Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000156.1 Hibiscus syriacus cultivar Beakdansim tig00000277_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: 107039
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:1693 original size:28 final size:31
Alignment explanation
Indices: 1648--1721 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
1638 TTTACTTTAA
1648 TAAAATATTCAATATGATATCTA-ATTTTTT
1 TAAAATATTCAATATGATATCTATATTTTTT
* *
1678 TAAAAT-TT-AATATGATATTTATATTTTAT
1 TAAAATATTCAATATGATATCTATATTTTTT
* *
1707 CAAAATATCCAATAT
1 TAAAATATTCAATAT
1722 ATTACCTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 12 0.32
29 13 0.35
30 7 0.19
31 5 0.14
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAAATATTCAATATGATATCTATATTTTTT
Found at i:1860 original size:21 final size:21
Alignment explanation
Indices: 1836--1889 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
1826 AAAAAATGGT
1836 CACTAAAATATAAAATTTAAA
1 CACTAAAATATAAAATTTAAA
1857 CACTAAAATATAAAATTTAAA
1 CACTAAAATATAAAATTTAAA
1878 CACTAAAATATA
1 CACTAAAATATA
1890 TAGTGACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (21 bp):
CACTAAAATATAAAATTTAAA
Found at i:12070 original size:28 final size:28
Alignment explanation
Indices: 12004--12072 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
11994 TTAAAGAGTA
12004 GTCCTTCA-GGACATATGTGTTATATGTG
1 GTCCTT-AGGGACATATGTGTTATATGTG
*
12032 GTCCTTTGGGACATATGTGTTATATGTG
1 GTCCTTAGGGACATATGTGTTATATGTG
12060 GTCCTTAGGGACA
1 GTCCTTAGGGACA
12073 AATCCTATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (28 bp):
GTCCTTAGGGACATATGTGTTATATGTG
Found at i:19129 original size:75 final size:73
Alignment explanation
Indices: 18957--19284 Score: 437
Period size: 75 Copynumber: 4.5 Consensus size: 73
18947 CCGGAAATAT
* * * *
18957 AAAATAGGCGCTACCTATTACATTAAAATACCTAC-CGATTTTTT-AAGGTTTCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTTTTGAAGGTTGCTAATAATATAA
19020 ACGGTAAA
66 ACGGTAAA
** * * *
19028 AAAATAGGCGCTATATATTACATTAAAATATCTACTGGTTTTTTTGAAGATTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTTTTGAAGGTTGCTAATAATATAA
*
19093 ACAGTAAAA
66 ACGGT-AAA
* *
19102 TAAAATAGGCGCTACCTATTACATTAAAATACTTACCGGTTTTTTTGAAGGTTGCTAATAATATA
1 -AAAATAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTTTTGAAGGTTGCTAATAATATA
19167 AACGGTAAAA
65 AACGGT-AAA
* * * *
19177 AAAATAGGCGATACCTATTACATTACAATACCTGCCT-GTTTTTTTTAAGGTTGCTAATAATATA
1 AAAATAGGCGCTACCTATTACATTAAAATACCT-ACTGGTTTTTTTGAAGGTTGCTAATAATATA
19241 AACGGTAAA
65 AACGGTAAA
* *
19250 AAAATAGGTGCTACCTATTACATTAAACTACCTAC
1 AAAATAGGCGCTACCTATTACATTAAAATACCTAC
19285 CAGATATGTT
Statistics
Matches: 225, Mismatches: 27, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
71 32 0.14
72 8 0.04
73 53 0.24
74 65 0.29
75 67 0.30
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (73 bp):
AAAATAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTTTTGAAGGTTGCTAATAATATAA
ACGGTAAA
Found at i:19197 original size:74 final size:73
Alignment explanation
Indices: 18957--19285 Score: 455
Period size: 74 Copynumber: 4.5 Consensus size: 73
18947 CCGGAAATAT
* * *
18957 AAAATAGGCGCTACCTATTACATTAAAATACCTACC-GATTTTTT-AAGGTTTCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
19020 ACGGTAAA
66 ACGGTAAA
** * * * *
19028 AAAATAGGCGCTATATATTACATTAAAATATCTACTGGTTTTTTTGAAGATTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
*
19093 ACAGTAAAA
66 ACGGT-AAA
*
19102 TAAAATAGGCGCTACCTATTACATTAAAATACTTACCGGTTTTTTTGAAGGTTGCTAATAATATA
1 -AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATA
19167 AACGGTAAAA
65 AACGGT-AAA
* * * * *
19177 AAAATAGGCGATACCTATTACATTACAATACCTGCCTGTTTTTTTTAAGGTTGCTAATAATATAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
19242 ACGGTAAA
66 ACGGTAAA
* *
19250 AAAATAGGTGCTACCTATTACATTAAACTACCTACC
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACC
19286 AGATATGTTG
Statistics
Matches: 227, Mismatches: 27, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
71 32 0.14
72 7 0.03
73 55 0.24
74 67 0.30
75 66 0.29
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (73 bp):
AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATATAA
ACGGTAAA
Found at i:19848 original size:112 final size:112
Alignment explanation
Indices: 19367--19826 Score: 753
Period size: 112 Copynumber: 4.1 Consensus size: 112
19357 TAGCGCCTAT
*
19367 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATAACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAA
* * *
19432 ATCAGTTTCATTATGATAAAACCGGTAAAGAGCTACCAGATATGTTA
66 ATCAGTTTCATTATGACAAAAACGGTAAAGAGCTACCGGATATGTTA
* *
19479 AAAGTATTGATACTTTATAAAAATATATCGATACATAACAATATAACA-GCTAAAAATATGACAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATG-TAAAAATATGACAA
* *
19543 AACCAGTTTCATTATGA-AAAAACCGGTAAAGAGCTATCGGATATGTTA
65 AATCAGTTTCATTATGACAAAAA-CGGTAAAGAGCTACCGGATATGTTA
* * *
19591 AAAGTATCGATACTTTATAAAAATATATCGATACATAATAATATAACAAGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAA
* *
19656 ATCAGTTTCATTATGACAAAATCGGTAAAGAGATACCGGATATGTTA
66 ATCAGTTTCATTATGACAAAAACGGTAAAGAGCTACCGGATATGTTA
19703 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAA
* *
19768 ATCAGTTTCATTATGACAAAAACGGTAAAGATCTACCGGATTTGTTA
66 ATCAGTTTCATTATGACAAAAACGGTAAAGAGCTACCGGATATGTTA
19815 AAAGTATCGATA
1 AAAGTATCGATA
19827 TTTTTTCTAC
Statistics
Matches: 324, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
111 5 0.02
112 314 0.97
113 5 0.02
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (112 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACATGTAAAAATATGACAAA
ATCAGTTTCATTATGACAAAAACGGTAAAGAGCTACCGGATATGTTA
Found at i:23093 original size:244 final size:245
Alignment explanation
Indices: 22061--23757 Score: 2932
Period size: 244 Copynumber: 7.0 Consensus size: 245
22051 CATGAGATTT
* *
22061 TTATTTAAAGCAACCTTATAATTTATAAATATTAACATGTATTTACTCCAAATTAATAAAAAAA-
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
* *** *
22125 ACTTTATAATCTATAAATTTTTTTGTATGATAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
66 ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
* * *
22190 TCGAACATTATAGATAGGTTTAAAAATTATCTTTAAACAAATACTACTTTATACTTACCCTAGAT
131 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAGTACTGCTTTATACTTACCCTAGAT
22255 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
196 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
22305 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAAT-AAAAAAT
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
* *
22369 ACTTTACAATCTATAAAAATTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAAT
66 ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
* * * *
22434 TCGAACATTATAAATAGG-TTAAAAGTTATCTTTAAACAAATACTACTTTATACTTCCCCTAGAT
131 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAGTACTGCTTTATACTTACCCTAGAT
22498 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
196 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
22548 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAA-
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
** *
22612 A-TTTACAATCTAT-AAATTTTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAAT
66 ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
* * * *
22675 TCGAACATTATAAATAGG-TTAAAAGTTATCTTTAAACAAATACTACTTTATACTTCCCCTAGAT
131 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAGTACTGCTTTATACTTACCCTAGAT
22739 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
196 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
22789 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
** *
22854 ACTTTACAATCTATAAAAAAAATT-TATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTTGAGT
66 ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
*
22918 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACATGTACTGCTTTATACTTACCCTAGAT
131 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAGTACTGCTTTATACTTACCCTAGAT
22983 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
196 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
*
23033 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAATT
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
* *
23098 AATTTACAATCTAT-AAAAATTTTGTATGGTAAATGAATTGTTGTTACTCCTTTAGGACTCGAGT
66 ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
*
23162 TCGAACATTATAGATAGGTTTAAAAATTATCTTTAAAC-AGATACTGCTTTATACTTACCCTAGA
131 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAG-TACTGCTTTATACTTACCCTAGA
*
23226 TTAATTAAAAAAACAACCTTATAATTTACAAACCTTTTTGTATCATTAAAA
195 TTAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
23277 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
** *
23342 ACTTTACAATCTATAAAAAAAATT-TATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTTGAGT
66 ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
*
23406 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACATGTACTGCTTTATACTTACCCTAGAT
131 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAGTACTGCTTTATACTTACCCTAGAT
23471 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
196 TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
23521 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
1 TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
* *
23586 AATTTACAATCTATAAAAAATTTTGTATGGTAAATGAATTGTTGTTACTCCTTTAGGACTCGAGT
66 ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
*
23651 TCGAACATTATAGATAGGTTTAAAAATTATCTTTAAAC-AGATACTGCTTTATACTTACCCTAGA
131 TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAG-TACTGCTTTATACTTACCCTAGA
*
23715 TTAATTAAAAAAACAACCTTACAAATTACAAACCTTTTTGTAT
195 TTAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTAT
23758 GGTAGTTTTT
Statistics
Matches: 1393, Mismatches: 48, Indels: 23
0.95 0.03 0.02
Matches are distributed among these distances:
241 227 0.16
242 13 0.01
243 233 0.17
244 772 0.55
245 148 0.11
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (245 bp):
TTATTTAAAGCAACCTTATAATTTATAAATATTATCTTGTATTTACTCCAAATTAATAAAAAAAT
ACTTTACAATCTATAAAAAATTTTGTATGGTAAAGGAATTGTTGTTACTCCTTTAGGACTCGAGT
TCGAACATTATAGATAGGTTTAAAAGTTATCTTTAAACAAGTACTGCTTTATACTTACCCTAGAT
TAATTAAAAAAACAACCTTACAATTTACAAACCTTTTTGTATCATTAAAA
Found at i:23864 original size:14 final size:15
Alignment explanation
Indices: 23828--23865 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
23818 ATTGATAATA
*
23828 TATATATATATACAT
1 TATATAAATATACAT
23843 TATATAAATATA-AT
1 TATATAAATATACAT
*
23857 TATTTAAAT
1 TATATAAAT
23866 TTAGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATAAATATACAT
Found at i:26714 original size:65 final size:65
Alignment explanation
Indices: 26584--26740 Score: 176
Period size: 65 Copynumber: 2.4 Consensus size: 65
26574 ACTAAGAGTT
* *
26584 CATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAAAGTGCATCGATGCATAGCTGGTG
1 CATCGATGAATCAAATGCATTCGATGTTTTCAAAATAGCCAAAGTGCATCGATGCATAGCTGGTG
* * * ** * * *
26648 CATCGATGTATCAAATGTATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCAT-GGTATG
1 CATCGATGAATCAAATGCATTCGATGTTTTCA-AAATAGCCAAAGTGCATCGATGCATAGCT-GG
26711 TG
64 TG
*
26713 CATCGATGAATGAAATGCATTCGATGTT
1 CATCGATGAATCAAATGCATTCGATGTT
26741 CAATTTAATT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 25 0.32
65 50 0.64
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (65 bp):
CATCGATGAATCAAATGCATTCGATGTTTTCAAAATAGCCAAAGTGCATCGATGCATAGCTGGTG
Found at i:26779 original size:65 final size:64
Alignment explanation
Indices: 26584--26782 Score: 169
Period size: 65 Copynumber: 3.1 Consensus size: 64
26574 ACTAAGAGTT
* * * *
26584 CATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAAAGTGCATCGATGCAT-AGCTGG
1 CATCGATGAATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGAGTTGG
26646 TG
63 TG
* * *
26648 CATCGATGTATCAAATGTATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATG-GTAT-G
1 CATCGATGAATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGAGT-TGG
26711 TG
63 TG
* ** *
26713 CATCGATGAATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGAATTGG
1 CATCGATGAATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGAGTTGG
26776 TG
63 TG
26778 CATCG
1 CATCG
26783 GTACATCACT
Statistics
Matches: 111, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 43 0.39
65 56 0.50
66 5 0.05
67 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
CATCGATGAATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGAGTTGGTG
Found at i:28904 original size:22 final size:21
Alignment explanation
Indices: 28864--28903 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
28854 GAGTTTATTT
28864 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
28885 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
28904 ATAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:29852 original size:22 final size:21
Alignment explanation
Indices: 29812--29851 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
29802 GAATTTATTT
29812 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
29833 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
29852 ATAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:30732 original size:948 final size:948
Alignment explanation
Indices: 28645--31489 Score: 5512
Period size: 948 Copynumber: 3.0 Consensus size: 948
28635 ACCTTTTCTA
28645 ACAAAGTTGGATTTTGAATTTTCTCCTTTTTCAAAACGTTTTGTTCCAACTTTATCAAAAGAAGT
1 ACAAAGTTGGATTTTGAATTTTCTCCTTTTTCAAAACGTTTTGTTCCAACTTTATCAAAAGAAGT
28710 TTTAAGATCGTCAATTTTCTTTTGATGATCATCATTGACCTTTGAAAGTAAATTTTGCAAATCCA
66 TTTAAGATCGTCAATTTTCTTTTGATGATCATCATTGACCTTTGAAAGTAAATTTTGCAAATCCA
28775 AATTTTTCTTTTCAAAATCTTCTAGTTTGATTTGCAAATCTTTTATTGTACTTTCAAGATCGTTG
131 AATTTTTCTTTTCAAAATCTTCTAGTTTGATTTGCAAATCTTTTATTGTACTTTCAAGATCGTTG
28840 TTGGTTTTGGATATGAGTTTATTTTCATTTTTCAATTTTAAAACATCATTTTTATATTTTAAAAA
196 TTGGTTTTGGATATGAGTTTATTTTCATTTTTCAATTTTAAAACATCATTTTTATATTTTAAAAA
28905 TAATTTCTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAGGATAAATCAT
261 TAATTTCTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAGGATAAATCAT
*
28970 CAAAATCAGATGAGTTAGAGGTTACCTTAGAATCTTCCCCGAATGCCATCAAGCACAAGTTTGCT
326 CAAAATCAGATGAGTTAGAGATTACCTTAGAATCTTCCCCGAATGCCATCAAGCACAAGTTTGCT
29035 ACTTCTTGTTCCTCTTCATCGGAACCTTCTTCATCGCTCCATGTAGCCACATGAGCCTTGTGATT
391 ACTTCTTGTTCCTCTTCATCGGAACCTTCTTCATCGCTCCATGTAGCCACATGAGCCTTGTGATT
29100 ATTCTTTAATTGACCATTTCTCTTCAATTGTGGGCAATCATATTTGACATGCCCTGGCTTTTTGC
456 ATTCTTTAATTGACCATTTCTCTTCAATTGTGGGCAATCATATTTGACATGCCCTGGCTTTTTGC
29165 ATTCATAGCAAATTATCGGGCCATTCTCTTTTGGTTCATTTTTGAGGCCTTCATTTCATTTGAAT
521 ATTCATAGCAAATTATCGGGCCATTCTCTTTTGGTTCATTTTTGAGGCCTTCATTTCATTTGAAT
29230 TTTCTTCCTCGGTAA-GTCTCATCATTTTTCTGAACCGTTTGGAAAACAATTTCATTTTCTCGTC
586 TTTCTTCCTCGGTAAGGTCTCATCATTTTTCTGAACCGTTTGGAAAACAATTTCATTTTCTCGTC
29294 ATCATCATCTTCATTCGAATCACTCTCATCTTTTGTGGATTTGAGAGCAACTCCAATATTTTTCT
651 ATCATCATCTTCATTCGAATCACTCTCATCTTTTGTGGATTTGAGAGCAACTCCAATATTTTTCT
29359 TCTTCTCCTTCTCCTTTGGTGTCTCGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATT
716 TCTTCTCCTTCTCCTTTGGTGTCTCGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATT
29424 TCATGAGTGAGGAGGGAACCAATTAGTTCTTCAAGAGTTAAGGACGTTAGGTCCTTAGACTCAAT
781 TCATGAGTGAGGAGGGAACCAATTAGTTCTTCAAGAGTTAAGGACGTTAGGTCCTTAGACTCAAT
29489 GATTGTCATCTTCTTTGATTGCCATGATTTTGGAAGGGAGTAGACTAACTTCCTCACAAGCTTTT
846 GATTGTCATCTTCTTTGATTGCCATGATTTTGGAAGGGAGTAGACTAACTTCCTCACAAGCTTTT
29554 CATTTGAAATGATCTCTCCATATGATTTGAGACCATTG
911 CATTTGAAATGATCTCTCCATATGATTTGAGACCATTG
29592 ACAAAGTTGGATTTTGAATTTTCTCCTTTTTCAAAACGTTTTGTTCCAACTTTATCAAAAGAAGT
1 ACAAAGTTGGATTTTGAATTTTCTCCTTTTTCAAAACGTTTTGTTCCAACTTTATCAAAAGAAGT
29657 TTTAAGATCGTCAATTTTCTTTTGATGATCATCATTGACCTTTGAAAGTAAATTTTGCAAATCCA
66 TTTAAGATCGTCAATTTTCTTTTGATGATCATCATTGACCTTTGAAAGTAAATTTTGCAAATCCA
* * *
29722 AATTTTTCTTTTCAAAATCTTCTAGTTTGCTTTGCAAATATTTTATTTTACTTTCAAAGATCGTT
131 AATTTTTCTTTTCAAAATCTTCTAGTTTGATTTGCAAATCTTTTATTGTACTTTC-AAGATCGTT
*
29787 GTTGGTTTTGGATATGAATTTATTTTCATTTTTCAATTTTAAAACATCATTTTTATATTTTAAAA
195 GTTGGTTTTGGATATGAGTTTATTTTCATTTTTCAATTTTAAAACATCATTTTTATATTTTAAAA
29852 ATAATTTCTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAGGATAAATCA
260 ATAATTTCTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAGGATAAATCA
29917 TCAAAATCAGATGAGTTAGAGATTACCTTAGAATCTTCCCCGAATGCCATCAAGCACAAGTTTGC
325 TCAAAATCAGATGAGTTAGAGATTACCTTAGAATCTTCCCCGAATGCCATCAAGCACAAGTTTGC
* *
29982 TACTTCTTGTTCCTCTTCATCGGAACCTTCTTCATCACTCCATGTAGCCACATGAGCCTTGTGCT
390 TACTTCTTGTTCCTCTTCATCGGAACCTTCTTCATCGCTCCATGTAGCCACATGAGCCTTGTGAT
* *
30047 TATTCTTTGATTGACCCTTTCTCTTCAATTGTGGGCAATCATATTTGACATGCCCTGGCTTTTTG
455 TATTCTTTAATTGACCATTTCTCTTCAATTGTGGGCAATCATATTTGACATGCCCTGGCTTTTTG
30112 CATTCATAGCAAATTATCGGGCCATTCTCTTTTGGTTCATTTTTGAGGCCTTCATTTCATTTGAA
520 CATTCATAGCAAATTATCGGGCCATTCTCTTTTGGTTCATTTTTGAGGCCTTCATTTCATTTGAA
*
30177 TTTTCTTCCTCGGTAAGGTCTCATCATTTTTCTGAACCGTTTGGAAAACAATTTCATTTTCTTGT
585 TTTTCTTCCTCGGTAAGGTCTCATCATTTTTCTGAACCGTTTGGAAAACAATTTCATTTTCTCGT
30242 CATCATCATCTTCATTCGAATCACTCTCATCTTTTGTGGATTTGAGAGCAACTCCAATATTTTTC
650 CATCATCATCTTCATTCGAATCACTCTCATCTTTTGTGGATTTGAGAGCAACTCCAATATTTTTC
30307 TTCTTCTCCTTCTCCTTTGGTGTCTCGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCAT
715 TTCTTCTCCTTCTCCTTTGGTGTCTCGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCAT
30372 TTCATGAGTGAGGAGGGAACCAATTAGTTCTTCAAGAGTTAAGGACGTTAGGTCCTTAGACTCAA
780 TTCATGAGTGAGGAGGGAACCAATTAGTTCTTCAAGAGTTAAGGACGTTAGGTCCTTAGACTCAA
30437 TGATTGTCATCTTCTTTGATTGCCATGATTTTGGAAGGGAGTAGACTAACTTCCTCACAAGCTTT
845 TGATTGTCATCTTCTTTGATTGCCATGATTTTGGAAGGGAGTAGACTAACTTCCTCACAAGCTTT
30502 TCATTTGAAATGATCTCTCCATATGATTTGAGACCATTG
910 TCATTTGAAATGATCTCTCCATATGATTTGAGACCATTG
30541 ACAAAGTTGGATTTTGAATTTTCTCCTTTTTCAAAACGTTTTGTTCCAACTTTATCAAAAGAAGT
1 ACAAAGTTGGATTTTGAATTTTCTCCTTTTTCAAAACGTTTTGTTCCAACTTTATCAAAAGAAGT
30606 TTTAAGATCGTCAATTTTCTTTTGATGATCATCATTGACCTTTGAAAGTAAATTTTGCAAATCCA
66 TTTAAGATCGTCAATTTTCTTTTGATGATCATCATTGACCTTTGAAAGTAAATTTTGCAAATCCA
30671 AATTTTTCTTTTCAAAATCTTCTAGTTTGATTTGCAAATCTTTTATTGTACTTTCAAGATCGTTG
131 AATTTTTCTTTTCAAAATCTTCTAGTTTGATTTGCAAATCTTTTATTGTACTTTCAAGATCGTTG
30736 TTGGTTTTGGATATGAGTTTATTTTCATTTTTCAATTTTAAAACATCATTTTTATATTTTAAAAA
196 TTGGTTTTGGATATGAGTTTATTTTCATTTTTCAATTTTAAAACATCATTTTTATATTTTAAAAA
30801 TAATTTCTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAGGATAAATCAT
261 TAATTTCTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAGGATAAATCAT
30866 CAAAATCAGATGAGTTAGAGATTACCTTAGAATCTTCCCCGAATGCCATCAAGCACAAGTTTGCT
326 CAAAATCAGATGAGTTAGAGATTACCTTAGAATCTTCCCCGAATGCCATCAAGCACAAGTTTGCT
30931 ACTTCTTGTTCCTCTTCATCGGAACCTTCTTCATCGCTCCATGTAGCCACATGAGCCTTGTGATT
391 ACTTCTTGTTCCTCTTCATCGGAACCTTCTTCATCGCTCCATGTAGCCACATGAGCCTTGTGATT
30996 ATTCTTTAATTGACCATTTCTCTTCAATTGTGGGCAATCATATTTGACATGCCCTGGCTTTTTGC
456 ATTCTTTAATTGACCATTTCTCTTCAATTGTGGGCAATCATATTTGACATGCCCTGGCTTTTTGC
*
31061 ATTCATAGCAAATTATCGGGTCATTCTCTTTTGGTTCATTTTTGAGGCCTTCATTTCATTTGAAT
521 ATTCATAGCAAATTATCGGGCCATTCTCTTTTGGTTCATTTTTGAGGCCTTCATTTCATTTGAAT
* **
31126 TTTCTTCCTCGGTAAGGTCTCATCATTTTTCTGAACCGTTTGGCAAACAATGCCATTTTCTCGTC
586 TTTCTTCCTCGGTAAGGTCTCATCATTTTTCTGAACCGTTTGGAAAACAATTTCATTTTCTCGTC
31191 ATCATCATCTTCATTCGAATCACTCTCATCTTTTGTGGATTTGAGAGCAACTCCAATATTTTTCT
651 ATCATCATCTTCATTCGAATCACTCTCATCTTTTGTGGATTTGAGAGCAACTCCAATATTTTTCT
31256 TCTTCTCCTTCTCCTTTGGTGTCTCGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATT
716 TCTTCTCCTTCTCCTTTGGTGTCTCGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATT
*
31321 TCATGAGTGAGGAGGGAACCAATTAGTTCTTCAAGAGTTAAGGACGTTAGGTCCTTAGACTCGAT
781 TCATGAGTGAGGAGGGAACCAATTAGTTCTTCAAGAGTTAAGGACGTTAGGTCCTTAGACTCAAT
* *
31386 GATTGTCACCTTCTTTGATTGCCATGATTTTGGAAGGGAGTATACTAACTTCCTCACAAGCTTTT
846 GATTGTCATCTTCTTTGATTGCCATGATTTTGGAAGGGAGTAGACTAACTTCCTCACAAGCTTTT
*
31451 CATTTGAAATGATCTCTCCGTATGATTTGAGACCATTG
911 CATTTGAAATGATCTCTCCATATGATTTGAGACCATTG
31489 A
1 A
31490 TAATCGTTGA
Statistics
Matches: 1869, Mismatches: 27, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
947 182 0.10
948 1159 0.62
949 528 0.28
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (948 bp):
ACAAAGTTGGATTTTGAATTTTCTCCTTTTTCAAAACGTTTTGTTCCAACTTTATCAAAAGAAGT
TTTAAGATCGTCAATTTTCTTTTGATGATCATCATTGACCTTTGAAAGTAAATTTTGCAAATCCA
AATTTTTCTTTTCAAAATCTTCTAGTTTGATTTGCAAATCTTTTATTGTACTTTCAAGATCGTTG
TTGGTTTTGGATATGAGTTTATTTTCATTTTTCAATTTTAAAACATCATTTTTATATTTTAAAAA
TAATTTCTCATAATCCGAAGCCAACCCATTATATTCCTCTAATAACTCATCATAGGATAAATCAT
CAAAATCAGATGAGTTAGAGATTACCTTAGAATCTTCCCCGAATGCCATCAAGCACAAGTTTGCT
ACTTCTTGTTCCTCTTCATCGGAACCTTCTTCATCGCTCCATGTAGCCACATGAGCCTTGTGATT
ATTCTTTAATTGACCATTTCTCTTCAATTGTGGGCAATCATATTTGACATGCCCTGGCTTTTTGC
ATTCATAGCAAATTATCGGGCCATTCTCTTTTGGTTCATTTTTGAGGCCTTCATTTCATTTGAAT
TTTCTTCCTCGGTAAGGTCTCATCATTTTTCTGAACCGTTTGGAAAACAATTTCATTTTCTCGTC
ATCATCATCTTCATTCGAATCACTCTCATCTTTTGTGGATTTGAGAGCAACTCCAATATTTTTCT
TCTTCTCCTTCTCCTTTGGTGTCTCGTCAATCTTATCGAGGTCCACCTCATCTTCAAGCATCATT
TCATGAGTGAGGAGGGAACCAATTAGTTCTTCAAGAGTTAAGGACGTTAGGTCCTTAGACTCAAT
GATTGTCATCTTCTTTGATTGCCATGATTTTGGAAGGGAGTAGACTAACTTCCTCACAAGCTTTT
CATTTGAAATGATCTCTCCATATGATTTGAGACCATTG
Found at i:30800 original size:22 final size:21
Alignment explanation
Indices: 30760--30799 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
30750 GAGTTTATTT
30760 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
30781 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
30800 ATAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:32766 original size:18 final size:17
Alignment explanation
Indices: 32712--32760 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
32702 TTGGACCCTT
* *
32712 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
32730 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
32748 AGTGCATTCGATG
1 AGTGCA-TCGATG
32761 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:32868 original size:65 final size:65
Alignment explanation
Indices: 32732--32891 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 65
32722 TGCACTAAGA
* * *
32732 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGTATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
32796 GTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGG-T
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
32859 AT
65 -G
* *
32861 GTGCATCGATGCATGAAATGCATTTGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
32892 CAATTTAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 28 0.34
65 51 0.62
66 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:34713 original size:16 final size:17
Alignment explanation
Indices: 34694--34726 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34684 TTAAAGATAC
*
34694 AGAGTTTTAGA-ATTGA
1 AGAGTTTAAGATATTGA
34710 AGAGTTTAAGATATTGA
1 AGAGTTTAAGATATTGA
34727 GGATCGGGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (17 bp):
AGAGTTTAAGATATTGA
Found at i:35002 original size:83 final size:81
Alignment explanation
Indices: 34768--35019 Score: 270
Period size: 82 Copynumber: 3.0 Consensus size: 81
34758 AAATGACAGT
* * * * * * *
34768 GATTCTCTAAATAATAATGGAAAACGCTTCCCCTAGAACACACCTTTCATTTCAGATGGGATAAA
1 GATTCTCTGAATAATAAT-GAAAATGCTTCCCCTGGAACGCGCCTTTCATTTCGGATGGGAT-TA
* **
34833 ACACTATGGCATGACAGA
64 ACACTATGACATGGTAGA
* * * * * * *
34851 GATTCTTTGAATAATAATGAAAATTCTTCCCTTGGAATGTGCCTTTAATTTCGTATGGGATTGAA
1 GATTCTCTGAATAATAATGAAAATGCTTCCCCTGGAACGCGCCTTTCATTTCGGATGGGATT-AA
34916 CACTATGACATGGTAGA
65 CACTATGACATGGTAGA
* *
34933 GATTCTCTGAATAATAATGAAAAATGATTCCCCTGGAACGCGCCTTTCATTTCGGATAGGATTAC
1 GATTCTCTGAATAATAATG-AAAATGCTTCCCCTGGAACGCGCCTTTCATTTCGGATGGGATTA-
*
34998 ACACTATGCCATGGCTAGA
64 ACACTATGACATGG-TAGA
35017 GAT
1 GAT
35020 GTAAATCGGT
Statistics
Matches: 138, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
82 67 0.49
83 64 0.46
84 7 0.05
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (81 bp):
GATTCTCTGAATAATAATGAAAATGCTTCCCCTGGAACGCGCCTTTCATTTCGGATGGGATTAAC
ACTATGACATGGTAGA
Found at i:36613 original size:19 final size:20
Alignment explanation
Indices: 36589--36649 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
36579 TAAATTCAAA
36589 TAAATAA-ATTATAAT-AATT
1 TAAATAATA-TATAATCAATT
36608 TAAATAATATATAATCAATT
1 TAAATAATATATAATCAATT
* * *
36628 T-CATAATAT-TCATAAATT
1 TAAATAATATATAATCAATT
36646 TAAA
1 TAAA
36650 AAGAATATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 8 0.23
19 21 0.60
20 6 0.17
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATAATATATAATCAATT
Found at i:39311 original size:25 final size:25
Alignment explanation
Indices: 39263--39311 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
39253 TAAACATGTA
* *
39263 TTTATAAAAAAAATAAATTTATAAT
1 TTTATAAAAAAAATAAAATCATAAT
*
39288 TTTATATAAAAAATAAAATCATAA
1 TTTATAAAAAAAATAAAATCATAA
39312 AAAAAATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
TTTATAAAAAAAATAAAATCATAAT
Found at i:40237 original size:21 final size:21
Alignment explanation
Indices: 40211--40255 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
40201 GATTTCTGGG
* *
40211 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
40232 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
40253 CAA
1 CAA
40256 ATGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:40718 original size:20 final size:22
Alignment explanation
Indices: 40678--40734 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
40668 TGAATATGTG
*
40678 ATATGTTATGATGATATAAACC
1 ATATGATATGATGATATAAACC
*
40700 ATATGATATGAT-A-ATAAACT
1 ATATGATATGATGATATAAACC
40720 ATATGAATATG-TGAT
1 ATATG-ATATGATGAT
40735 TATGAATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 12 0.40
21 7 0.23
22 11 0.37
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (22 bp):
ATATGATATGATGATATAAACC
Found at i:41304 original size:31 final size:31
Alignment explanation
Indices: 41266--41343 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
41256 AGAGTCGAGG
* *
41266 GTTTACCTATG-TCTTTTGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
41297 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
* *
41328 GTTTACCGAGGATCTT
1 GTTTACCTAGGTTCTT
41344 TATGACCTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
31 38 0.95
32 2 0.05
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:41351 original size:31 final size:31
Alignment explanation
Indices: 41289--41391 Score: 127
Period size: 31 Copynumber: 3.4 Consensus size: 31
41279 TTTTGAGACA
* * ***
41289 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAGTTTACCGAGGATCTTTATGACC
41320 TATGGACAGTTTACCGAGGATCTTTATGACC
1 TATGGACAGTTTACCGAGGATCTTTATGACC
*
41351 TCTGGACAG-TTACCGAGGATCTTTATGACC
1 TATGGACAGTTTACCGAGGATCTTTATGACC
* *
41381 TCTGGATAGTT
1 TATGGACAGTT
41392 ACTGGGGTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
30 29 0.45
31 35 0.55
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGATCTTTATGACC
Found at i:41366 original size:30 final size:30
Alignment explanation
Indices: 41316--41415 Score: 139
Period size: 30 Copynumber: 3.3 Consensus size: 30
41306 GGTTCTTCGG
*
41316 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
41347 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * * *
41377 GACCTCTGGATAGTTACTG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
41406 GACCTCTGGA
1 GACCTCTGGA
41416 TAGGTCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.28
30 34 0.53
31 12 0.19
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:46466 original size:16 final size:16
Alignment explanation
Indices: 46445--46483 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
46435 GGTATTATCC
*
46445 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
46461 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
46477 GACCTGT
1 GACCTGT
46484 AATTGACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:46638 original size:17 final size:17
Alignment explanation
Indices: 46599--46638 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
46589 ATAATAAACT
*
46599 TATGATAATTAAATTAT
1 TATGATAATTAAATTAA
*
46616 TTTGATAATTAAATTAA
1 TATGATAATTAAATTAA
46633 TATGAT
1 TATGAT
46639 TACTTTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
TATGATAATTAAATTAA
Found at i:46865 original size:15 final size:15
Alignment explanation
Indices: 46825--46865 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
46815 AAATTAAATT
* * *
46825 TAAATATTATCTTAT
1 TAAATTTTATTTTAA
46840 TAAATTTTATTTTAA
1 TAAATTTTATTTTAA
46855 TAAATTTTATT
1 TAAATTTTATT
46866 AATTAAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TAAATTTTATTTTAA
Found at i:49140 original size:17 final size:17
Alignment explanation
Indices: 49095--49155 Score: 95
Period size: 17 Copynumber: 3.4 Consensus size: 17
49085 TACAAAATAT
49095 TAATACTAATAATTATTA
1 TAATA-TAATAATTATTA
49113 TAATTTATAATAATTATTA
1 TAA--TATAATAATTATTA
49132 TAATATAATAATTATTA
1 TAATATAATAATTATTA
49149 TAATATA
1 TAATATA
49156 TTTTTTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
17 21 0.51
18 3 0.07
19 15 0.37
20 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATATAATAATTATTA
Found at i:49215 original size:20 final size:20
Alignment explanation
Indices: 49190--49228 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49180 GTGTGTCTAC
49190 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
49210 ATATAGTATATATATATAA
1 ATATAGTATATAAATATAA
49229 GTCATATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:49246 original size:31 final size:31
Alignment explanation
Indices: 49206--49344 Score: 111
Period size: 31 Copynumber: 4.7 Consensus size: 31
49196 TATATAAATA
*
49206 TAAAATATAGTATATATATATAAG-TCATATG
1 TAAACTATAGT-TATATATATAAGTTCATATG
*
49237 TAAACTATAGTT-CATATATAA----ATA--
1 TAAACTATAGTTATATATATAAGTTCATATG
* * *
49261 TCAACTTTAG-TATATATAT-AGTTCGTATG
1 TAAACTATAGTTATATATATAAGTTCATATG
49290 TAAACTATATAGTT-TATATATATAGTTCATATG
1 TAAAC--TATAGTTATATATATA-AGTTCATATG
49323 TAAACTATAGTTCATATATATA
1 TAAACTATAGTT-ATATATATA
49345 GTATATAAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 26
0.71 0.08 0.22
Matches are distributed among these distances:
23 2 0.02
24 14 0.16
26 3 0.04
27 2 0.02
29 12 0.14
30 1 0.01
31 28 0.33
32 1 0.01
33 22 0.26
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (31 bp):
TAAACTATAGTTATATATATAAGTTCATATG
Found at i:49313 original size:13 final size:13
Alignment explanation
Indices: 49295--49346 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 13
49285 GTATGTAAAC
*
49295 TATATAGTTTATA
1 TATATAGTTCATA
49308 TATATAGTTCATA
1 TATATAGTTCATA
49321 TGTAAACTATAGTTCATA
1 --T--A-TATAGTTCATA
49339 TATATAGT
1 TATATAGT
49347 ATATAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
13 18 0.55
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 11 0.33
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (13 bp):
TATATAGTTCATA
Found at i:49313 original size:33 final size:31
Alignment explanation
Indices: 49271--49379 Score: 121
Period size: 33 Copynumber: 3.4 Consensus size: 31
49261 TCAACTTTAG
*
49271 TATATATATAGTTCGTATGTAAACTATATAGTT
1 TATATATATAGTTCATATGTAAAC--TATAGTT
49304 TATATATATAGTTCATATGTAAACTATAGTT
1 TATATATATAGTTCATATGTAAACTATAGTT
* * *
49335 CATATATATAGTAT-ATAAATATAAATTATAGTT
1 TATATATATAGT-TCAT--ATGTAAACTATAGTT
*
49368 TATATAAATAGT
1 TATATATATAGT
49380 ATAAAATATA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
31 20 0.30
32 1 0.01
33 46 0.69
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (31 bp):
TATATATATAGTTCATATGTAAACTATAGTT
Found at i:49349 original size:18 final size:17
Alignment explanation
Indices: 49216--49349 Score: 57
Period size: 18 Copynumber: 7.7 Consensus size: 17
49206 TAAAATATAG
49216 TATATATATATAAG-TCA
1 TATATATATAT-AGTTCA
* *
49233 TATGTAAACTATAGTTCA
1 TATATATA-TATAGTTCA
* *
49251 TATATAAATATCAACTT--
1 TATATATATAT--AGTTCA
49268 TAGTATATATATAGTTCGTA
1 TA-TATATATATAGTTC--A
* *
49288 TGTAAACTATATAG-T--
1 TATATA-TATATAGTTCA
49303 T-TATATATATAGTTCA
1 TATATATATATAGTTCA
* *
49319 TATGTAAACTATAGTTCA
1 TATATATA-TATAGTTCA
49337 TATATATAGTATA
1 TATATATA-TATA
49350 TAAATATAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 29
0.67 0.11 0.22
Matches are distributed among these distances:
13 7 0.08
14 4 0.05
15 1 0.01
16 4 0.05
17 17 0.19
18 40 0.45
19 7 0.08
20 8 0.09
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (17 bp):
TATATATATATAGTTCA
Found at i:49364 original size:20 final size:20
Alignment explanation
Indices: 49340--49503 Score: 148
Period size: 20 Copynumber: 7.5 Consensus size: 20
49330 TAGTTCATAT
49340 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
49360 TTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
49385 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
49405 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
49430 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
* *
49450 CTATACTTTATATAAATAGTATATA
1 ATATA--GTATATAAATA-TA-A-A
49475 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
49495 TTATAGTAT
1 ATATAGTAT
49504 GTAGTTTATA
Statistics
Matches: 120, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
20 35 0.29
21 3 0.03
22 26 0.22
23 26 0.22
24 3 0.03
25 27 0.22
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:49380 original size:33 final size:33
Alignment explanation
Indices: 49297--49389 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
49287 ATGTAAACTA
*
49297 TATAGTTTATATATATAGT-TCAT--ATGTAAAC
1 TATAGTTTATATATATAGTAT-ATAAATATAAAC
* *
49328 TATAGTTCATATATATAGTATATAAATATAAAT
1 TATAGTTTATATATATAGTATATAAATATAAAC
*
49361 TATAGTTTATATAAATAGTATA-AAATATA
1 TATAGTTTATATATATAGTATATAAATATA
49390 GTATATAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 20 0.37
32 8 0.15
33 26 0.48
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (33 bp):
TATAGTTTATATATATAGTATATAAATATAAAC
Found at i:49394 original size:45 final size:45
Alignment explanation
Indices: 49340--49501 Score: 288
Period size: 45 Copynumber: 3.6 Consensus size: 45
49330 TAGTTCATAT
*
49340 ATATAGTATATAAATATAAATTATAGTTTATATAAATAGTATAAA
1 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
49385 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
1 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
* *
49430 ATATAGTATATAAATATAAACTATACTTTATATAAATAGTATATA
1 ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
*
49475 ATATAGTATATAAATATAAATTATAGT
1 ATATAGTATATAAATATAAACTATAGT
49502 ATGTAGTTTA
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 112 1.00
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (45 bp):
ATATAGTATATAAATATAAACTATAGTTTATATAAATAGTATAAA
Found at i:49404 original size:29 final size:29
Alignment explanation
Indices: 49369--49525 Score: 101
Period size: 29 Copynumber: 5.3 Consensus size: 29
49359 ATTATAGTTT
49369 ATATAAATAGTATAAAATATAGTATATAA
1 ATATAAATAGTATAAAATATAGTATATAA
*
49398 ATATAAACTATAGTTTATATAA-ATAGTATA-AA
1 ATAT-AA--ATAG--TATAAAATATAGTATATAA
* * * **
49430 ATAT-AGTA-TATAAATATAAACTATACTTT
1 ATATAAATAGTATAAA-ATATAGTATA-TAA
*
49459 ATATAAATAGTATATAATATAGTATATAA
1 ATATAAATAGTATAAAATATAGTATATAA
** *
49488 ATATAAAT--TATAGTATGTAGTTTATATAA
1 ATATAAATAGTATAAAATATAG--TATATAA
49517 ATATAAATA
1 ATATAAATA
49526 TAAACCCTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
25 5 0.05
26 1 0.01
27 15 0.15
28 2 0.02
29 32 0.33
30 14 0.14
31 5 0.05
32 10 0.10
33 8 0.08
34 6 0.06
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (29 bp):
ATATAAATAGTATAAAATATAGTATATAA
Found at i:49801 original size:2 final size:2
Alignment explanation
Indices: 49794--49972 Score: 62
Period size: 2 Copynumber: 84.0 Consensus size: 2
49784 TTATACATGG
* * *
49794 TA TA TA TA GTT TA TA TA TA -A TA TA GA TA TA TA AA CTA TA TA GT-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * *
49837 TCA TA TG TA AA T- TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA
1 T-A TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA
* * * *
49880 TA -A TA TA TA GTA TA TA AA TA TA AA CTA TA GCA TA TA TA TA TG
1 TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
* * *
49922 TCA TA TG TA AA CTA TA TA GTA TA TA AA TA TCA -A CTA TA GTA TA
1 T-A TA TA TA TA -TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA
49965 TA TA TA TA
1 TA TA TA TA
49973 GGTCATATGT
Statistics
Matches: 130, Mismatches: 26, Indels: 42
0.66 0.13 0.21
Matches are distributed among these distances:
1 5 0.04
2 104 0.80
3 21 0.16
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:49808 original size:9 final size:9
Alignment explanation
Indices: 49768--49895 Score: 69
Period size: 9 Copynumber: 14.4 Consensus size: 9
49758 ATATATAAAC
49768 TATATAGTA
1 TATATAGTA
49777 T-TATAGTTTA
1 TATATAG--TA
* *
49787 TACATGGTA
1 TATATAGTA
*
49796 TATATAGTT
1 TATATAGTA
49805 TATATA-TA
1 TATATAGTA
49813 -ATATAG-A
1 TATATAGTA
*
49820 TATATA-AA
1 TATATAGTA
49828 CTATATAGT-
1 -TATATAGTA
49837 TCATAT-GTA
1 T-ATATAGTA
*
49846 AAT-TA-TA
1 TATATAGTA
49853 CTATATAGTA
1 -TATATAGTA
49863 TATATAGTTTA
1 TATATAG--TA
49874 TATATA-TAA
1 TATATAGT-A
49883 TATATAGTA
1 TATATAGTA
49892 TATA
1 TATA
49896 AATATAAACT
Statistics
Matches: 92, Mismatches: 9, Indels: 36
0.67 0.07 0.26
Matches are distributed among these distances:
7 9 0.10
8 20 0.22
9 46 0.50
10 6 0.07
11 11 0.12
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (9 bp):
TATATAGTA
Found at i:49817 original size:20 final size:20
Alignment explanation
Indices: 49768--49895 Score: 82
Period size: 20 Copynumber: 6.1 Consensus size: 20
49758 ATATATAAAC
49768 TATATAGTAT-TATAGTTTA
1 TATATAGTATATATAGTTTA
* *
49787 TACATGGTATATATAGTTTA
1 TATATAGTATATATAGTTTA
* **
49807 TATATAATATAGATATA-TAAA
1 TATATAGTAT--ATATAGTTTA
* *
49828 CTATATAGTTCATATGTAAATTATA
1 -TATATAG-T-ATATAT-AGTT-TA
49853 CTATATAGTATATATAGTTTA
1 -TATATAGTATATATAGTTTA
*
49874 TATATA-TAATATATAGTATA
1 TATATAGT-ATATATAGTTTA
49894 TA
1 TA
49896 AATATAAACT
Statistics
Matches: 85, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.11
20 35 0.41
21 4 0.05
22 17 0.20
23 7 0.08
24 4 0.05
25 9 0.11
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (20 bp):
TATATAGTATATATAGTTTA
Found at i:49900 original size:20 final size:20
Alignment explanation
Indices: 49849--49920 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
49839 ATATGTAAAT
49849 TATACTATATAGT-ATATATAG
1 TATA-TATATA-TAATATATAG
*
49870 TTTATATATATAATATATAG
1 TATATATATATAATATATAG
*
49890 TATATAAATATAA-ACTATAG
1 TATATATATATAATA-TATAG
*
49910 CATATATATAT
1 TATATATATAT
49921 GTCATATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.05
20 39 0.89
21 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (20 bp):
TATATATATATAATATATAG
Found at i:49908 original size:29 final size:29
Alignment explanation
Indices: 49849--49946 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 29
49839 ATATGTAAAT
* * * *
49849 TATACTATATAGTATATATAGTTTATA-TA
1 TATAATATATAGTATATA-AATATAAACTA
49878 TATAATATATAGTATATAAATATAAACTA
1 TATAATATATAGTATATAAATATAAACTA
** * * *
49907 TAGCATATATA-TATGTCATATGTAAACTA
1 TATAATATATAGTATAT-AAATATAAACTA
*
49936 TATAGTATATA
1 TATAATATATA
49947 AATATCAACT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 9 0.16
29 46 0.84
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (29 bp):
TATAATATATAGTATATAAATATAAACTA
Found at i:49916 original size:51 final size:51
Alignment explanation
Indices: 49819--50005 Score: 184
Period size: 51 Copynumber: 3.6 Consensus size: 51
49809 TATAATATAG
* * *
49819 ATATATAAACTATATAGTTCATATGTAAAT-TATACTATA-TAGTATATATA-GTTT
1 ATATATAAACTATATAG-T-ATA--TAAATATAAACTATAGCA-TATATATATG-TC
49873 ATATATATAA-TATATAGTATATAAATATAAACTATAGCATATATATATGTC
1 ATATATA-AACTATATAGTATATAAATATAAACTATAGCATATATATATGTC
* * *
49924 ATATGTAAACTATATAGTATATAAATATCAACTATAGTATATATATATAGGTC
1 ATATATAAACTATATAGTATATAAATATAAACTATAGCATATATATAT--GTC
* * *
49977 ATATGTAAACTATATAGTTTATATATATA
1 ATATATAAACTATATAGTATATAAATATA
50006 TAGTTCATAG
Statistics
Matches: 117, Mismatches: 9, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
50 7 0.06
51 59 0.50
52 5 0.04
53 30 0.26
54 14 0.12
55 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.41
Consensus pattern (51 bp):
ATATATAAACTATATAGTATATAAATATAAACTATAGCATATATATATGTC
Found at i:49993 original size:33 final size:33
Alignment explanation
Indices: 49956--50036 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 33
49946 AAATATCAAC
*
49956 TATAGTATATATATATAGGTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATAGGTAAACTA
*
49989 TATAGTTTATATATATATAGTTCATAGGTAAACTA
1 TATAG--TATATATATATAGGTCATAGGTAAACTA
50024 TAGTTAGTATATA
1 TA--TAGTATATA
50037 AACTATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 5 0.12
35 34 0.81
37 3 0.07
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (33 bp):
TATAGTATATATATATAGGTCATAGGTAAACTA
Found at i:50123 original size:33 final size:31
Alignment explanation
Indices: 50084--50192 Score: 121
Period size: 33 Copynumber: 3.4 Consensus size: 31
50074 TTAGTGTGTA
*
50084 TATATATATAGTTCTTATGTAAACTATATAGTT
1 TATATATATAGTTCATATGTAAAC--TATAGTT
50117 TATATATATAGTTCATATGTAAACTATAGTT
1 TATATATATAGTTCATATGTAAACTATAGTT
* * *
50148 CATATATATAGTAT-ATAAATATAAATTATAGTT
1 TATATATATAGT-TCAT--ATGTAAACTATAGTT
*
50181 TATATAAATAGT
1 TATATATATAGT
50193 ATATAAATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
31 20 0.30
32 1 0.01
33 46 0.69
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (31 bp):
TATATATATAGTTCATATGTAAACTATAGTT
Found at i:50126 original size:13 final size:13
Alignment explanation
Indices: 50108--50226 Score: 52
Period size: 13 Copynumber: 9.2 Consensus size: 13
50098 TTATGTAAAC
50108 TATATAGTTTATA
1 TATATAGTTTATA
50121 TATATAGTTCATATGTA
1 TATATAGTT--TA--TA
* *
50138 AACTATAGTTCATA
1 TA-TATAGTTTATA
50152 TATATAG--TATA
1 TATATAGTTTATA
* *
50163 TA-A-A-TATAAA
1 TATATAGTTTATA
50173 T-TATAGTTTATA
1 TATATAGTTTATA
* *
50185 TAAATAGTATATA
1 TATATAGTTTATA
* **
50198 AATATAAATTATA
1 TATATAGTTTATA
*
50211 GTATGTAGTTTATA
1 -TATATAGTTTATA
50225 TA
1 TA
50227 AATATAAATA
Statistics
Matches: 76, Mismatches: 18, Indels: 24
0.64 0.15 0.20
Matches are distributed among these distances:
9 1 0.01
10 6 0.08
11 6 0.08
12 5 0.07
13 33 0.43
14 12 0.16
15 2 0.03
16 1 0.01
17 3 0.04
18 7 0.09
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:50154 original size:119 final size:116
Alignment explanation
Indices: 49941--50170 Score: 331
Period size: 119 Copynumber: 2.0 Consensus size: 116
49931 AACTATATAG
49941 TATATAAATATCAACTATAGTATATATATATAGGTCATATGTAAACTATATAGTTTATATATATA
1 TATATAAATATCAACTATAGTATATATATATAGGTCATATGTAAACTATATAGTTTATATATATA
50006 TAGTTCATAGGTAAACTATAGTTAGTATATAAACTATATAAACTATAGTTCA
66 TAGTTCATAGGTAAACTATAGTTAGTATATAAACTATATAAA-TATAGTTCA
* * *
50058 TATATAAATATCAACTTTAGTGTGTATATATATATAGTTCTTATGTAAACTATATAG-TT-TATA
1 TATATAAATATCAAC--TA-T-AGTATATATATATAGGTCATATGTAAACTATATAGTTTATATA
* * *
50121 TATATAGTTCATATGTAAACTATAGTTCA-TATATATAGTATATAAATATA
62 TATATAGTTCATAGGTAAACTATAGTT-AGTATATAAACTATATAAATATA
50171 AATTATAGTT
Statistics
Matches: 102, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
117 15 0.15
118 4 0.04
119 47 0.46
120 4 0.04
121 32 0.31
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (116 bp):
TATATAAATATCAACTATAGTATATATATATAGGTCATATGTAAACTATATAGTTTATATATATA
TAGTTCATAGGTAAACTATAGTTAGTATATAAACTATATAAATATAGTTCA
Found at i:50159 original size:31 final size:32
Alignment explanation
Indices: 49956--50159 Score: 116
Period size: 33 Copynumber: 6.6 Consensus size: 32
49946 AAATATCAAC
*
49956 TATAGTAT-ATATATATAGGTCATATGTAAACTA
1 TATAGT-TCATATATATAGTTCATATGTAAAC-A
* *
49989 TATAGTTTATATATATATAGTTCATAGGTAAAC-
1 TATAG-TT-CATATATATAGTTCATATGTAAACA
* *
50022 TATAGTT-AGTATATA-A--AC-TATATAAAC-
1 TATAGTTCA-TATATATAGTTCATATGTAAACA
* * *
50049 TATAGTTCATATATA-AATATCA-ACT-T-TA-G
1 TATAGTTCATATATATAGT-TCATA-TGTAAACA
* *
50078 TGT-GTAT-ATATATATAGTTCTTATGTAAACTA
1 TATAGT-TCATATATATAGTTCATATGTAAAC-A
*
50110 TATAGTTTATATATATAGTTCATATGTAAAC-
1 TATAGTTCATATATATAGTTCATATGTAAACA
50141 TATAGTTCATATATATAGT
1 TATAGTTCATATATATAGT
50160 ATATAAATAT
Statistics
Matches: 136, Mismatches: 15, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
27 21 0.15
28 14 0.10
29 8 0.06
30 6 0.04
31 25 0.18
32 5 0.04
33 35 0.26
34 1 0.01
35 21 0.15
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (32 bp):
TATAGTTCATATATATAGTTCATATGTAAACA
Found at i:50162 original size:18 final size:17
Alignment explanation
Indices: 50117--50162 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
50107 CTATATAGTT
50117 TATATATATAGTTCATA
1 TATATATATAGTTCATA
* *
50134 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
50152 TATATAGTATA
1 TATATA-TATA
50163 TAAATATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (17 bp):
TATATATATAGTTCATA
Found at i:50177 original size:20 final size:20
Alignment explanation
Indices: 50154--50214 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
50144 AGTTCATATA
50154 TATAGTATATAAATATAAAT
1 TATAGTATATAAATATAAAT
50174 TATAGT-T-T--ATAT-AA-
1 TATAGTATATAAATATAAAT
50188 -ATAGTATATAAATATAAAT
1 TATAGTATATAAATATAAAT
50207 TATAGTAT
1 TATAGTAT
50215 GTAGTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
13 5 0.15
14 1 0.03
15 3 0.09
16 4 0.12
17 4 0.12
18 3 0.09
19 1 0.03
20 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
TATAGTATATAAATATAAAT
Found at i:50193 original size:33 final size:33
Alignment explanation
Indices: 50110--50238 Score: 140
Period size: 33 Copynumber: 3.9 Consensus size: 33
50100 ATGTAAACTA
* *
50110 TATAGTTTATATATATAGT-TCAT--ATGTAAAC
1 TATAGTTTATATATATAGTAT-ATAAATATAAAT
*
50141 TATAGTTCATATATATAGTATATAAATATAAAT
1 TATAGTTTATATATATAGTATATAAATATAAAT
*
50174 TATAGTTTATATAAATAGTATATAAATATAAAT
1 TATAGTTTATATATATAGTATATAAATATAAAT
* *
50207 TATAGTATGTAGTTTATATA-AATATAAATATA
1 TATAGT-T-TA-TATATATAGTATATAAATATA
50239 CATCCTAAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 20 0.24
32 1 0.01
33 43 0.51
34 1 0.01
35 13 0.15
36 6 0.07
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (33 bp):
TATAGTTTATATATATAGTATATAAATATAAAT
Found at i:50254 original size:7 final size:7
Alignment explanation
Indices: 50242--50298 Score: 64
Period size: 7 Copynumber: 8.1 Consensus size: 7
50232 AAATATACAT
50242 CCTAAAC
1 CCTAAAC
50249 CCTAAAC
1 CCTAAAC
50256 CCTAATA-
1 CCTAA-AC
*
50263 CTTAAAC
1 CCTAAAC
50270 CCTAAAC
1 CCTAAAC
50277 CCTAATA-
1 CCTAA-AC
*
50284 CTTAAAC
1 CCTAAAC
50291 CCTAAAC
1 CCTAAAC
50298 C
1 C
50299 ATATATACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 2 0.05
7 38 0.90
8 2 0.05
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:50268 original size:21 final size:21
Alignment explanation
Indices: 50244--50307 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
50234 ATATACATCC
50244 TAAACCCTAAACCCTAATACT
1 TAAACCCTAAACCCTAATACT
50265 TAAACCCTAAACCCTAATACT
1 TAAACCCTAAACCCTAATACT
*
50286 TAAACCCTAAACCATATATACT
1 TAAACCCTAAACCCTA-ATACT
50308 ATATATATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 36 0.88
22 5 0.12
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACCCTAATACT
Found at i:50354 original size:22 final size:22
Alignment explanation
Indices: 50300--50356 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
50290 CCCTAAACCA
* *
50300 TATATACTATATATATAAAAAC
1 TATATAATTTATATATAAAAAC
*
50322 TATATAGTTTATAT-TAATAAAC
1 TATATAATTTATATATAA-AAAC
50344 TATATAATTTATA
1 TATATAATTTATA
50357 CAATATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 3 0.10
22 28 0.90
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATAATTTATATATAAAAAC
Found at i:50435 original size:9 final size:10
Alignment explanation
Indices: 50359--50440 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
50349 AATTTATACA
50359 ATATAT-ATT
1 ATATATAATT
*
50368 ATTTATAATT
1 ATATATAATT
*
50378 ATACATAATAT
1 ATATATAAT-T
50389 ATAAATATAAATT
1 AT--ATAT-AATT
*
50402 GTATAGT--TT
1 ATATA-TAATT
50411 ATATATAATT
1 ATATATAATT
50421 CATATATAATTT
1 -ATATATAA-TT
50433 ATATATAA
1 ATATATAA
50441 ACTATGTAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 12 0.21
11 22 0.39
12 3 0.05
13 5 0.09
14 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
ATATATAATT
Found at i:50438 original size:13 final size:11
Alignment explanation
Indices: 50403--50440 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
50393 ATATAAATTG
*
50403 TATAGTTTATA
1 TATAATTTATA
*
50414 TATAATTCATA
1 TATAATTTATA
50425 TATAATTTATA
1 TATAATTTATA
50436 TATAA
1 TATAA
50441 ACTATGTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:50515 original size:2 final size:2
Alignment explanation
Indices: 50508--50612 Score: 54
Period size: 2 Copynumber: 51.0 Consensus size: 2
50498 TTATACATGG
* * *
50508 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA TA AA CTA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
50551 GTT TA TA TA TA TA -A TA CA TA TA CTT TA TA TA TA AA CTA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* *
50593 GTT TA TA T- TA CA TA TA TA TA
1 -TA TA TA TA TA TA TA TA TA TA
50613 AAATGAATGC
Statistics
Matches: 76, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
1 3 0.04
2 67 0.88
3 6 0.08
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:50517 original size:20 final size:20
Alignment explanation
Indices: 50487--50535 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
50477 TAAACTATAC
50487 AGTAT-TATAGTTTATACAT
1 AGTATATATAGTTTATACAT
*
50506 GGTATATATAGTTTATACAT
1 AGTATATATAGTTTATACAT
*
50526 AATATATATA
1 AGTATATATA
50536 TATATAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (20 bp):
AGTATATATAGTTTATACAT
Found at i:50557 original size:22 final size:22
Alignment explanation
Indices: 50532--50600 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
50522 ACATAATATA
50532 TATATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
*
50554 TATATATATAATAC-ATATA-CT
1 TATATATATAA-ACTATATAGTT
50575 T-TATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
50596 TATAT
1 TATAT
50601 TACATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 2 0.05
20 14 0.34
21 4 0.10
22 19 0.46
23 2 0.05
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (22 bp):
TATATATATAAACTATATAGTT
Found at i:50610 original size:20 final size:20
Alignment explanation
Indices: 50492--50612 Score: 94
Period size: 20 Copynumber: 6.2 Consensus size: 20
50482 TATACAGTAT
* **
50492 TATAGTTTATACATGGTATA
1 TATAGTTTATATATAATATA
*
50512 TATAGTTTATACATAATATA
1 TATAGTTTATATATAATATA
*
50532 TATA---TATATA-AA-CTA
1 TATAGTTTATATATAATATA
*
50547 TATAGTTTATATATATAATACA
1 TATAG-TT-TATATATAATATA
*
50569 TATACTTTATATATAA-ACTA
1 TATAGTTTATATATAATA-TA
50589 TATAGTTTATAT-TACATATA
1 TATAGTTTATATATA-ATATA
50609 TATA
1 TATA
50613 AAATGAATGC
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
15 6 0.07
16 2 0.02
17 5 0.06
19 3 0.04
20 56 0.68
21 5 0.06
22 5 0.06
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (20 bp):
TATAGTTTATATATAATATA
Found at i:65766 original size:15 final size:15
Alignment explanation
Indices: 65746--65776 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65736 TTACAGTGAT
65746 TTTTAAAAATTAAAA
1 TTTTAAAAATTAAAA
65761 TTTTAAAAATTAAAA
1 TTTTAAAAATTAAAA
65776 T
1 T
65777 AAATCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTTAAAAATTAAAA
Found at i:70254 original size:26 final size:26
Alignment explanation
Indices: 70217--70275 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
70207 TCTTGAAGAG
* * *
70217 TAAATGATATGAACATGAATAAGTTT
1 TAAATGACATGAACAAGAATAAATTT
70243 TAAATGACATGAACAAGAATAAATTT
1 TAAATGACATGAACAAGAATAAATTT
70269 TAAATGA
1 TAAATGA
70276 TGGACATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.31
Consensus pattern (26 bp):
TAAATGACATGAACAAGAATAAATTT
Found at i:72190 original size:6 final size:6
Alignment explanation
Indices: 72179--72211 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
72169 GTCTCGTCTC
72179 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
72212 AATACGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:72366 original size:20 final size:20
Alignment explanation
Indices: 72341--72454 Score: 70
Period size: 20 Copynumber: 5.6 Consensus size: 20
72331 AATTTAGACT
72341 ATCGCAACGCGAAATGGCAA
1 ATCGCAACGCGAAATGGCAA
* * * **
72361 ATCGCACCACG-ATTTTCAA
1 ATCGCAACGCGAAATGGCAA
* *
72380 CTATCGCAACGCTAAATGGAAA
1 --ATCGCAACGCGAAATGGCAA
** **
72402 ATCGCAACGC-ATTTTTCAA
1 ATCGCAACGCGAAATGGCAA
*
72421 CTATCGCAACGCGAAATGGAAA
1 --ATCGCAACGCGAAATGGCAA
72443 ATCGCAACGCGA
1 ATCGCAACGCGA
72455 TTTTCAACTA
Statistics
Matches: 66, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
19 9 0.14
20 31 0.47
21 18 0.27
22 8 0.12
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGCAA
Found at i:72397 original size:41 final size:40
Alignment explanation
Indices: 72338--72479 Score: 214
Period size: 41 Copynumber: 3.5 Consensus size: 40
72328 ACGAATTTAG
*
72338 ACTATCGCAACGCGAAATGGCAAATCGCACCACGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCA-CACGATTTTCA
*
72379 ACTATCGCAACGCTAAATGGAAAATCGCA-ACGCATTTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCACACG-A-TTTTCA
*
72420 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGC-ACACGATTTTCA
72461 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
72480 CAACACGAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
39 3 0.03
40 1 0.01
41 85 0.91
42 2 0.02
43 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (40 bp):
ACTATCGCAACGCGAAATGGAAAATCGCACACGATTTTCA
Found at i:72483 original size:21 final size:21
Alignment explanation
Indices: 72338--72483 Score: 95
Period size: 21 Copynumber: 7.1 Consensus size: 21
72328 ACGAATTTAG
72338 ACTATCGCAACGCGAAATGGCA
1 ACTATCGCAACGCGAAAT-GCA
* * ** *
72360 A--ATCGCACCACGATTTTCA
1 ACTATCGCAACGCGAAATGCA
* *
72379 ACTATCGCAACGCTAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
72400 A-AATCGCAACGC-ATTTTTCA
1 ACTATCGCAACGCGA-AATGCA
*
72420 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
72441 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
72461 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
72482 AC
1 AC
72484 ACGAATTTAC
Statistics
Matches: 87, Mismatches: 31, Indels: 13
0.66 0.24 0.10
Matches are distributed among these distances:
19 4 0.05
20 39 0.45
21 42 0.48
22 2 0.02
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:76485 original size:28 final size:28
Alignment explanation
Indices: 76452--76508 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
76442 ACCACATAGC
*
76452 TTTCAAGTACT-GACTTAACGGCATAATG
1 TTTCAAGTACTAG-CTTAACGACATAATG
*
76480 TTTCAAGTACTAGCTTGACGACATAATG
1 TTTCAAGTACTAGCTTAACGACATAATG
76508 T
1 T
76509 AAACATAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (28 bp):
TTTCAAGTACTAGCTTAACGACATAATG
Found at i:79331 original size:32 final size:32
Alignment explanation
Indices: 79290--79353 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
79280 GCTAATGGCA
79290 TTTATTTGTATATGGGCCGACGTCGTCGATCC
1 TTTATTTGTATATGGGCCGACGTCGTCGATCC
*
79322 TTTATTTGTATATGGGTCGACGTCGTCGATCC
1 TTTATTTGTATATGGGCCGACGTCGTCGATCC
79354 AATTATCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (32 bp):
TTTATTTGTATATGGGCCGACGTCGTCGATCC
Found at i:80365 original size:35 final size:34
Alignment explanation
Indices: 80264--80366 Score: 93
Period size: 35 Copynumber: 3.0 Consensus size: 34
80254 ATATTAGTAG
* *
80264 GATACTTATT-CTTTTGAATATATCAAATTAAAAA
1 GATAATTATTACTTTTGAATATTTCAAATT-AAAA
* * * * *
80298 GATATTTATTATTTATTTAA-CTTTGAATATTAAAA
1 GATAATTATTACTT-TTGAATATTTCAA-ATTAAAA
80333 GATAATTATATACTTTTGAATATTTCAAATTAAA
1 GATAATTAT-TACTTTTGAATATTTCAAATTAAA
80367 TAATATTTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
34 9 0.17
35 28 0.53
36 16 0.30
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (34 bp):
GATAATTATTACTTTTGAATATTTCAAATTAAAA
Found at i:80386 original size:63 final size:62
Alignment explanation
Indices: 80307--80428 Score: 165
Period size: 62 Copynumber: 2.0 Consensus size: 62
80297 AGATATTTAT
* * * *
80307 TATTTATTTAACTTTGAATA-TTAAAAGATAATTATATACTTTTGAATATTTCAAATTAAATAA
1 TATTTATTTAACTTTGAAAAGTAAAAAGAGAA-CATAT-CTTTTGAATATTTCAAATTAAATAA
* *
80370 TATTTGTTTAAGTTTGAAAAGTAAAAAGAGAACATATCTTTTGAATATTTCAAATTAAA
1 TATTTATTTAACTTTGAAAAGTAAAAAGAGAACATATCTTTTGAATATTTCAAATTAAA
80429 AAAAATAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 22 0.42
63 21 0.40
64 9 0.17
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (62 bp):
TATTTATTTAACTTTGAAAAGTAAAAAGAGAACATATCTTTTGAATATTTCAAATTAAATAA
Found at i:82663 original size:34 final size:34
Alignment explanation
Indices: 82620--82687 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
82610 AATCTTGCTA
82620 AAATTTAATAATTTTGAACCTACCAGCATAATAC
1 AAATTTAATAATTTTGAACCTACCAGCATAATAC
82654 AAATTTAATAATTTTGAACCTACCAGCATAATAC
1 AAATTTAATAATTTTGAACCTACCAGCATAATAC
82688 GATGAATCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (34 bp):
AAATTTAATAATTTTGAACCTACCAGCATAATAC
Found at i:103439 original size:47 final size:47
Alignment explanation
Indices: 103385--103479 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
103375 CAATCCATAA
103385 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
1 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
103432 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
1 CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
103479 C
1 C
103480 AGCACTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.27
Consensus pattern (47 bp):
CCATAGTCTGCTTATAACATAAGACTTAACTACCTAAACACATACTG
Found at i:103623 original size:33 final size:33
Alignment explanation
Indices: 103581--103679 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
103571 GAAATGACTT
*
103581 ATATTATGATCAATATATTAAGGCATATGCTGC
1 ATATTATGATCAATATATTAAGGAATATGCTGC
* *
103614 ATATTATGATCGATAAATTAAGGAATATGCTGC
1 ATATTATGATCAATATATTAAGGAATATGCTGC
* * * *
103647 ATGTCATGTTCAATATATTAAGGAATACGCTGC
1 ATATTATGATCAATATATTAAGGAATATGCTGC
103680 TGTATTGATT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (33 bp):
ATATTATGATCAATATATTAAGGAATATGCTGC
Done.