Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014397.1 Kokia drynarioides strain JFW-HI SEQ_129435, 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: 215250
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:20852 original size:724 final size:722
Alignment explanation
Indices: 19436--20890 Score: 1932
Period size: 724 Copynumber: 2.0 Consensus size: 722
19426 TTCTTCCACA
* * *
19436 CATACATCCTTACAAGATTTGGAACACCTAAGGAATTGATAAGTGATCAAGGTACTCATTTCTAT
1 CATAAATCATTACAAGATTTGGAACACCTAAGGAATTGATAAGTGATCAAGGTACTCATTTCTAC
* * **
19501 AACAATCAAATGGCAATAGCTCTAAAGCGATATGGAGTGAAGCATTGCATGGCCACCACATACCA
66 AACAACCAAATGGCAACAGCTCTAAAGCGATATGGAGTGAAGCATCACATGGCCACCACATACCA
* * * * *
19566 TCCAGAAACGAATGGCTAAGCGAAAGTTTCCAATCGATAAATTAAATGTATACTTGAGAAGGTGG
131 TCCACAAACGAATGGCCAAGCGAAAGTTTCCAATCGACAAATCAAAAGTATACTTGAGAAGGTGG
* * * *
19631 TGAACCCATCTCGGAGAGATTGGTCTTCACGGTTGCATGATGCGTTGTAGTCGCTTCGCACTACA
196 TGAACCCATCTCGGAGAGATTGGTCTTCACGGCTACATGATGCATTGTAGGCGCTTCGCACTACA
* * * * * * ***
19696 TACAAACCCCGTTGGGGATATTATCGTATTAATTAGTGTTTGGTAAATCCTGTCACCTGTTGGTT
261 TACAAACCCCATTGAGGATATCACCGTATCAATTAGTGTTCGGTAAATCCTGTCACCTGCCAGTT
* * *
19761 GAACTTGAACATAAAGCTATGATGGTAATCAAACAGGTAGACATGGACTATGATGCTATTGGACA
326 GAACTTGAACATAAAGCTATGATGGTAATCAAACAGGTAAACATGGACTACGATGCTACTGGACA
* * * *
19826 GAAACGGTTGTTGGACATCTTCGAGCTAGAAGAAATTCGGCGCACTACGTATGAAAATGCACCCA
391 GAAACGATTGTTGGACATCTTCAAGCTAGAAGAAATTCGACGCACTACATATGAAAATGCACCCA
* * **
19891 TATACAAGGAAAAGACTAAGAGATGGCACGATGATATCATCTTACGACGACAATTTAACCCTGGT
456 TATACAAAGAAAAGACTAAGAGATGGCAAGACAATATCATCTTACGACGACAATTTAACCCTGGT
*
19956 CAGTTGGTAATTCTATTTAACTCATGTTTGAAATTACATCCAGGTAAATTAAGCTCGAGATGGTC
521 CAGTTAGTAATTCTATTTAACTCATGTTTGAAATTACATCCAGGTAAATTAA-CTCGAGATGGTC
*
20021 AGGCCCTTTCAAAGTTGTCGAAGCATTCCAGCATGGTGCAGTGACAATTGAAGATATGAATGATG
585 AGGCCCTTTCAAAGTTGTCGAAGCATTCCAGCATGGTGCAGTGACAATTGAAGATAAGAATGATG
* ** *
20086 GTCACCATTTTAAAGTAAATGGCCAATGACTAAAGTATTATGTGAGCCCAGATGTCAAAGAACAC
650 GTCACCAATTTAAAGTAAATGGCCAACAACTAAAGCATTATGTGAGCCCAGATGTCAAAGAACAC
20151 AACGAGAC
715 AACGAGAC
* * * *
20159 CATAAATCATTACTAGATTTGGAATACCTAGGGCATTGATAAGTGATCAAGGTACTCATTT-TCA
1 CATAAATCATTACAAGATTTGGAACACCTAAGGAATTGATAAGTGATCAAGGTACTCATTTCT-A
** * * * * *
20223 CAATGACCGAGTGGCGACATCAT-TGAAA-CGATATGGTGTGAAGCATCACATGGCCACCACATA
65 CAACAACCAAATGGCAACAGC-TCT-AAAGCGATATGGAGTGAAGCATCACATGGCCACCACATA
* * * *
20286 CCATCTACAAATGAATGGCCAAGCGTAGGTTTCCAATCGACAAATCAAAAGTATACTTGAGAAGG
128 CCATCCACAAACGAATGGCCAAGCGAAAGTTTCCAATCGACAAATCAAAAGTATACTTGAGAAGG
* * ** *
20351 TGGTTAACTCATCTCGGAGAGATTGGTCTTTGCGGCTACATGATGCATTGTGGGCGCTTCGCACT
193 TGGTGAACCCATCTCGGAGAGATTGGTCTTCACGGCTACATGATGCATTGTAGGCGCTTCGCACT
* * * *
20416 ATATACAAAACCCCATTGAGGATGTCGCCGTATCAATTAGTGTTCGGTAAATCTTGTCACCTGCC
258 ACATAC-AAACCCCATTGAGGATATCACCGTATCAATTAGTGTTCGGTAAATCCTGTCACCTGCC
* * ** *
20481 AGTTGAACTTGAGCATAAAGCTATG-TGGGTGATCAAGTAGGTAAACATGGACTACGATGCTGCT
322 AGTTGAACTTGAACATAAAGCTATGAT-GGTAATCAAACAGGTAAACATGGACTACGATGCTACT
* * * *
20545 GGACAGAAATGATTGTTGGACAT-TTCTAAGCTAGAAGAAATTCTACGTACTGCATATGAAAATG
386 GGACAGAAACGATTGTTGGACATCTTC-AAGCTAGAAGAAATTCGACGCACTACATATGAAAATG
* * * * * *
20609 TAGCCATATACAAAGAAAGGACTAAGAGATGGCAAGACAATATCATCTTGCGATGACAATTTAGC
450 CACCCATATACAAAGAAAAGACTAAGAGATGGCAAGACAATATCATCTTACGACGACAATTTAAC
* *
20674 CCTTGTCAGTTAGTACTTCTATTTAACTCATGTTTGAAATTACATCCAGGTAAATTGCAA-TCGA
515 CCTGGTCAGTTAGTAATTCTATTTAACTCATGTTTGAAATTACATCCAGGTAAATT--AACTCGA
* * ** *
20738 GATGGTTAGGCCCTTTCAAAGTTGTCGAAGCATTCTAGCATGGTGTGGTGACAATTGAATATAAG
578 GATGGTCAGGCCCTTTCAAAGTTGTCGAAGCATTCCAGCATGGTGCAGTGACAATTGAAGATAAG
* * * * * * *
20803 AATGATGGTCACCAATTTAATGTAAATGGCTAGCAATTGAAGCATTATGTTAGGCCAGATGTCAA
643 AATGATGGTCACCAATTTAAAGTAAATGGCCAACAACTAAAGCATTATGTGAGCCCAGATGTCAA
20868 AGAACACAACGAGAC
708 AGAACACAACGAGAC
20883 CATAAATC
1 CATAAATC
20891 TAGTCACATT
Statistics
Matches: 629, Mismatches: 95, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
722 1 0.00
723 222 0.35
724 404 0.64
726 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (722 bp):
CATAAATCATTACAAGATTTGGAACACCTAAGGAATTGATAAGTGATCAAGGTACTCATTTCTAC
AACAACCAAATGGCAACAGCTCTAAAGCGATATGGAGTGAAGCATCACATGGCCACCACATACCA
TCCACAAACGAATGGCCAAGCGAAAGTTTCCAATCGACAAATCAAAAGTATACTTGAGAAGGTGG
TGAACCCATCTCGGAGAGATTGGTCTTCACGGCTACATGATGCATTGTAGGCGCTTCGCACTACA
TACAAACCCCATTGAGGATATCACCGTATCAATTAGTGTTCGGTAAATCCTGTCACCTGCCAGTT
GAACTTGAACATAAAGCTATGATGGTAATCAAACAGGTAAACATGGACTACGATGCTACTGGACA
GAAACGATTGTTGGACATCTTCAAGCTAGAAGAAATTCGACGCACTACATATGAAAATGCACCCA
TATACAAAGAAAAGACTAAGAGATGGCAAGACAATATCATCTTACGACGACAATTTAACCCTGGT
CAGTTAGTAATTCTATTTAACTCATGTTTGAAATTACATCCAGGTAAATTAACTCGAGATGGTCA
GGCCCTTTCAAAGTTGTCGAAGCATTCCAGCATGGTGCAGTGACAATTGAAGATAAGAATGATGG
TCACCAATTTAAAGTAAATGGCCAACAACTAAAGCATTATGTGAGCCCAGATGTCAAAGAACACA
ACGAGAC
Found at i:27854 original size:22 final size:22
Alignment explanation
Indices: 27829--27877 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
27819 GAATTTGAAT
27829 GAATTTTGCTTGATTTTTAAGC
1 GAATTTTGCTTGATTTTTAAGC
27851 GAATTTTGCTTGATTTTTAAGC
1 GAATTTTGCTTGATTTTTAAGC
*
27873 AAATT
1 GAATT
27878 AAATGTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (22 bp):
GAATTTTGCTTGATTTTTAAGC
Found at i:28177 original size:27 final size:26
Alignment explanation
Indices: 28146--28198 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
28136 AATTAAAAGC
28146 AAATTATTAATGAAAT-ATTTTATATTT
1 AAATTATTAA--AAATAATTTTATATTT
*
28173 AAATTATTAAATATAATTTTATATTT
1 AAATTATTAAAAATAATTTTATATTT
28199 TATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 11 0.46
27 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATTATTAAAAATAATTTTATATTT
Found at i:32281 original size:14 final size:14
Alignment explanation
Indices: 32264--32292 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32254 AGTAGACTAG
32264 GAATAGTATGCTTC
1 GAATAGTATGCTTC
32278 GAATAGTATGCTTC
1 GAATAGTATGCTTC
32292 G
1 G
32293 TATATATGGA
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:0.14, G:0.24, T:0.34
Consensus pattern (14 bp):
GAATAGTATGCTTC
Found at i:36652 original size:21 final size:21
Alignment explanation
Indices: 36580--36659 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
36570 AAAAATAGTG
*
36580 CAGACTTCTATCGATAC--CT
1 CAGACTTCTATCGATACAAGT
*
36599 CTGACATTTCTATCGATACAAGT
1 CAGAC--TTCTATCGATACAAGT
* *
36622 GAGACATCTATCGATACAAGT
1 CAGACTTCTATCGATACAAGT
*
36643 CATG-CTTCTACCGATAC
1 CA-GACTTCTATCGATAC
36660 TAAAAACTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 4 0.08
21 39 0.81
22 1 0.02
23 4 0.08
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (21 bp):
CAGACTTCTATCGATACAAGT
Found at i:40343 original size:17 final size:17
Alignment explanation
Indices: 40321--40353 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
40311 CAACTTTTGC
40321 TTTTAT-TTTCTATTTTA
1 TTTTATCTTT-TATTTTA
40338 TTTTATCTTTTATTTT
1 TTTTATCTTTTATTTT
40354 TATGCTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTTATTTTA
Found at i:41338 original size:39 final size:40
Alignment explanation
Indices: 41250--41434 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
41240 GGCTTGGACA
41250 AGAACTCAAGCTTCGGCTTAGCAGGCTATGAGCCGGTGAT
1 AGAACTCAAGCTTCGGCTTAGCAGGCTATGAGCCGGTGAT
* **
41290 AGAACTCAAGCTTCAGCTTAGCAGGCTAT-AATCGGTGAT
1 AGAACTCAAGCTTCGGCTTAGCAGGCTATGAGCCGGTGAT
* *
41329 AGAATTCAAGCTTCGACTTAGCAGGCTATGAGCCGGTGAT
1 AGAACTCAAGCTTCGGCTTAGCAGGCTATGAGCCGGTGAT
* * * * *
41369 AGAATTCAAGCTTCGGCTTAGCAAGCTGTTAGCCGATG-T
1 AGAACTCAAGCTTCGGCTTAGCAGGCTATGAGCCGGTGAT
* *
41408 CGAACATTCAAGCTACGGCTTAGCAGG
1 AGAAC--TCAAGCTTCGGCTTAGCAGG
41435 TCACAAACCG
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 38 0.30
40 69 0.55
41 18 0.14
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
AGAACTCAAGCTTCGGCTTAGCAGGCTATGAGCCGGTGAT
Found at i:42312 original size:42 final size:42
Alignment explanation
Indices: 42247--42352 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 42
42237 TTATATTGCT
*
42247 TCGATAGTATGGAATTT-GAGTATC-GATAGTACTTCATATAATA
1 TCGATAGT-TAGAATTTAG-GTATCAG-TAGTACTTCATATAATA
*
42290 TTGATAGTTAGAATTTAGGTATCAGTAGTACTTCATATAATA
1 TCGATAGTTAGAATTTAGGTATCAGTAGTACTTCATATAATA
*
42332 TCGGTAGTTAGAATTTAGGTA
1 TCGATAGTTAGAATTTAGGTA
42353 CCGGTAGAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 48 0.84
43 9 0.16
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.39
Consensus pattern (42 bp):
TCGATAGTTAGAATTTAGGTATCAGTAGTACTTCATATAATA
Found at i:48760 original size:40 final size:40
Alignment explanation
Indices: 48704--48861 Score: 156
Period size: 40 Copynumber: 3.9 Consensus size: 40
48694 AATTGTCTTG
48704 GATAAGAACTCAAGCTTCGACTTAGCAAGCTATGAGCCGGT
1 GATAA-AACTCAAGCTTCGACTTAGCAAGCTATGAGCCGGT
* * * * *
48745 GATAAAACTCAAGCTTC-AGCTTAGTAGGCTTTGAGTCAGT
1 GATAAAACTCAAGCTTCGA-CTTAGCAAGCTATGAGCCGGT
* * * * *
48785 GATAGAATTCAAGCTTCGGCTTAGCAAGCTATAAGCTGGT
1 GATAAAACTCAAGCTTCGACTTAGCAAGCTATGAGCCGGT
* * * * *
48825 GATAGAATTCAAGCTTCAACTTAGCAGGCTATTAGCC
1 GATAAAACTCAAGCTTCGACTTAGCAAGCTATGAGCC
48862 TATGTCGAAC
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.94
41 5 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (40 bp):
GATAAAACTCAAGCTTCGACTTAGCAAGCTATGAGCCGGT
Found at i:52351 original size:2 final size:2
Alignment explanation
Indices: 52344--52368 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52334 AACTTTAATA
52344 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
52369 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:56286 original size:55 final size:55
Alignment explanation
Indices: 56183--56295 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 55
56173 GAAAATTTGT
*
56183 GAAACAGGGGCACACAATCGTGTCCCAACCCATGTGTCTACCCATGTGT-GTGTTC
1 GAAACAGGCGCACACAATCGTGTCCCAACCCATGTGTCTACCCATGTGTGGT-TTC
* * * * * *
56238 GAAATAGGCGCACACGATCTTGTCCCAACCCATGTAT-TCGCCCGTGTGTGGTTTC
1 GAAACAGGCGCACACAATCGTGTCCCAACCCATGTGTCT-ACCCATGTGTGGTTTC
56293 GAA
1 GAA
56296 GTTGAGTCAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
54 1 0.02
55 46 0.94
56 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (55 bp):
GAAACAGGCGCACACAATCGTGTCCCAACCCATGTGTCTACCCATGTGTGGTTTC
Found at i:59194 original size:19 final size:19
Alignment explanation
Indices: 59170--59209 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
59160 ATTAATTTCG
59170 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
59189 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
59208 AT
1 AT
59210 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:59339 original size:37 final size:36
Alignment explanation
Indices: 59292--59367 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
59282 ATTCCAAAAA
59292 TAATATTATTTTAAAAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAAAAGTATT-ATATT-AATTTAATAT
* *
59328 TAATACTTATTTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATTTTAAAAGTATTATATTAATTTAATAT
59365 TAA
1 TAA
59368 ATTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATTTTAAAAGTATTATATTAATTTAATAT
Found at i:64298 original size:17 final size:17
Alignment explanation
Indices: 64276--64308 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64266 ACTAACATTT
*
64276 AAATGCAATGACAATGA
1 AAATGCAACGACAATGA
64293 AAATGCAACGACAATG
1 AAATGCAACGACAATG
64309 CTTACTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.18, T:0.15
Consensus pattern (17 bp):
AAATGCAACGACAATGA
Found at i:64758 original size:18 final size:18
Alignment explanation
Indices: 64709--64758 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
64699 TTCACTTTCA
*
64709 CCTCTTCAACATAAACTT
1 CCTCCTCAACATAAACTT
*
64727 CCTCCTCTCTAACATCAACTT
1 CCT-C-CTC-AACATAAACTT
64748 CCTCCTCAACA
1 CCTCCTCAACA
64759 GCAAGTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 3 0.11
21 13 0.48
ACGTcount: A:0.28, C:0.42, G:0.00, T:0.30
Consensus pattern (18 bp):
CCTCCTCAACATAAACTT
Found at i:70033 original size:9 final size:9
Alignment explanation
Indices: 70019--70077 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
70009 ATTCAATACT
70019 TTAATTCGG
1 TTAATTCGG
**
70028 TTAATT-TT
1 TTAATTCGG
70036 TTAATTCGAG
1 TTAATTCG-G
70046 -TAATTCGG
1 TTAATTCGG
*
70054 TTAATTCGA
1 TTAATTCGG
70063 TTAATTCGG
1 TTAATTCGG
*
70072 GTAATT
1 TTAATT
70078 TTTTAAACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
8 7 0.17
9 33 0.82
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.47
Consensus pattern (9 bp):
TTAATTCGG
Found at i:70056 original size:26 final size:27
Alignment explanation
Indices: 70020--70077 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
70010 TTCAATACTT
**
70020 TAATTCGGTTAATT-TTTTAATTCGAG
1 TAATTCGGTTAATTCGATTAATTCGAG
*
70046 TAATTCGGTTAATTCGATTAATTCGGG
1 TAATTCGGTTAATTCGATTAATTCGAG
70073 TAATT
1 TAATT
70078 TTTTAAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (27 bp):
TAATTCGGTTAATTCGATTAATTCGAG
Found at i:70059 original size:18 final size:18
Alignment explanation
Indices: 70036--70077 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
70026 GGTTAATTTT
70036 TTAATTCGAGTAATTCGG
1 TTAATTCGAGTAATTCGG
*
70054 TTAATTCGATTAATTCGG
1 TTAATTCGAGTAATTCGG
*
70072 GTAATT
1 TTAATT
70078 TTTTAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.43
Consensus pattern (18 bp):
TTAATTCGAGTAATTCGG
Found at i:73612 original size:24 final size:24
Alignment explanation
Indices: 73583--73639 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
73573 AAAAAAAAGT
* * *
73583 ATTTATTAGTATAATGTATTTGGC
1 ATTTATTAGCATAATATATTTGAC
73607 ATTTATTAGCATAATATATTTGAC
1 ATTTATTAGCATAATATATTTGAC
*
73631 ATTGATTAG
1 ATTTATTAG
73640 AATTAGACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTGAC
Found at i:78211 original size:30 final size:30
Alignment explanation
Indices: 78164--78356 Score: 217
Period size: 30 Copynumber: 6.4 Consensus size: 30
78154 GAACTTCTAG
* *
78164 AAATCCAAATTCT-ACCCCTAAATTTTCCAA
1 AAATTCAAATT-TGACCCCTAAACTTTCCAA
*
78194 AAATTCAAATTTGACCCCTAAACTTTTCAA
1 AAATTCAAATTTGACCCCTAAACTTTCCAA
* * * *
78224 AAATTTAAATTTAACCCTTAAACTTTTCAA
1 AAATTCAAATTTGACCCCTAAACTTTCCAA
*
78254 AAATTCAAATTTGACCCCTAAACTTTCTAA
1 AAATTCAAATTTGACCCCTAAACTTTCCAA
* * * * *
78284 AAATTCCAATTTAACCCTTCGAACTTTCTAA
1 AAATTCAAATTTGACCCCT-AAACTTTCCAA
* * *
78315 AAATTCAAATTTGACACTTGAACTTTCCAA
1 AAATTCAAATTTGACCCCTAAACTTTCCAA
78345 AAATTCAAATTT
1 AAATTCAAATTT
78357 AACCTATTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
29 1 0.01
30 115 0.81
31 26 0.18
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (30 bp):
AAATTCAAATTTGACCCCTAAACTTTCCAA
Found at i:78339 original size:61 final size:60
Alignment explanation
Indices: 78158--78360 Score: 241
Period size: 60 Copynumber: 3.4 Consensus size: 60
78148 ACTCTCGAAC
* * * * *
78158 TTCTAGAAATCCAAATTCT-ACCCCTAAATTTTCCAAAAATTCAAATTTGACCCCTAAACT
1 TTCTAAAAATTCAAATT-TAACCCTTAAACTTTCTAAAAATTCAAATTTGACCCCTAAACT
*
78218 TT-TCAAAAATTTAAATTTAACCCTTAAACTTT-TCAAAAATTCAAATTTGACCCCTAAACT
1 TTCT-AAAAATTCAAATTTAACCCTTAAACTTTCT-AAAAATTCAAATTTGACCCCTAAACT
* * * * *
78278 TTCTAAAAATTCCAATTTAACCCTTCGAACTTTCTAAAAATTCAAATTTGACACTTGAACT
1 TTCTAAAAATTCAAATTTAACCCTT-AAACTTTCTAAAAATTCAAATTTGACCCCTAAACT
*
78339 TTCCAAAAATTCAAATTTAACC
1 TTCTAAAAATTCAAATTTAACC
78361 TATTTTTAAT
Statistics
Matches: 123, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
59 2 0.02
60 70 0.57
61 50 0.41
62 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.34
Consensus pattern (60 bp):
TTCTAAAAATTCAAATTTAACCCTTAAACTTTCTAAAAATTCAAATTTGACCCCTAAACT
Found at i:85744 original size:40 final size:40
Alignment explanation
Indices: 85694--86026 Score: 205
Period size: 40 Copynumber: 8.4 Consensus size: 40
85684 AAGTTACTAA
* *
85694 ATCCAGTCTTTTACCCTGACCATGGGGCATATTGAAGTCC
1 ATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGTCC
* * ** * *
85734 ATTCAATCTTTTACCCTAATTA-GAGGGCAGATTAAAGACC
1 ATCCAATCTTTTACCCTGACCATG-GGGCAGATTGAAGTCC
* ** * *
85774 ATCCAATCTTTTACCCCGATTATGGGGCAGATTGAAAT-A
1 ATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGTCC
* * *
85813 ATCCAGTCTTTTACCCCGACCATGGGGCAAATTGAAGAT-C
1 ATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAG-TCC
* * * * * *
85853 ATCCAACCTTTTACCCTAATCA-GCGGGTAGATTAAAGACC
1 ATCCAATCTTTTACCCTGACCATG-GGGCAGATTGAAGTCC
* *
85893 ATTCAATCTTTTTACCC-GACCATGGGGCAGATTGAAG-CA
1 ATCCAATC-TTTTACCCTGACCATGGGGCAGATTGAAGTCC
* * * * *
85932 ATCCAAGCTTTTATCCTAACCA-GAGAGCAGATTGAAGACC
1 ATCCAATCTTTTACCCTGACCATG-GGGCAGATTGAAGTCC
* * * * * * * * * *
85972 GTTCGATCTCTTACCCCGACCTTGGGGAAGTTTGAA-ACA
1 ATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGTCC
*
86011 ATCCAACCTTTTACCC
1 ATCCAATCTTTTACCC
86027 GTAAAGCTAT
Statistics
Matches: 221, Mismatches: 61, Indels: 23
0.72 0.20 0.08
Matches are distributed among these distances:
38 8 0.04
39 70 0.32
40 132 0.60
41 11 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (40 bp):
ATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGTCC
Found at i:85885 original size:79 final size:78
Alignment explanation
Indices: 85758--86026 Score: 192
Period size: 79 Copynumber: 3.4 Consensus size: 78
85748 CCTAATTAGA
* * ** * * *
85758 GGGCAGATTAAAGACCATCCAATCTTTTACCCCGATTATGGGGCAGATTGAAATA-ATCCAGTC-
1 GGGCAGATTGAAGA-CATCCAACCTTTTACCCTAATCATGGGGCAGATT-AAAGACATCCAATCT
85821 TTTTACCCCGACCATG
64 TTTTA-CCCGACCATG
* * *
85837 GGGCAAATTGAAGATCATCCAACCTTTTACCCTAATCA-GCGGGTAGATTAAAGACCATTCAATC
1 GGGCAGATTGAAGA-CATCCAACCTTTTACCCTAATCATG-GGGCAGATTAAAGA-CATCCAATC
85901 TTTTTACCCGACCATG
63 TTTTTACCCGACCATG
* * * * * * * *
85917 GGGCAGATTGAAG-CAATCCAAGCTTTTATCCTAACCA-GAGAGCAGATTGAAGACCGTTCGATC
1 GGGCAGATTGAAGAC-ATCCAACCTTTTACCCTAATCATG-GGGCAGATTAAAGA-CATCCAATC
* *
85980 -TCTTACCCCGACCTTG
63 TTTTTA-CCCGACCATG
* *
85996 GGGAAGTTTGAA-ACAATCCAACCTTTTACCC
1 GGGCAGATTGAAGAC-ATCCAACCTTTTACCC
86027 GTAAAGCTAT
Statistics
Matches: 156, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
78 10 0.06
79 113 0.72
80 28 0.18
81 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (78 bp):
GGGCAGATTGAAGACATCCAACCTTTTACCCTAATCATGGGGCAGATTAAAGACATCCAATCTTT
TTACCCGACCATG
Found at i:85904 original size:119 final size:119
Alignment explanation
Indices: 85693--85928 Score: 350
Period size: 119 Copynumber: 2.0 Consensus size: 119
85683 GAAGTTACTA
* * * * *
85693 AATCCAGTCTTTTACCCTGACCATGGGGCATATTGAAGTCCATTCAATCTTTTACCCTAATTAGA
1 AATCCAGTCTTTTACCCCGACCATGGGGCAAATTGAAGTCCATCCAACCTTTTACCCTAATCAGA
**
85758 GGGCAGATTAAAGACCATCCAATC-TTTTACCCCGATTATGGGGCAGATTGAAAT
66 GGGCAGATTAAAGACCATCCAATCTTTTTA-CCCGACCATGGGGCAGATTGAAAT
85812 AATCCAGTCTTTTACCCCGACCATGGGGCAAATTGAAGAT-CATCCAACCTTTTACCCTAATCAG
1 AATCCAGTCTTTTACCCCGACCATGGGGCAAATTGAAG-TCCATCCAACCTTTTACCCTAATCAG
* * *
85876 CGGGTAGATTAAAGACCATTCAATCTTTTTACCCGACCATGGGGCAGATTGAA
65 AGGGCAGATTAAAGACCATCCAATCTTTTTACCCGACCATGGGGCAGATTGAA
85929 GCAATCCAAG
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
119 99 0.94
120 6 0.06
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (119 bp):
AATCCAGTCTTTTACCCCGACCATGGGGCAAATTGAAGTCCATCCAACCTTTTACCCTAATCAGA
GGGCAGATTAAAGACCATCCAATCTTTTTACCCGACCATGGGGCAGATTGAAAT
Found at i:85986 original size:119 final size:119
Alignment explanation
Indices: 85693--85987 Score: 326
Period size: 119 Copynumber: 2.5 Consensus size: 119
85683 GAAGTTACTA
** * * * *
85693 AATCCAGTCTTTTACCCTGACCATGGGGCATATTGAAGTCCATTCAATCTTTTACCCTAATTAGA
1 AATCCAGTCTTTTACCCCAACCATGGAGCAAATTGAAGACCATTCAATCTTTTACCCTAATCAGA
** *
85758 GGGCAGATTAAAGACCATCCAATCTTTTACCCCGATTATGGGGCAGATTGAAAT
66 GGGCAGATTAAAGACCATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAAC
* * * * * *
85812 AATCCAGTCTTTTACCCCGACCATGGGGCAAATTGAAGATCATCCAACCTTTTACCCTAATCAGC
1 AATCCAGTCTTTTACCCCAACCATGGAGCAAATTGAAGACCATTCAATCTTTTACCCTAATCAGA
* * *
85877 GGGTAGATTAAAGACCATTCAATCTTTTTA-CCCGACCATGGGGCAGATTGAAGC
66 GGGCAGATTAAAGACCATCCAATC-TTTTACCCCGACCATGGGGCAGATTGAAAC
* * * * * *
85931 AATCCAAG-CTTTTATCCTAACCA-GAGAGCAGATTGAAGACCGTTCGATCTCTTACCC
1 AATCC-AGTCTTTTACCCCAACCATG-GAGCAAATTGAAGACCATTCAATCTTTTACCC
85988 CGACCTTGGG
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
118 1 0.01
119 140 0.95
120 7 0.05
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (119 bp):
AATCCAGTCTTTTACCCCAACCATGGAGCAAATTGAAGACCATTCAATCTTTTACCCTAATCAGA
GGGCAGATTAAAGACCATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAAC
Found at i:86654 original size:4 final size:4
Alignment explanation
Indices: 86645--86693 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
86635 TTTTTCTTAT
* *
86645 TTTA TTTA TTT- TTTAA TTTT TTTA -TTA TTTA TGTA TTTA TTTA -TTA
1 TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
86691 TTT
1 TTT
86694 TACGAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 9 0.24
4 25 0.68
5 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:86670 original size:16 final size:17
Alignment explanation
Indices: 86643--86693 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
86633 CATTTTTCTT
*
86643 ATTTTATTTATTTTTTA
1 ATTTTATTTATTATTTA
86660 ATTTT-TTTATTATTTA
1 ATTTTATTTATTATTTA
*
86676 TGTATTTATTTATTATTT
1 -AT-TTTATTTATTATTT
86694 TACGAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 10 0.34
17 6 0.21
18 3 0.10
19 10 0.34
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (17 bp):
ATTTTATTTATTATTTA
Found at i:86672 original size:19 final size:18
Alignment explanation
Indices: 86644--86694 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
86634 ATTTTTCTTA
*
86644 TTTTATTTATTTTTTAATTT
1 TTTTA-TTATTTTGT-ATTT
86664 TTTTATTATTTATGTATTT
1 TTTTATTATTT-TGTATTT
*
86683 ATTTATTATTTT
1 TTTTATTATTTT
86695 ACGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTATTTTGTATTT
Found at i:86675 original size:27 final size:28
Alignment explanation
Indices: 86635--86695 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
86625 CCCAATTCCA
* *
86635 TTTTTCTTATTTTATTTATTT-TTTAATT
1 TTTTTATTATTTTATGTATTTATTT-ATT
86663 TTTTTATTA-TTTATGTATTTATTTATT
1 TTTTTATTATTTTATGTATTTATTTATT
*
86690 ATTTTA
1 TTTTTA
86696 CGAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (28 bp):
TTTTTATTATTTTATGTATTTATTTATT
Found at i:86748 original size:12 final size:12
Alignment explanation
Indices: 86731--86760 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
86721 TAATATTTAT
86731 TTTATTTTATTA
1 TTTATTTTATTA
86743 TTTATTTTATTA
1 TTTATTTTATTA
86755 TCTTAT
1 T-TTAT
86761 GAATATAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:86760 original size:17 final size:17
Alignment explanation
Indices: 86724--86760 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
86714 TGTAAAATAA
*
86724 TATTTATTTTATTTTAT
1 TATTTATTTTATTATAT
*
86741 TATTTATTTTATTATCT
1 TATTTATTTTATTATAT
86758 TAT
1 TAT
86761 GAATATAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTATTTTATTATAT
Found at i:86801 original size:13 final size:13
Alignment explanation
Indices: 86771--86811 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
86761 GAATATAGAT
86771 AAATAAATAAA-T-
1 AAAT-AATAAACTC
86783 AAATAATAAACTC
1 AAATAATAAACTC
*
86796 AAATAATAAACCC
1 AAATAATAAACTC
86809 AAA
1 AAA
86812 ATACAAGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.23
12 5 0.19
13 15 0.58
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAATAAACTC
Found at i:88101 original size:31 final size:30
Alignment explanation
Indices: 87897--88191 Score: 281
Period size: 30 Copynumber: 9.8 Consensus size: 30
87887 TTTTAACAAC
* *
87897 CAAACTTTCCAAAAATTCTAATTTTACCCT
1 CAAACTTTCCAAAAATTCAAATTTAACCCT
* * *
87927 CGAACTTTCCAAAAATCCAAATTTTACCCT
1 CAAACTTTCCAAAAATTCAAATTTAACCCT
* *
87957 TAAATTTTCCAAAAAATT-AAATTTAACCCT
1 CAAACTTTCC-AAAAATTCAAATTTAACCCT
87987 CAAACTTTCCAAAAATTCAAATTTAATCCC-
1 CAAACTTTCCAAAAATTCAAATTTAA-CCCT
* * **
88017 CAAATTTTCTAAAAATTTGAATTTAACCCT
1 CAAACTTTCCAAAAATTCAAATTTAACCCT
* * *
88047 CAAACTTTCCAAAAAATCCAATTTAGCCTCT
1 CAAACTTTCCAAAAATTCAAATTTAACC-CT
*** *
88078 CAAACTTTTTGAAAATTCAAATTTAACCAT
1 CAAACTTTCCAAAAATTCAAATTTAACCCT
* * * *
88108 CAAACCTTCCAAAGATTCCAATTTGATCCCT
1 CAAACTTTCCAAAAATTCAAATTT-AACCCT
* *
88139 -AAACTTTCTAAAAATTCAAATTTGACCCT
1 CAAACTTTCCAAAAATTCAAATTTAACCCT
* * * *
88168 TAAACTATCTAAAATTTCAAATTT
1 CAAACTTTCCAAAAATTCAAATTT
88192 GTCCCGATTT
Statistics
Matches: 215, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
29 14 0.07
30 164 0.76
31 37 0.17
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.34
Consensus pattern (30 bp):
CAAACTTTCCAAAAATTCAAATTTAACCCT
Found at i:88147 original size:121 final size:118
Alignment explanation
Indices: 87896--88191 Score: 310
Period size: 121 Copynumber: 2.5 Consensus size: 118
87886 ATTTTAACAA
* * * *
87896 CCAAACTTTCCAAAAATTCTAATTTTACCCTCGAACTTTCCAAAAATCCAAATTTTACCCTTAAA
1 CCAAACTTTCTAAAAATT-TAATTTAACCCTCAAACTTTCCAAAAATCCAAATTTTACCCTCAAA
* *
87961 TTTTCCAAAAAATTAAATTTAACCCTCAAACTTTCCAAAAATTCAAATTTAATCC
65 TTTT-CAAAAAATTAAATTTAACCATCAAACCTTCCAAAAATTCAAATTTAATCC
*
88016 CCAAATTTTCTAAAAATTTGAATTTAACCCTCAAACTTTCCAAAAAATCC-AA-TTTAGCCTCTC
1 CCAAACTTTCTAAAAATTT-AATTTAACCCTCAAACTTTCC-AAAAATCCAAATTTTA-CC-CTC
** * * *
88079 AAACTTTT-TGAAAATTCAAATTTAACCATCAAACCTTCCAAAGATTCCAATTTGATCC
62 AAA-TTTTCAAAAAATT-AAATTTAACCATCAAACCTTCCAAAAATTCAAATTTAATCC
* * * * * * * *
88137 CTAAACTTTCTAAAAATTCAAATTTGACCCTTAAACTATCTAAAATTTCAAATTT
1 CCAAACTTTCTAAAAATT-TAATTTAACCCTCAAACTTTCCAAAAATCCAAATTT
88192 GTCCCGATTT
Statistics
Matches: 146, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
119 5 0.03
120 51 0.35
121 84 0.58
122 6 0.04
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.34
Consensus pattern (118 bp):
CCAAACTTTCTAAAAATTTAATTTAACCCTCAAACTTTCCAAAAATCCAAATTTTACCCTCAAAT
TTTCAAAAAATTAAATTTAACCATCAAACCTTCCAAAAATTCAAATTTAATCC
Found at i:90593 original size:18 final size:19
Alignment explanation
Indices: 90570--90608 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
90560 CATTTTTTTT
90570 TTATT-AATTTACAATT-TA
1 TTATTAAATTTA-AATTGTA
90588 TTATTAAATTTAAATTGTA
1 TTATTAAATTTAAATTGTA
90607 TT
1 TT
90609 TATGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATTAAATTTAAATTGTA
Found at i:92601 original size:195 final size:195
Alignment explanation
Indices: 92260--92628 Score: 503
Period size: 195 Copynumber: 1.9 Consensus size: 195
92250 TTCCAGTATC
* *
92260 CGATGCTGCTCACACGAGCTGTTGAGGACTCGTAACATATGCGGTACTCCAGCCATCAGTATGGT
1 CGATGCTGCTCACACGAGCTGTTGAGGACTCGTAACATATGCAGTACTCCAGCCATCAGTACGGT
* * * **
92325 GTCTGTCAATATAACTGTCTCCTAACGATGCTACTCACTCGAGCTATCGAGTGTATGCACTTATG
66 ATCTGTCAATATAACTGTCTCCTAACGATGCTACTCACACGAGCTATCAAGAATATGCACTTATG
* *
92390 CATAAGTCCAAGCCATCGCAGGGCATGTAATCCATTCTAGGATTTATATCTCTTTTTTCGACTCA
131 CATAAATCCAAGCCATCACAGGGCATGTAATCCATTCTAGGATTTATATCTCTTTTTTCGACTCA
* * *
92455 CGATGCTGCTCACACGAGCTGTTGAGGACTCGTAACATATGCATTAC-CTTAGCCTTC-GATACG
1 CGATGCTGCTCACACGAGCTGTTGAGGACTCGTAACATATGCAGTACTC-CAGCCATCAG-TACG
*
92518 GTATCTGTGC-ATATAACTGT-TCCCTAACGATGCTACTCACACGAGCTGTCAAGAATATGCACT
64 GTATCTGT-CAATATAACTGTCT-CCTAACGATGCTACTCACACGAGCTATCAAGAATATGCACT
** ** * *
92581 TATGCATAAATCTTAGCCATCATTGGGCTTGTAATCCATTCTTGGATT
127 TATGCATAAATCCAAGCCATCACAGGGCATGTAATCCATTCTAGGATT
92629 CTTTACTCAT
Statistics
Matches: 151, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
194 3 0.02
195 147 0.97
196 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (195 bp):
CGATGCTGCTCACACGAGCTGTTGAGGACTCGTAACATATGCAGTACTCCAGCCATCAGTACGGT
ATCTGTCAATATAACTGTCTCCTAACGATGCTACTCACACGAGCTATCAAGAATATGCACTTATG
CATAAATCCAAGCCATCACAGGGCATGTAATCCATTCTAGGATTTATATCTCTTTTTTCGACTCA
Found at i:93191 original size:16 final size:16
Alignment explanation
Indices: 93167--93198 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93157 TCCTTGCAAA
*
93167 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
93183 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
93199 AAAAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:95511 original size:508 final size:509
Alignment explanation
Indices: 94550--95566 Score: 1964
Period size: 508 Copynumber: 2.0 Consensus size: 509
94540 TAAACAAGAG
*
94550 TTAGATCGGATCAATTAATATCACACTATCATAGGTTTATATGACATGTACTTTCTAGACTTTAT
1 TTAGATCGGATCAATCAATATCACACTATCATAGGTTTATATGACATGTACTTTCTAGACTTTAT
94615 TCACACTACATTCGATTTGAGAATCAACTAAATCATAGCTCTGATACCACTAAAATATAACACCC
66 TCACACTACATTCGATTTGAGAATCAACTAAATCATAGCTCTGATACCACTAAAATATAACACCC
94680 AAAAATCGTAACCATTTTCGATCTAGGGTATCAGGGTTTACAAAACTTTTTGAGTCTTTTTTTTA
131 AAAAATCGTAACCATTTTCGATCTAGGGTATCAGGGTTTACAAAACTTTTTGAGTCTTTTTTTTA
*
94745 AAACATACAAATAAATCACAATTTATTTAATTACAAATTTGCAACTCAGAATACTAACTTCATTT
196 AAACATACAAATAAATCACAATTTATTTAATTACAAATTTGCAACTCAGAATACTAACTCCATTT
94810 AATTTTACACATTCATTTACTACCTTTCAATCAGTAAAGAATCAAATTCAATCACGCAAGAACTT
261 AATTTTACACATTCATTTACTACCTTTCAATCAGTAAAGAATCAAATTCAATCACGCAAGAACTT
*
94875 AGGAATCACATATGGATATTTTCCATTAGGGATCACATGGCCTTGTGTCACACACACACATCTCT
326 AGGAATCACATATGGATATTTTCCATTAGGGATCACATGGCCTTGTGTCACACACACACAACTCT
* * *
94940 CACCACTAGTTAACCAAACTAGATCCTAGACATACTCATCATTACATCGCAAGAAGGAATTAATA
391 CACCACTAGTTAACCAAACTAGACCCCAGACATACTCATCATTACATCGCAAGAAGAAATTAATA
95005 TTTATATCACATATCATGACATTTATATTCCATATCAACATAATATCACAATAT
456 TTTATATCACATATCATGACATTTATATTCCATATCAACATAATATCACAATAT
95059 TTAGATCGGATCAATCAATATCACACTATCATAGGTTTATATGACATGTACTTTCTAGACTTTAT
1 TTAGATCGGATCAATCAATATCACACTATCATAGGTTTATATGACATGTACTTTCTAGACTTTAT
95124 TCACACTACATTCGATTTGAGAATCAACTAAATCATAGCTCTGATACCACT-AAATATAACACCC
66 TCACACTACATTCGATTTGAGAATCAACTAAATCATAGCTCTGATACCACTAAAATATAACACCC
*
95188 AAAAATCGTAACCATTTTCGATCTAGGGTATCAGGGTTTACAAAACTTTTTGAGTCTTTTTTTTT
131 AAAAATCGTAACCATTTTCGATCTAGGGTATCAGGGTTTACAAAACTTTTTGAGTCTTTTTTTTA
95253 AAACATACAAATAAATCACAATTTATTTAATTACAAATTTGCAACTCAGAATACTAACTCCATTT
196 AAACATACAAATAAATCACAATTTATTTAATTACAAATTTGCAACTCAGAATACTAACTCCATTT
95318 AATTTTACACATTCATTTACTACCTTTCAATCAGTAAAGAATCAAATTCAATCACGCAAGAACTT
261 AATTTTACACATTCATTTACTACCTTTCAATCAGTAAAGAATCAAATTCAATCACGCAAGAACTT
95383 AGGAATCACATATGGATATTTTCCATTAGGGATCACATGGCCTTGTGTCACACACACACAACTCT
326 AGGAATCACATATGGATATTTTCCATTAGGGATCACATGGCCTTGTGTCACACACACACAACTCT
95448 CACCACTAGTTAACCAAACTAGACCCCAGACATACTCATCATTACATCGCAAGAAGAAATTAATA
391 CACCACTAGTTAACCAAACTAGACCCCAGACATACTCATCATTACATCGCAAGAAGAAATTAATA
95513 TTTATATCACATATCATGACATTTATATTCCATATCAACATAATATCACAATAT
456 TTTATATCACATATCATGACATTTATATTCCATATCAACATAATATCACAATAT
95567 CATCCAAGTT
Statistics
Matches: 501, Mismatches: 7, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
508 386 0.77
509 115 0.23
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (509 bp):
TTAGATCGGATCAATCAATATCACACTATCATAGGTTTATATGACATGTACTTTCTAGACTTTAT
TCACACTACATTCGATTTGAGAATCAACTAAATCATAGCTCTGATACCACTAAAATATAACACCC
AAAAATCGTAACCATTTTCGATCTAGGGTATCAGGGTTTACAAAACTTTTTGAGTCTTTTTTTTA
AAACATACAAATAAATCACAATTTATTTAATTACAAATTTGCAACTCAGAATACTAACTCCATTT
AATTTTACACATTCATTTACTACCTTTCAATCAGTAAAGAATCAAATTCAATCACGCAAGAACTT
AGGAATCACATATGGATATTTTCCATTAGGGATCACATGGCCTTGTGTCACACACACACAACTCT
CACCACTAGTTAACCAAACTAGACCCCAGACATACTCATCATTACATCGCAAGAAGAAATTAATA
TTTATATCACATATCATGACATTTATATTCCATATCAACATAATATCACAATAT
Found at i:95538 original size:21 final size:20
Alignment explanation
Indices: 95512--95569 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
95502 AGAAATTAAT
95512 ATTTATATCACATATCATGAC
1 ATTTATATCACATATCAT-AC
95533 ATTTATATTC-CATATCA-AC
1 ATTTATA-TCACATATCATAC
*
95552 A-TAATATCACAATATCAT
1 ATTTATATCAC-ATATCAT
95570 CCAAGTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
17 2 0.06
18 5 0.16
19 9 0.28
21 14 0.44
22 2 0.06
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.38
Consensus pattern (20 bp):
ATTTATATCACATATCATAC
Found at i:95914 original size:21 final size:21
Alignment explanation
Indices: 95890--95943 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
95880 ATGGTTATGG
* *
95890 TTCTATCGATACAAT-GATGAC
1 TTCTACCGATACAATACATG-C
*
95911 TTCTACCGAAACAATACATGC
1 TTCTACCGATACAATACATGC
95932 TTCTACCGATAC
1 TTCTACCGATAC
95944 TAAAAACTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAATACATGC
Found at i:96923 original size:194 final size:195
Alignment explanation
Indices: 96670--97029 Score: 480
Period size: 194 Copynumber: 1.9 Consensus size: 195
96660 AATTGTCTCT
* ** * * *
96670 TAACGATGCTGCTCACACGAGCTATCGAGTGTATGCACTTATGCATAAGTCCTAGCCATCGCAGG
1 TAACGATACTGCTCACACGAGCTATCGAGAATACGCACTTATGCATAAGTCCTAGCCATCACAGC
* * *
96735 GCCTGTAATCCATT-TTAGAATT-TATATCTC-TTTTTTGACTCA-AGATGCTGCTCACACTAGC
66 GCCTGTAATCCATTCTT-GAATTCTATA-CTCATTTCTCGACTCACA-ATGCTGCTCACACGAGC
* *
96796 TGTCGAGAACTCGCAACAAATGCGGTACCTCAGCCATCGATACGGTATCTGTGCATACAACTGTT
128 TGTCGAGAACTCACAACAAATGCGGTACCTCAACCATCGATACGGTATCTGTGCATACAACTGTT
96861 CCC
193 CCC
* *
96864 TAACGATACTGCTCACACGAGCTGTCGAGAATACGCACTTATGCATTAA-T-CTCAGCCATCATA
1 TAACGATACTGCTCACACGAGCTATCGAGAATACGCACTTATGCA-TAAGTCCT-AGCCATCACA
* *
96927 GCGCCTGTAATCCATTCTTGGATTCTTTACTCATTTCTCGACTCACAATGCTGCTCACACGAGCT
64 GCGCCTGTAATCCATTCTTGAATTCTATACTCATTTCTCGACTCACAATGCTGCTCACACGAGCT
* *
96992 GTCGAGAACTCACAACATATGTGGTACCTCAACCATCG
129 GTCGAGAACTCACAACAAATGCGGTACCTCAACCATCG
97030 CATTAATTTC
Statistics
Matches: 143, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
193 2 0.01
194 71 0.50
195 69 0.48
196 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (195 bp):
TAACGATACTGCTCACACGAGCTATCGAGAATACGCACTTATGCATAAGTCCTAGCCATCACAGC
GCCTGTAATCCATTCTTGAATTCTATACTCATTTCTCGACTCACAATGCTGCTCACACGAGCTGT
CGAGAACTCACAACAAATGCGGTACCTCAACCATCGATACGGTATCTGTGCATACAACTGTTCCC
Found at i:97524 original size:16 final size:16
Alignment explanation
Indices: 97500--97531 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
97490 TCCTTACAAA
*
97500 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
97516 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
97532 AAAAATTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:101300 original size:26 final size:26
Alignment explanation
Indices: 101270--101323 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
101260 ACATGAATCA
101270 AAGAATCTTG-AAATTCACAAGAATAC
1 AAGAATCTTGAAAATT-ACAAGAATAC
*
101296 AAGAATCTTGAAAATTACAAGACTAC
1 AAGAATCTTGAAAATTACAAGAATAC
101322 AA
1 AA
101324 TATTGGAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (26 bp):
AAGAATCTTGAAAATTACAAGAATAC
Found at i:104569 original size:18 final size:18
Alignment explanation
Indices: 104542--104584 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
104532 TTGTTCATTT
104542 ATTT-TTATT-AATTTACA
1 ATTTATTATTAAATTTA-A
104559 ATTTATTATTAAATTTAA
1 ATTTATTATTAAATTTAA
104577 ATTGTATT
1 ATT-TATT
104585 TATATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
ATTTATTATTAAATTTAA
Found at i:115416 original size:52 final size:52
Alignment explanation
Indices: 115321--115557 Score: 375
Period size: 52 Copynumber: 4.6 Consensus size: 52
115311 GAAATTAATA
* *
115321 TACTCACGATGACACTTAGTCATCGGACCTTATAATACGTGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATG
* * *
115373 TACTTATGATAACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATG
* *
115425 TATTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAATGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATG
* * *
115477 TAGTCACGATGACACTTAGTCATCTGTCCTTATAATCCATGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATG
*
115529 TACTCATGATGACACTTAGTCATCGGACC
1 TACTCACGATGACACTTAGTCATCGGACC
115558 CTTTTTCATT
Statistics
Matches: 167, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 167 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (52 bp):
TACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATG
Found at i:116430 original size:20 final size:21
Alignment explanation
Indices: 116391--116430 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
116381 TTATTGAGAC
*
116391 TCTTTAATTAAACATTTTTAA
1 TCTTTAATTAAACATATTTAA
*
116412 TCTTT-ATTAAACCTATTTA
1 TCTTTAATTAAACATATTTA
116431 TAATAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (21 bp):
TCTTTAATTAAACATATTTAA
Found at i:123736 original size:36 final size:36
Alignment explanation
Indices: 123696--123767 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
123686 GGTGGTCAGG
123696 TCCTTTTAAGGTTGTCGAAGCATTTCAAAGTGGTGT
1 TCCTTTTAAGGTTGTCGAAGCATTTCAAAGTGGTGT
123732 TCCTTTTAAGGTTGTCGAAGCATTTCAAAGTGGTGT
1 TCCTTTTAAGGTTGTCGAAGCATTTCAAAGTGGTGT
123768 AGTAACAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (36 bp):
TCCTTTTAAGGTTGTCGAAGCATTTCAAAGTGGTGT
Found at i:128178 original size:15 final size:15
Alignment explanation
Indices: 128155--128187 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
128145 TTTTACTTTA
128155 TTTTATTTTTAT-CT
1 TTTTATTTTTATGCT
128169 TTTTATTTTTTATGCT
1 TTTTA-TTTTTATGCT
128185 TTT
1 TTT
128188 AAACAACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTATGCT
Found at i:134530 original size:12 final size:12
Alignment explanation
Indices: 134515--134549 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
134505 AACTTTTTGC
*
134515 TTTTATTTTCTA
1 TTTTATTTTATA
*
134527 TTTTATTTTATC
1 TTTTATTTTATA
134539 TTTTATTTTAT
1 TTTTATTTTAT
134550 GCTCTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTATA
Found at i:134537 original size:17 final size:17
Alignment explanation
Indices: 134515--134549 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
134505 AACTTTTTGC
134515 TTTTAT-TTTCTATTTTA
1 TTTTATCTTT-TATTTTA
134532 TTTTATCTTTTATTTTA
1 TTTTATCTTTTATTTTA
134549 T
1 T
134550 GCTCTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATCTTTTATTTTA
Found at i:135226 original size:21 final size:21
Alignment explanation
Indices: 135165--135227 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
135155 ATTGAAGATA
*
135165 ATTTTTTT-TTATATATATAC
1 ATTTTTTTAATATATATATAC
*
135185 ATTTTTTTTGAAAATATATATAC
1 A-TTTTTTT-AATATATATATAC
* *
135208 ATTTTTTTACTATACATATA
1 ATTTTTTTAATATATATATA
135228 TATCTAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 16 0.46
22 7 0.20
23 11 0.31
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTTTTAATATATATATAC
Found at i:135226 original size:23 final size:23
Alignment explanation
Indices: 135177--135229 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
135167 TTTTTTTTAT
** *
135177 ATATATACATTTTTTTTGAAAAT
1 ATATATACATTTTTTTACAAAAC
* *
135200 ATATATACATTTTTTTACTATAC
1 ATATATACATTTTTTTACAAAAC
135223 ATATATA
1 ATATATA
135230 TCTAAACTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACATTTTTTTACAAAAC
Found at i:137368 original size:21 final size:21
Alignment explanation
Indices: 137321--137369 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
137311 TAGAACTGAG
* * *
137321 ACTTCTACTGATACAACTCTA
1 ACTTCTACCGATACAACCCAA
**
137342 GGTTCTACCGATACAACCCAA
1 ACTTCTACCGATACAACCCAA
137363 ACTTCTA
1 ACTTCTA
137370 TCGGTAACAC
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.29
Consensus pattern (21 bp):
ACTTCTACCGATACAACCCAA
Found at i:139735 original size:26 final size:26
Alignment explanation
Indices: 139683--139735 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
139673 AGAAGCTTTG
*
139683 AATCGATTGATTCGAGAATTGGTACA
1 AATCGATTGATTCGAGAATTGGAACA
139709 AATCGATTGAATT-GAGCAATT-GAACA
1 AATCGATTG-ATTCGAG-AATTGGAACA
139735 A
1 A
139736 TTTGAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (26 bp):
AATCGATTGATTCGAGAATTGGAACA
Found at i:141030 original size:6 final size:6
Alignment explanation
Indices: 141019--141046 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
141009 GTAAAATTTA
141019 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
141047 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:141563 original size:15 final size:15
Alignment explanation
Indices: 141524--141565 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
141514 TCATTATTAT
141524 TTTATTTTTTAAAGA
1 TTTATTTTTTAAAGA
*
141539 TATAATTTTTTAAA-A
1 T-TTATTTTTTAAAGA
141554 TTTATGTTTTTA
1 TTTAT-TTTTTA
141566 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.13
15 9 0.39
16 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TTTATTTTTTAAAGA
Found at i:145767 original size:63 final size:63
Alignment explanation
Indices: 145664--145789 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
145654 GCAATCAAAA
145664 TTGCATCCCTAACAAAGTGACAATCCACTTCAATTACAATATGCAACGCAGATTAACTATCAT
1 TTGCATCCCTAACAAAGTGACAATCCACTTCAATTACAATATGCAACGCAGATTAACTATCAT
* * * *
145727 TTGCATCCCTAACAAAGTGACAATCCACTTCAATTGCAATATGCAATGTAGATTGACTATCAT
1 TTGCATCCCTAACAAAGTGACAATCCACTTCAATTACAATATGCAACGCAGATTAACTATCAT
145790 AAACAAATAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (63 bp):
TTGCATCCCTAACAAAGTGACAATCCACTTCAATTACAATATGCAACGCAGATTAACTATCAT
Found at i:146616 original size:26 final size:28
Alignment explanation
Indices: 146558--146623 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 28
146548 TATTAGGAAT
*
146558 ATATTTCTAAATATGTAAATGTATAATA
1 ATATTTCTAAATAAGTAAATGTATAATA
146586 A-ATTTCTAAATAAG-AAA-G-ATATATA
1 ATATTTCTAAATAAGTAAATGTATA-ATA
*
146611 ATATTTTTAAATA
1 ATATTTCTAAATA
146624 TTCCTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.09
25 5 0.15
26 13 0.38
27 12 0.35
28 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (28 bp):
ATATTTCTAAATAAGTAAATGTATAATA
Found at i:147683 original size:22 final size:22
Alignment explanation
Indices: 147658--147705 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
147648 TCACAAGAAA
*
147658 CAAAGAAACTCATAA-CAATCTT
1 CAAAGAAA-TCAAAAGCAATCTT
147680 CAAAGAAATCAAAAGGCAATCTT
1 CAAAGAAATCAAAA-GCAATCTT
147703 CAA
1 CAA
147706 TCTTGATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
23 10 0.43
ACGTcount: A:0.52, C:0.21, G:0.08, T:0.19
Consensus pattern (22 bp):
CAAAGAAATCAAAAGCAATCTT
Found at i:151563 original size:556 final size:556
Alignment explanation
Indices: 150511--151609 Score: 2090
Period size: 556 Copynumber: 2.0 Consensus size: 556
150501 GTTTCATCGT
150511 TTTTGCAGGAATCTATTTACAAGCTTGCATACATGCATAATGGAAGGAAGAAAGGTAGACTTTGA
1 TTTTGCAGGAATCTATTTACAAGCTTGCATACATGCATAATGGAAGGAAGAAAGGTAGACTTTGA
150576 ATACTAATTTCTATTACCTTTTACACTAGCATAAAAAAAATTATTGTTGTATTTGACATTAATTT
66 ATACTAATTTCTATTACCTTTTACACTAGCATAAAAAAAATTATTGTTGTATTTGACATTAATTT
*
150641 ACTTAAAAATGAATATTTTGATTGATTTTAGGTAGCAAATAATTTAACATATTTGATTACTTTCA
131 ACTTAAAAATGAATATTTTGATTGATTTTAGGTAGCAAATAATTTAAAATATTTGATTACTTTCA
150706 AGCAGGCATCATCGCAATGAGATGGCTTGATGTCGCAACATTCAAGGTGTAAAGTCGTGACATTG
196 AGCAGGCATCATCGCAATGAGATGGCTTGATGTCGCAACATTCAAGGTGTAAAGTCGTGACATTG
*
150771 TAGCCAATCCATTAGGTCATTGTTTTCAATGATTTCCACCTAAAATGCTTAATATCAATTGGCCT
261 CAGCCAATCCATTAGGTCATTGTTTTCAATGATTTCCACCTAAAATGCTTAATATCAATTGGCCT
150836 CAAGTCCCAAATTTAACCATTCAACTCTTTCAGAACATACTCAAAACACAATTAACAACCGTAAA
326 CAAGTCCCAAATTTAACCATTCAACTCTTTCAGAACATACTCAAAACACAATTAACAACCGTAAA
* * *
150901 CATCATTTATATGTTTGACTGACCACCTCCAAATGTACTTCTGTTCGGTATAGGTTTTAGGCTTC
391 CATCATTTATATGTTTGACCGACCACCTCCAAATGTACTCCTGCTCGGTATAGGTTTTAGGCTTC
*
150966 CGCAAGTACACGGGTCAGGTTGTAATTATAGTGCATTACAGCAGAACACTTGGTAGTATTCCGAG
456 CGCAAGTACACGAGTCAGGTTGTAATTATAGTGCATTACAGCAGAACACTTGGTAGTATTCCGAG
151031 AATTGTATCCAAAGGAGGCGTGAATACTTAGTAGTA
521 AATTGTATCCAAAGGAGGCGTGAATACTTAGTAGTA
151067 TTTTGCAGGAATCTATTTACAAGCTTGCATACATGCATAATGGAAGGAAGAAAGGTAGACTTTGA
1 TTTTGCAGGAATCTATTTACAAGCTTGCATACATGCATAATGGAAGGAAGAAAGGTAGACTTTGA
*
151132 ATACTAATTTCTATTACCTTTTACACTAGCATAAAAAATATTATTGTTGTATTTGACATTAATTT
66 ATACTAATTTCTATTACCTTTTACACTAGCATAAAAAAAATTATTGTTGTATTTGACATTAATTT
151197 ACTTAAAAATGAATATTTTGATTGATTTTAGGTAGCAAATAATTTAAAATATTTGATTACTTTCA
131 ACTTAAAAATGAATATTTTGATTGATTTTAGGTAGCAAATAATTTAAAATATTTGATTACTTTCA
*
151262 AGCAGGCATCATCGCAATGAGATGGCTTGATGTCGTAACATTCAAGGTGTAAAGTCGTGACATTG
196 AGCAGGCATCATCGCAATGAGATGGCTTGATGTCGCAACATTCAAGGTGTAAAGTCGTGACATTG
*
151327 CAGCCAATCCATTAGGTCATTGTTTTCAATGATTTCCACCTAACATGCTTAATATCAATTGGCCT
261 CAGCCAATCCATTAGGTCATTGTTTTCAATGATTTCCACCTAAAATGCTTAATATCAATTGGCCT
*
151392 CAAGTCCCAAATTTAACCATTCAACTCTTTCAGAACATACTCAAAACACAATTTACAACCGTAAA
326 CAAGTCCCAAATTTAACCATTCAACTCTTTCAGAACATACTCAAAACACAATTAACAACCGTAAA
151457 CATCATTTATATGTTTGACCGACCACCTCCAAATGTACTCCTGCTCGGTATAGGTTTTAGGCTTC
391 CATCATTTATATGTTTGACCGACCACCTCCAAATGTACTCCTGCTCGGTATAGGTTTTAGGCTTC
*
151522 CGCAAGTACACGAGTCAGGTTGTAATTATAGTGCATTACAGCAGAACACTTGGTAGTATTTCGAG
456 CGCAAGTACACGAGTCAGGTTGTAATTATAGTGCATTACAGCAGAACACTTGGTAGTATTCCGAG
*
151587 AATTGTATCCAAAGGATGCGTGA
521 AATTGTATCCAAAGGAGGCGTGA
151610 GGCAATAGTT
Statistics
Matches: 531, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
556 531 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (556 bp):
TTTTGCAGGAATCTATTTACAAGCTTGCATACATGCATAATGGAAGGAAGAAAGGTAGACTTTGA
ATACTAATTTCTATTACCTTTTACACTAGCATAAAAAAAATTATTGTTGTATTTGACATTAATTT
ACTTAAAAATGAATATTTTGATTGATTTTAGGTAGCAAATAATTTAAAATATTTGATTACTTTCA
AGCAGGCATCATCGCAATGAGATGGCTTGATGTCGCAACATTCAAGGTGTAAAGTCGTGACATTG
CAGCCAATCCATTAGGTCATTGTTTTCAATGATTTCCACCTAAAATGCTTAATATCAATTGGCCT
CAAGTCCCAAATTTAACCATTCAACTCTTTCAGAACATACTCAAAACACAATTAACAACCGTAAA
CATCATTTATATGTTTGACCGACCACCTCCAAATGTACTCCTGCTCGGTATAGGTTTTAGGCTTC
CGCAAGTACACGAGTCAGGTTGTAATTATAGTGCATTACAGCAGAACACTTGGTAGTATTCCGAG
AATTGTATCCAAAGGAGGCGTGAATACTTAGTAGTA
Found at i:154583 original size:7 final size:7
Alignment explanation
Indices: 154571--154607 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
154561 TCAAAAAAAT
154571 TCAACGG
1 TCAACGG
154578 TCAACGG
1 TCAACGG
*
154585 TCAACAG
1 TCAACGG
*
154592 TCAACAG
1 TCAACGG
154599 TCAACGG
1 TCAACGG
154606 TC
1 TC
154608 GATCAACGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (7 bp):
TCAACGG
Found at i:166939 original size:39 final size:39
Alignment explanation
Indices: 166885--166963 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
166875 TCATGACTTC
*
166885 GGTGTCATTTTCAGAATGGATATCTATAATCTCATTAGA
1 GGTGTCATTTTCAGAATGGATATCTATAATCTCATGAGA
166924 GGTGTCATTTTCAGAATGGATATCTATAATCTCATGAGA
1 GGTGTCATTTTCAGAATGGATATCTATAATCTCATGAGA
166963 G
1 G
166964 CCGCTAGGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (39 bp):
GGTGTCATTTTCAGAATGGATATCTATAATCTCATGAGA
Found at i:168532 original size:20 final size:20
Alignment explanation
Indices: 168485--168535 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
168475 AACCAAATTT
*
168485 AATTAAATAAAAAGAAAAAT
1 AATTAAATAAAAAGAAAAAA
**
168505 AAGAAAATAAAATA-AAAAAA
1 AATTAAATAAAA-AGAAAAAA
168525 AATTAAATAAA
1 AATTAAATAAA
168536 GCAAGTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (20 bp):
AATTAAATAAAAAGAAAAAA
Found at i:189434 original size:36 final size:36
Alignment explanation
Indices: 189392--189569 Score: 232
Period size: 36 Copynumber: 5.0 Consensus size: 36
189382 TGTGAAATTG
*
189392 AATATGTGGGTATGTTATTCATGCCATGAGACAATA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAATA
* * *
189428 GATATGTAGGTATGTTATTCATGCCATGTGACAGTA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAATA
* **
189464 AATATGTTGGTATGTTATTCATGCCATGTGACAGCA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAATA
* * * * *
189500 AATATGTGAGTATTTTATTCATGCCATGAGGC-AGA
1 AATATGTGGGTATGTTATTCATGCCATGTGACAATA
*
189535 AATATGTGGGTATATTATTCATGCCATGTGACAAT
1 AATATGTGGGTATGTTATTCATGCCATGTGACAAT
189570 GAATGTATTG
Statistics
Matches: 122, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
35 29 0.24
36 93 0.76
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (36 bp):
AATATGTGGGTATGTTATTCATGCCATGTGACAATA
Found at i:189933 original size:66 final size:67
Alignment explanation
Indices: 189827--189960 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 67
189817 AAAGAAGGAA
* * * * *
189827 AGTGTTAGCTTTACGCTTCACTTTTGGGATATGTTCGACTCTATGAGTC-TTTTGGTGTGTTTGG
1 AGTGTTAGCTATACGCTTCACTTATGGGACATGTTCGACTCTACGAGTCATATTGGTGTGTTTGG
189891 AG
66 AG
*
189893 AGTGTTAGCTATATGCTTCACTTATGGGACATGTTCGACTCTACGAGTCATATTGGTGTGTTTGG
1 AGTGTTAGCTATACGCTTCACTTATGGGACATGTTCGACTCTACGAGTCATATTGGTGTGTTTGG
189958 AG
66 AG
189960 A
1 A
189961 TCCGCGTATC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
66 44 0.72
67 17 0.28
ACGTcount: A:0.19, C:0.14, G:0.27, T:0.40
Consensus pattern (67 bp):
AGTGTTAGCTATACGCTTCACTTATGGGACATGTTCGACTCTACGAGTCATATTGGTGTGTTTGG
AG
Found at i:190084 original size:23 final size:23
Alignment explanation
Indices: 190054--190205 Score: 169
Period size: 23 Copynumber: 6.6 Consensus size: 23
190044 TCATGAGTTA
190054 TATGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* *
190077 TATTCTTAAATACTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* * *
190100 TGTTCTTAAATATTAATGTTATT
1 TATGCTTAAATATTAATGTGATT
* * *
190123 TATGCTTAAACATTATTTTGATT
1 TATGCTTAAATATTAATGTGATT
*
190146 TGTGCTTAAATATTAATGTGATT
1 TATGCTTAAATATTAATGTGATT
* ** * *
190169 TGTAATTAAATATTGATGTGGTT
1 TATGCTTAAATATTAATGTGATT
*
190192 TATGCTAAAATATT
1 TATGCTTAAATATT
190206 CGTATGATTA
Statistics
Matches: 106, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 106 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (23 bp):
TATGCTTAAATATTAATGTGATT
Found at i:190165 original size:69 final size:69
Alignment explanation
Indices: 190054--190197 Score: 189
Period size: 69 Copynumber: 2.1 Consensus size: 69
190044 TCATGAGTTA
* * **
190054 TATGCTTAAATATTAATGTGATTTATTCTTAAATACTAATGTGATTTGTTCTTAAATATTAATGT
1 TATGCTTAAACATTAATGTGATTTATGCTTAAATACTAATGTGATTTGTAATTAAATATTAATGT
*
190119 TATT
66 GATT
* * * * *
190123 TATGCTTAAACATTATTTTGATTTGTGCTTAAATATTAATGTGATTTGTAATTAAATATTGATGT
1 TATGCTTAAACATTAATGTGATTTATGCTTAAATACTAATGTGATTTGTAATTAAATATTAATGT
*
190188 GGTT
66 GATT
190192 TATGCT
1 TATGCT
190198 AAAATATTCG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (69 bp):
TATGCTTAAACATTAATGTGATTTATGCTTAAATACTAATGTGATTTGTAATTAAATATTAATGT
GATT
Found at i:190214 original size:69 final size:69
Alignment explanation
Indices: 190054--190214 Score: 187
Period size: 69 Copynumber: 2.3 Consensus size: 69
190044 TCATGAGTTA
* * **
190054 TATGCTTAAATATTAATGTGATTTATTCTTAAATACTAATGTGATTTGTTCTTAAATATTAATGT
1 TATGCTTAAATATTAATATGATTTATGCTTAAATACTAATGTGATTTGTAATTAAATATTAATGT
*
190119 TATT
66 GATT
* * * * * *
190123 TATGCTTAAACATTATTTTGATTTGTGCTTAAATATTAATGTGATTTGTAATTAAATATTGATGT
1 TATGCTTAAATATTAATATGATTTATGCTTAAATACTAATGTGATTTGTAATTAAATATTAATGT
*
190188 GGTT
66 GATT
* **
190192 TATGCTAAAATATTCGTATGATT
1 TATGCTTAAATATTAATATGATT
190215 ATTGTGTAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (69 bp):
TATGCTTAAATATTAATATGATTTATGCTTAAATACTAATGTGATTTGTAATTAAATATTAATGT
GATT
Found at i:193321 original size:20 final size:21
Alignment explanation
Indices: 193276--193321 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
193266 CTCTTTCAAA
*
193276 GTATAATTAACATGTTCTATT
1 GTATAATTAACATGATCTATT
193297 G-ATAATTAACAT-ATCT-TT
1 GTATAATTAACATGATCTATT
193315 GTTATAA
1 G-TATAA
193322 AACTTGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 15 0.68
21 1 0.05
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (21 bp):
GTATAATTAACATGATCTATT
Found at i:195704 original size:16 final size:17
Alignment explanation
Indices: 195683--195714 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
195673 CAGAGATCAA
195683 ATTTAAAAAAA-AAAAG
1 ATTTAAAAAAATAAAAG
195699 ATTTAAAAAAATAAAA
1 ATTTAAAAAAATAAAA
195715 AAAATATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
ATTTAAAAAAATAAAAG
Found at i:195707 original size:17 final size:17
Alignment explanation
Indices: 195683--195715 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
195673 CAGAGATCAA
195683 ATTTAAAAAA-AAAAAG
1 ATTTAAAAAATAAAAAG
195699 ATTTAAAAAAATAAAAA
1 ATTT-AAAAAATAAAAA
195716 AAATATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
ATTTAAAAAATAAAAAG
Found at i:196998 original size:17 final size:16
Alignment explanation
Indices: 196965--197004 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
196955 ATTTATATTT
*
196965 ATAAAATAATAAAAAA
1 ATAAAATAAAAAAAAA
196981 ATAAAATAAAATAAAAA
1 ATAAAATAAAA-AAAAA
196998 ATAAAAT
1 ATAAAAT
197005 TGGATTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAATAAAAAAAAA
Found at i:200126 original size:14 final size:14
Alignment explanation
Indices: 200109--200154 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
200099 AAGTTAATAG
200109 GTCAATAGGTCAAA
1 GTCAATAGGTCAAA
*
200123 GTCAATAGGT-TAA
1 GTCAATAGGTCAAA
* *
200136 GACAATGGGTCAAA
1 GTCAATAGGTCAAA
200150 GTCAA
1 GTCAA
200155 CGGGTTAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (14 bp):
GTCAATAGGTCAAA
Found at i:200160 original size:27 final size:27
Alignment explanation
Indices: 200111--200170 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
200101 GTTAATAGGT
* *
200111 CAATAGGTCAAAGTCAATAGGTTAAGA
1 CAATGGGTCAAAGTCAACAGGTTAAGA
* * *
200138 CAATGGGTCAAAGTCAACGGGTTAGGT
1 CAATGGGTCAAAGTCAACAGGTTAAGA
200165 CAATGG
1 CAATGG
200171 ATCGATCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (27 bp):
CAATGGGTCAAAGTCAACAGGTTAAGA
Found at i:214821 original size:36 final size:36
Alignment explanation
Indices: 214775--214918 Score: 182
Period size: 36 Copynumber: 4.0 Consensus size: 36
214765 GACAATTGTT
* * *
214775 AAAGTGAATATGCGGGTATGTTATTCATGTCATGAG
1 AAAGTAAATATGTGGGTATGTTATTCATGCCATGAG
* * *
214811 AAAGTAAATATGTGGGTATGTTAATCATGCCACGTG
1 AAAGTAAATATGTGGGTATGTTATTCATGCCATGAG
* *
214847 ACAGTAAATATGAT-GGTATGTTATTCATGCCATGTG
1 AAAGTAAATATG-TGGGTATGTTATTCATGCCATGAG
* *
214883 ACAGTAAATATGTGAGTATGTTATTCATGCCATGAG
1 AAAGTAAATATGTGGGTATGTTATTCATGCCATGAG
214919 GCAAAGAATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
35 1 0.01
36 93 0.98
37 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.33
Consensus pattern (36 bp):
AAAGTAAATATGTGGGTATGTTATTCATGCCATGAG
Found at i:214985 original size:6 final size:6
Alignment explanation
Indices: 214967--215031 Score: 84
Period size: 6 Copynumber: 11.3 Consensus size: 6
214957 CTGGACTTTT
*
214967 TTTAAA TTT-AA TTTAAA TTTGAA TTTAAA -TT-AA TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
215013 TTT-AA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TT
215032 CAAAGTTAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 2 0.04
5 12 0.23
6 35 0.67
7 3 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:214994 original size:23 final size:23
Alignment explanation
Indices: 214967--215031 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 23
214957 CTGGACTTTT
*
214967 TTTAAATTTAATTTAAATTTGAA
1 TTTAAATTTAATTTAAATTTAAA
214990 TTTAAA-TTAATCTTAAATTTAAA
1 TTTAAATTTAAT-TTAAATTTAAA
215013 TTT-AATTTAAATTTAAATT
1 TTTAAATTT-AATTTAAATT
215032 CAAAGTTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
22 7 0.18
23 28 0.74
24 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTAAATTTAATTTAAATTTAAA
Found at i:215029 original size:17 final size:17
Alignment explanation
Indices: 214967--215031 Score: 89
Period size: 17 Copynumber: 3.8 Consensus size: 17
214957 CTGGACTTTT
214967 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
*
214984 TTTGAATTTAAA-TTAA
1 TTTAAATTTAAATTTAA
215000 TCTTAAATTTAAATTTAA
1 T-TTAAATTTAAATTTAA
215018 TTTAAATTTAAATT
1 TTTAAATTTAAATT
215032 CAAAGTTAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 3 0.07
17 33 0.77
18 7 0.16
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Done.