Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008459.1 Kokia drynarioides strain JFW-HI SEQ_123134, 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: 20466
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:443 original size:29 final size:29
Alignment explanation
Indices: 361--621 Score: 237
Period size: 30 Copynumber: 8.8 Consensus size: 29
351 AAAAGGTCCC
* *
361 TAAACTATCCAAAAAATCATATTTTGACCCT
1 TAAACT-TCC-AAAAATTACATTTTGACCCT
* *
392 CAAACTTCTCAAAAATTACATTTTCACCCT
1 TAAACTTC-CAAAAATTACATTTTGACCCT
* *
422 TGAACTTCCAAAAATTACATTTTGACCCC
1 TAAACTTCCAAAAATTACATTTTGACCCT
* *
451 TAAACTTTCCAAAAAATACATTTTGACCCC
1 TAAAC-TTCCAAAAATTACATTTTGACCCT
*
481 TAAACTTCCAAAAATTATAATTTT-ACCCT
1 TAAACTTCCAAAAATTA-CATTTTGACCCT
* * *
510 TTAACTTTCC-AAAATTACGTATTTGA-CCA
1 TAAAC-TTCCAAAAATTACAT-TTTGACCCT
*
539 TAAATTTCTCAAAAATTACATTTTTG-CCCT
1 TAAACTTC-CAAAAATTACA-TTTTGACCCT
*
569 TAAACTTTCC-AAAATTACATATTTAACCC-
1 TAAAC-TTCCAAAAATTACAT-TTTGACCCT
*
598 TAAATTTCTCAAAAATTACATTTT
1 TAAACTTC-CAAAAATTACATTTT
622 AACTCCCAAA
Statistics
Matches: 191, Mismatches: 24, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
28 8 0.04
29 78 0.41
30 95 0.50
31 10 0.05
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAACTTCCAAAAATTACATTTTGACCCT
Found at i:464 original size:59 final size:58
Alignment explanation
Indices: 358--637 Score: 266
Period size: 59 Copynumber: 4.7 Consensus size: 58
348 CCTAAAAGGT
* * * *
358 CCCTAAACTATCCAAAAAATCATATTTTGA-CCCTCAAACTTCTCAAAAATTACAT-TTTCA
1 CCCTAAACT-TCC-AAAAATTACATTTTGACCCCT-AAACTT-TCCAAAATTACATATTTGA
* *
418 CCCTTGAACTTCCAAAAATTACATTTTGACCCCTAAACTTTCCAAAAAATACAT-TTTGA
1 CCC-TAAACTTCCAAAAATTACATTTTGACCCCTAAACTTTCC-AAAATTACATATTTGA
* * * *
477 CCCCTAAACTTCCAAAAATTATAATTTT-ACCCTTTAACTTTCCAAAATTACGTATTTGA
1 -CCCTAAACTTCCAAAAATTA-CATTTTGACCCCTAAACTTTCCAAAATTACATATTTGA
* * * *
536 CCATAAATTTCTCAAAAATTACATTTTTG-CCCTTAAACTTTCCAAAATTACATATTTAA
1 CCCTAAACTTC-CAAAAATTACA-TTTTGACCCCTAAACTTTCCAAAATTACATATTTGA
* *
595 CCCTAAATTTCTCAAAAATTACATTTTAACTCCC-AAACTTTCC
1 CCCTAAACTTC-CAAAAATTACATTTTGAC-CCCTAAACTTTCC
638 CGAATTCCCT
Statistics
Matches: 188, Mismatches: 21, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
58 24 0.13
59 139 0.74
60 20 0.11
61 5 0.03
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (58 bp):
CCCTAAACTTCCAAAAATTACATTTTGACCCCTAAACTTTCCAAAATTACATATTTGA
Found at i:478 original size:89 final size:88
Alignment explanation
Indices: 358--747 Score: 311
Period size: 89 Copynumber: 4.4 Consensus size: 88
348 CCTAAAAGGT
* * *
358 CCCTAAACTATCCAAAAAATCATATTTTGACCCTCAAACTTCTCAAAAATTA-CATTTTCACCCT
1 CCCTAAACTTTCC-AAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTATCATTTT-ACCCT
422 TGAACTTCCAAAAATTACATTTTGA
64 TGAACTTCCAAAAATTACATTTTGA
* *
447 CCCCTAAACTTTCCAAAAAATACATTTTGACCC-CTAAACTTC-CAAAAATTATAATTTTACCCT
1 -CCCTAAACTTTCCAAAAATTACATTTTGACCCTC-AAACTTCTCAAAAATTATCATTTTACCCT
* *
510 TTAACTTTCC-AAAATTACGTATTTGA
64 TGAAC-TTCCAAAAATTACAT-TTTGA
* * *
536 CCATAAA-TTTCTCAAAAATTACATTTTTG-CCCTTAAACTT-TCCAAAATTA-CATATTTAACC
1 CCCTAAACTTTC-CAAAAATTACA-TTTTGACCCTCAAACTTCTCAAAAATTATCAT-TTT-ACC
* * *
597 C-TAAATTTCTCAAAAATTACATTTTAA
62 CTTGAACTTC-CAAAAATTACATTTTGA
* ** * * * * *
624 CTCCCAAACTTTCC-CGAATTCCCTTTTTAACCCTCGAA-TTTTCCAAAAATTATCATTTTA-CC
1 C-CCTAAACTTTCCAAAAATT-ACATTTTGACCCTCAAACTTCT-CAAAAATTATCATTTTACCC
* *
686 TTCGAACGTCCAAAAATTTCATTTTTGA
63 TT-GAACTTCCAAAAATTACA-TTTTGA
* *
714 CTCGAAACTTTCCAAAAATTACCATTTT-ACCCTC
1 CCCTAAACTTTCCAAAAATTA-CATTTTGACCCTC
748 GAATGTTTGA
Statistics
Matches: 239, Mismatches: 37, Indels: 49
0.74 0.11 0.15
Matches are distributed among these distances:
87 9 0.04
88 85 0.36
89 96 0.40
90 46 0.19
91 3 0.01
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (88 bp):
CCCTAAACTTTCCAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTATCATTTTACCCTTG
AACTTCCAAAAATTACATTTTGA
Found at i:622 original size:29 final size:28
Alignment explanation
Indices: 358--801 Score: 200
Period size: 30 Copynumber: 15.0 Consensus size: 28
348 CCTAAAAGGT
* * * *
358 CCCTAAACTATCCAAAAAATCATATTTTGA
1 CCCTAAA-TTTCC-AAAAATTACATTTTAA
* *
388 CCCTCAAACTTCTCAAAAATTACATTTTCA
1 CCCT-AAATTTC-CAAAAATTACATTTTAA
* * *
418 CCCTTGAACTTCCAAAAATTACATTTTGAC
1 CCC-TAAATTTCCAAAAATTACATTTT-AA
* *
448 CCCTAAACTTTCCAAAAAATACATTTTGAC
1 CCCTAAA-TTTCCAAAAATTACATTTT-AA
* *
478 CCCTAAACTTCCAAAAATTATAATTTT-A
1 CCCTAAATTTCCAAAAATTA-CATTTTAA
* * *
506 CCCTTTAACTTTCC-AAAATTACGTATTTGA
1 CCC--TAAATTTCCAAAAATTACAT-TTTAA
* **
536 CCATAAATTTCTCAAAAATTACATTTTTG
1 CCCTAAATTTC-CAAAAATTACATTTTAA
565 CCCTTAAACTTTCC-AAAATTACATATTTAA
1 CCC-TAAA-TTTCCAAAAATTACAT-TTTAA
595 CCCTAAATTTCTCAAAAATTACATTTTAA
1 CCCTAAATTTC-CAAAAATTACATTTTAA
* ** * *
624 CTCCCAAACTTTCC-CGAATTCCCTTTTTAA
1 C-CCTAAA-TTTCCAAAAATT-ACATTTTAA
*
654 CCCTCGAATTTTCCAAAAATTATCATTTT-A
1 CCCT--AAATTTCCAAAAATTA-CATTTTAA
* * ** * *
684 CCTTCGAACGTCCAAAAATTTCATTTTTGA
1 CCCT-AAATTTCCAAAAATTACA-TTTTAA
* *
714 CTCGAAACTTTCCAAAAATTACCATTTT-A
1 CCCTAAA-TTTCCAAAAATTA-CATTTTAA
* ** * *
743 CCCTCGAATGTT-TGAAAATTCCATTTTTTA
1 CCCT-AAAT-TTCCAAAAATTACA-TTTTAA
*
773 CCCTGAAATTTCAAAAAATTACCATTTTA
1 CCCT-AAATTTCCAAAAATTA-CATTTTA
802 TCCCCGAATG
Statistics
Matches: 316, Mismatches: 64, Indels: 68
0.71 0.14 0.15
Matches are distributed among these distances:
28 19 0.06
29 105 0.33
30 164 0.52
31 28 0.09
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (28 bp):
CCCTAAATTTCCAAAAATTACATTTTAA
Found at i:653 original size:59 final size:59
Alignment explanation
Indices: 372--801 Score: 249
Period size: 59 Copynumber: 7.3 Consensus size: 59
362 AAACTATCCA
* * * * * * *
372 AAAAATCATATTTTGACCCTCAAACTTCTCAAAAATTACAT-TTTCACCCTTGAACTTC-C
1 AAAAATTACATTTTAACCCTCAAACTT-TCCAAAATTACATATTTAACCC-TAAATTTCTC
* * * *
431 AAAAATTACATTTTGACCC-CTAAACTTTCCAAAAAATACAT-TTTGACCCCTAAACTTC-C
1 AAAAATTACATTTTAACCCTC-AAACTTTCC-AAAATTACATATTT-AACCCTAAATTTCTC
* ** * * *
490 AAAAATTATAATTTT-ACCCTTTAACTTTCCAAAATTACGTATTTGACCATAAATTTCTC
1 AAAAATTA-CATTTTAACCCTCAAACTTTCCAAAATTACATATTTAACCCTAAATTTCTC
** *
549 AAAAATTACATTTTTGCCCTTAAACTTTCCAAAATTACATATTTAACCCTAAATTTCTC
1 AAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACATATTTAACCCTAAATTTCTC
** * * * *
608 AAAAATTACATTTTAACTCC-CAAACTTTCCCGAATTCCCTTTTTAACCCTCGAATTT-TCC
1 AAAAATTACATTTTAAC-CCTCAAACTTTCCAAAATTACATATTTAACCCT-AAATTTCT-C
* * * * * * * *
668 AAAAATTATCATTTT-ACCTTCGAAC-GTCCAAAAATTTCATTTTTGACTCGAAACTTTC-C
1 AAAAATTA-CATTTTAACCCTCAAACTTTCC-AAAATTACATATTTAACCCTAAA-TTTCTC
* ** * * * *
727 AAAAATTACCATTTT-ACCCTCGAA-TGTTTGAAAATTCCATTTTTTACCCTGAAATTTC-A
1 AAAAATTA-CATTTTAACCCTCAAACT-TTCCAAAATTACATATTTAACCCT-AAATTTCTC
786 AAAAATTACCATTTTA
1 AAAAATTA-CATTTTA
802 TCCCCGAATG
Statistics
Matches: 299, Mismatches: 52, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
58 25 0.08
59 218 0.73
60 50 0.17
61 6 0.02
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACATATTTAACCCTAAATTTCTC
Found at i:718 original size:28 final size:31
Alignment explanation
Indices: 665--750 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 31
655 CCTCGAATTT
665 TCCAAAAATTATCATTTTACCTTCG-AAC-G
1 TCCAAAAATTATCATTTTACCTTCGAAACTG
*
694 TCCAAAAATT-TCATTTTTGA-C-TCGAAACTT
1 TCCAAAAATTATCA-TTTT-ACCTTCGAAACTG
* *
724 TCCAAAAATTACCATTTTACCCTCGAA
1 TCCAAAAATTATCATTTTACCTTCGAA
751 TGTTTGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
28 6 0.12
29 19 0.40
30 16 0.33
31 7 0.15
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (31 bp):
TCCAAAAATTATCATTTTACCTTCGAAACTG
Found at i:810 original size:59 final size:57
Alignment explanation
Indices: 579--862 Score: 200
Period size: 59 Copynumber: 4.8 Consensus size: 57
569 TAAACTTTCC
* * * * *
579 AAAATTACATATTTAACCCT-AAATTTCTCAAAAATTA-CATTTTAACTCCCAAACTTTCC
1 AAAATTCCATTTTTAACCCTGAAATTTC-CAAAAATTACCATTTT-AC-CCCGAA-TGTCT
** * * * * * *
638 CGAATTCCCTTTTTAACCCTCGAATTTTCCAAAAATTATCATTTTACCTTCGAACGTCCA
1 AAAATTCCATTTTTAACCCT-GAAATTTCCAAAAATTACCATTTTACC-CCGAATGT-CT
* * * *
698 AAAATTTCATTTTTGACTC-GAAACTTTCCAAAAATTACCATTTTACCCTCGAATGTTT
1 AAAATTCCATTTTTAACCCTGAAA-TTTCCAAAAATTACCATTTTACCC-CGAATGTCT
* *
756 GAAAATTCCATTTTTTACCCTGAAATTTCAAAAAATTACCATTTTATCCCCGAATGTCT
1 -AAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCATTTTA-CCCCGAATGTCT
* * * * *
815 AAAATTTTCATTTTCAACCCCGAACA--TCCCAAAATTACTATTTTACCC
1 AAAA-TTCCATTTTTAACCCTGAA-ATTTCCAAAAATTACCATTTTACCC
863 TTGGGTACCC
Statistics
Matches: 178, Mismatches: 35, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
57 3 0.02
58 23 0.13
59 104 0.58
60 36 0.20
61 12 0.07
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.37
Consensus pattern (57 bp):
AAAATTCCATTTTTAACCCTGAAATTTCCAAAAATTACCATTTTACCCCGAATGTCT
Found at i:818 original size:29 final size:29
Alignment explanation
Indices: 727--818 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 29
717 GAAACTTTCC
*
727 AAAAATTACCATTTTA-CCCTCGAATGTTT
1 AAAAATTACCATTTTATCCC-CGAATGTCT
* * * * *
756 GAAAATT-CCATTTTTTACCCTGAAATTTCA
1 AAAAATTACCATTTTAT-CCCCG-AATGTCT
786 AAAAATTACCATTTTATCCCCGAATGTCT
1 AAAAATTACCATTTTATCCCCGAATGTCT
815 AAAA
1 AAAA
819 TTTTCATTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
28 7 0.15
29 16 0.33
30 17 0.35
31 8 0.17
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.36
Consensus pattern (29 bp):
AAAAATTACCATTTTATCCCCGAATGTCT
Found at i:989 original size:33 final size:33
Alignment explanation
Indices: 935--1010 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 33
925 ACATACATGG
935 AATTTTATTATTCTTTCGTATT-TTATATTCTA-TT
1 AATTTT-TTATTCTTTCGTATTATT-TA-TCTACTT
*
969 AATTTTTTATT-TTTGTGTATTATTTATCTACTT
1 AATTTTTTATTCTTT-CGTATTATTTATCTACTT
1002 AATTATTTT
1 AATT-TTTT
1011 GTTTCATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
32 7 0.19
33 18 0.49
34 12 0.32
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.66
Consensus pattern (33 bp):
AATTTTTTATTCTTTCGTATTATTTATCTACTT
Found at i:8160 original size:44 final size:44
Alignment explanation
Indices: 8105--8316 Score: 254
Period size: 46 Copynumber: 4.8 Consensus size: 44
8095 AGACACACCG
8105 ATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCATTCCA
1 ATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCATTCCA
* * * *
8149 ATCTATTACCCCTAAGTCAAGAGGGGCAAATTAAAGCCACCATCCA
1 ATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCA--TTCCA
*
8195 ATCTTTTACCCTTAAGTCAAGAGGGGCAGATT-ACAGCCATCATCCA
1 ATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGA-AGCCAT--TCCA
* * *
8241 ATCTTTTACTCCTAA-TCAAAAGGGGTAGATTGAAG--ATTCCA
1 ATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCATTCCA
* *
8282 ATCTTTTACCCTTAA-TCAAGAGGGGTAGATTGAAG
1 ATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAG
8317 ATTTCAAGAG
Statistics
Matches: 147, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
41 36 0.24
43 2 0.01
44 36 0.24
45 17 0.12
46 56 0.38
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (44 bp):
ATCTTTTACCCCTAAGTCAAGAGGGGCAGATTGAAGCCATTCCA
Found at i:8323 original size:23 final size:23
Alignment explanation
Indices: 8297--8346 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
8287 TTACCCTTAA
*
8297 TCAAGAGGGGTAGATTGAAGATT
1 TCAAGAGAGGTAGATTGAAGATT
8320 TCAAGAGAGGTAGATTGAAGATT
1 TCAAGAGAGGTAGATTGAAGATT
8343 TCAA
1 TCAA
8347 TCTTTTACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (23 bp):
TCAAGAGAGGTAGATTGAAGATT
Found at i:8365 original size:64 final size:64
Alignment explanation
Indices: 8264--8383 Score: 213
Period size: 64 Copynumber: 1.9 Consensus size: 64
8254 AATCAAAAGG
*
8264 GGTAGATTGAAGATTCCAATCTTTTACCCTTAATCAAGAGGGGTAGATTGAAGATTTCAAGAGA
1 GGTAGATTGAAGATTCCAATCTTTTACCCTTAATCAAGAAGGGTAGATTGAAGATTTCAAGAGA
* *
8328 GGTAGATTGAAGATTTCAATCTTTTACCGTTAATCAAGAAGGGTAGATTGAAGATT
1 GGTAGATTGAAGATTCCAATCTTTTACCCTTAATCAAGAAGGGTAGATTGAAGATT
8384 CCAGTCTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (64 bp):
GGTAGATTGAAGATTCCAATCTTTTACCCTTAATCAAGAAGGGTAGATTGAAGATTTCAAGAGA
Found at i:8411 original size:41 final size:43
Alignment explanation
Indices: 8320--8452 Score: 116
Period size: 41 Copynumber: 3.1 Consensus size: 43
8310 ATTGAAGATT
* * * * *
8320 TCAAG-AGAGGTAGATTGAAGATTTCAATCTTTTA-CCGTTAA
1 TCAAGAAGGGGTAGATTGAAGATTCCAGTCTTTTACCCCTAAA
8361 TCAAGAA-GGGTAGATTGAAGATTCCAGTCTTTTACCCCTAAA
1 TCAAGAAGGGGTAGATTGAAGATTCCAGTCTTTTACCCCTAAA
* * *
8403 TTAA-AAGGGGCAAATTGAAGACCATTCC-GATCTTTTACCCCT-AA
1 TCAAGAAGGGGTAGATTGAAG---ATTCCAG-TCTTTTACCCCTAAA
8447 TCAAGA
1 TCAAGA
8453 GGAGCAGATC
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
41 31 0.41
42 20 0.27
44 6 0.08
45 18 0.24
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (43 bp):
TCAAGAAGGGGTAGATTGAAGATTCCAGTCTTTTACCCCTAAA
Found at i:9118 original size:23 final size:23
Alignment explanation
Indices: 9092--9146 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
9082 CTAATTACAA
*
9092 AAACCCAAAATATAAACAGATCC
1 AAACCCAAAACATAAACAGATCC
* * * *
9115 AAACCTAAACCCTAAACAGATCT
1 AAACCCAAAACATAAACAGATCC
9138 AAACCCAAA
1 AAACCCAAA
9147 CCAAGTTGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.55, C:0.29, G:0.04, T:0.13
Consensus pattern (23 bp):
AAACCCAAAACATAAACAGATCC
Found at i:9147 original size:23 final size:23
Alignment explanation
Indices: 9104--9148 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9094 ACCCAAAATA
*
9104 TAAACAGATCCAAACCTAAACCC
1 TAAACAGATCCAAACCCAAACCC
*
9127 TAAACAGATCTAAACCCAAACC
1 TAAACAGATCCAAACCCAAACC
9149 AAGTTGGCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.33, G:0.04, T:0.13
Consensus pattern (23 bp):
TAAACAGATCCAAACCCAAACCC
Found at i:11904 original size:8 final size:9
Alignment explanation
Indices: 11879--11947 Score: 65
Period size: 8 Copynumber: 7.8 Consensus size: 9
11869 AAATAATGAA
11879 AATTTTTAGT
1 AATTTTTA-T
11889 AAATTTTTAT
1 -AATTTTTAT
11899 -ATTTTT-T
1 AATTTTTAT
11906 AATTTTT-T
1 AATTTTTAT
*
11914 AATTTTAAT
1 AATTTTTAT
*
11923 AATTTTTGT
1 AATTTTTAT
11932 AATATTTTAT
1 AAT-TTTTAT
11942 -ATTTTT
1 AATTTTT
11948 TGCAATTCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
7 1 0.02
8 23 0.45
9 13 0.25
10 6 0.12
11 8 0.16
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
AATTTTTAT
Found at i:11906 original size:9 final size:8
Alignment explanation
Indices: 11892--11948 Score: 60
Period size: 9 Copynumber: 6.6 Consensus size: 8
11882 TTTTAGTAAA
11892 TTTTTATAT
1 TTTTTA-AT
11901 TTTTTAAT
1 TTTTTAAT
11909 TTTTTAAT
1 TTTTTAAT
*
11917 TTTAATAAT
1 TTT-TTAAT
11926 TTTTGTAAT
1 TTTT-TAAT
*
11935 ATTTTATAT
1 TTTTTA-AT
11944 TTTTT
1 TTTTT
11949 GCAATTCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 15 0.37
9 26 0.63
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTTAAT
Done.