Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014506.1 Corchorus capsularis cultivar CVL-1 contig14527, 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: 7354
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Found at i:3195 original size:2 final size:2
Alignment explanation
Indices: 3188--3224 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3178 TGAGAGTTGA
3188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3225 ATTATAGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3730 original size:21 final size:22
Alignment explanation
Indices: 3705--3752 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3695 GAATTTCGAG
* * *
3705 AACCTTTTTAT-AATTTTTTTT
1 AACCTTCTTATGAAATTTTGTT
3726 AACCTTCTTATGAAATTTTGTT
1 AACCTTCTTATGAAATTTTGTT
3748 AACCT
1 AACCT
3753 CCCTAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (22 bp):
AACCTTCTTATGAAATTTTGTT
Found at i:3927 original size:22 final size:22
Alignment explanation
Indices: 3889--3948 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
3879 AAAACCTCCA
*
3889 TATG-AATTGTTAGTAATCACAC
1 TATGAAATTGTGA-TAATCACAC
* *
3911 TCTGAAATTTTGATAATCACAC
1 TATGAAATTGTGATAATCACAC
3933 TATGAAATTGTGATAA
1 TATGAAATTGTGATAA
3949 CCTCGTTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (22 bp):
TATGAAATTGTGATAATCACAC
Found at i:3984 original size:22 final size:23
Alignment explanation
Indices: 3959--4038 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
3949 CCTCGTTATG
3959 AAATTTTGATAAATCTTCATATA
1 AAATTTTGATAAATCTTCATATA
* * * *
3982 AATTTTTGATAAACCTCCCTATA
1 AAATTTTGATAAATCTTCATATA
* * *
4005 AAATTTTGATAACT-TTCTTATG
1 AAATTTTGATAAATCTTCATATA
*
4027 AAATCTTGATAA
1 AAATTTTGATAA
4039 CTATAAATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 16 0.35
23 30 0.65
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (23 bp):
AAATTTTGATAAATCTTCATATA
Found at i:3992 original size:23 final size:23
Alignment explanation
Indices: 3937--4016 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
3927 TCACACTATG
* ** *
3937 AAATTGTGAT-AACCTCGTTATG
1 AAATTTTGATAAACCTCCATATA
* *
3959 AAATTTTGATAAATCTTCATATA
1 AAATTTTGATAAACCTCCATATA
* *
3982 AATTTTTGATAAACCTCCCTATA
1 AAATTTTGATAAACCTCCATATA
4005 AAATTTTGATAA
1 AAATTTTGATAA
4017 CTTTCTTATG
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 9 0.20
23 37 0.80
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (23 bp):
AAATTTTGATAAACCTCCATATA
Found at i:4179 original size:21 final size:21
Alignment explanation
Indices: 3913--4187 Score: 91
Period size: 22 Copynumber: 12.8 Consensus size: 21
3903 AATCACACTC
3913 TGAAATTTTGATAA-TCACACTA
1 TGAAATTTTGATAACT-A-ACTA
* ***
3935 TGAAATTGTGATAACCTCGTTA
1 TGAAATTTTGATAA-CTAACTA
*
3957 TGAAATTTTGATAAATCT-TCATA
1 TGAAATTTTGAT-AA-CTAAC-TA
**
3980 T-AAATTTTTGATAAACCTCCCTA
1 TGAAA-TTTTGAT-AA-CTAACTA
* **
4003 TAAAATTTTGATAACTTTCTTA
1 TGAAATTTTGATAACTAAC-TA
*
4025 TGAAATCTTG---A-TAACTA
1 TGAAATTTTGATAACTAACTA
**
4042 T-AAATTTTGATAACCTCCCTA
1 TGAAATTTTGATAA-CTAACTA
** * *
4063 TGATTTTTTGATAACCTCATTA
1 TGAAATTTTGATAA-CTAACTA
* * **
4085 TGAAATTCTGTTAATCTCCCTA
1 TGAAATTTTGATAA-CTAACTA
* *
4107 TGAAATTTTGTTCTAC-ATACTA
1 TGAAATTTTGAT-AACTA-ACTA
***
4129 TGAAATTTTGATAACCCTCTTA
1 TGAAATTTTGATAACTAAC-TA
* *
4151 TAAAATTTTGAAAACTAACTA
1 TGAAATTTTGATAACTAACTA
4172 TGAAATTTTGATAACT
1 TGAAATTTTGATAACT
4188 CCATAATAAA
Statistics
Matches: 190, Mismatches: 45, Indels: 37
0.70 0.17 0.14
Matches are distributed among these distances:
16 7 0.04
17 3 0.02
18 2 0.01
19 2 0.01
21 27 0.14
22 114 0.60
23 30 0.16
24 5 0.03
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.41
Consensus pattern (21 bp):
TGAAATTTTGATAACTAACTA
Found at i:6363 original size:654 final size:657
Alignment explanation
Indices: 4319--7198 Score: 3588
Period size: 654 Copynumber: 4.4 Consensus size: 657
4309 AAACTGACCC
*
4319 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCATA
1 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
* * *
4384 ATGCTCAGAAAAAAATATATAGTTCAACGCCAAAAAGATTGATGGGCTTTTCACGGTTCTAATAT
66 ATACTCAG-AAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGGTTCTAATAT
* * * * * *
4449 CGTTTTCCCATTTTCTTTTTCGAAATTAATTTCTAATTAAATCGAAA-TA-A-GATT-CAGATAC
130 CGTTTTCCAATTTT-TTTTCCG-AATTAATTT-TAATTAAATCGAAACAAGATGATTGTAAAAAC
* * * * * * * *
4510 ---TCGTAAAAACAAATCGT---T-ATA-TTGGTTCAATGAATATAGATATTTGAAGGAGTCTTT
192 AAATCCTTATATCCAAT-GTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTT
** * * **
4567 ACGCCAAAAATCATGCAAAATTGAGT-CGGGATAC-GGAACACGTTTTTAGCCAAAAACCGTGAT
256 ACGCCAAAAATCATGCAAAATTGA-TCCGGGGCACTGGAACTCGTTTTTAGCAAAAAACTATGAT
* * * * *
4630 GGTCAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGACCCGAAAAGTTTTTTCTGAATTTT
320 GGTTAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGGCCTGAAAAGTTTTTCCTCAATTTT
* * * * *
4695 TTGCCACAATAATCATAAAAAATATATAATTCAATGCCAAAAAAACTGAATGGTTTTTTTTTTTC
385 TTGCCCCAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATAG-----TTTTTTC
* * ** *
4760 ACGCTTCTAATATCACTTTT-CCATTTTTTCAT-T-GAATTTATTTCTAATTAAATCGAAACAAG
445 GCGCTTCTAATATC-GTTTTACCATTTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAG
* * * * * *
4822 ATTCA-AAAGCTTGTAAAAACAAATTCTT-AAATCAA-ATGTGGCTGAGATTTGGATAGAT-GAA
509 ATTCAGAAA-CTCGTAAAAACAAATCCTTAAAACCAATGTGTGGCTGAGATTTGGTTAGATAAAA
*** * * * *
4883 TATAGATATTTCAAGGAGTCTTTCTGCCAAAAGTTATGCAAAACTGAGTCGGGGTCCTGAAACGC
573 TATAGATATTTCAAGGAAAATTTCTTCCAAAAGTTATACAAAACTGAGCCAGGGTCCTGAAACG-
** **
4948 T-TTTTTAGCTAAAAAACTAT
637 TGTTTTTAGCCCAAAAACCGT
* ** * * *
4968 GATGTTTAGTGTACGATTTCAGCTAAAAAATGACCCGAAAATATTTTTCTCAAAATTTTTTTTCT
1 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTC--AA-TTTTTTGCC
*
5033 ACAATACTCAG-AAAAATATATAATTCAAAGCCAAAAAGATTGACGGGCTTTTCACGGTTCTAAT
63 ACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGGTTCTAAT
* * *
5097 ATCGTTTTCCCA-TTTTTTTCTGAATTAATTTTAAATAAATCGAAACAAGATTCAGATGCTTGTA
128 ATCGTTTTCCAATTTTTTTTCCGAATTAATTTTAATTAAATCGAAACAAGA-T--GA---TTGTA
* * *
5161 AAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGGTCAATGAATATAGATACTTCAAGGAGT
187 AAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGT
* * * * * *
5226 CTTTATGCCAAAAATCATGCAAAATTAAGCCGGGGC-TTCGGAACTCGTTTTTAACCAAAAACTA
252 CTTTACGCCAAAAATCATGCAAAATTGATCCGGGGCACT-GGAACTCGTTTTTAGCAAAAAACTA
**
5290 TGATGGTTAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGGTCC-GAAATTTTTTTCCTCA
316 TGATGGTTAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGG-CCTGAAAAGTTTTTCCTCA
* * * * *
5354 GTTTATTACCCCAATACTCAGAAAAAATATATAATTCAAAGCCAAAAAAATTGAATAGTTTTTTC
380 ATTTTTTGCCCCAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATAGTTTTTTC
*
5419 GTGCTTCTAATATCGTTTTACCA--TTTTTTTCTCGAATTTAATTCTAATTAAATCGAAA-AGAG
445 GCGCTTCTAATATCGTTTTACCATTTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACA-AG
* *
5481 ATTCAGAAACTCGTAAAAACAAATCCTTAAAACCAATGTATGGTTGAGATTTGGTTAGATAAAAA
509 ATTCAGAAACTCGTAAAAACAAATCCTTAAAACCAATGTGTGGCTGAGATTTGGTTAGAT-AAAA
5546 TATAGATATTTCAAGGAAAATTTCTTCCAAAAGTTATACAAAACTGAGCC-GGAGTCCTGAAACG
573 TATAGATATTTCAAGGAAAATTTCTTCCAAAAGTTATACAAAACTGAGCCAGG-GTCCTGAAACG
5610 TGTTTTTAGCCCAAAAACCGT
637 TGTTTTTAGCCCAAAAACCGT
* *
5631 GATGATTTA-TACACGATTTCAGCTAAAAACTGACCTGAAAATATTTTTCTCAATTTTTTGCCAC
1 GATG-GTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCAC
* * * * *
5695 AAAACTCAGAAAAGATATATAATTCAACACCAAAAAGGTTGACGGGCTTTTCACGGTTCTATTAT
65 AATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGGTTCTAATAT
*
5760 CGTTTTCCAATTTTTTTTCCGAATTAATTTTAATTAAATCGAAACAAGATG-TTGTAACAACAAA
130 CGTTTTCCAATTTTTTTTCCGAATTAATTTTAATTAAATCGAAACAAGATGATTGTAAAAACAAA
5824 TCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGT-TATTACG
195 TCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCT-TTACG
5888 CCAAAAATCATGCAAAATTGATCCGGGGCACTGGAACTCGTTTTTAGCAAAAAAGCTATGATGGT
259 CCAAAAATCATGCAAAATTGATCCGGGGCACTGGAACTCGTTTTTAGCAAAAAA-CTATGATGGT
* ** *
5953 TATTACATGATTTCGGCTAAAATTTTCACAAAAACTGGCCTAAAAAGTTTTTCCTCAATTTTTTG
323 TAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGGCCTGAAAAGTTTTTCCTCAATTTTTTG
* *
6018 CGCCAATACTCATAAAAAATATATAGTTCAACGCCAAAAAAATTGAATAGTTTTTTCGCGCTTCT
388 CCCCAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATAGTTTTTTCGCGCTTCT
6083 AATATCGTTTTACCATTTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAGATTCAGAAA
453 AATATCGTTTTACCATTTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAGATTCAGAAA
* * * *
6148 CCCGTAAAAACAAATCCTTAAATCC-AT-TTTGGCTGAGATTTGGTTAGAT-GAATATAGATATT
518 CTCGTAAAAACAAATCCTTAAAACCAATGTGTGGCTGAGATTTGGTTAGATAAAATATAGATATT
*** * * *
6210 TCAAGGAGTGTCTCTTCCAAAAGTTATACAAAACTGAGCCAGGGCCCTGAAACGTGTTTTTATCC
583 TCAAGGAAAATTTCTTCCAAAAGTTATACAAAACTGAGCCAGGGTCCTGAAACGTGTTTTTAGCC
*
6275 CAAAACCCGT
648 CAAAAACCGT
6285 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
1 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
* * * *
6350 ATACTCAGAAAAGATATATAATACAACGCCAAAAAGATTGACGGGCTTTTCATGGTTCTTATATC
66 ATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGGTTCTAATATC
*
6415 GTTTTCCAA-ATTTTTTCCGAATTAATTTTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
131 GTTTTCCAATTTTTTTTCCGAATTAATTTTAATTAAATCGAAACAAGA-T--GAT--T-GTAAAA
* * ** * * *
6479 GCAAATCCTTATATCCAATATGGCTGAGATTTAATTCGAAGAATATAAATATTTCAAGGAGTCAT
190 ACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTT
* * * *
6544 TACGCAAAAAATCATGCAAAATTCATCCAGGGCACTGGAACTCGTTTTTAGCAAAAAGGCTATGA
255 TACGCCAAAAATCATGCAAAATTGATCCGGGGCACTGGAACTCGTTTTTAGCAAAAA-ACTATGA
*
6609 TGGTTA-TACATGATTTCGGCTAAAATTTTTGCAAAAACTAGCCTGAAAAGTTTTTCCTCAATTT
319 TGGTTAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGGCCTGAAAAGTTTTTCCTCAATTT
6673 TTTGCCCCAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATAGTTTTTTCGCGC
384 TTTGCCCCAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATAGTTTTTTCGCGC
* * * *
6738 TTCTAATATC-ATTTACC-GTTTTTTTTCTCGAATTTAATTCTAATTGAATCGAAATAAGATTCA
449 TTCTAATATCGTTTTACCATTTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAGATTCA
6801 GAAACTCGTAAAAACAAATCCTTAAAACCAATGTGTGGCTGAGATTTGGTTAGATAAAAATATAG
514 GAAACTCGTAAAAACAAATCCTTAAAACCAATGTGTGGCTGAGATTTGGTTAGAT-AAAATATAG
* *
6866 ATATTTCAAGGAAAATTTCTTCCAAAAGTTATAC--AACCG-G--A--GTCCTGAAACTTGTTTT
578 ATATTTCAAGGAAAATTTCTTCCAAAAGTTATACAAAACTGAGCCAGGGTCCTGAAACGTGTTTT
6924 TAGCCCAAAAACCGT
643 TAGCCCAAAAACCGT
6939 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAAATTTTTTTTGCC
1 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTC-AA--TTTTTTGCC
* * * * *** * ** *
7004 ACAATACTCATAAAAAATATAGAATTTAATGCCAAAAA-ATTGAATAGTTTTTCGTGCTTCTAAT
63 ACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGGTTCTAAT
* * **
7068 ATCGTTTTACCATTTTTTTTTCTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGAAACCC
128 ATCGTTTT-CCAATTTTTTTTC-CGAATTAATTT-TAATTAAATCGAAACAAGA-T--G--A-TT
* * * * *
7133 GTAAAAACAAATCTTTAAAACCAATGTGGCTAAGATTTGGTTAGATGAATATAGATATTTCAAGG
184 GTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGG
7198 A
249 A
7199 AAATTTCTTC
Statistics
Matches: 1959, Mismatches: 201, Indels: 131
0.86 0.09 0.06
Matches are distributed among these distances:
646 13 0.01
647 10 0.01
648 6 0.00
649 50 0.03
650 62 0.03
651 2 0.00
652 18 0.01
653 40 0.02
654 284 0.14
655 125 0.06
656 192 0.10
657 122 0.06
658 93 0.05
659 244 0.12
660 233 0.12
661 119 0.06
662 42 0.02
663 173 0.09
664 129 0.07
665 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (657 bp):
GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
ATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGACGGGCTTTTCACGGTTCTAATATC
GTTTTCCAATTTTTTTTCCGAATTAATTTTAATTAAATCGAAACAAGATGATTGTAAAAACAAAT
CCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACGCC
AAAAATCATGCAAAATTGATCCGGGGCACTGGAACTCGTTTTTAGCAAAAAACTATGATGGTTAG
TACATGATTTCGGCTAAAATTTTTGCAAAAACTGGCCTGAAAAGTTTTTCCTCAATTTTTTGCCC
CAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATAGTTTTTTCGCGCTTCTAAT
ATCGTTTTACCATTTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAGATTCAGAAACTC
GTAAAAACAAATCCTTAAAACCAATGTGTGGCTGAGATTTGGTTAGATAAAATATAGATATTTCA
AGGAAAATTTCTTCCAAAAGTTATACAAAACTGAGCCAGGGTCCTGAAACGTGTTTTTAGCCCAA
AAACCGT
Found at i:7106 original size:982 final size:971
Alignment explanation
Indices: 4319--7354 Score: 3027
Period size: 982 Copynumber: 3.1 Consensus size: 971
4309 AAACTGACCC
*
4319 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCATA
1 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
* * *
4384 ATGCTCAGAAAAAAATATATAGTTCAACGCCAAAAAGATTGATGGGCTTTTCACGGTTCTAATAT
66 ATACTCAG-AAAAAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCATGGTTCTAATAT
* * *
4449 CGTTTTCCCATTTTCTTTTTCGAAATTAATTTCTAATTAAATCGAAATAAGATTCAGATACTCGT
130 CGTTTTACCAATTT-TTTTCCG-AATTAATTT-TAATTAAATCGAAA-AAGATTCAGATACTCGT
* * *
4514 AAAAACAAAT-C--GT-T---ATAT--TG-G-TTCAA-T---GAATATAGATATTTGAAGGAGTC
191 AAAAACAAATCCTTATATCCAATATGGTGAGATTTAATTGAAGAATATAGATATTTCAAGGAGTC
* * * **
4564 TTTACGCCAAAAATCATGCAAAATTGAGT-CGGGATAC-GGAACACGTTTTTAGCCAAAAACCGT
256 ATTACGCCAAAAATCATGCAAAATTGA-TCCGGGACACTGGAACTCGTTTTTAGCCAAAAACTAT
* * *
4627 GATGGTCAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGACCCGAAAAGTTTTTTCTGAAT
320 GATGGTTA-TACATGATTTCGGCTAAAATTTTTGCAAAAACTGACCTGAAAAGTTTTTTCTCAAT
* * *
4692 TTTTTGCCACAATAATCATAAAAAATATATAATTCAATGCCAAAAAAACTGAATGGTTTTTTTTT
384 TTTTTGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATGG-----TTTT
* * *
4757 TTCACGCTTCTAATATCACTTTTCC-ATTTTTTCATTGAATTTATTTCTAATTAAATCGAAACAA
444 TTCACGCTTCTAATATCA-TTTTCCTTTTTTTTC-TCGAATTTAATTCTAATTAAATCGAAACAA
* * * *
4821 GATTCA-AAAGCTTGTAAAAACAAATTCTTAAATCAAATGTGGCTGAGATTTGGATAGATGAATA
507 GATTCAGAAA-CTTGTAAAAACAAATCCTTAAAACCAATGTGGCTGAGATTTGGTTAGATGAATA
* * *
4885 TAGATATTTCAAGGAGTCTTTCTGCCAAAAGTTATGCAAAACTGAGTCGGGGTCCTGAAACGCT-
571 TAGATATTTCAAGGAATATTTCTGCCAAAAGTTAT-CAAAAC-----C-GGGTCCTGAAAC-TTG
* * ** *
4949 TTTTTAGCTAAAAAACTATGATGTTTAGTGTACGATTTCAGCTAAAAAATGACCCGAAAATATTT
628 TTTTTAGCCAAAAAACTATGATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTT
* * *
5014 TTCTCAAAATTTTTTTT-CTACAATACTCA-GAAAAATATATAATTCAAAGCCAAAAAGATTGAC
693 TTCTC-AAATTTTTTTTGCCACAATACTCATAAAAAATATATAATTCAAAGCCAAAAA-ATTGAA
** * * * * * *
5077 GGGCTTTTCACGGTTCTAATATCGTTTTCCCA--TTTTTTTCT-GAATTAATTT-TAAATAAATC
756 TAGTTTTTCGCGCTTCTAATATCGTTTTACCATTTTTTTTTCTCGAATTTATTTCTAATTAAATC
** ** * *
5138 GAAACAAGATTCAGATGCTTGTAAAAACAAATCCTTATATCCAATGTGGCTGAGATTTGGGTCA-
821 GAAACAAGATTCAGAAACCCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTT-GGTTAG
* * * * * * * * * * * *
5202 ATGAATATAGATACTTCAAGGAGTCTTTATGCCAAAAATCATGCAAAATTAAGCCGGGGCTTCGG
885 ATGAATATAGATATTTCAAGGAGTATTTCTTCCAAAAGTTATACAAAACTGAGCCGGGCCCT-GA
* **
5267 AACTCGTTTTTAACCAAAAACTAT
949 AACT-GTTTTTACCCAAAAACCGT
* * ** * *
5291 GATGGTTAGTACATGATTTCGGCTAAAATTTTTGCAAAAACTGGTCCG-AAATTTTTTTCCTCAG
1 GATGGTTAGTACACGATTTCAGC---------T--AAAAACTGACCCGAAAATATTTTT-CTCAA
* * * * * * ** *
5355 TTTATTACCCCAATACTCAGAAAAAATATATAATTCAAAGCCAAAAAAATTGAATAGTTTTTTCG
54 TTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTG-ATGGGCTTTTCA
* *
5420 TGCTTCTAATATCGTTTTACC-ATTTTTTTCTCGAATTTAATTCTAATTAAATCGAAAAGAGATT
118 TGGTTCTAATATCGTTTTACCAATTTTTTTC-CGAA-TTAATTTTAATTAAATCGAAAA-AGATT
* * * ** *
5484 CAGAAACTCGTAAAAACAAATCCTTAAAACCAATGTATGGTTGAGATTTGGTTAGATAAAAATAT
180 CAGATACTCGTAAAAACAAATCCTTATATCCAA--TATGG-TGAGATTTAATT-G--AAGAATAT
** * * * * * * * * *
5549 AGATATTTCAAGGA-AAATTTCTTCCAAAAGTTATACAAAACTGAGCCGGAGTC-CTGAAACGT-
239 AGATATTTCAAGGAGTCATTAC-GCCAAAAATCATGCAAAATTGATCCGG-GACACTGGAAC-TC
** * * *
5611 GTTTTTAGCCCAAAAACCGTGATGATTTATACACGATTTCAGC---------T--AAAAACTGAC
301 GTTTTTAG-CCAAAAACTATGATG-GTTATACATGATTTCGGCTAAAATTTTTGCAAAAACTGAC
* * * *
5665 CTGAAAA-TATTTTTCTCAATTTTTTGCCACAAAACTCAGAAAAGATATATAATTCAACACCAAA
364 CTGAAAAGT-TTTTTCTCAATTTTTTGCCACAATACTCATAAAAAATATATAATTCAACGCCAAA
** * ** * * * *
5729 AAGGTTG-ACGGGCTTTTCACGGTTCTATTATCGTTTTCCAATTTTTTTTC-CGAA-TTAATTTT
428 AAAATTGAATGGTTTTTTCACGCTTCTAATATCATTTTCC--TTTTTTTTCTCGAATTTAATTCT
* * *
5791 AATTAAATCGAAACAAGA-T--G----TTGTAACAACAAATCCTTATATCCAATGTGGCTGAGAT
491 AATTAAATCGAAACAAGATTCAGAAACTTGTAAAAACAAATCCTTAAAACCAATGTGGCTGAGAT
* * * * *
5849 TTGGTTCGATGAATATAGATATTTCAAGGAGTTATTAC-GCCAAAAATCATGCAAAATTGATCCG
556 TTGGTTAGATGAATATAGATATTTCAAGGA-ATATTTCTGCCAAAAGTTAT-C-AAA---A-CCG
* * * * * *
5913 GGGCACTGGAACTCGTTTTTAG-CAAAAAAGCTATGATGGTTATTACATGATTTCGGCTAAAATT
614 GGTC-CTGAAACTTGTTTTTAGCCAAAAAA-CTATGATGGTTAGTACACGATTTCAGCTAAAA--
** *
5977 TTCACAAAAACTGGCCTAAAA-AGTTTTTCCTC-AA--TTTTTTGCGC-CAATACTCATAAAAAA
675 ---AC--TGAC---CCGAAAATA-TTTTT-CTCAAATTTTTTTTGC-CACAATACTCATAAAAAA
* *
6037 TATATAGTTCAACGCCAAAAAAATTGAATAGTTTTTTCGCGCTTCTAATATCGTTTTACCATTTT
729 TATATAATTCAAAGCC-AAAAAATTGAATAG-TTTTTCGCGCTTCTAATATCGTTTTACCATTTT
*
6102 TTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAGATTCAGAAACCCGTAAAAACAAATCCTT
792 TTTTTCTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGAAACCCGTAAAAACAAATCCTT
* * * *
6167 AAATCCATTTTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTGTCTCTTCCAAAA
857 AAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTATTTCTTCCAAAA
*
6232 GTTATACAAAACTGAGCCAGGGCCCTGAAACGTGTTTTTATCCCAAAACCCGT
922 GTTATACAAAACTGAGCC-GGGCCCTGAAAC-TGTTTTTA-CCCAAAAACCGT
6285 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
1 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
* * * *
6350 ATACTCAGAAAAGATATATAATACAACGCCAAAAAGATTGACGGGCTTTTCATGGTTCTTATATC
66 ATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCATGGTTCTAATATC
* *
6415 GTTTT-CCAAATTTTTTCCGAATTAATTTTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
131 GTTTTACCAATTTTTTTCCGAATTAATTTTAATTAAATCGAAA-AAGATTCAGATACTCGTAAAA
* *
6479 GCAAATCCTTATATCCAATATGGCTGAGATTTAATTCGAAGAATATAAATATTTCAAGGAGTCAT
195 ACAAATCCTTATATCCAATATGG-TGAGATTTAATT-GAAGAATATAGATATTTCAAGGAGTCAT
* *
6544 TACGCAAAAAATCATGCAAAATTCATCCAGGG-CACTGGAACTCGTTTTTAG-CAAAAAGGCTAT
258 TACGCCAAAAATCATGCAAAATTGATCC-GGGACACTGGAACTCGTTTTTAGCCAAAAA--CTAT
*
6607 GATGGTTATACATGATTTCGGCTAAAATTTTTGCAAAAACT-AGCCTGAAAAGTTTTTCCTCAAT
320 GATGGTTATACATGATTTCGGCTAAAATTTTTGCAAAAACTGA-CCTGAAAAGTTTTTTCTCAAT
* * *
6671 TTTTTGCCCCAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATAGTTTTTTCGC
384 TTTTTGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATGGTTTTTTCAC
* * *
6736 GCTTCTAATATCATTTACCGTTTTTTTTCTCGAATTTAATTCTAATTGAATCGAAATAAGATTCA
449 GCTTCTAATATCATTTTCC-TTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAGATTCA
* *
6801 GAAACTCGTAAAAACAAATCCTTAAAACCAATGTGTGGCTGAGATTTGGTTAGATAAAAATATAG
513 GAAACTTGTAAAAACAAATCCTTAAAACCAA--TGTGGCTGAGATTTGGTTAGAT--GAATATAG
* * * *
6866 ATATTTCAAGGAAAATTTCTTCCAAAAGTTAT-ACAACCGGAGTCCTGAAACTTGTTTTTAGCCC
574 ATATTTCAAGGAATATTTCTGCCAAAAGTTATCAAAACCGG-GTCCTGAAACTTGTTTTTAGCCA
**
6930 AAAAACCGTGATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAAATT
638 AAAAACTATGATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAAATT
* * * *
6995 TTTTTTGCCACAATACTCATAAAAAATATAGAATTTAATGCCAAAAAATTGAATAGTTTTTCGTG
703 TTTTTTGCCACAATACTCATAAAAAATATATAATTCAAAGCCAAAAAATTGAATAGTTTTTCGCG
7060 CTTCTAATATCGTTTTACCATTTTTTTTTCTCGAATTTATTTCTAATTAAATCGAAACAAGATTC
768 CTTCTAATATCGTTTTACCATTTTTTTTTCTCGAATTTATTTCTAATTAAATCGAAACAAGATTC
* * *
7125 AGAAACCCGTAAAAACAAATCTTTAAAACCAATGTGGCTAAGATTTGGTTAGATGAATATAGATA
833 AGAAACCCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATA
** * *
7190 TTTCAAGGAAAATTTCTTCCAAAAGTTATACAAAACTGAGACGGGGTCCTGAAACTTGTTTTTAA
898 TTTCAAGGAGTATTTCTTCCAAAAGTTATACAAAACTGAG-CCGGGCCCTGAAAC-TGTTTTT-A
7255 CCCAAAAACCGT
960 CCCAAAAACCGT
* * **
7267 GATGGTTAGTACATGATTTCAGCTAAAGACTGACTTGAAAATATTTTTCTCAATTTTTTGCCACA
1 GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
*
7332 ATACTCAGAAAAGATATATAATT
66 ATACTCAGAAAAAATATATAATT
Statistics
Matches: 1678, Mismatches: 257, Indels: 248
0.77 0.12 0.11
Matches are distributed among these distances:
972 21 0.01
974 6 0.00
975 17 0.01
976 58 0.03
977 6 0.00
978 26 0.02
979 114 0.07
980 61 0.04
981 56 0.03
982 374 0.22
983 135 0.08
984 48 0.03
985 5 0.00
986 116 0.07
987 60 0.04
988 52 0.03
989 49 0.03
990 6 0.00
991 10 0.01
992 62 0.04
993 195 0.12
994 36 0.02
995 25 0.01
996 3 0.00
997 21 0.01
998 4 0.00
999 28 0.02
1001 3 0.00
1002 39 0.02
1003 13 0.01
1004 27 0.02
1005 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (971 bp):
GATGGTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAATTTTTTGCCACA
ATACTCAGAAAAAATATATAATTCAACGCCAAAAAGATTGATGGGCTTTTCATGGTTCTAATATC
GTTTTACCAATTTTTTTCCGAATTAATTTTAATTAAATCGAAAAAGATTCAGATACTCGTAAAAA
CAAATCCTTATATCCAATATGGTGAGATTTAATTGAAGAATATAGATATTTCAAGGAGTCATTAC
GCCAAAAATCATGCAAAATTGATCCGGGACACTGGAACTCGTTTTTAGCCAAAAACTATGATGGT
TATACATGATTTCGGCTAAAATTTTTGCAAAAACTGACCTGAAAAGTTTTTTCTCAATTTTTTGC
CACAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAATGGTTTTTTCACGCTTCTA
ATATCATTTTCCTTTTTTTTCTCGAATTTAATTCTAATTAAATCGAAACAAGATTCAGAAACTTG
TAAAAACAAATCCTTAAAACCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGA
ATATTTCTGCCAAAAGTTATCAAAACCGGGTCCTGAAACTTGTTTTTAGCCAAAAAACTATGATG
GTTAGTACACGATTTCAGCTAAAAACTGACCCGAAAATATTTTTCTCAAATTTTTTTTGCCACAA
TACTCATAAAAAATATATAATTCAAAGCCAAAAAATTGAATAGTTTTTCGCGCTTCTAATATCGT
TTTACCATTTTTTTTTCTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGAAACCCGTAAA
AACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTAT
TTCTTCCAAAAGTTATACAAAACTGAGCCGGGCCCTGAAACTGTTTTTACCCAAAAACCGT
Done.