Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023306.1 Corchorus olitorius cultivar O-4 contig23339, 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: 21484
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Found at i:1900 original size:15 final size:15
Alignment explanation
Indices: 1882--1911 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1872 GCAGAAATTG
1882 AGAGGAGTTAAGAAC
1 AGAGGAGTTAAGAAC
*
1897 AGAGGAGTTCAGAAC
1 AGAGGAGTTAAGAAC
1912 GATGGTAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.10, G:0.33, T:0.13
Consensus pattern (15 bp):
AGAGGAGTTAAGAAC
Found at i:6144 original size:57 final size:57
Alignment explanation
Indices: 6076--6185 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 57
6066 TTTTCCCGTC
* *
6076 ATATCAATCAATGCTGCTGTTTTGATTACACTAAGACTGGATATCATGACCTGTCAT
1 ATATCAATCAATGCTGCTGTTTTGATTACACTAAGACTGAATACCATGACCTGTCAT
6133 ATATCAATCAATGCTGCTGTTTTGATTACACTAAGACTGAATACCATGACCTG
1 ATATCAATCAATGCTGCTGTTTTGATTACACTAAGACTGAATACCATGACCTG
6186 AAATATTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (57 bp):
ATATCAATCAATGCTGCTGTTTTGATTACACTAAGACTGAATACCATGACCTGTCAT
Found at i:7082 original size:26 final size:26
Alignment explanation
Indices: 7053--7129 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
7043 TTTAGACAAG
7053 ATAAGGATCCTAGATGTTTGGTCTGT
1 ATAAGGATCCTAGATGTTTGGTCTGT
* * * *
7079 ATAA--A-CCCA-AT-TTTAGACAAG-
1 ATAAGGATCCTAGATGTTTGGTC-TGT
7100 ATAAGGATCCTAGATGTTTGGTCTGT
1 ATAAGGATCCTAGATGTTTGGTCTGT
7126 ATAA
1 ATAA
7130 TCCCAATTCT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 9 0.25
22 3 0.08
23 4 0.11
24 4 0.11
25 3 0.08
26 13 0.36
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (26 bp):
ATAAGGATCCTAGATGTTTGGTCTGT
Found at i:7111 original size:47 final size:47
Alignment explanation
Indices: 7042--7137 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
7032 GCTGGTCAGT
7042 TTTTAGACAAGATAAGGATCCTAGATGTTTGGTCTGTATAAACCCAA
1 TTTTAGACAAGATAAGGATCCTAGATGTTTGGTCTGTATAAACCCAA
*
7089 TTTTAGACAAGATAAGGATCCTAGATGTTTGGTCTGTATAATCCCAA
1 TTTTAGACAAGATAAGGATCCTAGATGTTTGGTCTGTATAAACCCAA
7136 TT
1 TT
7138 CTTCTATGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (47 bp):
TTTTAGACAAGATAAGGATCCTAGATGTTTGGTCTGTATAAACCCAA
Found at i:7366 original size:21 final size:21
Alignment explanation
Indices: 7341--7380 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7331 TACACTAGTA
7341 TATTCTAGTTTTATCTTAGCG
1 TATTCTAGTTTTATCTTAGCG
*
7362 TATTCTAGTTTTATTTTAG
1 TATTCTAGTTTTATCTTAG
7381 TTTTCATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTCTAGTTTTATCTTAGCG
Found at i:7788 original size:23 final size:23
Alignment explanation
Indices: 7755--7836 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
7745 ATAATCACAC
*
7755 TAAAATTTTGATAAACCTTCCTA
1 TAAAATTTTGATAAACCTCCCTA
*
7778 TAGAATTTTGATAAACCTCCCTA
1 TAAAATTTTGATAAACCTCCCTA
* *
7801 TAAAATTTTGAT-AATCTCCTTA
1 TAAAATTTTGATAAACCTCCCTA
* *
7823 TGAAATCTTGATAA
1 TAAAATTTTGATAA
7837 CTACAAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (23 bp):
TAAAATTTTGATAAACCTCCCTA
Found at i:7828 original size:22 final size:21
Alignment explanation
Indices: 7491--8025 Score: 146
Period size: 22 Copynumber: 24.7 Consensus size: 21
7481 ATGATTTCCT
*
7491 TATGAAATTTTGATAACATTCC
1 TATGAAATTTTGATAAC-CTCC
* *
7513 TATGAAATTTTTG-TAACGATAC
1 TATGAAA-TTTTGATAAC-CTCC
* * **
7535 TATGAAATTTCGAAAACCTTTT
1 TATGAAATTTTGATAACC-TCC
* ** *
7557 TAT-AATTTTTTTTAACCTTCT
1 TATGAAATTTTGATAACC-TCC
*
7578 TATGAAATTTTGTTAACCTCCC
1 TATGAAATTTTGATAACCT-CC
* * **
7600 TAAGGAATTTTGA-AGGGCTCAC
1 TATGAAATTTTGATA-ACCTC-C
* **
7622 TATGAAATCTTGATAAACAACAC
1 TATGAAATTTTGAT-AACCTC-C
* * *
7645 TATGAGATGTTGATAACCTCTA
1 TATGAAATTTTGATAACCTC-C
* * **
7667 TATGATATATTGATAACCATGT
1 TATGAAATTTTGATAACC-TCC
* * *
7689 TATGAAAATTTAAGAACCTCC
1 TATGAAATTTTGATAACCTCC
** *
7710 ATATG-AATTGTT-AGTAGTCACAC
1 -TATGAAATT-TTGA-TAACCTC-C
* * *
7733 TCTGAAATTTTGATAATCACAC
1 TATGAAATTTTGATAACCTC-C
7755 TA--AAATTTTGATAAACCTTCC
1 TATGAAATTTTGAT-AACC-TCC
7776 TAT-AGAATTTTGATAAACCTCCC
1 TATGA-AATTTTGAT-AACCT-CC
* *
7799 TATAAAATTTTGATAATCTCC
1 TATGAAATTTTGATAACCTCC
*
7820 TTATGAAATCTTGATAA----C
1 -TATGAAATTTTGATAACCTCC
*
7838 TA-CAAATTTTGATAACCTCCC
1 TATGAAATTTTGATAACCT-CC
** *
7859 TATGATTTTTTTGATAACCTCAT
1 TATGA-AATTTTGATAACCTC-C
* * * *
7882 TATAAAAATTTGTTAATCTCC
1 TATGAAATTTTGATAACCTCC
* * * *
7903 TTATGATATTTTGATCTACATAC
1 -TATGAAATTTTGAT-AACCTCC
7926 TATGAAATTTTGATAACCCTCC
1 TATGAAATTTTGATAA-CCTCC
* * *
7948 TATGAATTTTTGA-AATCTAAAC
1 TATGAAATTTTGATAACCT--CC
* * *
7970 TATGAAAGTTTGATAACTTTCA
1 TATGAAATTTTGATAAC-CTCC
* *
7992 TATGAGATTTTGATTACCTCC
1 TATGAAATTTTGATAACCTCC
*
8013 -CTGAAATTTTGAT
1 TATGAAATTTTGAT
8026 TACTTCATAA
Statistics
Matches: 375, Mismatches: 100, Indels: 78
0.68 0.18 0.14
Matches are distributed among these distances:
16 11 0.03
17 2 0.01
18 1 0.00
20 23 0.06
21 43 0.11
22 216 0.58
23 76 0.20
24 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
TATGAAATTTTGATAACCTCC
Found at i:7886 original size:83 final size:83
Alignment explanation
Indices: 7753--7917 Score: 210
Period size: 83 Copynumber: 2.0 Consensus size: 83
7743 TGATAATCAC
* * *
7753 ACTAAAATTTTGATAAACCTTCCTATAGAATTTTGATAAACCTCCCTATAAAATTTTGATAATCT
1 ACTAAAATTTTGATAAACCTCCCTATAGAATTTTGATAAACCTCACTATAAAAATTTGATAATCT
7818 CCTTATGAAATCTTGATA
66 CCTTATGAAATCTTGATA
* * *
7836 ACTACAAATTTTGAT-AACCTCCCTAT-GATTTTTTTGAT-AACCTCATTATAAAAATTTGTTAA
1 ACTA-AAATTTTGATAAACCTCCCTATAGA--ATTTTGATAAACCTCACTATAAAAATTTGATAA
* *
7898 TCTCCTTATGATATTTTGAT
63 TCTCCTTATGAAATCTTGAT
7918 CTACATACTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
82 2 0.03
83 52 0.73
84 17 0.24
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.42
Consensus pattern (83 bp):
ACTAAAATTTTGATAAACCTCCCTATAGAATTTTGATAAACCTCACTATAAAAATTTGATAATCT
CCTTATGAAATCTTGATA
Found at i:8154 original size:22 final size:22
Alignment explanation
Indices: 8129--8358 Score: 166
Period size: 22 Copynumber: 10.5 Consensus size: 22
8119 TAATTAATTT
* *
8129 TGAAAATTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCTCTA
8151 TGAAATTTTGATAACCTCTCTA
1 TGAAATTTTGATAACCTCTCTA
* * * * *
8173 TAAAATATTGTTGACCCCTCTA
1 TGAAATTTTGATAACCTCTCTA
* *
8195 TGAAATTTTGATAATCACAT-TA
1 TGAAATTTTGATAACCTC-TCTA
* *
8217 TGTAATTTTGATAACCT-TGCTT
1 TGAAATTTTGATAACCTCT-CTA
** *
8239 TGAAATTTTGATAACAACACTA
1 TGAAATTTTGATAACCTCTCTA
*
8261 TGAAATTTTGATAATCT-TCCTA
1 TGAAATTTTGATAACCTCT-CTA
* *
8283 T-AAATTTTGATAATCTGATCTTTA
1 TGAAATTTTGATAA-C--CTCTCTA
* * *
8307 TGAAATTTCGATAATCACTCTA
1 TGAAATTTTGATAACCTCTCTA
*
8329 TGAGA-TTTGATAACCT-TCTA
1 TGAAATTTTGATAACCTCTCTA
*
8349 TCAAATTTTG
1 TGAAATTTTG
8359 GTTCTCCTTA
Statistics
Matches: 157, Mismatches: 40, Indels: 23
0.71 0.18 0.10
Matches are distributed among these distances:
20 8 0.05
21 24 0.15
22 108 0.69
23 1 0.01
24 4 0.03
25 12 0.08
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (22 bp):
TGAAATTTTGATAACCTCTCTA
Found at i:8420 original size:22 final size:22
Alignment explanation
Indices: 8395--8520 Score: 98
Period size: 22 Copynumber: 5.7 Consensus size: 22
8385 ATGACTTTCA
8395 TATGAAATTTTGATAA-CTACAC
1 TATGAAATTTTGATAACCT-CAC
* *
8417 TATGAAATTTTAATAACCTCCC
1 TATGAAATTTTGATAACCTCAC
* * *
8439 CATGAAATATT-AGTAATCTC-C
1 TATGAAATTTTGA-TAACCTCAC
* * *
8460 TTGTGAAATTTTGTTAACCACAC
1 -TATGAAATTTTGATAACCTCAC
*
8483 TATGAAATTCTT-ATAACCTCGC
1 TATGAAATT-TTGATAACCTCAC
*
8505 TATGACATTTTGATAA
1 TATGAAATTTTGATAA
8521 TTAATTTGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
21 4 0.05
22 72 0.89
23 5 0.06
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTCAC
Found at i:8646 original size:22 final size:22
Alignment explanation
Indices: 8539--8646 Score: 69
Period size: 22 Copynumber: 4.8 Consensus size: 22
8529 ATAACCTTTT
*
8539 CTATAAAATTGTAATAACC-AC
1 CTATAAAATTTTAATAACCTAC
* * *
8560 ACTATGAAATTTCAATAACCTTC
1 -CTATAAAATTTTAATAACCTAC
*
8583 CTAAAAAATTTTAATAACCTGATC
1 CTATAAAATTTTAATAACCT-A-C
* **
8607 CTATGAAAA-ATTGGTAACC-AC
1 CTAT-AAAATTTTAATAACCTAC
*
8628 ACTATAAAATTTTGATAAC
1 -CTATAAAATTTTAATAAC
8647 TTTCCCATGA
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
21 5 0.08
22 45 0.68
23 1 0.02
24 11 0.17
25 4 0.06
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.31
Consensus pattern (22 bp):
CTATAAAATTTTAATAACCTAC
Found at i:8716 original size:22 final size:22
Alignment explanation
Indices: 8691--8748 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
8681 CACACTATAT
8691 AATTTTGATAACC-TCCTCATGA
1 AATTTTGATAACCAT-CTCATGA
* * *
8713 AATTATAATAACCATCTTATGA
1 AATTTTGATAACCATCTCATGA
8735 AATTTTGATAACCA
1 AATTTTGATAACCA
8749 CACAGAGACA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (22 bp):
AATTTTGATAACCATCTCATGA
Found at i:10334 original size:440 final size:431
Alignment explanation
Indices: 9425--10334 Score: 931
Period size: 440 Copynumber: 2.1 Consensus size: 431
9415 GGGTCATTTG
* * * ** * * * *
9425 ATAACTAATTCAAATAAGAAATTATTTCTTCATAGATATCTTGAAACATAAAAATTCCCTTTTGA
1 ATAAATAATCCAAATAAGAAAATATTAGTTAATGGAGATCTTGAAACATAAAAACTCCCTTTTGA
* * *
9490 ACCATTCATGAAACTCGTAGATCAAATTAACTTTCGGGTTCTTCATGAAAGTCGTACAGTAACCT
66 ACCATTCATGAAACTCGTAGATCAAATTAACTTTCGGGTCCTTCAAGAAAGTCATACAGTAACCT
* * * * * *
9555 TTTAACCGACACTTGAATAATTTTAATCAGACATGTGGATCGAAAATTATATGGTATTAAATAGA
131 TTTAACCGACACTTCAATAACTTCAATCAGACATGTGGATCAAAAATTATACGATATTAAATAGA
* * * * * *
9620 CCAACAATCGAAACGACCAAATTTAGGAAGCATTTTTTTTGAATTAAAACATAAAAATTTGCTTT
196 CCAACAATCAAAACCACAAAATTTAGGAAGCATTTTTTTAGAATCAAAACATAAAAATTGGCTTT
* * * * *
9685 TGAGTCCTTCACGAAAGTTGTAGATCATGAGATTACCTTTTAATAAACACATGAATCAACTTAAT
261 TGAGTCCTTCACGAAAATTATAGATCATGAAAATACCTTTTAATAAACACATGAATCAACTCAAT
* * * *
9750 CGGACAAATAGAATAAAGAGTGAAAAAAATAAATCTTAAACGTTAGATGAAGATAGAATTTGTAA
326 CGGACAAATAGAATAAAGAATGAAAAAAATAAATC-TAAACGTTAAATGAACATAGAATTTATAA
* * ** * * **
9815 AGAACTAAGTAGTATAAAGTAAAAAAATATGAGGGTTATTTG
390 AGAACTAAATAGCATAAAACAAAAAAATATGAGGATCATTAA
* * *
9857 ATAAATAATCCAAATAAGAAAATGTTTGTTAATGGAGATCTTGAAGCATAAAAACTCCCTTTTGA
1 ATAAATAATCCAAATAAGAAAATATTAGTTAATGGAGATCTTGAAACATAAAAACTCCCTTTTGA
* * * * *
9922 GCCCTTCATGAAACTCGTAGATCAAATTTAGCTTTTGGGTCCTTCAAGAAAGTTATAAATCATGC
66 ACCATTCATGAAACTCGTAGATCAAA-TTAACTTTCGGGTCCTTCAAGAAAGTCAT--A-CA-G-
* *
9987 AATAACCTTTTAACCGACACTTCAATAACTTCAATCGGATATGTGGA-CAAAAAATTATACGATA
125 --TAACCTTTTAACCGACACTTCAATAACTTCAATCAGACATGTGGATC-AAAAATTATACGATA
* ** *
10051 TTAAATTGACCGGCAATCAAAACCACAAAATTTCAGG-AGCA-TTTTTTAGAATCAAAACATTAA
187 TTAAATAGACCAACAATCAAAACCACAAAATTT-AGGAAGCATTTTTTTAGAATCAAAACATAAA
** * *** *
10114 AATTGGCTTTTGAGTTTTTCATGAAAATTATAGATCATGAAAATACCTTTTAATGGGCACTTGAA
251 AATTGGCTTTTGAGTCCTTCACGAAAATTATAGATCATGAAAATACCTTTTAATAAACACATGAA
* *
10179 TCATCTCAATCGGACAAATAGGAA-AAA-AAT-ACAAAAATAAATGC-AAACGCATTAAATCGTC
316 TCAACTCAATCGGACAAATA-GAATAAAGAATGAAAAAAATAAAT-CTAAACG--TTAAAT-G--
* * * * *
10240 CAACCTATAA-TTATAAAGGACTAAATAGCATAAAACATAAAAGTATGAGGATCATTAA
374 -AACATAGAATTTATAAAGAACTAAATAGCATAAAACAAAAAAATATGAGGATCATTAA
* *
10298 ATAAATAATCCAACA-AA-AATATATTAGTTTATGGAGA
1 ATAAATAATCCAA-ATAAGAAAATATTAGTTAATGGAGA
10335 ATGGGACCCA
Statistics
Matches: 388, Mismatches: 71, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
432 79 0.20
433 23 0.06
435 1 0.00
436 7 0.02
437 12 0.03
438 8 0.02
439 95 0.24
440 102 0.26
441 54 0.14
442 7 0.02
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (431 bp):
ATAAATAATCCAAATAAGAAAATATTAGTTAATGGAGATCTTGAAACATAAAAACTCCCTTTTGA
ACCATTCATGAAACTCGTAGATCAAATTAACTTTCGGGTCCTTCAAGAAAGTCATACAGTAACCT
TTTAACCGACACTTCAATAACTTCAATCAGACATGTGGATCAAAAATTATACGATATTAAATAGA
CCAACAATCAAAACCACAAAATTTAGGAAGCATTTTTTTAGAATCAAAACATAAAAATTGGCTTT
TGAGTCCTTCACGAAAATTATAGATCATGAAAATACCTTTTAATAAACACATGAATCAACTCAAT
CGGACAAATAGAATAAAGAATGAAAAAAATAAATCTAAACGTTAAATGAACATAGAATTTATAAA
GAACTAAATAGCATAAAACAAAAAAATATGAGGATCATTAA
Found at i:10840 original size:14 final size:15
Alignment explanation
Indices: 10818--10846 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10808 TTAAAATTTT
10818 ATAATTAATTTTTAA
1 ATAATTAATTTTTAA
10833 ATAA-TAATTTTTAA
1 ATAATTAATTTTTAA
10847 TAAGTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATAATTAATTTTTAA
Found at i:11676 original size:22 final size:22
Alignment explanation
Indices: 11651--11737 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
11641 TATTTTTGTG
*
11651 AAATTTTGATAATCACCCTATT
1 AAATTTTGATAATCACCCTATA
* *
11673 AAATTTTGATAACCACCATATA
1 AAATTTTGATAATCACCCTATA
* *
11695 AAATTTTAATAATTA-CCTATA
1 AAATTTTGATAATCACCCTATA
* *
11716 AAATTGTGATAATTACCC-ATA
1 AAATTTTGATAATCACCCTATA
11737 A
1 A
11738 GAAACTAACC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
21 22 0.40
22 33 0.60
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (22 bp):
AAATTTTGATAATCACCCTATA
Found at i:14302 original size:28 final size:28
Alignment explanation
Indices: 14270--14330 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
14260 CTAAGTTTTC
*
14270 ATTATTTTAATAATGA-AATTATTAAAAT
1 ATTATTTTAATAATGACAATT-TAAAAAT
*
14298 ATTA-TTTAGTAATGACAATTTAAAAAT
1 ATTATTTTAATAATGACAATTTAAAAAT
14325 A-TATTT
1 ATTATTT
14331 GAAAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTATTTTAATAATGACAATTTAAAAAT
Found at i:14839 original size:108 final size:109
Alignment explanation
Indices: 14631--14846 Score: 371
Period size: 108 Copynumber: 2.0 Consensus size: 109
14621 CTATTATATA
* * **
14631 TATTATTATTAATTGTGTGGTTTATTCAATTGAACCTATTAAATAAGCACACCTACCAAACAATA
1 TATTATTATTAATTATGTGGTTTATTCAATTAAACCTATTAAATAAGCACACAAACCAAACAATA
14696 CAAAATGCAATGAACTATTGGATTTAAAGAAAAATACAAGCACC
66 CAAAATGCAATGAACTATTGGATTTAAAGAAAAATACAAGCACC
*
14740 TATTATTATTAATTAT-TTGTTTATTCAATTAAACCTATTAAATAAGCACACAAACCAAACAATA
1 TATTATTATTAATTATGTGGTTTATTCAATTAAACCTATTAAATAAGCACACAAACCAAACAATA
*
14804 CAAAGTGCAATGAACTATTGGATTTAAAGAAAAATACAAGCAC
66 CAAAATGCAATGAACTATTGGATTTAAAGAAAAATACAAGCAC
14847 AAAAATGACT
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
108 86 0.85
109 15 0.15
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.31
Consensus pattern (109 bp):
TATTATTATTAATTATGTGGTTTATTCAATTAAACCTATTAAATAAGCACACAAACCAAACAATA
CAAAATGCAATGAACTATTGGATTTAAAGAAAAATACAAGCACC
Found at i:19663 original size:21 final size:22
Alignment explanation
Indices: 19606--19665 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
19596 TTAAATATTT
*
19606 TTATGAAATTTTGATAACTACC
1 TTATAAAATTTTGATAACTACC
* *
19628 TTATTAAATTTTGATAATTACC
1 TTATAAAATTTTGATAACTACC
*
19650 -TATAAAATTGTGATAA
1 TTATAAAATTTTGATAA
19666 ACTCCATAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (22 bp):
TTATAAAATTTTGATAACTACC
Done.