Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003448.1 Hibiscus syriacus cultivar Beakdansim tig00007283_pilon, 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: 49264
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1151 original size:181 final size:182
Alignment explanation
Indices: 721--2729 Score: 2802
Period size: 182 Copynumber: 11.3 Consensus size: 182
711 TGCGTTAACT
** * * *
721 TTTTGTCATTTATAGATCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
786 TTTATAAAGTATCGACATTTTATTGGCGCTATAACTTATTCTCTTATT-AATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCTAAAAGTGTCG
* * *
850 ATACTTATAATAAATTATCGATACTTTCAACATATCCGGTAGCGTTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
903 TTTTGTCATTTCGAAATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
968 TTTATAAAGTATCGACACATTATTGACGCTATAACTTCTTCTCTTTTAAATTCTAAAATTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* * *
1033 TACTTATAATAAATTATCGTCAC-TTCAACATAACCGGTAGCGTTTTACATG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* ** *
1084 TTTTGTCATTTCGAGACCGGTTTTATCATATGATTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
1149 TTTATAAAGTATCGATACTTTATTGGCACTATAACTTCTTCCCTTTTAAAATT-TAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTT-AAATTCTAAAAGTGTCG
* *
1213 ATACTTATAATAAATTATCGACACTTTTAACATAACCGGTAGCGCTTTATCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
1266 TTTTGTTATTTCGAGACCGG-TTTGTC--ATTTTTACATGTTATATTG-TATTGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
1327 TTTATAAAGTATCGACACATTATTGGCGCTATAA-TTCTTCTCTTATAATTTC-AAAA--GTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* * *
1388 TAC-TATAATAAATTATCGACACTTTTAACATAATCGGTAGCGCTTTATCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
1439 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATAGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * * *
1504 TTTATAAAGTATCGACACTTTATTGGCGTTATAAC-TATTCTCTTTTAAATTCCAAAAATGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* * * *
1568 TACGTATAATAAATTATCGACATTTTCAACATAACCGATAGCGTTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
1620 TTTTGTCATTTCGAGACCGGTTTTATCATATTTTTATC-TGTTATATTGTTATGGATCGATACAT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTA-CATGTTATATTGTTATGGATCGATACAT
* *
1684 TTTTATTAAGTATCGACACTTTATTGGTGCTATAACTTCTTCTCTTTTAAATT-TCAAAAGTGTC
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCT-AAAAGTGTC
*
1748 GATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTG
129 GATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
1802 TTTTGTCATTTTC-AGACCGGTTTTATCATATTTTTACCTATTATATTGTTATGGATCGATATAT
1 TTTTGTCA-TTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACAT
* * * *
1866 TTTTATAAATTATCGACACTTTATTGGCGTTATAACTTTTTCTCTTTTAAATTC-CAAAG-GTCG
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCG
* * *
1929 ATA-TTAT-ATAAATTATCGACACTTTCAACATATCAGGTAGCGCTTTATCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * * *
1980 -TTTGTCATTTCGATACC-GTTTTTTCATA--TTTACCTGTTATATTGTTATGAATCGATACATA
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
2041 TTTATAAAATATCGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
* **
2106 TACTTATAATAAATTATCGATACTTTCAACATAACCGGTAAAGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
2158 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTAATAGATCGATACA-T
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
2222 TTTATAAAGTATCGACACGTTATTGGCGCTA-AA---CTTCTCTTTTAAATT-T-AAA--GTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
*
2279 TACTTATAA-AAATTATCGACACTTTCAACATAACCGGTAGTGC-TTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
2329 -TTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
2393 TTTATAAAGTATCGACACTTTATTGGCGTTATAAC-TCTTCTCTTTTAAATTCCAAAAGTATCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
*
2457 TA-TGTATAATAAATTA-CGACACTTTCAACATAACAGGTAGCGCTTTACCTG
131 TACT-TATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
2508 TTTTGTCATTTCGATACCGGTTTTGTCATATTTTTAC-TGTT-TATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* ** *
2571 TTTATAAAATATCGACACTTTATTGGCG-T-T-ACAACTTCTCTTTTAAATT-TCAAAAGTGTTG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCT-AAAAGTGTCG
*
2632 ATACTTATAATCAATTATCGACA-TTTCAACATAACCGGTAGCGCTTTA-CTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
2683 TTTTATTATTTCGAGA-CGGTTTCGTCATA-TTTTACCTGTTATATTGT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGT
2730 CGATTTTTAC
Statistics
Matches: 1649, Mismatches: 132, Indels: 99
0.88 0.07 0.05
Matches are distributed among these distances:
170 60 0.04
171 37 0.02
172 33 0.02
173 86 0.05
174 122 0.07
175 31 0.02
176 113 0.07
177 109 0.07
178 213 0.13
179 53 0.03
180 62 0.04
181 336 0.20
182 390 0.24
183 4 0.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:6456 original size:18 final size:18
Alignment explanation
Indices: 6429--6473 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
6419 GTTTGGATCA
*
6429 TCATCGTCATCGTCA-TCT
1 TCATCTTCATCGTCAGT-T
6447 TCATCTTCATCGTCAGTT
1 TCATCTTCATCGTCAGTT
6465 T-ATCTTCAT
1 TCATCTTCAT
6474 TGACCGCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 16 0.64
19 1 0.04
ACGTcount: A:0.18, C:0.29, G:0.09, T:0.44
Consensus pattern (18 bp):
TCATCTTCATCGTCAGTT
Found at i:9226 original size:4 final size:4
Alignment explanation
Indices: 9210--9246 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
9200 AATGTCCTTT
*
9210 CATA CATA TATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
9247 CAATCTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
CATA
Found at i:10252 original size:33 final size:33
Alignment explanation
Indices: 10206--10287 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
10196 TCGACTTCCT
* *
10206 TCCT-CCTCATTTCTTCCATCTCTTCTTCTTCC
1 TCCTCCCTCTTTTCTTCCATCTCTTCTTCCTCC
* *
10238 TCCTCCCTTTTTTCTTCCATTTCTTCTTCCTCC
1 TCCTCCCTCTTTTCTTCCATCTCTTCTTCCTCC
10271 TCCTCCCTCTTTTCTTC
1 TCCTCCCTCTTTTCTTC
10288 ATATTTTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 4 0.09
33 40 0.91
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.52
Consensus pattern (33 bp):
TCCTCCCTCTTTTCTTCCATCTCTTCTTCCTCC
Found at i:10597 original size:21 final size:21
Alignment explanation
Indices: 10573--10613 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10563 CTTATGCCTC
10573 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* *
10594 TCAAGTTTCTCTTCGACTCT
1 TCAAGTGTATCTTCGACTCT
10614 TGATTGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:12915 original size:20 final size:19
Alignment explanation
Indices: 12865--12920 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
12855 TCCGGTATCA
*
12865 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
12884 TTGATACATGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
12905 TTTTACCTGTTATATC
1 TTTTACCTGTTTTATC
12921 GTTGTTTGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:13209 original size:182 final size:181
Alignment explanation
Indices: 12832--13305 Score: 718
Period size: 182 Copynumber: 2.6 Consensus size: 181
12822 CGTACTTACG
* * *
12832 AAAGTATCGACACTTTTAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACATGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACATGTTT
*
12897 TATCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTGAAAGTATCGACACTTTA
*
12962 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 TAGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATAT
* * * *
13014 AAAGTTTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCA-GTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATA-CATGTT
* *
13078 TTATCATATTTTTACCTGTTATATCGTTGTTGATCAATATATTTTTTGAAAGTATCGACACTTTA
65 TTATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTA
*
13143 TAGGCGCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
130 TAGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATA-T
* * * **
13196 AAAGTACCGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATA-ATGATT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACATG-TT
* * *
13260 TTGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
13306 AATTTGGATC
Statistics
Matches: 264, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
180 1 0.00
181 83 0.31
182 178 0.67
183 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTGATACATGTTT
TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTAT
AGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATAT
Found at i:13771 original size:21 final size:21
Alignment explanation
Indices: 13742--13791 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13732 GCCTGCAAAT
13742 ATAA-AATAAAATAATTAATA
1 ATAATAATAAAATAATTAATA
* *
13762 ATAATAATAATATATTTAATA
1 ATAATAATAAAATAATTAATA
* *
13783 TTTATAATA
1 ATAATAATA
13792 TTTTTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATAATAAAATAATTAATA
Found at i:22439 original size:2 final size:2
Alignment explanation
Indices: 22386--22420 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22376 ATTCCTTCAC
22386 TA TA TA TA 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
22421 CACATATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23475 original size:10 final size:9
Alignment explanation
Indices: 23446--23472 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23436 GGCGGCAGCT
23446 CCTCAAAAA
1 CCTCAAAAA
23455 CCTCAAAAA
1 CCTCAAAAA
23464 CCTCAAAAA
1 CCTCAAAAA
23473 ACCCACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.11
Consensus pattern (9 bp):
CCTCAAAAA
Found at i:29101 original size:79 final size:78
Alignment explanation
Indices: 28961--29125 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 78
28951 CTAGAAATCG
** * * * * *
28961 ATGGACCTCGTGTTATATAGGACGCGAGGTCCATTGAAAAGACACGACTTTTAATTAGAATAATA
1 ATGGACCTCACGTTACACAGGACGCGAGGTACATTGAAAAGACACGACATTTAATTAGAATAAAA
29026 TCCAACATGTCAGA
66 TCCAACATG-CAGA
* * * *
29040 ATGGACCTCACGTTACACAGGACGCGAGGTACGTTGAAAA-ATCATGACATTTGATTTGAATAAA
1 ATGGACCTCACGTTACACAGGACGCGAGGTACATTGAAAAGA-CACGACATTTAATTAGAATAAA
*
29104 ATCCAATATGCAGA
65 ATCCAACATGCAGA
*
29118 AAGGACCT
1 ATGGACCT
29126 TGCAGTTTGT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
78 12 0.17
79 60 0.83
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (78 bp):
ATGGACCTCACGTTACACAGGACGCGAGGTACATTGAAAAGACACGACATTTAATTAGAATAAAA
TCCAACATGCAGA
Found at i:29540 original size:50 final size:50
Alignment explanation
Indices: 29481--29607 Score: 218
Period size: 50 Copynumber: 2.5 Consensus size: 50
29471 TCCTATCTAG
**
29481 CCCTCCTAGTCGCAATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
1 CCCTCCTAGTCGTGATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
*
29531 CCCTCCTAGTCGTGATGAAAAGTCAAACACGATAATATGGCTCTAACCAA
1 CCCTCCTAGTCGTGATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
*
29581 CCCTCCTAGTCATGATGAAAAGGCAAA
1 CCCTCCTAGTCGTGATGAAAAGGCAAA
29608 TTGGAGTGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (50 bp):
CCCTCCTAGTCGTGATGAAAAGGCAAACACGATAATATGGCTCTAACCAA
Found at i:32176 original size:430 final size:432
Alignment explanation
Indices: 31370--32232 Score: 1471
Period size: 430 Copynumber: 2.0 Consensus size: 432
31360 CTTTTACTTT
* *
31370 TTCATTATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTT
1 TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
* * *
31435 GTCTTTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCCTTTTCGTAAAAAATCTAACTC
66 ATCATTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
*
31500 TTTGGTTTCTTCGATATTGTATGTTTGACGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGGT
131 TTTGGTTTCTTCGATATTGTATGTTTGACGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGGC
* * * *
31565 GTTATTTTTTTCTTTTCTATGGTAATTTGTTAGGTGGATCACCTAACACTTCTTGAAAATCCTGT
196 GTTATTTTCTTCTTTTCGATGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTGT
* *
31630 AACAAAGATGAAAACACGCTAGGAAAATCCTTGCTAATGTTAGAAATCGAAACAATTAATTCCCT
261 AACAAAGATGAAAACACACTAGGAAAATCCTTGCTAATGTTAGAAATCAAAACAATTAATTCCCT
** *
31695 AAAGTGAACAAGGATGAAAGGTTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTGCGCTCACAC
326 AAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTACGCTCACAC
31760 ATTGATTTTGAGTCACTCTTTT-TT-TCACATTTAGGTTCAC
391 ATTGATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
31800 TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
1 TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
*
31865 ATCATTAAGATGGAATCCAGACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
66 ATCATTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
*
31930 TTTGGTTTCTTCGATATTGTATGTTT-ATCGAGGTGTGATGGAACCTTGAATTAGATTGGTTTGG
131 TTTGGTTTCTTCGATATTGTATGTTTGA-CGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGG
* *
31994 CGTTGTTTTCTTCTTTTCGGTGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTG
195 CGTTATTTTCTTCTTTTCGATGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTG
* * * *
32059 TAACAAAGATGAAAACACACTAGGCAAATCCTTGTTAATGTTAGAAATCAAAATAATTGATTCCC
260 TAACAAAGATGAAAACACACTAGGAAAATCCTTGCTAATGTTAGAAATCAAAACAATTAATTCCC
*
32124 TAAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTATGCTCACA
325 TAAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTACGCTCACA
*
32189 CATTTATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
390 CATTGATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
32232 T
1 T
32233 CACCACCCAT
Statistics
Matches: 405, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
429 1 0.00
430 385 0.95
431 2 0.00
432 17 0.04
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (432 bp):
TTCATCATTTACATGGATTTTCTGTGCACGAACTAAAGCTTGTGGAGTTGTTCAAATCATGTTTC
ATCATTAAGATGGAATCCAAACTAAGGCTTTCCTGGATGTAGCATTTTCGTAAAAAATCTAACTC
TTTGGTTTCTTCGATATTGTATGTTTGACGAGGTGTGATGAAACCTTGAATTAGATTGGTTTGGC
GTTATTTTCTTCTTTTCGATGGTAATTCGTTAGGTGGATCACATAACACTTCTTGAAAATCCTGT
AACAAAGATGAAAACACACTAGGAAAATCCTTGCTAATGTTAGAAATCAAAACAATTAATTCCCT
AAAGTGAACAAGGATGAAAGACTGTTTGTAAAGAAAGTTCTCTCTCAATTCTTTTACGCTCACAC
ATTGATTTTGAGTCACTCTTTTCTTCTCACATTTAGGTTCAC
Found at i:39347 original size:24 final size:24
Alignment explanation
Indices: 39315--39372 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
39305 AAAAGATTTT
*
39315 GACAGAATCACCAGTTTTGGTGTA
1 GACAGAATCACCAGTTTTGGTGCA
*
39339 GACAGAATCACCGGTTTTGGTGCA
1 GACAGAATCACCAGTTTTGGTGCA
*
39363 GCCAGAATCA
1 GACAGAATCA
39373 GGCAAAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (24 bp):
GACAGAATCACCAGTTTTGGTGCA
Found at i:44993 original size:32 final size:32
Alignment explanation
Indices: 44957--45048 Score: 157
Period size: 32 Copynumber: 2.9 Consensus size: 32
44947 AATAAATCAT
44957 ATTCTATAATCGAATGATCATAATCAAACAAC
1 ATTCTATAATCGAATGATCATAATCAAACAAC
44989 ATTCTATAATCGAATGATCATAATCAAACAAC
1 ATTCTATAATCGAATGATCATAATCAAACAAC
* * *
45021 ATTCGATAATCGAAGGATCATAGTCAAA
1 ATTCTATAATCGAATGATCATAATCAAA
45049 AATCATTTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (32 bp):
ATTCTATAATCGAATGATCATAATCAAACAAC
Done.