Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009702.1 Kokia drynarioides strain JFW-HI SEQ_124421, 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: 3068
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Found at i:817 original size:293 final size:289
Alignment explanation
Indices: 13--1189 Score: 1427
Period size: 293 Copynumber: 4.1 Consensus size: 289
3 CAATGTTGCA
* ** *
13 AATGTCTTGAAGAACCCTTCACTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCAC-TTCTCCT
1 AATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACATCCTCCT
* *
77 ATAAACAAAGAAAGTATAAAAATGATTTGTCAACTTGCTTCCTTT-AGGCTCCTTTCACAGCTTG
66 A-AAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA-GCTCCTTTCACAGCTTG
** * * * * **
141 TCCAACCACAACAATCCCTTCGGTGATTGGATACTACAAGCAACAAACACAAAGTGCAATTAGTG
129 TCCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAA-AAAAACCAAGAACAATTAGTG
* *
206 ATTGCCTAATATTTGCGAC-CATAATGAAAAAGAAACAATTTTGTGTTTACTGGAAATACCTTCC
193 ATTGCCTAATATTTGCTACTC-TAATGAAAAAGAAAC-ATTTTGTGTTTACTGGAACTACCTTCC
* * * *
270 CTTGCGTTGCTGCTCGTTCATTGACAAAGTTGCC
256 CTTGTGCTGCTGCTCATTCATTGACAAAGTTACC
* * * * * * *
304 AAAGTCTTGACGAACTATTCGGTTCTTTCCATCTACTGTTGCATTTCTCTGCTTCA-ATCCTCC-
1 AATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACATCCTCCT
* * * * * * *
367 AGAAAAAA-AAATTATAAAATTGGTTTGCCAACTTACTTCATTTGGGCTCC-TTCTACAGCTTG-
66 AAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTC-ACAGCTTGT
* * * * *
429 CGTAACCACAACTGTCCCTACGGTGATTGGTTTTTACAAGCAAAAAACACCAAGAGA-AATTAGT
130 C-CAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAA-ACCAAGA-ACAATTAGT
* *
493 GATTGCCTAATATTTGCTACTATAATGAAAAAGAAACATTTTTGTGTTTGCTGGAACTACCTTCC
192 GATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACA-TTTTGTGTTTACTGGAACTACCTTCC
558 CTTGTGCTGCTGCTCATTCATTGACAAAGTTACC
256 CTTGTGCTGCTGCTCATTCATTGACAAAGTTACC
* * *
592 AATGTCTTGATGAACTCTTCGGTTCCTTCCATCTGCAATTGCATTTTTCTGCTCCACAT-CTCCT
1 AATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACATCCTCCT
*
656 GAAAAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTTCTTTGAGCTCCTTTCACAGCTT
66 ---AAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTT
* * *
721 TTGCAACCACAACAGCCCCTTCGGAGATTGGTTTCTACAAGCAAAAATAACCAAGAACAATTAGT
128 GTCCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAA-AACCAAGAACAATTAGT
* *
786 GATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACAGTTTTGTGTTTACTGAAACTACCTTAC
192 GATTGCCTAATATTTGCTACTCTAATGAAAAAGAAACA-TTTTGTGTTTACTGGAACTACCTTCC
*
851 CTTGTGCTGCTGCTCATTCATTGACAAATTTACC
256 CTTGTGCTGCTGCTCATTCATTGACAAAGTTACC
*
885 AATATCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCAC-TCCTCCT
1 AATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACATCCTCCT
* * ** * *
949 GAAAACAAAGAAAGTATAAAATTGGCCTGTCAACTTGCTTCCTTTGAGCTCCTTTCACTGCTCGT
66 -AAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGT
* * *
1014 CCAACCACAACATCCCCTTCAGTGATTGGTTTCTACAAG-AAAAAAACACAAAGAGCAATTAGTG
130 CCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAAC-C-AAGAACAATTAGTG
* * * * *
1078 ATTGCCTAATATTTGTTACTAC-AATTAAAACGAAACATTTT-TG--T-CT-TAACTACCTTCTC
193 ATTGCCTAATATTTGCTACT-CTAATGAAAAAGAAACATTTTGTGTTTACTGGAACTACCTTCCC
* *
1137 TTGTGCTGCTGCTCATTCATTGACAATGTTCCC
257 TTGTGCTGCTGCTCATTCATTGACAAAGTTACC
* *
1170 AATGCCATGAAGAACTCTTC
1 AATGTCTTGAAGAACTCTTC
1190 AATGATTGGT
Statistics
Matches: 764, Mismatches: 100, Indels: 50
0.84 0.11 0.05
Matches are distributed among these distances:
285 57 0.07
286 2 0.00
287 9 0.01
288 227 0.30
289 12 0.02
290 11 0.01
291 187 0.24
292 10 0.01
293 245 0.32
294 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (289 bp):
AATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTGCTTCACATCCTCCT
AAAAAAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTC
CAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAAACCAAGAACAATTAGTGATT
GCCTAATATTTGCTACTCTAATGAAAAAGAAACATTTTGTGTTTACTGGAACTACCTTCCCTTGT
GCTGCTGCTCATTCATTGACAAAGTTACC
Found at i:1331 original size:150 final size:152
Alignment explanation
Indices: 1028--1340 Score: 452
Period size: 150 Copynumber: 2.0 Consensus size: 152
1018 CCACAACATC
* *
1028 CCCTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTG
1 CCCTTCAATGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTG
* *
1093 TTACTACAATTAAAACGAAACATTTTTGTCTTAACTACCTTCTCTTGTGCTGCTGCTCATTCATT
66 -T-CTAC-A-TAAAACGAAAAATATTTGTCTTAACTACCTTCTCTTGTGCTGCTGCTCATTCATT
1158 GACAATGTTCCCAATGCCATGAAGAA
127 GACAATGTTCCCAATGCCATGAAGAA
* * *
1184 CTCTTCAATGATTGGTTTGTACAAGAAAAAAACACAAAGGGCAATTAGTGATCGCCTAATATTTG
1 CCCTTCAATGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTG
* *
1249 -CTAC-TAAAACGAAAAATATTTGTGTTAACTACCTTC-CATTGTGCTGCTGCTCGTTCATTGAC
66 TCTACATAAAACGAAAAATATTTGTCTTAACTACCTTCTC-TTGTGCTGCTGCTCATTCATTGAC
* * *
1311 AATGTTGCCAATGTCTTGAAGAA
130 AATGTTCCCAATGCCATGAAGAA
1334 CCCTTCA
1 CCCTTCA
1341 GTTCTTTCCA
Statistics
Matches: 143, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
149 1 0.01
150 78 0.55
153 4 0.03
156 60 0.42
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (152 bp):
CCCTTCAATGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTG
TCTACATAAAACGAAAAATATTTGTCTTAACTACCTTCTCTTGTGCTGCTGCTCATTCATTGACA
ATGTTCCCAATGCCATGAAGAA
Found at i:1754 original size:290 final size:289
Alignment explanation
Indices: 1186--2491 Score: 1667
Period size: 290 Copynumber: 4.6 Consensus size: 289
1176 ATGAAGAACT
* * * * *
1186 CTTCAATGATTGGTTTGTACAAGAAAAAAACACAAAGGGCAATTAGTGATCGCCTAATA-TTT-G
1 CTTCAGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTTCG
* * * *
1249 --CTACT-AAAACGAAAAATATTTGTG--T--T--AACTACCTTCCATTGTGCTGCTGCTCGTTC
66 ACCTAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTTCC-TTGTGCTGCTGCTCGTTC
* * ** * *
1305 ATTGACAATGTTGCCAATGTCTTGAAGAACCCTTCAGTTCTTTCCATCTGCTATTGCATTTTTCT
130 ATTGACAAAGTTGCCAAAGTCTTGAAGAACTATTCGGTTCCTTCCATCTGCTATTGCATTTTTCT
*
1370 ACTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTC
195 GCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTC
*
1435 CTTTCACAGGTTGTGCAACCACAACAGCCC
260 CTTTCACAGCTTGTGCAACCACAACAGCCC
* * *
1465 CTTCGGTGATTGGTTTCTACAAGCAAAAAACAAAAAGTGCAATTAGTGATTGCCTAATATTTTCG
1 CTTCAGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTTCG
* * *
1530 ACCATAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTGCCTTCTCTTGTGCTGCTGGTCTTT
66 ACC-TAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTTC-CTTGTGCTGCTGCTCGTT
* * *
1595 CACTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTTCCTTCCATCTGCTGTTGCATTTTTC
129 CATTGACAAAGTTGCCAAAGTCTTGAAGAACTATTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * *
1660 TGCTTCACTTGTCCTGA-AAA-AAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT-GAG
194 TGCTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAG-G
*
1722 CTCCTTTTACAGCTTGTGCAACCACAACAGCCC
257 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * *
1755 CTTCAGTGATTGGTTTCTACAAGTAAAAATA-ACCAAGAGCAATTAGTGATTGCCTAATATTTGC
1 CTTCAGTGATTGGTTTCTACAAGCAAAAA-ACACAAAGAGCAATTAGTGATTGCCTAATATTTTC
* * * *
1819 TACTCTAATGAAAAAGAAACAGTTTTGTGTTTACTGAAACTACCTTACCTTGTGTTGCTGCTCGT
65 GAC-CTAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTT-CCTTGTGCTGCTGCTCGT
* * * *
1884 TCATTGACAAATTTACCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTT
128 TCATTGACAAAGTTGCCAAAGTCTTGAAGAACTATTCGGTTCCTTCCATCTGCTATTGCATTTTT
1949 CTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGC
193 CTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGC
* *
2014 TCCTTTCACAGTTTGTGCAACCACAACAACCC
258 TCCTTTCACAGCTTGTGCAACCACAACAGCCC
* * *
2046 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACAAAGTGCAATTAGTCATTGCCTAATATTTTCG
1 CTTCAGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTTCG
* *
2111 ACCATAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTTCTCTTGTGCTGCTGGTCTTT
66 ACC-TAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTTC-CTTGTGCTGCTGCTCGTT
* * * *
2176 CATTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTTCCTTCTATCTGCTGTTGCATATTTC
129 CATTGACAAAGTTGCCAAAGTCTTGAAGAACTATTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * *
2241 TGCTTCACTTGTCCTGA-AAA-TAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT-GAG
194 TGCTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAG-G
2303 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
257 CTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* *
2336 CTTCAGTGATTGGTTTCTACAAG-AAAAAGCCACAAAGAGCAATTAGAGATTGCCTAATA-TTT-
1 CTTCAGTGATTGGTTTCTACAAGCAAAAA-ACACAAAGAGCAATTAGTGATTGCCTAATATTTTC
* * * * *
2398 GTAACTACAATTAAAACGAAACATTTTT-T-TGT--T--AACTACCTTCCCTTGTGCTGCTGTTC
65 G-ACCT--AATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTT-CCTTGTGCTGCTGCTC
* * * *
2457 GTTCATTGAGAATGTTGCCAATGCCTTGAAGAACT
126 GTTCATTGACAAAGTTGCCAAAGTCTTGAAGAACT
2492 CTTCAGTGAT
Statistics
Matches: 899, Mismatches: 97, Indels: 57
0.85 0.09 0.05
Matches are distributed among these distances:
279 52 0.06
280 3 0.00
281 1 0.00
283 1 0.00
284 55 0.06
285 17 0.02
286 1 0.00
287 1 0.00
288 4 0.00
289 15 0.02
290 392 0.44
291 353 0.39
292 4 0.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (289 bp):
CTTCAGTGATTGGTTTCTACAAGCAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTTCG
ACCTAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACCTTCCTTGTGCTGCTGCTCGTTCA
TTGACAAAGTTGCCAAAGTCTTGAAGAACTATTCGGTTCCTTCCATCTGCTATTGCATTTTTCTG
CTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTCC
TTTCACAGCTTGTGCAACCACAACAGCCC
Found at i:2378 original size:581 final size:572
Alignment explanation
Indices: 1186--2498 Score: 2117
Period size: 581 Copynumber: 2.3 Consensus size: 572
1176 ATGAAGAACT
* * * *
1186 CTTCAATGATTGGTTTGTACAAGAAAAAAACACAAAGGGCAATTAGTGATCGCCTAATATTTGCT
1 CTTCAGTGATTGGTTTCTACAAG-AAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTGCT
*
1251 A--C--TAAAACGAAAAATATTTGTG--TTAACTACCTTCCATTGTGCTGCTGCTCGTTCATTGA
65 ACTCAATAAAACGAAACAT-TTTGTGTTTTAACTACCTTCC-TTGTGCTGCTGCTCGTTCATTGA
* *
1310 CAATGTTGCCAATGTCTTGAAGAACCCTTCAGTTCTTTCCATCTGCTATTGCATTTTTCTACTTC
128 CAATGTTGCCAATGTCTTGAAGAACTCTTCAGTTCCTTCCATCTGCTATTGCATTTTTCTACTTC
1375 ACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTCCTTTC
193 ACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTCCTTTC
*
1440 ACAGGTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAAAAAGTGC
258 ACAGGTTGTGCAACCACAACAACCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAAAAAGTGC
*
1505 AATTAGTGATTGCCTAATATTTTCGACCATAATGAAAAAGAAACATTTTTGTGTTTACTGCAACT
323 AATTAGTCATTGCCTAATATTTTCGACCATAATGAAAAAGAAACATTTTTGTGTTTACTGCAACT
*
1570 GCCTTCTCTTGTGCTGCTGGTCTTTCACTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTT
388 ACCTTCTCTTGTGCTGCTGGTCTTTCACTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTT
*
1635 CCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTGTCCTGAAAAAAAGAAAGTATAAAAATGGT
453 CCTTCCATCTGCTGTTGCATATTTCTGCTTCACTTGTCCTGAAAAAAAGAAAGTATAAAAATGGT
*
1700 TTGTCAACTTGCTTCCTTTGAGCTCCTTTTACAGCTTGTGCAACCACAACAGCCC
518 TTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
*
1755 CTTCAGTGATTGGTTTCTACAAGTAAAAATA-ACCAAGAGCAATTAGTGATTGCCTAATATTTGC
1 CTTCAGTGATTGGTTTCTACAAG-AAAAA-ACACAAAGAGCAATTAGTGATTGCCTAATATTTGC
* *
1819 TACTCTAATGAAAAAGAAACAGTTTTGTGTTTACTGAAACTACCTTACCTTGTGTTGCTGCTCGT
64 TACTC-AAT-AAAACGAAACA-TTTTGTGTTT--T--AACTACCTT-CCTTGTGCTGCTGCTCGT
* *
1884 TCATTGACAAAT-TTACCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTT
121 TCATTGAC-AATGTTGCCAATGTCTTGAAGAACTCTTCAGTTCCTTCCATCTGCTATTGCATTTT
*
1948 TCTGCTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGG
185 TCTACTTCACTTCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGG
*
2013 CTCCTTTCACAGTTTGTGCAACCACAACAACCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACA
250 CTCCTTTCACAGGTTGTGCAACCACAACAACCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACA
*
2078 CAAAGTGCAATTAGTCATTGCCTAATATTTTCGACCATAATGAAAAAGAAACATTTTTGTGTTTA
315 AAAAGTGCAATTAGTCATTGCCTAATATTTTCGACCATAATGAAAAAGAAACATTTTTGTGTTTA
*
2143 CTGCAACTACCTTCTCTTGTGCTGCTGGTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATT
380 CTGCAACTACCTTCTCTTGTGCTGCTGGTCTTTCACTGACAAAGTTGCCAAAGTCTTGAAGAATT
* *
2208 ATTCGGTTCCTTCTATCTGCTGTTGCATATTTCTGCTTCACTTGTCCTGAAAATAAGAAAGTATA
445 ATTCGGTTCCTTCCATCTGCTGTTGCATATTTCTGCTTCACTTGTCCTGAAAAAAAGAAAGTATA
2273 AAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
510 AAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
* *
2336 CTTCAGTGATTGGTTTCTACAAGAAAAAGCCACAAAGAGCAATTAGAGATTGCCTAATATTTG-T
1 CTTCAGTGATTGGTTTCTACAAGAAAAA-ACACAAAGAGCAATTAGTGATTGCCTAATATTTGCT
*
2400 AACTACAATTAAAACGAAACATTTT-T-TTGTTAACTACCTTCCCTTGTGCTGCTGTTCGTTCAT
65 -ACT-CAA-TAAAACGAAACATTTTGTGTT-TTAACTACCTT-CCTTGTGCTGCTGCTCGTTCAT
* *
2463 TGAGAATGTTGCCAATGCCTTGAAGAACTCTTCAGT
125 TGACAATGTTGCCAATGTCTTGAAGAACTCTTCAGT
2499 GATTGGTTTG
Statistics
Matches: 686, Mismatches: 36, Indels: 38
0.90 0.05 0.05
Matches are distributed among these distances:
569 58 0.08
570 1 0.00
571 1 0.00
574 4 0.01
575 72 0.10
576 1 0.00
577 2 0.00
578 2 0.00
579 3 0.00
580 10 0.01
581 525 0.77
582 7 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (572 bp):
CTTCAGTGATTGGTTTCTACAAGAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTGCTA
CTCAATAAAACGAAACATTTTGTGTTTTAACTACCTTCCTTGTGCTGCTGCTCGTTCATTGACAA
TGTTGCCAATGTCTTGAAGAACTCTTCAGTTCCTTCCATCTGCTATTGCATTTTTCTACTTCACT
TCTCCTATAAACAAAGAAAGTATAAAAATGATTTGACAACTTGCTTCCTTTAGGCTCCTTTCACA
GGTTGTGCAACCACAACAACCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAAAAAGTGCAAT
TAGTCATTGCCTAATATTTTCGACCATAATGAAAAAGAAACATTTTTGTGTTTACTGCAACTACC
TTCTCTTGTGCTGCTGGTCTTTCACTGACAAAGTTGCCAAAGTCTTGAAGAATTATTCGGTTCCT
TCCATCTGCTGTTGCATATTTCTGCTTCACTTGTCCTGAAAAAAAGAAAGTATAAAAATGGTTTG
TCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCC
Found at i:2627 original size:156 final size:156
Alignment explanation
Indices: 2334--2652 Score: 496
Period size: 156 Copynumber: 2.0 Consensus size: 156
2324 CCACAACAGC
* *
2334 CCCTTCAGTGATTGGTTTCTACAAGAAAAAGCCACAAAGAGCAATTAGAGATTGCCTAATATTTG
1 CCCTTCAGTGATTGGTTTCTACAAGAAAAAGACACAAAGAGCAATTAGAGATCGCCTAATATTTG
* * *
2399 TAACTACAATTAAAACGAAACATTTTTTTGTTAACTACCTTCCCTTGTGCTGCTGTTCGTTCATT
66 TAACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCCGCTGCTCGTTCATT
* * *
2464 GAGAATGTTGCCAATGCCTTGAAGAA
131 CACAATGTTGCAAATGCCTTGAAGAA
* * * *
2490 CTCTTCAGTGATTGGTTTGTTCAAGAAAAAGACACAAAGAGCAATTAGTGATCGCCTAATATTTG
1 CCCTTCAGTGATTGGTTTCTACAAGAAAAAGACACAAAGAGCAATTAGAGATCGCCTAATATTTG
*
2555 CT-ACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCCGCTGCTCTTTCAT
66 -TAACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCCGCTGCTCGTTCAT
*
2619 TCACAATGTTGCAAATGTCTTGAAGAA
130 TCACAATGTTGCAAATGCCTTGAAGAA
2646 CCCTTCA
1 CCCTTCA
2653 CTTCCTTCCA
Statistics
Matches: 147, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
156 146 0.99
157 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (156 bp):
CCCTTCAGTGATTGGTTTCTACAAGAAAAAGACACAAAGAGCAATTAGAGATCGCCTAATATTTG
TAACTACAATTAAAACGAAACATTTTTGTGTTAACTACCTTCCCTTGTGCCGCTGCTCGTTCATT
CACAATGTTGCAAATGCCTTGAAGAA
Done.