Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1422
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: 54696
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Found at i:328 original size:30 final size:30
Alignment explanation
Indices: 287--374 Score: 85
Period size: 31 Copynumber: 3.0 Consensus size: 30
277 TAATTGTTTT
*
287 AGAAAATTTA-GGAT-TAAAATGAAATTTAA
1 AGAAATTTTAGGGATCT-AAATGAAATTTAA
* *
316 ATGAAATTTTAGGGGTCTAAGTGAAATTTAA
1 A-GAAATTTTAGGGATCTAAATGAAATTTAA
*
347 AGAAATTTTAAAGG-TC-AAATGAAATTTA
1 AGAAATTTT-AGGGATCTAAATGAAATTTA
375 GGAAAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 12 0.24
30 18 0.36
31 19 0.38
32 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (30 bp):
AGAAATTTTAGGGATCTAAATGAAATTTAA
Found at i:394 original size:29 final size:29
Alignment explanation
Indices: 303--394 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
293 TTTAGGATTA
* **
303 AAATGAAATTTAAATGAAATTTTAGGGGTC
1 AAATGAAATTTAAA-GAAAATTTAAAGGTC
* *
333 TAAGTGAAATTTAAAGAAATTTTAAAGGTC
1 -AAATGAAATTTAAAGAAAATTTAAAGGTC
* *
363 AAATGAAATTT-AGGAAAATTTAAGGGTGC
1 AAATGAAATTTAAAGAAAATTTAAAGGT-C
392 AAA
1 AAA
395 ATACCAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.25
29 14 0.26
30 13 0.25
31 13 0.25
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (29 bp):
AAATGAAATTTAAAGAAAATTTAAAGGTC
Found at i:771 original size:54 final size:52
Alignment explanation
Indices: 679--1093 Score: 478
Period size: 54 Copynumber: 7.9 Consensus size: 52
669 CACGTGAGCC
*
679 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAA-TT--AA
* * *
733 AAGGCACAACTTACCTCTC-CAATATGAGTTGATTTTTGAAAAATAG----AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAATTAA
* * *
781 AAGGCTCAACTCACAATCTCGCAATATGAGTTG-GTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCAC-CTCTCGCAATATGAGTTGATTTTGAAAAACAG-AATTAA
*
834 AAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTGAAAAACAGAAATTTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAG-AA-TTAA
* *
888 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAATCAGAA-AACA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAATTA-A
940 AAGGCTCAACTCA-CTCCTCGGCAATATGAGTTGATTTTTGAAAAACAG-A--AA
1 AAGGCTCAACTCACCT-CTC-GCAATATGAGTTGA-TTTTGAAAAACAGAATTAA
* *
991 AAGGCTCAACTCACCTCTCGCAGATATGAGTTGGTTTTAGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCA-ATATGAGTTGATTTT-GAAAAACAG-AATTAA
*
1046 AAGTCTC-ACTCAACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAA
1 AAGGCTCAACTC-ACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAA
1094 ATTGAAAATC
Statistics
Matches: 317, Mismatches: 21, Indels: 48
0.82 0.05 0.12
Matches are distributed among these distances:
48 26 0.08
49 4 0.01
50 19 0.06
51 38 0.12
52 38 0.12
53 69 0.22
54 99 0.31
55 24 0.08
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (52 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAATTAA
Found at i:1279 original size:71 final size:69
Alignment explanation
Indices: 1061--2380 Score: 1790
Period size: 71 Copynumber: 19.5 Consensus size: 69
1051 TCACTCAACC
1061 TCTCGCAATATGAGTTG-ATTTTGAAAAACAGAAATTGAAA-ATCCTCAACGTGTCTTGAGGGCT
1 TCTCGCAATATGAGTTGAATTTTG-AAAACA-AAATTGAAATA-CCTCAACGTGTC-TGA-GGCT
1124 CAACTCATT
61 CAACTCATT
*
1133 TCTCACAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTG-GCGCT
1 TCTCGCAATATGAGTTGAATTTTGAAAA-CA-AAATTG-AAATACCTCAACGTGTC-TGAG-GCT
1197 CAACTCA-T
61 CAACTCATT
* *
1205 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCTGAGGCTCAA
1 TCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAA-TACCTCAACGTGTCTGAGGCTCAA
*
1270 CTAATT
64 CTCATT
* * *
1276 TCTCGC-ATATGAGTTG-ATTTTTAAAACAGCAGATTGAAATTACCTCAGCGTGTCTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACA--AAATTGAAA-TACCTCAACGTGTCTGAGGCTCA
1339 ACTCATT
63 ACTCATT
*
1346 TCTCGCAATATGAATTG-A-TTTG-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCCTC
1 TCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTG-AAATACCTCAACGTGTC-TGAGG-CTC
1408 AACTCATT
62 AACTCATT
1416 TCTCGCAATATGAGTTGAATTTTG-AAACAGAAATTGAAATACCTCAA-GTGTCTGA-GCTC-AC
1 TCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATACCTCAACGTGTCTGAGGCTCAAC
1477 TCA-T
65 TCATT
1481 TCTCGCAATATGAGTTG-ATTTTGAAAAGCAAAATTGAAATA-CTCAA-GTGTCTGAGGCTCAAC
1 TCTCGCAATATGAGTTGAATTTTGAAAA-CAAAATTGAAATACCTCAACGTGTCTGAGGCTCAAC
1543 TCATT
65 TCATT
1548 TCTCGCAATATGAGTTGAATTTTGAAAACAAAA-TGAAATTACCTCAACGTGTCTTGAGGCTCAA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAA-TACCTCAACGTGTC-TGAGGCTCAA
1612 --CA-T
64 CTCATT
1615 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAA-TACCTCAACGTGTC-TGAGGCTCAA
1680 CTCATT
64 CTCATT
1686 TCTCGCAATATGAGTTG-ATTTTGAAAACAAAATTGAAATTA-CTC-ACGTGTCTGAGGCTC-A-
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAA-TACCTCAACGTGTCTGAGGCTCAAC
1746 -C---
65 TCATT
1747 TCTCGCAATATGAGTTG-ATTTTGAAAAACAAAATTGAAATACCTCAACGTGTCTTGAGGCTCAA
1 TCTCGCAATATGAGTTGAATTTTG-AAAACAAAATTGAAATACCTCAACGTGTC-TGAGGCTCAA
1811 CTCA-T
64 CTCATT
1816 TCTCGCAATATGAGTTGAATTTT-AAAACAAAATTGAAATACCTC-ACGTGTCTGAGGCTCAACT
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATACCTCAACGTGTCTGAGGCTCAACT
1879 CATT
66 CATT
1883 TCTCGCAATATGAGTTG-ATTTTGAAAACAAAATTG-AATACCTC-A-G-GTCTGAGGCTCAACT
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATACCTCAACGTGTCTGAGGCTCAACT
1943 CATT
66 CATT
1947 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAA-TACCTCAACGTGTC-TGAGGCTCAA
2012 CTCATT
64 CTCATT
2018 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAA-TACCTCAACGTGTC-TGAGGCTCAA
2083 CTCA--
64 CTCATT
* *
2087 TCTCGCAATATGAGTTGATTTTTGAAAA-AAAATTGAAATA-CTCAAC--GT-T-A-ACTCAACT
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATACCTCAACGTGTCTGAGGCTCAACT
2145 CA--
66 CATT
2147 --TCGCAATATGAGTTGAATTTTGAAAACAGAAAAATTGAAATACCTCAACGTG-CTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAAC---AAAATTGAAATACCTCAACGTGTCTGAGGCTCA
2209 ACTCATT
63 ACTCATT
2216 TCTCGCAATATGAGTTGAATTTTG-AAA-AAAATT-AAATACCTCAACGTGTCTTGA-GCTCAAC
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATACCTCAACGTGTC-TGAGGCTCAAC
2277 TCATT
65 TCATT
2282 TCTCGC-ATATGAGTTG-ATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTGAGGCTCAAC
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAA-TACCTCAACGTGTCTGAGGCTCAAC
2345 TCA--
65 TCATT
2348 TCTCGCAATATGAGTTGAATTTTGAAAACAAAA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAAA
2381 ATTAAAAGGC
Statistics
Matches: 1157, Mismatches: 20, Indels: 146
0.87 0.02 0.11
Matches are distributed among these distances:
58 25 0.02
60 9 0.01
61 26 0.02
62 31 0.03
63 13 0.01
64 72 0.06
65 86 0.07
66 92 0.08
67 144 0.12
68 145 0.13
69 80 0.07
70 149 0.13
71 176 0.15
72 65 0.06
73 25 0.02
74 18 0.02
75 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (69 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATACCTCAACGTGTCTGAGGCTCAACT
CATT
Found at i:2124 original size:401 final size:407
Alignment explanation
Indices: 1061--2557 Score: 1971
Period size: 399 Copynumber: 3.7 Consensus size: 407
1051 TCACTCAACC
1061 TCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTGAAA-ATCCTCAACGTGTCTTGAGGGCTC
1 TCTCGCAATATGAGTTGATTTTG-AAAACA-AAATTGAAATA-CCTCAACGTGTC-TGA-GGCTC
* *
1125 AACTCATTTCTCACAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCT
61 AACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CA-AAATTGAAATTACCTCAACGTGTCT
*
1190 TG-GCGCTCAACTCATTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAG
124 TGAG-GCTCAACTCATTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAA
* * *
1254 CATGTC-TGAGGCTCAACTAATTTCTCGC-ATATGAGTTGATTTTT-AAAACAGCAGATTGAAAT
187 CGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTGAAAACA--AAATTGAAAT
*
1316 TACCTCAGCGTGTCTGAGGCTCAACTCATTTCTCGCAATATGAATTGA-TTTG--AAACAGAAAT
249 TA-CTCA-CGTGTCTGAGGCTCAA--C---TCTCGCAATATGAGTTGATTTTGAAAAACA-AAAT
1378 TGAAAATACCTCAACGTGTCTTGAGGCCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
306 TG-AAATACCTCAACGTGTCTTGAGG-CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
*
1443 CAGAAATTGAAATACCTCAAGTGTCTGAGCTC-ACTCA-T
369 CA-AAATTGAAATACCTCACGTGTCTGAGCTCAACTCATT
1481 TCTCGCAATATGAGTTGATTTTGAAAAGCAAAATTGAAATA-CTCAA-GTGTCTGAGGCTCAACT
1 TCTCGCAATATGAGTTGATTTTGAAAA-CAAAATTGAAATACCTCAACGTGTCTGAGGCTCAACT
1544 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAA-TGAAATTACCTCAACGTGTCTTGAGGC
65 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGC
1608 TCAA--CATTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCATTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTT
1671 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAACAAAATTGAAATTACTCACGTG
195 GAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTGAAATTACTCACGTG
1735 TCTGAGGCTC-ACTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAATACCTCAACGTGT
259 TCTGAGGCTCAACTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAATACCTCAACGTGT
*
1799 CTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTAAAACAAAATTGAAATACCTCACG
324 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACAAAATTGAAATACCTCACG
1863 TGTCTGAGGCTCAACTCATT
389 TGTCTGA-GCTCAACTCATT
1883 TCTCGCAATATGAGTTGATTTTGAAAACAAAATTG-AATACCTC-A-G-GTCTGAGGCTCAACTC
1 TCTCGCAATATGAGTTGATTTTGAAAACAAAATTGAAATACCTCAACGTGTCTGAGGCTCAACTC
1944 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCT
2009 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTT
131 CAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTT
2074 GAGGCTCAACTCA-TCTCGCAATATGAGTTGATTTTTGAAAA-AAAATTGAAA-TACTCAAC--G
195 GAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTGAAATTACTC-ACGTG
* *
2134 T-T-A-ACTCAACTCATCGCAATATGAGTTGAATTTTGAAAACAGAAAAATTGAAATACCTCAAC
259 TCTGAGGCTCAACTC-TCGCAATATGAGTTG-ATTTTGAAAA-A-CAAAATTGAAATACCTCAAC
2196 GTG-C-TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA-AAAATT-AAATACCT
320 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACAAAATTGAAATACCT
2257 CAACGTGTCTTGAGCTCAACTCATT
385 C-ACGTGTC-TGAGCTCAACTCATT
2282 TCTCGC-ATATGAGTTGATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACT
1 TCTCGCAATATGAGTTGATTTTGAAAACAAAATTGAAA-TACCTCAACGTGTCTGAGGCTCAACT
* *
2346 CA--TCTCGCAATATGAGTTGAATTTTGAAAAC--AA---AAATTA----AAAG-G-CTT-A-AC
65 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGC
* * * * ** * *
2396 TC-AC-C--TCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCGGCGTGCCC
130 TCAACTCATTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACGTGTCT
* * *
2454 CGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT--AAA-AAAATTAAAAATACTCAACG
194 TGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTGAAATTACTC-ACG
2516 TGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTT
257 TGTC-TGAGGCTCAA--C--TCTCGCAATATGAGTTGATTTT
2558 CCTTGGAAAG
Statistics
Matches: 1006, Mismatches: 25, Indels: 122
0.87 0.02 0.11
Matches are distributed among these distances:
380 6 0.01
381 46 0.05
382 11 0.01
383 37 0.04
384 2 0.00
386 2 0.00
387 3 0.00
388 8 0.01
389 1 0.00
390 9 0.01
391 16 0.02
392 5 0.00
396 9 0.01
397 5 0.00
398 53 0.05
399 137 0.14
400 113 0.11
401 124 0.12
402 67 0.07
403 93 0.09
404 6 0.01
406 1 0.00
407 14 0.01
408 4 0.00
409 33 0.03
410 58 0.06
411 17 0.02
412 28 0.03
413 4 0.00
414 2 0.00
415 40 0.04
416 3 0.00
417 5 0.00
418 5 0.00
419 13 0.01
420 26 0.03
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (407 bp):
TCTCGCAATATGAGTTGATTTTGAAAACAAAATTGAAATACCTCAACGTGTCTGAGGCTCAACTC
ATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCT
CAACTCATTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTG
AGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTGAAAACAAAATTGAAATTACTCACGTGTC
TGAGGCTCAACTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAATACCTCAACGTGTCT
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAACAAAATTGAAATACCTCACGTG
TCTGAGCTCAACTCATT
Found at i:2160 original size:127 final size:125
Alignment explanation
Indices: 1885--2516 Score: 613
Period size: 127 Copynumber: 4.9 Consensus size: 125
1875 AACTCATTTC
1885 TCGCAATATGAGTTG-ATTTTGAAAACAAAATTG-AA-TACCTC-A-G-GTCTGAGGCTCAACTC
1 TCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTC
*
1944 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 A-TTCTCGCAATATGAGTTGAATTTTG-AAA-AAAATT-AAA-TA-CTCAAC--G--TT-A-ACT
2009 CAACTCA
119 CAACTCA
2016 TTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
1 ----TCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTC-TGAGGCTC
*
2081 AACTCA-TCTCGCAATATGAGTTGATTTTTGAAAAAAAATTGAAATACTCAACGTTAACTCAACT
61 AACTCATTCTCGCAATATGAGTTGAATTTTG-AAAAAAATT-AAATACTCAACGTTAACTCAACT
2145 CA
124 CA
2147 TCGCAATATGAGTTGAATTTTGAAAACAGAAAAATTGAAA-TACCTCAACGTG-CTGAGGCTCAA
1 TCGCAATATGAGTTGAATTTTGAAAAC---AAAATTGAAATTACCTCAACGTGTCTGAGGCTCAA
*
2210 CTCATTTCTCGCAATATGAGTTGAATTTTGAAAAAAATTAAATACCTCAACGTGTCTTGAGCTCA
63 CTCA-TTCTCGCAATATGAGTTGAATTTTGAAAAAAATTAAATA-CTCAAC--G--TT-AACTCA
2275 ACTCA
121 ACTCA
2280 TTTCTCGC-ATATGAGTTG-ATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTGAGGCTCA
1 ----TCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTGAGGCTCA
* * * *
2343 ACTCA-TCTCGCAATATGAGTTGAATTTTGAAAACAA--AAAT--TAAAAGGCTTAACTCACCTC
62 ACTCATTCTCGCAATATGAGTTGAATTTTGAAAAAAATTAAATACT-CAACG-TTAACTCAACTC
2403 -
125 A
* * * * ** * *
2403 TCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
1 TCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACGTG-TCTGAGGCTCAAC
*
2465 TCACTTCTCGCAATATGAGTTG-ATTTTTAAAAAAATTAAAAATACTCAACGT
64 TCA-TTCTCGCAATATGAGTTGAATTTTGAAAAAAATT--AAATACTCAACGT
2517 GTCTTGAGGC
Statistics
Matches: 439, Mismatches: 21, Indels: 84
0.81 0.04 0.15
Matches are distributed among these distances:
118 6 0.01
119 25 0.06
120 22 0.05
121 11 0.03
122 17 0.04
124 8 0.02
125 8 0.02
126 4 0.01
127 48 0.11
128 18 0.04
129 35 0.08
130 15 0.03
131 9 0.02
132 43 0.10
133 24 0.05
134 15 0.03
135 27 0.06
136 28 0.06
137 12 0.03
138 8 0.02
139 11 0.03
140 28 0.06
141 3 0.01
142 14 0.03
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (125 bp):
TCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTC
ATTCTCGCAATATGAGTTGAATTTTGAAAAAAATTAAATACTCAACGTTAACTCAACTCA
Found at i:14293 original size:16 final size:16
Alignment explanation
Indices: 14265--14311 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
14255 TCTTTTTTGA
14265 AAACACGAAAATTTTA-
1 AAACAC-AAAATTTTAG
*
14281 AAATACAAGAATTTTAG
1 AAACACAA-AATTTTAG
14298 AAACACAAAATTTT
1 AAACACAAAATTTT
14312 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 2 0.07
16 18 0.67
17 7 0.26
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (16 bp):
AAACACAAAATTTTAG
Found at i:14411 original size:16 final size:17
Alignment explanation
Indices: 14380--14415 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14370 ACGAATCTTC
*
14380 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
14397 TTTTTAAAACA-GAAAA
1 TTTTTAAAACACGAAAA
14413 TTT
1 TTT
14416 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:14639 original size:20 final size:20
Alignment explanation
Indices: 14610--14647 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14600 GGGATTCTAA
14610 TAAAACACGAGAATTTTTAT
1 TAAAACACGAGAATTTTTAT
* *
14630 TAAAATACGAGGATTTTT
1 TAAAACACGAGAATTTTT
14648 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TAAAACACGAGAATTTTTAT
Found at i:15104 original size:11 final size:11
Alignment explanation
Indices: 15082--15147 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
15072 TTAGTTTTTT
*
15082 TTTCTTTTTTC
1 TTTCTTTCTTC
15093 TTTCTTTCTTC
1 TTTCTTTCTTC
*
15104 TTCCCCTTTTCTTC
1 TT--TC-TTTCTTC
*
15118 TTTCCTTCTTC
1 TTTCTTTCTTC
15129 -TT-TTTCTTCC
1 TTTCTTTCTT-C
15139 TTTCTTTCT
1 TTTCTTTCT
15148 CCCCGATCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
9 5 0.11
10 3 0.07
11 20 0.45
12 6 0.14
13 1 0.02
14 9 0.20
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTCTTTCTTC
Found at i:15669 original size:29 final size:29
Alignment explanation
Indices: 15637--15752 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 29
15627 GTAATTTTTA
*
15637 GAAAATTTAGGATTAAAATGAAATTTAAT
1 GAAAATTTAGGGTTAAAATGAAATTTAAT
* *
15666 GAAAGTTTAGGGGTCT-AAGTGAAATTTAAT
1 GAAAATTTA-GGGT-TAAAATGAAATTTAAT
* * *
15696 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAATTT-AGGGTTAAAATGAAATTTAAT
* *
15725 GAAAAATTTAGGGGTCAAAATGCAATTT
1 G-AAAATTTA-GGGTTAAAATGAAATTT
15753 TTATTTTTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
29 11 0.15
30 60 0.82
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
GAAAATTTAGGGTTAAAATGAAATTTAAT
Found at i:15691 original size:30 final size:30
Alignment explanation
Indices: 15651--15752 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
15641 ATTTAGGATT
15651 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAATGAAAGTTTAGGGGTC
* * *
15681 TAAGTGAAATTTAATGAAAGTTTAAGGGTC
1 AAAATGAAATTTAATGAAAGTTTAGGGGTC
* *
15711 AAAATGAAATTT-AGGAAAAATTTAGGGGTC
1 AAAATGAAATTTAATG-AAAGTTTAGGGGTC
*
15741 AAAATGCAATTT
1 AAAATGAAATTT
15753 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAATGAAAGTTTAGGGGTC
Found at i:19731 original size:7 final size:7
Alignment explanation
Indices: 19719--19744 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19709 AAACACATAT
19719 ATATAAA
1 ATATAAA
19726 ATATAAA
1 ATATAAA
19733 ATATAAA
1 ATATAAA
19740 ATATA
1 ATATA
19745 TACATAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATATAAA
Found at i:24924 original size:22 final size:24
Alignment explanation
Indices: 24877--24925 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24867 ATGTTGATGT
*
24877 AAATGGATTGATTTTTAACAACAA
1 AAATGGATGGATTTTTAACAACAA
*
24901 AAATTGATGGATTTTT-A-AACAA
1 AAATGGATGGATTTTTAACAACAA
24923 AAA
1 AAA
24926 GACCTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 14 0.61
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (24 bp):
AAATGGATGGATTTTTAACAACAA
Found at i:26961 original size:18 final size:18
Alignment explanation
Indices: 26936--27060 Score: 187
Period size: 18 Copynumber: 6.9 Consensus size: 18
26926 ACCGTTTACA
26936 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
26954 GCACTATTCACGTATACG
1 GTACTATTCACGTATACG
* * *
26972 GTACTATTTACATATACA
1 GTACTATTCACGTATACG
26990 GTACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
27008 GCACTATTCACGTATACG
1 GTACTATTCACGTATACG
*
27026 GTACTATTCACGTATACA
1 GTACTATTCACGTATACG
*
27044 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
27061 AGTAGTTGGG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 95 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
GTACTATTCACGTATACG
Found at i:27014 original size:54 final size:54
Alignment explanation
Indices: 26932--27060 Score: 231
Period size: 54 Copynumber: 2.4 Consensus size: 54
26922 TACGACCGTT
*
26932 TACAGTACTATTCACGTATACGGCACTATTCACGTATACGGTACTATTTACATA
1 TACAGTACTATTCACGTATACGGCACTATTCACGTATACGGTACTATTCACATA
*
26986 TACAGTACTATTCACGTATACGGCACTATTCACGTATACGGTACTATTCACGTA
1 TACAGTACTATTCACGTATACGGCACTATTCACGTATACGGTACTATTCACATA
*
27040 TACAGTACTGTTCACGTATAC
1 TACAGTACTATTCACGTATAC
27061 AGTAGTTGGG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (54 bp):
TACAGTACTATTCACGTATACGGCACTATTCACGTATACGGTACTATTCACATA
Found at i:33234 original size:18 final size:20
Alignment explanation
Indices: 33208--33246 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
33198 TTAATTTTAT
*
33208 AAATGAAAAAA-ATAA-ATG
1 AAATAAAAAAAGATAATATG
33226 AAATAAAAAAAGATAATATG
1 AAATAAAAAAAGATAATATG
33246 A
1 A
33247 CTATTCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (20 bp):
AAATAAAAAAAGATAATATG
Found at i:33885 original size:18 final size:19
Alignment explanation
Indices: 33853--33890 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
33843 AAACAATTCG
33853 AGTTATTCGATTTAA-TCA
1 AGTTATTCGATTTAACTCA
33871 AGTTATTCAGA-TTAACTCA
1 AGTTATTC-GATTTAACTCA
33890 A
1 A
33891 ATAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
AGTTATTCGATTTAACTCA
Found at i:40885 original size:11 final size:11
Alignment explanation
Indices: 40871--40897 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
40861 AATAAATAAC
40871 AAAAAAATATA
1 AAAAAAATATA
40882 AAAAAAATATA
1 AAAAAAATATA
40893 AAAAA
1 AAAAA
40898 TTTTACCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATATA
Found at i:41508 original size:3 final size:3
Alignment explanation
Indices: 41484--41554 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
41474 AATATCCTTG
* * * **
41484 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
41531 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
41555 GTACGTGTAT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:41551 original size:23 final size:22
Alignment explanation
Indices: 41497--41557 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
41487 TTTTTATATT
*
41497 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
41518 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
*
41540 ATATATTTTTATTATGTA
1 AT-TATTATTATTATGTA
41558 CGTGTATACC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 8 0.24
23 14 0.41
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:41564 original size:23 final size:23
Alignment explanation
Indices: 41520--41565 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
41510 GTATTACCAT
*
41520 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
41543 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
41566 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:41832 original size:19 final size:19
Alignment explanation
Indices: 41797--41833 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41787 ATATATTACC
**
41797 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
41816 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
41834 ATTATATATG
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:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:53968 original size:88 final size:87
Alignment explanation
Indices: 53798--54362 Score: 511
Period size: 88 Copynumber: 6.4 Consensus size: 87
53788 ATAGGTCCTA
* * * * * *
53798 TCTTCCTATATTGGTAGGAAGTGGATCAAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAA
1 TCTTCCTATATTGG-CGGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAA
*
53862 GTAGATCGAGAGAAGCAGATCTTG
65 GTAGATCGA-AGATGCAGATCTTG
* * *
53886 TCTTCATGTATTGGCGTGAAGTAGATCGAAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GA
1 TCTTCCTATATTGGCG-GAAGTAGATCG-AAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGA
*
53950 AGTGGATCGAAGATGCAGATCTTG
64 AGTAGATCGAAGATGCAGATCTTG
* * * * * * * * *
53974 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGA
1 TCTTCCTATATTGG-CG-GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGA
* * *
54038 AGTAGATCGAAGGTAGCAGATCCTA
64 AGTAGATCGAAGAT-GCAGATCTTG
* * * * *
54063 TCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAA
1 TCTTCCTATATTGG-CGGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAA
* *
54127 GTAGATCGCAGAAAGCAGATCTTG
65 GTAGATCGAAG-ATGCAGATCTTG
* * * *
54151 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAA
1 TCTTCCTATATTGGCG-GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAA
*
54215 GTGGATCGAAGATGCAGATCTTG
65 GTAGATCGAAGATGCAGATCTTG
* * * * * * * *
54238 TCTTCCCATA-TGGTGGCAAGTAGATCGAAGAAAGCAGAT-CTTTCTTCATGTATTGG-CGTGAA
1 TCTTCCTATATTGGCGG-AAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAA
54300 GTAGATCGAAGATGCAGATC-T-
65 GTAGATCGAAGATGCAGATCTTG
* ** *
54321 TCTTCCTGTATTTGGCAGCGAAACAGATCGAAGATGGCAGAT
1 TCTTCCTATA-TTGGC-G-GAAGTAGATCGAAGATAGCAGAT
54363 TTTACTCCCT
Statistics
Matches: 389, Mismatches: 72, Indels: 34
0.79 0.15 0.07
Matches are distributed among these distances:
83 8 0.02
84 2 0.01
85 40 0.10
86 43 0.11
87 43 0.11
88 157 0.40
89 73 0.19
90 23 0.06
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (87 bp):
TCTTCCTATATTGGCGGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAG
TAGATCGAAGATGCAGATCTTG
Found at i:54135 original size:132 final size:132
Alignment explanation
Indices: 53793--54332 Score: 968
Period size: 132 Copynumber: 4.1 Consensus size: 132
53783 CGTAAATAGG
*
53793 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
53858 CGAAGTAGATCG-AGAGAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAGATAG
66 CGAAGTAGATCGCAGA-AAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG-AAGATAG
53922 CAGA
129 CAGA
53926 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
53991 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
54056 GA
131 GA
54058 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
54123 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
*
54188 GG
131 GA
54190 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATA-TGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
54254 C-AAGTAGATCGAAGAAAGCAGATCTT-TCTTCATGTATTGGCGTGAAGTAGATCGAAGAT-GCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
54316 GA
131 GA
*
54318 T-CT-TCTTCCTGTATT
1 TCCTATCTTCCTATATT
54333 TGGCAGCGAA
Statistics
Matches: 399, Mismatches: 7, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
126 11 0.03
127 2 0.01
128 5 0.01
129 33 0.08
130 24 0.06
131 7 0.02
132 198 0.50
133 116 0.29
134 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
GA
Found at i:54349 original size:43 final size:42
Alignment explanation
Indices: 53821--54362 Score: 187
Period size: 44 Copynumber: 12.4 Consensus size: 42
53811 GTAGGAAGTG
* *** * **
53821 GATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCGAAGATGCAGATCTT-TCTTCATGTATTGG-CGCGAAACA
* * **
53865 GATCGAGAGAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCGA-AGATGCAGATCTT-TCTTCATGTATTGGCGCGAAACA
* * * * ***
53909 GATCGAAAGATAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCG-AAGAT-GCAGAT-CTTTCTTCATGTATTGG-CGCGAAACA
*** * **
53954 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCGAAGATGCAGATCTT-TCTTCATGTATTGG-CGCGAAACA
* * * **
53998 GATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCGAAG-ATGCAGATCTT-TCTTCATGTATTGGCGCGAAACA
* * * * * ***
54042 GATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCGAAGAT-GCAGAT-CTTTCTTCATGTATTGG-CGCGAAACA
*** * **
54086 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTA
1 GATCGAAGATGCAGATCTT-TCTTCATGTATTGG-CGCGAAACA
* * * **
54130 GATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCGAAG-ATGCAGATCTT-TCTTCATGTATTGGCGCGAAACA
* * * * * ***
54174 GATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTG
1 GATCGAAGAT-GCAGAT-CTTTCTTCATGTATTGG-CGCGAAACA
*** * **
54218 GATCGAAGATGCAGATCTTGTCTTCCCATA-TGGTG-GCAAGTA
1 GATCGAAGATGCAGATCTT-TCTTCATGTATTGGCGCG-AAACA
* * **
54260 GATCGAAGAAAGCAGATCTTTCTTCATGTATTGGCGTGAAGTA
1 GATCGAAG-ATGCAGATCTTTCTTCATGTATTGGCGCGAAACA
*
54303 GATCGAAGATGCAGATC-TTCTTCCTGTATTTGGCAGCGAAACA
1 GATCGAAGATGCAGATCTTTCTTCATGTA-TTGGC-GCGAAACA
54346 GATCGAAGATGGCAGAT
1 GATCGAAGAT-GCAGAT
54363 TTTACTCCCT
Statistics
Matches: 406, Mismatches: 67, Indels: 50
0.78 0.13 0.10
Matches are distributed among these distances:
41 12 0.03
42 41 0.10
43 99 0.24
44 148 0.36
45 103 0.25
46 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
GATCGAAGATGCAGATCTTTCTTCATGTATTGGCGCGAAACA
Done.