* *
15680 TCACAACGC-GAA-TCTGTAAA-
1 TCGCAACACAGAAGTC---AAAT
*
15700 TCGCAACGC-GAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
*
15720 TCGCAATACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
15740 TCGCAACACATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
15760 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
* *
15780 TCGCAACACTGAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
* *
15801 TCGCAACGC-GATATTCAAAT
1 TCGCAACACAGA-AGTCAAAT
15821 TCGCAA
1 TCGCAA
15827 AGCGCGTTTA
Statistics
Matches: 187, Mismatches: 22, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.02
19 8 0.04
20 149 0.80
21 25 0.13
24 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:15764 original size:60 final size:59
Alignment explanation
Indices: 15556--15826 Score: 220
Period size: 60 Copynumber: 4.5 Consensus size: 59
15546 CCCAGTTTCA
* * * * *
15556 AAATTCGCAACGCGAATTTGT-AAA-TCGCAACACAGAA-GTTAAATTCGCAACAAATAAGTC
1 AAATTCGCAACGCG-A-TAGTCAAATTCGCAACGC-GAATGTCAAATTCGCAA-ACAGAAGTC
* *
15616 AAATTCGCAACGCGATAGTCAAATTCGCAACACTGAA-GTCAAATTCGCAAAGCAAAAGTC
1 AAATTCGCAACGCGATAGTCAAATTCGCAACGC-GAATGTCAAATTCGCAAA-CAGAAGTC
* *
15676 AAATTCACAACGCGAATCTGT-AAA-TCGCAACGCGAATTTGT-AAA-TCGCAATACAGAAGTC
1 AAATTCGCAACGCG-AT-AGTCAAATTCGCAACGCGAA--TGTCAAATTCGCAA-ACAGAAGTC
* * *
15736 AAATTCGCAACAC-ATAAGTCAAATTCGCAACGCG-ATAGTCAAATTCGCAACACTGAATTTC
1 AAATTCGCAACGCGAT-AGTCAAATTCGCAACGCGAAT-GTCAAATTCGCAA-ACAGAA-GTC
*
15797 AAATTCGCAACGCGATATTCAAATTCGCAA
1 AAATTCGCAACGCGATAGTCAAATTCGCAA
15827 AGCGCGTTTA
Statistics
Matches: 177, Mismatches: 18, Indels: 31
0.78 0.08 0.14
Matches are distributed among these distances:
57 1 0.01
58 9 0.05
59 15 0.08
60 110 0.62
61 36 0.20
62 6 0.03
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (59 bp):
AAATTCGCAACGCGATAGTCAAATTCGCAACGCGAATGTCAAATTCGCAAACAGAAGTC
Found at i:15854 original size:140 final size:140
Alignment explanation
Indices: 15557--15830 Score: 440
Period size: 140 Copynumber: 1.9 Consensus size: 140
15547 CCAGTTTCAA
*
15557 AATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTTAAATTCGCAACAAATAAGTCAAATTC
1 AATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACAAATAAGTCAAATTC
*
15622 GCAACGCGATAGTCAAATTCGCAACACTGAAGTCAAATTCGCAAAGCAAAAGTCAAATTCACAAC
66 GCAACGCGATAGTCAAATTCGCAACACTGAAGTCAAATTCGCAAAGCAAAAGTCAAATTCACAAA
15687 GCGAATCTGT
131 GCGAATCTGT
* * *
15697 AAATCGCAACGCGAATTTGTAAATCGCAATACAGAAGTCAAATTCGCAACACATAAGTCAAATTC
1 AATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACAAATAAGTCAAATTC
* * * * * *
15762 GCAACGCGATAGTCAAATTCGCAACACTGAATTTCAAATTCGCAACGCGATATTCAAATTCGCAA
66 GCAACGCGATAGTCAAATTCGCAACACTGAA-GTCAAATTCGCAAAGCAAAAGTCAAATTCACAA
15827 AGCG
130 AGCG
15831 CGTTTATTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
140 92 0.75
141 30 0.25
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.21
Consensus pattern (140 bp):
AATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACAAATAAGTCAAATTC
GCAACGCGATAGTCAAATTCGCAACACTGAAGTCAAATTCGCAAAGCAAAAGTCAAATTCACAAA
GCGAATCTGT
Found at i:16011 original size:22 final size:22
Alignment explanation
Indices: 15980--16036 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
15970 CACTCTCTAT
* *
15980 AGCGACATCCGTCCCCATCTTC
1 AGCGAAATCCGTCCCCATCTCC
16002 -GACGAAATCCGTCCCCATCTCC
1 AG-CGAAATCCGTCCCCATCTCC
16024 AGCGAAATCCGTC
1 AGCGAAATCCGTC
16037 TATCTCCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (22 bp):
AGCGAAATCCGTCCCCATCTCC
Found at i:16043 original size:20 final size:21
Alignment explanation
Indices: 15980--16044 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
15970 CACTCTCTAT
* *
15980 AGCGACATCCGTCCCCATCTTC
1 AGCGAAATCCGT-CCCATCTCC
16002 -GACGAAATCCGTCCCCATCTCC
1 AG-CGAAATCCGT-CCCATCTCC
*
16024 AGCGAAATCCGT-CTATCTCC
1 AGCGAAATCCGTCCCATCTCC
16044 A
1 A
16045 TCTCTCAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.21
21 1 0.03
22 28 0.74
23 1 0.03
ACGTcount: A:0.23, C:0.42, G:0.14, T:0.22
Consensus pattern (21 bp):
AGCGAAATCCGTCCCATCTCC
Found at i:16454 original size:14 final size:14
Alignment explanation
Indices: 16432--16463 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16422 GCTATTTTAG
16432 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
*
16446 TTTCTCGTTGCGAT
1 TTTCGCGTTGCGAT
16460 TTTC
1 TTTC
16464 ATTTTCACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.22, G:0.22, T:0.50
Consensus pattern (14 bp):
TTTCGCGTTGCGAT
Found at i:16489 original size:20 final size:20
Alignment explanation
Indices: 16446--16490 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16436 GCGTTGCGAT
* * * *
16446 TTTCTCGTTGCGATTTTCAT
1 TTTCACGTTGCGAATTTAAG
16466 TTTCACGTTGCGAATTTAAG
1 TTTCACGTTGCGAATTTAAG
16486 TTTCA
1 TTTCA
16491 GAAACTACTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (20 bp):
TTTCACGTTGCGAATTTAAG
Found at i:18307 original size:21 final size:21
Alignment explanation
Indices: 18261--18310 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
18251 CAATGGTGTG
* *
18261 CTACGTGATGAGGTATCTACT
1 CTACGTGATGAGGTAGCCACT
* *
18282 TTACGTGATGAGGTAGCCGCT
1 CTACGTGATGAGGTAGCCACT
18303 CTACGTGA
1 CTACGTGA
18311 GATTGTTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
CTACGTGATGAGGTAGCCACT
Found at i:18620 original size:21 final size:21
Alignment explanation
Indices: 18588--18661 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
18578 GATTCACCTT
*
18588 TCATCATTCAAGAGGCGCCTC
1 TCATCGTTCAAGAGGCGCCTC
*
18609 -CTATCGTTCAAGAGGCTCCTC
1 TC-ATCGTTCAAGAGGCGCCTC
* * *
18630 TCATTGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCGCCTC
18651 TCATCGTTCAA
1 TCATCGTTCAA
18662 TGGGTCCCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCGCCTC
Found at i:20103 original size:37 final size:37
Alignment explanation
Indices: 20053--20138 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
20043 GAAAGTTGAT
20053 TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGC
1 TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGC
*
20090 TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTC
1 TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGC
20127 TTGTTTAATTGA
1 TTGTTTAATTGA
20139 CTTGTAAAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.49
Consensus pattern (37 bp):
TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGC
Found at i:20177 original size:14 final size:14
Alignment explanation
Indices: 20135--20188 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
20125 TCTTGTTTAA
* *
20135 TTGACTTGTAAAAG
1 TTGATTTGTAAAAT
20149 TTGATTTGTAAAAT
1 TTGATTTGTAAAAT
**
20163 TTGATTTGTTTAAT
1 TTGATTTGTAAAAT
*
20177 TTGATGTGTAAA
1 TTGATTTGTAAA
20189 TAAGAATTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (14 bp):
TTGATTTGTAAAAT
Found at i:20191 original size:79 final size:79
Alignment explanation
Indices: 20090--20237 Score: 244
Period size: 80 Copynumber: 1.9 Consensus size: 79
20080 TATTTTTTGC
*
20090 TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTT-CTTGTTTAATTGACTTGTAAAAGTTGAT
1 TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGACTTATAAAAGTTGAT
20154 TTGTAAAATTTGAT
66 TTGTAAAATTTGAT
* * *
20168 TTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTATAAAAGTTGA
1 TTGTTTAA-TTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGACTTATAAAAGTTGA
20233 TTTGT
65 TTTGT
20238 TGTTTTAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 8 0.12
79 26 0.41
80 30 0.47
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (79 bp):
TTGTTTAATTGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGACTTATAAAAGTTGAT
TTGTAAAATTTGAT
Found at i:20415 original size:20 final size:20
Alignment explanation
Indices: 20367--20415 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
20357 CGCGAAATAA
* *
20367 GCGTTGCGATAGTCAAATTT
1 GCGTTGCGAAAGTCAAATTC
***
20387 GCAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATTC
20407 GCGTTGCGA
1 GCGTTGCGA
20416 TTTCGCGTTG
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATTC
Found at i:20422 original size:13 final size:13
Alignment explanation
Indices: 20404--20428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20394 GAAAGTCAAA
20404 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
20417 TTCGCGTTGCGA
1 TTCGCGTTGCGA
20429 ATTTGACTTT
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:0.08, C:0.24, G:0.32, T:0.36
Consensus pattern (13 bp):
TTCGCGTTGCGAT
Found at i:22782 original size:24 final size:24
Alignment explanation
Indices: 22750--22801 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22740 GAAACATCAT
22750 CAAAATCCGAGTATTCACCAAGAG
1 CAAAATCCGAGTATTCACCAAGAG
* * * *
22774 CAAAGTCCGGGTATTGACCAAGAT
1 CAAAATCCGAGTATTCACCAAGAG
22798 CAAA
1 CAAA
22802 TTTCGAATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.17
Consensus pattern (24 bp):
CAAAATCCGAGTATTCACCAAGAG
Found at i:22948 original size:12 final size:12
Alignment explanation
Indices: 22927--22960 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22917 TGTTGTGGGT
*
22927 TTTGAGATTGTG
1 TTTGATATTGTG
22939 TTTGATATTGTG
1 TTTGATATTGTG
*
22951 TTTGGTATTG
1 TTTGATATTG
22961 GAAATGTGGT
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:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:23577 original size:16 final size:15
Alignment explanation
Indices: 23555--23593 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
23545 GAAATCATTG
23555 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
23571 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
23586 AAAAATTA
1 AAAAATTA
23594 GAGATGGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:23776 original size:20 final size:19
Alignment explanation
Indices: 23732--23829 Score: 135
Period size: 19 Copynumber: 5.1 Consensus size: 19
23722 AAACATTTGT
* *
23732 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTC-A
* *
23751 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTC-A
23771 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
23790 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
23809 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
23828 GT
1 GT
23830 GTTGCAAATT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
19 50 0.69
20 22 0.31
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:23817 original size:38 final size:39
Alignment explanation
Indices: 23732--23829 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 39
23722 AAACATTTGT
* *
23732 GTTGCGAAATT-AAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTC-AGTTGCGAATTCGAAAATCGA
* *
23771 GTTGCGAATTTGAAATTCAGTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCAGTTGCGAATTCGAAAATCGA
23809 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTTGAAATTCAGT
23830 GTTGCAAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
38 22 0.41
39 26 0.48
40 6 0.11
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (39 bp):
GTTGCGAATTTGAAATTCAGTTGCGAATTCGAAAATCGA
Found at i:23872 original size:40 final size:40
Alignment explanation
Indices: 23809--23994 Score: 184
Period size: 40 Copynumber: 4.6 Consensus size: 40
23799 TTGAAATTCA
* * *
23809 GTTGCGAATTTGAAATTCA-GTGTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTG--ATTTATGTGTTGCGAATTTGACTTCTGT
*
23850 GTTGCTAATTTGATTTATGTGTTGCG-ATTT-ACAGATTC-GT
1 GTTGCGAATTTGATTTATGTGTTGCGAATTTGAC---TTCTGT
* * *
23890 GTTGCAAATTTGATTTTTGTGTTGCGAATTTGACTTCAGT
1 GTTGCGAATTTGATTTATGTGTTGCGAATTTGACTTCTGT
* *
23930 GTTGCGAATTTGA-CTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGATTTAT-GTGTTGCGAATTTGACTTCTGT
* *
23970 GTTGCGAATTTGACTTATGGGTTGC
1 GTTGCGAATTTGATTTATGTGTTGC
23995 CATTTACAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
38 2 0.02
39 13 0.11
40 86 0.70
41 20 0.16
42 2 0.02
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (40 bp):
GTTGCGAATTTGATTTATGTGTTGCGAATTTGACTTCTGT
Found at i:23892 original size:60 final size:60
Alignment explanation
Indices: 23821--24021 Score: 246
Period size: 60 Copynumber: 3.3 Consensus size: 60
23811 TGCGAATTTG
*
23821 AAATTCAGTGTTGCAAATTTGACTTTTGTGTTGCTAATTTGATTTATGTGTTGCGATTTAC
1 AAATTC-GTGTTGCAAATTTGACTTTTGTGTTGCGAATTTGATTTATGTGTTGCGATTTAC
* * *
23882 AGATTCGTGTTGCAAATTTGATTTTTGTGTTGCGAATTTGACTTCA-GTGTTGCGAATTTGAC
1 AAATTCGTGTTGCAAATTTGACTTTTGTGTTGCGAATTTGA-TTTATGTGTTGCG-ATTT-AC
* * * * * * *
23944 -TA-TCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTATGGGTTGCCATTTAC
1 AAATTCGTGTTGCAAATTTGACTTTTGTGTTGCGAATTTGATTTATGTGTTGCGATTTAC
24002 AAATTCGTGTTGCAAATTTG
1 AAATTCGTGTTGCAAATTTG
24022 GAAACTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
58 2 0.02
59 7 0.06
60 94 0.80
61 13 0.11
62 2 0.02
ACGTcount: A:0.21, C:0.12, G:0.22, T:0.44
Consensus pattern (60 bp):
AAATTCGTGTTGCAAATTTGACTTTTGTGTTGCGAATTTGATTTATGTGTTGCGATTTAC
Found at i:23993 original size:20 final size:20
Alignment explanation
Indices: 23809--23994 Score: 166
Period size: 20 Copynumber: 9.2 Consensus size: 20
23799 TTGAAATTCA
*
23809 GTTGCGAATTTGAAATTCA-GT
1 GTTGCGAATTTG-ACTT-ATGT
* *
23830 GTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTGACTTATGT
* *
23850 GTTGCTAATTTGATTTATGT
1 GTTGCGAATTTGACTTATGT
**
23870 GTTGCG-ATTT-ACAGATTCGT
1 GTTGCGAATTTGACTTA-T-GT
* * *
23890 GTTGCAAATTTGATTTTTGT
1 GTTGCGAATTTGACTTATGT
23910 GTTGCGAATTTGACTTCA-GT
1 GTTGCGAATTTGACTT-ATGT
*
23930 GTTGCGAATTTGAC-TATCGC
1 GTTGCGAATTTGACTTAT-GT
*
23950 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTATGT
*
23970 GTTGCGAATTTGACTTATGG
1 GTTGCGAATTTGACTTATGT
23990 GTTGC
1 GTTGC
23995 CATTTACAAA
Statistics
Matches: 133, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
18 3 0.02
19 6 0.05
20 105 0.79
21 18 0.14
22 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTGCGAATTTGACTTATGT
Found at i:24305 original size:24 final size:24
Alignment explanation
Indices: 24273--24343 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
24263 AGATTGAGCT
* *
24273 AAACATAAATGAATGCACATAAAC
1 AAACATAAATGAACGAACATAAAC
*
24297 AAACATAAATGAACAAACATAAAC
1 AAACATAAATGAACGAACATAAAC
* *
24321 GAAGATAAATGAACGAACATAAA
1 AAACATAAATGAACGAACATAAA
24344 TGAATATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (24 bp):
AAACATAAATGAACGAACATAAAC
Found at i:24311 original size:14 final size:14
Alignment explanation
Indices: 24294--24347 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
24284 AATGCACATA
24294 AACAAACATAAATG
1 AACAAACATAAATG
24308 AACAAACAT--A--
1 AACAAACATAAATG
* *
24318 AACGAAGATAAATG
1 AACAAACATAAATG
*
24332 AACGAACATAAATG
1 AACAAACATAAATG
24346 AA
1 AA
24348 TATATTACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 7 0.21
12 2 0.06
14 24 0.73
ACGTcount: A:0.63, C:0.13, G:0.11, T:0.13
Consensus pattern (14 bp):
AACAAACATAAATG
Found at i:24686 original size:27 final size:27
Alignment explanation
Indices: 24648--24712 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
24638 ATAATGGCTC
24648 TGAATCATTCAGAATGTACTTCTGTGT
1 TGAATCATTCAGAATGTACTTCTGTGT
24675 TGAATCATTCAGAATGTACTTCTGTGT
1 TGAATCATTCAGAATGTACTTCTGTGT
24702 TGAATCATTCA
1 TGAATCATTCA
24713 TCACTGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
TGAATCATTCAGAATGTACTTCTGTGT
Found at i:31452 original size:22 final size:22
Alignment explanation
Indices: 31424--31489 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
31414 AGTCGAGGGT
*
31424 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCCTTCGAGACATA
31446 TACATAGGTCCTTCGAGACATA
1 TACATAGGTCCTTCGAGACATA
*
31468 TACATAGGTCATTCGAGACATA
1 TACATAGGTCCTTCGAGACATA
31490 GTTCACATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (22 bp):
TACATAGGTCCTTCGAGACATA
Found at i:33661 original size:64 final size:63
Alignment explanation
Indices: 33566--33706 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
33556 CACATTCAAT
* *
33566 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTA
* * * * * *
33629 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
33693 GTGCATCGATGCAC
1 GTGCATCGATGCAC
33707 ATGTTAAAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 18 0.27
64 49 0.73
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
Found at i:33742 original size:20 final size:22
Alignment explanation
Indices: 33694--33751 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
33684 GCATGGGTAG
33694 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
*
33718 TGCATCGATGCACTG-T-AGCA
1 TGCATCGATGCACTGTTAAGAA
33738 TGCATCGATGCACT
1 TGCATCGATGCACT
33752 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:34740 original size:31 final size:31
Alignment explanation
Indices: 34702--34777 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
34692 AGAGTCGAGG
* * *
34702 GTTTACCTATG-TCTTTCGAGACATATGGATA
1 GTTTACCTAGGTTCTTT-GAGACATATGAACA
* *
34733 GTTTACCTAGGTTCTTTGGGACCTATGAACA
1 GTTTACCTAGGTTCTTTGAGACATATGAACA
34764 GTTTACCTAGGTTC
1 GTTTACCTAGGTTC
34778 GTCGGGACCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 34 0.87
32 5 0.13
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTTGAGACATATGAACA
Found at i:34785 original size:31 final size:31
Alignment explanation
Indices: 34732--34798 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
34722 ACATATGGAT
* *
34732 AGTTTACCTAGGTTCTTTGGGACCTATGAAC
1 AGTTTACCTAGGTTCGTCGGGACCTATGAAC
*
34763 AGTTTACCTAGGTTCGTCGGGACCTATGGAC
1 AGTTTACCTAGGTTCGTCGGGACCTATGAAC
34794 AGTTT
1 AGTTT
34799 TCGAGGTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (31 bp):
AGTTTACCTAGGTTCGTCGGGACCTATGAAC
Found at i:34839 original size:29 final size:30
Alignment explanation
Indices: 34783--34854 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
34773 GGTTCGTCGG
* * * *
34783 GACCTATGGACAGTTTTCGAGGTTCTTTAT
1 GACCTCTGGATAGTTATCGAGGGTCTTTAT
*
34813 GACCTCTGGATAGTTATCG-GGGTCTTTGT
1 GACCTCTGGATAGTTATCGAGGGTCTTTAT
34842 GACCTCTGGATAG
1 GACCTCTGGATAG
34855 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (30 bp):
GACCTCTGGATAGTTATCGAGGGTCTTTAT
Found at i:35160 original size:2 final size:2
Alignment explanation
Indices: 35153--35184 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35143 ACCTGACATG
35153 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
35185 GGTATATGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36978 original size:29 final size:29
Alignment explanation
Indices: 36945--37004 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
36935 TAATTAACCC
*
36945 TAAACCATATAGTTTATAGATAGTATA-TA
1 TAAACCACATAGTTTATAGATA-TATAGTA
* *
36974 TAAACTACATAGTTTATATATATATAGTA
1 TAAACCACATAGTTTATAGATATATAGTA
37003 TA
1 TA
37005 TATTGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (29 bp):
TAAACCACATAGTTTATAGATATATAGTA
Found at i:36993 original size:2 final size:2
Alignment explanation
Indices: 36988--37090 Score: 75
Period size: 2 Copynumber: 49.5 Consensus size: 2
36978 CTACATAGTT
* * *
36988 TA TA TA TA TA TA GTA TA TA T- TG TT TA TA TA TA GTT TA TA TA CTA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* * * *
37032 CTA TC TA TA AA CTA CA TA -A TT TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37075 TA TA TA TA GTA TA TA T
1 TA TA TA TA -TA TA TA T
37091 TGTTTAAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
1 2 0.02
2 69 0.84
3 11 0.13
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:37055 original size:65 final size:62
Alignment explanation
Indices: 36951--37090 Score: 190
Period size: 65 Copynumber: 2.2 Consensus size: 62
36941 ACCCTAAACC
* * * * *
36951 ATATAGTTTATAGATAGTATATATAAACTACATAGTTTATATATATATAGTATATATTGTTTAT
1 ATATAGTTTATATATACTATATATAAACTACATAATTTATATATATATA-TATATA-TATATAT
*
37015 ATATAGTTTATATACTACTATCTATAAACTACATAATTTATATATATATATATATATATATAT
1 ATATAGTTTATATA-TACTATATATAAACTACATAATTTATATATATATATATATATATATAT
*
37078 ATATAGTATATAT
1 ATATAGTTTATAT
37091 TGTTTAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
63 17 0.25
64 19 0.28
65 32 0.47
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (62 bp):
ATATAGTTTATATATACTATATATAAACTACATAATTTATATATATATATATATATATATAT
Found at i:37109 original size:83 final size:83
Alignment explanation
Indices: 36988--37143 Score: 294
Period size: 83 Copynumber: 1.9 Consensus size: 83
36978 CTACATAGTT
*
36988 TATATATATATAGTATATATTGTTTATATATAGTTTATATACTACTATCTATAAACTACATAATT
1 TATATATATATAGTATATATTGTTTAAATATAGTTTATATACTACTATCTATAAACTACATAATT
37053 TATATATATATATATATA
66 TATATATATATATATATA
*
37071 TATATATATATAGTATATATTGTTTAAATATAGTTTATATACTACTATCTATAAACTACATAGTT
1 TATATATATATAGTATATATTGTTTAAATATAGTTTATATACTACTATCTATAAACTACATAATT
37136 TATATATA
66 TATATATA
37144 ATTCCATAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (83 bp):
TATATATATATAGTATATATTGTTTAAATATAGTTTATATACTACTATCTATAAACTACATAATT
TATATATATATATATATA
Found at i:37210 original size:9 final size:11
Alignment explanation
Indices: 37198--37222 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37188 ATATATAAAC
37198 TATATAGTTTA
1 TATATAGTTTA
37209 TATATAGTTTA
1 TATATAGTTTA
37220 TAT
1 TAT
37223 TAATAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATAGTTTA
Found at i:37210 original size:20 final size:20
Alignment explanation
Indices: 37209--37481 Score: 103
Period size: 20 Copynumber: 13.8 Consensus size: 20
37199 ATATAGTTTA
37209 TATATAGTTTATATTAATAAAC
1 TATATAGTTTATA-T-ATAAAC
* * *
37231 TATATAATTTATACATAGTA-
1 TATATAGTTTATATATA-AAC
*
37251 TATATTA-TTTATA-ATTATAC
1 TATA-TAGTTTATATA-TAAAC
* * *
37271 -ATAATA-TATAAATATAAAT
1 TAT-ATAGTTTATATATAAAC
* *
37290 TGTATAGTTTATATATAATTC
1 TATATAGTTTATATATAA-AC
* *
37311 ATATATAATCTATATATAAAC
1 -TATATAGTTTATATATAAAC
37332 TATAT-GATTTATATTAATAAAC
1 TATATAG-TTTATA-T-ATAAAC
** **
37354 TACGTAGTTTATATAT-AGT
1 TATATAGTTTATATATAAAC
*
37373 TCA-ATAGTTCATATATAAAC
1 T-ATATAGTTTATATATAAAC
* ***
37393 TATATAGTTTATACACGGTA-
1 TATATAGTTTATATA-TAAAC
*
37413 TATATAGTTTATACATAATA-
1 TATATAGTTTATATATAA-AC
*
37433 TATATAGTTCATATAT-AA-
1 TATATAGTTTATATATAAAC
37451 TATATA----A-ATATAAAC
1 TATATAGTTTATATATAAAC
37466 TATATAGTTTATATAT
1 TATATAGTTTATATAT
37482 TATATTATAT
Statistics
Matches: 189, Mismatches: 36, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
13 4 0.02
14 3 0.02
15 6 0.03
18 7 0.04
19 33 0.17
20 86 0.46
21 7 0.04
22 42 0.22
23 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATAGTTTATATATAAAC
Found at i:37213 original size:33 final size:32
Alignment explanation
Indices: 37175--37504 Score: 148
Period size: 33 Copynumber: 9.9 Consensus size: 32
37165 ACCCTAAACC
37175 ATATATACTATATATATATAAACTATATAGTTT
1 ATATATA-TATATATATATAAACTATATAGTTT
* *
37208 ATATATAGTTTATAT-TAATAAACTATATAATTT
1 ATATATA-TATATATAT-ATAAACTATATAGTTT
* *
37241 ATACATAGTATATAT-TAT----T-TATA-ATT
1 ATATATA-TATATATATATAAACTATATAGTTT
* * * *
37267 ATACATAATATATAAATATAAATTGTATAGTTT
1 ATATAT-ATATATATATATAAACTATATAGTTT
* **
37300 ATATATA-AT-TCATATATAATCTATATA-TAA
1 ATATATATATAT-ATATATAAACTATATAGTTT
* **
37330 ACTATATGATTTATAT-TAATAAACTACGTAGTTT
1 A-TATAT-ATATATATAT-ATAAACTATATAGTTT
37364 ATATATAGTTCAATAGTTCATATATAAACTATATAGTTT
1 ATATATA--T--ATA--T-ATATATAAACTATATAGTTT
* *
37403 ATACACGGTATATATAGTTTATACATAATA-TATATAGTTC
1 AT--A---TATATATA---TATATATAA-ACTATATAGTTT
*
37443 ATATATAATATATAAATATAAACTATATAGTTT
1 ATATAT-ATATATATATATAAACTATATAGTTT
*
37476 ATATATTATATTATATATATATA-TATATA
1 ATATA-TATA-TATATATATAAACTATATA
37505 TATATTAATT
Statistics
Matches: 230, Mismatches: 32, Indels: 70
0.69 0.10 0.21
Matches are distributed among these distances:
26 14 0.06
27 8 0.03
28 1 0.00
30 3 0.01
31 20 0.09
32 12 0.05
33 96 0.42
34 15 0.07
35 3 0.01
36 7 0.03
38 2 0.01
39 18 0.08
40 22 0.10
41 4 0.02
42 1 0.00
44 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (32 bp):
ATATATATATATATATATAAACTATATAGTTT
Found at i:37329 original size:11 final size:11
Alignment explanation
Indices: 37299--37336 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
37289 TTGTATAGTT
37299 TATATATAAT-
1 TATATATAATC
37309 TCATATATAATC
1 T-ATATATAATC
*
37321 TATATATAAAC
1 TATATATAATC
37332 TATAT
1 TATAT
37337 GATTTATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (11 bp):
TATATATAATC
Found at i:37416 original size:2 final size:2
Alignment explanation
Indices: 37411--37509 Score: 73
Period size: 2 Copynumber: 49.5 Consensus size: 2
37401 TTATACACGG
* *
37411 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA GT- TCA TA TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA
* * *
37451 TA TA TA AA TA TA AA CTA TA TA GTT TA TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
37493 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
37510 TAATTATAGT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
1 5 0.06
2 67 0.87
3 5 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:37659 original size:14 final size:13
Alignment explanation
Indices: 37626--37659 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
37616 TGTTGTTTAA
37626 TTTATTT-AAATT
1 TTTATTTGAAATT
37638 TTTATTTGAAATT
1 TTTATTTGAAATT
37651 TTATATTTG
1 TT-TATTTG
37660 TTCAATTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 7 0.35
14 6 0.30
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTATTTGAAATT
Found at i:56697 original size:21 final size:22
Alignment explanation
Indices: 56672--56723 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
56662 ACACTTTACA
*
56672 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
56695 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
56718 ATATAA
1 ATATAA
56724 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:56708 original size:23 final size:23
Alignment explanation
Indices: 56682--56744 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
56672 ATATAACCAC
56682 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
56705 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
56728 TACCTATTACATCATAT
1 TACCTATTACATTATAT
56745 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:57202 original size:39 final size:39
Alignment explanation
Indices: 57148--57234 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
57138 TCAAGTTGTA
*
57148 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
57187 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
57226 GATTTTGAT
1 GATTTTGAT
57235 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:57516 original size:18 final size:18
Alignment explanation
Indices: 57493--57529 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57483 CGAAATATAT
57493 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
57511 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
57529 A
1 A
57530 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:57806 original size:25 final size:25
Alignment explanation
Indices: 57778--57828 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
57768 TTAATCCAAA
*
57778 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
57803 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
57828 T
1 T
57829 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:58158 original size:23 final size:23
Alignment explanation
Indices: 58095--58167 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
58085 ACACTTTACA
* *
58095 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
58118 ATATAAACGATACATATTACATT
1 ATATAAACGCTACCTATTACATT
** *
58141 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
58164 ATAT
1 ATAT
58168 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:58550 original size:21 final size:20
Alignment explanation
Indices: 58533--58590 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
58523 CAATATAACC
58533 ACTACCTATTACATTATATAA
1 ACTACCTATTACATTATA-AA
* *
58554 ACGATATCTATTACATTATAAGG
1 AC--TACCTATTACATTATAA-A
*
58577 GCTACCTATTACAT
1 ACTACCTATTACAT
58591 CATATGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 13 0.43
22 1 0.03
23 16 0.53
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (20 bp):
ACTACCTATTACATTATAAA
Found at i:61479 original size:184 final size:184
Alignment explanation
Indices: 61170--61512 Score: 587
Period size: 184 Copynumber: 1.9 Consensus size: 184
61160 TCAAATTACT
* *
61170 GACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAATA
1 GACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAATA
* *
61235 TTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
61300 TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTC
131 TATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTC
*
61354 GACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATA
1 GACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAATA
*
61419 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
* * **
61484 TATTGCAAATTTACCTATTTTATTATAAT
131 TATTACAAAATTACCTATTACATTATAAT
61513 ATGTTGAAAG
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 148 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (184 bp):
GACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTC
Found at i:62990 original size:3 final size:3
Alignment explanation
Indices: 62982--63074 Score: 87
Period size: 3 Copynumber: 31.0 Consensus size: 3
62972 ACTTGTTTGG
* * * *
62982 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC ATC GTC GTC ATC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
** * * * * *
63030 ATC GCC AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
63075 GTCAGCTTCA
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:62999 original size:12 final size:12
Alignment explanation
Indices: 62982--63089 Score: 99
Period size: 12 Copynumber: 9.0 Consensus size: 12
62972 ACTTGTTTGG
62982 ATCATCATCTTC
1 ATCATCATCTTC
*
62994 ATCATCATCATC
1 ATCATCATCTTC
*
63006 ATCATCATCGTC
1 ATCATCATCTTC
*
63018 GTCATCATCTTC
1 ATCATCATCTTC
** *
63030 ATCGCCAGCTTC
1 ATCATCATCTTC
* *
63042 ATCGTCATCATC
1 ATCATCATCTTC
*
63054 ATCATCATCGTC
1 ATCATCATCTTC
* *
63066 ATCTTCATCGTC
1 ATCATCATCTTC
* *
63078 AGCTTCATCTTC
1 ATCATCATCTTC
63090 TGCGACCGCT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 80 1.00
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.36
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:63005 original size:18 final size:18
Alignment explanation
Indices: 62982--63086 Score: 102
Period size: 18 Copynumber: 5.8 Consensus size: 18
62972 ACTTGTTTGG
62982 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
63000 ATCATCATCATCATCGTC
1 ATCATCATCTTCATCATC
* **
63018 GTCATCATCTTCATCGCC
1 ATCATCATCTTCATCATC
* * *
63036 AGCTTCATCGTCATCATC
1 ATCATCATCTTCATCATC
* *
63054 ATCATCATCGTCATCTTC
1 ATCATCATCTTCATCATC
* *
63072 ATCGTCAGCTTCATC
1 ATCATCATCTTCATC
63087 TTCTGCGACC
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.23, C:0.34, G:0.08, T:0.35
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:65058 original size:198 final size:198
Alignment explanation
Indices: 64544--66479 Score: 2923
Period size: 198 Copynumber: 9.9 Consensus size: 198
64534 TTTAAATTAG
64544 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
64609 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
64673 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
64738 AAA
196 AAA
64741 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
64806 ATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
64871 CGACACTTTTTATATATGGATCGACAC-TTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
64935 AAA
196 AAA
*
64938 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
65003 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* **
65068 TCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AA
65132 AAAAA
194 AAAAA
65137 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65202 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65267 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
65332 AAA
196 AAA
* *
65335 TATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
65400 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGA-TTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* **
65464 TCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
65528 AAAA
195 AAAA
*
65532 AATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65597 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
65662 CGACACTTTTTATATATGGATCGACACTTTATGAGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
65727 AAA
196 AAA
* *
65730 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTTTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
65795 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* **
65860 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AA
65925 AAAAA
194 AAAAA
65930 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65995 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * * *
66060 CGACAC----T-T-TATGGGT-G-CAC-CT-T--GT------T-TTTAATTCATTC--T-GGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTT--TCCATTCATTCTGGAA
66103 AAAATA
194 AAAA-A
* * * ** * *
66109 TCGA-C-ACA-AACTA-TATTAGT-GTCGAC-ACATTATT-TAGACATAT-TCTCTCAT-A-AAA
1 T--ATCGACACAA--ACTA-TATTAGT-GTCGACA-CATTATTTAGACATAT-TCTC-TCATAAA
* * * * ** * * * * **
66164 CCGGTATA-ATTGT-ACCGGTTAGA-TTGA-AAAATTACATATTACATTATACTTTTGGGTTCGA
57 ACCG-GTATAAT-TGTACCGGT-TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
*
66225 TGATTTTGGGATCGACAC-TTTTATATATGGATCGACGCTTTATGGGTGCACCCTGTTTTCCATT
119 TGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATT
66289 CATTCTGGAAAAAAA
184 CATTCTGGAAAAAAA
*
66304 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
66369 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
66434 TTGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
66480 GGCCATATTG
Statistics
Matches: 1584, Mismatches: 93, Indels: 123
0.88 0.05 0.07
Matches are distributed among these distances:
177 52 0.03
178 20 0.01
179 27 0.02
180 16 0.01
181 3 0.00
182 12 0.01
183 1 0.00
184 2 0.00
185 1 0.00
186 1 0.00
187 2 0.00
188 2 0.00
189 1 0.00
190 1 0.00
191 3 0.00
192 1 0.00
193 13 0.01
194 13 0.01
195 30 0.02
196 29 0.02
197 459 0.29
198 500 0.32
199 278 0.18
200 117 0.07
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:65675 original size:594 final size:592
Alignment explanation
Indices: 64544--66479 Score: 3398
Period size: 594 Copynumber: 3.3 Consensus size: 592
64534 TTTAAATTAG
*
64544 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
64609 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGA
* *
64672 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
64737 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
64802 TATAATTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTG
* **
64867 GGATCGACACTTTTTATATATGGATCGACAC-TTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
*
64931 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAAC
389 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
*
64996 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGAT
454 CGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGAT
* **
65061 TTTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTC
518 TTTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTC
65126 TGGAAAAAAAA
583 TGG-AAAAAAA
*
65137 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
65202 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGA
65266 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
* *
65331 AAAATATCGACACAAACTATATTAGTGTCGATACATTATTTAGACATATCCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
65396 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTG
65461 GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
325 GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
*
65526 AAAAAAAATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
390 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
65591 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
455 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
*
65656 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGAGTGCACCCTGTTTTCCATTCATTCT
520 TGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT
65721 GGAAAAAAA
584 GGAAAAAAA
*
65730 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTTTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
*
65795 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGA
* **
65860 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AA
65925 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
65990 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT-
260 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTG
66054 ---T-G--------------GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
325 GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
66101 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
390 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
66166 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
455 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
*
66231 TGGGATCGACACTTTTATATATGGATCGACGCTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
520 TGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
66296 GAAAAAAA
585 GAAAAAAA
66304 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
* *
66369 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGA
*
66434 TTGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
66480 GGCCATATTG
Statistics
Matches: 1305, Mismatches: 32, Indels: 32
0.95 0.02 0.02
Matches are distributed among these distances:
573 33 0.03
574 198 0.15
575 186 0.14
589 1 0.00
590 1 0.00
593 243 0.19
594 518 0.40
595 125 0.10
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (592 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTTCGATGATTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGG
GATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAA
AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
GGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AAAAAAA
Found at i:66175 original size:177 final size:178
Alignment explanation
Indices: 65878--66443 Score: 807
Period size: 177 Copynumber: 3.1 Consensus size: 178
65868 TTTTATATAT
65878 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAAC
65943 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
66008 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
66056 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-AAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAAC
66120 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
66185 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* * **
66233 GGATCGACACTTTTATATATGGAT-CGACGCTTTATGGGTGCACCCTGTTT--TCCATTCATTCT
1 GGATCGACAC---T-T-TATGGGTGC-AC-C--T-T--GT------T-TTTAATTCATTC--TGG
** *
66295 GGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAA
45 AAAAAAA-ATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
*
66360 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG
109 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATG
*
66425 TTTTTG
173 ATTTTG
*
66431 GGATTGACACTTT
1 GGATCGACACTTT
66444 TTTATATGGA
Statistics
Matches: 355, Mismatches: 9, Indels: 33
0.89 0.02 0.08
Matches are distributed among these distances:
177 143 0.40
178 44 0.12
180 1 0.00
181 2 0.01
182 8 0.02
183 1 0.00
185 1 0.00
186 1 0.00
188 2 0.01
193 7 0.02
194 2 0.01
195 5 0.01
196 5 0.01
197 112 0.32
198 21 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (178 bp):
GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAATATCGACACAAAC
TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
Found at i:66644 original size:19 final size:19
Alignment explanation
Indices: 66598--66646 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
66588 TTATATTCAC
*
66598 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
66617 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
66636 ATACAAAATTA
1 ATACAAAATTA
66647 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:70758 original size:17 final size:18
Alignment explanation
Indices: 70736--70776 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
70726 ATATATCCGG
*
70736 TATCATTTT-ACCGGTTT
1 TATCATTTTGACAGGTTT
*
70753 TATCATTTTGATAGGTTT
1 TATCATTTTGACAGGTTT
70771 TATCAT
1 TATCAT
70777 ATTTTTACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (18 bp):
TATCATTTTGACAGGTTT
Done.