Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015458.1 Corchorus olitorius cultivar O-4 contig15491, 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: 118685
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:4695 original size:2 final size:2
Alignment explanation
Indices: 4684--4717 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4674 CTAGTACTAC
4684 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4718 GATAGTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17033 original size:39 final size:40
Alignment explanation
Indices: 16977--17057 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 40
16967 TTTAATTCCT
16977 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
* *
17017 ATGTAATA-CTATAATAACTGAAATACTTACATTAATTAA
1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
17056 AT
1 AT
17058 TCTTAGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 31 0.79
40 8 0.21
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (40 bp):
ATGTAATATATATAATAACTAAAATACTTACATTAATTAA
Found at i:17084 original size:25 final size:24
Alignment explanation
Indices: 17048--17094 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
17038 AATACTTACA
17048 TTAATTAAATTCTTAGATATTTTT
1 TTAATTAAATTCTTAGATATTTTT
17072 TTAATTCAAATTCTTAGATATTT
1 TTAATT-AAATTCTTAGATATTT
17095 GTGCAAACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TTAATTAAATTCTTAGATATTTTT
Found at i:17522 original size:203 final size:201
Alignment explanation
Indices: 17191--17560 Score: 672
Period size: 203 Copynumber: 1.8 Consensus size: 201
17181 TCTTAATATC
17191 TTTTGAAATTTTGTTTGACATTGATCCTTAATTTAATAAATCAACCACTAATGTTCAACTAATTT
1 TTTTGAAATTTTGTTTGACATTGATCCTTAATTTAATAAATCAACCACTAATGTTCAACTAATTT
*
17256 TTTTTGGTATAGTTCTATATATATAATAGTAATGTGTTGTATCTTATTCACTACAACTTTGTTAG
66 TTTTTGGTATAGTTCTATATATATAATAATAATGTGTTGTATCTTATTCACTACAACTTTGTTAG
17321 TAATCTTAGACTTAAAAAATTAATAACATTCACCATTGATAAATAAATCGGATCTTTAATATCTT
131 TAATCTTAGACTTAAAAAATTAATAACATTCACCATTGATAAATAAATCGGATCTTTAATATCTT
17386 TTATAA
196 TTATAA
*
17392 TTTTGAAATTTTGTTTGACATTGATCTAATTTAATTTAATAAATCAACCACTAATGTTCAACTAA
1 TTTTGAAATTTTGTTTGACATTGATC---CTTAATTTAATAAATCAACCACTAATGTTCAACTAA
17457 TTTTTTTTAGGTATAG-T-TATATATATAATAATAATGTGTTGTATCTTATTCACTACAACTTTG
63 TTTTTTTT-GGTATAGTTCTATATATATAATAATAATGTGTTGTATCTTATTCACTACAACTTTG
17520 TTAGTAATCTTAGACTTAAAAAATTAATAACATTCACCATT
127 TTAGTAATCTTAGACTTAAAAAATTAATAACATTCACCATT
17561 CACCAAAGTT
Statistics
Matches: 163, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
201 26 0.16
203 86 0.53
204 44 0.27
205 7 0.04
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.44
Consensus pattern (201 bp):
TTTTGAAATTTTGTTTGACATTGATCCTTAATTTAATAAATCAACCACTAATGTTCAACTAATTT
TTTTTGGTATAGTTCTATATATATAATAATAATGTGTTGTATCTTATTCACTACAACTTTGTTAG
TAATCTTAGACTTAAAAAATTAATAACATTCACCATTGATAAATAAATCGGATCTTTAATATCTT
TTATAA
Found at i:26799 original size:19 final size:20
Alignment explanation
Indices: 26754--26799 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
26744 TATAATTCCT
26754 TGTGTTCTGTGTTTGATTTC
1 TGTGTTCTGTGTTTGATTTC
*
26774 TGT-TTCTGT-TTTG-TTTT
1 TGTGTTCTGTGTTTGATTTC
26791 TGATGTTCT
1 TG-TGTTCT
26800 ACTTTTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 5 0.22
18 5 0.22
19 10 0.43
20 3 0.13
ACGTcount: A:0.04, C:0.09, G:0.22, T:0.65
Consensus pattern (20 bp):
TGTGTTCTGTGTTTGATTTC
Found at i:40813 original size:61 final size:61
Alignment explanation
Indices: 40713--40853 Score: 237
Period size: 61 Copynumber: 2.3 Consensus size: 61
40703 TTTATGCCTT
* * * *
40713 ATTTTTGCTCCCACATGATGAGGCAGAAATTGAGCCATTGGATTTGGCTCACATGGTTATC
1 ATTTCTGCTCCCACATGATGAGGCAGAAATTAAGCCATTGGATTTGGCTCACATGATCATC
*
40774 ATTTCTGCTCCCACATGATGAGGCAGAATTTAAGCCATTGGATTTGGCTCACATGATCATC
1 ATTTCTGCTCCCACATGATGAGGCAGAAATTAAGCCATTGGATTTGGCTCACATGATCATC
40835 ATTTCTGCTCCCACATGAT
1 ATTTCTGCTCCCACATGAT
40854 AATTAAGGTG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 75 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (61 bp):
ATTTCTGCTCCCACATGATGAGGCAGAAATTAAGCCATTGGATTTGGCTCACATGATCATC
Found at i:58808 original size:23 final size:23
Alignment explanation
Indices: 58765--58810 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
58755 TATTAACAAG
* *
58765 AGCTTAATTAATTCTTGAGATAA
1 AGCTTAATTAATTATTAAGATAA
58788 AGCTTAATT-ATTATATAAGATAA
1 AGCTTAATTAATTAT-TAAGATAA
58811 GATAATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
AGCTTAATTAATTATTAAGATAA
Found at i:60368 original size:68 final size:69
Alignment explanation
Indices: 60259--60391 Score: 241
Period size: 68 Copynumber: 1.9 Consensus size: 69
60249 ATTACTACCC
60259 ATTTTCATCAAAGATATAATTTGAGAGATTTTTTACTAAGTTTATGAATTTTCCT-TGTGTAGGA
1 ATTTTCATCAAAGATATAATTTGAGAGATTTTTTACTAAGTTTATGAATTTTCCTATGTGTAGGA
60323 GCCA
66 GCCA
* *
60327 ATTTTCATCAAAGATATAATTTGAGAGATTTTTTACTAAGTTTATGATTTTTTCTATGTGTAGGA
1 ATTTTCATCAAAGATATAATTTGAGAGATTTTTTACTAAGTTTATGAATTTTCCTATGTGTAGGA
60392 ATCAATGTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
68 53 0.85
69 9 0.15
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (69 bp):
ATTTTCATCAAAGATATAATTTGAGAGATTTTTTACTAAGTTTATGAATTTTCCTATGTGTAGGA
GCCA
Found at i:61409 original size:19 final size:19
Alignment explanation
Indices: 61385--61426 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
61375 AATTTCTGGC
61385 TTTCCCCTGTTTCCTCTGT
1 TTTCCCCTGTTTCCTCTGT
61404 TTTCCCCTGTTTCCTCTGT
1 TTTCCCCTGTTTCCTCTGT
61423 TTTC
1 TTTC
61427 AGCTTTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.00, C:0.36, G:0.10, T:0.55
Consensus pattern (19 bp):
TTTCCCCTGTTTCCTCTGT
Found at i:61426 original size:10 final size:9
Alignment explanation
Indices: 61385--61424 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
61375 AATTTCTGGC
61385 TTTCCCCTG
1 TTTCCCCTG
*
61394 TTTCCTCTG
1 TTTCCCCTG
61403 TTTTCCCCTG
1 -TTTCCCCTG
*
61413 TTTCCTCTG
1 TTTCCCCTG
61422 TTT
1 TTT
61425 TCAGCTTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.00, C:0.35, G:0.10, T:0.55
Consensus pattern (9 bp):
TTTCCCCTG
Found at i:91340 original size:27 final size:27
Alignment explanation
Indices: 91310--91376 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
91300 TTTTCCAACG
*
91310 AAGTCTTTGTAATTGTAGCAAAAAACA
1 AAGTCTTTCTAATTGTAGCAAAAAACA
91337 AAGTCTTTCTAATTGTAGCAAAAAACA
1 AAGTCTTTCTAATTGTAGCAAAAAACA
91364 AAGTCTTTCTAAT
1 AAGTCTTTCTAAT
91377 AACCTTTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (27 bp):
AAGTCTTTCTAATTGTAGCAAAAAACA
Found at i:98321 original size:61 final size:61
Alignment explanation
Indices: 98226--98350 Score: 250
Period size: 61 Copynumber: 2.0 Consensus size: 61
98216 CAAATATCAT
98226 GAATTTAGAATTGAAATCGAACTGTAATTAGGTCTATATAGGAGCATAGATAAGCAATAGG
1 GAATTTAGAATTGAAATCGAACTGTAATTAGGTCTATATAGGAGCATAGATAAGCAATAGG
98287 GAATTTAGAATTGAAATCGAACTGTAATTAGGTCTATATAGGAGCATAGATAAGCAATAGG
1 GAATTTAGAATTGAAATCGAACTGTAATTAGGTCTATATAGGAGCATAGATAAGCAATAGG
98348 GAA
1 GAA
98351 AGTAGCATGC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (61 bp):
GAATTTAGAATTGAAATCGAACTGTAATTAGGTCTATATAGGAGCATAGATAAGCAATAGG
Found at i:99591 original size:2 final size:2
Alignment explanation
Indices: 99584--99609 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99574 GTAAGTCCTA
99584 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
99610 GTTTTCTTAT
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:104796 original size:15 final size:15
Alignment explanation
Indices: 104776--104811 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
104766 TGTGCCATGC
104776 AAGATGGCCCAAATG
1 AAGATGGCCCAAATG
104791 AAGATGGCCCAAATG
1 AAGATGGCCCAAATG
104806 AAGATG
1 AAGATG
104812 ACTTGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.14
Consensus pattern (15 bp):
AAGATGGCCCAAATG
Found at i:113067 original size:333 final size:330
Alignment explanation
Indices: 112251--113504 Score: 1326
Period size: 333 Copynumber: 3.8 Consensus size: 330
112241 CCATGATGGT
* * *
112251 AAAAA-TGACCCGAAAGATTTTTCCTCAATTTTTGGAAAAAATACTCATAATATATATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATATATAATTC
* * * * * *
112315 AACGCCAAAAAGATTG-GAGGACTTTTCACGCTTTTAATATGGTTTTTCATA-TTTTTTCTGAAT
66 AACGCCAAAAAGATTGAAAGG-CTTTTCACACTTCTAATATCGTTTTTCCTATTTTTTTCCGAAT
* * * ** * *
112378 TAATTTCTAGTTAAATTGAAACAAGATTCAGATGAACGTAAAAACAAATCCTTAAATCCTATGTG
130 TAAATTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATACAATGTG
* * *
112443 GCTGAGATTTGATTAGATGAATAAAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAAC
195 GCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGACGCCAAAAATCATGCAAAAC
* * * * *
112508 AGAGCTGTGGCCCCGAAACGCGTTTTTAGCC-AATAATCGTGATGGTTAGTACACGATTTCGGCT
260 TGAGCCG-GACCCTGAAACGCGTTTTTAGCCGAA-AACCGTGATGGTTAGTACACGATTTCGGCT
112572 AAAATTTTG
323 -AAATTTTG
* ** * *
112581 TAAAAATTGACCCGAAAGATATTTATTCAATTTTTGGCTAAAATAATCATAAAAAATATATAATT
1 -AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATATATAATT
** * * * * * * *
112646 CAACATCAAAAAGATTGAAGGGTTTTTAATACTTCTAAAATTGTTTTTCCTATTTTATTCCGAAT
65 CAACGCCAAAAAGATTGAAAGGCTTTTCACACTTCTAATATCGTTTTTCCTATTTTTTTCCGAAT
* * * *
112711 TAATTTCTAATGAAATCGAAACAAGATTGAGATGCTCGTAAAAACAAATCCTTAAATATAATGTG
130 TAAATTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATACAATGTG
* * *
112776 GCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATAATGCAAAAC
195 GCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGACGCCAAAAATCATGCAAAAC
* *
112841 TGAGCCGGACCCTGTAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
260 TGAGCCGGACCCTGAAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAA
112906 ATTTTG
325 ATTTTG
* * * * *
112912 CAAAAATTGACCCGAAAGATTTTTCCTCGATCTCTAGCGAAAATACTCATAAAAAATATATAATT
1 -AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATATATAATT
* * * * * * * *
112977 CGACGCCAAAAAAACTGAAAGCCTTTTTCACGCTTTTAATATCGTTTTCCCTATTTTATTTCCAA
65 CAACGCCAAAAAGATTGAAAGGC-TTTTCACACTTCTAATATCGTTTTTCCTATTTT-TTTCCGA
* * * *
113042 ATTAAATTCTGATTAAATTGAAACAAGATTTAGGA-GCTCGTAAAAAAAAATCCTTAAATACAAT
128 ATTAAATTCTAATTAAATCGAAACAAGATTCA-GATGCTCGTAAAAACAAATCCTTAAATACAAT
* * * *
113106 GTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAAGGAGTCTTTATGTC-AAAATCCATGCA
192 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGACGCCAAAAAT-CATGCA
* * * * * * *
113170 AAACTGAGTC-GAGGCCTCAAAACACGTTTGTAG-CGAAAAACTGTGATGGTTAATACACGATTT
256 AAACTGAGCCGGA-CCCT-GAAACGCGTTTTTAGCCG-AAAACCGTGATGGTTAGTACACGATTT
113233 CGGC-------T-
318 CGGCTAAATTTTG
* * * * * * * *
113238 AAAAACTGACCCGAAA-ATTTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATCTAATT
1 AAAAATTGACCCGAAAGA-TTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATATATAATT
* * ** *
113302 CAATGTCAAAAAGATTGATGGGCTTTTCACACTTCTAATATCGTTTTTCC-ATTCTTTTCCCGAA
65 CAACGCCAAAAAGATTGAAAGGCTTTTCACACTTCTAATATCGTTTTTCCTATT-TTTTTCCGAA
** *
113366 TT-AATTCCTAATTAAATCGAAACAAGATTCAGATGCTCAAAAAAACAAATCGC-TAAATCCAAT
129 TTAAATT-CTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATC-CTTAAATACAAT
* * * * *
113429 GTGGCTGAGATTTGTTTCGATGAATATAGATATATCAAGGAGTCTTTG-CGTCAAAATTCATGCA
192 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTC-TTGACGCCAAAAATCATGCA
*
113493 AAATTGAGCCGG
256 AAACTGAGCCGG
113505 GACTCCAGAA
Statistics
Matches: 770, Mismatches: 134, Indels: 45
0.81 0.14 0.05
Matches are distributed among these distances:
322 6 0.01
323 112 0.15
324 35 0.05
325 66 0.09
327 1 0.00
331 83 0.11
332 168 0.22
333 258 0.34
334 41 0.05
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (330 bp):
AAAAATTGACCCGAAAGATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATATATAATTC
AACGCCAAAAAGATTGAAAGGCTTTTCACACTTCTAATATCGTTTTTCCTATTTTTTTCCGAATT
AAATTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATACAATGTGG
CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGACGCCAAAAATCATGCAAAACT
GAGCCGGACCCTGAAACGCGTTTTTAGCCGAAAACCGTGATGGTTAGTACACGATTTCGGCTAAA
TTTTG
Found at i:115188 original size:333 final size:330
Alignment explanation
Indices: 114456--116554 Score: 2772
Period size: 333 Copynumber: 6.4 Consensus size: 330
114446 AAAAATGATA
* * * * *
114456 CGAATGATTTTTCCTCAA-TTTTTGACAAAAATACTGATAAAATATATATAATTCAAC-GCTAAA
1 CGAAAGATATTTCCTCAATTTTTTG-CTAAAATACTCATAAAA-ATATATAATTCAACATC-AAA
* * * * * * * * * *
114519 AGGATTGGAA-GACTTTTCACGGATT-TAATATCGTTTTT-CAAATTTTTCTGAATTAATTACTA
63 AAGATT-AAAGGGCTTTTAAC-GCTTCTAATATTGTTTTTCCTATTTTTTC-AAATTAATTTCTA
* *
114581 ATTAAATCGAAACAAGATTCAGATGCAAATAAAAACAAATCCTTAAATCCAATGTGTCTGAGATT
125 ATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATT
** * *
114646 TAATAAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAGAGCCGTG
190 TGGTTAGATGAATATAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAGAGCCGTG
114711 GCCCTAGAACGCGTTTTTAGCCCAAAACC------G-T-GTACACGATTTCGGCTAAAATTTTGC
255 GCCCTAGAACGCGTTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGC
*
114768 AAAAATTTACC
320 AAAAATTGACC
*
114779 CGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTCAACATCAAAAA
1 CGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCAT-AAAAATATATAATTCAACATCAAAAA
114844 GATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAA
65 GATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAA
* * * * **
114909 ATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATCCTTAAATTTAATGTGGCTGAGATTTGGTT
130 ATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * * *
114974 CGATGAATATAGATATTTCAAAGAG-C-CGCGTCGCAAAAAATCATGCAAAACAGAGTCGTGACC
195 AGATGAATATAGATATTTCAAGGAGTCTCG-GT-GCCAAAAATCATGCAAAACAGAGCCGTGGCC
* *
115037 CTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACACGATTTCGGCTAAAATTTTGCA
258 CTAGAACGCGTTTTTAGCCCAAAACCGTGATGGTTAGT--ACACGATTTCGGCTAAAATTTTGCA
*
115102 AAAATTGATC
321 AAAATTGACC
* * *
115112 CGAAAGATATTTCGTCAATTTTTTGCTAAAATACTCACAAACAATATATAATTCGACATCAAAAA
1 CGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCATAAA-AATATATAATTCAACATCAAAAA
* * * *
115177 GATTGAAGGGCTTTTAATGCTTCTAATATTGTTTTTCCAATTTTTTCAAATTAATTTCTGATTAA
65 GATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAA
*
115242 ATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTT
130 ATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * *
115307 AGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCGAAAATCATGCAAAACAGAGCCGTGGCCCA
195 AGATGAATATAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAGAGCCGTGGCCCT
*
115372 AGAACGCATTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
260 AGAACGCGTTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
*
115437 TTTACC
325 TTGACC
* *
115443 TGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTCAACATCAAAAA
1 CGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCAT-AAAAATATATAATTCAACATCAAAAA
115508 GATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAA
65 GATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAA
* * * * * ** *
115573 ATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATACTTAAATTTAATGTGGCTGAAATTTGGTT
130 ATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * * ** *
115638 AGATGAATATAGTTATTTCAAAGAG-C-CGCATCGCAAAAAATTTTGCAAAACAGAGCCGTGACC
195 AGATGAATATAGATATTTCAAGGAGTCTCG-GT-GCCAAAAATCATGCAAAACAGAGCCGTGGCC
* * * *
115701 CTGGAACGCGTTTTTAGCCAAAAACTGTTATGGTTAGTACACACGATTTCGGCTAAAATTTTGC-
258 CTAGAACGCGTTTTTAGCCCAAAACCGTGATGGTTAGT--ACACGATTTCGGCTAAAATTTTGCA
*
115765 AAAATTGATC
321 AAAATTGACC
* *
115775 CGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCACAAAGAATATATAATTCGACATCAAAAA
1 CGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCATAAA-AATATATAATTCAACATCAAAAA
* *
115840 GATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCAATTTTTTCAAATTAATTTCTGATTAA
65 GATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAA
* *
115905 ATCGAAACAAGATTCAGATGCACATAAAAACAATTCCTTAAATCCAATGTGCCTGAGATTTGGTT
130 ATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
*
115970 AGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAAAACAGAGCCGTGGCCCT
195 AGATGAATATAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAGAGCCGTGGCCCT
* *
116035 AGAACGTGTTTTTAGCCCAAAA---TGACGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
260 AGAACGCGTTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
116097 TTGACC
325 TTGACC
116103 CGAAAGATATTTCCTCAA-TTTTTGACTAAAATACTCATAAAAATTATATAATTCAACATCAAAA
1 CGAAAGATATTTCCTCAATTTTTTG-CTAAAATACTCATAAAAA-TATATAATTCAACATCAAAA
**
116167 AGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTA-TTTTAAAAATTAATTTCTAATTA
64 AGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTA
* * * **
116231 AATCGAAGCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATTTAATGTGGCTGAGATTTGGT
129 AATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* ** * * *
116296 TAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATCAAGCAAAAACTGAGTCG-GG-C
194 TAGATGAATATAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGC-AAAACAGAGCCGTGGCC
* * * * *
116359 CTTGAACGCGGTTTTAGCCGAAAACCGTGATGGTTTGTACATGATTTCGGCTAAAATTTTGCAAA
258 CTAGAACGCGTTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAA
116424 AATTGACC
323 AATTGACC
* * * * * * * * *
116432 CGAAAGATTTTTCCTCGATTTCTAGCGAAAATAGTCATAAAAATATATAATTCAACGTCCAAAGG
1 CGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCATAAAAATATATAATTCAACATCAAAAAG
** * * * * * * *
116497 ATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAGTTTTTCTGAATTAATTTC
66 ATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTC-AAATTAATTTC
116555 GACATAAAAA
Statistics
Matches: 1563, Mismatches: 174, Indels: 71
0.86 0.10 0.04
Matches are distributed among these distances:
321 2 0.00
322 8 0.01
323 213 0.14
324 18 0.01
326 21 0.01
327 156 0.10
328 162 0.10
329 91 0.06
330 17 0.01
331 291 0.19
332 260 0.17
333 318 0.20
334 4 0.00
335 2 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (330 bp):
CGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCATAAAAATATATAATTCAACATCAAAAAG
ATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAAA
TCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
GATGAATATAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAGAGCCGTGGCCCTA
GAACGCGTTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
TGACC
Found at i:115736 original size:664 final size:661
Alignment explanation
Indices: 114446--116554 Score: 3195
Period size: 664 Copynumber: 3.2 Consensus size: 661
114436 CCATGATGGT
* * * * * *
114446 AAAAA-TGATACGAATGATTTTTCCTCAA-TTTTTGACAAAAATACTGATAAAATATATATAATT
1 AAAAATTGATCCGAAAGATATTTCCTCAATTTTTTG-CTAAAATACTCACAAAA-ATATATAATT
* * * * * * * *
114509 CAAC-GCTAAAAGGATTGGAA-GACTTTTCACGGATT-TAATATCGTTTTTCAAATTTTTCTGAA
64 CGACATC-AAAAAGATT-GAAGGGCTTTTAAC-GCTTCTAATATCGTTTTTCAATTTTTTCTAAA
* * *
114571 TTAATTACTAATTAAATCGAAACAAGATTCAGATGCAAATAAAAACAAATCCTTAAATCCAATGT
126 TTAATTTCTGATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGT
* ** *
114636 GTCTGAGATTTAATAAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAA
191 GCCTGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAA
114701 CAGAGCCGTGGCCCTAGAACGCGTTTTTAGCCCAAAACC----G-T-GTACACGATTTCGGCTAA
256 CAGAGCCGTGGCCCTAGAACGCGTTTTTAGCCCAAAACCTGAGGTTAGTACACGATTTCGGCTAA
114760 AATTTTGCAAAAATTTACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATA
321 AATTTTGCAAAAATTTACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATA
114825 TATAATTCAACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTT
386 TATAATTCAACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTT
114890 CAAATTAATTTCTAATTAAATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATCCTTAAATTTA
451 CAAATTAATTTCTAATTAAATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATCCTTAAATTTA
* *
114955 ATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAAGAGCCGCGTCGCAAAAAATCATGC
516 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAAGAGCCGCATCGCAAAAAATCATGC
115020 AAAACAGAGTCGTGACCCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACACGATT
581 AAAACAGAGTCGTGACCCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACACGATT
115085 TCGGCTAAAATTTTGC
646 TCGGCTAAAATTTTGC
*
115101 AAAAATTGATCCGAAAGATATTTCGTCAATTTTTTGCTAAAATACTCACAAACAATATATAATTC
1 AAAAATTGATCCGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCACAAA-AATATATAATTC
* *
115166 GACATCAAAAAGATTGAAGGGCTTTTAATGCTTCTAATATTGTTTTTCCAATTTTTTC-AAATTA
65 GACATCAAAAAGATTGAAGGGCTTTTAACGCTTCTAATATCGTTTTT-CAATTTTTTCTAAATTA
115230 ATTTCTGATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGCC
129 ATTTCTGATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGCC
*
115295 TGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCGAAAATCATGCAAAACAG
194 TGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAG
* *
115360 AGCCGTGGCCCAAGAACGCATTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAA
259 AGCCGTGGCCCTAGAACGCGTTTTTAGCCCAAAACC-TGA-GGTTAGTACACGATTTCGGCTAAA
*
115425 ATTTTGCAAAAATTTACCTGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATAT
322 ATTTTGCAAAAATTTACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATAT
115490 ATAATTCAACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTC
387 ATAATTCAACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTC
*
115555 AAATTAATTTCTAATTAAATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATACTTAAATTTAA
452 AAATTAATTTCTAATTAAATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATCCTTAAATTTAA
* * **
115620 TGTGGCTGAAATTTGGTTAGATGAATATAGTTATTTCAAAGAGCCGCATCGCAAAAAATTTTGCA
517 TGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAAGAGCCGCATCGCAAAAAATCATGCA
* * *
115685 AAACAGAGCCGTGACCCTGGAACGCGTTTTTAGCCAAAAACTGTTATGGTTAGTACACACGATTT
582 AAACAGAGTCGTGACCCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACACGATTT
115750 CGGCTAAAATTTTGC
647 CGGCTAAAATTTTGC
115765 -AAAATTGATCCGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCACAAAGAATATATAATTC
1 AAAAATTGATCCGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCACAAA-AATATATAATTC
* *
115829 GACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCAATTTTTTC-AAATTA
65 GACATCAAAAAGATTGAAGGGCTTTTAACGCTTCTAATATCGTTTTT-CAATTTTTTCTAAATTA
*
115893 ATTTCTGATTAAATCGAAACAAGATTCAGATGCACATAAAAACAATTCCTTAAATCCAATGTGCC
129 ATTTCTGATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGCC
* *
115958 TGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGTGCCAAAAATCATGCAAAACAG
194 TGAGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAG
*
116023 AGCCGTGGCCCTAGAACGTGTTTTTAGCCCAAAA--TGACGGTTAGTACACGATTTCGGCTAAAA
259 AGCCGTGGCCCTAGAACGCGTTTTTAGCCCAAAACCTGA-GGTTAGTACACGATTTCGGCTAAAA
* * *
116086 TTTTGCAAAAATTGACCCGAAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAAATTATA
323 TTTTGCAAAAATTTACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATA
**
116151 TAATTCAACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTA-TTTTAAA
388 TAATTCAACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCA
*
116215 AATTAATTTCTAATTAAATCGAAGCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATTTAAT
453 AATTAATTTCTAATTAAATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATCCTTAAATTTAAT
* * *
116280 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCA-C-C-AAAAATCAAG
518 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAAGAG-C--CGCATCGCAAAAAATCATG
* * * * * * *
116342 CAAAAACTGAGTCG-G-GCCTTGAACGCGGTTTTAGCCGAAAACCGTGATGGTTTGT--ACATGA
580 C-AAAACAGAGTCGTGACCCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACACGA
116403 TTTCGGCTAAAATTTTGC
644 TTTCGGCTAAAATTTTGC
* * * * * * * * *
116421 AAAAATTGACCCGAAAGATTTTTCCTCGATTTCTAGCGAAAATAGTCATAAAAATATATAATTCA
1 AAAAATTGATCCGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCACAAAAATATATAATTCG
* * * * * * * * *
116486 ACGTCCAAAGGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAGTTTTTCTGAATTAA
66 ACATCAAAAAGATTGAAGGGCTTTTAACGCTTCTAATATCGTTTTTCA-ATTTTTTCTAAATTAA
116551 TTTC
130 TTTC
116555 GACATAAAAA
Statistics
Matches: 1337, Mismatches: 95, Indels: 42
0.91 0.06 0.03
Matches are distributed among these distances:
655 13 0.01
656 312 0.23
657 70 0.05
658 33 0.02
659 116 0.09
660 158 0.12
661 1 0.00
662 4 0.00
663 282 0.21
664 348 0.26
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (661 bp):
AAAAATTGATCCGAAAGATATTTCCTCAATTTTTTGCTAAAATACTCACAAAAATATATAATTCG
ACATCAAAAAGATTGAAGGGCTTTTAACGCTTCTAATATCGTTTTTCAATTTTTTCTAAATTAAT
TTCTGATTAAATCGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGCCTG
AGATTTGGTTAGATGAATAAAGATATTTCAAGGAGTCTCGGTGCCAAAAATCATGCAAAACAGAG
CCGTGGCCCTAGAACGCGTTTTTAGCCCAAAACCTGAGGTTAGTACACGATTTCGGCTAAAATTT
TGCAAAAATTTACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAA
TTCAACATCAAAAAGATTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAAT
TAATTTCTAATTAAATCGAAGCAAGATTCAGATGCTCGTAAAGACAAATCCTTAAATTTAATGTG
GCTGAGATTTGGTTAGATGAATATAGATATTTCAAAGAGCCGCATCGCAAAAAATCATGCAAAAC
AGAGTCGTGACCCTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACACGATTTCGGC
TAAAATTTTGC
Found at i:117221 original size:333 final size:330
Alignment explanation
Indices: 116615--118682 Score: 2627
Period size: 333 Copynumber: 6.2 Consensus size: 330
116605 AAAATCCTTA
* * * * * *
116615 AAAGATATTTCCTCAATTTTTGGCTATAATACTAACAAAAAATATATAATTCGACATCAAAAAGA
1 AAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAAATTATATAATTCAACATCAAAAAGA
* * *
116680 TTGAAGGGCTTTTAACTCTTCTAATATTGTTTTTCCAATTTTTTCAAATTAATTTCTGATTAAAT
66 TTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAAAT
*
116745 CGAAACAAGATTCAGATGCACATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTTAG
131 CGAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTTAG
* * ** ** * *
116810 ATGAATATAGATATTTCAAGGAGGCTCAGTTCCAAAAATCATGCAAAACAGAGATGAGGCCCTAG
196 ATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAAATCATGCAAAACAGAGCCGTGACCCTAG
* *
116875 AACGTGTTTTTAGCTCAAAATCGTGATGGTTAGTACACACGATTTCGGCTAAAATTTTGCAAAAA
261 AACGCGTTTTTAGC-CAAAACCGTGATGGTTAGT--ACACGATTTCGGCTAAAATTTTGCAAAAA
*
116940 TTGATCCG
323 TTGACCCG
*
116948 AAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAACTTATATAATTCAACATCAAAAAGA
1 AAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAAATTATATAATTCAACATCAAAAAGA
* **
117013 TTAAAACGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAAAT
66 TTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAAAT
* * * ** *
117078 CGAAGCAAGATTCAGATGCTCGTAAAGACAAATCCTTAAATTTAATGTGGCTGAGATTTGGTTAG
131 CGAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTTAG
* * * * * *
117143 ATGAATATAGGTATTTCAAAGAGCCGCGGCGCAAAAAATCATGCAAAACAGAGCCGTGACCCTGG
196 ATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAAATCATGCAAAACAGAGCCGTGACCCTAG
117208 AACGCGTTTTTAGCCAAAACCGTGATGGTTAGTACACACGATTTCGGCTAAAATTTTGCAAAAAT
261 AACGCGTTTTTAGCCAAAACCGTGATGGTTAGT--ACACGATTTCGGCTAAAATTTTGCAAAAAT
*
117273 TGATCCG
324 TGACCCG
* * *
117280 AAAGATATTTCGTCAATTTTTTG-CTAAAATACTCACAAACAA-TATATAATTCGACATCAAAAA
1 AAAGATATTTCCTCAA-TTTTTGACTAAAATACTCATAAA-AATTATATAATTCAACATCAAAAA
* * *
117343 TATTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCAATTTTTTCAAATTAATTTCTGATTAA
64 GATTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAA
* *
117408 ATCGAAACAAGATTCAGATGCACATAAAAACAATTCCTTAAATCCAATGTGCCTGAGATTTGGTT
129 ATCGAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTT
* * * *
117473 AGATGAATATAGATATTTCAAGGAGGCTCGGTGCCAAAAATCATGCAAAACAGAGACGTGGCCCT
194 AGATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAAATCATGCAAAACAGAGCCGTGACCCT
*
117538 AGAACGTGTTTTTAGCCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
259 AGAACGCGTTTTTAG-CCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAA
117603 TTGACCCG
323 TTGACCCG
*
117611 AAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAAATTATATAATTCAACATCAGAAAGA
1 AAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAAATTATATAATTCAACATCAAAAAGA
* **
117676 TTAAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTA-TTTTAAAAATTAATTTCTAATTAAAT
66 TTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAAAT
* * ** *
117740 CGAAGCAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATTTAATGTGGCTGAGATTTGGTTAG
131 CGAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTTAG
* * * * * * *
117805 ATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATCAAGCAAAAACTGAGTCG-G-GCCTT
196 ATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAAATCATGC-AAAACAGAGCCGTGACCCTA
* * *
117868 GAACGCGGTTTTAGCCGAAAACCGTGATGGTTTGTACATGATTTCGGCTAAAATTTTGCAAAAAT
260 GAACGCGTTTTTAGCC-AAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT
117933 TGACCCG
324 TGACCCG
* * * * * * *
117940 AAAGATTTTTCCTCGATTTCT-ATCGAAAATACTCATTAAAAA-TATATAATTCAACGTCCAAAG
1 AAAGATATTTCCTCAATTTTTGA-CTAAAATACTCA-TAAAAATTATATAATTCAACATCAAAAA
* * * * * * *
118003 GATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTA
64 GATTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTC-AAATTAATTTCTAATTA
*
118067 AATCGAAACAAGATTCATATGCAT-ATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGG
128 AATCGAAACAAGATTCAGATGC-TCATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGG
* * * * *
118131 TTAGATGAATAAAGATATTTCAAGAAGTCTCGGTGCCGAAAATCATGCAAAACAGAGCCGTGTCC
192 TTAGATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAAATCATGCAAAACAGAGCCGTGACC
* * * * *
118196 CAAGAACGCATTTTTAGCCCAAAAACCGTGATGATTATTATC-CGATTTCGGCTAAAATTTTACC
257 CTAGAACGCGTTTTTAG-CC-AAAACCGTGATGGTTAGTA-CACGATTTCGGCTAAAATTTT-GC
118260 AAAAATTGACCCG
318 AAAAATTGACCCG
* * ** * * * *
118273 AAAGATATTTCCTCAATTTTAGTC-CCAGTTCTCATAAAAATTATATAATTCTACACCAAAAAGA
1 AAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAAATTATATAATTCAACATCAAAAAGA
* * * * * *
118337 TTGAAGGGCTTTTCACGTTTTTAATATTGTTTTTCGTATTCTTTCTGAATTAATTTCTAATTAAA
66 TTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTC-AAATTAATTTCTAATTAAA
* * * ** **
118402 TCAAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAATTGCAATGTGGTTGAGATTTTATTA
130 TCGAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTTA
* * *
118467 GATGAATATAGATATTTCAAGGAGTCTCGACGCCAAAAATCATGCAAAACTGAGCCG-GAGCCCC
195 GATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAAATCATGCAAAACAGAGCCGTGA-CCCT
* * * *
118531 AAAACGCGTTTTTAGCAAAAAAATCATGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAA
259 AGAACGCGTTTTTAGC--CAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGC-AAA
*
118596 AATT-ACCCC
321 AATTGACCCG
* * * * *
118605 AAA-AAATTTTCCTCAATTTTTGGCTAAAATACTCAT-GAAATATATATAATTTAACACCAAAAA
1 AAAGATA-TTTCCTCAATTTTTGACTAAAATACTCATAAAAAT-TATATAATTCAACATCAAAAA
* *
118668 GGTTGAAGGACTTTT
64 GATTGAAGGGCTTTT
118683 CGA
Statistics
Matches: 1512, Mismatches: 195, Indels: 56
0.86 0.11 0.03
Matches are distributed among these distances:
328 3 0.00
329 161 0.11
330 249 0.16
331 155 0.10
332 417 0.28
333 527 0.35
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (330 bp):
AAAGATATTTCCTCAATTTTTGACTAAAATACTCATAAAAATTATATAATTCAACATCAAAAAGA
TTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTTCAAATTAATTTCTAATTAAAT
CGAAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGGTTAG
ATGAATATAGATATTTCAAGGAGTCTCGGCGCCAAAAATCATGCAAAACAGAGCCGTGACCCTAG
AACGCGTTTTTAGCCAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTG
ACCCG
Done.