Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020018.1 Corchorus olitorius cultivar O-4 contig20051, 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: 29570
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:260 original size:30 final size:31
Alignment explanation
Indices: 178--272 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
168 CTAAATACTA
*
178 AAAAAAATCCCTAATGTTTTTCTTTTGGGAC
1 AAAAAAATCCCTTATGTTTTTCTTTTGGGAC
* *
209 AAAAAAATCCCATATGTTTTTCTTTTGGAAC
1 AAAAAAATCCCTTATGTTTTTCTTTTGGGAC
*
240 AAAAAAATCGCTTATG-TTTTCTTTTGGGAC
1 AAAAAAATCCCTTATGTTTTTCTTTTGGGAC
270 AAA
1 AAA
273 TCAGTCCCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 16 0.28
31 42 0.72
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (31 bp):
AAAAAAATCCCTTATGTTTTTCTTTTGGGAC
Found at i:448 original size:31 final size:29
Alignment explanation
Indices: 382--461 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
372 CTCATTTTTG
* * **
382 AAACGTAAGGGATTAATTTGTCCTGAAAA
1 AAACATAAGGGATTATTTTGTCCCAAAAA
411 AAACATAAGGGATTATTTTGTCCCAAAAGCA
1 AAACATAAGGGATTATTTTGTCCCAAAA--A
*
442 AAACATAAGGGATTTTTTTG
1 AAACATAAGGGATTATTTTG
462 GGTATTTAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 24 0.55
31 20 0.45
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (29 bp):
AAACATAAGGGATTATTTTGTCCCAAAAA
Found at i:1491 original size:14 final size:14
Alignment explanation
Indices: 1468--1497 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1458 ATTCAAATCG
*
1468 TAGGATAAGAATAA
1 TAGGAAAAGAATAA
1482 TAGGAAAAGAATAA
1 TAGGAAAAGAATAA
1496 TA
1 TA
1498 CGAACCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (14 bp):
TAGGAAAAGAATAA
Found at i:8569 original size:33 final size:33
Alignment explanation
Indices: 8527--8616 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 33
8517 TGTAACGGCA
*
8527 TGATGAAGGCCCGTGAACTTCATTGAAAAGGTG
1 TGATGAAGGCCCGTGAACTTCATTGAAAAGGCG
*
8560 TGATGAAGGCCCGTGAACTTCATTGAAACGGCG
1 TGATGAAGGCCCGTGAACTTCATTGAAAAGGCG
*
8593 TGATGAAGGCCCG-CAACTTCATTG
1 TGATGAAGGCCCGTGAACTTCATTG
8617 GTTGTAAGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 10 0.19
33 44 0.81
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (33 bp):
TGATGAAGGCCCGTGAACTTCATTGAAAAGGCG
Found at i:10907 original size:76 final size:76
Alignment explanation
Indices: 10770--10921 Score: 184
Period size: 76 Copynumber: 2.0 Consensus size: 76
10760 ACAAGAACCC
* * *
10770 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGT
1 CGACTCCAACTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT
10835 GGGCAGTGTCA
66 GGGCAGTGTCA
* * **
10846 CGACTCCAACTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCCA
1 CGACTCCAACTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTGGTTT-GCCTGAGAACCCA
*
10908 GATGGGCTGTGTCA
63 GATGGGCAGTGTCA
10922 TAGCTCTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
75 4 0.06
76 55 0.85
77 6 0.09
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.24
Consensus pattern (76 bp):
CGACTCCAACTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT
GGGCAGTGTCA
Found at i:13210 original size:52 final size:53
Alignment explanation
Indices: 13153--13357 Score: 252
Period size: 54 Copynumber: 3.8 Consensus size: 53
13143 TTCAGAGATC
* * *
13153 TAAGTTGATGTTC-TTGGCCCTGTGCGGTCTTTCATAAAAGTTTTCATAGGTT
1 TAAGTTGATCTTCAATGACCCTGTGCGGTCTTTCATAAAAGTTTTCATAGGTT
* * * * *
13205 TAAGTTGATCTTCAGATGACCATGTGCGGTATTTAATAGAAGTTTTCAGAGGTT
1 TAAGTTGATCTTCA-ATGACCCTGTGCGGTCTTTCATAAAAGTTTTCATAGGTT
* * *
13259 TAAGTTGATTTTC-ATGGCCCTGTGCGGTCTTTCATAGAAGTTTTCATAGGTT
1 TAAGTTGATCTTCAATGACCCTGTGCGGTCTTTCATAAAAGTTTTCATAGGTT
* *
13311 TAAGTTGATCTTCAAATAACCCTGTGCAGTCTTTCATAAGAAGTTTT
1 TAAGTTGATCTTC-AATGACCCTGTGCGGTCTTTCATAA-AAGTTTT
13358 TAATGATCAG
Statistics
Matches: 129, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 58 0.45
54 64 0.50
55 7 0.05
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (53 bp):
TAAGTTGATCTTCAATGACCCTGTGCGGTCTTTCATAAAAGTTTTCATAGGTT
Found at i:13249 original size:54 final size:53
Alignment explanation
Indices: 13135--13357 Score: 261
Period size: 52 Copynumber: 4.2 Consensus size: 53
13125 GGCGATCTTT
* * * * * * *
13135 TAGAAGCTTTCAGAGATCTAAGTTGATGTTC-TTGGCCCTGTGCGGTCTTTCA
1 TAGAAGTTTTCATAGGTTTAAGTTGATCTTCAATGACCCTGTGCGGTCTTTCA
* * * *
13187 TAAAAGTTTTCATAGGTTTAAGTTGATCTTCAGATGACCATGTGCGGTATTTAA
1 TAGAAGTTTTCATAGGTTTAAGTTGATCTTCA-ATGACCCTGTGCGGTCTTTCA
* * *
13241 TAGAAGTTTTCAGAGGTTTAAGTTGATTTTC-ATGGCCCTGTGCGGTCTTTCA
1 TAGAAGTTTTCATAGGTTTAAGTTGATCTTCAATGACCCTGTGCGGTCTTTCA
* *
13293 TAGAAGTTTTCATAGGTTTAAGTTGATCTTCAAATAACCCTGTGCAGTCTTTCA
1 TAGAAGTTTTCATAGGTTTAAGTTGATCTTC-AATGACCCTGTGCGGTCTTTCA
13347 TAAGAAGTTTT
1 T-AGAAGTTTT
13358 TAATGATCAG
Statistics
Matches: 143, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 71 0.50
54 63 0.44
55 9 0.06
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (53 bp):
TAGAAGTTTTCATAGGTTTAAGTTGATCTTCAATGACCCTGTGCGGTCTTTCA
Found at i:13320 original size:106 final size:106
Alignment explanation
Indices: 13135--13357 Score: 329
Period size: 106 Copynumber: 2.1 Consensus size: 106
13125 GGCGATCTTT
* *
13135 TAGAAGCTTTCAGAGATCTAAGTTGATGTTCTTGGCCCTGTGCGGTCTTTCATAAAAGTTTTCAT
1 TAGAAGTTTTCAGAGATCTAAGTTGATGTTCATGGCCCTGTGCGGTCTTTCATAAAAGTTTTCAT
* * *
13200 AGGTTTAAGTTGATCTTCAGATGACCATGTGCGGTATTTAA
66 AGGTTTAAGTTGATCTTCAAATAACCATGTGCAGTATTTAA
* * * *
13241 TAGAAGTTTTCAGAGGTTTAAGTTGATTTTCATGGCCCTGTGCGGTCTTTCATAGAAGTTTTCAT
1 TAGAAGTTTTCAGAGATCTAAGTTGATGTTCATGGCCCTGTGCGGTCTTTCATAAAAGTTTTCAT
* * *
13306 AGGTTTAAGTTGATCTTCAAATAACCCTGTGCAGTCTTTCA
66 AGGTTTAAGTTGATCTTCAAATAACCATGTGCAGTATTTAA
13347 TAAGAAGTTTT
1 T-AGAAGTTTT
13358 TAATGATCAG
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
106 95 0.91
107 9 0.09
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (106 bp):
TAGAAGTTTTCAGAGATCTAAGTTGATGTTCATGGCCCTGTGCGGTCTTTCATAAAAGTTTTCAT
AGGTTTAAGTTGATCTTCAAATAACCATGTGCAGTATTTAA
Found at i:13387 original size:35 final size:35
Alignment explanation
Indices: 13348--13551 Score: 282
Period size: 35 Copynumber: 5.8 Consensus size: 35
13338 AGTCTTTCAT
* *
13348 AAGAAGTTTTTAATGATCAGAGTTGATCCCATTTC
1 AAGAAGTTTTCAATGATCAGAGTTGATCTCATTTC
* *
13383 AAGAAGTTTGCGATGATCAGAGTTGATCTCATTTC
1 AAGAAGTTTTCAATGATCAGAGTTGATCTCATTTC
*
13418 AAGAAGTTTTCAATGATCAAAGTTGATCTCATTTC
1 AAGAAGTTTTCAATGATCAGAGTTGATCTCATTTC
* * * *
13453 AAGAAGTTTGCGATGATCAGATTTGATCTTATTTC
1 AAGAAGTTTTCAATGATCAGAGTTGATCTCATTTC
* *
13488 AAGAAGTTTTCAATGATCATAGTTGATCTCATTCC
1 AAGAAGTTTTCAATGATCAGAGTTGATCTCATTTC
* * *
13523 AAGAAGTTTTCGATGATCGGAGTTAATCT
1 AAGAAGTTTTCAATGATCAGAGTTGATCT
13552 TCAGATGACC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 147 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (35 bp):
AAGAAGTTTTCAATGATCAGAGTTGATCTCATTTC
Found at i:13552 original size:70 final size:70
Alignment explanation
Indices: 13348--13552 Score: 320
Period size: 70 Copynumber: 2.9 Consensus size: 70
13338 AGTCTTTCAT
* * * *
13348 AAGAAGTTTTTAATGATCAGAGTTGATCCCATTTCAAGAAGTTTGCGATGATCAGAGTTGATCTC
1 AAGAAGTTTTCAATGATCAAAGTTGATCTCATTTCAAGAAGTTTGCGATGATCAGAGTTGATCTT
13413 ATTTC
66 ATTTC
*
13418 AAGAAGTTTTCAATGATCAAAGTTGATCTCATTTCAAGAAGTTTGCGATGATCAGATTTGATCTT
1 AAGAAGTTTTCAATGATCAAAGTTGATCTCATTTCAAGAAGTTTGCGATGATCAGAGTTGATCTT
13483 ATTTC
66 ATTTC
* * * * *
13488 AAGAAGTTTTCAATGATCATAGTTGATCTCATTCCAAGAAGTTTTCGATGATCGGAGTTAATCTT
1 AAGAAGTTTTCAATGATCAAAGTTGATCTCATTTCAAGAAGTTTGCGATGATCAGAGTTGATCTT
13553 CAGATGACCC
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 124 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (70 bp):
AAGAAGTTTTCAATGATCAAAGTTGATCTCATTTCAAGAAGTTTGCGATGATCAGAGTTGATCTT
ATTTC
Found at i:13622 original size:54 final size:53
Alignment explanation
Indices: 13516--14409 Score: 830
Period size: 54 Copynumber: 16.6 Consensus size: 53
13506 ATAGTTGATC
* * * * *
13516 TCATTCCAAGAAGTTTTCGATGATCGGAGTTAAT-CTTCAGATGACCCTGTGCGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATCCCT-AGATGATCCAGTGCGG
* * * *
13570 TC-TTTCATAGAAGCTTTCA-GAAATCAAAGTTGATCCCTAGATGATCTAGTGCGG
1 TCATTCCA-AGAAGTTTTCATG--ATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* * *
13624 TCATTCCAATAAGTTTTCTTTGATCAGAGTTGATCCCTAGATGATCTAGTGCGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* * * * *
13678 TCATTCTAATAAGTTTTCTTTGATCAGAGTTGAT-CTTAGATGACCCAGTGCGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* * *
13731 TCATTCCAAGAAGTTTTTAGAGATCAGAGTTGATCCCTAGATGATCCGGTGCGG
1 TCATTCCAAGAAGTTTTCA-TGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* *
13785 TCATTCCAAAGAAGTTTTTAATGATCAGAGTTGATTCCC-AGATGATCCAATGCGG
1 TCATTCC-AAGAAG-TTTTCATGATCAGAGTTGA-TCCCTAGATGATCCAGTGCGG
* * * * * * **
13840 TCATTTCAAAAAGTTTTTAGTGATAAGAGTTGAT-CTTAGATGATCCAGCGCAT
1 TCATTCCAAGAAGTTTTCA-TGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* *
13893 TCATT-CAAGAAGTTTTCTTTGATCAGAGTTGATCCC-AAATGAT-CAGTGCGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* *
13944 TCATTCCAAGAAGTTTTCTTTGATCAGAGTTGAT-CC-AGGTGATCCAGTGCGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* *
13996 TCATACCAAGAAGTTTTCCATTATCAGAGTTGATCCCTAGATGATCCAGTGCGG
1 TCATTCCAAGAAGTTTT-CATGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
** *
14050 TCATTCCAAGAAGTTTTCAATGATCAGAGTTGATCCCTAGAACAATCTAGTGCGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATCCCTAG-ATGATCCAGTGCGG
* * * *
14105 TCATTTCAAGAAGTTTTCAATGGTCAAAGTTGATTCCC-AGAAGATCCAGTGCGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGA-TCCCTAGATGATCCAGTGCGG
* * * * * *
14159 TCATTCTAAGAAGTTTTTTATGGTCAGAGTTGATTCCC-AAATGATCTAGTGCAG
1 TCATTCCAAGAAG-TTTTCATGATCAGAGTTGA-TCCCTAGATGATCCAGTGCGG
*
14213 TCATTCCAAGAAGTTTTCAATGATCAGAGTTGATCTCC-AGATGATCCAGTGTGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATC-CCTAGATGATCCAGTGCGG
* * ** * *
14267 TAATTCAAAGAAGTTTTCAATGATCAGAGTTGATCTTTAAATGATCCAGTGTGG
1 TCATTCCAAGAAGTTTTC-ATGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
* * * * * *
14321 TCTTTCCAATAAGTTTCTGATGATCATAGTTGATCTCC-A-ATTGATCCAGTACAG
1 TCATTCCAAGAAGTTT-TCATGATCAGAGTTGATC-CCTAGA-TGATCCAGTGCGG
* * * *
14375 TCGTTTCAAGAAGTTTTTGATGGTCAGAGTTGATC
1 TCATTCCAAGAAG-TTTTCATGATCAGAGTTGATC
14410 TCCAAATTGA
Statistics
Matches: 707, Mismatches: 101, Indels: 64
0.81 0.12 0.07
Matches are distributed among these distances:
51 17 0.02
52 96 0.14
53 84 0.12
54 401 0.57
55 95 0.13
56 14 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (53 bp):
TCATTCCAAGAAGTTTTCATGATCAGAGTTGATCCCTAGATGATCCAGTGCGG
Found at i:14987 original size:12 final size:13
Alignment explanation
Indices: 14972--15000 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14962 TTGTTGAAGC
14972 TTGTGTT-TTTTT
1 TTGTGTTATTTTT
14984 TTGTGTTATTTTT
1 TTGTGTTATTTTT
14997 TTGT
1 TTGT
15001 TTTGCTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.03, C:0.00, G:0.17, T:0.79
Consensus pattern (13 bp):
TTGTGTTATTTTT
Found at i:18107 original size:48 final size:48
Alignment explanation
Indices: 18036--18128 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
18026 AATAATAAAT
*
18036 TTTAGTTTTAGTTTAACATTTCTATTGTAATCCTTTTGTTTTTCAATG
1 TTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCAATG
18084 TTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCA
1 TTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCA
18129 TCAATAATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (48 bp):
TTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCAATG
Found at i:19686 original size:48 final size:48
Alignment explanation
Indices: 19615--19708 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
19605 AAATAATAAA
*
19615 GTTTAGTTTTAGTTTAACATTTCTATTGTAATCCTTTTGTTTTTCAAT
1 GTTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCAAT
19663 GTTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCA
1 GTTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCA
19709 TCAATAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.59
Consensus pattern (48 bp):
GTTTAGTTTTAGTTTAAAATTTCTATTGTAATCCTTTTGTTTTTCAAT
Found at i:21668 original size:2 final size:2
Alignment explanation
Indices: 21657--21721 Score: 55
Period size: 2 Copynumber: 34.0 Consensus size: 2
21647 CTTTTTTGTA
* * * *
21657 AT AT AA AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT TT CT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
21698 AT -T AG AT AT AT CT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21722 TATCTAATCG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
1 3 0.06
2 46 0.94
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21707 original size:30 final size:30
Alignment explanation
Indices: 21673--21729 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21663 ATATATATAT
*
21673 ATATATATATGTATATATATT-TCTAATTAG
1 ATATATATATATATA-ATATTATCTAATTAG
*
21703 ATATATCTATATATAATATTATCTAAT
1 ATATATATATATATAATATTATCTAAT
21730 CGTGAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATATATATATATAATATTATCTAATTAG
Found at i:25502 original size:640 final size:636
Alignment explanation
Indices: 23778--25752 Score: 2565
Period size: 641 Copynumber: 3.1 Consensus size: 636
23768 TGTGTATGAA
* * * * *
23778 TATTTTTATGCCGCGGAGATA-ATTGATGCTACAAAGATTGCTATATTATTTGCGTCAGTTACTG
1 TATTTATATGCCGCGGAGA-ACATTGATGCTGCAATGACTGCTATATTATTTGCGTCAATTACTG
* * *
23842 GGTTAAATTGTTTTAATCCTTTCATAGTTCGAATGTTATTTGATGGT-G-TAGTATTTCTATTTG
65 GGCTAAGTTGTTTTAATCCTTTCATAGTTCGAATGTTATTTGAT-GTCGCT-GTATTTGTATTTG
* * ** *
23905 TACACAATACTTGGCACGTCAGAGAAGTTACCAACAAACCATTTATTTATATCAGAGCAGGTTCT
128 TACAC-ATACTTGCCACGTCAGAGAAGTTACCAACAAATCATTTATTCGTATCAGAGCAAGTTCT
* **
23970 ATAATCCAATCTCATCATGACTACTCTGCTCCTTACCACCCCCATCCGATCCGTGATGTACTATG
192 ATAATCCAATCTCATCATGACTACTCCGCTCCTTACCA-CCCCATCCGATCCACGATGTACTATG
* * *
24035 TTTCCTCATTCTTTATCTCCACAACATCTCCTGATAAATATACTCCAACCCCATCGTTTGATTTT
256 TTTTCTCATTCTTTATCTCCACAACATCTCCTAATGAATATACTCCAACCCCATCGTTTGATTTT
* * * *
24100 TATAACTAACCTATAAATGACTCTAAACAAAGAAAGTCGGATCGAAAAGTCCTGTATTTGTCTTA
321 TATAACTAACCTATAATTGAC-CTAAACAAAGAAAGTCGGTTCGAAAAGTCATGTATTAGTCTTA
* * * *
24165 AATATTTAGTCGTAATGGC-ATTTATTTGTTTGATTT-ATTTAATGTACC-GTAGGGATGCTTTG
385 AATATTTAGTCGTAATGGCGA-TTATTTGTTTGATTTGGTTTAA-GT-CCTGCAGGGACGCTTCG
* * *
24227 ACGACGACACCATAGAGGAGTTAAGGTGCCGCTCACCAT-TTGGTGATATGCATCATAGTTTTGA
447 ACGACGACACCATAGAGGAGTTGAGGTGCCGCTCACCATGTTGGTGACAGGCATCATAGTTTTGA
* * * * * *
24291 TGGTGTTTTCTCTTGTATTCCTCTTGGAGGGGCACC-TCTGACCCAGTAATCCTTATAGAGGTAC
512 CGGTGTTCTCTCATGTATTCCTGTTGGAGGGGCTCCTTC-GACCCAGTAATCCTTATAGAGGTAT
* * * * *
24355 AGTTGTTCGCCTATTTAATGTTTTGCTCAATTGAATAATTTGGATTATCATTTTGTTTCGG
576 AGTTTTTCGCCCATTTAATGTTTTGCTCAGTTGAATAATTTGGATTATCATTTTGGTTGGG
* * * *
24416 TATTTATATGCGGC-GA-AATAATTGATGCTGCAATGATTGTTATATTATTTGCGTCAATTACTG
1 TATTTATATGCCGCGGAGAA-CATTGATGCTGCAATGACTGCTATATTATTTGCGTCAATTACTG
* * * * * * *
24479 GGCTAAGTTGCTTTAATCCTTTTATAGTTCAAATGTTATTTTATGGCGCTATACTTGTATTTGTA
65 GGCTAAGTTGTTTTAATCCTTTCATAGTTCGAATGTTATTTGATGTCGCTGTATTTGTATTTGTA
* *
24544 CA-ATACTTGCCACGTCAGAGAAGTTACCAACAAATAATTTATTCGTATCAGAGCAAGTTCTTTA
130 CACATACTTGCCACGTCAGAGAAGTTACCAACAAATCATTTATTCGTATCAGAGCAAGTTCTATA
* **
24608 ATCCAATATCATCATGACTACTCCGCTCCTTACCACCCCATCCGATCCACGATGTACTATGGCTT
195 ATCCAATCTCATCATGACTACTCCGCTCCTTACCACCCCATCCGATCCACGATGTACTATGTTTT
* *
24673 CTCATTCTTTATCTCCACAGCATCTCCTAATGAATATACTCCAACCCCATCGGCTT-ATTTTTAT
260 CTCATTCTTTATCTCCACAACATCTCCTAATGAATATACTCCAACCCCATC-GTTTGATTTTTAT
* * * * *
24737 AACTAACTTATAATTGACCTTAAACAAGGTAAGTCGGTTCGAAAAGTCTTGTTTTAGTCTTAAAT
324 AACTAACCTATAATTGACC-TAAACAAAGAAAGTCGGTTCGAAAAGTCATGTATTAGTCTTAAAT
* * * * * * * * *
24802 ATTTACTCGTAAAGGTGATTATTTGTTTGGTTTGGTGTGAAGTACTACATGGACGCTTCGACGAT
388 ATTTAGTCGTAATGGCGATTATTTGTTTGATTTGGT-TTAAGTCCTGCAGGGACGCTTCGACGAC
* *
24867 GACACCATAGAGAAGTTGAGGTGCCGCTCACCATGTTGGTGACAGGCATCATAGTTTTGACGGCG
452 GACACCATAGAGGAGTTGAGGTGCCGCTCACCATGTTGGTGACAGGCATCATAGTTTTGACGGTG
* * *
24932 TTCACTCATGTATT-ATAGTTGGAGGGGCTCCTTCGATCCAGTAATCCTTATAGAGGTATAGTTT
517 TTCTCTCATGTATTCCT-GTTGGAGGGGCTCCTTCGACCCAGTAATCCTTATAGAGGTATAGTTT
24996 TTCGCCCATTTAATGTTTTGCTCAGTTGAATAATTTGGATTATCATTTTGGTTGGG
581 TTCGCCCATTTAATGTTTTGCTCAGTTGAATAATTTGGATTATCATTTTGGTTGGG
* * * ** *
25052 TATTTATATGCCGCGGAGAACATTGATGTTGCAATGACTGTTATACTATTTATGTCAATTGCTGG
1 TATTTATATGCCGCGGAGAACATTGATGCTGCAATGACTGCTATATTATTTGCGTCAATTACTGG
25117 GCTAAGTTGTTTTAATCCTTTCATAGTTCGAATGTTATTTGATGTCGCTGTATTTGTATTTGTAC
66 GCTAAGTTGTTTTAATCCTTTCATAGTTCGAATGTTATTTGATGTCGCTGTATTTGTATTTGTAC
* * * * * * * *
25182 ACATTAATTGCCACGTTAGA-ATAGTTACAAACAAATCATATATTCGTATTAGAGTATGTTCTCT
131 ACA-TACTTGCCACGTCAGAGA-AGTTACCAACAAATCATTTATTCGTATCAGAGCAAGTTCTAT
* * * * *
25246 AATCTAATCTCATCATGACTGCTCCACTCTTTACCACCTCCATCCGATCCACGATGTACCATGTT
194 AATCCAATCTCATCATGACTACTCCGCTCCTTACCACC-CCATCCGATCCACGATGTACTATGTT
25311 TTCTCATTCTTTATCTCCACAACATCTCCTAATGAATATACTCCAACCCCATCGTTTGATTTTTA
258 TTCTCATTCTTTATCTCCACAACATCTCCTAATGAATATACTCCAACCCCATCGTTTGATTTTTA
*
25376 TAACTAACCTATAATTGACCGTAAATAAAGAAAGTCGGTTCGAAAAGTCATGTATTAGTCTTAAA
323 TAACTAACCTATAATTGACC-TAAACAAAGAAAGTCGGTTCGAAAAGTCATGTATTAGTCTTAAA
* ** ** * * *
25441 TATTTAGTCGTAATCGCGGCTATTTACTTCATTTGGTTTAAGGTCCTGCAGGGAGGCTTCGATGA
387 TATTTAGTCGTAATGGCGATTATTTGTTTGATTTGGTTTAA-GTCCTGCAGGGACGCTTCGACGA
* * * * * * *
25506 CAACACCACAGAGGAGTAAGAGGTGCTGCTCACAATGTTAGTGACGGGCATCATAGTTTTGACGG
451 CGACACCATAGAGGAGT-TGAGGTGCCGCTCACCATGTTGGTGACAGGCATCATAGTTTTGACGG
* * * * * *
25571 TATCCTCTCCTGTATTCCTGTTTGAGAGGCTCTTTCGACCCAGTAATCCTTATAGAGGTATAGTT
515 TGTTCTCTCATGTATTCCTGTTGGAGGGGCTCCTTCGACCCAGTAATCCTTATAGAGGTATAGTT
*
25636 TTTCGCCCATTTAATGTTTTGCTCAGTTGAATAATTTGGACTATCATTTTGGTTGGG
580 TTTCGCCCATTTAATGTTTTGCTCAGTTGAATAATTTGGATTATCATTTTGGTTGGG
* *
25693 TATTTATATGCCGCAGAGATCATTGATGCTGCAATGACTGCTATATTATTTGCGTCAATT
1 TATTTATATGCCGCGGAGAACATTGATGCTGCAATGACTGCTATATTATTTGCGTCAATT
25753 TCTGCTATAC
Statistics
Matches: 1156, Mismatches: 158, Indels: 43
0.85 0.12 0.03
Matches are distributed among these distances:
633 1 0.00
634 164 0.14
635 142 0.12
636 146 0.13
637 195 0.17
638 17 0.01
639 88 0.08
640 198 0.17
641 204 0.18
642 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (636 bp):
TATTTATATGCCGCGGAGAACATTGATGCTGCAATGACTGCTATATTATTTGCGTCAATTACTGG
GCTAAGTTGTTTTAATCCTTTCATAGTTCGAATGTTATTTGATGTCGCTGTATTTGTATTTGTAC
ACATACTTGCCACGTCAGAGAAGTTACCAACAAATCATTTATTCGTATCAGAGCAAGTTCTATAA
TCCAATCTCATCATGACTACTCCGCTCCTTACCACCCCATCCGATCCACGATGTACTATGTTTTC
TCATTCTTTATCTCCACAACATCTCCTAATGAATATACTCCAACCCCATCGTTTGATTTTTATAA
CTAACCTATAATTGACCTAAACAAAGAAAGTCGGTTCGAAAAGTCATGTATTAGTCTTAAATATT
TAGTCGTAATGGCGATTATTTGTTTGATTTGGTTTAAGTCCTGCAGGGACGCTTCGACGACGACA
CCATAGAGGAGTTGAGGTGCCGCTCACCATGTTGGTGACAGGCATCATAGTTTTGACGGTGTTCT
CTCATGTATTCCTGTTGGAGGGGCTCCTTCGACCCAGTAATCCTTATAGAGGTATAGTTTTTCGC
CCATTTAATGTTTTGCTCAGTTGAATAATTTGGATTATCATTTTGGTTGGG
Done.