Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023859.1 Corchorus olitorius cultivar O-4 contig23892, 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: 117337
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:3987 original size:25 final size:21
Alignment explanation
Indices: 3937--3978 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3927 AATAATTGTA
3937 ATAATCTCACTTTAATTAATT
1 ATAATCTCACTTTAATTAATT
3958 ATAATCTCACTTTAATTAATT
1 ATAATCTCACTTTAATTAATT
3979 CCACCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAATCTCACTTTAATTAATT
Found at i:4347 original size:14 final size:14
Alignment explanation
Indices: 4309--4349 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4299 TCCATTCTCT
*
4309 TTCTATTCTTTCTC
1 TTCTATTCTTTTTC
*
4323 -TCT-TTCATTTTC
1 TTCTATTCTTTTTC
4335 TTCTATTCTTTTTC
1 TTCTATTCTTTTTC
4349 T
1 T
4350 ATTCCTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 7 0.32
13 6 0.27
14 9 0.41
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCTATTCTTTTTC
Found at i:6244 original size:19 final size:19
Alignment explanation
Indices: 6209--6245 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6199 TGTATCTGTA
*
6209 ACCGTTTCACCATCATTTG
1 ACCGTTTCACCACCATTTG
*
6228 ACCGTTTCATCACCATTT
1 ACCGTTTCACCACCATTT
6246 TGGATCCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.32, G:0.08, T:0.38
Consensus pattern (19 bp):
ACCGTTTCACCACCATTTG
Found at i:12973 original size:23 final size:24
Alignment explanation
Indices: 12940--12988 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
12930 ATAGTCAAAC
*
12940 AAGAAATGAAATCTAAAACAAAAA
1 AAGAAATGAAATCAAAAACAAAAA
* *
12964 AAGAAA-GAAATGAAAAAGAAAAA
1 AAGAAATGAAATCAAAAACAAAAA
12987 AA
1 AA
12989 AAAACAGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (24 bp):
AAGAAATGAAATCAAAAACAAAAA
Found at i:12985 original size:28 final size:27
Alignment explanation
Indices: 12940--12992 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
12930 ATAGTCAAAC
***
12940 AAGAAATGAAATCTAAAACAAAAAAAGA
1 AAGAAATGAAAAAGAAAA-AAAAAAAGA
12968 AAGAAATGAAAAAGAAAAAAAAAAA
1 AAGAAATGAAAAAGAAAAAAAAAAA
12993 CAGAGTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.77, C:0.04, G:0.11, T:0.08
Consensus pattern (27 bp):
AAGAAATGAAAAAGAAAAAAAAAAAGA
Found at i:14304 original size:2 final size:2
Alignment explanation
Indices: 14291--14320 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14281 GTAAGTATTA
*
14291 AG AG AT AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14321 TGATTGTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
AG
Found at i:16578 original size:2 final size:2
Alignment explanation
Indices: 16573--16598 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16563 GTATATGTAC
16573 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16599 TGATAGCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27339 original size:18 final size:19
Alignment explanation
Indices: 27301--27343 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27291 TAAACGATAT
27301 TGCCACGTTGGACCAAAAA
1 TGCCACGTTGGACCAAAAA
*
27320 TGCCACGTTGGATC-AAAA
1 TGCCACGTTGGACCAAAAA
27338 TGCCAC
1 TGCCAC
27344 ATGACAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.19
Consensus pattern (19 bp):
TGCCACGTTGGACCAAAAA
Found at i:52999 original size:4 final size:4
Alignment explanation
Indices: 52990--53015 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
52980 GTTACATTTT
52990 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
53016 ATTTGAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:68386 original size:29 final size:29
Alignment explanation
Indices: 68332--68387 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
68322 AAGTGGAATT
****
68332 AAATGAGGAAATATATATTTTTTTTGAAG
1 AAATGAGGAAATATATATAGAGTTTGAAG
68361 AAATGAGGAAATATATATAGAGTTTGA
1 AAATGAGGAAATATATATAGAGTTTGA
68388 TGTTTAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.36
Consensus pattern (29 bp):
AAATGAGGAAATATATATAGAGTTTGAAG
Found at i:77697 original size:15 final size:14
Alignment explanation
Indices: 77667--77701 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
77657 AGAATCCTCC
77667 TTCTT-CTTCTTCT
1 TTCTTCCTTCTTCT
77680 TTCTTCCTTCTCTCT
1 TTCTTCCTTCT-TCT
77695 TTCTTCC
1 TTCTTCC
77702 GTTATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 5 0.25
15 10 0.50
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCTTCCTTCTTCT
Found at i:108495 original size:15 final size:15
Alignment explanation
Indices: 108475--108503 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
108465 GAAGGTTGCT
108475 TTTTTATTATTATTA
1 TTTTTATTATTATTA
108490 TTTTTATTATTATT
1 TTTTTATTATTATT
108504 TTACAAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTATTATTA
Found at i:108498 original size:12 final size:12
Alignment explanation
Indices: 108481--108505 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108471 TGCTTTTTTA
108481 TTATTATTATTT
1 TTATTATTATTT
108493 TTATTATTATTT
1 TTATTATTATTT
108505 T
1 T
108506 ACAAGTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:109654 original size:17 final size:17
Alignment explanation
Indices: 109622--109655 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109612 GTCTTCTCTC
**
109622 TTCCTTTTTTTTTTTTT
1 TTCCTTTTTTCCTTTTT
109639 TTCCTTTTTTCCTTTTT
1 TTCCTTTTTTCCTTTTT
109656 ATTAAGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTCCTTTTTTCCTTTTT
Found at i:109878 original size:106 final size:103
Alignment explanation
Indices: 109670--109930 Score: 346
Period size: 106 Copynumber: 2.5 Consensus size: 103
109660 AGTTTAACCT
* * *
109670 TAATTTCACTAAGTTTAACCCCAAATCAAAATTTTATTTTTATTTTAAGGGTAAATTTCAAAATT
1 TAATTTCACTAAGTTTAA-CCCAAATTAAAATTTTAATTTTATTTTAAGGGTAAATTCCAAAATT
109735 AATAATTTATTGTTATAGGGTTTTAGAAATAAAATATAAAAC
65 AATAA-TTATTGTTATAGGGTTTTAGAAATAAAATAT--AAC
* * * *
109777 TAATTTCATTAAGTTTAGCCCAAATTAAAATTTTAGTTTTATTTTAAGGGTAAATTCCATAATTA
1 TAATTTCACTAAGTTTAACCCAAATTAAAATTTTAATTTTATTTTAAGGGTAAATTCCAAAATTA
*
109842 ATAA-TGTTGTTATAGGGTTTTAGAAATAAAATATATAAC
66 ATAATTATTGTTATAGGGTTTTAGAAAT-AAA-ATATAAC
* * **
109881 TAA-TTCACTAAGTTTAATCCAAACTAAAATTAAAATTTTATTTTAAGGGT
1 TAATTTCACTAAGTTTAACCCAAATTAAAATTTTAATTTTATTTTAAGGGT
109931 TAGAAAAATT
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
103 40 0.29
104 28 0.20
105 3 0.02
106 51 0.37
107 16 0.12
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (103 bp):
TAATTTCACTAAGTTTAACCCAAATTAAAATTTTAATTTTATTTTAAGGGTAAATTCCAAAATTA
ATAATTATTGTTATAGGGTTTTAGAAATAAAATATAAC
Found at i:113126 original size:24 final size:24
Alignment explanation
Indices: 113099--113162 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 24
113089 ATAATAGGAT
113099 TAAATAGCATAAATCATAAAAGAC
1 TAAATAGCATAAATCATAAAAGAC
*
113123 TAAATA--AT---T-GTAAAAGAC
1 TAAATAGCATAAATCATAAAAGAC
113141 TAAATAGCATAAATCATAAAAG
1 TAAATAGCATAAATCATAAAAG
113163 TATGAGGATC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 1 0.03
20 2 0.06
22 2 0.06
23 1 0.03
24 12 0.38
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (24 bp):
TAAATAGCATAAATCATAAAAGAC
Found at i:114670 original size:43 final size:43
Alignment explanation
Indices: 114622--114709 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
114612 GATGGTTAAT
*
114622 TATTTTGTTATATAAAATTGAAGTTTCATATTTATTTTAAGAA
1 TATTTTGCTATATAAAATTGAAGTTTCATATTTATTTTAAGAA
* *
114665 TATTTTGCTATATCAAGTTGAAGTTTCATATTTATTTTAAGAA
1 TATTTTGCTATATAAAATTGAAGTTTCATATTTATTTTAAGAA
114708 TA
1 TA
114710 GTCAAGTTGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (43 bp):
TATTTTGCTATATAAAATTGAAGTTTCATATTTATTTTAAGAA
Found at i:114871 original size:22 final size:22
Alignment explanation
Indices: 114810--114871 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 22
114800 CAATAATATC
114810 AATTATTGGTTAAATTGTTACCGA
1 AATTATTGG-TAAA-TGTTACCGA
* *
114834 AATTACTT-ATATATGTTACTCG-
1 AATTA-TTGGTAAATGTTAC-CGA
114856 AATTATTGGTAAATGT
1 AATTATTGGTAAATGT
114872 ATTTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
21 2 0.06
22 17 0.55
23 5 0.16
24 5 0.16
25 2 0.06
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.44
Consensus pattern (22 bp):
AATTATTGGTAAATGTTACCGA
Found at i:117119 original size:319 final size:320
Alignment explanation
Indices: 115997--117250 Score: 1305
Period size: 319 Copynumber: 3.9 Consensus size: 320
115987 ATTTCTTCCT
** * * * * * **
115997 AAAAAATATATAATTCAACACCAAAAAAATTGAAAGGTTTTCCAGGATTCTAATATCGTTTTTCC
1 AAAAAATATATAATTCAA-TGCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATA-CCATTTTCC
* *
116062 ATTTTTCTCCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
64 -TTTTTTTTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
* * * * * ***
116127 TTTAATCCAATTTGGCTGAGATTTGGCTAGATGAATATAGATATTTCAAGGAGTATTTATGCCAA
128 TTAAATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACAACAA
* * ** * * * *
116192 AAACCATGCAACACTGAG--TTGTCACCCGAAAACGCGTTTTTAGCCAAAAACCGTGATGGTGTT
193 AAATCATGCAAAACTGAGCCGGGGCACCCG-AAACGCGTTTTTAG-CAAAAAACATGATGATG-T
* **
116255 AGTACACGATTTCGGCTAAAAACTGAGTCGAAAATTTTTTTTCTCAAAATTTTGCCACAATACTC
255 AGTACACGATTTCGGCTAAAAACTGAATCGAAAA-TTTTTTTCTCAATTTTTTGCCACAATACTC
*
116320 AT
319 AG
* * *
116322 AAAAAATATATAATTCAACGTCAAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATCATTTTTCC
1 AAAAAATATATAATTCAATG-CAAAAAGATTGAAGGGTTTTTCACGCTTCTAATACCA-TTTTCC
* * *
116387 TCTTTTTTTCCCCCGAATTTATTTCTAATTAAATCGAAACAAGATTCTGACGCTCGTACAAACAA
64 T-TTTTTTT----CGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAA
* * * * * *
116452 ATCGTTAAATCGAATTTAGC-AAGGATTTTGTTCGATGAATATAGATATTTCAAGGAGTCTTTAC
124 ATCCTTAAATCCAATGTGGCTGA-GATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTAC
* * * *
116516 AACAAAAATCATGCAAAACTGAGTC-GGGCACCCGGAACGCGTTTTTAGCAAAAAACCGTGATGG
188 AACAAAAATCATGCAAAACTGAGCCGGGGCACCCGAAACGCGTTTTTAGCAAAAAA-CATGATGA
* * *
116580 T-TAGTACACGATTTCGGCTAAAATTTTGTAAAAACTGAATCGAAAAATTTATCCTCAATTTTTT
252 TGTAGTACACGATTTCGGC----------TAAAAACTGAATCGAAAATTTTTTTCTCAA-TTTTT
* *
116644 TGCCACAATAGTTAG
306 TGCCACAATACTCAG
* * * * * ** *
116659 GAACAATATATGATTCAATG-AAAAAAAATGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCA
1 AAAAAATATATAATTCAATGCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATA-CCATTTTCCT
*
116723 TTTTTTTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACATAT-CTT
65 TTTTTTTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT
* **
116787 CAAATCCAATGTGGCTGAGACTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTT-CTGCAAA
130 -AAATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACAAC-AA
*
116851 AAATCACT-CAAAACTGAGCCGGGGC-CCCGAAACGCGTTTTTAGCCCAAAAAC-TG-TGATG-A
193 AAATCA-TGCAAAACTGAGCCGGGGCACCCGAAACGCGTTTTTAG-CAAAAAACATGATGATGTA
* * * * **
116911 CGTACACGATTTAGGCTAAAAACTGACTTGAAAATTTTTTTATGGATTTTTTGCCACAATACTCA
256 -GTACACGATTTCGGCTAAAAACTGAATCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCA
116976 G
320 G
* * *
116977 AAAAAATATATAATTCAATGCCAAAAAGATTGACGGGCTTTTCACTCTTCTAATACCATTTTCCT
1 AAAAAATATATAATTCAATG-CAAAAAGATTGAAGGGTTTTTCACGCTTCTAATACCATTTTCCT
* * * *
117042 TTTTTTTGGAATTAATATCTATTTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT
65 TTTTTTTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT
* * * *
117107 AAATCGAATGTGGCTGGGATATGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACAACAAAA
130 AAATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACAACAAAA
* * ** * *
117172 ATCAAGCAAAACTGAGCTGGGG-ACTTGGAACGCGTTTTTAGCAAAAAACATGATGGT-TAGTAC
195 ATCATGCAAAACTGAGCCGGGGCACCCGAAACGCGTTTTTAGCAAAAAACATGATGATGTAGTAC
117235 ACGATTTCGGCTAAAA
260 ACGATTTCGGCTAAAA
117251 TTTTGTAAAA
Statistics
Matches: 778, Mismatches: 111, Indels: 86
0.80 0.11 0.09
Matches are distributed among these distances:
318 42 0.05
319 195 0.25
320 37 0.05
324 1 0.00
325 59 0.08
327 17 0.02
328 11 0.01
329 162 0.21
330 142 0.18
331 12 0.02
334 7 0.01
335 36 0.05
336 9 0.01
337 48 0.06
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (320 bp):
AAAAAATATATAATTCAATGCAAAAAGATTGAAGGGTTTTTCACGCTTCTAATACCATTTTCCTT
TTTTTTCGAATTTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
AATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACAACAAAAA
TCATGCAAAACTGAGCCGGGGCACCCGAAACGCGTTTTTAGCAAAAAACATGATGATGTAGTACA
CGATTTCGGCTAAAAACTGAATCGAAAATTTTTTTCTCAATTTTTTGCCACAATACTCAG
Found at i:117293 original size:649 final size:656
Alignment explanation
Indices: 116019--117318 Score: 1822
Period size: 649 Copynumber: 2.0 Consensus size: 656
116009 ATTCAACACC
* *
116019 AAAAAAATTGAAAGGTTTTCCAGGATTCTAATATCGTTTTTCCATTTTTCTCCGAATTTATTTCT
1 AAAAAAAATGAAAGGTTTTCCACGATTCTAATATCGTTTTTCCATTTTTCTCCGAATTTATTTCT
* * *
116084 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTTAATCCAATTTGGCTGAGAT
66 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAC
* * ** *
116149 TTGGCTAGATGAATATAGATATTTCAAGGAGTATTTATGCCAAAAACCATGCAACACTGAGTTGT
131 TTGGCTAGATGAATATAGATATTTCAAGGAGTATTTATGCAAAAAACCATGCAAAACTGAGGGGG
* *
116214 CACCCGAAAACGCGTTTTTAGCCAAAAACCGTGATGGTGTTAGTACACGATTTCGGCTAAAAACT
196 CACCCGAAAACGCGTTTTTAGCCAAAAACCGTGATGATG-TAGTACACGATTTAGGCTAAAAACT
* * * *
116279 GAGTCGAAAATTTTTTTTCTCAAAATTTTGCCACAATACTCATAAAAAATATATAATTCAACGTC
260 GACTCGAAAATTTTTTTTATCAAAATTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCC
* * * *
116344 AAAAAGATTGAAGGGTTTTTCAGGCTTCTAATATCATTTTTCCTCTTTTTTTCCCCCGAATTTAT
325 AAAAAGATTGAAGGGCTTTTCACGCTTCTAATACCATTTTTCCTCTTTTTTT---CCGAATTAAT
* * * * *
116409 TTCTAATTAAATCGAAACAAGATTCTGACGCTCGTACAAACAAATCGTTAAATCGAATTTAGCAA
387 ATCTAATTAAATCGAAACAAGATTCAGACGCTCGTAAAAACAAATCCTTAAATCGAATGTAGCAA
* * * *
116474 GGATTTTGTTCGATGAATATAGATATTTCAAGGAGTCTTTACAACAAAAATCATGCAAAACTGAG
452 GGATATGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACAACAAAAATCAAGCAAAACTGAG
*
116539 TCGGGCACCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAT
517 TCGGGCACCCGGAACGCGTTTTTAGCAAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAAT
* * *
116604 TTTGTAAAAACTGAATCGAAAAATTTATCCTCAATTTTTTTGCCACAATAGTTAGGAACA-ATAT
582 TTTGTAAAAACTGAACCGAAAAATTTATCCTCAATTTTTTTACCACAATACTTAGGAA-ATATAT
116668 ATGATTCAATG
646 ATGATTCAATG
* * * *
116679 AAAAAAAATGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTT-TTCGAATTTATTTCT
1 AAAAAAAATGAAAGGTTTTCCACGATTCTAATATCGTTTTTCCATTTTTCTCCGAATTTATTTCT
*
116743 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACATAT-CTTCAAATCCAATGTGGCTGAGA
66 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTT-AAATCCAATGTGGCTGAGA
* * * * *
116807 CTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTCTGCAAAAAATCACT-CAAAACTGAGCC
130 CTTGGCTAGATGAATATAGATATTTCAAGGAGTATTTATGCAAAAAACCA-TGCAAAACTGAG--
116871 GGGGC-CCCG-AAACGCGTTTTTAGCCCAAAAA-C-TG-TGATG-ACGTACACGATTTAGGCTAA
192 GGGGCACCCGAAAACGCGTTTTTAG-CCAAAAACCGTGATGATGTA-GTACACGATTTAGGCTAA
* ** **
116930 AAACTGACTTGAAAA-TTTTTTTATGGATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA
255 AAACTGACTCGAAAATTTTTTTTATCAAAATTTTGCCACAATACTCAGAAAAAATATATAATTCA
* * * *
116994 ATGCCAAAAAGATTGACGGGCTTTTCACTCTTCTAATACCA-TTTTCCT-TTTTTTT-GGAATTA
320 ACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATACCATTTTTCCTCTTTTTTTCCGAATTA
* * *
117056 ATATCTATTTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCGAATGTGGC
385 ATATCTAATTAAATCGAAACAAGATTCAGACGCTCGTAAAAACAAATCCTTAAATCGAATGTAGC
**
117121 TGGGATATGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACAACAAAAATCAAGCAAAACTG
450 AAGGATATGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACAACAAAAATCAAGCAAAACTG
* **
117186 AG-CTGGGGACTTGGAACGCGTTTTTAGCAAAAAA-CATGATGGTTAGTACACGATTTCGGCTAA
515 AGTC-GGGCACCCGGAACGCGTTTTTAGCAAAAAACCATGATGGTTAGTACACGATTTCGGCTAA
*
117249 AATTTTGTAAAAACTGACCCGAAAAATTTATCCTCAATTTTTTTTACCACAATACTTAGGAAATA
579 AATTTTGTAAAAACTGAACCGAAAAATTTATCCTCAA-TTTTTTTACCACAATACTTAGGAAATA
117314 TATAT
643 TATAT
117319 ATATAAACGC
Statistics
Matches: 570, Mismatches: 61, Indels: 29
0.86 0.09 0.04
Matches are distributed among these distances:
648 65 0.11
649 178 0.31
653 7 0.01
654 7 0.01
655 78 0.14
656 30 0.05
657 4 0.01
658 5 0.01
659 138 0.24
660 56 0.10
661 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (656 bp):
AAAAAAAATGAAAGGTTTTCCACGATTCTAATATCGTTTTTCCATTTTTCTCCGAATTTATTTCT
AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAC
TTGGCTAGATGAATATAGATATTTCAAGGAGTATTTATGCAAAAAACCATGCAAAACTGAGGGGG
CACCCGAAAACGCGTTTTTAGCCAAAAACCGTGATGATGTAGTACACGATTTAGGCTAAAAACTG
ACTCGAAAATTTTTTTTATCAAAATTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCA
AAAAGATTGAAGGGCTTTTCACGCTTCTAATACCATTTTTCCTCTTTTTTTCCGAATTAATATCT
AATTAAATCGAAACAAGATTCAGACGCTCGTAAAAACAAATCCTTAAATCGAATGTAGCAAGGAT
ATGGTTCGATAAATATAGATATTTCAAGGAGTCTTTACAACAAAAATCAAGCAAAACTGAGTCGG
GCACCCGGAACGCGTTTTTAGCAAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTTG
TAAAAACTGAACCGAAAAATTTATCCTCAATTTTTTTACCACAATACTTAGGAAATATATATGAT
TCAATG
Done.