Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016498.1 Corchorus olitorius cultivar O-4 contig16531, 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: 72925
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:688 original size:16 final size:14
Alignment explanation
Indices: 657--685 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
647 GTAAGTAAAT
657 TTGGAATTTTTATA
1 TTGGAATTTTTATA
671 TTGGAATTTTTATA
1 TTGGAATTTTTATA
685 T
1 T
686 ATTAACTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTGGAATTTTTATA
Found at i:745 original size:52 final size:52
Alignment explanation
Indices: 670--768 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
660 GAATTTTTAT
* *
670 ATTGGAATTTTTATATATTAACTGTTAACTTTATTGAATAAAGTTTTTAAAG
1 ATTGGAATTTTTATACATCAACTGTTAACTTTATTGAATAAAGTTTTTAAAG
*
722 ATTGGAATTTTTATGCATCAACTGTTAACTTTATTGAATAAAGTTTT
1 ATTGGAATTTTTATACATCAACTGTTAACTTTATTGAATAAAGTTTT
769 AAGTTTGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (52 bp):
ATTGGAATTTTTATACATCAACTGTTAACTTTATTGAATAAAGTTTTTAAAG
Found at i:5405 original size:63 final size:63
Alignment explanation
Indices: 5326--5450 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
5316 ACCAAAAATG
*
5326 TCCAGCTTCCAAATCACTTTCAATGATTTCTCAACGCAGTTATCAGTATCACGGTTGGTAACT
1 TCCAGCTTCCAAATCACTTTCAATGATTTCTCAACGCAGTTATCAATATCACGGTTGGTAACT
*
5389 TCCAGTTTCCAAATCACTTTCAATGATTTCTCAACGCAGTTATCAATATCACGGTTGGTAAC
1 TCCAGCTTCCAAATCACTTTCAATGATTTCTCAACGCAGTTATCAATATCACGGTTGGTAAC
5451 CGGATTAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (63 bp):
TCCAGCTTCCAAATCACTTTCAATGATTTCTCAACGCAGTTATCAATATCACGGTTGGTAACT
Found at i:6290 original size:2 final size:2
Alignment explanation
Indices: 6283--6327 Score: 81
Period size: 2 Copynumber: 22.0 Consensus size: 2
6273 TTAATTTACC
6283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
6326 AT
1 AT
6328 TTTTTAGTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7008 original size:8 final size:8
Alignment explanation
Indices: 6995--7025 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
6985 TGTTTAGTAT
6995 ATTTCCAC
1 ATTTCCAC
7003 ATTTCCAC
1 ATTTCCAC
7011 ATTTCCAC
1 ATTTCCAC
7019 ATTTCCA
1 ATTTCCA
7026 AAAGTACAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (8 bp):
ATTTCCAC
Found at i:7822 original size:57 final size:57
Alignment explanation
Indices: 7734--7849 Score: 207
Period size: 57 Copynumber: 2.0 Consensus size: 57
7724 TATCAGTTTC
*
7734 CTTTCACACAATAAATGTTATAATAAATCCTATC-CCCCATATCTCTACTTACTTATT
1 CTTTCACACAATAAATGTTATAATAAATCCTATCTCCCC-TATCTCTACTTAATTATT
7791 CTTTCACACAATAAATGTTATAATAAATCCTATCTCCCCTATCTCTACTTAATTATT
1 CTTTCACACAATAAATGTTATAATAAATCCTATCTCCCCTATCTCTACTTAATTATT
7848 CT
1 CT
7850 ACAAAATAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 53 0.93
58 4 0.07
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.40
Consensus pattern (57 bp):
CTTTCACACAATAAATGTTATAATAAATCCTATCTCCCCTATCTCTACTTAATTATT
Found at i:8354 original size:21 final size:21
Alignment explanation
Indices: 8330--8396 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
8320 GATATTCATG
8330 ATTTGAGTTGAGTATTTCTTA
1 ATTTGAGTTGAGTATTTCTTA
*** *
8351 ATTT-A-CAAAGAATTTTCTATA
1 ATTTGAGTTGAGTA-TTTCT-TA
8372 ATTTGAGTTGAGTATTTCTTA
1 ATTTGAGTTGAGTATTTCTTA
8393 ATTT
1 ATTT
8397 ACAGAGAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 16 0.47
22 6 0.18
23 3 0.09
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (21 bp):
ATTTGAGTTGAGTATTTCTTA
Found at i:8389 original size:42 final size:42
Alignment explanation
Indices: 8330--8409 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
8320 GATATTCATG
8330 ATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTATA
1 ATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTATA
*
8372 ATTTGAGTTGAGTATTTCTTAATTTACAGAGAATTTTC
1 ATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTC
8410 AAGACTTAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.47
Consensus pattern (42 bp):
ATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTATA
Found at i:9357 original size:24 final size:24
Alignment explanation
Indices: 9300--9349 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9290 AATTTTCTTG
9300 AAATCCAAAAAGAAATTCTATTAC
1 AAATCCAAAAAGAAATTCTATTAC
9324 AAATCCAAAAAGAAATTCTATTAC
1 AAATCCAAAAAGAAATTCTATTAC
9348 AA
1 AA
9350 GAGCAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.16, G:0.04, T:0.24
Consensus pattern (24 bp):
AAATCCAAAAAGAAATTCTATTAC
Found at i:11294 original size:16 final size:17
Alignment explanation
Indices: 11257--11294 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
11247 TTCTAATACT
11257 TATT-TTTAGATTATAA
1 TATTATTTAGATTATAA
11273 TA-TATTTA-ATTATAA
1 TATTATTTAGATTATAA
11288 TATTATT
1 TATTATT
11295 ATTTATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTATTTAGATTATAA
Found at i:13647 original size:661 final size:664
Alignment explanation
Indices: 11637--14178 Score: 2898
Period size: 661 Copynumber: 3.8 Consensus size: 664
11627 ATACTTTACA
* *
11637 TCATCTAACCAAATCTCAGCAACATTGGATTTAA-GATTT-TTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * *
11700 TTTGATTTTATTAGAAATTAATTTAGATAAAAAAAGAAAAGAAAATACGATATTAAAAGCGTAAA
66 TTCGATTTAATTAGAAATTAATTT-GAGAAAAATAG----GAAAA-ACAATATTAAAAGCGTTAA
*
11765 AAGCCCTCCAATCTTTTTG--G-CG-TTGAA-ATA-TTTTTATGAGTATTTTAGCCAAAAATTGA
125 AAGCCCTCCAATCTTTTTGATGTCGAAT-AATATATTTTTTATGAGTATTTTAGCCAAAAATTGA
* * * * ** *
11824 GGAGAA-ATCTTTTGTGTCTATTTTTGAAAAATTTTAGTCGAAATCGTGTACTAACAAATCGTCA
189 GGA-AATATCTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAAC----CATCA
* * * * ** ** * * *
11888 CAGTTTTTGGCTAAAAACGCGTTCCGGGGACTTGACTCAATTTTGTATGACTTTTGGCTCCGAGA
249 CGGTTTTTCGCTAAAAACGCGTTCCAGGGCCACGACTCTGTTTTGCATGATTTTTGGCGCCGAGA
* * *
11953 CTACTTGAAATATCTATATTCATCTAATTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTT
314 CTCCTTGAAATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAATTAAGGATTTGTTTTT
* * *
12018 ACGAGCATCTGAATCTTGTTTCGATTTAATTATAAATTAATT-TGGAAAAATAGGAAAAACGATA
379 ACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCTGAAAAAATATGAAAAACGATA
* * * * * * * *
12082 TTAGAAGCGTTATTAGAAGCATGAAAAACCCTTCAATCTTTTTGGCGTTTAATTATATAATTTTT
444 TTAAAAGCGTGA--A-AA-C--G-----TCCTCCAATCCTTTTGACGTTGAATTATATATTTTTT
* * * * * * *
12147 ATGAGTATTGTGGATAAAAATTGAGGAAATAA-CTTTCGAGTCAATCGATTTTTGTATAATTCTA
498 ATGAGTATTTTTGCTAAAAATCGAGGAAA-AATCTTTCGAGTCAA-C---TTTTGCAAAATTTTA
* * * * * * *
12211 GCTGAAATC--GTGTAATAATCATAAC-AGTTTTTGGCTAAAAACGCATTCCGGGGCTCCGGCT-
558 GCCGAAATCATGTTTAA-AA-CATCACGA-TTTTCGGCTAAAACCGCGTTCCGGGGC-CCGACTC
* * * *
12272 AGGTTTTGCATGATTTTTGGCGCCAAGACTCTTTGAGATATCCATAT
619 A-GTTTTGCATGATTTTTTGTGCCAAGACTCTTTGAAATATCTATAT
* * * * * * ** *
12319 TCATTTAATCTAATCTCAGCTACATTGGATTGAATAATTTGTTTTTACGAGCATCTGAATTTTGT
1 TCATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * ** * *
12384 TTCAATTTAACTAGAAATTAA-TTCAGAAAAATATGAAAAACGATATTAAAAATGTGAAAAGTCC
66 TTCGATTTAATTAGAAATTAATTTGAGAAAAATAGGAAAAACAATATTAAAAGCGTTAAAAGCCC
* * ** * ** *
12448 TCCAATATTTTTGACGTTAAATTATATACATTTTATGAGTATTTTAGCCAAAAATTGATGGAAAA
131 TCCAATCTTTTTGATGTCGAATAATATATTTTTTATGAGTATTTTAGCCAAAAATTGA-GGAAAT
*
12513 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG-TTTTCGG
195 ATCTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGGTTTTTC-G
* * * * *
12577 CTAAAAACGCATTCCGGGGCC-TGACT-TAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTTAA
259 CTAAAAACGCGTTCCAGGGCCACGACTCT-GTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAA
* * *
12640 ATATCTATATTCATCTAATCAAATCTCAGCCACGTT-GAATTTAATGATTTGTTTTTACAAGCAT
323 ATATCTATATTCATCTAATCAAATCTCAGCCACATTGGAA-TTAAGGATTTGTTTTTACGAGCAT
* * * * *
12704 CAGAATCATGTTTCGATTTAATTAGAAATTACTTCAG-AAAAACATGAAAAACGATATTAAAAGC
387 CTGAATCTTGTTTCGATTTAATTAGAAATTAATTCTGAAAAAATATGAAAAACGATATTAAAAGC
* * * * * * * ** * * *
12768 GTGAAAAAGGCTTTCAAT-TTTTTTAGTGTTGAATTATATATTTTTTACAAGTGTTTTCGCTAGA
452 GTGAAAACGTCCTCCAATCCTTTTGA-CGTTGAATTATATATTTTTTATGAGTATTTTTGCTAAA
* * * * *
12832 AATCGAGGAAAAATCCTCCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCATATATT-AATCAT
516 AATCGAGGAAAAATCTTTCGAGTCAACTTTTGCAAAATTTTAGCCGAAATCATGT-TTAAAACAT
* ** ***
12896 CACGGTTTTCGGCTAAAACCAAGTTCCGGGGTTAGACTCAGTTTTGCATGA-TTTTTGTTGCCAA
580 CACGATTTTCGGCTAAAACCGCGTTCCGGGGCCCGACTCAGTTTTGCATGATTTTTTG-TGCCAA
*
12960 GACTCTTTGAAATATTTATAT
644 GACTCTTTGAAATATCTATAT
* *
12981 TCATCTAACCAAATCTCAACCACATTAGATTTAAGGATTTGTTTTTACGAGTATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * *
13046 TTCGATTTAGTTAGAAATTAATTTGA-AAAAATAGGAAAAACAACATTAGAATCGTTAAAAGCCC
66 TTCGATTTAATTAGAAATTAATTTGAGAAAAATAGGAAAAACAATATTAAAAGCGTTAAAAGCCC
*
13110 TTCAATCTTTTTGATGTCGAATAATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATA
131 TCCAATCTTTTTGATGTCGAATAATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATA
* *
13175 TCTTTCGGATCAATTTTTGCAAAATTTTAACCGAAATCGTATACTAACCATCACGGTTTTTCGCT
196 TCTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGGTTTTTCGCT
* *
13240 AAAAACGCGTTTCAGGGCCACGGCTCTGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATA
261 AAAAACGCGTTCCAGGGCCACGACTCTGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATA
* * * * * *
13305 TCTTTATTCATCTAATCAAATCTCAGGCACATTAGAATTAAGGATTTGTTTTTATGTGAATCTGA
326 TCTATATTCATCTAATCAAATCTCAGCCACATTGGAATTAAGGATTTGTTTTTACGAGCATCTGA
*
13370 ATCTTGTTTCGATTTCATTA-AAATTTAATTCTGAAAAAATATG-AAAACGATATTAAAAGCGT-
391 ATCTTGTTTCGATTTAATTAGAAA-TTAATTCTGAAAAAATATGAAAAACGATATTAAAAGCGTG
* *
13432 AAAACGTCCTCCAATCCTTTTGACGATGAATTATATATTTTTTATGAGTATTTTTGCTAGAAATC
455 AAAACGTCCTCCAATCCTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTTGCTAAAAATC
*
13497 GAGGAAAAATCTTTCGGGTCAACTTTTGCAAAATTTTAGCCGAAATCATGTTTAAAACATCACGA
520 GAGGAAAAATCTTTCGAGTCAACTTTTGCAAAATTTTAGCCGAAATCATGTTTAAAACATCACGA
* * * *
13562 TTTTCGGCTAAAACCGCGCTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTTGTGCCAAGACTCC
585 TTTTCGGCTAAAACCGCGTTCCGGGGCCCGACTCAGTTTTGCATGATTTTTTGTGCCAAGACTCT
13627 TTGAAATATCTATAT
650 TTGAAATATCTATAT
* *
13642 TCATCTAACCATATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * *
13707 TTCGATTTAATTAAAAATTAATTT--GAAAAATAGAAAAAACAATATTAGAAGCGTTGAAAGCCC
66 TTCGATTTAATTAGAAATTAATTTGAGAAAAATAGGAAAAACAATATTAAAAGCGTTAAAAGCCC
* * * *
13770 TTCAATCTTTTTGATGTCGAATTATATGTTTTTTATGAGTATTTTAGCCAAAAATTGAGGAATTA
131 TCCAATCTTTTTGATGTCGAATAATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATA
* * *
13835 TGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCATGGTTTTTGGCT
196 TCTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGGTTTTTCGCT
* *
13900 AAAAACGCGTTCCAGGGCCACAACTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATA
261 AAAAACGCGTTCCAGGGCCACGACTCTGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATA
* * * * * *
13965 TCTTTATTCATCTAATCAAATCTCAGGCACATTGGATTTAAGAATTTGTTTTTATGTGCATCTGA
326 TCTATATTCATCTAATCAAATCTCAGCCACATTGGAATTAAGGATTTGTTTTTACGAGCATCTGA
* *
14030 ATCTTATTTCGATTTAATTAGAAATTAATTC-AAGAAAAATATGAAAAACGATATTAAAAGCGTG
391 ATCTTGTTTCGATTTAATTAGAAATTAATTCTGA-AAAAATATGAAAAACGATATTAAAAGCGTG
* * * *
14094 AAAA-GTCCTCCAATCCTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTTGCCAAAAATT
455 AAAACGTCCTCCAATCCTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTTGCTAAAAATC
*
14158 GAGGAAAAATCTTTCGGGTCA
520 GAGGAAAAATCTTTCGAGTCA
14179 TTTTTACCAT
Statistics
Matches: 1604, Mismatches: 219, Indels: 95
0.84 0.11 0.05
Matches are distributed among these distances:
659 1 0.00
660 314 0.20
661 431 0.27
662 344 0.21
663 62 0.04
664 1 0.00
665 2 0.00
666 8 0.00
667 55 0.03
672 1 0.00
675 2 0.00
676 1 0.00
677 35 0.02
678 155 0.10
679 28 0.02
680 1 0.00
681 4 0.00
682 66 0.04
683 53 0.03
684 40 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (664 bp):
TCATCTAACCAAATCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
TTCGATTTAATTAGAAATTAATTTGAGAAAAATAGGAAAAACAATATTAAAAGCGTTAAAAGCCC
TCCAATCTTTTTGATGTCGAATAATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATA
TCTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACGGTTTTTCGCT
AAAAACGCGTTCCAGGGCCACGACTCTGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATA
TCTATATTCATCTAATCAAATCTCAGCCACATTGGAATTAAGGATTTGTTTTTACGAGCATCTGA
ATCTTGTTTCGATTTAATTAGAAATTAATTCTGAAAAAATATGAAAAACGATATTAAAAGCGTGA
AAACGTCCTCCAATCCTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTTGCTAAAAATCG
AGGAAAAATCTTTCGAGTCAACTTTTGCAAAATTTTAGCCGAAATCATGTTTAAAACATCACGAT
TTTCGGCTAAAACCGCGTTCCGGGGCCCGACTCAGTTTTGCATGATTTTTTGTGCCAAGACTCTT
TGAAATATCTATAT
Found at i:13933 original size:330 final size:329
Alignment explanation
Indices: 11637--14183 Score: 2704
Period size: 331 Copynumber: 7.6 Consensus size: 329
11627 ATACTTTACA
* *
11637 TCATCTAACCAAATCTCAGCAACATTGGATTTAA-GATTT-TTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
11700 TTTGATTTTATTAGAAATTAATT-TAGATAAAAAAAGAAAAGAAAATACGATATTAAAAGCGTAA
66 TTCGATTTAATTAGAAATTAATTCT-G-----AAAA-ATATGAAAA-ACGATATTAAAAGCGT-G
*
11764 AAAGCCCTCCAATCTTTTTGGCGTTG-A--A-ATA-TTTTTATGAGTATTTTAGCCAAAAATTGA
122 AAAGCCCTCCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGA
* * * * * * *
11824 GGAGAAATCTTTTGTGTCTATTTTTGAAAAATTTTAGTCGAAATCGTGTACTAACAAATCGTCAC
187 GGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC----CATCAC
* ** * * *
11889 AGTTTTTGGCTAAAAACGCGTTCCGGGGACTTGACTCAATTTTGTATGACTTTTGGCT-CCGAGA
248 GGTTTTTGGCTAAAAACGCGTTCCGGGG-CCCGACTCAGTTTTGCATGATTTTTGG-TGCCGAGA
*
11953 CTACTTGAAATATCTATAT
311 CTCCTTGAAATATCTATAT
*
11972 TCATCTAATTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
12037 TTCGATTTAATTATAAATTAATT-TGGAAAAATAGGAAAAACGATATTAGAAGCGTTATTAGAAG
66 TTCGATTTAATTAGAAATTAATTCT-GAAAAATATGAAAAACGATATTAAAAGCG----T-GAA-
* * * * * * **
12101 CATGAAAAACCCTTCAATCTTTTTGGCGTTTAATTATATAATTTTTATGAGTATTGTGGATAAAA
124 -A-G-----CCCTCCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAA
* * * * * * *
12166 ATTGAGGAAATAA-CTTTCGAGTCAATCGATTTTTGTATAATTCTAGCTGAAATCGTGTAATAAT
182 ATTGAGGAAA-AATCTTTCGGGTC-A---ATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAAC
* * * * *
12230 CATAACAGTTTTTGGCTAAAAACGCATTCCGGGGCTCCGGCT-AGGTTTTGCATGATTTTTGGCG
242 CATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGC-CCGACTCA-GTTTTGCATGATTTTTGGTG
* * * *
12294 CCAAGACTCTTTGAGATATCCATAT
305 CCGAGACTCCTTGAAATATCTATAT
* * * * ** *
12319 TCATTTAATCTAATCTCAGCTACATTGGATTGAATAATTTGTTTTTACGAGCATCTGAATTTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * ** *
12384 TTCAATTTAACTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAATGTGAAAAGTCCT
66 TTCGATTTAATTAGAAATTAATTCTGAAAAATATGAAAAACGATATTAAAAGCGTG-AAAGCCCT
* * **
12449 CCAATATTTTTGACGTTAAATTATATACATTTTATGAGTATTTTAGCCAAAAATTGATGGAAAAA
130 CCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGA-GGAAAAA
*
12514 TCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTCGGCT
194 TCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCT
* * * *
12579 AAAAACGCATTCCGGGGCCTGACTTAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTTAAATAT
259 AAAAACGCGTTCCGGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTGAAATAT
12644 CTATAT
324 CTATAT
* * * * * *
12650 TCATCTAATCAAATCTCAGCCACGTTGAATTTAATGATTTGTTTTTACAAGCATCAGAATCATGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
12715 TTCGATTTAATTAGAAATTACTTCAGAAAAACATGAAAAACGATATTAAAAGCGTGAAAAAGGCT
66 TTCGATTTAATTAGAAATTAATTCTGAAAAATATGAAAAACGATATTAAAAGCGTG--AAAGCCC
* * * ** * * * * *
12780 TTCAAT-TTTTTTAGTGTTGAATTATATATTTTTTACAAGTGTTTTCGCTAGAAATCGAGGAAAA
129 TCCAATCTTTTTGA-CGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAA
* * * * * * * *
12844 ATCCTCCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCATATATTAATCATCACGGTTTTCGGC
193 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGC
* ** *** * * *
12909 TAAAACCAAGTTCCGGGGTTAGACTCAGTTTTGCATGATTTTTGTTGCCAAGACTCTTTGAAATA
258 TAAAAACGCGTTCCGGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTGAAATA
*
12974 TTTATAT
323 TCTATAT
* * * *
12981 TCATCTAACCAAATCTCAACCACATTAGATTTAAGGATTTGTTTTTACGAGTATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * * * *
13046 TTCGATTTAGTTAGAAATTAATT-TGAAAAAATAGGAAAAACAACATTAGAATCGTTAAAAGCCC
66 TTCGATTTAATTAGAAATTAATTCTG-AAAAATATGAAAAACGATATTAAAAGCG-TGAAAGCCC
* * * * *
13110 TTCAATCTTTTTGATGTCGAATAATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATA
129 TCCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAA
* * * *
13175 TCTTTCGGATCAATTTTTGCAAAATTTTAACCGAAATCGTATACTAACCATCACGGTTTTTCGCT
194 TCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCT
* * * * *
13240 AAAAACGCGTTTCAGGGCCACGGCTCTGTTTTGCATGATTTTTGGCGCCGAGACTCCTTGAAATA
259 AAAAACGCGTTCCGGGGCC-CGACTCAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTGAAATA
*
13305 TCTTTAT
323 TCTATAT
* * * * * *
13312 TCATCTAATCAAATCTCAGGCACATTAGAATTAAGGATTTGTTTTTATGTGAATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
13377 TTCGATTTCATTA-AAATTTAATTCTGAAAAAATATG-AAAACGATATTAAAAGCGTAAAACGTC
66 TTCGATTTAATTAGAAA-TTAATTCTG-AAAAATATGAAAAACGATATTAAAAGCGTGAAA-GCC
* * * * * *
13440 CTCCAATCCTTTTGACGATGAATTATATATTTTTTATGAGTATTTTTGCTAGAAATCGAGGAAAA
128 CTCCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAA
* * * * * *
13505 ATCTTTCGGGTCAACTTTTGCAAAATTTTAGCCGAAATCATGT-TTAAAACATCACGATTTTCGG
193 ATCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACT-AACCATCACGGTTTTTGG
* * * * * *
13569 CTAAAACCGCGCTCCAGGGCCCGACTCAGTTTTGCTTGATTTTTTGTGCCAAGACTCCTTGAAAT
257 CTAAAAACGCGTTCCGGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTGAAAT
13634 ATCTATAT
322 ATCTATAT
* * **
13642 TCATCTAACCATATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* * *
13707 TTCGATTTAATTAAAAATTAATT-TGAAAAATA-GAAAAAACAATATTAGAAGCGTTGAAAGCCC
66 TTCGATTTAATTAGAAATTAATTCTGAAAAATATG-AAAAACGATATTAAAAGCG-TGAAAGCCC
* * * * **
13770 TTCAATCTTTTTGATGTCGAATTATATGTTTTTTATGAGTATTTTAGCCAAAAATTGAGGAATTA
129 TCCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAA
* * *
13835 TGTTTCGGGTCAATTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCATGGTTTTTGGCT
194 TCTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCT
* * * **
13900 AAAAACGCGTTCCAGGGCCACAACTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATA
259 AAAAACGCGTTCCGGGGCC-CGACTCAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTGAAATA
*
13965 TCTTTAT
323 TCTATAT
* * * * *
13972 TCATCTAATCAAATCTCAGGCACATTGGATTTAAGAATTTGTTTTTATGTGCATCTGAATCTTAT
1 TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
* *
14037 TTCGATTTAATTAGAAATTAATTCAAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCC
66 TTCGATTTAATTAGAAATTAATTC-TGAAAAATATGAAAAACGATATTAAAAGCGTG-AAAGCCC
* * * *
14102 TCCAATCCTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTTGCCAAAAATTGAGGAAAAA
129 TCCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAA
14167 TCTTTCGGGTC-ATTTTT
194 TCTTTCGGGTCAATTTTT
14184 ACCATCATGG
Statistics
Matches: 1846, Mismatches: 314, Indels: 108
0.81 0.14 0.05
Matches are distributed among these distances:
327 1 0.00
328 7 0.00
329 145 0.08
330 390 0.21
331 656 0.36
332 219 0.12
333 1 0.00
334 4 0.00
335 84 0.05
336 20 0.01
337 47 0.03
340 1 0.00
341 1 0.00
342 21 0.01
343 4 0.00
345 1 0.00
346 5 0.00
347 208 0.11
348 2 0.00
351 29 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (329 bp):
TCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
TTCGATTTAATTAGAAATTAATTCTGAAAAATATGAAAAACGATATTAAAAGCGTGAAAGCCCTC
CAATCTTTTTGACGTTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATC
TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAA
AAACGCGTTCCGGGGCCCGACTCAGTTTTGCATGATTTTTGGTGCCGAGACTCCTTGAAATATCT
ATAT
Found at i:17348 original size:18 final size:17
Alignment explanation
Indices: 17299--17339 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
17289 TCCATGTCAG
17299 ATTTTTTATTAAAAATT
1 ATTTTTTATTAAAAATT
*
17316 ATTTTTCATTAAAAATT
1 ATTTTTTATTAAAAATT
17333 ATTTTTT
1 ATTTTTT
17340 TTTGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTTTATTAAAAATT
Found at i:18614 original size:16 final size:15
Alignment explanation
Indices: 18593--18624 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
18583 TTTTTGCCCT
18593 TTTTTTTAAATAGATA
1 TTTTTTTAAAT-GATA
18609 TTTTTTTAAATGATA
1 TTTTTTTAAATGATA
18624 T
1 T
18625 AAATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
TTTTTTTAAATGATA
Found at i:21514 original size:17 final size:17
Alignment explanation
Indices: 21492--21527 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
21482 GGGTTGCTAC
21492 TCCCTATCTTTATTTTT
1 TCCCTATCTTTATTTTT
21509 TCCCTATCTTTATTTTT
1 TCCCTATCTTTATTTTT
21526 TC
1 TC
21528 TTTAGATGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (17 bp):
TCCCTATCTTTATTTTT
Found at i:28240 original size:75 final size:75
Alignment explanation
Indices: 28116--28264 Score: 253
Period size: 75 Copynumber: 2.0 Consensus size: 75
28106 ATAAATGGAA
* *
28116 ACAAACAAAGTACATTTTTATTCCATAAATCTGAGTTTCACATCTAAAAGCAAACAAGATAATCT
1 ACAAACAAAGTACATTTATATTCCATAAATCTGAGTTTCACATCAAAAAGCAAACAAGATAATCT
28181 TTTCTTTAGG
66 TTTCTTTAGG
* * *
28191 ACAAATAAAGTACATTTATATTCCATAAATCTGAGTTTCACATCAAAAAGTAAACAGGATAATCT
1 ACAAACAAAGTACATTTATATTCCATAAATCTGAGTTTCACATCAAAAAGCAAACAAGATAATCT
28256 TTTCTTTAG
66 TTTCTTTAG
28265 TATATGTATG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (75 bp):
ACAAACAAAGTACATTTATATTCCATAAATCTGAGTTTCACATCAAAAAGCAAACAAGATAATCT
TTTCTTTAGG
Found at i:29862 original size:29 final size:28
Alignment explanation
Indices: 29825--29882 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
29815 ACATTTATCC
*
29825 TTATGCAATTTCA-TCCTTGAACTTTTATT
1 TTATACAATTT-AGTCCTTGAA-TTTTATT
*
29854 TTATACAATTTAGTCCTTTAATTTTATT
1 TTATACAATTTAGTCCTTGAATTTTATT
29882 T
1 T
29883 CTTGAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.26, C:0.14, G:0.05, T:0.55
Consensus pattern (28 bp):
TTATACAATTTAGTCCTTGAATTTTATT
Found at i:32806 original size:16 final size:16
Alignment explanation
Indices: 32780--32817 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
32770 ACTGTTTGGT
32780 TGTGTCCTGCACCTTGA
1 TGTG-CCTGCACCTTGA
*
32797 TGTGCCTGCACCTTGT
1 TGTGCCTGCACCTTGA
32813 TGTGC
1 TGTGC
32818 TTTCTATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.08, C:0.29, G:0.26, T:0.37
Consensus pattern (16 bp):
TGTGCCTGCACCTTGA
Found at i:34345 original size:2 final size:2
Alignment explanation
Indices: 34338--34365 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34328 ATATTTAGTG
34338 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
34366 AAATTCACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35104 original size:16 final size:16
Alignment explanation
Indices: 35083--35118 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
35073 CCAAGTTAAA
35083 AAATGAAAAATAATTC
1 AAATGAAAAATAATTC
*
35099 AAATGAAAAGTAATTC
1 AAATGAAAAATAATTC
35115 AAAT
1 AAAT
35119 TGCACCTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (16 bp):
AAATGAAAAATAATTC
Found at i:39094 original size:321 final size:315
Alignment explanation
Indices: 38502--39086 Score: 701
Period size: 322 Copynumber: 1.8 Consensus size: 315
38492 AAAGTGTTCT
* * * *
38502 GGGGCCCCAGCTCAGTTTTACAAGATTTTTGACACGAAGACTCCTTAAGATATCCATATTCATCT
1 GGGGCCCCAGCTCAGTTTTACAAGATTTTTGACACCAAAACTCCTTAAAATATCCATATTAATCT
* *
38567 CATCAAATCTCAGCCACATTGGATTTAAGTACTCGTTTTTACAAGCATCTGAATCTTGTTTCGAT
66 AATCAAATCTCAGCCACATTGCATTTAAGTACTCGTTTTTACAAGCATCTGAATCTTGTTTCGAT
* * *
38632 TTAATTAGAATTTGATTCAGAAAAATATGAAAAACGATATTAAAAGGGTGAAAAGTCCTCCAATA
131 TTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATA
* * *
38697 TTTTTGGCGTTAAATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATTTTTCGGGTCATTTT
196 TTTTTAGCGTTAAATTTTATGAGTATTATAGCCAAAAATTGAGGAAAAATCTTTCGGG-------
38762 TTGCAAATTTTTAGCCAAAATTGTGTACTAACCATCACGGTTAATGGCTATAAACGCGTTTC
254 TTGCAAATTTTTAGCCAAAATTGTGTACTAACCATCACGGTTAATGGCTATAAACGCGTTTC
* * * * * *
38824 GGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAAACTCCTTAAAATATCTATATTAATCT
1 GGGGCCCCAGCTCAGTTTTACAAGATTTTTGACACCAAAACTCCTTAAAATATCCATATTAATCT
* * * * *
38889 AAT-AAATCTTAGTCACATTGCATTTAAAG-ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGA
66 AATCAAATCTCAGCCACATTGCATTT-AAGTACTCGTTTTTACAAGCATCTGAATCTTGTTTCGA
* * * *
38952 TTTGATTAGAAATTAATTCA-AAAAATATGAAAAACGATATTAAAAGCTTGAAAAGTGGTCTTCA
130 TTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGT--CCTCCA
* *
39016 ATCTTTTTAGCGTTGAATCATATATTTTTCATGAGTATTAT-GCCTAAAAATTGAGGAAATATCT
193 ATATTTTTAGCG-T---T-A-A-A-TTTT-ATGAGTATTATAGCC-AAAAATTGAGGAAAAATCT
39080 TTCGGGT
248 TTCGGGT
39087 CAATTTTTGT
Statistics
Matches: 221, Mismatches: 29, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
320 34 0.15
321 67 0.30
322 74 0.33
323 1 0.00
324 1 0.00
326 1 0.00
327 1 0.00
328 1 0.00
329 1 0.00
330 7 0.03
331 33 0.15
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (315 bp):
GGGGCCCCAGCTCAGTTTTACAAGATTTTTGACACCAAAACTCCTTAAAATATCCATATTAATCT
AATCAAATCTCAGCCACATTGCATTTAAGTACTCGTTTTTACAAGCATCTGAATCTTGTTTCGAT
TTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATA
TTTTTAGCGTTAAATTTTATGAGTATTATAGCCAAAAATTGAGGAAAAATCTTTCGGGTTGCAAA
TTTTTAGCCAAAATTGTGTACTAACCATCACGGTTAATGGCTATAAACGCGTTTC
Found at i:43388 original size:23 final size:20
Alignment explanation
Indices: 43336--43374 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43326 TTAAAAAAAA
*
43336 TTAATAATTAGTTATTATTT
1 TTAAAAATTAGTTATTATTT
43356 TTAAAAATTAGTTATTATT
1 TTAAAAATTAGTTATTATT
43375 ATTTTATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTAAAAATTAGTTATTATTT
Found at i:44674 original size:19 final size:19
Alignment explanation
Indices: 44634--44670 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
44624 AATTTTTAAC
44634 TAAAAATATAATATATAAA
1 TAAAAATATAATATATAAA
44653 TAAAAATATAATAT-TAAA
1 TAAAAATATAATATATAAA
44671 ATAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATATAATATATAAA
Found at i:51643 original size:40 final size:40
Alignment explanation
Indices: 51582--51660 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
51572 CTTGACACTC
* * *
51582 CTAATAATTAAGGAAATAAATTAAATTCAGGTTTAGCCCT
1 CTAATAATTAAAGAAAGAAATTAAATCCAGGTTTAGCCCT
*
51622 CTAATAATTAAAGTAAGAAATTAAATCCAGGTTTAGCCC
1 CTAATAATTAAAGAAAGAAATTAAATCCAGGTTTAGCCC
51661 CTAGTTATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (40 bp):
CTAATAATTAAAGAAAGAAATTAAATCCAGGTTTAGCCCT
Found at i:64548 original size:2 final size:2
Alignment explanation
Indices: 64541--64565 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64531 ATATGAAAGA
64541 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
64566 CTTGTCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.