Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007341.1 Hibiscus syriacus cultivar Beakdansim tig00019669_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: 99154
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:232 original size:23 final size:22
Alignment explanation
Indices: 182--271 Score: 73
Period size: 23 Copynumber: 4.2 Consensus size: 22
172 CAATGGGTGT
*
182 ATCGATGCACAGT-AAG--TGC
1 ATCGATGCACATTCAAGAATGC
201 ATCGATGCACATTCAAGGAATGC
1 ATCGATGCACATTCAA-GAATGC
* * * *
224 ATCGGTGCATC-TTTATG-ATGT
1 ATCGATGCA-CATTCAAGAATGC
245 ATCGATGCACATTCAAGAGATGC
1 ATCGATGCACATTCAAGA-ATGC
268 ATCG
1 ATCG
272 GTACACTATC
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
19 12 0.22
20 3 0.06
21 16 0.30
22 1 0.02
23 21 0.39
24 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
ATCGATGCACATTCAAGAATGC
Found at i:5952 original size:65 final size:65
Alignment explanation
Indices: 5862--6015 Score: 204
Period size: 65 Copynumber: 2.4 Consensus size: 65
5852 TACACTAGGG
* * * * *
5862 GTGCATCGGTACACTAATTACATTTGATGTTTTAAACA-AGCCAGGAGTGCATCGATGCATGG-T
1 GTGCATCGGTACACAAAATGCATTTGATGTTTCAAA-ATAGCCAAGAGTGCATCGATGCATGGCT
5925 CT
65 -T
* **
5927 GTGCATCGGTAAACAAAATGCATTTGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGGTACACAAAATGCATTTGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCTT
5992 GTGCATCGGTACACAAAATGCATT
1 GTGCATCGGTACACAAAATGCATT
6016 CGAAAGGGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 1 0.01
65 76 0.97
66 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (65 bp):
GTGCATCGGTACACAAAATGCATTTGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCTT
Found at i:7014 original size:22 final size:22
Alignment explanation
Indices: 6986--7031 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6976 TAAAAATATT
*
6986 AATGGGTACCGATACCCCTATG
1 AATGGGTACCAATACCCCTATG
*
7008 AATGGGTATCAATACCCCTATG
1 AATGGGTACCAATACCCCTATG
7030 AA
1 AA
7032 GGCTCAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (22 bp):
AATGGGTACCAATACCCCTATG
Found at i:8499 original size:21 final size:19
Alignment explanation
Indices: 8457--8504 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
8447 AATGGGTACG
*
8457 ATTGGTAT-CTTTTTAACA
1 ATTGGTATCCTTTGTAACA
8475 ATTGGTATCCATTTGTAATCA
1 ATTGGTATCC-TTTGTAA-CA
8496 ATTGGTATC
1 ATTGGTATC
8505 TTTTTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 6 0.23
21 11 0.42
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (19 bp):
ATTGGTATCCTTTGTAACA
Found at i:9036 original size:20 final size:20
Alignment explanation
Indices: 9001--9054 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
8991 CAGAAAAATA
*
9001 ATCCCCAAATGGCTCCAAAAC
1 ATCCCC-AACGGCTCCAAAAC
9022 ATCCCCAACGGCTCCAAAAC
1 ATCCCCAACGGCTCCAAAAC
9042 ATCCCCAACGGCT
1 ATCCCCAACGGCT
9055 ATATACGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.33, C:0.43, G:0.11, T:0.13
Consensus pattern (20 bp):
ATCCCCAACGGCTCCAAAAC
Found at i:15121 original size:16 final size:16
Alignment explanation
Indices: 15100--15148 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
15090 TCTTGTATGA
15100 TACCTTTGACCACCAC
1 TACCTTTGACCACCAC
15116 TACCTTTGACCACCAC
1 TACCTTTGACCACCAC
15132 TACCTTTGACCACCAC
1 TACCTTTGACCACCAC
15148 T
1 T
15149 GTAAGCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.24, C:0.43, G:0.06, T:0.27
Consensus pattern (16 bp):
TACCTTTGACCACCAC
Found at i:15542 original size:470 final size:466
Alignment explanation
Indices: 14666--15563 Score: 1386
Period size: 470 Copynumber: 1.9 Consensus size: 466
14656 CATTTTATGA
* *
14666 TACCTTTGACTACCCCTGTAAGCATTTTCCCCAATAATAATACCAACAAAACCTTTATCCTTACT
1 TACCTTTGACCACCACTGTAAGCATTTTCCCCAATAATAATACCAACAAAACCTTTATCCTTACT
* * * **
14731 AATAAGACTCGTATGCACAACCATCACTGGCATTAAGGAGCCCCGCCATCATATTATTTCTATTT
66 AATAAGACTCGTATGCACAACCATCACTGGCATTAAGGAACCCCGCCAACATACTACCTCTATTT
* *
14796 TTGATACTCGAATGTATGAAATGCCCAATTCTATAATAACCTAGGAAGGACAAATTGAGCATCTT
131 TTGATACTCGAATGTATGAAATACCCAATTCTATAATAACCTAGGAAGGACAAATTGAGCATATT
* * *
14861 GGAAATGAAAGTATGGCACACGGAAGGCGGAGAGTCTTGCACAAGAGCATTCATTTCATATGAGC
196 GGAAATGAAAGCATGGCAAACGGAAGGCGGAGAGTATTGCACAAGAGCATTCATTTCATATGAGC
* *
14926 TTGACGTCTCCGTCTCAGTCCCTCGTATGGATAACTACAGGCGTGCACAACCTTCAATCAAGGTA
261 TTGACGTCTCCATCTCAGACCCTCGTATGGATAACTACAGGCGTGCACAACCTTCAATCAAGGTA
* * *
14991 ATTTTAGTCCTTATATAAAGGCTGCCAATACCAGGAAGATCAACCTATTTGAGGAGATAATAATT
326 ATTTTAGTCCTTATATAAAGGCTGCCAACACAAGGAACATCAACCTATTTGAGGAGATAATAATT
*
15056 AGTGTCGATTTCACAATTATCACACAGGATTGGATCTTGTATGATACCTTTGACCACCACTACCT
391 AGTGTCGATTTCACAATTATCACACAAGATTGGATCTTGTATGATACCTTTGACCACCACTACCT
15121 TTGACCACCAC
456 TTGACCACCAC
*
15132 TACCTTTGACCACCACTGTAAGCATTTTCCCCAACT-ATAATACCAACAAAATCTTTATCCTTAC
1 TACCTTTGACCACCACTGTAAGCATTTTCCCCAA-TAATAATACCAACAAAACCTTTATCCTTAC
* * *
15196 TAATAAGACTCGTATGCACAACCATCAACCATTGGCATTGAGGAACCCCTCCAACATACTGCCTC
65 TAATAAGACTCGTATGCACAACCATC-A-C--TGGCATTAAGGAACCCCGCCAACATACTACCTC
* * *
15261 TGTTTTTGATACTCGAATGTATGAAATACCCAATTCTATGATAACCTATGAAGGACAAATTGAGC
126 TATTTTTGATACTCGAATGTATGAAATACCCAATTCTATAATAACCTAGGAAGGACAAATTGAGC
* *
15326 ATATTGGAAATGAAAGCATGGCAAACGGAAGGGGGAGAGTATTGCGCAAGAGCATTCATTTCATA
191 ATATTGGAAATGAAAGCATGGCAAACGGAAGGCGGAGAGTATTGCACAAGAGCATTCATTTCATA
* * *
15391 TGAGCTTGACGTGTCCATCTCAGACCCTCGTATGGATAACTGC-GAGTGTGCACAACCTTCAATC
256 TGAGCTTGACGTCTCCATCTCAGACCCTCGTATGGATAACTACAG-GCGTGCACAACCTTCAATC
* * * * * * *
15455 GATGTAATTTTAGTCCTTATATAAAGGGTGCCAACATAAGGAACATCAATCTATTTTAGGGGATA
320 AAGGTAATTTTAGTCCTTATATAAAGGCTGCCAACACAAGGAACATCAACCTATTTGAGGAGATA
*
15520 ATAATTAGTGTCGATTTCACAATTATCACACAAGTTTGGATCTT
385 ATAATTAGTGTCGATTTCACAATTATCACACAAGATTGGATCTT
15564 CCATAAATCA
Statistics
Matches: 388, Mismatches: 38, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
466 85 0.22
467 2 0.01
468 1 0.00
469 1 0.00
470 299 0.77
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (466 bp):
TACCTTTGACCACCACTGTAAGCATTTTCCCCAATAATAATACCAACAAAACCTTTATCCTTACT
AATAAGACTCGTATGCACAACCATCACTGGCATTAAGGAACCCCGCCAACATACTACCTCTATTT
TTGATACTCGAATGTATGAAATACCCAATTCTATAATAACCTAGGAAGGACAAATTGAGCATATT
GGAAATGAAAGCATGGCAAACGGAAGGCGGAGAGTATTGCACAAGAGCATTCATTTCATATGAGC
TTGACGTCTCCATCTCAGACCCTCGTATGGATAACTACAGGCGTGCACAACCTTCAATCAAGGTA
ATTTTAGTCCTTATATAAAGGCTGCCAACACAAGGAACATCAACCTATTTGAGGAGATAATAATT
AGTGTCGATTTCACAATTATCACACAAGATTGGATCTTGTATGATACCTTTGACCACCACTACCT
TTGACCACCAC
Found at i:20138 original size:16 final size:15
Alignment explanation
Indices: 20097--20139 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
20087 CCTCTATTTG
20097 TAATAATAATA-A-A
1 TAATAATAATATATA
20110 TAATAATTAATATATA
1 TAATAA-TAATATATA
20126 TAATAAT-ATATATA
1 TAATAATAATATATA
20140 CTAACATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.22
14 12 0.44
15 2 0.07
16 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAATAATATATA
Found at i:20833 original size:20 final size:20
Alignment explanation
Indices: 20751--20833 Score: 103
Period size: 20 Copynumber: 4.2 Consensus size: 20
20741 AGACTGACAG
* * *
20751 ATGACCCAAAGGATTCACAA
1 ATGACCCGAAGGCTTTACAA
* * *
20771 ATTACCTGAAGGTTTTACAA
1 ATGACCCGAAGGCTTTACAA
*
20791 ATAACCCGAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
20811 ATGACCCGAAGGCTTTACAA
1 ATGACCCGAAGGCTTTACAA
20831 ATG
1 ATG
20834 TGATAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.23
Consensus pattern (20 bp):
ATGACCCGAAGGCTTTACAA
Found at i:21278 original size:249 final size:249
Alignment explanation
Indices: 20805--21429 Score: 979
Period size: 249 Copynumber: 2.5 Consensus size: 249
20795 CCCGAAGGCT
* * * * * *
20805 TTACAAATGACCCGAAGGCTTTACAAA-T-GTGATAAATAATTTACTGAGTAAGAGACTTATTAT
1 TTACAGATGACCCGAAGGATTTACAAATTCGTGATAAATAATTTACTGGGTAAGAAACTTCTTAC
* *
20868 TTTTCAAAAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCGATCTCATTTTCA
66 TTTTCAAAAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCA
20933 TGCGAAAATCATATGTAAACATCCTACCCAAAGGTTTGACGGATAGCCCTAAGGACTTATCATCT
131 TGCGAAAATCATATGTAAACATCCTACCCAAAGGTTTGACGGATAGCCCTAAGGACTTATCATCT
20998 AGCTCAAAAGACTGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGAC
196 AGCTCAAAAGACTGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGAC
* * *
21052 TTACAGATTACCCGAAGGATTTACAAATTCATGATATATAATTTACTGGGTAAGAAACTTCTTAC
1 TTACAGATGACCCGAAGGATTTACAAATTCGTGATAAATAATTTACTGGGTAAGAAACTTCTTAC
21117 TTTTCAAAAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCA
66 TTTTCAAAAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCA
* *
21182 TGCGAAAATCATATGTAAACATCCTACCCAAAGGTTTGACGGATGGCCGTAAGGACTTATCATCT
131 TGCGAAAATCATATGTAAACATCCTACCCAAAGGTTTGACGGATAGCCCTAAGGACTTATCATCT
* * *
21247 GGCTCGAAAGACTGACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
196 AGCTCAAAAGACTGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGAC
* **
21301 TAACAGATGACCCGAAGGATTTACAAATTCGTGGGAAATAATTTACTGGGTAAGAAACTTCTTAC
1 TTACAGATGACCCGAAGGATTTACAAATTCGTGATAAATAATTTACTGGGTAAGAAACTTCTTAC
* * * * *
21366 TTTTCAAAAATTT-ATTTTTTGGAAAAGATTGAATGAGAAA-TGTTGAAAATCACTTTCTCATTT
66 TTTTCAAAAATTTGATTTTCT--AGAACATTAAATGAGAAACT-TTGAAAATCACTATCTCATTT
21429 T
128 T
21430 TCGAGAAACT
Statistics
Matches: 346, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
247 24 0.07
248 7 0.02
249 279 0.81
250 36 0.10
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (249 bp):
TTACAGATGACCCGAAGGATTTACAAATTCGTGATAAATAATTTACTGGGTAAGAAACTTCTTAC
TTTTCAAAAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCA
TGCGAAAATCATATGTAAACATCCTACCCAAAGGTTTGACGGATAGCCCTAAGGACTTATCATCT
AGCTCAAAAGACTGACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGAC
Found at i:22814 original size:40 final size:42
Alignment explanation
Indices: 22769--22847 Score: 126
Period size: 40 Copynumber: 1.9 Consensus size: 42
22759 TCCCACATGG
*
22769 ATTTCTGACTGAGATGGGCTTT-A-CATACCCCAACATTATT
1 ATTTCTGACTGAAATGGGCTTTCATCATACCCCAACATTATT
*
22809 ATTTCTGACTGAAATGGGCTTTCATCATGCCCCAACATT
1 ATTTCTGACTGAAATGGGCTTTCATCATACCCCAACATT
22848 CCAAGTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 21 0.60
41 1 0.03
42 13 0.37
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (42 bp):
ATTTCTGACTGAAATGGGCTTTCATCATACCCCAACATTATT
Found at i:35654 original size:99 final size:99
Alignment explanation
Indices: 35534--35732 Score: 380
Period size: 99 Copynumber: 2.0 Consensus size: 99
35524 ATGAGCAATG
*
35534 TTATGATTGTCACATAATAATCCAAGACATATGCTCATGGTCGGTCAATCCAATACATTTTTCTC
1 TTATGACTGTCACATAATAATCCAAGACATATGCTCATGGTCGGTCAATCCAATACATTTTTCTC
35599 TAACAATATAATCATCTATCAATTATGACATCTC
66 TAACAATATAATCATCTATCAATTATGACATCTC
35633 TTATGACTGTCACATAATAATCCAAGACATATGCTCATGGTCGGTCAATCCAATACATTTTTCTC
1 TTATGACTGTCACATAATAATCCAAGACATATGCTCATGGTCGGTCAATCCAATACATTTTTCTC
*
35698 TAACAATATAATCATCTATCAATTCTGACATCTC
66 TAACAATATAATCATCTATCAATTATGACATCTC
35732 T
1 T
35733 ATGTCAATGA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (99 bp):
TTATGACTGTCACATAATAATCCAAGACATATGCTCATGGTCGGTCAATCCAATACATTTTTCTC
TAACAATATAATCATCTATCAATTATGACATCTC
Found at i:36292 original size:56 final size:57
Alignment explanation
Indices: 36182--36297 Score: 198
Period size: 56 Copynumber: 2.1 Consensus size: 57
36172 CAAATGTTAG
* * *
36182 TAAAATAATTAAAATTAAATTAAAACAAATTTATTATTTACTGCAAAGATAAATAAT
1 TAAAATAATTAAAATAAAATTAAAACAAATTTATTATATACTGCAAAGACAAATAAT
36239 TAAAATAATTAAAATAAAATTAAAA-AAATTTATTATATACTGCAAAGACAAATAAT
1 TAAAATAATTAAAATAAAATTAAAACAAATTTATTATATACTGCAAAGACAAATAAT
36295 TAA
1 TAA
36298 TAAATTGGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 32 0.57
57 24 0.43
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (57 bp):
TAAAATAATTAAAATAAAATTAAAACAAATTTATTATATACTGCAAAGACAAATAAT
Found at i:38254 original size:10 final size:10
Alignment explanation
Indices: 38239--38287 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
38229 TCCATTTGTA
38239 ATAATAATAT
1 ATAATAATAT
38249 ATAAT-A-AT
1 ATAATAATAT
38257 -TAAT-ATAT
1 ATAATAATAT
*
38265 AAAATAATAT
1 ATAATAATAT
*
38275 ATATTAATAT
1 ATAATAATAT
38285 ATA
1 ATA
38288 TACTAACATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 5 0.15
8 4 0.12
9 4 0.12
10 20 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATAATAT
Found at i:38262 original size:14 final size:13
Alignment explanation
Indices: 38237--38289 Score: 74
Period size: 12 Copynumber: 4.2 Consensus size: 13
38227 CCTCCATTTG
38237 TAATAATAATATA
1 TAATAATAATATA
38250 TAATAATTAATATA
1 TAATAA-TAATATA
38264 TAA-AATAATATA
1 TAATAATAATATA
*
38276 TATTAAT-ATATA
1 TAATAATAATATA
38288 TA
1 TA
38290 CTAACATAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
12 16 0.43
13 11 0.30
14 10 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:38270 original size:26 final size:24
Alignment explanation
Indices: 38241--38289 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
38231 CATTTGTAAT
38241 AATAATATATAATAATTAATATATAA
1 AATAATATATAATAA-T-ATATATAA
*
38267 AATAATATATATTAATATATATA
1 AATAATATATAATAATATATATA
38290 CTAACATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 1 0.05
26 14 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AATAATATATAATAATATATATAA
Found at i:48468 original size:81 final size:80
Alignment explanation
Indices: 48242--49224 Score: 1363
Period size: 81 Copynumber: 12.1 Consensus size: 80
48232 ATTCCTTTAG
* * * * *
48242 TCTTTAACTCAACGGTATTTAACTGTTCATTTAACTGGCATAATTAACACCTTTCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
48307 ACATCTAGGCTATTAA
65 ACAACTAGGCCATTAA
*
48323 TATTTTACTCAACGGTATTTAAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATG
1 TCTTTTACTCAACGGTATTT-AACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATG
* *
48388 CACAGCTAGGGCATTAA
64 CACAACTAGGCCATTAA
48405 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACATCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
48470 AAAACTAGGCCATTAG
65 ACAACTAGGCCATTAA
* * * * *
48486 CCTTTTACTCAACGGTATTTAATCGTTCATCTAACTTGAATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
* *
48551 ACAATTAGGTCATTAA
65 ACAACTAGGCCATTAA
*
48567 TCTTTTACTCAACTGTATTTAAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATG
1 TCTTTTACTCAACGGTATTT-AACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATG
* *
48632 CACAGCTAGGGCATTAA
64 CACAACTAGGCCATTAA
48649 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACATCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
48714 AAAACTAGGCCATTAG
65 ACAACTAGGCCATTAA
* * * * *
48730 CCTTTTACTCAACGGTATTTAATCGTTCATATAACTTGCATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
*
48795 ACAATTAGGCCATTAA
65 ACAACTAGGCCATTAA
* *
48811 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTTCTAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
* *
48876 ACAGCTAGGTCATTAA
65 ACAACTAGGCCATTAA
*
48892 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACATCTTTCTTCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
*
48957 ACAGCTAGGCCATTAA
65 ACAACTAGGCCATTAA
* *
48973 TATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
**
49038 ACAACTATACCATTAA
65 ACAACTAGGCCATTAA
* * * * *
49054 TCTTTTAATCAACGATATTTAACCATTCATCTAACTGGCATAATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
49119 ACAACTAGGCCATTAA
65 ACAACTAGGCCATTAA
** * * * *
49135 TCTTTTACTCAACGGTATTTAATAGTTCATTTAACTGGCATAATTGACACCATTATGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
49200 ATAGCTAGGCCATTAA
65 ACAACTAGGCCATTAA
49216 TCTTTTACT
1 TCTTTTACT
49225 TTAGAATTAT
Statistics
Matches: 814, Mismatches: 80, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.00
81 666 0.82
82 146 0.18
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (80 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTCTGCCAAATGCA
CAACTAGGCCATTAA
Found at i:55039 original size:29 final size:29
Alignment explanation
Indices: 54997--55061 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
54987 AAACATTATC
54997 GGGAATGACATTCCCGGCCAACCAAACGA
1 GGGAATGACATTCCCGGCCAACCAAACGA
55026 GGGAATGACATTCCCGGCCAACCAAACGA
1 GGGAATGACATTCCCGGCCAACCAAACGA
*
55055 GAGAATG
1 GGGAATG
55062 TGAATTCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.35, C:0.28, G:0.26, T:0.11
Consensus pattern (29 bp):
GGGAATGACATTCCCGGCCAACCAAACGA
Found at i:59471 original size:55 final size:55
Alignment explanation
Indices: 59378--60258 Score: 1291
Period size: 55 Copynumber: 16.1 Consensus size: 55
59368 ATGTATGGTG
* * * * *
59378 ATTTCTGTATGGGCACTGTGTGTTCAAACCTTATAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*
59433 ATTTCCGTATGGGCACTGTGTGTG-AAAACTTAAGAAATTCATTATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAAC-TAAGAAATTCATAATAAGTTTATGA
* * *
59488 ATTTCTGTATGGGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGC
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*
59543 ATTTTCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
59598 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * *
59653 ATTTCCGTATGGGCACTGTGTGTACAAAATTAAAAAATTCATAATTAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*
59708 ATTTCCGTATGGGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * *
59763 ATTTCTGTATGCGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGC
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * * *
59818 ATTTCTGTATGGGAAATATGTGTGCAGAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
** *
59873 ATTTCCGTATGGGCAGAGTGTGTGCAAAACTAAGAAATTCATAATATGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * *
59928 ATTTCCGTATGGGAACTGTGTATGAAAAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * * *
59983 ATTTCCGTTTGGGCACTGTGTATACAAAACTAATAAATTCATAATAAGTTTTTGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
** *
60038 ATTTCCGTATGGGCACTGTGTG-AAAAAATTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* *
60092 ATTACCGTATGGGCACTGTGTGTGCAAAACTAAGATATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*
60147 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGCTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * ** * * *
60202 ATTTCCGTATTGGCACTGTATGCGCAACCCCACGTAATTCATAATAAG-TTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
60256 ATT
1 ATT
60259 ACCTCATTGA
Statistics
Matches: 750, Mismatches: 73, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
54 62 0.08
55 683 0.91
56 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (55 bp):
ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
Found at i:60535 original size:47 final size:49
Alignment explanation
Indices: 60461--60598 Score: 172
Period size: 47 Copynumber: 2.9 Consensus size: 49
60451 ATGCATTTAT
* *
60461 GTGCATTTTTGGCAGAAAAGTGCCATTAATGCAAGTTAGATG-CTAACT
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACG
* * * * *
60509 GTG-TTTTTTGGCAGATAGGTGACATTAGTGCAACTTAGATGTCTAACG
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACG
* * *
60557 GTGCACTTTTGGCAGAAAGGTGCCATTAATACAGGTTAGATG
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATG
60599 AGGAACAATG
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
47 32 0.44
48 11 0.15
49 30 0.41
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (49 bp):
GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACG
Found at i:67608 original size:19 final size:21
Alignment explanation
Indices: 67584--67627 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
67574 ATGGTTTCGA
67584 TACCATA-ATAG-AGTATCGG
1 TACCATAGATAGAAGTATCGG
67603 TACCATAGTATAGAAGTATCGG
1 TACCATAG-ATAGAAGTATCGG
67625 TAC
1 TAC
67628 TAAGAGACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (21 bp):
TACCATAGATAGAAGTATCGG
Found at i:68138 original size:55 final size:55
Alignment explanation
Indices: 68054--69299 Score: 1115
Period size: 55 Copynumber: 22.4 Consensus size: 55
68044 GATGATTTTA
68054 GTATGGGCACTGTGTGTG-ACAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCA-AAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * *
68109 GTATGGGCAATGTGTGTGCAAAACAAAGAAATTCATAGTAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* *
68164 GTATGGGCACTGTGTGTGCAAAACTAAGGAATTCATAGTAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * *
68219 GTATTGGCACTGTATATGAAAAACTAAGAAATTCATAATATGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * * *
68274 GTATGGGTATTGTGTGTGGAAGACTAAGAAATTCATAATAAGTTTATCAATTTCT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * *
68329 TTATTGGCACTATATGTGCAAAACTAAGAAATTCATAATAAGATTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * *
68384 GTATGGGCACTGTGTGTGCAAAA--AAAAAAATCATAATAAGTTTATGAATTTCT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * *
68437 ATATGGGCACTATGTGTGCAAAACTAGGAAACTCATAATAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * **
68492 GTATGGGCACTGTTTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * *
68547 GTATGGGTACTGTGTGTACAAAACTAACAAATTCATAATAAGTTTATGAATTTTC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * ** * * * *
68602 GTATTGACAGTATGTGTGCAACCCCACA-TAATTCATAATAAG-TTGTGAATTACC
1 GTATGGGCACTGTGTGTGCAAAACTA-AGAAATTCATAATAAGTTTATGAATTTCC
*** * ** ** * *
68656 -TCATTAACTCTACGTGTGCAAAGTA-TAGAGTTTATAATGAATAGAAAGAGTTAATTGATATTA
1 GT-ATGGGCACTGTGTGTGCAAA--ACTA-AG---A-AATTCATA-ATA-AGTTTA-TGA-ATT-
68719 T--
53 TCC
** * * * * * * **
68720 G-AT--TAATTAT-TAGAG-TAAA--AAG-AGTTCGTAATAAGTTGTGAATGTATGGTGATTTTA
1 GTATGGGCACTGTGT-GTGCAAAACTAAGAAATTCATAATAAGTT-T--ATG-A-----ATTTCC
*
68777 GTATGGGCACTGTGTGTG-ACAAACTAAGAAATTCATAATAAGTTTATGAATTTCT
1 GTATGGGCACTGTGTGTGCA-AAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* *
68832 GTATGGGCAATGTGTGTGCAAAACTAAGAAATTCATAGTAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * * *
68887 ATATTGGCACTGTATATGAAAAACTAAGAAAGTCATAATAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * *
68942 GTATGGGCATTGTGTGTGGAAGACTAAGAAATTCATAATAAGTTTATCAATTTCT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * *
68997 TTATTGGCACTATATGTGCAAAACTAAGAAATTCATAATAAGATTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* ** * **
69052 GTATTGGCACTGTGTGTGCAAAAAAAAAAAAAAAGAAATTCATAATAAGTTTACGAATTTTT
1 GTATGGGCACTGTGTGTGC-------AAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * *
69114 GTATGGGCACTATGTTTGCAAAACTAAGAAACTCATAATAAGTTTATGAATTTTC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * *
69169 GTATGGGCACTATGTGTGCAGAACTAAGAAATTCATAATTAGTTTATGAATTTCT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * *
69224 GTATGGGTACTGCGTGTGCAAAACTATGAAATTCATAATAAGTTTATGAATTTTC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * *
69279 GTATTGGCAGTATGTGTGCAA
1 GTATGGGCACTGTGTGTGCAA
69300 CCCATATAAT
Statistics
Matches: 964, Mismatches: 181, Indels: 92
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.00
50 2 0.00
51 6 0.01
52 2 0.00
53 48 0.05
54 24 0.02
55 763 0.79
56 8 0.01
57 2 0.00
58 3 0.00
60 15 0.02
61 13 0.01
62 48 0.05
63 7 0.01
64 16 0.02
65 3 0.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (55 bp):
GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
Found at i:70438 original size:13 final size:13
Alignment explanation
Indices: 70397--70438 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
70387 TGCGTCTTAA
70397 ATTTATGACGCGC
1 ATTTATGACGCGC
* *
70410 ATATATGACACGC
1 ATTTATGACGCGC
*
70423 ATTTATGACGCTC
1 ATTTATGACGCGC
70436 ATT
1 ATT
70439 GCACGTTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:73357 original size:53 final size:53
Alignment explanation
Indices: 73300--73400 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
73290 AAGCATCAGG
73300 TACTAGCCTTACTGGCTCTACTATGCTAG-TATCTGATATCACACAACACTAGA
1 TACTAGCCTTACTGGCTCTACTATGCTAGCT-TCTGATATCACACAACACTAGA
* * *
73353 TACTAGCCTTACTGGCTTTGCTATGCTAGCTTCTGGTATCACACAACA
1 TACTAGCCTTACTGGCTCTACTATGCTAGCTTCTGATATCACACAACA
73401 TCATACACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (53 bp):
TACTAGCCTTACTGGCTCTACTATGCTAGCTTCTGATATCACACAACACTAGA
Found at i:78607 original size:87 final size:88
Alignment explanation
Indices: 78455--78618 Score: 267
Period size: 87 Copynumber: 1.9 Consensus size: 88
78445 TACCATGAAT
*
78455 CTCTAACATACTTACATGAACAAAACATACCAAAAATGCACATGCCATGATCCACATGCAATATG
1 CTCTAACATACTTACATGAACAAAACATACCAAAAATGCACATACCATGATCCACATGCAATATG
78520 GTCAAACTAGAACCATGAATTTA
66 GTCAAACTAGAACCATGAATTTA
* * * *
78543 CTCTAGCATGCTTACATGAACAAAACATACC-AAAATGCACATACCATGATCTACATGCAGTATG
1 CTCTAACATACTTACATGAACAAAACATACCAAAAATGCACATACCATGATCCACATGCAATATG
*
78607 GTCAAGCTAGAA
66 GTCAAACTAGAA
78619 TCGTGTTATC
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 41 0.59
88 29 0.41
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.23
Consensus pattern (88 bp):
CTCTAACATACTTACATGAACAAAACATACCAAAAATGCACATACCATGATCCACATGCAATATG
GTCAAACTAGAACCATGAATTTA
Found at i:83963 original size:3 final size:3
Alignment explanation
Indices: 83955--83989 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
83945 GAATAGGGAT
83955 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
83990 CATACTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:92737 original size:78 final size:78
Alignment explanation
Indices: 92608--92875 Score: 340
Period size: 79 Copynumber: 3.4 Consensus size: 78
92598 TATAAAGGAT
* * * *
92608 CATTTAAGACAAAAATGATCTAACCGGGTATTTGGAACAATCATATCAGCATGAAGAATGTTGGG
1 CATTTCAGACAAAAAGGATCCAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTTGGG
92673 GCATTTTAAAGCC
66 GCATTTTAAAGCC
* **
92686 CATTTCAGAGAAAAAGGATCCAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTT-AA
1 CATTTCAGACAAAAAGGATCCAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTTGGG
*
92750 GCAATTTTGAAGACC
66 GC-ATTTTAAAG-CC
* * * *
92765 CATTTCAGACAAAAAGGATCCAACCGGGTATTTTGAACAATCACATCAGCATAAAGAAAGGTGGG
1 CATTTCAGACAAAAAGGATCCAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTTGGG
* * *
92830 GCATGCTGAAGGCC
66 GCAT-TTTAAAGCC
* * *
92844 CATTTCAGACAAAAATGATTCAAACGGGTATT
1 CATTTCAGACAAAAAGGATCCAACCGGGTATT
92876 CCGAACATTC
Statistics
Matches: 164, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
77 2 0.01
78 65 0.40
79 92 0.56
80 5 0.03
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (78 bp):
CATTTCAGACAAAAAGGATCCAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTTGGG
GCATTTTAAAGCC
Found at i:94373 original size:96 final size:96
Alignment explanation
Indices: 94223--94721 Score: 276
Period size: 95 Copynumber: 5.3 Consensus size: 96
94213 CAATCCTATT
* * * *
94223 CAAA-CTTCATGGAAAAGTAGTGAAGC---AGAAAGAACTCGGATAAAATTAAGTTTTCACGGAA
1 CAAATCTTCACGGAAAAGTAGTGAAGCAAAAGCAAGAACCCAGATAAAATTAAGTTTTCACGGAA
* * **
94284 AAATAGTGGAAAAGATTTTTTAGCTAAGTTT
66 AAATAGTGGAAAAGATTTTTCAGCAAAGTAA
* * * *
94315 CAAA-CTTCACGGAAGAGTATTGAAGTAGAAAGCAAGAACCCAGATAAAATTCAGTTTTCACGGA
1 CAAATCTTCACGGAAAAGTAGTGAAGCA-AAAGCAAGAACCCAGATAAAATTAAGTTTTCACGGA
* * **
94379 AGAGTAGTGGAATGGATTTTTCAGCAAAGTAA
65 AAAATAGTGGAAAAGATTTTTCAGCAAAGTAA
* ** * * *
94411 GAAATCTTCACGGAAAAGTAGTGAAGCAAAAGC-A-AATTCA-ATCATAAATCTGA-TCTCCACG
1 CAAATCTTCACGGAAAAGTAGTGAAGCAAAAGCAAGAACCCAGAT-A-AAAT-TAAGTTTTCACG
* *** *
94472 GAAGAATAGTGGATCGGATTTTTCAGCAAAGTAT
63 GAAAAATAGTGGAAAAGATTTTTCAGCAAAGTAA
* * * * ** * * * * * *
94506 GAAATCTTCACGGAAGAGTGGTGAAGAAAAAGC-A-AATTCAAACATAAA-TATGATATCCATGG
1 CAAATCTTCACGGAAAAGTAGTGAAGCAAAAGCAAGAACCCAGATA-AAATTAAG-TTTTCACGG
* * *
94568 AAGAATAGTGG-AACGAATTTTTCAGCAAAGTAT
64 AAAAATAGTGGAAAAG-ATTTTTCAGCAAAGTAA
* * ** * * *
94601 GAAATCTTCACGGAAGAGTAGTGAAGCAAAAG-AA-AATTCA-ATCATAAA-TATGATCTCCACG
1 CAAATCTTCACGGAAAAGTAGTGAAGCAAAAGCAAGAACCCAGAT-A-AAATTAAG-TTTTCACG
* ** *
94662 GAAGAATAGTGGAACGGATTTTTCAGCAAAGTAT
63 GAAAAATAGTGGAAAAGATTTTTCAGCAAAGTAA
* * * *
94696 GATATCTACACGGAAGAGTAGTGAAG
1 CAAATCTTCACGGAAAAGTAGTGAAG
94722 AAATCCAAGT
Statistics
Matches: 343, Mismatches: 49, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
92 22 0.06
93 3 0.01
94 7 0.02
95 224 0.65
96 67 0.20
97 20 0.06
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.24
Consensus pattern (96 bp):
CAAATCTTCACGGAAAAGTAGTGAAGCAAAAGCAAGAACCCAGATAAAATTAAGTTTTCACGGAA
AAATAGTGGAAAAGATTTTTCAGCAAAGTAA
Found at i:94491 original size:95 final size:95
Alignment explanation
Indices: 94373--94721 Score: 563
Period size: 95 Copynumber: 3.7 Consensus size: 95
94363 ATTCAGTTTT
* * * *
94373 CACGGAAGAGTAGTGGAATGGATTTTTCAGCAAAGTAAGAAATCTTCACGGAAAAGTAGTGAAGC
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
*
94438 AAAAGCAAATTCAATCATAAATCTGATCTC
66 AAAAGCAAATTCAATCATAAATATGATCTC
* * *
94468 CACGGAAGAATAGTGGATCGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTGGTGAAGA
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
* *
94533 AAAAGCAAATTCAAACATAAATATGATATC
66 AAAAGCAAATTCAATCATAAATATGATCTC
* *
94563 CATGGAAGAATAGTGGAACGAATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
*
94628 AAAAGAAAATTCAATCATAAATATGATCTC
66 AAAAGCAAATTCAATCATAAATATGATCTC
* *
94658 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGATATCTACACGGAAGAGTAGTGAAG
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAG
94722 AAATCCAAGT
Statistics
Matches: 232, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 232 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (95 bp):
CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
AAAAGCAAATTCAATCATAAATATGATCTC
Found at i:94623 original size:46 final size:46
Alignment explanation
Indices: 94371--94718 Score: 160
Period size: 46 Copynumber: 7.4 Consensus size: 46
94361 AAATTCAGTT
* * *
94371 TTCACGGAAGAGTAGTGGAATGGATTTTTCAGCAAAGTAAGAAATC
1 TTCACGGAAGAGTAGTGGAAAGAATTTTTCAGCAAAGTATGAAATC
* * * * *
94417 TTCACGGAAAAGTAGTGAAGCAAAAGCAA--ATTCAATCATAAATCTG--ATC
1 TTCACGGAAGAGTAGTG--G--AAAG-AATTTTTC-AGCA-AAGTATGAAATC
* * ** *
94466 TCCACGGAAGAATAGTGGATCGGATTTTTCAGCAAAGTATGAAATC
1 TTCACGGAAGAGTAGTGGAAAGAATTTTTCAGCAAAGTATGAAATC
* * * * *
94512 TTCACGGAAGAGTGGTGAAGAAAAAGCAA--ATTCAAACATAAATATGATATC
1 TTCACGGAAGAGTAGTG--G--AAAG-AATTTTTC-AGCA-AAGTATGAAATC
* * *
94563 --CATGGAAGAATAGTGGAACGAATTTTTCAGCAAAGTATGAAATC
1 TTCACGGAAGAGTAGTGGAAAGAATTTTTCAGCAAAGTATGAAATC
** * *
94607 TTCACGGAAGAGTAGTGAAGCAAAAGAA-AATTCAATCATAAATATG--ATC
1 TTCACGGAAGAGTAGTG--G--AAAGAATTTTTC-AGCA-AAGTATGAAATC
* * * * *
94656 TCCACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGATATC
1 TTCACGGAAGAGTAGTGGAAAGAATTTTTCAGCAAAGTATGAAATC
*
94702 TACACGGAAGAGTAGTG
1 TTCACGGAAGAGTAGTG
94719 AAGAAATCCA
Statistics
Matches: 218, Mismatches: 53, Indels: 62
0.65 0.16 0.19
Matches are distributed among these distances:
44 24 0.11
45 18 0.08
46 73 0.33
47 3 0.01
48 3 0.01
49 56 0.26
50 19 0.09
51 22 0.10
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (46 bp):
TTCACGGAAGAGTAGTGGAAAGAATTTTTCAGCAAAGTATGAAATC
Found at i:94663 original size:49 final size:48
Alignment explanation
Indices: 94414--94672 Score: 142
Period size: 49 Copynumber: 5.4 Consensus size: 48
94404 AAAGTAAGAA
* * * *
94414 ATCTTCACGGAA-AAGTAGTGAAGCAAAAGCAAATTCAATCATAAATCTG
1 ATCTCCACGGAAGAA-TAGTGAAG-AAAAGAAAATTCAAGCATAAATATG
*** *** *
94463 ATCTCCACGGAAGAATAGTG--GATCGGATTTTTC-AGCA-AAGTATG
1 ATCTCCACGGAAGAATAGTGAAGAAAAGAAAATTCAAGCATAAATATG
* * * * *
94507 AAATCTTCACGGAAGAGTGGTGAAGAAAAAGCAAATTCAAACATAAATATG
1 --ATCTCCACGGAAGAATAGTGAAG-AAAAGAAAATTCAAGCATAAATATG
* * * ** *
94558 ATATCCATGGAAGAATAGTG--G-AACGAATTTTTC-AGCA-AAGTATG
1 ATCTCCACGGAAGAATAGTGAAGAAAAGAA-AATTCAAGCATAAATATG
* * *
94602 AAATCTTCACGGAAGAGTAGTGAAGCAAAAGAAAATTCAATCATAAATATG
1 --ATCTCCACGGAAGAATAGTGAAG-AAAAGAAAATTCAAGCATAAATATG
94653 ATCTCCACGGAAGAATAGTG
1 ATCTCCACGGAAGAATAGTG
94673 GAACGGATTT
Statistics
Matches: 148, Mismatches: 45, Indels: 34
0.65 0.20 0.15
Matches are distributed among these distances:
44 11 0.07
45 10 0.07
46 41 0.28
47 2 0.01
48 2 0.01
49 57 0.39
50 13 0.09
51 12 0.08
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.23
Consensus pattern (48 bp):
ATCTCCACGGAAGAATAGTGAAGAAAAGAAAATTCAAGCATAAATATG
Found at i:94884 original size:36 final size:36
Alignment explanation
Indices: 94837--94933 Score: 140
Period size: 36 Copynumber: 2.7 Consensus size: 36
94827 CAAAGTATGA
* *
94837 AGCCTTCATGAAAGAGTAATGAAGTCATGCAAATTC
1 AGCCTTCATGAAAGAGTAATGAAGTCATGAAAATGC
*
94873 AGCCTTCATGAAAGAGTAATAAAGTCATGAAAATGC
1 AGCCTTCATGAAAGAGTAATGAAGTCATGAAAATGC
* * *
94909 AGCCTTCACGGAAGAGTAGTGAAGT
1 AGCCTTCATGAAAGAGTAATGAAGT
94934 AAATCATTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (36 bp):
AGCCTTCATGAAAGAGTAATGAAGTCATGAAAATGC
Done.