Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017958.1 Corchorus olitorius cultivar O-4 contig17991, 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: 7155
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:406 original size:27 final size:27
Alignment explanation
Indices: 381--472 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 27
371 TCAAGGTTAT
* *
381 ATCATATAGATTCAGGCCCAGCGTTAC
1 ATCATATAGATTTAGGCCCAGCATTAC
*
408 ATCATATAGATTTAGGACCAGCATTAC
1 ATCATATAGATTTAGGCCCAGCATTAC
*
435 ATCATCATATAATCTTAGGCCCAGCATTAC
1 ATCAT-ATA-GAT-TTAGGCCCAGCATTAC
465 ATCATATA
1 ATCATATA
473 CATCATATAG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
27 29 0.51
28 3 0.05
29 5 0.09
30 20 0.35
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (27 bp):
ATCATATAGATTTAGGCCCAGCATTAC
Found at i:443 original size:30 final size:30
Alignment explanation
Indices: 381--469 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
371 TCAAGGTTAT
* *
381 ATCATATAGATTCAGGCCCAGCGTT--A-C
1 ATCATATAGATTTAGGCCCAGCATTACATC
*
408 ATCATATAGATTTAGGACCAGCATTACATC
1 ATCATATAGATTTAGGCCCAGCATTACATC
438 ATCATATA-ATCTTAGGCCCAGCATTACATC
1 ATCATATAGAT-TTAGGCCCAGCATTACATC
468 AT
1 AT
470 ATACATCATA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 22 0.41
29 3 0.06
30 29 0.54
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (30 bp):
ATCATATAGATTTAGGCCCAGCATTACATC
Found at i:493 original size:16 final size:16
Alignment explanation
Indices: 472--503 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
462 TACATCATAT
*
472 ACATCATATAGATTTA
1 ACATCATATAAATTTA
488 ACATCATATAAATTTA
1 ACATCATATAAATTTA
504 GGCCCAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (16 bp):
ACATCATATAAATTTA
Found at i:595 original size:26 final size:27
Alignment explanation
Indices: 549--618 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
539 GGAGTCACCT
* *
549 GCATCATGTAGTTGCATATTCAATAGG
1 GCATCATATAGCTGCATATTCAATAGG
*
576 GCATCATATAGCT-CATATTCAGTAGG
1 GCATCATATAGCTGCATATTCAATAGG
*
602 G--TCATATAGTTGCATAT
1 GCATCATATAGCTGCATAT
619 ATAGTTGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.24
25 5 0.13
26 13 0.34
27 11 0.29
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (27 bp):
GCATCATATAGCTGCATATTCAATAGG
Found at i:615 original size:86 final size:83
Alignment explanation
Indices: 518--1051 Score: 280
Period size: 86 Copynumber: 6.3 Consensus size: 83
508 CAGTTTTACA
* *
518 TCAT-TAGTTGCATATTCAGTAGGAGTCACCTGCATCATGTAGTTGCATATTCAATAGGGCATCA
1 TCATATAGTTGCATATTCAGTAGG-GTCA-CTGCATCATATAGTTGCATATTCAGTAGGG--TCA
582 TATAGCT-CATATTCAGTAGGG
62 TATAGCTGCATATTCAGTAGGG
* ** * **
603 TCATATAGTTGCATATAT-AGTTGTAT-A-TTCAATAGTGCATCATA-TAACTCATATTCAGTAG
1 TCATATAGTTGCATAT-TCAGTAGGGTCACTGC---A-T-CAT-ATAGT--TGCATATTCAGTAG
*
664 GGTCATATAGTTGCATATTCAGTAGGGAACATCTG
57 GGTCATATAGCTGCATATTCAGTA-GG-------G
* * **
699 CATCATATAGTAGCATATTTAGTAGGG-CA-T---T-ATATACCT-CATATTCAGTAGGGTCATA
1 --TCATATAGTTGCATATTCAGTAGGGTCACTGCATCATATAGTTGCATATTCAGTAGGGTCATA
*
757 TAGTTGCATATTCAGTAGGG
64 TAGCTGCATATTCAGTAGGG
** * * *
777 CATCATATA-TTTAATATTCAATA-GG----T---TCATATAG-GGCCATATTCAGTAGGGTAAT
1 --TCATATAGTTGCATATTCAGTAGGGTCACTGCATCATATAGTTG-CATATTCAGTAGGGTCAT
*
832 ATAGTTGCATA--CAGTAGGGG
63 ATAGCTGCATATTCAGTA-GGG
* * *
852 ACATATAGTTGCATATTCAGTAGGGGACATCTGCATTATATAGTTGCATATTCAGTAGGGCATCA
1 TCATATAGTTGCATATTCAGTA-GGGTCA-CTGCATCATATAGTTGCATATTCAGTAGGG--TCA
*
917 TATAGCT-AATATTCAGTAGGG
62 TATAGCTGCATATTCAGTAGGG
*
938 TCATATAGTTGCATATTCAGTAGGGGACATCTGCATCATATAGTTGCATATTCAGTAGGG-CATG
1 TCATATAGTTGCATATTCAGTA-GGGTCA-CTGCATCATATAGTTGCATATTCAGTAGGGTCAT-
1002 ATAGGGCAT-CATATAGCTCA-TAGGG
63 ATA--GC-TGCATAT---TCAGTAGGG
1027 TCATATAGTTGCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGG
1052 CATGATAGGG
Statistics
Matches: 363, Mismatches: 35, Indels: 99
0.73 0.07 0.20
Matches are distributed among these distances:
73 6 0.02
74 18 0.05
75 8 0.02
76 32 0.09
77 9 0.02
78 10 0.03
81 1 0.00
82 2 0.01
83 3 0.01
84 25 0.07
85 12 0.03
86 123 0.34
87 24 0.07
88 19 0.05
89 44 0.12
90 3 0.01
91 1 0.00
96 1 0.00
97 1 0.00
98 21 0.06
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (83 bp):
TCATATAGTTGCATATTCAGTAGGGTCACTGCATCATATAGTTGCATATTCAGTAGGGTCATATA
GCTGCATATTCAGTAGGG
Found at i:617 original size:51 final size:51
Alignment explanation
Indices: 552--962 Score: 198
Period size: 51 Copynumber: 7.5 Consensus size: 51
542 GTCACCTGCA
* *
552 TCATGTAGTTGCATATTCAATAGGGCATCATATAGCTCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGGCATCATATAGCTCATATTCAGTAGGG
* * *
603 TCATATAGTTGCATATATAGTTGTATATTCAATAGTGCATCATATAACTCATATTCAGTAGGG
1 TCATATAGTTGC------------ATATTCAGTAGGGCATCATATAGCTCATATTCAGTAGGG
* *
666 TCATATAGTTGCATATTCAGTAGGGAACATCTGCATCATATAG-TAGCATATTTAGT-AGG
1 TCATATAGTTGCATATTCAGTA-GG-------GCATCATATAGCT--CATATTCAGTAGGG
* ** *
725 GCATTATA-TACCTCATATTCAGTAGGG--TCATATAGTTGCATATTCAGTAGGG
1 TCAT-ATAGT--TGCATATTCAGTAGGGCATCATATAGCT-CATATTCAGTAGGG
** * *
777 CATCATATA-TTTAATATTCAATA-GG-TTCATATAGGGC-CATATTCAGTAGGG
1 --TCATATAGTTGCATATTCAGTAGGGCATCATATA--GCTCATATTCAGTAGGG
* * *
828 TAATATAGTTGCATA--CAGTAGGGGA-CATATAGTTGCATATTCAGTAGGGG
1 TCATATAGTTGCATATTCAGTAGGGCATCATATAGCT-CATATTCAGTA-GGG
*
878 ACATCTGCATTATATAGTTGCATATTCAGTAGGGCATCATATAGCTAATATTCAGTAGGG
1 -----T-C---ATATAGTTGCATATTCAGTAGGGCATCATATAGCTCATATTCAGTAGGG
938 TCATATAGTTGCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGG
963 GACATCTGCA
Statistics
Matches: 282, Mismatches: 28, Indels: 100
0.69 0.07 0.24
Matches are distributed among these distances:
47 1 0.00
48 4 0.01
49 25 0.09
50 10 0.04
51 92 0.33
52 4 0.01
53 6 0.02
54 4 0.01
55 2 0.01
58 1 0.00
59 29 0.10
60 17 0.06
61 30 0.11
62 8 0.03
63 49 0.17
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (51 bp):
TCATATAGTTGCATATTCAGTAGGGCATCATATAGCTCATATTCAGTAGGG
Found at i:643 original size:63 final size:63
Alignment explanation
Indices: 548--681 Score: 223
Period size: 63 Copynumber: 2.1 Consensus size: 63
538 AGGAGTCACC
* *
548 TGCATCATGTAGTTGCATATTCAATAGGGCATCATATAGCTCATATTCAGTAGGGTCATATAGT
1 TGCAT-ATATAGTTGCATATTCAATAGGGCATCATATAACTCATATTCAGTAGGGTCATATAGT
* *
612 TGCATATATAGTTGTATATTCAATAGTGCATCATATAACTCATATTCAGTAGGGTCATATAGT
1 TGCATATATAGTTGCATATTCAATAGGGCATCATATAACTCATATTCAGTAGGGTCATATAGT
675 TGCATAT
1 TGCATAT
682 TCAGTAGGGA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
63 61 0.92
64 5 0.08
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (63 bp):
TGCATATATAGTTGCATATTCAATAGGGCATCATATAACTCATATTCAGTAGGGTCATATAGT
Found at i:683 original size:25 final size:25
Alignment explanation
Indices: 617--690 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
607 ATAGTTGCAT
* * *
617 ATATAGTTGTATATTCAATAGTGCATC
1 ATATAGTTGCATATTCAGTAG-G-GTC
**
644 ATATAACT-CATATTCAGTAGGGTC
1 ATATAGTTGCATATTCAGTAGGGTC
668 ATATAGTTGCATATTCAGTAGGG
1 ATATAGTTGCATATTCAGTAGGG
691 AACATCTGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 8 0.21
25 15 0.38
26 10 0.26
27 6 0.15
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (25 bp):
ATATAGTTGCATATTCAGTAGGGTC
Found at i:748 original size:26 final size:27
Alignment explanation
Indices: 698--962 Score: 112
Period size: 25 Copynumber: 10.0 Consensus size: 27
688 GGGAACATCT
* *
698 GCATCATATA-GTAGCATATTTAGTAGG
1 GCATCATATACCT-GCATATTCAGTAGG
*
725 GCATTATATACCT-CATATTCAGTAGG
1 GCATCATATACCTGCATATTCAGTAGG
**
751 G--TCATATAGTTGCATATTCAGTAGG
1 GCATCATATACCTGCATATTCAGTAGG
* ** *
776 GCATCATATA-TTTAATATTCAATA-G
1 GCATCATATACCTGCATATTCAGTAGG
* **
801 G-TTCATATA-GGGCCATATTCAGTAGG
1 GCATCATATACCTG-CATATTCAGTAGG
* **
827 G--TAATATAGTTGCATA--CAGTAGG
1 GCATCATATACCTGCATATTCAGTAGG
* **
850 GGA-CATATAGTTGCATATTCAGTAGGG
1 GCATCATATACCTGCATATTCAGTA-GG
**
877 GACATCTGCATTATATAGTTGCATATTCAGTAGG
1 G-CA--T-C---ATATACCTGCATATTCAGTAGG
* *
911 GCATCATATAGCT-AATATTCAGTAGG
1 GCATCATATACCTGCATATTCAGTAGG
**
937 G--TCATATAGTTGCATATTCAGTAGG
1 GCATCATATACCTGCATATTCAGTAGG
962 G
1 G
963 GACATCTGCA
Statistics
Matches: 193, Mismatches: 24, Indels: 44
0.74 0.09 0.17
Matches are distributed among these distances:
23 8 0.04
24 36 0.19
25 48 0.25
26 45 0.23
27 26 0.13
28 2 0.01
30 1 0.01
31 1 0.01
32 1 0.01
33 2 0.01
34 3 0.02
35 20 0.10
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (27 bp):
GCATCATATACCTGCATATTCAGTAGG
Found at i:772 original size:25 final size:25
Alignment explanation
Indices: 701--876 Score: 155
Period size: 25 Copynumber: 7.0 Consensus size: 25
691 AACATCTGCA
* *
701 TCATATAGTAGCATATTTAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGG
* **
726 CATTATATACCT-CATATTCAGTAGGG
1 --TCATATAGTTGCATATTCAGTAGGG
752 TCATATAGTTGCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGG
** * *
777 CATCATATA-TTTAATATTCAATAGGT
1 --TCATATAGTTGCATATTCAGTAGGG
*
803 TCATATAG-GGCCATATTCAGTAGGG
1 TCATATAGTTG-CATATTCAGTAGGG
*
828 TAATATAGTTGCATA--CAGTAGGGG
1 TCATATAGTTGCATATTCAGTA-GGG
*
852 ACATATAGTTGCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGG
877 GACATCTGCA
Statistics
Matches: 119, Mismatches: 21, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
23 5 0.04
24 30 0.25
25 39 0.33
26 32 0.27
27 13 0.11
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (25 bp):
TCATATAGTTGCATATTCAGTAGGG
Found at i:893 original size:35 final size:35
Alignment explanation
Indices: 854--997 Score: 117
Period size: 35 Copynumber: 3.7 Consensus size: 35
844 AGTAGGGGAC
854 ATATAGTTGCATATTCAGTAGGGGACATCTGCATT
1 ATATAGTTGCATATTCAGTAGGGGACATCTGCATT
* *
889 ATATAGTTGCATATTCAGTAGGGCATCATATAGCTAATATTCAGT
1 ATATAGTTGCATATTCAGTAGGGGA-CATCT-GC----A-T---T
*
934 AGGGTCATATAGTTGCATATTCAGTAGGGGACATCTGCATC
1 A---T-ATA--GTTGCATATTCAGTAGGGGACATCTGCATT
975 ATATAGTTGCATATTCAGTAGGG
1 ATATAGTTGCATATTCAGTAGGG
998 CATGATAGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 32
0.70 0.04 0.26
Matches are distributed among these distances:
35 42 0.48
36 4 0.05
37 5 0.06
38 1 0.01
41 2 0.02
42 1 0.01
44 1 0.01
45 3 0.03
48 1 0.01
49 5 0.06
50 4 0.05
51 19 0.22
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (35 bp):
ATATAGTTGCATATTCAGTAGGGGACATCTGCATT
Found at i:1032 original size:17 final size:17
Alignment explanation
Indices: 1010--1088 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
1000 TGATAGGGCA
1010 TCATATAGCTCATAGGG
1 TCATATAGCTCATAGGG
* *
1027 TCATATAGTTGCATA--T
1 TCATATAGCT-CATAGGG
** *
1043 TCAGTAGGGCATGATAGGG
1 TCA-TATAGC-TCATAGGG
1062 CATCATATAGCTCATAGGG
1 --TCATATAGCTCATAGGG
1081 TCATATAG
1 TCATATAG
1089 TTGCATATTC
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
16 3 0.07
17 23 0.51
18 5 0.11
19 7 0.16
20 4 0.09
21 3 0.07
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (17 bp):
TCATATAGCTCATAGGG
Found at i:1037 original size:54 final size:54
Alignment explanation
Indices: 973--1152 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
963 GACATCTGCA
973 TCATATAGTTGCATATTCAGTAGGGCATGATAGGGCATCATATAGCTCATAGGG
1 TCATATAGTTGCATATTCAGTAGGGCATGATAGGGCATCATATAGCTCATAGGG
1027 TCATATAGTTGCATATTCAGTAGGGCATGATAGGGCATCATATAGCTCATAGGG
1 TCATATAGTTGCATATTCAGTAGGGCATGATAGGGCATCATATAGCTCATAGGG
* * * **
1081 TCATATAGTTGCATATTCAATAGGACATCATATAGC-TCATAT---TCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGGCATGATAGGGCATCATATAGCTCA-TAGGG
*
1132 TCATGTAGTTGCATATTCAGT
1 TCATATAGTTGCATATTCAGT
1153 TGGGGACATC
Statistics
Matches: 118, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
50 3 0.03
51 24 0.20
53 6 0.05
54 85 0.72
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (54 bp):
TCATATAGTTGCATATTCAGTAGGGCATGATAGGGCATCATATAGCTCATAGGG
Found at i:1195 original size:25 final size:25
Alignment explanation
Indices: 1167--1218 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
1157 GACATCTGCA
* *
1167 TCATATAGTTGCATATTGAATAGGG
1 TCATATAGTTACATATTCAATAGGG
1192 TCATATAGTTACATATTCAATAGGG
1 TCATATAGTTACATATTCAATAGGG
1217 TC
1 TC
1219 GTTTGCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (25 bp):
TCATATAGTTACATATTCAATAGGG
Found at i:2006 original size:331 final size:332
Alignment explanation
Indices: 1337--2086 Score: 743
Period size: 331 Copynumber: 2.3 Consensus size: 332
1327 GGTAAAGGCG
* * ** * *
1337 TTGAGTTATAT-TTTTTTATGACAATTGTGGCAAAAAAATTGAGGAAAAAAATTTC-AGGTCCA-
1 TTGAATTATATATTTTTTACGAGTATTATGGC-AAAAAATTGAGGAAAAATATTTCGA-GT-CAG
* * * * * * * **
1399 TTTTTGC-AAAATTTTAGCCGAAATCGTATACTATTTATCAC-GATTTTTGGCTAAAAACGTGTT
63 GTTTTACAAAAATTTTAGCCGAAATTGTGTACTAATTATTACAG-TTTTTAGCTAAAAACGCATT
** * *** *
1462 CCAGGGCCCCGGCTCAGTATTGCATGATTTTAGGCGCCAAGACTCCTTGAAATATCTACATTAAT
127 -TTGGGCACCAATTCAGTATTGCATGATTTTAGGCGCCAAGACTCATTGAAATATCTACATTAAT
* * * * * * * *
1527 CTAAACAAATTTTAGCCACATTGAATTTAATGATTTATTTTTACAAGCATCAGATTCTTGTTTCG
191 CTAAACAAATCTCAACCACATTGAATTCAAGGATTTATTTTTACAAGCATCAGAATCATATTTCG
* * * * *
1592 ATTTTATTATAAATAAATTCAGAAAAAATAAGGAAAATGATATTACAACCGTGAAAAGCCTTTCA
256 ATTTAATTATAAATAAATTCAGAAAAAATAAGGAAAAAGAAATTACAACCATGAAAAGCCGTTCA
*
1657 ATCTTCTTGGCA
321 ATATTCTTGGCA
* * * * * * *
1669 TTGAATTATATTTTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAACTTTTTC-AGCTCAGTT
1 TTGAATTATATATTTTTTACGAGTATTATGGCAAAAAATTGAGGAAAAATATTTCGAG-TCAGGT
*
1733 TTTAC-AAAATTTTAGCTGAAATTGTGTACTAATTATTACAGTTTTTAGCTAAAAACGCATTTTG
65 TTTACAAAAATTTTAGCCGAAATTGTGTACTAATTATTACAGTTTTTAGCTAAAAACGCATTTTG
* * * *
1797 GGCACCAATTCAGTTTTGTATGATTTTAGGCGCCAAGACTCATTGAAATATCTATATTCATCTAA
130 GGCACCAATTCAGTATTGCATGATTTTAGGCGCCAAGACTCATTGAAATATCTACATTAATCTAA
* *
1862 TA-AAATCTCAACCACATT-AGATTCAAGGATTTGTTTTTACGAGCAT-ATGAATCATATTTCGA
195 -ACAAATCTCAACCACATTGA-ATTCAAGGATTTATTTTTACAAGCATCA-GAATCATATTTCGA
* * * * *
1924 TTTAATCTGA-AAAT-AATTTAGAACAAA-AAGGAAAAAAGAAATTAGAAGCATGAAATGCCGTT
257 TTTAAT-T-ATAAATAAATTCAGAAAAAATAAGG-AAAAAGAAATTACAACCATGAAAAGCCGTT
* *
1986 CAATATTTTTGGCT
319 CAATATTCTTGGCA
* * * * *
2000 TTGAATTATATATTTTTTATGTGTGTTATGGCAAAAAATTTAGGAAAAATATTTCGAGTCTGGTT
1 TTGAATTATATATTTTTTACGAGTATTATGGCAAAAAATTGAGGAAAAATATTTCGAGTCAGGTT
2065 TTACAAAAATTTTAGCCGAAAT
66 TTACAAAAATTTTAGCCGAAAT
2087 CATGTACCAT
Statistics
Matches: 341, Mismatches: 65, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
330 6 0.02
331 210 0.62
332 107 0.31
333 18 0.05
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (332 bp):
TTGAATTATATATTTTTTACGAGTATTATGGCAAAAAATTGAGGAAAAATATTTCGAGTCAGGTT
TTACAAAAATTTTAGCCGAAATTGTGTACTAATTATTACAGTTTTTAGCTAAAAACGCATTTTGG
GCACCAATTCAGTATTGCATGATTTTAGGCGCCAAGACTCATTGAAATATCTACATTAATCTAAA
CAAATCTCAACCACATTGAATTCAAGGATTTATTTTTACAAGCATCAGAATCATATTTCGATTTA
ATTATAAATAAATTCAGAAAAAATAAGGAAAAAGAAATTACAACCATGAAAAGCCGTTCAATATT
CTTGGCA
Found at i:3077 original size:331 final size:330
Alignment explanation
Indices: 2498--4988 Score: 2884
Period size: 331 Copynumber: 7.6 Consensus size: 330
2488 CGACATTAGA
* * * * *
2498 TTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTAATTTAGAAAAAATATGAAAA-AA
1 TTTACGACCATCAGAATCTTGTTTCGATTTAATTAGAAATTAA-TTAGAAAAAATAAGAAAACAA
*
2562 CGGTATTAGAAGCGCGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGT
65 ---TATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGT
*
2627 ATTGTGCCCAAAACTTGAAGAAAATCTTTCTGGTC-AATTGTTGCAAAATTTTAGACGAAATCGT
127 ATTGTGCCCAAAACTTGAGGAAAATCTTTCTGGTCAAATT-TTGCAAAATTTTAGACGAAATCGT
* * * * ** *
2691 GTACCATCCATCACGGTTTTTGGCTAAAAACGTGTTCCCGAACCCTGACTCAGTTTTGCATGATT
191 GTACTAACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCAT-AAT
* ** * * * * * * *
2756 TTTTA-CGCCGACACTCCTTGAAATTTCAATATTCATCTAATCAAATCTCAGCAACATTGGATTT
255 TTTTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTT
*
2820 AAGGATTTGAT
320 AAGGATTTGTT
* * *
2831 TTTACGATCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAAGAGAAACG
1 TTTACGACCATCAGAATCTTGTTTCGATTTAATTAGAAATTAA-TTAGAAAAAATAAGA-AAACA
* * * *
2896 ATACTAGAAGCGTGAAAATCCCTTCAACCTTTTTGGCGTTGAATTATATA-T-TTTTATGAGTAT
64 ATATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTAT
* ** * * * * ** *
2959 TTTGAACAAAAATTGAGGAAAAAACTTACAGGTCAAATTTTGTGAAATTTTAGCCGAAATCGTGT
129 TGTGCCCAAAACTTGAGG-AAAATCTTTCTGGTCAAATTTTGCAAAATTTTAGACGAAATCGTGT
* *
3024 ACTAACTATCACGGTTTTTGGCTAAAAACGCGTTCCGGGGTCCC-GTCTCAGTTTTGCATAATTT
193 ACTAACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGGG-CCCTGACTCAGTTTTGCATAATTT
3088 TTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAA
257 TTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAA
3153 GGATTTGTT
322 GGATTTGTT
* * * *
3162 TTTACGACCATCAGAA-ATTGATTTCAATTTAATTAGAAATTAATTAAAAAAAATAGGAAAACAA
1 TTTACGACCATCAGAATCTTG-TTTCGATTTAATTAGAAATTAATTAGAAAAAATAAGAAAACAA
*
3226 TATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGATTGAATCATATATTATTTTATGAGTAT
65 TATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCG-TTGAATTATATATTATTTTATGAGTAT
*
3291 TGTGCCCAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTA
129 TGTGCCCAAAACTTGAGGAAAATCTTTCTGGTCAAATTTTGCAAAATTTTAGACGAAATCGTGTA
* * * *
3356 CTATCCATCACGGTTTTTGGCTAAAAACGTGTTCCGGGGCCCTGGCTCAGTTTTGCATGATTTTT
194 CTAACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATAATTTTT
* * * * *
3421 A-CGCCGACAATC-C-TTGAAATATCTATATTCATCTAATCAAATCTCAGCAACATTGGATTTAA
259 AGCGCC-A-AGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAA
* *
3483 CGATTAGTT
322 GGATTTGTT
* * * *
3492 TTTACGATCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAATAAGAAAAACG
1 TTTACGACCATCAGAATCTTGTTTCGATTTAATTAGAAATTAA-TTAGAAAAAATAAG-AAAACA
* * * * *
3557 ATATTAGAAGCGTGAACACCCCTTCAACCTTTTTAGCGTTGAATTATATA-T-TTTTATGAGTAT
64 ATATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTAT
* *** * * * * * * *
3620 TTTGAATAAAAATTGAGGAAAAAACTTACGGGTCAATTTTTGCGAAATTTTAG-CTGAAATTGTG
129 TGTGCCCAAAACTTGAGG-AAAATCTTTCTGGTCAAATTTTGCAAAATTTTAGAC-GAAATCGTG
* * * * *
3684 TAACTAATTATCACGGTTTTTAGCTAAAAACGCGTTCCGGGGTCCC-GTCTCAGTTTTGCACAAT
192 T-ACTAACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGGG-CCCTGACTCAGTTTTGCATAAT
3748 TTTTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTT
255 TTTTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTT
3813 AAGGATTTGTT
320 AAGGATTTGTT
* * * *
3824 TTTACGACCATCAGAA-ATTGATTTCAATTTAATTAGAATTTAATTA-AAAAAATAGGAAAACAA
1 TTTACGACCATCAGAATCTTG-TTTCGATTTAATTAGAAATTAATTAGAAAAAATAAGAAAACAA
* *
3887 TATTAGAAGCGCGAAAAGCCTTTCAATCTTTTTGGCGTTGAATTATATATTATTTTGTGAGTATT
65 TATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATT
* *
3952 GTGCCCAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTAT
130 GTGCCCAAAACTTGAGGAAAATCTTTCTGGTCAAATTTTGCAAAATTTTAGACGAAATCGTGTAC
* * * * *
4017 TATCCATCACGG-TTTTGGCTAAAAACGTGTTCCGAGGCCCTGACTCAGTTTTGCATGACTTTCT
195 TAACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCAT-AATTTTT
* * * * * * * * * * * * ** *
4081 A-CGCCGAGACTCTTTAAAAGATCTATATTTATTTGATCAAATCTTAGCAACATTAAATTTAACG
259 AGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGG
*
4145 ATTAGTT
324 ATTTGTT
* * * * *
4152 TTTACGATCATCTGAATCTTGTTTCGATTTAATTAAAAATTTATTTAGAATAAATAAGAAAAACA
1 TTTACGACCATCAGAATCTTGTTTCGATTTAATTAGAAA-TTAATTAGAAAAAATAAG-AAAACA
* * * *
4217 ATATTAGAAGCGTGAAAA-CCGCTTCAACCTTTTTGGCATTGACTTATATA-T-TTTTATGAGTA
64 ATATTAGAAGCGCGAAAAGCC-CTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTA
* * ** *** * * *
4279 TTTTGACCAAATA-TTGAGGAAAA---AACT--T-AAGGGTTGCGAAATTTTAGCCGAAATCATG
128 TTGTGCCCAAA-ACTTGAGGAAAATCTTTCTGGTCAAATTTTGCAAAATTTTAGACGAAATCGTG
* * * *
4337 TACTAACTATCACAGTTTTTGGCTGAAAACTTGTTCCGGGACCCTGACTCAGTTTTGCATAATTT
192 TACTAACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATAATTT
4402 TTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAA
257 TTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAA
* *
4467 AGATTTATT
322 GGATTTGTT
* * * * *
4476 TTTACGACCAACAGAAACTCGTTTC-ATTTTAATTAAAAATTAATTA-AAAAAATAGGAAAACAA
1 TTTACGACCATCAGAATCTTGTTTCGA-TTTAATTAGAAATTAATTAGAAAAAATAAGAAAACAA
4539 TATT-GAAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTAT
65 TATTAG-AAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTAT
* * * *
4603 TGTGCCCAAAACTTTACGAAAATCTTTCTGGTC-AATTATTGCAAAATTTTAGACTAAATTGTGT
129 TGTGCCCAAAACTTGAGGAAAATCTTTCTGGTCAAATT-TTGCAAAATTTTAGACGAAATCGTGT
* * * *
4667 ACT-ATTCATCACGGATTTTGGCTTAAAACTTGTTCCGGGGCCCTGACTCAGTTTTGCATAATTT
193 ACTAACT-ATCACGGTTTTTGGCTAAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATAATTT
* * * *
4731 TCAGCGCCAAGTCTCATTGAAATAACTATATTCATATAATTAAATCTCAACCACACTGGATTTAT
257 TTAGCGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAA
4796 GGATTTGTT
322 GGATTTGTT
* * * * * * * *
4805 TTTATGACCATCAGAAACTGGTTTC-A-ATCATTAG-AA--AA-TAAAAAAAATATGAAAACGAT
1 TTTACGACCATCAGAATCTTGTTTCGATTTAATTAGAAATTAATTAGAAAAAATAAGAAAACAAT
* *
4864 ATTTGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATTTTATTTTATGAGTATTG
66 ATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTG
* * * *
4929 TGCCCAAAACTTCAGGAAAATCTTTCTTGTCAATTTTTACAAAATTTTA-ACTGAAATCGT
131 TGCCCAAAACTTGAGGAAAATCTTTCTGGTCAAATTTTGCAAAATTTTAGAC-GAAATCGT
4989 TTTCAATGAT
Statistics
Matches: 1832, Mismatches: 271, Indels: 119
0.82 0.12 0.05
Matches are distributed among these distances:
320 1 0.00
321 47 0.03
322 12 0.01
323 80 0.04
324 252 0.14
325 4 0.00
326 6 0.00
327 8 0.00
328 122 0.07
329 335 0.18
330 256 0.14
331 439 0.24
332 211 0.12
333 55 0.03
334 3 0.00
335 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (330 bp):
TTTACGACCATCAGAATCTTGTTTCGATTTAATTAGAAATTAATTAGAAAAAATAAGAAAACAAT
ATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTG
TGCCCAAAACTTGAGGAAAATCTTTCTGGTCAAATTTTGCAAAATTTTAGACGAAATCGTGTACT
AACTATCACGGTTTTTGGCTAAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATAATTTTTAG
CGCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGAT
TTGTT
Found at i:3875 original size:661 final size:659
Alignment explanation
Indices: 2519--4927 Score: 3539
Period size: 661 Copynumber: 3.7 Consensus size: 659
2509 CTGAATCATG
* * * *
2519 TTTCGATTTAATCAGAAATTAATTTAGAAAAAATATGAAAA-AACGGTATTAGAAGCGCGAAAAA
1 TTTCAATTTAATTAGAAATTAA-TTA-AAAAAATAGGAAAACAA---TATTAGAAGCGCGAAAAG
*
2583 CCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTGAAGA
61 CCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTGAGGA
* *
2648 AAATCTTTCTGGTCAATTGTTGCAAAATTTTAGACGAAATCGTGTACCATCCATCACGGTTTTTG
126 AAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGGTTTTTG
* ** *
2713 GCTAAAAACGTGTTCCCGAACCCTGACTCAGTTTTGCATGATTTTTTACGCCGACACTCCTTGAA
191 GCTAAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATGACTTTTTACGCCGACACTCCTTGAA
* * * * *
2778 ATTTCAATATTCATCTAATCAAATCTCAGCAACATTGGATTTAAGGATTTGATTTTACGATCATC
256 ATATCTATATTCATCTAATCAAATCTCAGCAACATTGGATTTAACGATTAGTTTTTACGATCATC
* * *
2843 TGAATCTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAAGAGAAACGATACTAGAAGCG
321 TGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAATAAGAAAAACGATATTAGAAGCG
*
2908 TGAAAATCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGAACAAAAATT
386 TGAAAACCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGAACAAAAATT
* *
2973 GAGGAAAAAACTTACAGGTCAAATTTTGTGAAATTTTAGCCGAAATCGTGTACTAACTATCACGG
451 GAGGAAAAAACTTACGGGTC-AATTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCACGG
3038 TTTTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTC
515 TTTTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTC
3103 ATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACG
580 ATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACG
3168 ACCATCAGAAATTGA
645 ACCATCAGAAATTGA
3183 TTTCAATTTAATTAGAAATTAATTAAAAAAAATAGGAAAACAATATTAGAAGCGCGAAAAGCCCT
1 TTTCAATTTAATTAGAAATTAATT-AAAAAAATAGGAAAACAATATTAGAAGCGCGAAAAGCCCT
*
3248 TCAATCTTTTTGGCGATTGAATCATATATTATTTTATGAGTATTGTGCCCAAAACTTGAGGAAAA
65 TCAATCTTTTTGGCG-TTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTGAGGAAAA
3313 TCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGGTTTTTGGCT
129 TCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGGTTTTTGGCT
* *
3378 AAAAACGTGTTCCGGGGCCCTGGCTCAGTTTTGCATGA-TTTTTACGCCGACAATCCTTGAAATA
194 AAAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATGACTTTTTACGCCGACACTCCTTGAAATA
3442 TCTATATTCATCTAATCAAATCTCAGCAACATTGGATTTAACGATTAGTTTTTACGATCATCTGA
259 TCTATATTCATCTAATCAAATCTCAGCAACATTGGATTTAACGATTAGTTTTTACGATCATCTGA
3507 ATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAATAAGAAAAACGATATTAGAAGCGTGA
324 ATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAATAAGAAAAACGATATTAGAAGCGTGA
* * *
3572 ACACCCCTTCAACCTTTTTAGCGTTGAATTATATATTTTTATGAGTATTTTGAATAAAAATTGAG
389 AAACCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGAACAAAAATTGAG
* * *
3637 GAAAAAACTTACGGGTCAATTTTTGCGAAATTTTAGCTGAAATTGTGTAACTAATTATCACGGTT
454 GAAAAAACTTACGGGTCAA-TTTTGCGAAATTTTAGCCGAAATCGTGT-ACTAACTATCACGGTT
* *
3702 TTTAGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCACAATTTTTAGCGCCAAGTCTCAT
517 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
3767 TGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGAC
582 TGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGAC
3832 CATCAGAAATTGA
647 CATCAGAAATTGA
* *
3845 TTTCAATTTAATTAGAATTTAATTAAAAAAATAGGAAAACAATATTAGAAGCGCGAAAAGCCTTT
1 TTTCAATTTAATTAGAAATTAATTAAAAAAATAGGAAAACAATATTAGAAGCGCGAAAAGCCCTT
*
3910 CAATCTTTTTGGCGTTGAATTATATATTATTTTGTGAGTATTGTGCCCAAAACTTGAGGAAAATC
66 CAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTGAGGAAAATC
*
3975 TTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTATTATCCATCACGG-TTTTGGCTAA
131 TTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGGTTTTTGGCTAA
* * * * * *
4039 AAACGTGTTCCGAGGCCCTGACTCAGTTTTGCATGACTTTCTACGCCGAGACTCTTTAAAAGATC
196 AAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATGACTTTTTACGCCGACACTCCTTGAAATATC
* * * * **
4104 TATATTTATTTGATCAAATCTTAGCAACATTAAATTTAACGATTAGTTTTTACGATCATCTGAAT
261 TATATTCATCTAATCAAATCTCAGCAACATTGGATTTAACGATTAGTTTTTACGATCATCTGAAT
* * *
4169 CTTGTTTCGATTTAATTAAAAATTTATTTAGAATAAATAAGAAAAACAATATTAGAAGCGTGAAA
326 CTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAA
* * * * *
4234 ACCGCTTCAACCTTTTTGGCATTGACTTATATATTTTTATGAGTATTTTGACCAAATATTGAGGA
391 ACCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGAACAAAAATTGAGGA
* * *
4299 AAAAACTTAAGGG------TTGCGAAATTTTAGCCGAAATCATGTACTAACTATCACAGTTTTTG
456 AAAAACTTACGGGTCAATTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCACGGTTTTTG
* ** * *
4358 GCTGAAAACTTGTTCC-GGGACCCTGACTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCATTGA
521 GCTAAAAACGCGTTCCGGGGTCCC-GTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCATTGA
* * *
4422 AATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAAGATTTATTTTTACGACCAA
585 AATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGACCAT
*
4487 CAGAAACTCG-
650 CAGAAA-TTGA
* *
4497 TTTCATTTTAATTAAAAATTAATTAAAAAAATAGGAAAACAATATT-GAAAGCGCGAAAAGCCCT
1 TTTCAATTTAATTAGAAATTAATTAAAAAAATAGGAAAACAATATTAG-AAGCGCGAAAAGCCCT
* *
4561 TCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTTACGAAAAT
65 TCAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTGAGGAAAAT
* * * * * *
4626 CTTTCTGGTCAATTATTGCAAAATTTTAGACTAAATTGTGTACTATTCATCACGGATTTTGGCTT
130 CTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGGTTTTTGGCTA
* * * * ** *
4691 AAAACTTGTTCCGGGGCCCTGACTCAGTTTTGCAT-AATTTTCAGCGCCAAGTCTCATTGAAATA
195 AAAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATGACTTTTTA-CGCCGACACTCCTTGAAATA
* * * * * * ** * * * *
4755 ACTATATTCATATAATTAAATCTCAACCACACTGGATTTATGGATTTGTTTTTATGACCATCAGA
259 TCTATATTCATCTAATCAAATCTCAGCAACATTGGATTTAACGATTAGTTTTTACGATCATCTGA
* * * * * * *
4820 AACTGGTTTC-A-ATCATTAGAAAA-T-A---A-AAAAAATATG-AAAACGATATTTGAAGCGCG
324 ATCTTGTTTCGATTTAATTA-AAAATTAATTTAGAAAAAATAAGAAAAACGATATTAGAAGCGTG
* * *
4876 AAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATTTTATTTTATGAGTATT
388 AAAACCCCTTCAACCTTTTTGGCGTTGAATTATA-TAT-TTTTATGAGTATT
4928 GTGCCCAAAA
Statistics
Matches: 1597, Mismatches: 134, Indels: 45
0.90 0.08 0.03
Matches are distributed among these distances:
645 46 0.03
646 10 0.01
647 14 0.01
650 1 0.00
651 13 0.01
652 316 0.20
653 137 0.09
659 44 0.03
660 316 0.20
661 339 0.21
662 323 0.20
663 15 0.01
664 23 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (659 bp):
TTTCAATTTAATTAGAAATTAATTAAAAAAATAGGAAAACAATATTAGAAGCGCGAAAAGCCCTT
CAATCTTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTGAGGAAAATC
TTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGGTTTTTGGCTAA
AAACGTGTTCCGGGGCCCTGACTCAGTTTTGCATGACTTTTTACGCCGACACTCCTTGAAATATC
TATATTCATCTAATCAAATCTCAGCAACATTGGATTTAACGATTAGTTTTTACGATCATCTGAAT
CTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAAATAAGAAAAACGATATTAGAAGCGTGAAA
ACCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGAACAAAAATTGAGGA
AAAAACTTACGGGTCAATTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCACGGTTTTTG
GCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCATTGAA
ATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGACCATC
AGAAATTGA
Found at i:6723 original size:62 final size:62
Alignment explanation
Indices: 6648--6873 Score: 391
Period size: 62 Copynumber: 3.6 Consensus size: 62
6638 ATACGACAGA
* *
6648 CACGAAGGGACACGAGAAGACAGAGGAAGGAAGAGACCTCCGCAGGAGGCGAGGCCAGCAGG
1 CACGAAGGTACACGAGAAGACAGAGGAAGGAAGAGGCCTCCGCAGGAGGCGAGGCCAGCAGG
*
6710 CACGAAGGTACACGAGAAGACAGAGGAAGGAAGAGGCCTCCGCAGGAGGCGAGGCCAACAGG
1 CACGAAGGTACACGAGAAGACAGAGGAAGGAAGAGGCCTCCGCAGGAGGCGAGGCCAGCAGG
* *
6772 CACGAAGGTACACGAGAAGACAGAGGAAGGGAGAGGCCTCTGCAGGAGGCGAGGCCAGCAGG
1 CACGAAGGTACACGAGAAGACAGAGGAAGGAAGAGGCCTCCGCAGGAGGCGAGGCCAGCAGG
6834 CACGAAGGTACACGAGAAGACAGAGGAA-GAGAGAGGCCTC
1 CACGAAGGTACACGAGAAGACAGAGGAAGGA-AGAGGCCTC
6874 GGAAGACAGA
Statistics
Matches: 156, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
61 1 0.01
62 155 0.99
ACGTcount: A:0.35, C:0.22, G:0.39, T:0.04
Consensus pattern (62 bp):
CACGAAGGTACACGAGAAGACAGAGGAAGGAAGAGGCCTCCGCAGGAGGCGAGGCCAGCAGG
Found at i:6912 original size:34 final size:34
Alignment explanation
Indices: 6874--6939 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
6864 GAGAGGCCTC
6874 GGAAGACAGACACGAAGGTACACGAGAAGACAGA
1 GGAAGACAGACACGAAGGTACACGAGAAGACAGA
6908 GGAAGACAGACACGAAGGTACACGAGAAGACA
1 GGAAGACAGACACGAAGGTACACGAGAAGACA
6940 CAGTGGTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.47, C:0.18, G:0.32, T:0.03
Consensus pattern (34 bp):
GGAAGACAGACACGAAGGTACACGAGAAGACAGA
Done.