Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011689.1 Corchorus olitorius cultivar O-4 contig11722, 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: 4881
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Found at i:920 original size:463 final size:461
Alignment explanation
Indices: 1--1271 Score: 2040
Period size: 463 Copynumber: 2.7 Consensus size: 461
* * * *
1 TTCCATTATTTATGGACTAACTGTAATCATTTTGGTGAGACTTAGTCCCACTTTGAAGTTTTTAG
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGA-AATTAGT-CCACTGTGAAGTTTTTAG
* * * ** * *
66 CTCGTTTAGATCACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGAATCGTCTTC
64 CTCGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTC
* *
131 GATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTACAATCATTTTTGATGA
129 GATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCA-TTTTGGTGA
* * *
196 GATTAGTGTCATTGTGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCATATCGGGGCC
193 GATTA--GTCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCC
**
261 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT
256 CATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT
326 GGACTAACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCTCATTTGGAACACT
321 GGACTAACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCTCATTTGGAACACT
*
391 TCTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTTTTCGATTTGCCAAACCTC
386 TCTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTC
456 AATGCTTTTCT
451 AATGCTTTTCT
* *
467 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCGCTGTGAAGTTTTTAGCT
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAAATTAGTCCACTGTGAAGTTTTTAGCT
532 CGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
66 CGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
* * *
597 TTTGGCATACCTCAATGCTTTTCTTTCCATTATTTATGGACTAACTGTAATCATTTTGGTTGAGA
131 TTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGG-TGAGA
* *
662 TTAGTCAACTGTGAAGTTTTTAGCTCGTTTGGAAAACTTGTTATTTTGGGCCTATCGGGGCCCAT
195 TTAGTC-ACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCAT
* * * * *
727 TTGTGACATATTGATTCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCAGTGTTTATGGA
259 TAGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGA
*
792 CTAACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGT
324 CTAACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCTCATTTGGAACACTTCT
*
857 TATTTTTGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAAT
389 TATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAAT
922 GCTTTTCT
454 GCTTTTCT
* * * * * *
930 TTCCATTGTTCAGGGAATAACTATAATCATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCT
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAAATTAGTCCACTGTGAAGTTTTTAGCT
*
995 CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
66 CGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
*
1060 TTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGAT
131 TTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGAT
*
1125 TAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATT
196 TAGT-CACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATT
* * *
1190 AGTGTCGTTTTGAATCGTCTTCGATTCGGCAAACC-CTAATGCTTTTCTTTTCATTGTTTATGGA
260 AGTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTC-AATGCTTTTCTTTCCATTGTTTATGGA
*
1254 CTAACTATAATCATTTTG
324 CTAACTACAATCATTTTG
1272 GATTTTGGGC
Statistics
Matches: 743, Mismatches: 58, Indels: 12
0.91 0.07 0.01
Matches are distributed among these distances:
461 1 0.00
462 140 0.19
463 428 0.58
464 133 0.18
465 6 0.01
466 35 0.05
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (461 bp):
TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAAATTAGTCCACTGTGAAGTTTTTAGCT
CGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
TTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGAT
TAGTCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTA
GTGACGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACT
AACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCTCATTTGGAACACTTCTTA
TTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGC
TTTTCT
Found at i:1233 original size:617 final size:620
Alignment explanation
Indices: 1--1272 Score: 2223
Period size: 617 Copynumber: 2.1 Consensus size: 620
* *
1 TTCCATTATTTATGGACTAACTGTAATCATTTTGGTGAGACTTAGTCCCACTTTGAAGTTTTTAG
1 TTCCATTATTTATGGACTAACTGTAATCATTTTGGTGAGACTTAGTCCAACTGTGAAGTTTTTAG
**
66 CTCGTTTAGATCACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGAATCGTCTTC
66 CTCGTTTAGAAAACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGAATCGTCTTC
*
131 GATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGACTAACTACAATCATTTTTGATGA
131 GATTTGGCAAACCTCAATGCTTTTCTTTCCAGTGTTTATGGACTAACTACAATCATTTTTGATGA
196 GATTAGTGTCATTGTGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCATATCGGGGCC
196 GATTAGTGTCATTGTGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCATATCGGGGCC
* * *
261 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTAT
261 CATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTCTTTCCATTGTTCAG
* *
326 GGACTAACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCTCATTTGGAACACT
326 GGAATAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACT
*
391 TCTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTTTTCGATTTGCCAAACCTC
391 TCTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTC
*
456 AATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCGCTGTGA
456 AATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCACTGTGA
* *
521 AGTTTTTAGCTCGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGA
521 AGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTTCCGTTTTGA
* *
586 ATCGTCTTCGATTTGGCATACCTCAATGCTTTTCT
586 ATCGTCTTCGATTCGGCAAACCTCAATGCTTTTCT
621 TTCCATTATTTATGGACTAACTGTAATCATTTTGGTTGAGA-TTAGT-CAACTGTGAAGTTTTTA
1 TTCCATTATTTATGGACTAACTGTAATCATTTTGG-TGAGACTTAGTCCAACTGTGAAGTTTTTA
* *
684 GCTCGTTTGGAAAACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGATTCGTCTT
65 GCTCGTTTAGAAAACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGAATCGTCTT
749 CGATTTGGCAAACCTCAATGCTTTTCTTTCCAGTGTTTATGGACTAACTACAATCA-TTTTGATG
130 CGATTTGGCAAACCTCAATGCTTTTCTTTCCAGTGTTTATGGACTAACTACAATCATTTTTGATG
* * *
813 AGATTAGTG-CATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTTGGCCTATCGGGGC
195 AGATTAGTGTCATTGTGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCATATCGGGGC
877 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTCTTTCCATTGTTCA
260 CCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTCTTTCCATTGTTCA
*
942 GGGAATAACTATAATCATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACAC
325 GGGAATAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACAC
* *
1007 TTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCT
390 TTCTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCT
*
1072 CAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTG
455 CAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCACTGTG
1137 AAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGT-CGTTTT
520 AAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGT-TCCGTTTT
1201 GAATCGTCTTCGATTCGGCAAACC-CTAATGCTTTTCT
584 GAATCGTCTTCGATTCGGCAAACCTC-AATGCTTTTCT
* * *
1238 TTTCATTGTTTATGGACTAACTATAATCATTTTGG
1 TTCCATTATTTATGGACTAACTGTAATCATTTTGG
1273 ATTTTGGGCC
Statistics
Matches: 621, Mismatches: 28, Indels: 9
0.94 0.04 0.01
Matches are distributed among these distances:
616 1 0.00
617 426 0.69
618 18 0.03
619 131 0.21
620 40 0.06
621 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (620 bp):
TTCCATTATTTATGGACTAACTGTAATCATTTTGGTGAGACTTAGTCCAACTGTGAAGTTTTTAG
CTCGTTTAGAAAACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGAATCGTCTTC
GATTTGGCAAACCTCAATGCTTTTCTTTCCAGTGTTTATGGACTAACTACAATCATTTTTGATGA
GATTAGTGTCATTGTGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCATATCGGGGCC
CATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATGCTTTTCTTTCCATTGTTCAG
GGAATAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACT
TCTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTC
AATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCACTGTGA
AGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTTCCGTTTTGA
ATCGTCTTCGATTCGGCAAACCTCAATGCTTTTCT
Found at i:1272 original size:154 final size:154
Alignment explanation
Indices: 1--1272 Score: 1963
Period size: 154 Copynumber: 8.2 Consensus size: 154
* * *
1 TTCCATTATTTATGGACTAACTGTAATCATTTTGGTGAGACTTAGTCCCACTTTGAAGTTTTTAG
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGA-TTAGT-CCACTGTGAAGTTTTTAG
* * * * ** * *
66 CTCGTTTAGATCACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGAATCGTCTTC
64 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTC
131 GATTTGGCAAACCTCAATGCTTTTCT
129 GATTTGGCAAACCTCAATGCTTTTCT
* * * *
157 TTCCATTGTTTATGGACTAACTACAATCATTTTTGATGAGATTAGTGTCATTGTGAAGTTTTTAG
1 TTCCATTGTTTATGGACTAACTATAATCA-TTTTGGTGAGATTAGT-CCACTGTGAAGTTTTTAG
* *
222 CTCATTTGGAACACTTCTTATTTTGGGCATATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTC
64 CTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTC
287 GATTTGGCAAACCTCAATGCTTTTCT
129 GATTTGGCAAACCTCAATGCTTTTCT
* * * *
313 TTCCATTGTTTATGGACTAACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCT
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
* *
378 CATTTGGAACACTTCTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTTTTCGA
66 CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
*
443 TTTGCCAAACCTCAATGCTTTTCT
131 TTTGGCAAACCTCAATGCTTTTCT
* * *
467 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAAATTAGTCCGCTGTGAAGTTTTTAGCT
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
*
532 CGTTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
66 CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
*
597 TTTGGCATACCTCAATGCTTTTCT
131 TTTGGCAAACCTCAATGCTTTTCT
* * *
621 TTCCATTATTTATGGACTAACTGTAATCATTTTGGTTGAGATTAGTCAACTGTGAAGTTTTTAGC
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGG-TGAGATTAGTCCACTGTGAAGTTTTTAGC
* * * ** * * *
686 TCGTTTGGAAAACTTGTTATTTTGGGCCTATCGGGGCCCATTTGTGACATATTGATTCGTCTTCG
65 TCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCG
751 ATTTGGCAAACCTCAATGCTTTTCT
130 ATTTGGCAAACCTCAATGCTTTTCT
* * * * *
776 TTCCAGTGTTTATGGACTAACTACAATCATTTTGATGAGATTAGTGCATTGTGAAGTTTTTAGCT
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
*
841 CATTTGGAACACTTGTTATTTTTGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
66 CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
*
906 TTTGCCAAACCTCAATGCTTTTCT
131 TTTGGCAAACCTCAATGCTTTTCT
* * * * *
930 TTCCATTGTTCAGGGAATAACTATAATCATTTTGATGAGATTAGTCCATTGTGAAGTTTTTAGCT
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
995 CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
66 CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
1060 TTTGGCAAACCTCAATGCTTTTCT
131 TTTGGCAAACCTCAATGCTTTTCT
*
1084 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
*
1149 CATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGT-CGTTTTGAATCGTCTTCG
66 CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGT-TCCGTTTTGAATCGTCTTCG
*
1213 ATTCGGCAAACC-CTAATGCTTTTCT
130 ATTTGGCAAACCTC-AATGCTTTTCT
*
1238 TTTCATTGTTTATGGACTAACTATAATCATTTTGG
1 TTCCATTGTTTATGGACTAACTATAATCATTTTGG
1273 ATTTTGGGCC
Statistics
Matches: 1028, Mismatches: 84, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
153 1 0.00
154 706 0.69
155 155 0.15
156 156 0.15
157 10 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (154 bp):
TTCCATTGTTTATGGACTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
CATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGA
TTTGGCAAACCTCAATGCTTTTCT
Found at i:1352 original size:107 final size:107
Alignment explanation
Indices: 1166--1378 Score: 331
Period size: 107 Copynumber: 2.0 Consensus size: 107
1156 AACACTTGTT
*
1166 ATTTTGGGCCTATCGAGGCCCATTAGTGTCGTTTTGAATCGTCTTCGATTCGGCAAACCCTAATG
1 ATTTTGGGCCTATCGAGGCCCATTAGTGTCGTTTTGAATCGTCTTCAATTCGGCAAACCCTAATG
* * * *
1231 CTTTTCTTTTCATTGTTTATGGACTAACTATAATCATTTTGG
66 CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGG
* *
1273 ATTTTGGGCCTATCGGGGCCCATTAGT-TCCGTTTTGAATCGTCTTCAATTTGGCAAA-CCTCAA
1 ATTTTGGGCCTATCGAGGCCCATTAGTGT-CGTTTTGAATCGTCTTCAATTCGGCAAACCCT-AA
1336 TGCTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTG
64 TGCTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTG
1379 ATGAGATTAG
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
106 4 0.04
107 93 0.96
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (107 bp):
ATTTTGGGCCTATCGAGGCCCATTAGTGTCGTTTTGAATCGTCTTCAATTCGGCAAACCCTAATG
CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGG
Found at i:1476 original size:261 final size:261
Alignment explanation
Indices: 1012--1529 Score: 887
Period size: 261 Copynumber: 2.0 Consensus size: 261
1002 AACACTTGTT
*
1012 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATG
1 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGGCAAACCTCAATG
* * * * *
1077 CTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTT
66 CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGATGAGATTAGTCCACTGTGAAGTT
1142 TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGTCGTTTTGAATCG
131 TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGTCGTTTTGAATCG
* *
1207 TCTTCGATTCGGCAAACC-CTAATGCTTTTCTTTTCATTGTTTATGGACTAACTATAATCATTTT
196 TCTTCGATTCGGCAAACCTC-AATGCTTTTATTTCCATTGTTTATGGACTAACTATAATCATTTT
1271 GG
260 GG
1273 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGGCAAACCTCAATG
1 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGGCAAACCTCAATG
*
1338 CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTT
66 CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGATGAGATTAGTCCACTGTGAAGTT
* *
1403 TTTAGGTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGT-TCCGTTTTGAATC
131 TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGT-CGTTTTGAATC
* *
1467 GTCTTCGATTTGGCAAACCTCAATGCTTTTATTTCCATTGTTTATGGCCTAACTATAATCATT
195 GTCTTCGATTCGGCAAACCTCAATGCTTTTATTTCCATTGTTTATGGACTAACTATAATCATT
1530 GTGGTGAAAT
Statistics
Matches: 242, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
260 1 0.00
261 240 0.99
262 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (261 bp):
ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGGCAAACCTCAATG
CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGATGAGATTAGTCCACTGTGAAGTT
TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAGGCCCATTAGTGTCGTTTTGAATCG
TCTTCGATTCGGCAAACCTCAATGCTTTTATTTCCATTGTTTATGGACTAACTATAATCATTTTG
G
Found at i:1554 original size:154 final size:154
Alignment explanation
Indices: 1273--1758 Score: 801
Period size: 154 Copynumber: 3.2 Consensus size: 154
1263 ATCATTTTGG
*
1273 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGGCAAACCTCAATG
1 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATG
* * * * * *
1338 CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTT
66 CTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTT
* *
1403 TTTAGGTCATTTGGAACACTTGTT
131 TTTAGCTCGTTTGGAACACTTGTT
1427 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATG
1 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATG
* * * * *
1492 CTTTTATTTCCATTGTTTATGGCCTAACTATAATCATTGTGGTGAAATTAGTCCGCTATGAAGTT
66 CTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTT
*
1557 TTTAGCTCGTTTGGAACACTTCTT
131 TTTAGCTCGTTTGGAACACTTGTT
*
1581 ATTTTGGGCCTATCGGGGCCCATTAGTTCCATTTTGAATCGTCTTCGATTTGGCAAACCTCAATG
1 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATG
*
1646 CATTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTT
66 CTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTT
1711 TTTAGCTCGTTTGGAACACTTGTT
131 TTTAGCTCGTTTGGAACACTTGTT
**
1735 ATTTTGGGCCTATCAAGGCCCATT
1 ATTTTGGGCCTATCGGGGCCCATT
1759 TGTGACATAT
Statistics
Matches: 307, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 307 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (154 bp):
ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAAACCTCAATG
CTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTT
TTTAGCTCGTTTGGAACACTTGTT
Found at i:1638 original size:415 final size:415
Alignment explanation
Indices: 858--1687 Score: 1457
Period size: 415 Copynumber: 2.0 Consensus size: 415
848 AACACTTGTT
* *
858 ATTTTTGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGCCAAACCTCAATG
1 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGCCAAACCTCAATG
*
923 CTTTTCTTTCCATTGTTCAGGGAATAACTATAATCATTTTGATGAGATTAGTCCATTGTGAAGTT
66 CTTTTCTTTCCATTGTTCAGGGAATAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTT
988 TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCG
131 TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCG
* *
1053 TCTTCGATTTGGCAAACCTCAATGCTTTTCTTTCCATTGTTTATGGCCTAACTATAATCATTTTG
196 TCTTCGATTTGGCAAACCTCAATGCTTTTATTTCCATTGTTTATGGCCTAACTATAATCATTGTG
* * *
1118 GTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGAG
261 GTGAAATTAGTCCACTATGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCCTATCGAG
* * *
1183 GCCCATTAGTGTCGTTTTGAATCGTCTTCGATTCGGCAAACC-CTAATGCTTTTCTTTTCATTGT
326 GCCCATTAGTGTCATTTTGAATCGTCTTCGATTCGGCAAACCTC-AATGCATTTCTTTCCATTGT
1247 TTATGGACTAACTATAATCATTTTGG
390 TTATGGACTAACTATAATCATTTTGG
*
1273 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGGCAAACCTCAATG
1 ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGCCAAACCTCAATG
*
1338 CTTTTCTTTCCATTGTTCAGGGACTAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTT
66 CTTTTCTTTCCATTGTTCAGGGAATAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTT
*
1403 TTTAGGTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCG
131 TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCG
1468 TCTTCGATTTGGCAAACCTCAATGCTTTTATTTCCATTGTTTATGGCCTAACTATAATCATTGTG
196 TCTTCGATTTGGCAAACCTCAATGCTTTTATTTCCATTGTTTATGGCCTAACTATAATCATTGTG
* * *
1533 GTGAAATTAGTCCGCTATGAAGTTTTTAGCTCGTTTGGAACACTTCTTATTTTGGGCCTATCGGG
261 GTGAAATTAGTCCACTATGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCCTATCGAG
*
1598 GCCCATTAGT-TCCATTTTGAATCGTCTTCGATTTGGCAAACCTCAATGCATTTCTTTCCATTGT
326 GCCCATTAGTGT-CATTTTGAATCGTCTTCGATTCGGCAAACCTCAATGCATTTCTTTCCATTGT
*
1662 TTATGGCCTAACTATAATCATTTTGG
390 TTATGGACTAACTATAATCATTTTGG
1688 TGAGATTAGT
Statistics
Matches: 394, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
414 1 0.00
415 392 0.99
416 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (415 bp):
ATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCAATTTGCCAAACCTCAATG
CTTTTCTTTCCATTGTTCAGGGAATAACTACAATCATTTTGATGAGATTAGTCCATTGTGAAGTT
TTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCG
TCTTCGATTTGGCAAACCTCAATGCTTTTATTTCCATTGTTTATGGCCTAACTATAATCATTGTG
GTGAAATTAGTCCACTATGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCCTATCGAG
GCCCATTAGTGTCATTTTGAATCGTCTTCGATTCGGCAAACCTCAATGCATTTCTTTCCATTGTT
TATGGACTAACTATAATCATTTTGG
Done.