Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016402.1 Corchorus olitorius cultivar O-4 contig16435, 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: 47567
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:827 original size:1 final size:1
Alignment explanation
Indices: 821--846 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
811 AATTGTTGGG
821 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
847 GCAAAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8387 original size:17 final size:18
Alignment explanation
Indices: 8367--8412 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
8357 TATCTACTTA
*
8367 TGTATTCTAA-CTGATCT
1 TGTACTCTAATCTGATCT
8384 TGTACTCTAAATCTGATCT
1 TGTACTCT-AATCTGATCT
8403 TGTACTCTAA
1 TGTACTCTAA
8413 ATCTCAGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.27
18 4 0.15
19 15 0.58
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
TGTACTCTAATCTGATCT
Found at i:8401 original size:19 final size:19
Alignment explanation
Indices: 8377--8416 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8367 TGTATTCTAA
8377 CTGATCTTGTACTCTAAAT
1 CTGATCTTGTACTCTAAAT
8396 CTGATCTTGTACTCTAAAT
1 CTGATCTTGTACTCTAAAT
8415 CT
1 CT
8417 CAGCTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (19 bp):
CTGATCTTGTACTCTAAAT
Found at i:13494 original size:31 final size:29
Alignment explanation
Indices: 13454--13550 Score: 83
Period size: 31 Copynumber: 3.3 Consensus size: 29
13444 CTAATTGCTT
13454 AAATAAGGCCTAACGTTTGTCGAAATACTC
1 AAATAAGGCCTAACGTTTGTC-AAATACTC
* * * **
13484 AAATAAAGGCCGATC-TTT-T-AATTTGGTC
1 AAAT-AAGGCCTAACGTTTGTCAA-ATACTC
13512 AAATAAGAGCCTAACGTTTGTCAAAATACTC
1 AAATAAG-GCCTAACGTTTGTC-AAATACTC
13543 AAATAAGG
1 AAATAAGG
13551 GCCGATCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
27 5 0.10
28 12 0.24
29 4 0.08
30 9 0.18
31 18 0.36
32 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (29 bp):
AAATAAGGCCTAACGTTTGTCAAATACTC
Found at i:13515 original size:28 final size:28
Alignment explanation
Indices: 13482--13581 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 28
13472 GTCGAAATAC
13482 TCAAATAAAGGCCGATCTTTTAATTTGG
1 TCAAATAAAGGCCGATCTTTTAATTTGG
* * ** **
13510 TCAAAT-AAGAGCCTAACGTTTGTCAAAATAC
1 TCAAATAAAG-GCCGATC-TTT-T-AATTTGG
*
13541 TCAAATAAGGGCCGATCTTTTAATTTGG
1 TCAAATAAAGGCCGATCTTTTAATTTGG
* *
13569 CCAAATAAGGGCC
1 TCAAATAAAGGCC
13582 TAATGTTTGC
Statistics
Matches: 53, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
27 3 0.06
28 26 0.49
29 4 0.08
30 4 0.08
31 14 0.26
32 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (28 bp):
TCAAATAAAGGCCGATCTTTTAATTTGG
Found at i:13608 original size:31 final size:30
Alignment explanation
Indices: 13510--13609 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 30
13500 TTTAATTTGG
* * *
13510 TCAAATAAGAGCCTAACGTTTGTCAAAATAC
1 TCAAATAAGGGCCTAATGTTTG-CAAAATGC
* * * **
13541 TCAAATAAGGGCC-GATCTTT-TAATTTGGC
1 TCAAATAAGGGCCTAATGTTTGCAAAAT-GC
13570 -CAAATAAGGGCCTAATGTTTGCCAAAATGC
1 TCAAATAAGGGCCTAATGTTTG-CAAAATGC
13600 TCAAATAAGG
1 TCAAATAAGG
13610 ACTGACATCA
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
28 15 0.29
29 6 0.12
30 6 0.12
31 24 0.47
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (30 bp):
TCAAATAAGGGCCTAATGTTTGCAAAATGC
Found at i:13608 original size:59 final size:59
Alignment explanation
Indices: 13454--13609 Score: 242
Period size: 59 Copynumber: 2.7 Consensus size: 59
13444 CTAATTGCTT
* * *
13454 AAATAA-GGCCTAACGTTTGTCGAAATACTCAAATAAAGGCCGATCTTTTAATTTGGTC
1 AAATAAGGGCCTAACGTTTGTCAAAATACTCAAATAAGGGCCGATCTTTTAATTTGGCC
*
13512 AAATAAGAGCCTAACGTTTGTCAAAATACTCAAATAAGGGCCGATCTTTTAATTTGGCC
1 AAATAAGGGCCTAACGTTTGTCAAAATACTCAAATAAGGGCCGATCTTTTAATTTGGCC
* * *
13571 AAATAAGGGCCTAATGTTTGCCAAAATGCTCAAATAAGG
1 AAATAAGGGCCTAACGTTTGTCAAAATACTCAAATAAGG
13610 ACTGACATCA
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 6 0.07
59 83 0.93
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (59 bp):
AAATAAGGGCCTAACGTTTGTCAAAATACTCAAATAAGGGCCGATCTTTTAATTTGGCC
Found at i:42341 original size:8 final size:8
Alignment explanation
Indices: 42328--42353 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
42318 TATCTCATCT
42328 TATCTTAC
1 TATCTTAC
42336 TATCTTAC
1 TATCTTAC
42344 TATCTTAC
1 TATCTTAC
42352 TA
1 TA
42354 CTATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (8 bp):
TATCTTAC
Found at i:44056 original size:319 final size:319
Alignment explanation
Indices: 43491--44267 Score: 870
Period size: 319 Copynumber: 2.4 Consensus size: 319
43481 TGACGTAAAT
* * * * * * *
43491 ACTCCTTGAAATATCTATATTCTTCGAACAAAATCCCAGCCACGTTCGATTTAAGTATTTTTTTT
1 ACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACATTAGATTTAAGGATTTTTTTT
* * * * *
43556 ACGAGCATCTTAATCTTGTTTCAATTTAATTAAAAATAAATTCGGAAAAATGGAAAAACAATAAT
66 ACGAGCATCTGAATATTGTTTCGATTTAATTAGAAATAAATTCGAAAAAATGGAAAAACAATAAT
*
43621 AGAAGCGTGAAAAGCCCATCAATCTTTTTGGCGTTGAATTATATATTTTTCCTGAGTATTGTGGC
131 AGAAGCGTGAAAAGACCATCAATCTTTTTGGCGTTGAATTATATATTTTTCCTGAGTATTGTGGC
* * *
43686 AAAAAATCGAGAAAAACTATTCCGATCAGTTTTTAGCCGAAATCGTGTACTAACCATAACAGTTT
196 AAAAAATCGAGAAAAACAATTCCGATCAGATTTTAGCCGAAATCATGTACTAACCATAACAGTTT
43751 TT-GGCTAAAAACGCG-TTCCCGAGCCCC-GACTCAATTTTGCATGATATTT-GGCTCAG-AG
261 TTGGGCTAAAAACGCGTTTCCCGAGCCCCAG-CTCAATTTTGCATGAT-TTTCGG-T-AGAAG
* * * *
43809 ACTCCTTGAAATATCTATATTCATCAAACCAAATATCAGCCACATTGGATATAAGGATTTGTTTC
1 ACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACATTAGATTTAAGGATTT-TTTT
* * * * * **
43874 AATGAGCATATGAATATTGTTTCGATTTAATTAGAAATTAATTCATAAAAAATTGG-AAAATGAT
65 TACGAGCATCTGAATATTGTTTCGATTTAATTAGAAATAAATTC-GAAAAAA-TGGAAAAACAAT
* * *
43938 ATTA-AAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAATTATATATTTTTTCTGAGTATTGT
128 AATAGAAGCGTGAAAAGACCATCAATCTTTTTGGCGTTGAATTATATATTTTTCCTGAGTATTGT
* * * * * *
44002 GGCAAAAATTC-AGAAAAA-AATTCTGGGTCAGATTTTAGCTGAAAATCATGTACTAACCATCAT
193 GGCAAAAAATCGAGAAAAACAATTC-CGATCAGATTTTAGCCG-AAATCATGTACTAACCATAAC
* ** * * *
44065 GGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCCAGCTCAGTTTTGTATGATTTTCGGTAGAAAG
256 AGTTTTTGGGCTAAAAACGCGTTTCCCGAGCCCCAGCTCAATTTTGCATGATTTTCGGTAG-AAG
* * *
44130 ACTCCTTCAAATATCTATATTCATCTAACCAATCTCAGGCTCTCAGCCACAGTAGATTTAAGGAT
1 ACTCCTTGAAATATCTATATTCATCAAACCAA----A---TCTCAGCCACATTAGATTTAAGGAT
* * *
44195 TTATTTTTACGAGCATCTGAATATTATTTCGATTTAATTAGAAATAGATTCGGAAAATAATAGAA
59 TT-TTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAAATAAATTC-GAAAA-AATGGAA
*
44260 AAATAATA
121 AAACAATA
44268 TTTAAAACGA
Statistics
Matches: 380, Mismatches: 59, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
317 4 0.01
318 71 0.19
319 132 0.35
320 31 0.08
321 60 0.16
322 1 0.00
325 1 0.00
328 70 0.18
329 10 0.03
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (319 bp):
ACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACATTAGATTTAAGGATTTTTTTT
ACGAGCATCTGAATATTGTTTCGATTTAATTAGAAATAAATTCGAAAAAATGGAAAAACAATAAT
AGAAGCGTGAAAAGACCATCAATCTTTTTGGCGTTGAATTATATATTTTTCCTGAGTATTGTGGC
AAAAAATCGAGAAAAACAATTCCGATCAGATTTTAGCCGAAATCATGTACTAACCATAACAGTTT
TTGGGCTAAAAACGCGTTTCCCGAGCCCCAGCTCAATTTTGCATGATTTTCGGTAGAAG
Found at i:45811 original size:323 final size:326
Alignment explanation
Indices: 45224--46034 Score: 916
Period size: 323 Copynumber: 2.5 Consensus size: 326
45214 TTTTTTTTGT
* * * * *
45224 TTTTGCATGATTTTTGACGTA-AATACTCCTTGAAATATCTATATTCTTCAAACAAAATCG-CAG
1 TTTTGCATGATTTTTGGCGCAGAAGACTCCTTGAAATATCTATATTCATCAAACCAAAT-GTCAG
* * * * * * * * *
45287 CCACGTTCGATTTAAGTATTT-TGTTTACGAGTATCTTAATCTTTTTTCAATTTAATTAAAAATT
65 CCACATTAGATATAAGAATTTGTTTTTACGAGAATCTGAATATTGTTTCAATTTAATTAAAAATT
* *
45351 AATTCGGAAAATAAA-TGGAAAAATGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTGACAT
130 AATTCGGAAAA-AAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGACAT
* * ** *
45415 TGAATTATATACTTTTTCTGAGTATTGTGGAAAAAAATTGAGAAAAAACTTTTCCTATAAGTTCT
194 TGAATTATATACTTTTTCTGAGTATTGCGGAAAAAAATTCAGAAAAAACAATTCCGATAAGTTCT
45480 TAGCCG-AAATCGTGTACTAACCATCACAGTTTTT-GGCTAAAAACGCATTCCCGAGCCCCGACT
259 TAGCCGAAAATCGTGTACTAACCATCACAGTTTTTGGGCTAAAAACGCATTCCCGAGCCCCGACT
45543 CAA
324 CAA
45546 TTTTGCATGATTTTTGGCGCAGAA-ACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGC
1 TTTTGCATGATTTTTGGCGCAGAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGC
* * * *
45610 CACCTTGGATATAAGAATTTGTTTTTACGAGCATCTGAATATTGTTTCAATTTAATTACAAATTA
66 CACATTAGATATAAGAATTTGTTTTTACGAGAATCTGAATATTGTTTCAATTTAATTAAAAATTA
***
45675 ATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTG
131 ATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGACATTG
* * * *
45740 AATTATATATTTTTTCTGAGTATTGCGGCAAAAAATTCTGAAAAAA-AATTCCGGGTCAGAG-T-
196 AATTATATACTTTTTCTGAGTATTGCGGAAAAAAATTCAGAAAAAACAATTCC-GAT-A-AGTTC
* ** * * * * *
45802 TTAGCCGAAAATCGTGTATTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGC
258 TTAGCCGAAAATCGTGTACTAACCATCACAGTTTTTGGGCTAAAAACGCATTCCCGAGCCCCGAC
* *
45867 TTAG
323 TCAA
*
45871 TTTTGCATGATTTTT-G-GCAGAAAGACTCCTTCAAATATCTATATAT-ATCAAACCAATCTCAG
1 TTTTGCATGATTTTTGGCGCAG-AAGACTCCTTGAAATATCTATAT-TCATCAAACCAA----A-
* * * * *
45933 GCTCTCAGCCACATTAGATCTAAGGATTTGTTTTTACGAGAATCTGAATATTGTTCCGATTTAAT
59 --TGTCAGCCACATTAGATATAAGAATTTGTTTTTACGAGAATCTGAATATTGTTTCAATTTAAT
* *
45998 TAGAAA-TAGATTCAGAAAAAAATAT--AAAAATGATATT
122 TAAAAATTA-ATTCGGAAAAAAAT-TGGAAAAATGATATT
46035 TATAGCGAGA
Statistics
Matches: 419, Mismatches: 49, Indels: 33
0.84 0.10 0.07
Matches are distributed among these distances:
321 1 0.00
322 78 0.19
323 149 0.36
324 30 0.07
325 71 0.17
326 1 0.00
329 1 0.00
331 14 0.03
332 73 0.17
333 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (326 bp):
TTTTGCATGATTTTTGGCGCAGAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGC
CACATTAGATATAAGAATTTGTTTTTACGAGAATCTGAATATTGTTTCAATTTAATTAAAAATTA
ATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGACATTG
AATTATATACTTTTTCTGAGTATTGCGGAAAAAAATTCAGAAAAAACAATTCCGATAAGTTCTTA
GCCGAAAATCGTGTACTAACCATCACAGTTTTTGGGCTAAAAACGCATTCCCGAGCCCCGACTCA
A
Found at i:47123 original size:888 final size:884
Alignment explanation
Indices: 42915--47565 Score: 7205
Period size: 888 Copynumber: 5.3 Consensus size: 884
42905 TTAGCACTGG
* ** * * * * * **
42915 CTCAGTTTTGCATGATTTTTTACGTAAATACTCCTTGAAATATCTATATTCATCGAACAAAATCC
1 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
* * * * * * * *
42980 CAGCCACGTTCGATTTAAGTATTT-TTTTTACGAGCATCTTAATCTTGTTTCAATTTAATTAAAA
66 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
* * * * * * *
43044 ATAAATTTGGGAAAATAAA-TGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAAACTTTTTG
131 ATTAA-TTCGGAAAA-AAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTG
* * *** *
43108 GCGTTGAATTATATATTTTTTCCGAGTATTGTGGCAAAAAATT-TAGAAAAAGCTTTTCCGATCA
194 GTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCT-GAAAAA-AAATTCCGGTCA
* ** ** *
43172 GTTTTTAGCCG-AAATCGTGTACTAACCATCACAGTTTTTGGG-TAAAAACGCG-TTCCCGAGCC
257 GATTTTAGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCC
* * * * *
43234 CCGACTCAATTTTGCATGATTTTTGGC-GCAGAGACTCCTTGAAATATCTATATTCATCAAACCA
322 CCGGCTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTTCAAATATCTATATTCATCTAACCA
* * * * *
43298 A----ATG-T-T-AGCCACATTGGATATAAGGATTTATTTTTACGAGCATCTGAATATTGTTCCG
386 ATCTCAGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCG
43356 ATTTAATTAGAAATAGATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTC
451 ATTTAATTAGAAATAGATTCGG-AAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTC
* * * *
43421 AA-TCTTTTTGGCGCTGAATTGTTTATTTTTTGCAGAAAATA-----TTT-TTTTTGCATGATTT
515 AATTTTTTTTTGCGTTGAATTGTGTATTTTTTGCAGAAAATATTTTTTTTGTTTTTGCATGA-TT
*
43479 TTTGACGTAAATACTCCTTGAAATATCTATATTCTTCGAACAAAATCCCAGCCACGTTCGATTTA
579 TTTGACGTAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCCCAGCCACGTTCGATTTA
* *
43544 AGTATTT-TTTTTACGAGCATCTTAATCTTGTTTCAATTTAATTAAAAATAAATTCGG--AA-AA
644 AGTATTTGTTTTTACGAGCATCTTAATCTTTTTTCAATTTAATTAAAAATTAATTCGGAAAATAA
* * *
43605 ATGGAAAAACAATAATAGAAGCGTGAAAAGCCCATCAATCTTTTTGGCGTTGAATTATATATTTT
709 ATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTT
* * *
43670 TCCTGAGTATTGTGGCAAAAAATCGAG-AAAAACTATTCCGATCAGTTTTTAGCCGAAATCGTGT
774 TTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCCGAAATCGTGT
*
43734 ACTAACCATAACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
839 ACTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
* * *
43780 CTCAATTTTGCATGATATTTGGCTCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATAT
1 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
** * *
43845 CAGCCACATTGGATATAAGGATTTGTTTCAATGAGCATATGAATATTGTTTCGATTTAATTAGAA
66 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
43910 ATTAATTC--ATAAAAAATTGG-AAAATGATATT-AAAGCGTGAAAAGACCATCAATCTTTTTGG
131 ATTAATTCGGA-AAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGG
* *
43971 TGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAATTCAG-AAAAAAATTCTGGGTCAGA
195 TGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCTGAAAAAAAATTC-CGGTCAGA
* *
44034 TTTTAGCTGAAAATCATGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCC
259 TTTTAGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCC
* * * *
44099 AGCTCAGTTTTGTATGATTTTCGGTAGAAAGACTCCTTCAAATATCTATATTCATCTAACCAATC
324 GGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATTCATCTAACCAATC
* * *
44164 TCAGGCTCTCAGCCACAGTAGATTTAAGGATTTATTTTTACGAGCATCTGAATATTATTTCGATT
389 TCAGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATT
* * *
44229 TAATTAGAAATAGATTCGGAAAATAATAGAAAAATAATATTTAAAACGAGAAAAATATTTCAATT
454 TAATTAGAAATAGATTCGGAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAA--
* * * * * *
44294 TTTTTTTTTGCGTTGAATTGTCTATTCTTAGCCGAAAATA-TATTTTT-TTTTTGCTTGATTTTT
517 TTTTTTTTTGCGTTGAATTGTGTATTTTTTGCAGAAAATATTTTTTTTGTTTTTGCATGATTTTT
* *
44357 GACGTAAATACTCCATGAAATATCTATATTCATCAAACAAAATCCCAGCCACGTTCGATTTAAGT
582 GACGTAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCCCAGCCACGTTCGATTTAAGT
* * *
44422 ATTTGTTTTTATGAGCATCTTAATCTTTTTTCAATTTTATTAAAAATAAATTCGGAAAATAAATG
647 ATTTGTTTTTACGAGCATCTTAATCTTTTTTCAATTTAATTAAAAATTAATTCGGAAAATAAATG
* *
44487 GAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCATTGAATTATGTATTTTTTC
712 GAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTC
* *
44552 TGAGTATTGTGGCAAAAAATTGAG-AAAAACTTTTCCAATAAGTTTTTAGCCGAAATCGTGTACT
777 TGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCCGAAATCGTGTACT
* *
44616 AACCATCACAGTTTTTGGCTAAAAATGCGTTCCCGAGCCCCAA
842 AACCATCACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
*
44659 CTCAATTTTGCACGATTTTTGGCGCA-AGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
1 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
*
44723 CAGCCACATTGGATATAAGGATTCGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
66 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
44788 ATTAATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGT
131 ATTAATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGT
* * * * *
44853 GTTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATCCAGAAAAAAAATTTCGGCTTAGAT
196 GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCTGAAAAAAAATTCCGG-TCAGAT
* * * *
44918 TTTAGCCGAAAATCGTGTATTAATCATCATGCTTTTTTTGGCTAAAAACGCGTTTCGGGGGCCCC
260 TTTAGCCGAAAATCGTGTACTAACCATCATG-GTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCC
* *
44983 GACAT-AGTTTTGCATGATTTTTGGCAGAAAAACTCCTTCAAATATCTATATTCATCTAACCAAT
324 GGC-TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATTCATCTAACCAAT
45047 CTCAGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGAT
388 CTCAGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGAT
*
45112 TTAATTAGAAATATATTC-GAAAAAAATAGAAAAATGATATTTAAAGCGAG-AAAATATTTCAAT
453 TTAATTAGAAATAGATTCGGAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAAT
*
45175 TTTTTTTTGCGTTGAATTGTGTATTTTTTGCTGAAAATATTTTTTTTGTTTTTGCATGATTTTTG
518 TTTTTTTTGCGTTGAATTGTGTATTTTTTGCAGAAAATATTTTTTTTGTTTTTGCATGATTTTTG
*
45240 ACGTAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCGCAGCCACGTTCGATTTAAGTA
583 ACGTAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCCCAGCCACGTTCGATTTAAGTA
* *
45305 TTT-TGTTTACGAGTATCTTAATCTTTTTTCAATTTAATTAAAAATTAATTCGGAAAATAAATGG
648 TTTGTTTTTACGAGCATCTTAATCTTTTTTCAATTTAATTAAAAATTAATTCGGAAAATAAATGG
* * * * *
45369 AAAAATGATATTAGAAGCGTGAAAAGCCCATCAATCTTTTTGACATTGAATTATATACTTTTTCT
713 AAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCT
* * * *
45434 GAGTATTGTGGAAAAAAATTGAGAAAAAACTTTTCCTATAAGTTCTTAGCCGAAATCGTGTACTA
778 GAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCCGAAATCGTGTACTA
*
45499 ACCATCACAGTTTTTGGCTAAAAACGCATTCCCGAGCCCCGA
843 ACCATCACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
*
45541 CTCAATTTTGCATGATTTTTGGCGCAGAAACTCCTTGAAATATCTATATTCATCAAACCAAATGT
1 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
* * * *
45606 CAGCCACCTTGGATATAAGAATTTGTTTTTACGAGCATCTGAATATTGTTTCAATTTAATTACAA
66 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
45671 ATTAATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGT
131 ATTAATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGT
* *
45736 GTTGAATTATATATTTTTTCTGAGTATTGCGGCAAAAAATTCTGAAAAAAAATTCCGGGTCAGAG
196 GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCTGAAAAAAAATTCC-GGTCAGAT
*
45801 TTTAGCCGAAAATCGTGTATTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTC-GGGGCCCCG
260 TTTAGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCCG
* *
45865 GCTTAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATAT-ATCAAACCAATC
325 GCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATAT-TCATCTAACCAATC
* * *
45929 TCAGGCTCTCAGCCACATTAGATCTAAGGATTTGTTTTTACGAGAATCTGAATATTGTTCCGATT
389 TCAGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATT
* * *
45994 TAATTAGAAATAGATTCAGAAAAAAATATAAAAATGATATTTATAGCGAGAAAAATATTTCAATT
454 TAATTAGAAATAGATTCGGAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAATT
* *
46059 TTTTTTTGCGCTGAATTGTGTATTTTTTGCAGAAAATAATTTTTTTTTGTTATTGCATGATTTTT
519 TTTTTTTGCGTTGAATTGTGTATTTTTTGCAGAAAAT-A-TTTTTTTTGTTTTTGCATGATTTTT
46124 GACGTAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCCCAGCCACGTTCGATTT-AGA
582 GACGTAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCCCAGCCACGTTCGATTTAAG-
* *
46188 TATTTGTTTTTACGACCATCTTAATCTTTTTTCAATTTAATTAAAAATTATTTCGGAAAATAAAT
646 TATTTGTTTTTACGAGCATCTTAATCTTTTTTCAATTTAATTAAAAATTAATTCGGAAAATAAAT
46253 GGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTT
711 GGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTT
* *
46318 CTGAGTATTGTGGCAAAAAATTTAGAAAAAACTTTTCCGATCTA-TTTTTAGCCGAAATCGTATA
776 CTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATC-AGTTTTTAGCCGAAATCGTGTA
46382 CTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
840 CTAACCATCACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
46427 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
1 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
46492 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
66 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
*
46557 ATTAATTCGGAAAAAAAAATTGGAAAAATGATATTAAAAGCGAGAAAAGACCATCAATCTTTTTG
131 ATTAATTCGG--AAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTG
*
46622 GTGTTGAATTATATATTTTTTCTGAGTATTGCGGCAAAAAATTCTGAAAAAAAATTCCAGGTCAG
194 GTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCTGAAAAAAAATTCC-GGTCAG
*
46687 AGTTTAGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCC
258 ATTTTAGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCC
* *
46752 CGGCTCAGTTTTGTATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAT
323 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATTCATCTAACCAAT
46817 CTCAGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGAT
388 CTCAGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGAT
*
46882 TTAATTAGAAATAGATTCGGAAAAAGATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAAT
453 TTAATTAGAAATAGATTCGGAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAAT
*
46947 TTTTTTTTGCGTTGAATTGTGTATTTTTTGCCGAAATATATTTTTTTTGTTTTTGCATGATTTTT
518 TTTTTTTTGCGTTGAATTGTGTATTTTTTGCAGAAA-ATATTTTTTTTGTTTTTGCATGATTTTT
* * *
47012 GACGTAAATACTCCTTGAAATATCTATATACATCAAACAAAATCCAAGCCACGTTCGATTTAAGT
582 GACGTAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCCCAGCCACGTTCGATTTAAGT
*
47077 ATTTGTTTTTACGAGCATCTTAATCTTTTTTCAATTTTATTAAAAATTAATTCGGAAAATAAATG
647 ATTTGTTTTTACGAGCATCTTAATCTTTTTTCAATTTAATTAAAAATTAATTCGGAAAATAAATG
* *
47142 GAAAAGCGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGTGTTGAATTATATATTTTTTC
712 GAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTC
* *
47207 TGAGTATTGTGGCAAAAATTTGAGAAAAAACTTTTCCGATCAGGTTTTAGCCGAAATCGTGTACT
777 TGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCCGAAATCGTGTACT
* *
47272 AACCATCACGGTTTTT-CCTAAAAACGCGTTCCCGAGCCCCGA
842 AACCATCACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
47314 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
1 CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
* *
47379 CAGCCACATTGGATATAAGGAATTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTACAA
66 CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
47444 ATTAATTCGGAAAAAAATTGGGAAAAATGATATTAAAAGCGTGAAAAAGACCATCAATCTTTTTT
131 ATTAATTCGGAAAAAAATT-GGAAAAATGATATTAAAAGCGTG-AAAAGACCATCAATC-TTTTT
*
47509 GGTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAAATTCATAAAAAAAAA
193 GGTGTTGAATTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTC-TGAAAAAAAA
47566 AA
Statistics
Matches: 3487, Mismatches: 237, Indels: 99
0.91 0.06 0.03
Matches are distributed among these distances:
859 3 0.00
860 17 0.00
861 36 0.01
862 68 0.02
863 75 0.02
864 7 0.00
865 75 0.02
866 36 0.01
867 2 0.00
868 1 0.00
869 42 0.01
870 69 0.02
872 32 0.01
875 71 0.02
876 60 0.02
878 107 0.03
879 197 0.06
880 49 0.01
881 351 0.10
882 260 0.07
883 366 0.10
884 171 0.05
885 99 0.03
886 372 0.11
887 180 0.05
888 495 0.14
889 235 0.07
890 11 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (884 bp):
CTCAATTTTGCATGATTTTTGGCGCAGAGACTCCTTGAAATATCTATATTCATCAAACCAAATGT
CAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
ATTAATTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGT
GTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCTGAAAAAAAATTCCGGTCAGATT
TTAGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCCGG
CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTCAAATATCTATATTCATCTAACCAATCTC
AGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTA
ATTAGAAATAGATTCGGAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAATTTT
TTTTTGCGTTGAATTGTGTATTTTTTGCAGAAAATATTTTTTTTGTTTTTGCATGATTTTTGACG
TAAATACTCCTTGAAATATCTATATTCTTCAAACAAAATCCCAGCCACGTTCGATTTAAGTATTT
GTTTTTACGAGCATCTTAATCTTTTTTCAATTTAATTAAAAATTAATTCGGAAAATAAATGGAAA
AACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAG
TATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCCGAAATCGTGTACTAACC
ATCACAGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGA
Done.