Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019417.1 Corchorus olitorius cultivar O-4 contig19450, 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: 19686
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:823 original size:328 final size:322
Alignment explanation
Indices: 65--997 Score: 903
Period size: 315 Copynumber: 2.9 Consensus size: 322
55 TCGAGTTAGT
* * *
65 TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAACGCGTTTCGGGCCCCAGCTC
1 TTTTAGCCGAAATCCTGTACTAACCATCACAGCTTTTGGCTAAAACGCGTTTCGGGCCCCCGCTC
* * * * * *
130 AGTTTTGTATGATTTTTGGC-GTAAAGACTCCTTGAAATATCTATATTGATCGTACCAAATC-TC
66 AATTTTGCA--A-TTTTGGCAG-AAAGACTTCTTGAAATAGCTATATTCATCGAACCAAA-CGTC
* * *** * * *
193 AGCCACGTTTTATATAAGGATTTGTTTTTACGAGCATATGAATCTTATTTCGATTTAATTAGAAA
126 AGACACATGGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAA
* * * * * * * * *
258 TTAATTCAGACAAATGGAAAAACGATATTAGAAGCATGAACAGCCCGTCAATTTTTTTGGCATTG
191 TAAATTC-GAGAAA-GAAAAAACGATATTAGAAACATGAAAAGCCTGTCAATCTTTTTGGCGTTA
** * * * * *
323 AA-TTATATATTTTTCAAAATATT-TTGTAAAAAATT-GAGAAAAAC-TTTT-CG--AG---TT-
254 AATTTATAT-TTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTTTTTGGGTCAGTTTTTG
**
377 --AGT
318 CAAAA
* *
380 TTTTAGCCGAAATCCTGTACTAACCATCACAGTTTTTGGCTAAAACGCGTTTCGGGCCCCGGCTC
1 TTTTAGCCGAAATCCTGTACTAACCATCACAGCTTTTGGCTAAAACGCGTTTCGGGCCCCCGCTC
* * *
445 AGTTTTGCATGATTTTTGGCAGAAAGACTTCTTGAAATAGCTATATTCATCTAACTAAATC-TCA
66 AATTTTGCA--A-TTTTGGCAGAAAGACTTCTTGAAATAGCTATATTCATCGAACCAAA-CGTC-
*
509 ATGACA-AT-GGATTTAAGGATTTGTTTTTACGAGCATCTCAATCTTTGTTTCGATTTAATTAGA
126 A-GACACATGGGATATAAGGATTTGTTTTTACGAGCATCTCAATC-TTGTTTCGATTTAATT--A
* * *
572 GAAATAAATTCG-GAAA-AAAAAACGATATTAGAAACGTGAAAATCCT-TCAATTTTTTTTGGCG
187 GAAATAAATTCGAGAAAGAAAAAACGATATTAGAAACATGAAAAGCCTGTCAA-TCTTTTTGGCG
634 TTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTTTTTGGGTCAGTTT
251 TTAAATT-TATATTTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTTTTTGGGTCAGTTT
699 TTGCAAAA
315 TTGCAAAA
*
707 TTTTAGCCGAAATCGTGTACTAAGTAACCATCAC-GACTTTTGGCTAAAA-GCGTGTTCCGGAGC
1 TTTTAGCCGAAATCCTGTAC----TAACCATCACAG-CTTTTGGCTAAAACGCGT-TT-CGG-GC
*
770 CCCCGCTCAATTTTGC-A-TTTGGC-GCAAAGAC-TCTTTGAAATATCTATATTCATCGAACCAA
58 CCCCGCTCAATTTTGCAATTTTGGCAG-AAAGACTTC-TTGAAATAGCTATATTCATCGAACCAA
* *
831 ACGTCAGCCACATGGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
121 ACGTCAGACACATGGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATT
* * * *
896 AGAAATTAATTCGAAAAGAAATGGAAAAATGATATTAGAAGCATGAAAAGCCTGTCAATCTTTTT
186 AGAAATAAATTCG---AGAAA-GAAAAAACGATATTAGAAACATGAAAAGCCTGTCAATCTTTTT
*
961 GGCGTTGAATTTATATTTTTTCTGAGTATTGTGGCAA
247 GGCGTTAAATTTATATTTTTTCTGAGTATTGTGGCAA
998 CGTTTCGGAT
Statistics
Matches: 523, Mismatches: 54, Indels: 67
0.81 0.08 0.10
Matches are distributed among these distances:
313 4 0.01
314 38 0.07
315 159 0.30
316 36 0.07
317 12 0.02
318 15 0.03
319 1 0.00
321 2 0.00
324 2 0.00
325 12 0.02
326 3 0.01
327 43 0.08
328 72 0.14
329 4 0.01
330 32 0.06
331 65 0.12
332 7 0.01
333 16 0.03
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (322 bp):
TTTTAGCCGAAATCCTGTACTAACCATCACAGCTTTTGGCTAAAACGCGTTTCGGGCCCCCGCTC
AATTTTGCAATTTTGGCAGAAAGACTTCTTGAAATAGCTATATTCATCGAACCAAACGTCAGACA
CATGGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATAAAT
TCGAGAAAGAAAAAACGATATTAGAAACATGAAAAGCCTGTCAATCTTTTTGGCGTTAAATTTAT
ATTTTTTCTGAGTATTGTGGCAAAAAATTGGGGAAAAACTTTTTGGGTCAGTTTTTGCAAAA
Found at i:2107 original size:43 final size:43
Alignment explanation
Indices: 2059--2147 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
2049 GGCATAGGCC
*
2059 ATAGTTACAAATCTCAAAAATTCAAAATAATTTCAATGAAAAG
1 ATAGTTACAAATCTCAAAAAATCAAAATAATTTCAATGAAAAG
2102 ATAGTTACAAATCTCAAAAAATCAAAATAATTTCAATGAAAAG
1 ATAGTTACAAATCTCAAAAAATCAAAATAATTTCAATGAAAAG
2145 ATA
1 ATA
2148 AAAGATAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (43 bp):
ATAGTTACAAATCTCAAAAAATCAAAATAATTTCAATGAAAAG
Found at i:3258 original size:33 final size:33
Alignment explanation
Indices: 3211--3275 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
3201 TCTCGTCGAC
*
3211 TTTCAACCTCGATATCTCCCAATTGTGTTGTGG
1 TTTCAACCTCGATATCTCCCAAGTGTGTTGTGG
* * *
3244 TTTCAATCTTGATATTTCCCAAGTGTGTTGTG
1 TTTCAACCTCGATATCTCCCAAGTGTGTTGTG
3276 CTAGTTGCCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (33 bp):
TTTCAACCTCGATATCTCCCAAGTGTGTTGTGG
Found at i:7409 original size:22 final size:22
Alignment explanation
Indices: 7384--7425 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
7374 GCGTTCCTGA
7384 GGGTACCCGGGGCCGGGTAGGG
1 GGGTACCCGGGGCCGGGTAGGG
7406 GGGTACCCGGGGCCGGGTAG
1 GGGTACCCGGGGCCGGGTAG
7426 CCTCAGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.10, C:0.24, G:0.57, T:0.10
Consensus pattern (22 bp):
GGGTACCCGGGGCCGGGTAGGG
Found at i:8310 original size:33 final size:33
Alignment explanation
Indices: 8243--8312 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
8233 AAAAAAAGCT
* **
8243 ATGGTCAAGTCGCGATACGATCGCGGCTGGACC
1 ATGGTCAAGTCGCGATACGATCGCGACTAAACC
* * *
8276 ATGGTCAGGTCGCGATCCGGTCGCGACTAAACC
1 ATGGTCAAGTCGCGATACGATCGCGACTAAACC
8309 ATGG
1 ATGG
8313 CTTGGGGTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (33 bp):
ATGGTCAAGTCGCGATACGATCGCGACTAAACC
Found at i:8432 original size:33 final size:33
Alignment explanation
Indices: 8384--8476 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 33
8374 ATCGCGACTT
** *
8384 GACCATGGTGTGGTCGC-ACGCGGGTCGTGACCG
1 GACCATGGTCAGGTCGCGACGC-GGTCGGGACCG
* **
8417 GGCCATGGTCAGGTCGCGATTCGGTCGGGACCG
1 GACCATGGTCAGGTCGCGACGCGGTCGGGACCG
*
8450 GACCATTGTCAGGTCGCGATC-CGGTCG
1 GACCATGGTCAGGTCGCGA-CGCGGTCG
8477 CAACCCGCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 47 0.96
34 2 0.04
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.19
Consensus pattern (33 bp):
GACCATGGTCAGGTCGCGACGCGGTCGGGACCG
Found at i:9748 original size:16 final size:16
Alignment explanation
Indices: 9727--9779 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
9717 GTATTGATCG
9727 ATACGGAAGCGATACA
1 ATACGGAAGCGATACA
9743 ATACGGAAGCGATACA
1 ATACGGAAGCGATACA
*
9759 ATACGGAAGTGATACA
1 ATACGGAAGCGATACA
9775 ATACG
1 ATACG
9780 TATCTTACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (16 bp):
ATACGGAAGCGATACA
Found at i:13838 original size:123 final size:127
Alignment explanation
Indices: 13702--13956 Score: 374
Period size: 131 Copynumber: 2.0 Consensus size: 127
13692 CATTGTTTAA
* * *
13702 ACTTTTATAGTTTTACTCAATTAAAAACTCTAATGTCATTCAATTAAATCTATTAT-CTT-TA-T
1 ACTTTTACAGTTTTACTCAACTAAAAACTCTAATGTCATTCAATTAAATCTAATATCCTTATACT
13764 A-ATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATAT
66 ATATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATAT
* * * *
13825 ACTTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATACC
1 ACTTTTACAGTTTTACTCAACTAAAAACTCTAATGTCATTCAATTAAATCTAATATCCTTATA-C
*
13890 TATTTTATTTTTACCATTTTACTATTTTATTTAAAAAACTTATATATATTAGAATTTTTTAAATA
65 TA---TATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATA
13955 T
127 T
13956 A
1 A
13957 TTTCTTAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
123 49 0.42
124 3 0.03
125 2 0.02
127 2 0.02
131 60 0.52
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.49
Consensus pattern (127 bp):
ACTTTTACAGTTTTACTCAACTAAAAACTCTAATGTCATTCAATTAAATCTAATATCCTTATACT
ATATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATAT
Found at i:16550 original size:25 final size:25
Alignment explanation
Indices: 16516--16568 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
16506 CCACTCATGG
* *
16516 ATTTCCTTTTTATCTTTTAATTAAA
1 ATTTCCTTTTCATCTATTAATTAAA
*
16541 ATTTCCTTTTCATCTATTAATTGAA
1 ATTTCCTTTTCATCTATTAATTAAA
16566 ATT
1 ATT
16569 ATTTTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTTCCTTTTCATCTATTAATTAAA
Found at i:16793 original size:17 final size:17
Alignment explanation
Indices: 16773--16807 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16763 AAAAGATTTG
16773 TAAATAAATAAGACGCA
1 TAAATAAATAAGACGCA
16790 TAAATAAATAAGACGCA
1 TAAATAAATAAGACGCA
16807 T
1 T
16808 TCGCTCCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.20
Consensus pattern (17 bp):
TAAATAAATAAGACGCA
Found at i:18285 original size:332 final size:331
Alignment explanation
Indices: 17123--19686 Score: 3570
Period size: 332 Copynumber: 7.7 Consensus size: 331
17113 TAATTAAAGT
* * * *
17123 AAAAGTGTTTTGGG-CCCGACTCAGTTTTGCATGATTTTTAGCACCAAGACTCCTT-AGATATCT
1 AAAAGCGTTATGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATCT
* * * * * *
17186 ATATTCATCTAATGAGATCTCAGTCACATTGGATTTAAGGATTTGATTTTACGAGCATTTGAATC
66 ATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATC
* *
17251 TTGTTTCGATTTAATTAGAAATTAATTTGTAAAAAATAGGAAAAACGATATTAGATACGTCAAAA
131 TTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAAA
* * * * * *
17316 GCCCTTCAATCCTTTTAGTGTTGAATTATATATTTTTTATGCGTATTCTAGTCAAAAATTGA-AA
196 GCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGGA
* *
17380 AATTATCTTTCTGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGAAATAACCATCACAGTTTT
261 AA-TATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTT
*
17445 TTGCTAA
325 TGGCTAA
* * * * * *
17452 AAAAGTGTTTTGGGGCCCTGGCTCAATTTTGTATGATTTTTAGCGCCAAGACTCCTTGATATATC
1 AAAAGCGTTAT-GGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATC
* * * * **
17517 TATATTCATCTAATCAAATCTCAACCACATTGGATTCAAGAATTTGTTTTTACAAATATCTAAAT
65 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* * *
17582 CTTGTTTCAATTTAATTAGAAATTAGTTTGGAAAAAAATAGGAAAAACGATATTAGATACGTCAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAATAGGAAAAACGATATTAGAAACGTCAA
* * * * *
17647 AAACCCTTCAATGTTTTTGGCGTTGAATTATATATTTTTTACGAGTATTTTAGCTAAAAATTGAG
194 AAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAG
* * * *
17712 GAAATATCTTTCGAGTCAAATTTTACAAAATTTTAGCCGAAATCGTGTAATAATCATCATAGTTT
259 GAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAG-TT
** *
17777 TTTTACAAAA
323 TTTGGC-TAA
** * *
17787 AAAAGCGTTATGGGGTTCCGGCTTAGTTTTGCATGATTTTTAGCGTCAAGACTCCTTGAGATATC
1 AAAAGCGTTAT-GGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATC
* *
17852 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAAT
65 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
17917 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
* * *
17982 ATCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTCTAGACAAAAATTGAGG
195 AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGG
18047 AAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTT
260 AAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTT
18112 TGGCTAA
325 TGGCTAA
* * *
18119 AAAAGCGTTATGCGGCCCCGGCTCAATTTTGCATGATTTTTAGTGCCAAGACTCCTTAAGATATC
1 AAAAGCGTTATG-GGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATC
* * *
18184 TATATTCATCAAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGTATCTAAAT
65 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
18249 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
* * *
18314 ATCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGG
195 AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGG
* * *
18379 AAATATCTTTCGGGTCAACTTTTACAAAATTCTAGCCGAAATCGTGTAATAACCATCACGGTTTT
260 AAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTT
*
18444 TCGCTAAA
325 TGGCT-AA
* * * *** * *
18452 AAAACCTTTTTGGGAAACGGCTTAGTTTTGCATGATTTTTAGTGCCAAGACTCCTTGAGATAGT-
1 AAAAGCGTTATGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATA-TC
* * * * *
18516 TATATTCATCTACTCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAAGTATCTAAAA
65 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCT-AAA
* *
18581 TCTTGTTTCGATTTAATTAGAAATCAATTTGGAAAAAATAGGAAAAATGATATTAGAAACGTCAA
129 TCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAA
* *
18646 AAGCCCTTCAATCTTTTTGGCGTTGAATTATATATCTTTTATGAGTATTTTAGCCAAAAATTGAG
194 AAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAG
*
18711 GAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTT
259 GAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTT
*
18776 TTCGCTAA
324 TTGGCTAA
* * * * * *
18784 AAAAGCATTATGGGACCCGGCTTAG-TTAGACATGACTTTTAGCGTCAAGACTCCTTGAGATATC
1 AAAAGCGTTATGGGCCCCGGCTCAGTTTTG-CATGATTTTTAGCGCCAAGACTCCTTGAGATATC
* * * * *
18848 TATATTCATCTAATCAAATCTCGGACACAATGGATTTAAGGATTTGTTTTCACGAGCATCTGAAT
65 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* *
18913 CTTATTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACATCAAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
* ** *
18978 AGCCCTTCAATATTGATGG-GATT-AGATTATATATTTTCTATGAGTATTCTAGCCAAAAATTGA
195 AGCCCTTCAATCTTTTTGGCG-TTGA-ATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGA
* * * * *
19041 GAAAATATCTTTTGGGTCAATCTTTACAAAATTTTAGCCGAAATCGTGTAAAAACCATAACAGTT
258 GGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAG--
19106 TTTTTGGCTAA
321 TTTTTGGCTAA
* * * * *
19117 AATAGCGTTCTTGGGCCCCGACTCAGTTTTGCATCATTTTTGGCGCCAAGACTCCTTGAGATATC
1 AAAAGCGTT-ATGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATC
* * * *
19182 TATATTCATCTAACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
65 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
*
19247 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAATAGAAAAAACGATATTAGAAACGTCAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAATAGGAAAAACGATATTAGAAACGTCAA
* * * * *
19312 AAGCCTTTCAATGTTTTT-TCTGTTGAATTATATATTTTTTATGTGTATTCTAGCCAAAAATTTA
194 AAGCCCTTCAATCTTTTTGGC-GTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGA
*
19376 GGAAATATCTTTCGGGTTACTAATTTTTAACAAAATTTAAGCCGAAATCGTG---TAACCATCAC
258 GGAAATATCTTTCGGG-T-C-AATTTTT-ACAAAATTTTAGCCGAAATCGTGTAATAACCATCAC
19438 AGTTTTTGGCTAA
319 AGTTTTTGGCTAA
* * * * *
19451 AAAAGCG-TACTGGGGCCCGGCTTAGTTTTGTATGA-TTTTAGCGCCGAGACTCCTTAAGATATC
1 AAAAGCGTTA-TGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATC
*
19514 TATATTCATCTAATCAAATCTTAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
65 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAAT
* *
19579 CTTGTTTCGATTTGATTAGAAATTAATTTGGAAAAAATAGGAAAAACGAAATTAGAAACGTCAAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
* * ** *
19644 GGCGCTTCAATCTTTTTTCCGTTGAATTATATATTTTTAATGA
195 AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGA
Statistics
Matches: 1995, Mismatches: 211, Indels: 56
0.88 0.09 0.02
Matches are distributed among these distances:
329 11 0.01
330 5 0.00
331 281 0.14
332 719 0.36
333 390 0.20
334 305 0.15
335 242 0.12
336 13 0.01
337 1 0.00
338 6 0.00
339 22 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (331 bp):
AAAAGCGTTATGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATCT
ATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATC
TTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAAA
GCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGGA
AATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTT
GGCTAA
Found at i:19285 original size:999 final size:990
Alignment explanation
Indices: 17123--19682 Score: 3756
Period size: 999 Copynumber: 2.6 Consensus size: 990
17113 TAATTAAAGT
* *
17123 AAAAGTGTTTTGGG-CCCGACTCAGTTTTGCATGATTTTTAGCACCAAGACTCCTTAGATATCTA
1 AAAAGCGTTTTGGGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTAGATATCTA
* * * * *
17187 TATTCATCTAATGAGATCTCAGTCACATTGGATTTAAGGATTTGATTTTACGAGCATTTGAATCT
66 TATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT
* *
17252 TGTTTCGATTTAATTAGAAATTAATTTGTAAAAAATAGGAAAAACGATATTAGATACGTCAAAAG
131 TGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAAAG
* * * * *
17317 CCCTTCAATCCTTTTAGTGTTGAATTATATATTTTTTATGCGTATTCTAGTCAAAAATTGA-AAA
196 CCCTTCAAT-CTTTTTGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGGAA
*
17381 ATTATCTTTCTGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGAAATAACCATCACAGTTTTT
260 A-TATCTTTCGGGTCAATTTTTACAAAA-TTTAGCCGAAATCGTG-AATAACCATCACAGTTTTT
* * * *
17446 TGCTAAAAAAGTGTTTTGGGGCCCTGGCTCAATTTTGTATGATTTTTAGCGCCAAGACTCCTTGA
322 CGCTAAAAAACT-TTTTGGGGCCC-GGCTTAGTTTTGTATGATTTTTAGCGCCAAGACTCCTTGA
* * *
17511 TATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTCAAGAATTTGTTTTTACAAATAT
385 GATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAAGTAT
* * *
17576 CTAAATCTTGTTTCAATTTAATTAGAAATTAGTTTGGAAAAAAATAGGAAAAACGATATTAGATA
450 CTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAATAGGAAAAACGATATTAGAAA
* * *
17641 CGTCAAAAACCCTTCAATGTTTTTGGCGTTGAATTATATATTTTTTACGAGTATTTTAGCTAAAA
514 CGTCAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATA-TTTTTACGAGTATTTTAGCCAAAA
*
17706 ATTGAGGAAATATCTTTCGAGTCAAATTTTACAAAATTTTAGCCGAAATCGTGTAATAATCATCA
578 ATTGAGGAAATATCTTTCGAGTCAAATTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCA
* * * ** * *
17771 TAGTTTTTTTACAAAAAAAAGCGTTATGGGGTTCCGGCTTAGTTTTGCATGATTTTTAGCGTCAA
643 CAGTTTTTTCACAAAAAAAAGCATTATGGGGACCCGGCTTAGTTTAGCATGACTTTTAGCGTCAA
* *
17836 GACTCCTTGAGATATCTATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTATTT
708 GACTCCTTGAGATATCTATATTCATCTAATCAAATCTCAGACACAATGGATTTAAGGATTTATTT
* *
17901 TTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGA
773 TCACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGA
* * * ** *
17966 TATTAGAAACGTCAAAATCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTC
838 TATTAGAAACATCAAAAGCCCTTCAATATTGATGGCATTGAATTATATATTTTCTATGAGTATTC
* *
18031 TAGACAAAAATTGAGGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAA
903 TAGACAAAAATTGAGAAAATATCTTTCGGGTCAATCTTTACAAAATTTTAGCCGAAATCGTGTAA
* *
18096 TAACCATCACAGTTTTTGGCTAA
968 AAACCATAACAGTTTTTGGCTAA
* * * *
18119 AAAAGCGTTATGCGGCCCCGGCTCAATTTTGCATGATTTTTAGTGCCAAGACTCCTTAAGATATC
1 AAAAGCGTTTTG-GGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTT-AGATATC
* * * *
18184 TATATTCATCAAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGTATCTAAAT
64 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
18249 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
129 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
* * *
18314 ATCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGG
194 AGCCCTTCAATCTTTTT-GCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGG
* *
18379 AAATATCTTTCGGGTCAACTTTTACAAAATTCTAGCCGAAATCGTGTAATAACCATCACGGTTTT
258 AAATATCTTTCGGGTCAATTTTTACAAAATT-TAGCCGAAATCGTG-AATAACCATCACAGTTTT
*** * *
18444 TCGCTAAAAAAACCTTTTTGGGAAACGGCTTAGTTTTGCATGATTTTTAGTGCCAAGACTCCTTG
321 TCGCT-AAAAAA-CTTTTTGGGGCCCGGCTTAGTTTTGTATGATTTTTAGCGCCAAGACTCCTTG
*
18509 AGATAGT-TATATTCATCTACTCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAAGT
384 AGATA-TCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAAGT
* *
18573 ATCTAAAATCTTGTTTCGATTTAATTAGAAATCAATTTGGAAAAAATAGGAAAAATGATATTAGA
448 ATCT-AAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGA
*
18638 AACGTCAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATCTTTTATGAGTATTTTAGCCAA
512 AACGTCAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATAT-TTTTACGAGTATTTTAGCCAA
* * *
18703 AAATTGAGGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCAT
576 AAATTGAGGAAATATCTTTCGAGTCAAATTTTACAAAATTTTAGCCGAAATCGTGTAATAACCAT
* *
18768 CACAG-TTTTTCGC-TAAAAAAGCATTAT-GGGACCCGGCTTAG-TTAGACATGACTTTTAGCGT
641 CACAGTTTTTTCACAAAAAAAAGCATTATGGGGACCCGGCTTAGTTTAG-CATGACTTTTAGCGT
* *
18829 CAAGACTCCTTGAGATATCTATATTCATCTAATCAAATCTCGGACACAATGGATTTAAGGATTTG
705 CAAGACTCCTTGAGATATCTATATTCATCTAATCAAATCTCAGACACAATGGATTTAAGGATTTA
18894 TTTTCACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAA
770 TTTTCACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAA
*
18959 CGATATTAGAAACATCAAAAGCCCTTCAATATTGATGGGATT-AGATTATATATTTTCTATGAGT
835 CGATATTAGAAACATCAAAAGCCCTTCAATATTGATGGCATTGA-ATTATATATTTTCTATGAGT
* *
19023 ATTCTAGCCAAAAATTGAGAAAATATCTTTTGGGTCAATCTTTACAAAATTTTAGCCGAAATCGT
899 ATTCTAGACAAAAATTGAGAAAATATCTTTCGGGTCAATCTTTACAAAATTTTAGCCGAAATCGT
19088 GTAAAAACCATAACAGTTTTTTTGGCTAA
964 GTAAAAACCATAACAG--TTTTTGGCTAA
* * *
19117 AATAGCGTTCTTGGGCCCCGACTCAGTTTTGCATCATTTTTGGCGCCAAGACTCCTTGAGATATC
1 AAAAGCGTT-TTGGGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTT-AGATATC
* * *
19182 TATATTCATCTAACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
64 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
*
19247 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAATAGAAAAAACGATATTAGAAACGTCAA
129 CTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAATAGGAAAAACGATATTAGAAACGTCAA
* * * * *
19312 AAGCCTTTCAATGTTTTTTCTGTTGAATTATATATTTTTTATGTGTATTCTAGCCAAAAATTTAG
193 AAGCCCTTCAATCTTTTTGC-GTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAG
19377 GAAATATCTTTCGGGTTACTAATTTTTAACAAAATTTAAGCCGAAATCGTG--TAACCATCACAG
257 GAAATATCTTTCGGG-T-C-AATTTTT-ACAAAATTT-AGCCGAAATCGTGAATAACCATCACAG
* * ** *
19440 TTTTTGGCTAAAAAAGCGTACTGGGGCCCGGCTTAGTTTTGTATGA-TTTTAGCGCCGAGACTCC
317 TTTTTCGCTAAAAAA-CTTTTTGGGGCCCGGCTTAGTTTTGTATGATTTTTAGCGCCAAGACTCC
* * * * *
19504 TTAAGATATCTATATTCATCTAATCAAATCTTAGCCACATTGGATTTAAGGATTTGTTTTTACGA
381 TTGAGATATCTATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAA
* * *
19569 GCATCTAAATCTTGTTTCGATTTGATTAGAAATTAATTTGGAAAAAATAGGAAAAACGAAATTAG
446 GTATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAG
* * **
19634 AAACGTCAAAGGCGCTTCAATCTTTTTTCCGTTGAATTATATATTTTTA
511 AAACGTCAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTA
19683 ATGA
Statistics
Matches: 1405, Mismatches: 135, Indels: 48
0.88 0.09 0.03
Matches are distributed among these distances:
995 4 0.00
996 295 0.21
997 110 0.08
998 284 0.20
999 612 0.44
1000 70 0.05
1001 2 0.00
1002 7 0.00
1003 21 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (990 bp):
AAAAGCGTTTTGGGCCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTAGATATCTA
TATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT
TGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAAAG
CCCTTCAATCTTTTTGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGGAAA
TATCTTTCGGGTCAATTTTTACAAAATTTAGCCGAAATCGTGAATAACCATCACAGTTTTTCGCT
AAAAAACTTTTTGGGGCCCGGCTTAGTTTTGTATGATTTTTAGCGCCAAGACTCCTTGAGATATC
TATATTCATCTAATCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAAGTATCTAAAT
CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTACGAGTATTTTAGCCAAAAATTGAGGA
AATATCTTTCGAGTCAAATTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTTT
TCACAAAAAAAAGCATTATGGGGACCCGGCTTAGTTTAGCATGACTTTTAGCGTCAAGACTCCTT
GAGATATCTATATTCATCTAATCAAATCTCAGACACAATGGATTTAAGGATTTATTTTCACGAGC
ATCTGAATCTTATTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAA
ACATCAAAAGCCCTTCAATATTGATGGCATTGAATTATATATTTTCTATGAGTATTCTAGACAAA
AATTGAGAAAATATCTTTCGGGTCAATCTTTACAAAATTTTAGCCGAAATCGTGTAAAAACCATA
ACAGTTTTTGGCTAA
Found at i:19521 original size:666 final size:660
Alignment explanation
Indices: 17123--19686 Score: 3540
Period size: 666 Copynumber: 3.9 Consensus size: 660
17113 TAATTAAAGT
* *
17123 AAAAGTGTT-TTGGGCCCGACTCAGTTTTGCATGATTTTTAGCACCAAGACTCCTT-AGATATCT
1 AAAAGCGTTATTGGGCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATCT
** * * * * *
17186 ATATTCATCTAATGAGATCTCAGTCACATTGGATTTAAGGATTTGATTTTACGAGCATTTGAATC
66 ATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATC
* *
17251 TTGTTTCGATTTAATTAGAAATTAATTTGTAAAAAATAGGAAAAACGATATTAGATACGTCAAAA
131 TTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAAA
* * * * * *
17316 GCCCTTCAATCCTTTTAGTGTTGAATTATATATTTTTTATGCGTATTCTAGTCAAAAATTGA-AA
196 GCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGGA
*
17380 AATTATCTTTCTGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGAAATAACCATCACAGTTTT
261 AA-TATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTG--ATAACCATCACAGTTTT
* * * * *
17445 TTGCTAAAAAAGTGTTTTGGGGCCCTGGCTCAATTTTGTATGATTTTTAGCGCCAAGACTCCTTG
323 TGGCTAAAAAAGCG-TATGGGGCCC-GGCTCAATTTTGCATGATTTTTAGCGCCAAGACTCCTTA
* * * **
17510 ATATATCTATATTCATCTAATCAAATCTCA-ACCACATTGGATTCAAGAATTTGTTTTTACAAAT
386 AGATATCTATATTCATCTAATCAAATCTCAGA-CACATTGGATTTAAGGATTTGTTTTTACAAGC
* *
17574 ATCTAAATCTTGTTTCAATTTAATTAGAAATTAGTTTGGAAAAAAATAGGAAAAACGATATTAGA
450 ATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAATAGGAAAAACGATATTAGA
* * * * *
17639 TACGTCAAAAACCCTTCAATGTTTTTGGCG-TTGAATTATATATTTTTTACGAGTATTTTAGCTA
514 AACGTCAAAAGCCCTTCAATATTTTTGG-GATTGAATTATATATTTTTTATGAGTATTTTAGCCA
* *
17703 AAAATTGAGGAAATATCTTTCGAGTCAAAT-TTTACAAAATTTTAGCCGAAATCGTGTAATAATC
578 AAAATTGAGGAAATATCTTTCGGGTC-AATCTTTACAAAATTTTAGCCGAAATCGTGTAATAACC
* * *
17767 ATCATAGTTTTTTTACAAAA
642 ATCACAGTTTTTTTGC-TAA
* * * * *
17787 AAAAGCGTTATGGGGTTCCGGCTTAGTTTTGCATGATTTTTAGCGTCAAGACTCCTTGAGATATC
1 AAAAGCGTTATTGGG-CCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATC
* * *
17852 TATATTCATCTAATCAAATCTCAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATCTGAAT
65 TATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
17917 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAA
* * *
17982 ATCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTCTAGACAAAAATTGAGG
195 AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGG
18047 AAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTTTT
260 AAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTG--ATAACCATCACAGTTTT
* *
18112 TGGCTAAAAAAGCGTTATGCGGCCCCGGCTCAATTTTGCATGATTTTTAGTGCCAAGACTCCTTA
323 TGGCTAAAAAAGCG-TATG-GGGCCCGGCTCAATTTTGCATGATTTTTAGCGCCAAGACTCCTTA
* * *
18177 AGATATCTATATTCATCAAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGTA
386 AGATATCTATATTCATCTAATCAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTACAAGCA
18242 TCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAA
451 TCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAA
* * *
18307 CGTCAAAATCCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTATTTTAGCCAAAA
516 CGTCAAAAGCCCTTCAATATTTTTGGGATTGAATTATATATTTTTTATGAGTATTTTAGCCAAAA
*
18372 ATTGAGGAAATATCTTTCGGGTCAA-CTTTTACAAAATTCTAGCCGAAATCGTGTAATAACCATC
581 ATTGAGGAAATATCTTTCGGGTCAATC-TTTACAAAATTTTAGCCGAAATCGTGTAATAACCATC
* *
18436 AC-GGTTTTTCGCTAA
645 ACAGTTTTTTTGCTAA
* * * ** * * *
18451 AAAAACCTTTTTGGGAAACGGCTTAGTTTTGCATGATTTTTAGTGCCAAGACTCCTTGAGATAGT
1 AAAAGCGTTATTGGG-CCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATA-T
* * * *
18516 -TATATTCATCT-ACTCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACAAGTATCTAA
64 CTATATTCATCTAAC-CAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCT-G
* *
18579 AATCTTGTTTCGATTTAATTAGAAATCAATTTGGAAAAAATAGGAAAAATGATATTAGAAACGTC
127 AATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTC
* *
18644 AAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATCTTTTATGAGTATTTTAGCCAAAAATTG
192 AAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTG
18709 AGGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGT
257 AGGAAATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTG-A-TAACCATCACAGT
* * * * * * * *
18774 TTTTCGCTAAAAAAGCATTATGGGACCCGGCT-TAGTTAGACATGACTTTTAGCGTCAAGACTCC
320 TTTTGGCTAAAAAAGC-GTATGGGGCCCGGCTCAATTTTG-CATGATTTTTAGCGCCAAGACTCC
* * * * *
18838 TTGAGATATCTATATTCATCTAATCAAATCTCGGACACAATGGATTTAAGGATTTGTTTTCACGA
383 TTAAGATATCTATATTCATCTAATCAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTACAA
* *
18903 GCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAG
448 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAG
* ** * *
18968 AAACATCAAAAGCCCTTCAATATTGATGGGATT-AGATTATATATTTTCTATGAGTATTCTAGCC
513 AAACGTCAAAAGCCCTTCAATATTTTTGGGATTGA-ATTATATATTTTTTATGAGTATTTTAGCC
* * *
19032 AAAAATTGAGAAAATATCTTTTGGGTCAATCTTTACAAAATTTTAGCCGAAATCGTGTAAAAACC
577 AAAAATTGAGGAAATATCTTTCGGGTCAATCTTTACAAAATTTTAGCCGAAATCGTGTAATAACC
*
19097 ATAACAGTTTTTTTGGCTAA
642 ATCACAGTTTTTTT-GCTAA
* * * *
19117 AATAGCGTTCTTGGGCCCCGACTCAGTTTTGCATCATTTTTGGCGCCAAGACTCCTTGAGATATC
1 AAAAGCGTTATTGGG-CCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATC
*
19182 TATATTCATCTAACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
65 TATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAAT
*
19247 CTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAATAGAAAAAACGATATTAGAAACGTCAA
130 CTTGTTTCGATTTAATTAGAAATTAATTTGG-AAAAAATAGGAAAAACGATATTAGAAACGTCAA
* * * * *
19312 AAGCCTTTCAATGTTTTT-TCTGTTGAATTATATATTTTTTATGTGTATTCTAGCCAAAAATTTA
194 AAGCCCTTCAATCTTTTTGGC-GTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGA
*
19376 GGAAATATCTTTCGGGTTACTAATTTTTAACAAAATTTAAGCCGAAATCGTG-TAACCATCACAG
258 GGAAATATCTTTCGGG-T-C-AATTTTT-ACAAAATTTTAGCCGAAATCGTGATAACCATCACAG
* * * *
19440 TTTTTGGCTAAAAAAGCGTACTGGGGCCCGGCTTAGTTTTGTATGA-TTTTAGCGCCGAGACTCC
319 TTTTTGGCTAAAAAAGCGTA-TGGGGCCCGGCTCAATTTTGCATGATTTTTAGCGCCAAGACTCC
* * *
19504 TTAAGATATCTATATTCATCTAATCAAATCTTAGCCACATTGGATTTAAGGATTTGTTTTTACGA
383 TTAAGATATCTATATTCATCTAATCAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTACAA
* *
19569 GCATCTAAATCTTGTTTCGATTTGATTAGAAATTAATTTGGAAAAAATAGGAAAAACGAAATTAG
448 GCATCTAAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAG
* * * ** *
19634 AAACGTCAAAGGCGCTTCAATCTTTTTTCCG-TTGAATTATATATTTTTAATGA
513 AAACGTCAAAAGCCCTTCAAT-ATTTTTGGGATTGAATTATATATTTTTTATGA
Statistics
Matches: 1699, Mismatches: 170, Indels: 60
0.88 0.09 0.03
Matches are distributed among these distances:
663 6 0.00
664 385 0.23
665 260 0.15
666 565 0.33
667 442 0.26
668 12 0.01
669 7 0.00
670 22 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (660 bp):
AAAAGCGTTATTGGGCCCGACTCAGTTTTGCATGATTTTTAGCGCCAAGACTCCTTGAGATATCT
ATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATC
TTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCAAAA
GCCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTCTAGCCAAAAATTGAGGA
AATATCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGATAACCATCACAGTTTTTGG
CTAAAAAAGCGTATGGGGCCCGGCTCAATTTTGCATGATTTTTAGCGCCAAGACTCCTTAAGATA
TCTATATTCATCTAATCAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTACAAGCATCTAA
ATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAATAGGAAAAACGATATTAGAAACGTCA
AAAGCCCTTCAATATTTTTGGGATTGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGA
GGAAATATCTTTCGGGTCAATCTTTACAAAATTTTAGCCGAAATCGTGTAATAACCATCACAGTT
TTTTTGCTAA
Done.