Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001484.1 Hibiscus syriacus cultivar Beakdansim tig00002880_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: 1039362
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:72 original size:18 final size:17
Alignment explanation
Indices: 45--78 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
35 CACAGTTGTT
45 TAAATAATTTTAATTTA
1 TAAATAATTTTAATTTA
62 TAAATTAATTTTAATTT
1 TAAA-TAATTTTAATTT
79 TTAGCTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATAATTTTAATTTA
Found at i:1484 original size:23 final size:23
Alignment explanation
Indices: 1458--1513 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
1448 GTTCATTATG
1458 TATTCGTTTAAAGATTGGGTACA
1 TATTCGTTTAAAGATTGGGTACA
*
1481 TATTCGTTTAATGATTGGGTACA
1 TATTCGTTTAAAGATTGGGTACA
1504 TATTCGTTTA
1 TATTCGTTTA
1514 TATGTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.45
Consensus pattern (23 bp):
TATTCGTTTAAAGATTGGGTACA
Found at i:3427 original size:28 final size:29
Alignment explanation
Indices: 3356--3428 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 29
3346 GCAAGGTAAT
*
3356 TATTTTTTTATGATTTT-TTAATTTCATAA
1 TATTTTTTTA-AATTTTATTAATTTCATAA
* ** *
3385 -ATTTATTTATTTTTTATTTATTT-ATAA
1 TATTTTTTTAAATTTTATTAATTTCATAA
3412 TATTTTTTTAAATTTTA
1 TATTTTTTTAAATTTTA
3429 GATGATGTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
27 8 0.23
28 27 0.77
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (29 bp):
TATTTTTTTAAATTTTATTAATTTCATAA
Found at i:6553 original size:36 final size:37
Alignment explanation
Indices: 6508--6590 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
6498 AACATTTCTC
6508 TTATTAATTTCTTA-TTTTTAAATAAATATTTTCTTA
1 TTATTAATTTCTTATTTTTTAAATAAATATTTTCTTA
6544 TTATTAATTTCTTATTTTTTAAATAAATATTTTCTTA
1 TTATTAATTTCTTATTTTTTAAATAAATATTTTCTTA
6581 TTATTAATTT
1 TTATTAATTT
6591 AATAATTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 14 0.30
37 32 0.70
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (37 bp):
TTATTAATTTCTTATTTTTTAAATAAATATTTTCTTA
Found at i:21541 original size:37 final size:37
Alignment explanation
Indices: 21491--21563 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
21481 TATGTTTCAG
21491 AAAGAAAACTAGTACTAAGACAATATAGATGAATACC
1 AAAGAAAACTAGTACTAAGACAATATAGATGAATACC
21528 AAAGAAAACTAGTACTAAGACAATATAGATGAATAC
1 AAAGAAAACTAGTACTAAGACAATATAGATGAATAC
21564 AAAACCTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (37 bp):
AAAGAAAACTAGTACTAAGACAATATAGATGAATACC
Found at i:33876 original size:30 final size:30
Alignment explanation
Indices: 33840--33897 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
33830 CTCTTGAAAG
* *
33840 GAAATTAAATGTTTACTCTAGCTGTTGGAT
1 GAAATTAAATGGTTACTCTAGCCGTTGGAT
33870 GAAATTAAATGGTTACTCTAGCCGTTGG
1 GAAATTAAATGGTTACTCTAGCCGTTGG
33898 TTGGGAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (30 bp):
GAAATTAAATGGTTACTCTAGCCGTTGGAT
Found at i:52598 original size:33 final size:33
Alignment explanation
Indices: 52555--52693 Score: 161
Period size: 33 Copynumber: 4.2 Consensus size: 33
52545 AATGTGTAGG
*
52555 GAAACATCATCATTCGAGGCAGTAGGTCCAAGA
1 GAAACATCATCATTCGAGTCAGTAGGTCCAAGA
* * *
52588 AAAACATCATCATGCGAGTCAGTAGGTCCAGGA
1 GAAACATCATCATTCGAGTCAGTAGGTCCAAGA
* * * *
52621 GAAGCACCATCATTCGAGTCAATAGGTCCAAGG
1 GAAACATCATCATTCGAGTCAGTAGGTCCAAGA
* * * **
52654 GAAGCACCATAATTCGAGTCAGTAAATCCAAGA
1 GAAACATCATCATTCGAGTCAGTAGGTCCAAGA
52687 GAAACAT
1 GAAACAT
52694 GTCTAATCTC
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (33 bp):
GAAACATCATCATTCGAGTCAGTAGGTCCAAGA
Found at i:58392 original size:24 final size:21
Alignment explanation
Indices: 58351--58393 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
58341 CTAATGTTCG
58351 AATATAAATTTTATCATTAAA
1 AATATAAATTTTATCATTAAA
58372 AATATAATATATTATATCATTA
1 AATATAA-AT-TT-TATCATTA
58394 TACTCGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 2 0.11
24 8 0.42
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
AATATAAATTTTATCATTAAA
Found at i:60096 original size:32 final size:32
Alignment explanation
Indices: 60050--60139 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 32
60040 TAATTATGAA
*
60050 AATATTAAAA-TATATTTATTAATATTTCTAAT
1 AATA-TAAAATTATATTTATTAATATTTATAAT
60082 AATATAAAATTATATTT-TTAATA-TTATAAT
1 AATATAAAATTATATTTATTAATATTTATAAT
* *
60112 AAAATAATCAATTATATTATAATAATAT
1 AATATAA--AATTATATT-TATTAATAT
60140 AAGATATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 12 0.24
31 11 0.22
32 20 0.41
33 1 0.02
34 5 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (32 bp):
AATATAAAATTATATTTATTAATATTTATAAT
Found at i:60303 original size:23 final size:23
Alignment explanation
Indices: 60284--60328 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
60274 AATAATATTT
60284 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
60307 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
60329 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:60390 original size:89 final size:90
Alignment explanation
Indices: 60297--60502 Score: 360
Period size: 89 Copynumber: 2.3 Consensus size: 90
60287 TAAAGATATT
*
60297 TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAAT-AAATAATTAAT
1 TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAATAAAAAAATTAAT
*
60361 ATAATTTATGATATTTTTGTTTCAA
66 ATAATTTATAATATTTTTGTTTCAA
60386 TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAATAAAAAAATTAAT
1 TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAATAAAAAAATTAAT
60451 ATAATTTATAATATTTTTGTTTCAA
66 ATAATTTATAATATTTTTGTTTCAA
*
60476 TAAAATATACCAATATTAATATTTTTA
1 TAAAATATA-CTA-ATTAATATTTTTA
60503 TTAATAAAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
89 53 0.48
90 43 0.39
91 2 0.02
92 13 0.12
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (90 bp):
TAAAATATACTAATTAATATTTTTAAAATATAATATAACACTATTACTTTAATAAAAAAATTAAT
ATAATTTATAATATTTTTGTTTCAA
Found at i:60526 original size:29 final size:32
Alignment explanation
Indices: 60459--60528 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 32
60449 ATATAATTTA
*
60459 TAATATTTTTGTTTCAATAAAATATACCAATAT
1 TAATATTTTTGATTCAATAAAATATA-CAATAT
60492 TAATATTTTT-ATT-AATAAAATTATA-AA-AT
1 TAATATTTTTGATTCAATAAAA-TATACAATAT
60521 TAATATTT
1 TAATATTT
60529 AATAATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 10 0.29
30 2 0.06
31 7 0.20
32 6 0.17
33 10 0.29
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (32 bp):
TAATATTTTTGATTCAATAAAATATACAATAT
Found at i:60559 original size:22 final size:25
Alignment explanation
Indices: 60533--60596 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
60523 ATATTTAATA
*
60533 ATAAATAAATTATTTTAA-TTTTTT
1 ATAAATAAATTATTTTAAGTTTTAT
* *
60557 AAAAAT-AATTATATTAAGTTTTAT
1 ATAAATAAATTATTTTAAGTTTTAT
60581 GATAAATAATATTATT
1 -ATAAATAA-ATTATT
60597 ATTGTATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 10 0.32
24 10 0.32
25 5 0.16
26 1 0.03
27 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
ATAAATAAATTATTTTAAGTTTTAT
Found at i:60707 original size:21 final size:21
Alignment explanation
Indices: 60666--60723 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
60656 ATGTTTAAAC
* *
60666 AACATCTTCCA-AACATCGTAA
1 AACATTTTCCAGAAAAT-GTAA
*
60687 AACGTTTTCCAGAAAATGTAA
1 AACATTTTCCAGAAAATGTAA
**
60708 TTCATTTTCCAGAAAA
1 AACATTTTCCAGAAAA
60724 CCAATTACAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (21 bp):
AACATTTTCCAGAAAATGTAA
Found at i:64146 original size:31 final size:31
Alignment explanation
Indices: 64105--64168 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
64095 AAAATATAAT
*
64105 ATATGATCACTTTCAATTTTATTTAATTAAG
1 ATATGATCACTATCAATTTTATTTAATTAAG
* *
64136 ATATGGTCACTATCATTTTTATTTAATTAAG
1 ATATGATCACTATCAATTTTATTTAATTAAG
64167 AT
1 AT
64169 GTGCTCATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.48
Consensus pattern (31 bp):
ATATGATCACTATCAATTTTATTTAATTAAG
Found at i:80134 original size:33 final size:33
Alignment explanation
Indices: 80092--80157 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
80082 AGTTAAGGAG
80092 ATAGCTTCTACAATGTCTGTGCACGAGATTATT
1 ATAGCTTCTACAATGTCTGTGCACGAGATTATT
80125 ATAGCTTCTACAATGTCTGTGCACGAGATTATT
1 ATAGCTTCTACAATGTCTGTGCACGAGATTATT
80158 GTGAGGTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (33 bp):
ATAGCTTCTACAATGTCTGTGCACGAGATTATT
Found at i:81133 original size:29 final size:29
Alignment explanation
Indices: 81096--81155 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
81086 TACAAAAGAC
*
81096 AGGAGTTAGTTAATACCTAGCATAAAATA
1 AGGACTTAGTTAATACCTAGCATAAAATA
81125 AGGACTTAGTTAATACCTAGCATAAAATA
1 AGGACTTAGTTAATACCTAGCATAAAATA
81154 AG
1 AG
81156 ATTAAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.27
Consensus pattern (29 bp):
AGGACTTAGTTAATACCTAGCATAAAATA
Found at i:81542 original size:29 final size:29
Alignment explanation
Indices: 81492--81550 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
81482 AGCATCCACA
81492 TTATTAAATAGAGTATCACTTATGATGAT
1 TTATTAAATAGAGTATCACTTATGATGAT
* *
81521 TTATTAAATAGAGCT-TCTCTTATGTTGAT
1 TTATTAAATAGAG-TATCACTTATGATGAT
81550 T
1 T
81551 ATCATACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (29 bp):
TTATTAAATAGAGTATCACTTATGATGAT
Found at i:87736 original size:16 final size:15
Alignment explanation
Indices: 87715--87744 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
87705 ATGATATGAA
87715 TGATAAGTTCATTGTC
1 TGATAAGTT-ATTGTC
87731 TGATAAGTTATTGT
1 TGATAAGTTATTGT
87745 ACTTATAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TGATAAGTTATTGTC
Found at i:88097 original size:18 final size:18
Alignment explanation
Indices: 88064--88101 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88054 TTTATTTGAA
88064 TAAATCAATAAAAAATAGT
1 TAAATCAATAAAAAAT-GT
*
88083 TAAAT-AATTAAAAATGT
1 TAAATCAATAAAAAATGT
88100 TA
1 TA
88102 CCTAACTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (18 bp):
TAAATCAATAAAAAATGT
Found at i:89720 original size:31 final size:31
Alignment explanation
Indices: 89639--89791 Score: 139
Period size: 31 Copynumber: 5.0 Consensus size: 31
89629 CCTCGGTGAC
* ** *
89639 TGTCCATAGGTCCTGAAGAACCTAGGTAAA-
1 TGTCCATATGTCCCAAAGAACATAGGTAAAT
* **
89669 TGTCCATATGTTCCTTAGAACATAGGTAAAT
1 TGTCCATATGTCCCAAAGAACATAGGTAAAT
* * * **
89700 TATTCATATGTCCCAAAGAACATATGTAAGC
1 TGTCCATATGTCCCAAAGAACATAGGTAAAT
* *
89731 TGTCTATATGTCTCGAAAG-ACATAGGTAAAT
1 TGTCCATATGTC-CCAAAGAACATAGGTAAAT
* *
89762 TGTCCATATGTCTCGAAGAACATAGGTAAA
1 TGTCCATATGTCCCAAAGAACATAGGTAAA
89792 CCCTCGACTC
Statistics
Matches: 95, Mismatches: 25, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
30 27 0.28
31 63 0.66
32 5 0.05
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (31 bp):
TGTCCATATGTCCCAAAGAACATAGGTAAAT
Found at i:92591 original size:14 final size:14
Alignment explanation
Indices: 92572--92608 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
92562 ACACATATAC
92572 ATATATCATTATCA
1 ATATATCATTATCA
92586 ATATATCATTATCA
1 ATATATCATTATCA
92600 ATATATCAT
1 ATATATCAT
92609 GCACTAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATCATTATCA
Found at i:93971 original size:31 final size:31
Alignment explanation
Indices: 93936--94006 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
93926 TACAATCATT
93936 CACAACTTTTCCAAAAATTACA-AATTGGTCC
1 CACAACTTTTCCAAAAATTACATAA-TGGTCC
*
93967 CACAACTTTT-CAAAATTTACATAATGGTCC
1 CACAACTTTTCCAAAAATTACATAATGGTCC
*
93997 C-CAAATTTTC
1 CACAACTTTTC
94007 TAAAGCTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 7 0.19
30 17 0.47
31 12 0.33
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (31 bp):
CACAACTTTTCCAAAAATTACATAATGGTCC
Found at i:94459 original size:30 final size:32
Alignment explanation
Indices: 94417--94477 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
94407 AATCATTCAC
94417 AACTTTTCCAAAAATTAT-GAATTGGT-CCCTT
1 AACTTTTCCAAAAATTATAGAA-TGGTACCCTT
94448 AACTTTT-CAAAAATTATAGAATGGTACCCT
1 AACTTTTCCAAAAATTATAGAATGGTACCCT
94478 GATTTTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (32 bp):
AACTTTTCCAAAAATTATAGAATGGTACCCTT
Found at i:94485 original size:478 final size:478
Alignment explanation
Indices: 93577--94532 Score: 1714
Period size: 478 Copynumber: 2.0 Consensus size: 478
93567 TAACATAAGA
*
93577 ACAATTTAAATTGCATTCACCTTGACACTTCATATATCCAAATCCACTTCTATGGTTTATCTATT
1 ACAATTTAAATTGCACTCACCTTGACACTTCATATATCCAAATCCACTTCTATGGTTTATCTATT
93642 TGGATTAGTCCTAACTTTGCAGTCATTTCAGAACTTGCTTGTGCTCGATATCTACACCATCATAC
66 TGGATTAGTCCTAACTTTGCAGTCATTTCAGAACTTGCTTGTGCTCGATATCTACACCATCATAC
*
93707 ATTTATACATATCAGTATTCCCAATAGCATACTCTAGTTTTCATTTCAAGGGGTGTATCGATACA
131 ATTTATACATATCAGTATTCCCAATAGCATACTCTAGTTTTCATTTCAAGGGGTGTATAGATACA
*
93772 CTTTCTCAGTGTATCGGTACACTAACTATGTGAATGTTGCACTTAAATCACTAATCTTTTCAAAC
196 CTTCCTCAGTGTATCGGTACACTAACTATGTGAATGTTGCACTTAAATCACTAATCTTTTCAAAC
* *
93837 TTCCAAAATGGTTATATTTCACATCTAAATGCTTATTTTAATCCTAAAACAACAATTTCCAGCAT
261 TTCCAAAATGGTCATATTTCACATCTAAATGCTTATTTTAATCCCAAAACAACAATTTCCAGCAT
93902 AGTACATCAACTATTAAACAATTATACAATCATTCACAACTTTTCCAAAAATTACAAATTGGTCC
326 AGTACATCAACTATTAAACAATTATACAATCATTCACAACTTTTCCAAAAATTACAAATTGGTCC
* * *
93967 CACAACTTTTCAAAATTTACATAATGGTCCCCAAATTTTCTAAAGCTTGTAGAATACTTCCTACA
391 CACAACTTTTCAAAAATTACAGAATGGTACCCAAATTTTCTAAAGCTTGTAGAATACTTCCTACA
94032 TCATTTCCAAACCTTATAAAATT
456 TCATTTCCAAACCTTATAAAATT
*
94055 ACAATTTAAATTGCACTCACCTTGACACTTCATATATCCAAATCCACTTCTATGGTTTATCTCTT
1 ACAATTTAAATTGCACTCACCTTGACACTTCATATATCCAAATCCACTTCTATGGTTTATCTATT
*
94120 TGGATTGGTCCTAACTTTGCAGTCATTTCAGAACTTGCTTGTGCTCGATATCTACACCATCATAC
66 TGGATTAGTCCTAACTTTGCAGTCATTTCAGAACTTGCTTGTGCTCGATATCTACACCATCATAC
* *
94185 ATTTATACATATCATTATTCCTAATAGCATACTCTAGTTTTCATTTCAAGGGGTGTATAGATACA
131 ATTTATACATATCAGTATTCCCAATAGCATACTCTAGTTTTCATTTCAAGGGGTGTATAGATACA
94250 CTTCCTCAGTGTATCGGTACACTAACTATGTGAATGTTGCACTTAAATCACTAATCTTTTCAAAC
196 CTTCCTCAGTGTATCGGTACACTAACTATGTGAATGTTGCACTTAAATCACTAATCTTTTCAAAC
94315 TTCCAAAATGGTCATATTTCACATCTAAATGCTTATTTTAATCCCAAAACAACAATTTCCAGCAT
261 TTCCAAAATGGTCATATTTCACATCTAAATGCTTATTTTAATCCCAAAACAACAATTTCCAGCAT
**
94380 AGTACATCAACTATTAAACAATTATACAATCATTCACAACTTTTCCAAAAATTATGAATTGGTCC
326 AGTACATCAACTATTAAACAATTATACAATCATTCACAACTTTTCCAAAAATTACAAATTGGTCC
** * ** *
94445 CTTAACTTTTCAAAAATTATAGAATGGTACCCTGATTTTCTAAAGCTTGTATAATACTTCCTACA
391 CACAACTTTTCAAAAATTACAGAATGGTACCCAAATTTTCTAAAGCTTGTAGAATACTTCCTACA
* *
94510 TCATTTCCAGACCTTATATAATT
456 TCATTTCCAAACCTTATAAAATT
94533 TTTGCATAAT
Statistics
Matches: 456, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
478 456 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (478 bp):
ACAATTTAAATTGCACTCACCTTGACACTTCATATATCCAAATCCACTTCTATGGTTTATCTATT
TGGATTAGTCCTAACTTTGCAGTCATTTCAGAACTTGCTTGTGCTCGATATCTACACCATCATAC
ATTTATACATATCAGTATTCCCAATAGCATACTCTAGTTTTCATTTCAAGGGGTGTATAGATACA
CTTCCTCAGTGTATCGGTACACTAACTATGTGAATGTTGCACTTAAATCACTAATCTTTTCAAAC
TTCCAAAATGGTCATATTTCACATCTAAATGCTTATTTTAATCCCAAAACAACAATTTCCAGCAT
AGTACATCAACTATTAAACAATTATACAATCATTCACAACTTTTCCAAAAATTACAAATTGGTCC
CACAACTTTTCAAAAATTACAGAATGGTACCCAAATTTTCTAAAGCTTGTAGAATACTTCCTACA
TCATTTCCAAACCTTATAAAATT
Found at i:98602 original size:23 final size:23
Alignment explanation
Indices: 98576--98644 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
98566 CACCACAACT
*
98576 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
98599 CGTAGAATTGCACTGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
98622 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
98645 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:100891 original size:21 final size:20
Alignment explanation
Indices: 100853--100890 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
100843 TATAAAAAAT
100853 TATTTTTATTAAATTTTTGG
1 TATTTTTATTAAATTTTTGG
*
100873 TATTTTTATTTAATTTTT
1 TATTTTTATTAAATTTTT
100891 TAAATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TATTTTTATTAAATTTTTGG
Found at i:101837 original size:101 final size:101
Alignment explanation
Indices: 101662--101864 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
101652 CACATGGAGA
101662 GCATTTCATAATTTGGAGGTCTCTTACTGAAGCTGCTCTTAACCTAGTGTTGGGGGCAGTCTACT
1 GCATTTCATAATTTGGAGGTCTCTTACTGAAGCTGCTCTTAACCTAGTGTTGGGGGCAGTCTACT
101727 ATCTTACCTCCCCCTTACCCCATTACATATGGGAAC
66 ATCTTACCTCCCCCTTACCCCATTACATATGGGAAC
101763 GCATTTCATAATTTGGAGGTCTCTTACTGAAGCTGCTCTTAACCTAGTGTTGGGGGCAGTCTACT
1 GCATTTCATAATTTGGAGGTCTCTTACTGAAGCTGCTCTTAACCTAGTGTTGGGGGCAGTCTACT
101828 ATCTTACCTCCCCCTTACCCCATTACATATGGGAAC
66 ATCTTACCTCCCCCTTACCCCATTACATATGGGAAC
101864 G
1 G
101865 AGGGACAACC
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (101 bp):
GCATTTCATAATTTGGAGGTCTCTTACTGAAGCTGCTCTTAACCTAGTGTTGGGGGCAGTCTACT
ATCTTACCTCCCCCTTACCCCATTACATATGGGAAC
Found at i:105585 original size:21 final size:22
Alignment explanation
Indices: 105550--105594 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
105540 CTAAAAATAT
*
105550 TAAAAATTATCAATATTTTAAA
1 TAAAAATAATCAATATTTTAAA
105572 TAAAAATAAT-AATATTTTAAA
1 TAAAAATAATCAATATTTTAAA
105593 TA
1 TA
105595 TTTTTTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAATAATCAATATTTTAAA
Found at i:116500 original size:5 final size:5
Alignment explanation
Indices: 116486--116673 Score: 314
Period size: 5 Copynumber: 38.0 Consensus size: 5
116476 TTGTGACTGT
116486 TATT- TATTA TATTA TATTA TATTA TATTA TATTA T-TTA TATTATA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA
116536 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
116585 TA-T- TATTA TATTTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TA-TTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
116634 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
116674 ACATGTATAT
Statistics
Matches: 176, Mismatches: 0, Indels: 15
0.92 0.00 0.08
Matches are distributed among these distances:
3 2 0.01
4 14 0.08
5 149 0.85
6 7 0.04
7 4 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:127323 original size:16 final size:16
Alignment explanation
Indices: 127285--127315 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
127275 AGTATTTCTT
127285 TATATATGTATGTGTA
1 TATATATGTATGTGTA
*
127301 TATATATGTGTGTGT
1 TATATATGTATGTGT
127316 TTTTATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (16 bp):
TATATATGTATGTGTA
Found at i:127507 original size:88 final size:89
Alignment explanation
Indices: 127414--127636 Score: 247
Period size: 91 Copynumber: 2.5 Consensus size: 89
127404 GTGGAAACAT
** *
127414 ATATATAAGATAGGTGACCCTTTTTTTCCCATTCGTGTTAAGTAATAACATATCTAGAAATATAT
1 ATATATAAGATAGGTGACCCTTTTTCCCCCATTCGTGTTAAGTAATAACAGATCTAGAAATATAT
* *
127479 TTT-AGGT-G-TACACACACACATT
66 TTTAAGGTGGAAACACACACACA-C
* ** * * *
127501 ATTATATAGGATAGGTGATCGGTTTTCTCCCCCTATTCATGTTAAGTAGTGACAGATCTAGAAAT
1 A-TATATAAGATAGGTGA-CCCTTTT-TCCCCC-ATTCGTGTTAAGTAATAACAGATCTAGAAAT
127566 ATATTTTAAGGTGGAAACACACACACAC
62 ATATTTTAAGGTGGAAACACACACACAC
* **
127594 ATATATAAGATAGATGA-CCGGTTTCCCCCATTCGTGTTAAGTA
1 ATATATAAGATAGGTGACCCTTTTTCCCCCATTCGTGTTAAGTA
127637 GTGATGGATC
Statistics
Matches: 111, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
87 1 0.01
88 28 0.25
89 11 0.10
90 6 0.05
91 34 0.31
92 18 0.16
93 2 0.02
94 11 0.10
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (89 bp):
ATATATAAGATAGGTGACCCTTTTTCCCCCATTCGTGTTAAGTAATAACAGATCTAGAAATATAT
TTTAAGGTGGAAACACACACACAC
Found at i:138530 original size:18 final size:18
Alignment explanation
Indices: 138507--138549 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
138497 AATATATATT
138507 ATTATTGAACTACAATG-A
1 ATTATT-AACTACAATGAA
* *
138525 ATTATTTATTACAATGAA
1 ATTATTAACTACAATGAA
138543 ATTATTA
1 ATTATTA
138550 CCTTAATGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
ATTATTAACTACAATGAA
Found at i:145580 original size:4 final size:4
Alignment explanation
Indices: 145573--145597 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
145563 TATATATATA
145573 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
145598 GAAGAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:149384 original size:31 final size:30
Alignment explanation
Indices: 149331--149393 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
149321 CGTTAAAAAA
* *
149331 TTAATGCATTTAGTACCCAAACTATCAGTT
1 TTAATCCATTTAGTACCCAAACTATCAATT
* * *
149361 TTAATCCATTTTAGTATCTAAACTTTCAATT
1 TTAATCCA-TTTAGTACCCAAACTATCAATT
149392 TT
1 TT
149394 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.44
Consensus pattern (30 bp):
TTAATCCATTTAGTACCCAAACTATCAATT
Found at i:149821 original size:21 final size:21
Alignment explanation
Indices: 149770--149822 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
149760 ATTATGACTA
149770 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
149791 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
149812 TCGCAATGCGA
1 TCGCAATGCGA
149823 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:149876 original size:41 final size:41
Alignment explanation
Indices: 149849--149926 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
149839 GCGAATTGGG
*
149849 AAAAACGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAAACGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
149890 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATA
1 AAAAACGCAACGCGATACTGACTATCGCAACGCGATA
149927 CTGACTTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (41 bp):
AAAAACGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:149883 original size:20 final size:20
Alignment explanation
Indices: 149854--149946 Score: 107
Period size: 20 Copynumber: 4.6 Consensus size: 20
149844 TTGGGAAAAA
*
149854 CGCAATGCGATACTGACTAT
1 CGCAACGCGATACTGACTAT
* *
149874 CGCAACGCGATAAT-ACAAAAT
1 CGCAACGCGATACTGAC--TAT
*
149895 CGCAACGCGATACTGACTTT
1 CGCAACGCGATACTGACTAT
*
149915 CGCAACGCGATACTGACTTT
1 CGCAACGCGATACTGACTAT
*
149935 CGCAACGAGATA
1 CGCAACGCGATA
149947 ATACATAATC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.70
21 15 0.24
22 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.20
Consensus pattern (20 bp):
CGCAACGCGATACTGACTAT
Found at i:149960 original size:21 final size:20
Alignment explanation
Indices: 149854--149966 Score: 95
Period size: 20 Copynumber: 5.5 Consensus size: 20
149844 TTGGGAAAAA
* *
149854 CGCAATGCGATACTGACTAT
1 CGCAACGCGATAATGACTAT
*
149874 CGCAACGCGATAAT-ACAAAAT
1 CGCAACGCGATAATGAC--TAT
* *
149895 CGCAACGCGATACTGACTTT
1 CGCAACGCGATAATGACTAT
* *
149915 CGCAACGCGATACTGACTTT
1 CGCAACGCGATAATGACTAT
*
149935 CGCAACGAGATAAT-ACATAAT
1 CGCAACGCGATAATGAC-T-AT
*
149956 CGCAATGCGAT
1 CGCAACGCGAT
149967 TTTCAAAGCG
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
19 4 0.05
20 46 0.60
21 25 0.32
22 2 0.03
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
CGCAACGCGATAATGACTAT
Found at i:150164 original size:22 final size:20
Alignment explanation
Indices: 150139--150183 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
150129 CTCACCCATA
*
150139 TCCGACGAAATCCATCCCTATC
1 TCCGACAAAATCCAT--CTATC
*
150161 TCCGGCAAAATCCATCTATC
1 TCCGACAAAATCCATCTATC
150181 TCC
1 TCC
150184 ATCTCTCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.27, C:0.40, G:0.09, T:0.24
Consensus pattern (20 bp):
TCCGACAAAATCCATCTATC
Found at i:150449 original size:20 final size:20
Alignment explanation
Indices: 150420--150463 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
150410 GCGATTTTAG
150420 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
150440 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
150460 TTTC
1 TTTC
150464 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:152286 original size:19 final size:19
Alignment explanation
Indices: 152243--152297 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
152233 AACTGTTTTT
152243 AAATGACTATCGCAACGTGG
1 AAATGACTATCGCAAC-TGG
*
152263 AAATGGCTATCGCAA-TGCG
1 AAATGACTATCGCAACTG-G
**
152282 AAATGAAAATCGCAAC
1 AAATGACTATCGCAAC
152298 GACAAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 13 0.45
20 14 0.48
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (19 bp):
AAATGACTATCGCAACTGG
Found at i:152406 original size:20 final size:20
Alignment explanation
Indices: 152360--152427 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
152350 GCGATTTTGT
**
152360 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
152379 CATTGCGATAG-CTATTTCCG
1 CGTTGCGATAGTC-ATTTCCG
*
152399 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
152419 CGTTGCGAT
1 CGTTGCGAT
152428 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 1 0.02
19 12 0.29
20 27 0.66
21 1 0.02
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:154183 original size:14 final size:14
Alignment explanation
Indices: 154164--154199 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
154154 ATTATTTAAT
154164 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
154178 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
154192 TGATTTGT
1 TGATTTGT
154200 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:154428 original size:20 final size:20
Alignment explanation
Indices: 154403--154498 Score: 156
Period size: 20 Copynumber: 4.8 Consensus size: 20
154393 TCGCATTGCG
*
154403 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
154423 ATTTTCGCATTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
154443 ATTTTCACGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
154463 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
154483 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
154499 TTCCCCGTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:154434 original size:34 final size:34
Alignment explanation
Indices: 154391--154478 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 34
154381 GCGATTTTCA
*
154391 TTTCGCATTGCGATTTTCTCGTTGCGATAGCCAT
1 TTTCGCATTGCGATTTTCACGTTGCGATAGCCAT
154425 TTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCAT
1 TTTCGCATTGC----G--ATTTTCACGTTGCGATAGCCAT
*
154465 TTTCGCGTTGCGAT
1 TTTCGCATTGCGAT
154479 AGTCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
34 13 0.28
36 1 0.02
38 1 0.02
40 31 0.67
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (34 bp):
TTTCGCATTGCGATTTTCACGTTGCGATAGCCAT
Found at i:154873 original size:14 final size:14
Alignment explanation
Indices: 154854--154889 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
154844 ATTATTTAAT
154854 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
154868 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
154882 TGATTTGT
1 TGATTTGT
154890 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:155118 original size:20 final size:20
Alignment explanation
Indices: 155093--155188 Score: 156
Period size: 20 Copynumber: 4.8 Consensus size: 20
155083 TCGCATTGCG
*
155093 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
155113 ATTTTCGCATTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
155133 ATTTTCACGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
155153 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
155173 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
155189 TTCCTCGTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:155121 original size:34 final size:34
Alignment explanation
Indices: 155081--155168 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 34
155071 ACGATTTTCA
*
155081 TTTCGCATTGCGATTTTCTCGTTGCGATAGCCAT
1 TTTCGCATTGCGATTTTCACGTTGCGATAGCCAT
155115 TTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCAT
1 TTTCGCATTGC----G--ATTTTCACGTTGCGATAGCCAT
*
155155 TTTCGCGTTGCGAT
1 TTTCGCATTGCGAT
155169 AGTCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
34 13 0.28
36 1 0.02
38 1 0.02
40 31 0.67
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (34 bp):
TTTCGCATTGCGATTTTCACGTTGCGATAGCCAT
Found at i:155471 original size:690 final size:690
Alignment explanation
Indices: 154150--156222 Score: 4101
Period size: 690 Copynumber: 3.0 Consensus size: 690
154140 ATTATTATTT
154150 TTTTATTATTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
1 TTTTATTATTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
154215 ATAATTCTTATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATTTGTTGATTTTCAATCT
66 ATAATTCTTATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATTTGTTGATTTTCAATCT
154280 GCATTATGTTGAAGGCAAAACAGACTATCGCAACACGAAACTGACTATCGCAACGAGAGAATCGC
131 GCATTATGTTGAAGGCAAAACAGACTATCGCAACACGAAACTGACTATCGCAACGAGAGAATCGC
154345 AATGTGAAATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCT
196 AATGTGAAATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCT
154410 CGTTGCGATAGCCATTTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCATTTTCGCGTTG
261 CGTTGCGATAGCCATTTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCATTTTCGCGTTG
154475 CGATAGTCATTTTCGCGTTGCGATTTCCCCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATA
326 CGATAGTCATTTTCGCGTTGCGATTTCCCCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATA
154540 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
391 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
154605 AAAAGTGCACACATAAAATACACATAATACAACGTTTGCATTTAAAAATCACCTAAGTTAACAGT
456 AAAAGTGCACACATAAAATACACATAATACAACGTTTGCATTTAAAAATCACCTAAGTTAACAGT
154670 CCCAAAAGGTGAAGCCGGTTGTGATAGGGATTTTGAAGATGATTGTGATTTTGATTGCCTTTTGC
521 CCCAAAAGGTGAAGCCGGTTGTGATAGGGATTTTGAAGATGATTGTGATTTTGATTGCCTTTTGC
154735 TTGACACCATATGAGCTTTGGATTTTGATGAGGATCTATATTTTGGTAGAGGAAAAGATGATTGT
586 TTGACACCATATGAGCTTTGGATTTTGATGAGGATCTATATTTTGGTAGAGGAAAAGATGATTGT
154800 GATGGCACTAGTGAACCATATGTCAACCTTGTATGACCAC
651 GATGGCACTAGTGAACCATATGTCAACCTTGTATGACCAC
154840 TTTTATTATTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
1 TTTTATTATTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
*
154905 ATAATTCTTATTTGTGCTTGTTTAATTGATTGAAATGTACTAGTTGATTTGTTGATTTTCAATCT
66 ATAATTCTTATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATTTGTTGATTTTCAATCT
*
154970 GCATTATGTTGAAGGCAAAACAGACTATCGCAACACTAAACTGACTATCGCAACGAGAGAATCGC
131 GCATTATGTTGAAGGCAAAACAGACTATCGCAACACGAAACTGACTATCGCAACGAGAGAATCGC
*
155035 AATGTGAAATGAAAATCGCAACGAGAAAATCGCAATACGATTTTCATTTCGCATTGCGATTTTCT
196 AATGTGAAATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCT
155100 CGTTGCGATAGCCATTTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCATTTTCGCGTTG
261 CGTTGCGATAGCCATTTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCATTTTCGCGTTG
*
155165 CGATAGTCATTTTCGCGTTGCGATTTCCTCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATA
326 CGATAGTCATTTTCGCGTTGCGATTTCCCCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATA
155230 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
391 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
155295 AAAAGTGCACACATAAAATACACATAATACAACGTTTGCATTTAAAAATCACCTAAGTTAACAGT
456 AAAAGTGCACACATAAAATACACATAATACAACGTTTGCATTTAAAAATCACCTAAGTTAACAGT
155360 CCCAAAAGGTGAAGCCGGTTGTGATAGGGATTTTGAAGATGATTGTGATTTTGATTGCCTTTTGC
521 CCCAAAAGGTGAAGCCGGTTGTGATAGGGATTTTGAAGATGATTGTGATTTTGATTGCCTTTTGC
155425 TTGACACCATATGAGCTTTGGATTTTGATGAGGATCTATATTTTGGTAGAGGAAAAGATGATTGT
586 TTGACACCATATGAGCTTTGGATTTTGATGAGGATCTATATTTTGGTAGAGGAAAAGATGATTGT
155490 GATGGCACTAGTGAACCATATGTCAACCTTGTATGACCAC
651 GATGGCACTAGTGAACCATATGTCAACCTTGTATGACCAC
155530 TTTTATTATTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
1 TTTTATTATTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
155595 ATAATTCTTATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATTTGTTGATTTTCAATCT
66 ATAATTCTTATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATTTGTTGATTTTCAATCT
*
155660 GTATTATGTTGAAGGCAAAACAGACTATCGCAACACGAAACTGACTATCGCAACGAGAGAATCGC
131 GCATTATGTTGAAGGCAAAACAGACTATCGCAACACGAAACTGACTATCGCAACGAGAGAATCGC
155725 AATGTGAAATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCT
196 AATGTGAAATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCT
155790 CGTTGCGATAGCCATTTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCATTTTCGCGTTG
261 CGTTGCGATAGCCATTTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCATTTTCGCGTTG
155855 CGATAGTCATTTTCGCGTTGCGATTTCCCCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATA
326 CGATAGTCATTTTCGCGTTGCGATTTCCCCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATA
155920 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
391 ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
155985 AAAAGTGCACACATAAAATACACATAATACAACGTTTGCATTTAAAAATCACCTAAGTTAACAGT
456 AAAAGTGCACACATAAAATACACATAATACAACGTTTGCATTTAAAAATCACCTAAGTTAACAGT
156050 CCCAAAAGGTGAAGCCGGTTGTGATAGGGATTTTGAAGATGATTGTGATTTTGATTGCCTTTTGC
521 CCCAAAAGGTGAAGCCGGTTGTGATAGGGATTTTGAAGATGATTGTGATTTTGATTGCCTTTTGC
156115 TTGACACCATATGAGCTTTGGATTTTGATGAGGATCTATATTTTGGTAGAGGAAAAGATGATTGT
586 TTGACACCATATGAGCTTTGGATTTTGATGAGGATCTATATTTTGGTAGAGGAAAAGATGATTGT
156180 GATGGCACTAGTGAACCATATGTCAACCTTGTATGACCAC
651 GATGGCACTAGTGAACCATATGTCAACCTTGTATGACCAC
156220 TTT
1 TTT
156223 CCTTACACCG
Statistics
Matches: 1374, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
690 1374 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (690 bp):
TTTTATTATTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
ATAATTCTTATTTGTGCTTGTTTAATTGATTGAAATGTAATAGTTGATTTGTTGATTTTCAATCT
GCATTATGTTGAAGGCAAAACAGACTATCGCAACACGAAACTGACTATCGCAACGAGAGAATCGC
AATGTGAAATGAAAATCGCAACGAGAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCT
CGTTGCGATAGCCATTTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCATTTTCGCGTTG
CGATAGTCATTTTCGCGTTGCGATTTCCCCGTTGCGATAGTCAAATGAATGTCTAATAAGTGATA
ACAACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTT
AAAAGTGCACACATAAAATACACATAATACAACGTTTGCATTTAAAAATCACCTAAGTTAACAGT
CCCAAAAGGTGAAGCCGGTTGTGATAGGGATTTTGAAGATGATTGTGATTTTGATTGCCTTTTGC
TTGACACCATATGAGCTTTGGATTTTGATGAGGATCTATATTTTGGTAGAGGAAAAGATGATTGT
GATGGCACTAGTGAACCATATGTCAACCTTGTATGACCAC
Found at i:155563 original size:14 final size:14
Alignment explanation
Indices: 155544--155579 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
155534 ATTATTTAAT
155544 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
155558 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
155572 TGATTTGT
1 TGATTTGT
155580 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:155808 original size:20 final size:20
Alignment explanation
Indices: 155783--155878 Score: 156
Period size: 20 Copynumber: 4.8 Consensus size: 20
155773 TCGCATTGCG
*
155783 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
155803 ATTTTCGCATTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
155823 ATTTTCACGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
155843 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
155863 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
155879 TTCCCCGTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:155814 original size:34 final size:34
Alignment explanation
Indices: 155771--155858 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 34
155761 GCGATTTTCA
*
155771 TTTCGCATTGCGATTTTCTCGTTGCGATAGCCAT
1 TTTCGCATTGCGATTTTCACGTTGCGATAGCCAT
155805 TTTCGCATTGCGATAGCCATTTTCACGTTGCGATAGCCAT
1 TTTCGCATTGC----G--ATTTTCACGTTGCGATAGCCAT
*
155845 TTTCGCGTTGCGAT
1 TTTCGCATTGCGAT
155859 AGTCATTTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
34 13 0.28
36 1 0.02
38 1 0.02
40 31 0.67
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.39
Consensus pattern (34 bp):
TTTCGCATTGCGATTTTCACGTTGCGATAGCCAT
Found at i:158179 original size:12 final size:12
Alignment explanation
Indices: 158162--158186 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
158152 TCTTCGGGGA
158162 CTTTTTCTTCTT
1 CTTTTTCTTCTT
158174 CTTTTTCTTCTT
1 CTTTTTCTTCTT
158186 C
1 C
158187 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:159295 original size:41 final size:41
Alignment explanation
Indices: 159236--159313 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
159226 CGAAAGTAAG
*
159236 TATCGCGTTGCGAAAGTCAGTACCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTACCGCATTGCGATTTTGTAT
* *
159277 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCGTTGCGAAAGTCAGTACCGCATTGCGATTTT
159314 CCCAATTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTACCGCATTGCGATTTTGTAT
Found at i:159310 original size:20 final size:20
Alignment explanation
Indices: 159162--159309 Score: 154
Period size: 20 Copynumber: 7.3 Consensus size: 20
159152 GTATTATCTT
* * *
159162 GTTGCGATAGTCAGAATCTC
1 GTTGCGAAAGTCAGTATCGC
* *
159182 GTTGCGAAAGTCAGAATTGC
1 GTTGCGAAAGTCAGTATCGC
*
159202 GTTGCGAAAGTCAGAATCGC
1 GTTGCGAAAGTCAGTATCGC
*
159222 GTTGCGAAAGTAAGTATCGC
1 GTTGCGAAAGTCAGTATCGC
*
159242 GTTGCGAAAGTCAGTACCGC
1 GTTGCGAAAGTCAGTATCGC
** *
159262 GTTGCGATTTTGT-ATTATCGC
1 GTTGCGA--AAGTCAGTATCGC
*
159283 GTTGCGATAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGC
*
159303 ATTGCGA
1 GTTGCGA
159310 TTTTCCCAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.03
20 92 0.84
21 13 0.12
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGC
Found at i:159327 original size:41 final size:41
Alignment explanation
Indices: 159236--159331 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
159226 CGAAAGTAAG
* * * ** *
159236 TATCGCGTTGCGAAAGTCAGTACCGCGTTGCGATTTTGTAT
1 TATCACGTTGCGATAGTCAGTACCGCATTGCGATTTTCCAA
* *
159277 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCACGTTGCGATAGTCAGTACCGCATTGCGATTTT-CCAA
159319 T-TCACGTTGCGAT
1 TATCACGTTGCGAT
159332 TTACTTATTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.34
Consensus pattern (41 bp):
TATCACGTTGCGATAGTCAGTACCGCATTGCGATTTTCCAA
Found at i:162425 original size:37 final size:37
Alignment explanation
Indices: 162365--162513 Score: 246
Period size: 37 Copynumber: 4.0 Consensus size: 37
162355 AACATAACGT
*
162365 TAGAGTTTTACTA-GAATTTAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTATG-ATTCAAACTCCTAAAAATAGGA
*
162402 TAGAATTTTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
* *
162439 TAGAGTTTTACTATGATTCAAGCTCCTAAAAATATGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
162476 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
162513 T
1 T
162514 CCATAAGCAT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
37 103 0.99
38 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (37 bp):
TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
Found at i:163516 original size:20 final size:20
Alignment explanation
Indices: 163491--163528 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
163481 AGATTGTGCA
163491 GGGGGTACCGATTCCTCCTG
1 GGGGGTACCGATTCCTCCTG
*
163511 GGGGGTATCGATTCCTCC
1 GGGGGTACCGATTCCTCC
163529 CTAAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGTACCGATTCCTCCTG
Found at i:164480 original size:24 final size:24
Alignment explanation
Indices: 164410--164480 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
164400 CAATCTTATA
*
164410 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
* *
164433 CGGCACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
*
164457 TGGCACTTCGGTGCAATTTATACG
1 TGGCACTTCGGTGCAATTTCTACG
164481 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 12 0.29
24 29 0.71
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (24 bp):
TGGCACTTCGGTGCAATTTCTACG
Found at i:165275 original size:13 final size:13
Alignment explanation
Indices: 165257--165296 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
165247 TTGTGTAATC
165257 GGCACTGTAGCAG
1 GGCACTGTAGCAG
* *
165270 GGCACTGT-TCAC
1 GGCACTGTAGCAG
165282 GGCACTGTAGCAG
1 GGCACTGTAGCAG
165295 GG
1 GG
165297 TATCGATTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.20, C:0.25, G:0.38, T:0.17
Consensus pattern (13 bp):
GGCACTGTAGCAG
Found at i:165287 original size:12 final size:13
Alignment explanation
Indices: 165256--165293 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
165246 TTTGTGTAAT
165256 CGGCACTGTAGCA
1 CGGCACTGTAGCA
* *
165269 GGGCACTGT-TCA
1 CGGCACTGTAGCA
165281 CGGCACTGTAGCA
1 CGGCACTGTAGCA
165294 GGGTATCGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.21, C:0.29, G:0.32, T:0.18
Consensus pattern (13 bp):
CGGCACTGTAGCA
Found at i:166269 original size:20 final size:22
Alignment explanation
Indices: 166229--166270 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
166219 ATGAAGTGTT
166229 GAGCTAAAAATGAAGTGATTTTC
1 GAGCTAAAAAT-AAGTGATTTTC
166252 GAGCTAAAAAT-A-TGATTTT
1 GAGCTAAAAATAAGTGATTTT
166271 TGGGCTAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
23 11 0.58
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (22 bp):
GAGCTAAAAATAAGTGATTTTC
Found at i:166305 original size:23 final size:23
Alignment explanation
Indices: 166278--166321 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
166268 TTTTGGGCTA
* *
166278 GGGGAATCGGTACCCATTCAAGG
1 GGGGAACCGATACCCATTCAAGG
*
166301 GGGGAACCGATACCCCTTCAA
1 GGGGAACCGATACCCATTCAA
166322 ACGAATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (23 bp):
GGGGAACCGATACCCATTCAAGG
Found at i:166397 original size:21 final size:22
Alignment explanation
Indices: 166349--166397 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
166339 GAATGTCATG
*
166349 AGGGAACCGATACCCCCATAGT
1 AGGGAACCGATACCCCCATAGA
*
166371 AGGGAACCGATTCACCCC-TA-A
1 AGGGAACCGATAC-CCCCATAGA
166392 AGGGAA
1 AGGGAA
166398 ATTATAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 14 0.58
23 4 0.17
ACGTcount: A:0.35, C:0.29, G:0.24, T:0.12
Consensus pattern (22 bp):
AGGGAACCGATACCCCCATAGA
Found at i:169017 original size:28 final size:28
Alignment explanation
Indices: 168977--169030 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
168967 CGACAGTAGA
168977 TGAATGAATAAAGAAAAAAAAAATTAGT
1 TGAATGAATAAAGAAAAAAAAAATTAGT
* *
169005 TGAA-GAACTAAAGAAAGAAAAGATTA
1 TGAATGAA-TAAAGAAAAAAAAAATTA
169031 AATAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.63, C:0.02, G:0.17, T:0.19
Consensus pattern (28 bp):
TGAATGAATAAAGAAAAAAAAAATTAGT
Found at i:170811 original size:24 final size:24
Alignment explanation
Indices: 170741--170811 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
170731 CAATCTTATA
*
170741 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
* *
170764 CGGCACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
*
170788 TGGCACTTCGGTGCAATTTATACG
1 TGGCACTTCGGTGCAATTTCTACG
170812 AGTTGTGGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 12 0.29
24 29 0.71
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (24 bp):
TGGCACTTCGGTGCAATTTCTACG
Found at i:171685 original size:21 final size:22
Alignment explanation
Indices: 171637--171685 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
171627 GAATGTCATG
*
171637 AGGGAACCGATACCCCCATAGT
1 AGGGAACCGATACCCCCATAGA
*
171659 AGGGAACCGATTCACCCC-TA-A
1 AGGGAACCGATAC-CCCCATAGA
171680 AGGGAA
1 AGGGAA
171686 ATTATAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 14 0.58
23 4 0.17
ACGTcount: A:0.35, C:0.29, G:0.24, T:0.12
Consensus pattern (22 bp):
AGGGAACCGATACCCCCATAGA
Found at i:174302 original size:27 final size:28
Alignment explanation
Indices: 174264--174316 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
174254 CGACAGTAGA
174264 TGAATGAATAAAGAAA-AAAAAATTAGT
1 TGAATGAATAAAGAAAGAAAAAATTAGT
*
174291 TGAA-GAACTAAAGAAAGAAAAGATTA
1 TGAATGAA-TAAAGAAAGAAAAAATTA
174317 AATAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 3 0.13
27 12 0.52
28 8 0.35
ACGTcount: A:0.62, C:0.02, G:0.17, T:0.19
Consensus pattern (28 bp):
TGAATGAATAAAGAAAGAAAAAATTAGT
Found at i:176094 original size:24 final size:24
Alignment explanation
Indices: 176024--176094 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
176014 CAATCTTATA
*
176024 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
* *
176047 CGGCACTTCGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
*
176071 TGGCACTTCGGTGCAATTTATACG
1 TGGCACTTCGGTGCAATTTCTACG
176095 AGTTGTGGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
23 12 0.29
24 29 0.71
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (24 bp):
TGGCACTTCGGTGCAATTTCTACG
Found at i:176891 original size:25 final size:25
Alignment explanation
Indices: 176857--176906 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
176847 TTGTGTAATC
176857 GGTACTGTAGCAGGGCACTGTTCAT
1 GGTACTGTAGCAGGGCACTGTTCAT
* *
176882 GGTACTGTAGCAGGGTATTGTTCAT
1 GGTACTGTAGCAGGGCACTGTTCAT
176907 TACTATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (25 bp):
GGTACTGTAGCAGGGCACTGTTCAT
Found at i:177301 original size:16 final size:16
Alignment explanation
Indices: 177263--177311 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
177253 ATATATTTTA
*
177263 TTATTT-TTTTCTTTT
1 TTATTTCTTTTCGTTT
177278 CTTA-TTCTTTTCGTTT
1 -TTATTTCTTTTCGTTT
177294 TTATTTCTTATT-GTTT
1 TTATTTCTT-TTCGTTT
177310 TT
1 TT
177312 TTAGTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 5 0.17
16 22 0.76
17 2 0.07
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (16 bp):
TTATTTCTTTTCGTTT
Found at i:177383 original size:2 final size:2
Alignment explanation
Indices: 177378--177448 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
177368 TATATACGTG
177378 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
177420 TA 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 T
177449 TATCATTGTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:177568 original size:20 final size:21
Alignment explanation
Indices: 177543--177581 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
177533 GTTCTCTTCA
177543 TTATTTATTTA-TTATTATTG
1 TTATTTATTTATTTATTATTG
177563 TTATTTATTTATTTATTAT
1 TTATTTATTTATTTATTAT
177582 ACACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TTATTTATTTATTTATTATTG
Found at i:183523 original size:20 final size:20
Alignment explanation
Indices: 183500--183553 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
183490 TTAATTTTAC
*
183500 AAATATAAAAAAAT-CAGAAA
1 AAATACAAAAAAATCCA-AAA
183520 AAATACAAAAAAATCCAAAA
1 AAATACAAAAAAATCCAAAA
*
183540 AATTACAAAAAAAT
1 AAATACAAAAAAAT
183554 TAATATGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (20 bp):
AAATACAAAAAAATCCAAAA
Found at i:183555 original size:11 final size:10
Alignment explanation
Indices: 183500--183553 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
183490 TTAATTTTAC
*
183500 AAATATAAAA
1 AAATACAAAA
183510 AAAT-CAGAAA
1 AAATACA-AAA
183520 AAATACAAAA
1 AAATACAAAA
*
183530 AAATCCAAAA
1 AAATACAAAA
*
183540 AATTACAAAA
1 AAATACAAAA
183550 AAAT
1 AAAT
183554 TAATATGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 1 0.03
10 34 0.92
11 2 0.05
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (10 bp):
AAATACAAAA
Found at i:183575 original size:21 final size:20
Alignment explanation
Indices: 183553--183598 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
183543 TACAAAAAAA
183553 TTAATATGATTATTTATTTAATT
1 TTAATAT-ATT-TTTATTTAA-T
*
183576 TTAATATATTTTTATTTATT
1 TTAATATATTTTTATTTAAT
183596 TTA
1 TTA
183599 TAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 3 0.14
23 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTAATATATTTTTATTTAAT
Found at i:183590 original size:25 final size:27
Alignment explanation
Indices: 183562--183614 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
183552 ATTAATATGA
*
183562 TTATTTA-TTTA-ATTTTAATATATTT
1 TTATTTATTTTATAATTTAATATATTT
183587 TTATTTATTTTATAATTTAATATATTT
1 TTATTTATTTTATAATTTAATATATTT
183614 T
1 T
183615 AAGTAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.28
26 4 0.16
27 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (27 bp):
TTATTTATTTTATAATTTAATATATTT
Found at i:184044 original size:20 final size:20
Alignment explanation
Indices: 183997--184050 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
183987 AATAATCATA
* *
183997 CTAATTTTTTTGTAATTTTT
1 CTAATTTTTTTATATTTTTT
**
184017 CGGA-TTTTTTATATTTTTT
1 CTAATTTTTTTATATTTTTT
184036 CTAATTTTTTTATAT
1 CTAATTTTTTTATAT
184051 CTATAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (20 bp):
CTAATTTTTTTATATTTTTT
Found at i:197494 original size:67 final size:66
Alignment explanation
Indices: 197381--197515 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 66
197371 TTAGTTTCCC
*
197381 TTCCAATCATTAAAATGAGACCCATTGGATCATCATGTTTTCGAGTTTTTTTAATAAAAAATGAT
1 TTCCAATCATTAAAATGAGACCCATTGGATCATCATGTTTTAGAG-TTTTTTAATAAAAAATGAT
197446 GT
65 GT
197448 TTCCAATCATTAAAATGAGACCCATTGGATCATCATGTTTTAGAGTTTTTTAATAAAAAATGATG
1 TTCCAATCATTAAAATGAGACCCATTGGATCATCATGTTTTAGAGTTTTTTAATAAAAAATGATG
197513 T
66 T
197514 TT
1 TT
197516 AAAAATATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 23 0.34
67 44 0.66
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (66 bp):
TTCCAATCATTAAAATGAGACCCATTGGATCATCATGTTTTAGAGTTTTTTAATAAAAAATGATG
T
Found at i:201314 original size:19 final size:22
Alignment explanation
Indices: 201292--201337 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
201282 TTAACTTTTT
201292 ATATTATTT-ATTT-TAAT-AA
1 ATATTATTTAATTTCTAATCAA
201311 ATATT-TTTAATTTCTAATCAA
1 ATATTATTTAATTTCTAATCAA
201332 A-ATTAT
1 ATATTAT
201338 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 3 0.13
19 9 0.39
20 7 0.30
21 4 0.17
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTATTTAATTTCTAATCAA
Found at i:204773 original size:7 final size:7
Alignment explanation
Indices: 204749--204947 Score: 111
Period size: 7 Copynumber: 26.6 Consensus size: 7
204739 GATTTCTTTT
204749 TATATTA
1 TATATTA
* *
204756 TGTAGTA
1 TATATTA
204763 TATATTA
1 TATATTA
*
204770 TATAATATGG
1 TAT-AT-T-A
204780 TATATTA
1 TATATTA
204787 TATAGTATA
1 TATA-T-TA
*
204796 TATGTTA
1 TATATTA
*
204803 TAGTCTTTA
1 TA-T-ATTA
*
204812 CATAGTCTA
1 TATA-T-TA
204821 TAGTATTA
1 TA-TATTA
204829 TATATTGCA
1 TATATT--A
204838 GTATATTA
1 -TATATTA
204846 TATATTA
1 TATATTA
204853 TA-ATTA
1 TATATTA
204859 TATA-T-
1 TATATTA
204864 TATATTA
1 TATATTA
*
204871 TATAGTA
1 TATATTA
204878 TATATTA
1 TATATTA
204885 TATATT-
1 TATATTA
204891 TATATTA
1 TATATTA
204898 TATAGTATA
1 TATA-T-TA
*
204907 TATATGA
1 TATATTA
*
204914 TGTTATATA
1 T-ATAT-TA
204923 TATATTA
1 TATATTA
*
204930 TATAGTA
1 TATATTA
204937 -AGTATTA
1 TA-TATTA
204944 TATA
1 TATA
204948 CATGTGATAT
Statistics
Matches: 150, Mismatches: 19, Indels: 46
0.70 0.09 0.21
Matches are distributed among these distances:
5 4 0.03
6 15 0.10
7 73 0.49
8 22 0.15
9 25 0.17
10 11 0.07
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (7 bp):
TATATTA
Found at i:204880 original size:32 final size:31
Alignment explanation
Indices: 204839--204936 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 31
204829 TATATTGCAG
*
204839 TATATTATATATTATAATTATATATTATATTA
1 TATAGTATATA-TATAATTATATATTATATTA
204871 TATAGTATATAT-T-A-TATAT-TTATATTA
1 TATAGTATATATATAATTATATATTATATTA
*
204898 TATAGTATATATATGATGT-TATATATATATTA
1 TATAGTATATATATAAT-TATATAT-TATATTA
204930 TATAGTA
1 TATAGTA
204937 AGTATTATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
27 20 0.34
28 6 0.10
29 2 0.03
30 4 0.07
31 3 0.05
32 24 0.41
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (31 bp):
TATAGTATATATATAATTATATATTATATTA
Found at i:204959 original size:59 final size:60
Alignment explanation
Indices: 204856--204970 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 60
204846 TATATTATAA
**
204856 TTATATATTATATTATATAGTATATATTATATATTTATATTATATAGTATATATATGATG
1 TTATATATTATATTATATAGTATATATTATATACATATATTATATAGTATATATATGATG
* *
204916 TTATATA-TATATTATATAGTA-AGTATTATATACATGTGA-TATATTGTATATATAT
1 TTATATATTATATTATATAGTATA-TATTATATACATAT-ATTATATAGTATATATAT
204971 ACAAAATGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 1 0.02
59 40 0.82
60 8 0.16
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (60 bp):
TTATATATTATATTATATAGTATATATTATATACATATATTATATAGTATATATATGATG
Found at i:204990 original size:2 final size:2
Alignment explanation
Indices: 204839--204971 Score: 76
Period size: 2 Copynumber: 70.0 Consensus size: 2
204829 TATATTGCAG
204839 TA TA T- TA TA TA T- TA TA -A T- 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
* *
204875 GTA TA TA T- TA TA TA TT TA TA T- TA TA TA GTA TA TA TA TGA TG
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T-A TA
* *
204916 T- TA TA TA TA TA T- TA TA TA GTA -A GTA T- TA TA TA CA TG TGA
1 TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA T-A
*
204955 TA TA T- TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
204972 CAAAATGTAT
Statistics
Matches: 104, Mismatches: 8, Indels: 38
0.69 0.05 0.25
Matches are distributed among these distances:
1 13 0.12
2 81 0.78
3 10 0.10
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:206268 original size:12 final size:12
Alignment explanation
Indices: 206237--206289 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
206227 AACATTTTCT
*
206237 TTATTTCATTTTT
1 TTATTT-ATTTTA
*
206250 TTCTTTATTTTA
1 TTATTTATTTTA
206262 TTATTTATTTTA
1 TTATTTATTTTA
*
206274 TT-CTTATTTTA
1 TTATTTATTTTA
206285 -TATTT
1 TTATTT
206290 TTAATTTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 1 0.03
11 10 0.29
12 18 0.53
13 5 0.15
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:206292 original size:24 final size:24
Alignment explanation
Indices: 206237--206289 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
206227 AACATTTTCT
*
206237 TTATTTCATTTTTTTCTTTATTTTA
1 TTATTT-ATTTTATTCTTTATTTTA
206262 TTATTTATTTTATTC-TTATTTTA
1 TTATTTATTTTATTCTTTATTTTA
206285 -TATTT
1 TTATTT
206290 TTAATTTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 8 0.30
24 8 0.30
25 6 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (24 bp):
TTATTTATTTTATTCTTTATTTTA
Found at i:207127 original size:13 final size:14
Alignment explanation
Indices: 207109--207153 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
207099 GAGAGACACC
207109 AGAAATTAATAAT-
1 AGAAATTAATAATA
*
207122 AGAAATTAGTATATA
1 AGAAATTAATA-ATA
*
207137 AGAAATTAATAAAA
1 AGAAATTAATAATA
207151 AGA
1 AGA
207154 CTTAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 10 0.37
14 7 0.26
15 10 0.37
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (14 bp):
AGAAATTAATAATA
Found at i:208221 original size:28 final size:26
Alignment explanation
Indices: 208167--208226 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
208157 TTGGGTTTTC
**
208167 TATAAAAAAATATAATCTTAATTTTT
1 TATAAAAAAATATAATCTTAAAATTT
* *
208193 TTTAAAAAAATATAAAATTTTAAAATTT
1 TATAAAAAAATAT--AATCTTAAAATTT
208221 TATAAA
1 TATAAA
208227 GACGACACGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 12 0.44
28 15 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAAAAAAATATAATCTTAAAATTT
Found at i:210356 original size:12 final size:12
Alignment explanation
Indices: 210339--210363 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
210329 AATGAATTTT
210339 AAGATTTTATAA
1 AAGATTTTATAA
210351 AAGATTTTATAA
1 AAGATTTTATAA
210363 A
1 A
210364 TTTTATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAGATTTTATAA
Found at i:210559 original size:20 final size:20
Alignment explanation
Indices: 210534--210571 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
210524 TTTGTGAAGG
210534 GATGCACCGATGCACTCAAT
1 GATGCACCGATGCACTCAAT
210554 GATGCACCGATGCACTCA
1 GATGCACCGATGCACTCA
210572 CCATATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (20 bp):
GATGCACCGATGCACTCAAT
Found at i:210703 original size:64 final size:63
Alignment explanation
Indices: 210580--210730 Score: 214
Period size: 64 Copynumber: 2.4 Consensus size: 63
210570 CACCATATCA
* * *
210580 AATGCATTTTATGCATCGATGCACTACCATGCATCGATACACTCGGGTTTTATGAAAACATCG
1 AATGCATTTTATGCATCGATGCACGACCATGCATCGATACACGCAGGTTTTATGAAAACATCG
* * *
210643 AATGAATTTTATGCATCGATGCACAGACCATGCATCGATGCACGCAGGTTTGTTTG-AAACATCG
1 AATGCATTTTATGCATCGATGCAC-GACCATGCATCGATACACGCAGGTTT-TATGAAAACATCG
*
210707 AATGCGTTTTATGCATCGATGCAC
1 AATGCATTTTATGCATCGATGCAC
210731 TCTTAGTGCA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
63 23 0.29
64 52 0.67
65 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (63 bp):
AATGCATTTTATGCATCGATGCACGACCATGCATCGATACACGCAGGTTTTATGAAAACATCG
Found at i:211748 original size:14 final size:14
Alignment explanation
Indices: 211729--211755 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
211719 ATAAAAAACA
211729 TGATTTCTGATCTT
1 TGATTTCTGATCTT
211743 TGATTTCTGATCT
1 TGATTTCTGATCT
211756 CTAGTTTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (14 bp):
TGATTTCTGATCTT
Found at i:212800 original size:12 final size:12
Alignment explanation
Indices: 212783--212825 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
212773 TTTAATATTT
212783 ATCGGGCCGGGA
1 ATCGGGCCGGGA
** *
212795 ATCGGGTAGGGT
1 ATCGGGCCGGGA
212807 ATCGGGCCGGGTA
1 ATCGGGCCGGG-A
212820 ATCGGG
1 ATCGGG
212826 TAATCGGGGC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.16, C:0.19, G:0.49, T:0.16
Consensus pattern (12 bp):
ATCGGGCCGGGA
Found at i:212904 original size:30 final size:30
Alignment explanation
Indices: 212859--212935 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
212849 CCCGTCCCCG
* *
212859 TCCCTGTCCCTGTTTAACATAAACGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTTT
* *
212889 TCCCCGTCCCCGTTTAGCATAAATGGTTTT
1 TCCCCGTCCCCGTTTAACATAAACGGTTTT
* *
212919 TTCTCGTCCCCGTTTAA
1 TCCCCGTCCCCGTTTAA
212936 TTCAGTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.17, C:0.30, G:0.14, T:0.39
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAACATAAACGGTTTT
Found at i:221722 original size:19 final size:20
Alignment explanation
Indices: 221673--221722 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
221663 TTAACTTTTT
221673 CTTTTATCTTTCATTATTAA
1 CTTTTATCTTTCATTATTAA
* *
221693 TTTTTTTCTTTCATT-TTAA
1 CTTTTATCTTTCATTATTAA
*
221712 CTTTTACCTTT
1 CTTTTATCTTT
221723 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (20 bp):
CTTTTATCTTTCATTATTAA
Found at i:229154 original size:15 final size:15
Alignment explanation
Indices: 229134--229179 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
229124 CCGTCAAATC
229134 ATATTAATAA-ATAAA
1 ATATTAA-AATATAAA
229149 ATATTAAAATATAAA
1 ATATTAAAATATAAA
229164 ATATTCAAAATTATAA
1 ATATT-AAAA-TATAA
229180 TGAATGTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.07
15 17 0.61
16 4 0.14
17 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATTAAAATATAAA
Found at i:229980 original size:2 final size:2
Alignment explanation
Indices: 229973--230040 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
229963 TAGTTGATGA
229973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
230015 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
230041 TGATTATTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:230481 original size:16 final size:16
Alignment explanation
Indices: 230462--230495 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
230452 CCCACCACCA
230462 ATATATTATTTTTAAT
1 ATATATTATTTTTAAT
230478 ATATATTATTTTTAAT
1 ATATATTATTTTTAAT
230494 AT
1 AT
230496 TTTTTGGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATATTATTTTTAAT
Found at i:231901 original size:24 final size:24
Alignment explanation
Indices: 231874--231922 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
231864 CGTTTGTGAA
231874 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
231898 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
231922 C
1 C
231923 ATTCATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.14, G:0.24, T:0.53
Consensus pattern (24 bp):
CGTTCGGTTATGTTCGTTTATGTT
Found at i:231902 original size:14 final size:14
Alignment explanation
Indices: 231874--231915 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
231864 CGTTTGTGAA
231874 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
231888 CG-T---TTATGTT
1 CGTTCGGTTATGTT
231898 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
231912 CGTT
1 CGTT
231916 TATGTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.07, C:0.14, G:0.26, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:231932 original size:24 final size:24
Alignment explanation
Indices: 231880--231935 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
231870 TGAACGTTCG
* *
231880 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTCGTTTATGTTCATTCA
231904 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCGTTTATGTTCATTCA
*
231928 TTTATGTT
1 GTTATGTT
231936 TAACCCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.11, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTATGTTCGTTTATGTTCATTCA
Found at i:233032 original size:16 final size:16
Alignment explanation
Indices: 233011--233085 Score: 123
Period size: 16 Copynumber: 4.7 Consensus size: 16
233001 GTCTCCAACA
*
233011 TTTATGTTCATGTTCG
1 TTTATGTTCGTGTTCG
*
233027 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCG
*
233043 TTTATATTCGTGTTCG
1 TTTATGTTCGTGTTCG
233059 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCG
233075 TTTATGTTCGT
1 TTTATGTTCGT
233086 TTATTTATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 54 1.00
ACGTcount: A:0.11, C:0.12, G:0.20, T:0.57
Consensus pattern (16 bp):
TTTATGTTCGTGTTCG
Found at i:233759 original size:19 final size:19
Alignment explanation
Indices: 233732--233943 Score: 142
Period size: 19 Copynumber: 11.1 Consensus size: 19
233722 GAATTTCTTT
*
233732 TTATATTATGTAGTATATA
1 TTATATTATATAGTATATA
*
233751 TTATTTTATATAGTATATA
1 TTATATTATATAGTATATA
233770 TTATATAGTATATATGT-TATA
1 TTATAT--TATATA-GTATATA
* * *
233791 GTT-T-TTACATGGTTTATA
1 -TTATATTATATAGTATATA
* *
233809 GTAT-TATATATTGTAGTATA
1 TTATAT-TATATAGTA-TATA
233829 TTATAATTATATA--ATATA
1 TTAT-ATTATATAGTATATA
233847 TTATA-TAGTATA-TATATA
1 TTATATTA-TATAGTATATA
*
233865 TTATGTTATATAGTATATA
1 TTATATTATATAGTATATA
233884 -TATATATATATA-TATATA
1 TTATAT-TATATAGTATATA
233902 TATATATTATATTATGT-TATA
1 T-TATATTATA-TA-GTATATA
233923 -TATATTATAATAGTATTATA
1 TTATATTAT-ATAGTA-TATA
233943 T
1 T
233944 CATAGAGTAT
Statistics
Matches: 156, Mismatches: 13, Indels: 46
0.73 0.06 0.21
Matches are distributed among these distances:
16 2 0.01
17 8 0.05
18 43 0.28
19 57 0.37
20 20 0.13
21 20 0.13
22 6 0.04
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
TTATATTATATAGTATATA
Found at i:233762 original size:14 final size:15
Alignment explanation
Indices: 233733--233931 Score: 122
Period size: 16 Copynumber: 12.6 Consensus size: 15
233723 AATTTCTTTT
*
233733 TATATTATGTAGTATA
1 TATATTATATA-TATA
*
233749 TATTATTTTATATAGTA
1 TA-TATTATATATA-TA
233766 TATATTATATAGTATA
1 TATATTATATA-TATA
* * *
233782 TATGTTATAGTTTTTA
1 TATATTATA-TATATA
* *
233798 CATGGTT-TATAGTATTA
1 TAT-ATTATATA-TA-TA
*
233815 TATATTGTAGTATAT-
1 TATATTATA-TATATA
233830 TATAATTATATA-ATA
1 TAT-ATTATATATATA
233845 TAT-TATATAGTATATA
1 TATAT-TATA-TATATA
*
233861 TATATTATGT-TATA
1 TATATTATATATATA
233875 TAGTATATATATATATA
1 TA-TAT-TATATATATA
233892 TATATATATATATATA
1 TATAT-TATATATATA
*
233908 TTATATTATGT-TATA
1 -TATATTATATATATA
233923 TATATTATA
1 TATATTATA
233932 ATAGTATTAT
Statistics
Matches: 148, Mismatches: 16, Indels: 40
0.73 0.08 0.20
Matches are distributed among these distances:
13 1 0.01
14 20 0.14
15 19 0.13
16 69 0.47
17 37 0.25
18 2 0.01
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.53
Consensus pattern (15 bp):
TATATTATATATATA
Found at i:233832 original size:25 final size:24
Alignment explanation
Indices: 233805--233955 Score: 117
Period size: 23 Copynumber: 6.4 Consensus size: 24
233795 TTACATGGTT
*
233805 TATAGTAT-TATATATTGTAG-TA
1 TATAGTATATATATATTATAGTTA
*
233827 TAT--TATAATTATATAATATA-TTA
1 TATAGTAT-A-TATATATTATAGTTA
233850 TATAGTATATATATATTAT-GTTA
1 TATAGTATATATATATTATAGTTA
233873 TATAGTATATATATATATATA-TATA
1 TATAGTATATATATAT-TATAGT-TA
233898 TATA-TATATATTATATTAT-GTTA
1 TATAGTATATA-TATATTATAGTTA
*
233921 TATA-TATTATAATAGTATTATA-TCA
1 TATAGTA-TAT-ATA-TATTATAGTTA
*
233946 TAGAGTATAT
1 TATAGTATAT
233956 GTTGGGTTAT
Statistics
Matches: 107, Mismatches: 5, Indels: 31
0.75 0.03 0.22
Matches are distributed among these distances:
20 3 0.03
22 3 0.03
23 50 0.47
24 20 0.19
25 29 0.27
26 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (24 bp):
TATAGTATATATATATTATAGTTA
Found at i:233847 original size:2 final size:2
Alignment explanation
Indices: 233825--233943 Score: 102
Period size: 2 Copynumber: 64.5 Consensus size: 2
233815 TATATTGTAG
233825 TA TA T- TA TA -A T- TA TA TA -A TA TA T- TA TA TA GTA 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
*
233863 TA T- TA TG T- TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
*
233904 TA TA T- TA TA T- TA TG T- TA TA TA TA T- TA TA -A TA GTA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
233941 TA T
1 TA T
233944 CATAGAGTAT
Statistics
Matches: 99, Mismatches: 2, Indels: 32
0.74 0.02 0.24
Matches are distributed among these distances:
1 13 0.13
2 80 0.81
3 6 0.06
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:243917 original size:7 final size:7
Alignment explanation
Indices: 243905--243977 Score: 57
Period size: 7 Copynumber: 11.1 Consensus size: 7
243895 TCCTACAGTA
243905 TATATAT
1 TATATAT
*
243912 TATATAG
1 TATATAT
*
243919 TATGTAT
1 TATATAT
243926 TATATAT
1 TATATAT
* *
243933 AAAATA-
1 TATATAT
243939 TAT-TAT
1 TATATAT
*
243945 AATATAT
1 TATATAT
243952 TATATAT
1 TATATAT
243959 TAT-T-T
1 TATATAT
243964 TA-ATAT
1 TATATAT
*
243970 TATTTAT
1 TATATAT
243977 T
1 T
243978 TGTTTTTAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
5 6 0.12
6 7 0.14
7 37 0.74
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (7 bp):
TATATAT
Found at i:244002 original size:18 final size:19
Alignment explanation
Indices: 243939--244002 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
243929 ATATAAAATA
*
243939 TATTATAATA-TATTATATAT
1 TATTTTAATATTATT-TAT-T
243959 TATTTTAATATTATTTATT
1 TATTTTAATATTATTTATT
*
243978 TGTTTTTAATAATT-TTT-TT
1 T-ATTTTAAT-ATTATTTATT
243997 TATTTT
1 TATTTT
244003 TTTAGGTCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 4 0.11
19 5 0.13
20 22 0.58
21 7 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTTAATATTATTTATT
Found at i:245218 original size:18 final size:17
Alignment explanation
Indices: 245149--245260 Score: 111
Period size: 18 Copynumber: 6.2 Consensus size: 17
245139 TAATTTAACA
245149 TTTATTTTTATTTTTTAT
1 TTTATTTTTA-TTTTTAT
245167 TTT-TTTTTATTTTTTATT
1 TTTATTTTTA-TTTTTA-T
245185 TTTATTTTTATTTTTATT
1 TTTATTTTTATTTTTA-T
*
245203 TTTATTTTTATCTTTAT
1 TTTATTTTTATTTTTAT
*
245220 CTTTATTATTT-GTTTTAT
1 -TTTATT-TTTATTTTTAT
*
245238 TCTTATTTTATATTTTTAA
1 T-TTATTTT-TATTTTTAT
245257 TTTA
1 TTTA
245261 ACCTTTTTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
17 17 0.21
18 50 0.61
19 15 0.18
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTTAT
Found at i:245358 original size:7 final size:7
Alignment explanation
Indices: 245346--245390 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
245336 TAAAATTTAA
245346 TTTAATT
1 TTTAATT
245353 TTTAATT
1 TTTAATT
245360 TTTAATT
1 TTTAATT
245367 TTTAATT
1 TTTAATT
245374 TTTAATT
1 TTTAATT
245381 TTTAATT
1 TTTAATT
245388 TTT
1 TTT
245391 GTAATTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTAATT
Found at i:246116 original size:13 final size:14
Alignment explanation
Indices: 246098--246170 Score: 78
Period size: 13 Copynumber: 5.2 Consensus size: 14
246088 GAGAGACGCC
246098 AGAAATTAATAAT-
1 AGAAATTAATAATA
*
246111 AGAAATTAGTATATA
1 AGAAATTAATA-ATA
*
246126 AAAAATTAATAAT-
1 AGAAATTAATAATA
*
246139 AGAAATTAGTATATA
1 AGAAATTAATA-ATA
*
246154 AGAAATTAATAAAA
1 AGAAATTAATAATA
246168 AGA
1 AGA
246171 CTTGATATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
13 19 0.39
14 11 0.22
15 19 0.39
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (14 bp):
AGAAATTAATAATA
Found at i:246140 original size:28 final size:28
Alignment explanation
Indices: 246100--246165 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
246090 GAGACGCCAG
246100 AAATTAATAATAGAAATTAGTATATAAA
1 AAATTAATAATAGAAATTAGTATATAAA
*
246128 AAATTAATAATAGAAATTAGTATATAAG
1 AAATTAATAATAGAAATTAGTATATAAA
246156 AAATTAATAA
1 AAATTAATAA
246166 AAAGACTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (28 bp):
AAATTAATAATAGAAATTAGTATATAAA
Found at i:248296 original size:5 final size:5
Alignment explanation
Indices: 248288--248422 Score: 61
Period size: 5 Copynumber: 26.0 Consensus size: 5
248278 TTATGTAGTA
* *
248288 TATAT TATAT AATAT GGTATAT TATA- TAGTA- TATAT GATATAG TATATT
1 TATAT TATAT TATAT --TATAT TATAT TA-TAT TATAT --TATAT TATA-T
248337 ATATAT TATAAT TATATTT TATAT TATA- TAGTA- TATAT TATA- TAT-T
1 -TATAT TAT-AT TATA--T TATAT TATAT TA-TAT TATAT TATAT TATAT
* *
248383 TATAT TATA- TAGTAT ATATAT TATGT TAT-G TATAT TATAT
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT
248423 AGTAAGTATT
Statistics
Matches: 104, Mismatches: 7, Indels: 38
0.70 0.05 0.26
Matches are distributed among these distances:
4 19 0.18
5 57 0.55
6 9 0.09
7 19 0.18
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:248298 original size:2 final size:2
Alignment explanation
Indices: 248286--248440 Score: 81
Period size: 2 Copynumber: 81.5 Consensus size: 2
248276 TATTATGTAG
*
248286 TA TA TA T- TA TA TA -A TA TGG TA TA T- TA TA TA GTA TA TA TGA
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA -TA TA TA T-A
*
248326 TA TA GTA TA T- TA TA TA T- TA TA -A T- TA TA T- TT TA TA T- TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
248363 TA TA GTA TA TA T- TA TA TA TT TA TA T- TA TA TA GTA TA TA TA T-
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
248404 TA TG T- TA TG TA TA T- TA TA TA GTA -A GTA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA T
248441 GTGATAGTAT
Statistics
Matches: 121, Mismatches: 8, Indels: 48
0.68 0.05 0.27
Matches are distributed among these distances:
1 16 0.13
2 91 0.75
3 14 0.12
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
TA
Found at i:248298 original size:7 final size:7
Alignment explanation
Indices: 248274--248438 Score: 121
Period size: 7 Copynumber: 23.7 Consensus size: 7
248264 GATTTCTTTT
248274 TATATTA
1 TATATTA
* *
248281 TGTAGTA
1 TATATTA
248288 TATATTA
1 TATATTA
*
248295 TATAATATGG
1 TAT-AT-T-A
248305 TATATTA
1 TATATTA
*
248312 TATAGTA
1 TATATTA
*
248319 TATATGA
1 TATATTA
*
248326 TATA--G
1 TATATTA
248331 TATATTA
1 TATATTA
248338 TATATTA
1 TATATTA
248345 TA-ATTA
1 TATATTA
248351 TAT-TT-
1 TATATTA
248356 TATATTA
1 TATATTA
*
248363 TATAGTA
1 TATATTA
248370 TATATTA
1 TATATTA
248377 TATATT-
1 TATATTA
248383 TATATTA
1 TATATTA
248390 TATAGTATA
1 TATA-T-TA
248399 TATATTA
1 TATATTA
* *
248406 TGT-TATG
1 TATAT-TA
248413 TATATTA
1 TATATTA
*
248420 TATAGTA
1 TATATTA
248427 -AGTATTA
1 TA-TATTA
248434 TATAT
1 TATAT
248439 ATGTGATAGT
Statistics
Matches: 124, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
5 7 0.06
6 18 0.15
7 80 0.65
8 7 0.06
9 9 0.07
10 3 0.02
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (7 bp):
TATATTA
Found at i:248435 original size:19 final size:20
Alignment explanation
Indices: 248413--248458 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
248403 TTATGTTATG
248413 TATATTATATAGT-A-AGTAT
1 TATATTATAT-GTGATAGTAT
248432 TATA-TATATGTGATAGTAT
1 TATATTATATGTGATAGTAT
*
248451 TATGTTAT
1 TATATTAT
248459 TTACATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 6 0.26
19 12 0.52
20 3 0.13
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (20 bp):
TATATTATATGTGATAGTAT
Found at i:248437 original size:16 final size:19
Alignment explanation
Indices: 248391--248453 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 19
248381 TTTATATTAT
*
248391 ATAGTA-TATATATTATGTT
1 ATAGTATTATATA-TATGTG
248410 AT-GTA-TAT-TATATAGT-
1 ATAGTATTATATATAT-GTG
248426 A-AGTATTATATATATGTG
1 ATAGTATTATATATATGTG
248444 ATAGTATTAT
1 ATAGTATTAT
248454 GTTATTTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 7 0.18
17 9 0.24
18 12 0.32
19 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (19 bp):
ATAGTATTATATATATGTG
Found at i:249621 original size:18 final size:17
Alignment explanation
Indices: 249594--249633 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
249584 TTAATTTAAC
249594 ATTT-TCTTTATTTCATT
1 ATTTATCTTTATTT-ATT
*
249611 TTTTATCTTTATTTATT
1 ATTTATCTTTATTTATT
249628 ATTTAT
1 ATTTAT
249634 TTCATTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTATCTTTATTTATT
Found at i:249652 original size:29 final size:29
Alignment explanation
Indices: 249600--249662 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
249590 TAACATTTTC
*
249600 TTTATTTCATTTTTTATCTTTATTTATT-A
1 TTTATTTCATTTCTTATCTTTATTT-TTAA
*
249629 TTTATTTCA-TTCTTATTTTATATTTTTAA
1 TTTATTTCATTTCTTATCTT-TATTTTTAA
249658 TTTAT
1 TTTAT
249663 CCTTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (29 bp):
TTTATTTCATTTCTTATCTTTATTTTTAA
Done.