Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006325.1 Hibiscus syriacus cultivar Beakdansim tig00015115_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: 63107
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Found at i:5682 original size:16 final size:16
Alignment explanation
Indices: 5661--5701 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
5651 ACGGGGGCAG
5661 CAGATTCTGCACAAAA
1 CAGATTCTGCACAAAA
5677 CAGATTCTGCACAAAA
1 CAGATTCTGCACAAAA
5693 CAGATTCTG
1 CAGATTCTG
5702 TCGGTCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (16 bp):
CAGATTCTGCACAAAA
Found at i:6846 original size:36 final size:36
Alignment explanation
Indices: 6805--6943 Score: 224
Period size: 36 Copynumber: 3.9 Consensus size: 36
6795 ATTTATCCAT
6805 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
6841 TATCAGCTTTGGTACATTCGCGTATCAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
6877 TATCAGCTTTGACACATTCGTGTATTAATGTTATCA
1 TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
* *
6913 TATTAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGATACATTCGTGTATCAATGT
6944 CCAGCATTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 93 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.42
Consensus pattern (36 bp):
TATCAGCTTTGATACATTCGTGTATCAATGTTATCA
Found at i:8217 original size:26 final size:26
Alignment explanation
Indices: 8183--8238 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
8173 GCCAGGAGAC
8183 TGCTAAAGCAGGGAGCAATAATTGCT
1 TGCTAAAGCAGGGAGCAATAATTGCT
*
8209 TGCTGAAGCAGGGAGCAATAATTGCT
1 TGCTAAAGCAGGGAGCAATAATTGCT
8235 TGCT
1 TGCT
8239 TAACATAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (26 bp):
TGCTAAAGCAGGGAGCAATAATTGCT
Found at i:43808 original size:22 final size:22
Alignment explanation
Indices: 43780--43823 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
43770 TGCAGTGAAA
43780 AGGTATAGAGTTGTCATGTCCC
1 AGGTATAGAGTTGTCATGTCCC
43802 AGGTATAGAGTTGTCATGTCCC
1 AGGTATAGAGTTGTCATGTCCC
43824 CTAAACCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (22 bp):
AGGTATAGAGTTGTCATGTCCC
Found at i:44996 original size:145 final size:140
Alignment explanation
Indices: 44682--45021 Score: 446
Period size: 137 Copynumber: 2.4 Consensus size: 140
44672 TCCTGATTGT
44682 AAAGCATAGTCATAGCAG-TAGTGATATAGTGATTATGGTAAGTGTTAGTTCAATCGAATAATCG
1 AAAGCATAGTCATAGCAGTTAGTGATATAGTGATTATGGTAAGTGTTAGTTCAATCGAATAATCG
* * *
44746 AAACACATTTAGTACCCAACTATCATTTGTGTTCTATTTTGGTCATTCAATTATTTTCTTTTCTA
66 ------ATTTAGTACCCAACTATCATTTGTGTTCTATTTTGGTCATTCAACTATTTTATTTTCAA
*
44811 AACCATACCGATCGTA
125 AACCACACCGATCGTA
*
44827 AAAGCATAGTCATAGCAGTT-GTGATATAGTGATTGTGGTAAGTGTTAGTTCAATC-AA-ACAT-
1 AAAGCATAGTCATAGCAGTTAGTGATATAGTGATTATGGTAAGTGTTAGTTCAATCGAATA-ATC
* * *
44888 G-TTTAGTACCCAACTATCGTTTTTGTTCTATTTTGGTCATTCAACTATTTTATGTTTCAAAATC
65 GATTTAGTACCCAACTATCATTTGTGTTCTATTTTGGTCATTCAACTATTTTAT-TTTCAAAACC
44952 ACACCTGATCGT-
129 ACACC-GATCGTA
*
44964 AAAGCATAGTCATAGCAGTT-GTGATATAGTGATTATGGTAAGGGTTAGTT-AACTCGAA
1 AAAGCATAGTCATAGCAGTTAGTGATATAGTGATTATGGTAAGTGTTAGTTCAA-TCGAA
45022 CAATGAAATA
Statistics
Matches: 179, Mismatches: 10, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
136 50 0.28
137 62 0.35
138 8 0.04
143 2 0.01
144 4 0.02
145 52 0.29
146 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (140 bp):
AAAGCATAGTCATAGCAGTTAGTGATATAGTGATTATGGTAAGTGTTAGTTCAATCGAATAATCG
ATTTAGTACCCAACTATCATTTGTGTTCTATTTTGGTCATTCAACTATTTTATTTTCAAAACCAC
ACCGATCGTA
Found at i:50723 original size:20 final size:20
Alignment explanation
Indices: 50697--50813 Score: 180
Period size: 20 Copynumber: 5.8 Consensus size: 20
50687 GTTGCAGCCT
*
50697 GGGTGCACGGATGCACAGCA
1 GGGTGCATGGATGCACAGCA
*
50717 AGGTGCATGGATGCACAGCA
1 GGGTGCATGGATGCACAGCA
*
50737 GGGGTGCATGGATGCACAACA
1 -GGGTGCATGGATGCACAGCA
*
50758 GGGTGCATGGATGCACAACA
1 GGGTGCATGGATGCACAGCA
50778 GGGTGCATGGATGCACAGCA
1 GGGTGCATGGATGCACAGCA
*
50798 GGGTGCATCGATGCAC
1 GGGTGCATGGATGCAC
50814 TAATTACATT
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 72 0.80
21 18 0.20
ACGTcount: A:0.26, C:0.21, G:0.38, T:0.15
Consensus pattern (20 bp):
GGGTGCATGGATGCACAGCA
Found at i:50754 original size:41 final size:40
Alignment explanation
Indices: 50697--50813 Score: 180
Period size: 41 Copynumber: 2.9 Consensus size: 40
50687 GTTGCAGCCT
* * *
50697 GGGTGCACGGATGCACAGCAAGGTGCATGGATGCACAGCA
1 GGGTGCATGGATGCACAGCAGGGTGCATGGATGCACAACA
*
50737 GGGGTGCATGGATGCACAACAGGGTGCATGGATGCACAACA
1 -GGGTGCATGGATGCACAGCAGGGTGCATGGATGCACAACA
*
50778 GGGTGCATGGATGCACAGCAGGGTGCATCGATGCAC
1 GGGTGCATGGATGCACAGCAGGGTGCATGGATGCAC
50814 TAATTACATT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 34 0.49
41 36 0.51
ACGTcount: A:0.26, C:0.21, G:0.38, T:0.15
Consensus pattern (40 bp):
GGGTGCATGGATGCACAGCAGGGTGCATGGATGCACAACA
Found at i:50792 original size:61 final size:60
Alignment explanation
Indices: 50697--50813 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 60
50687 GTTGCAGCCT
* *
50697 GGGTGCACGGATGCACAGCAAGGTGCATGGATGCACAGCAGGGGTGCATGGATGCACAACA
1 GGGTGCACGGATGCACAACAAGGTGCATGGATGCACAGCA-GGGTGCATCGATGCACAACA
* *
50758 GGGTGCATGGATGCACAACAGGGTGCATGGATGCACAGCAGGGTGCATCGATGCAC
1 GGGTGCACGGATGCACAACAAGGTGCATGGATGCACAGCAGGGTGCATCGATGCAC
50814 TAATTACATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 15 0.29
61 37 0.71
ACGTcount: A:0.26, C:0.21, G:0.38, T:0.15
Consensus pattern (60 bp):
GGGTGCACGGATGCACAACAAGGTGCATGGATGCACAGCAGGGTGCATCGATGCACAACA
Found at i:54303 original size:19 final size:20
Alignment explanation
Indices: 54267--54313 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
54257 TGAGTGCAAG
54267 GATGCACTACATGGTGCATC
1 GATGCACTACATGGTGCATC
* *
54287 GATGCACTGCA-GGTGCATG
1 GATGCACTACATGGTGCATC
54306 GATGCACT
1 GATGCACT
54314 TTGACACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (20 bp):
GATGCACTACATGGTGCATC
Found at i:56283 original size:924 final size:914
Alignment explanation
Indices: 54458--58396 Score: 6113
Period size: 917 Copynumber: 4.3 Consensus size: 914
54448 TAATTCAACA
* * *
54458 AAGAATATGATATTTTATCCTCATTAATATAA-TGAGTACCTTATATTTGTAAATGTTATTTTAC
1 AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
* * *
54522 CCAGAGGACTTGGATTAAAGCAGTTGCGTCTACAAAATTAGCCAAGTTTTCCTCCTATC-AGTAA
66 CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCCAAATTTTCCTCCTA-CAAGTAA
* *
54586 TTAATATTGGATATATTTCCAGTCTTCCTCATTTTTGCATGAAGTTCATGCAGTACAGGGTAAAT
130 TTAGTATTGGATATATTTCCAGCCTTCCTCATTTTTGCATGAAGTTCATGCAGTACAGGGTAAAT
* * * * * *
54651 AAGTTTGGCATGAGAATTATATTTGGCACTAACACAAAACACATGGAAGTTATTCTCTAGTTC--
195 AAGTTCGGCATGAGAATGAGATTTGGCACCAGCACAAAACACATGGAACTTATTCTCTAGTTCTA
* *
54714 T--A--T----CCAGATACTTGTGAGCAAAATTACACGGGACTCGGATGACATTTCGACATTGGG
260 TCCAGTTGCAACCAGATACTTGTGAACAAAATTACACGGGACTCGGATGACATCTCGACATTGGG
*
54771 AATTTTCATTCAGGAAGCACGTGTTGTTTTTTCAAACTAATCCAAGATTCCACATTAGTTATATC
325 AATTTTCATTCAGGAAGCACGTGTTG-TTTTTCAAACTAATCCTAGATTCCACATTAGTTATATC
* * *
54836 AATCGTGATTGTAATCATGTGGCTCATGCTCACGCTAGTTGGGTCAGTTG-TTCTGATAGTGCAT
389 AATCGTGATTGTAATCATGTGGCTCATGCTCTCGCTAGCTGGGCCAGTTGTTTCTGATAGTGCAT
* *
54900 TGTTCTTTGATTCGGTTTGTCCCGATATCATTGTTAGAGACATTCATAAAGATGTAATTACTTCT
454 TGTTCTTTGATTCGGTTTGTCCCGATATCATTGCTAGAGACATTCAAAAAGATGTAATTACTTCT
** * *
54965 TGATTAATGAAATTTTGGGCACTATTTTCCCCTTATTAAGATTTTAAGAGGTTTTTAATGAGGTC
519 TGATTAATGAAATTTTGGGCAC--TTTTCCCCTTATTAAGATTAGAAGGGGTTTTTAATGAGGCC
* * *
55030 CGCATTA-TTTAAAAAAAAATCCAACTGCAACTAGGTTGCTTCTTTAATCCCTTATCCTTTATTT
582 CACATTATTTTAAAAAAAAATCCAACTGCAACTAGGCTGATTCTTTAATCCCTTATCCTTTATTT
* *
55094 TTAACCTTATCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAATAATAA
647 TCAACCTTACCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAATAATAA
*
55159 AAATAAAATAAATTATAAATTTATTTAATAAATTTAGGGACCAAATTGTAAGTTTTCAGAACTTG
712 AAATAAAATAAAATATAAATTTATTTAATAAATTTAGGGACCAAATTGTAAGTTTTCAGAACTTG
* *
55224 CATCACGTTTTAGCATGTGCAAAGATTTGTGTAATTAATTACTAGCTTCTTATGTAGACTTTAAT
777 CATCCCGTTTTAGCATGTGCAAAGATTTGTGTAATTAATTACTAGCTTCTGATGTAGACTTTAAT
*
55289 TAATTTGAATGTATAATTTCGA-CTTTAATCAAGATTTGGCTATTATCATTAATATAACTGGCTC
842 TAATTTGAATGTATAATTTC-ATCTTCAATCAAGATTTGGCTATTATCATTAATATAACTGGCTC
55353 TATCTATAAC
906 -ATCTATAAC
* * *
55363 AAGAATATAATATTTTATCCTCATTAATATAACTAAGTATCTTTTATTTATAAATGTTGTTTTAC
1 AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
55428 CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCCAAATTTTCCTCCTACAAGTAAT
66 CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCCAAATTTTCCTCCTACAAGTAAT
* *
55493 AAGTATTGGATATATTTCAAGCCTTCCTCATTTTTGCATGAAGTTCATGCAGTACAGGGTAAATA
131 TAGTATTGGATATATTTCCAGCCTTCCTCATTTTTGCATGAAGTTCATGCAGTACAGGGTAAATA
* * * *
55558 AGTTCGGCATGAGAATGAGATTTGGCACCAGCACAAAACATATGGAATTTAATCTCTAGTTATAT
196 AGTTCGGCATGAGAATGAGATTTGGCACCAGCACAAAACACATGGAACTTATTCTCTAGTTCTAT
* * *
55623 ACAGTTGCAACCAGATACTTGTGAACAAAATTACACGGGATTCAGATGACATCTCGACATTGGGA
261 CCAGTTGCAACCAGATACTTGTGAACAAAATTACACGGGACTCGGATGACATCTCGACATTGGGA
** *
55688 ATTTTCATTCAGGAAGCACGTACTGTTTTTTCAAACTAATCCTAGATTCCATATTAGTTATATCA
326 ATTTTCATTCAGGAAGCACGTGTTG-TTTTTCAAACTAATCCTAGATTCCACATTAGTTATATCA
* * *
55753 GTCGTGATTGTAATCATGTGGCTCATGCTCTCGCTAGTTGGGTCAGTTGTTTCTGATAGTGCATT
390 ATCGTGATTGTAATCATGTGGCTCATGCTCTCGCTAGCTGGGCCAGTTGTTTCTGATAGTGCATT
* * * * *
55818 GTTATTTGATTCGGTTTGTCCTGATATCAGTGCTAGAGACATTCACAAAGATGTAATCACTTCTT
455 GTTCTTTGATTCGGTTTGTCCCGATATCATTGCTAGAGACATTCAAAAAGATGTAATTACTTCTT
*
55883 GATTAATGAAATTTTTGGCACTTTTCCCCTTATTAAGATTAGAAGGGGTTTTTATTTTTTAATGA
520 GATTAATGAAATTTTGGGCACTTTTCCCCTTATTAAGATTAGAAGGGG-------TTTTTAATGA
* ** * *
55948 GGCCCACATTCTTTTAAAAAAAAAGTCCAACTATAACTAGGGTGCTTCTTTAATCCCTTATCCTT
578 GGCCCACATTATTTTAAAAAAAAA-TCCAACTGCAACTAGGCTGATTCTTTAATCCCTTATCCTT
*
56013 TATTTTCAACCTTATCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAAT
642 TATTTTCAACCTTACCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAAT
56078 AATAAAAATAAAATAAAATATAAATTTATTTAATAAATTTAGGGACCAAATTGTAAGTTTTCAGA
707 AATAAAAATAAAATAAAATATAAATTTATTTAATAAATTTAGGGACCAAATTGTAAGTTTTCAGA
* * * * *
56143 ACTTGCAGCCCGTTTTAGTATGCGCGAAGATGTGTGTAATTAATTACTAGCTTCTGATGTAGACT
772 ACTTGCATCCCGTTTTAGCATGTGCAAAGATTTGTGTAATTAATTACTAGCTTCTGATGTAGACT
* *
56208 TTAATTAATTTGAATGTATACTTTCATCTTTAATCAAGATTTGGCTATTATCATTAATATAACTG
837 TTAATTAATTTGAATGTATAATTTCATCTTCAATCAAGATTTGGCTATTATCATTAATATAACTG
*
56273 GCTTTATCTATAAC
902 GC-TCATCTATAAC
56287 AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
1 AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
* ** * * *
56352 CTATAGGACTTGGATTAGAGCAACTGCGTCTACAAAATTATCCAAAATTTCCTTCTACAAGTAAT
66 CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCCAAATTTTCCTCCTACAAGTAAT
* * * *
56417 TAGTATTGGATATATTTCCATCCTTCCTCATTTTTTGCATGAAGTTCATGCAATTCATGGTAAAT
131 TAGTATTGGATATATTTCCAGCCTTCCTCA-TTTTTGCATGAAGTTCATGCAGTACAGGGTAAAT
* * * * *
56482 AAGTTCGGCATGAGAATGAGTTTTGGCACCAACACAGAACACATGGACCTTATTCTCTACTTCTA
195 AAGTTCGGCATGAGAATGAGATTTGGCACCAGCACAAAACACATGGAACTTATTCTCTAGTTCTA
*
56547 TCCAGTTGCAACCAGATACTTGTGAACAAAATTACATGGGACTCGGATGACATCTCGACATTGGG
260 TCCAGTTGCAACCAGATACTTGTGAACAAAATTACACGGGACTCGGATGACATCTCGACATTGGG
* * *
56612 AATTTTCATTCAGGAAGCACATGTTGTTTTTCAAACTAATCCTAAATTCCACATTAGTTATATTA
325 AATTTTCATTCAGGAAGCACGTGTTGTTTTTCAAACTAATCCTAGATTCCACATTAGTTATATCA
* *
56677 ATCGTGATTGTAATCATGTGGCTCATGCTCTAGCTAGCTGGGCCAGTTGTTTTTGATAGTGCATT
390 ATCGTGATTGTAATCATGTGGCTCATGCTCTCGCTAGCTGGGCCAGTTGTTTCTGATAGTGCATT
* *
56742 GTTCTTTGATTCGGTTTGTCCCGATATCATTGCTAGAGACATTCAGAAAGATGTAGTTACTTCTT
455 GTTCTTTGATTCGGTTTGTCCCGATATCATTGCTAGAGACATTCAAAAAGATGTAATTACTTCTT
* * *
56807 GATTAATGAAATTTTGGGCTCTCAGTTCCCCTTATTAAGATTAGAAAGGGTTTTTAATGAGGCCC
520 GATTAATGAAATTTTGGGCACT--TTTCCCCTTATTAAGATTAGAAGGGGTTTTTAATGAGGCCC
*
56872 GCATTATTTTCAAAAAAAAAAAATCCAACTGCAACTAGGCTGATTCTTTAATCCCTTATCCTTTA
583 ACATTATTTT----AAAAAAAAATCCAACTGCAACTAGGCTGATTCTTTAATCCCTTATCCTTTA
56937 TTTTCAACCTTACCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAATAA
644 TTTTCAACCTTACCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAATAA
* * *
57002 T-AAAATAATATAAATTATAAATTTATTTAATAGATTTAGGGACCAAATTGTAAGTTTTCAGAAC
709 TAAAAATAAAATAAAATATAAATTTATTTAATAAATTTAGGGACCAAATTGTAAGTTTTCAGAAC
57066 TTGCATCCCGTTTTAGCATGTGCAAAGATTTGTGTAATTAATTACTAGCTTCTGATGTAGACTTT
774 TTGCATCCCGTTTTAGCATGTGCAAAGATTTGTGTAATTAATTACTAGCTTCTGATGTAGACTTT
* * * *
57131 AATTAATTTGAATGTATACTTTCGTCTTCAATCAAGACTTGGCTATTATCATT-A-ATAATTGGC
839 AATTAATTTGAATGTATAATTTCATCTTCAATCAAGATTTGGCTATTATCATTAATATAACTGGC
57194 TCATCTATAAC
904 TCATCTATAAC
57205 AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
1 AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
*
57270 CTAGAGGACTTAGATTAGAGCAGTTGCGTCTACAAAATTAGCCAAAATTTT-CTCCTACAAGTAA
66 CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCC-AAATTTTCCTCCTACAAGTAA
* * * *
57334 TTAGTTTTGGATATATTTCCAGTCTTCCTCATTTTTGCATGAAGTTCATGTAGTACAGGGTAATT
130 TTAGTATTGGATATATTTCCAGCCTTCCTCATTTTTGCATGAAGTTCATGCAGTACAGGGTAAAT
*
57399 AAGTTTGGCATGAGAATGAGATTTGGCACCAGCACAAAACACAT-GAACCTTATTCTCTAGTTCT
195 AAGTTCGGCATGAGAATGAGATTTGGCACCAGCACAAAACACATGGAA-CTTATTCTCTAGTTCT
* * *
57463 ATCCAGTTGCAACCAGATACTTGTGAACAAAATTACACAGGACTCGGATAACATCTCGACGTTGG
259 ATCCAGTTGCAACCAGATACTTGTGAACAAAATTACACGGGACTCGGATGACATCTCGACATTGG
*
57528 GAATTTTCATTCAGGAAGCAAGTGTTGTTTTTCAAACTAATCCTAGATTCCACATTAGTTATATC
324 GAATTTTCATTCAGGAAGCACGTGTTGTTTTTCAAACTAATCCTAGATTCCACATTAGTTATATC
* * *
57593 AATCGTGATTGTAATCATGTAGCTCATGCTCTCGCTAGCTGGGCCAGTTGTTTCTTATAGTGCGT
389 AATCGTGATTGTAATCATGTGGCTCATGCTCTCGCTAGCTGGGCCAGTTGTTTCTGATAGTGCAT
* *
57658 TGTTCTTTGATTCAGTTTGTCCCGATATCATTGCTAGAGACATTCAAAAAGATGTAATTACTTAT
454 TGTTCTTTGATTCGGTTTGTCCCGATATCATTGCTAGAGACATTCAAAAAGATGTAATTACTTCT
* *
57723 TGATTAATGAAATTTTGGGCACTCTTTTCCCCTTATTAAGATTAGAATGGGTTTTTAATGAGGGC
519 TGATTAATGAAATTTTGGGCA--CTTTTCCCCTTATTAAGATTAGAAGGGGTTTTTAATGAGGCC
* * * *
57788 CACATTATTTTCAAAAAAAATCCAACTGCAACTAGGCTTATTATTTAATCCCTTATCATTTATTT
582 CACATTATTTTAAAAAAAAATCCAACTGCAACTAGGCTGATTCTTTAATCCCTTATCCTTTATTT
* ** *
57853 TCAACCTTACCTTTGTAGTATCCCTATATTTTTGTCACAACCCTAATTTAAGATACAAATAATAA
647 TCAACCTTACCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAATAATAA
*
57918 AAATAAATAAATAAAATATAAATTTATTTAATAAATTTAGGGACCAAATTGTATGTTTTCAGAAC
712 AAAT--A-AAATAAAATATAAATTTATTTAATAAATTTAGGGACCAAATTGTAAGTTTTCAGAAC
* * *
57983 TTGCA-ACCGTTTTAGCTTGTGCAAAGATTTGCGTAATTAATTACTAGCTTCTGATGTAGACTTT
774 TTGCATCCCGTTTTAGCATGTGCAAAGATTTGTGTAATTAATTACTAGCTTCTGATGTAGACTTT
58047 AATTAATTTGAATGTATAATTTCATCTTCAATCAAGATTTGGCTATTATCATTAATATAACTGGC
839 AATTAATTTGAATGTATAATTTCATCTTCAATCAAGATTTGGCTATTATCATTAATATAACTGGC
*
58112 TCATATATAAC
904 TCATCTATAAC
* *
58123 AAGAAAATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTAT-AATGTTGTTTTAT
1 AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
* *
58187 CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCTAAATTTTCCTCCTACAATTAAT
66 CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCCAAATTTTCCTCCTACAAGTAAT
* *
58252 TAGTATTGGATATATTTCCAGCCTTCCTAATTTTTGCATGAAGTTCATGCAGTACAAGGTAAATA
131 TAGTATTGGATATATTTCCAGCCTTCCTCATTTTTGCATGAAGTTCATGCAGTACAGGGTAAATA
* * *
58317 AGTTCGGTATGAGAATGAGATTTGGCACCAGCCACAAAACACATGTACCTTATTCTCTAGTTCTA
196 AGTTCGGCATGAGAATGAGATTTGGCACCAG-CACAAAACACATGGAACTTATTCTCTAGTTCTA
**
58382 TCCAACTGCAACCAG
260 TCCAGTTGCAACCAG
58397 GCTGCTTCTT
Statistics
Matches: 2782, Mismatches: 208, Indels: 75
0.91 0.07 0.02
Matches are distributed among these distances:
905 32 0.01
906 201 0.07
908 1 0.00
910 1 0.00
912 1 0.00
913 109 0.04
914 5 0.00
915 24 0.01
916 275 0.10
917 701 0.25
918 263 0.09
919 40 0.01
920 1 0.00
921 170 0.06
922 121 0.04
923 22 0.01
924 619 0.22
925 172 0.06
926 24 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (914 bp):
AAGAATATGATATTTTATCCTCATTAATATAACTGAGTATCTTATATTTATAAATGTTGTTTTAC
CTAGAGGACTTGGATTAGAGCAGTTGCGTCTACAAAATTAGCCAAATTTTCCTCCTACAAGTAAT
TAGTATTGGATATATTTCCAGCCTTCCTCATTTTTGCATGAAGTTCATGCAGTACAGGGTAAATA
AGTTCGGCATGAGAATGAGATTTGGCACCAGCACAAAACACATGGAACTTATTCTCTAGTTCTAT
CCAGTTGCAACCAGATACTTGTGAACAAAATTACACGGGACTCGGATGACATCTCGACATTGGGA
ATTTTCATTCAGGAAGCACGTGTTGTTTTTCAAACTAATCCTAGATTCCACATTAGTTATATCAA
TCGTGATTGTAATCATGTGGCTCATGCTCTCGCTAGCTGGGCCAGTTGTTTCTGATAGTGCATTG
TTCTTTGATTCGGTTTGTCCCGATATCATTGCTAGAGACATTCAAAAAGATGTAATTACTTCTTG
ATTAATGAAATTTTGGGCACTTTTCCCCTTATTAAGATTAGAAGGGGTTTTTAATGAGGCCCACA
TTATTTTAAAAAAAAATCCAACTGCAACTAGGCTGATTCTTTAATCCCTTATCCTTTATTTTCAA
CCTTACCTTTGTAGCATCCCTCCATTTTTGTCACAACCCTAATTTAAGATAAAAATAATAAAAAT
AAAATAAAATATAAATTTATTTAATAAATTTAGGGACCAAATTGTAAGTTTTCAGAACTTGCATC
CCGTTTTAGCATGTGCAAAGATTTGTGTAATTAATTACTAGCTTCTGATGTAGACTTTAATTAAT
TTGAATGTATAATTTCATCTTCAATCAAGATTTGGCTATTATCATTAATATAACTGGCTCATCTA
TAAC
Found at i:57927 original size:13 final size:15
Alignment explanation
Indices: 57909--57940 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
57899 TTTAAGATAC
57909 AAAT-AATAAAA-AT
1 AAATAAATAAAATAT
57922 AAATAAATAAAATAT
1 AAATAAATAAAATAT
57937 AAAT
1 AAAT
57941 TTATTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 7 0.41
15 6 0.35
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATAAATAAAATAT
Found at i:58769 original size:19 final size:18
Alignment explanation
Indices: 58747--58782 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
58737 TAATTATTAA
58747 TATATAAAAAGATTTAAAT
1 TATATAAAAA-ATTTAAAT
*
58766 TATATATAAAATTTAAA
1 TATATAAAAAATTTAAA
58783 AATTTAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TATATAAAAAATTTAAAT
Done.