Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006354.1 Hibiscus syriacus cultivar Beakdansim tig00015228_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: 55874
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Found at i:1993 original size:23 final size:23
Alignment explanation
Indices: 1942--2025 Score: 93
Period size: 23 Copynumber: 3.7 Consensus size: 23
1932 CAGAACCTCC
* *
1942 AGGGGGTATCGATTCCCC-T-AC
1 AGGGGGAATCGATTCCCCTTCAA
*
1963 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTCAA
*
1986 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGATTCCCCTTCAA
*
2008 AGGGAGGTATCGATTCCC
1 AGGG-GGAATCGATTCCC
2026 TCTGCACCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 16 0.29
22 6 0.11
23 33 0.60
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCCTTCAA
Found at i:9696 original size:2 final size:2
Alignment explanation
Indices: 9685--9733 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
9675 TTTTCGTCTG
9685 AT AT AT -T AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9725 AT AT AT AT A
1 AT AT AT AT A
9734 GCATAATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9933 original size:38 final size:35
Alignment explanation
Indices: 9792--10057 Score: 115
Period size: 35 Copynumber: 7.8 Consensus size: 35
9782 GCAGTTTTCG
** * *
9792 AAATATATATTTTAT-TA-TTTTGAAAACGTTTTGA
1 AAATATATATAATATATAGTTTT-AAAACTTTTTTA
*
9826 AAACATATAT--TATATAGTTTTGAAAACATTTTTTA
1 AAATATATATAATATATAGTTTT-AAAAC-TTTTTTA
****
9861 AAATATATATAATATATAGTGTTTGATTTTTTTTTTAA
1 AAATATATATAATATATAGT-TTT-AAAACTTTTTT-A
*
9899 ATATATATATATAATATATAGTTTTTAAACTTTTTTTGA
1 A-A-ATATATATAATATATAGTTTTAAAAC-TTTTTT-A
* *
9938 AAACATATAT--TATATGGTTTTGAAAAC-------
1 AAATATATATAATATATAGTTTT-AAAACTTTTTTA
*
9965 --ATACATATAATATATAGTTTTTAAAA-TATTTTTGA
1 AAATATATATAATATATAG-TTTTAAAACT-TTTTT-A
*
10000 AAATATATAT-ATA-AT--TTTTGAAAACATTTTT-
1 AAATATATATAATATATAGTTTT-AAAACTTTTTTA
*
10031 AAATATATATAATATATAGTTTGAAAA
1 AAATATATATAATATATAGTTTTAAAA
10058 TGTTTTTGAA
Statistics
Matches: 178, Mismatches: 23, Indels: 62
0.68 0.09 0.24
Matches are distributed among these distances:
25 6 0.03
27 10 0.06
28 4 0.02
31 10 0.06
32 10 0.06
33 13 0.07
34 23 0.13
35 29 0.16
36 7 0.04
37 28 0.16
38 8 0.04
39 12 0.07
40 18 0.10
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (35 bp):
AAATATATATAATATATAGTTTTAAAACTTTTTTA
Found at i:9933 original size:40 final size:37
Alignment explanation
Indices: 9830--9952 Score: 113
Period size: 37 Copynumber: 3.2 Consensus size: 37
9820 TTTTGAAAAC
* * *
9830 ATATATTATATAGTTTTGAAAAC-ATTTTTTAAAATAT
1 ATATAATATATAGTTTT-TAAACTTTTTTTTAAAATAT
* * **
9867 ATATAATATATAGTGTTTGATTTTTTTTTTAAATATATAT
1 ATATAATATATAGTTTTTAAACTTTTTTTT-AA-A-ATAT
* *
9907 ATATAATATATAGTTTTTAAACTTTTTTTGAAAACAT
1 ATATAATATATAGTTTTTAAACTTTTTTTTAAAATAT
*
9944 ATATTATAT
1 ATATAATAT
9953 GGTTTTGAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
36 1 0.01
37 32 0.47
38 3 0.04
39 3 0.04
40 29 0.43
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (37 bp):
ATATAATATATAGTTTTTAAACTTTTTTTTAAAATAT
Found at i:9952 original size:42 final size:40
Alignment explanation
Indices: 9863--9952 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
9853 ATTTTTTAAA
* * ** *
9863 ATATATATAATATATAGTGTTTGATTTTTTTTTTAAATAT
1 ATATATATAATATATAGTGTTTAACTTTTTTTGAAAACAT
*
9903 ATATATATAATATATAGTTTTTAAACTTTTTTTGAAAACAT
1 ATATATATAATATATAGTGTTT-AACTTTTTTTGAAAACAT
9944 ATATTATAT
1 ATA-TATAT
9953 GGTTTTGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 21 0.50
41 16 0.38
42 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (40 bp):
ATATATATAATATATAGTGTTTAACTTTTTTTGAAAACAT
Found at i:10022 original size:60 final size:61
Alignment explanation
Indices: 9907--10026 Score: 181
Period size: 62 Copynumber: 2.0 Consensus size: 61
9897 AAATATATAT
* *
9907 ATATAATATATAGTTTTTAAACTTTTTTTGAAAACATATATTATATGGTTTTGAAAACATAC
1 ATATAATATATAGTTTTTAAAATATTTTTGAAAACATATATTATAT-GTTTTGAAAACATAC
*
9969 ATATAATATATAGTTTTTAAAATATTTTTGAAAATATATA-TATAAT-TTTTGAAAACAT
1 ATATAATATATAGTTTTTAAAATATTTTTGAAAACATATATTAT-ATGTTTTGAAAACAT
10027 TTTTAAATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
60 12 0.22
61 3 0.06
62 39 0.72
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (61 bp):
ATATAATATATAGTTTTTAAAATATTTTTGAAAACATATATTATATGTTTTGAAAACATAC
Found at i:10029 original size:33 final size:33
Alignment explanation
Indices: 9969--10068 Score: 107
Period size: 33 Copynumber: 3.0 Consensus size: 33
9959 GAAAACATAC
*
9969 ATATAATATATAGTTTTT-AAAATATTTTTGAAA
1 ATAT-ATATATAATTTTTGAAAATATTTTTGAAA
*
10002 ATATATATATAATTTTTGAAAACATTTTT--AA
1 ATATATATATAATTTTTGAAAATATTTTTGAAA
* *
10033 ATATATATAATATATAGTTTGAAAATGTTTTTGAAA
1 ATATATAT-ATA-AT-TTTTGAAAATATTTTTGAAA
10069 TTTTGAAAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
31 10 0.18
32 15 0.27
33 16 0.29
34 13 0.23
36 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (33 bp):
ATATATATATAATTTTTGAAAATATTTTTGAAA
Found at i:10121 original size:14 final size:13
Alignment explanation
Indices: 10098--10147 Score: 64
Period size: 14 Copynumber: 3.7 Consensus size: 13
10088 TATATATATA
*
10098 TATTTGTTTTTTAT
1 TATTTATTTTTT-T
10112 TATTTATTTTATTT
1 TATTTATTTT-TTT
*
10126 TATTTATTTGTTT
1 TATTTATTTTTTT
10139 TATTTATTT
1 TATTTATTT
10148 ATTCTTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 12 0.36
14 19 0.58
15 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (13 bp):
TATTTATTTTTTT
Found at i:10126 original size:18 final size:19
Alignment explanation
Indices: 10105--10143 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
10095 ATATATTTGT
10105 TTTTTA-TTATTTATTTTA
1 TTTTTATTTATTTATTTTA
*
10123 -TTTTATTTATTTGTTTTA
1 TTTTTATTTATTTATTTTA
10141 TTT
1 TTT
10144 ATTTATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
17 5 0.28
18 11 0.61
19 2 0.11
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTATTTATTTTA
Found at i:10139 original size:13 final size:13
Alignment explanation
Indices: 10111--10150 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
10101 TTGTTTTTTA
10111 TTATTTATTTTATT
1 TTATTTA-TTTATT
*
10125 TTATTTATTTGTT
1 TTATTTATTTATT
10138 TTATTTATTTATT
1 TTATTTATTTATT
10151 CTTTTGGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:10144 original size:17 final size:17
Alignment explanation
Indices: 10098--10150 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
10088 TATATATATA
10098 TATTTG-TTT-TTTA-T
1 TATTTGTTTTATTTATT
*
10112 TATTTATTTTATTTTATT
1 TATTTGTTTTA-TTTATT
10130 TATTTGTTTTATTTATT
1 TATTTGTTTTATTTATT
10147 TATT
1 TATT
10151 CTTTTGGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 5 0.15
15 3 0.09
17 14 0.42
18 11 0.33
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (17 bp):
TATTTGTTTTATTTATT
Found at i:11267 original size:46 final size:44
Alignment explanation
Indices: 11187--11314 Score: 122
Period size: 46 Copynumber: 2.9 Consensus size: 44
11177 TTTTCATGTA
*
11187 TTTTATTTTTTTATTTTA-T-TTTATCTCATTTTATTTCTTCGATTT
1 TTTTATTTTTTTATTTTATTATTTAT-T--TATTATTTCTTCGATTT
*
11232 CTTTTATTTTTTCTATTTTATTATTTATTTATTATTCTCTTTTGATTT
1 -TTTTATTTTTT-TATTTTATTATTTATTTATTATT-TC-TTCGATTT
* *
11280 TATTATTTTTTTAGTTTATTA-TT-TTTATT-TTTCTT
1 TTTTATTTTTTTATTTTATTATTTATTTATTATTTCTT
11315 TGATCTATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
41 2 0.03
42 2 0.03
43 2 0.03
44 6 0.08
45 2 0.03
46 26 0.36
47 19 0.26
48 9 0.12
49 5 0.07
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (44 bp):
TTTTATTTTTTTATTTTATTATTTATTTATTATTTCTTCGATTT
Found at i:11290 original size:16 final size:16
Alignment explanation
Indices: 11235--11305 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 16
11225 TCGATTTCTT
11235 TTATTTTTTCTATTTTA
1 TTATTTTTT-TATTTTA
*
11252 TTATTTATTTA--TTA
1 TTATTTTTTTATTTTA
* * *
11266 TTCTCTTTTGATTTTA
1 TTATTTTTTTATTTTA
*
11282 TTATTTTTTTAGTTTA
1 TTATTTTTTTATTTTA
11298 TTATTTTT
1 TTATTTTT
11306 ATTTTTCTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
14 10 0.23
16 25 0.58
17 8 0.19
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (16 bp):
TTATTTTTTTATTTTA
Found at i:11310 original size:30 final size:28
Alignment explanation
Indices: 11234--11310 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 28
11224 TTCGATTTCT
11234 TTTATTTTTTCTATTTTATTATTTATTTA
1 TTTATTTTTT-TATTTTATTATTTATTTA
*
11263 -TTATTCTCTTTTGATTTTATTATTTTTTTA
1 TTTATT-T-TTTT-ATTTTATTATTTATTTA
11293 GTTTATTATTTTTATTTT
1 -TTTATT-TTTTTATTTT
11311 TCTTTGATCT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
28 5 0.12
29 2 0.05
30 24 0.59
31 4 0.10
32 6 0.15
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (28 bp):
TTTATTTTTTTATTTTATTATTTATTTA
Found at i:14080 original size:95 final size:95
Alignment explanation
Indices: 13975--14173 Score: 258
Period size: 95 Copynumber: 2.1 Consensus size: 95
13965 ATTATAATTA
* * *
13975 TATATATATACAATAAAGCTTGA-TCTGTCCCTCTAGAGCAATTGGTTAAACG-CCCTAACTTTA
1 TATA-ATATACAATAAAGCTCGAGT-TGTCCATCTAGAGCAATTGGTTAAACGCCCCGAA-TTTA
* *
14038 TTGATAAGATTCAACTAGCCTGATAAAGGCGAT
63 TGGACAAGATTCAACTAGCCTGATAAAGGCGAT
* * *
14071 TATAATATACAATAAAGCTCGAGTTGTCCATCTGGAGCAATTGGTTAAATGCCCCGGATTTATGG
1 TATAATATACAATAAAGCTCGAGTTGTCCATCTAGAGCAATTGGTTAAACGCCCCGAATTTATGG
* * *
14136 ACAATATTCAGCTAGCCTGATAAAGGTGAT
66 ACAAGATTCAACTAGCCTGATAAAGGCGAT
14166 TATAATAT
1 TATAATAT
14174 CTATACAATG
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
95 81 0.90
96 9 0.10
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (95 bp):
TATAATATACAATAAAGCTCGAGTTGTCCATCTAGAGCAATTGGTTAAACGCCCCGAATTTATGG
ACAAGATTCAACTAGCCTGATAAAGGCGAT
Found at i:15201 original size:80 final size:80
Alignment explanation
Indices: 15065--15368 Score: 385
Period size: 80 Copynumber: 3.8 Consensus size: 80
15055 TTGACCTGTT
* * * ** *
15065 CAAAGACCTACGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTGCAATATAGCTTAAGGAA
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCTAAAGGAA
*
15130 AGAAGGGCTATCTGC
66 AGAAGGGTTATCTGC
* * * * *
15145 CAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGAAAATCATTTGTAGCATAGCTCAAGGCA
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCTAAAGGAA
* *
15210 AGAAAGGTTATCTAC
66 AGAAGGGTTATCTGC
* * * *
15225 CAAAAACCTTCGAGTTCGATTTCACTCAGCTCAAAGGTAAATCATTTGCAGAATAGCTAAAGGAA
1 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCTAAAGGAA
15290 AGAAGGGTTATCTGC
66 AGAAGGGTTATCTGC
* * * *
15305 CTAAA-ACCTTCGAGTTCGATTTCACTCATCTCAAAGGCACATCATTTACAGCATAGCTCAAAGG
1 C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCT-AAAGG
15369 CACATCATTT
Statistics
Matches: 194, Mismatches: 28, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
80 186 0.96
81 8 0.04
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (80 bp):
CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCTAAAGGAA
AGAAGGGTTATCTGC
Found at i:15260 original size:160 final size:161
Alignment explanation
Indices: 15065--15370 Score: 438
Period size: 160 Copynumber: 1.9 Consensus size: 161
15055 TTGACCTGTT
* * * *
15065 CAAAGACCTACGAGTTCGATTACATTCAGCTCAAAGGCACATCATTTGCA-ATATAGCTTAAGGA
1 CAAAAACCTACGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGA-ATAGCTAAAGGA
* *
15129 AAGAAGGGCTATCTGCC-AAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGAAAATCATTTG
65 AAGAAGGGCTATCTGCCTAAA-ACCTTCGAGTTCGATTACACTCAGCTCAAAGGAAAATCATTTA
*
15193 TAGCATAGCTC-AAGGCAAGAAAGGTTATCTAC
129 CAGCATAGCTCAAAGGCAAGAAAGGTTATCTAC
* * *
15225 CAAAAACCTTCGAGTTCGATTTCACTCAGCTCAAAGGTAAATCATTTGCAGAATAGCTAAAGGAA
1 CAAAAACCTACGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAA
* * * * *
15290 AGAAGGGTTATCTGCCTAAAACCTTCGAGTTCGATTTCACTCATCTCAAAGGCACATCATTTACA
66 AGAAGGGCTATCTGCCTAAAACCTTCGAGTTCGATTACACTCAGCTCAAAGGAAAATCATTTACA
15355 GCATAGCTCAAAGGCA
131 GCATAGCTCAAAGGCA
15371 CATCATTTGC
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
160 118 0.92
161 10 0.08
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (161 bp):
CAAAAACCTACGAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAA
AGAAGGGCTATCTGCCTAAAACCTTCGAGTTCGATTACACTCAGCTCAAAGGAAAATCATTTACA
GCATAGCTCAAAGGCAAGAAAGGTTATCTAC
Found at i:15364 original size:27 final size:27
Alignment explanation
Indices: 15334--15396 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
15324 TTTCACTCAT
15334 CTCAAAGGCACATCATTTACAGCATAG
1 CTCAAAGGCACATCATTTACAGCATAG
*
15361 CTCAAAGGCACATCATTTGCAGCATAG
1 CTCAAAGGCACATCATTTACAGCATAG
15388 CTC-AAGGCA
1 CTCAAAGGCA
15397 AGAAGGGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (27 bp):
CTCAAAGGCACATCATTTACAGCATAG
Found at i:15445 original size:107 final size:107
Alignment explanation
Indices: 15252--15469 Score: 330
Period size: 107 Copynumber: 2.0 Consensus size: 107
15242 GATTTCACTC
* *
15252 AGCTCAAAGGTAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGTTATCTGCCTAAAACCTTCG
1 AGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGCTATCTGCCTAAAACCTTCG
*
15317 AGTTCGATTTCACTCATCTCAAAGGCACATCATTTACAGCAT
66 AGTTCGATTTCACTCAGCTCAAAGGCACATCATTTACAGCAT
* * * *
15359 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC-AAAGACCTTC
1 AGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGCTATCTGCCTAAA-ACCTTC
* * *
15423 GAGTTCGATTTCATTCAGCTCAAATGCACATCATTTGCAGCAT
65 GAGTTCGATTTCACTCAGCTCAAAGGCACATCATTTACAGCAT
15466 AGCT
1 AGCT
15470 TAAGGCTAGA
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 3 0.03
107 97 0.97
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (107 bp):
AGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGCTATCTGCCTAAAACCTTCG
AGTTCGATTTCACTCAGCTCAAAGGCACATCATTTACAGCAT
Found at i:15491 original size:187 final size:187
Alignment explanation
Indices: 15172--15557 Score: 560
Period size: 187 Copynumber: 2.1 Consensus size: 187
15162 GATTACACTC
* *
15172 AGCTCAAAGGAAAATCATTTGTAGCATAGCTCAAGGCAAGAAAGGTTATCTACCAAAAACCTTCG
1 AGCTCAAAGGAAAATCATTTGCAGCATAGCTCAAGGCAAGAAAGGCTATCTACCAAAAACCTTCG
* *
15237 AGTTCGATTTCACTCAGCTCAAAGGTAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGTTATC
66 AGTTCGATTTCACTCAGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGCTATC
* *
15302 TGCCTAAA-ACCTTCGAGTTCGATTTCACTCATCTCAAAGGCACATCATTTACAGCAT
131 TGCC-AAAGACCTTCGAGTTCGATTTCACTCAGCTCAAAGACACATCATTTACAGCAT
* * * * *
15359 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
1 AGCTCAAAGGAAAATCATTTGCAGCATAGCTCAAGGCAAGAAAGGCTATCTACCAAAAACCTTCG
* * * * * **
15424 AGTTCGATTTCATTCAGCTCAAATGCACATCATTTGCAGCATAGCTTAAGGCTAGAAGGGCTATC
66 AGTTCGATTTCACTCAGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGCTATC
* * *
15489 TGCCAAAGACCTTCGAGTTTGATTTCACTCAGCTCAAAGACACATTATTTGCAGCAT
131 TGCCAAAGACCTTCGAGTTCGATTTCACTCAGCTCAAAGACACATCATTTACAGCAT
15546 AGCT-AAAGGAAA
1 AGCTCAAAGGAAA
15558 TAAGGGCTAC
Statistics
Matches: 175, Mismatches: 23, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
186 9 0.05
187 166 0.95
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (187 bp):
AGCTCAAAGGAAAATCATTTGCAGCATAGCTCAAGGCAAGAAAGGCTATCTACCAAAAACCTTCG
AGTTCGATTTCACTCAGCTCAAAGGCAAATCATTTGCAGAATAGCTAAAGGAAAGAAGGGCTATC
TGCCAAAGACCTTCGAGTTCGATTTCACTCAGCTCAAAGACACATCATTTACAGCAT
Found at i:15492 original size:80 final size:80
Alignment explanation
Indices: 15359--16213 Score: 1136
Period size: 80 Copynumber: 10.6 Consensus size: 80
15349 TTTACAGCAT
15359 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
* *
15424 AGTTCGATTTCATTC
66 AGTTCGATTACACTC
* * *
15439 AGCTCAAATGCACATCATTTGCAGCATAGCTTAAGGCTAGAAGGGCTATCTGCCAAAGACCTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
* *
15504 AGTTTGATTTCACTC
66 AGTTCGATTACACTC
* * * * * * *
15519 AGCTCAAAGACACATTATTTGCAGCATAGCTAAAGGAAATAAGGGCTACCTGCCAAAGACTTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
*
15584 AGTTC-AATACACTC
66 AGTTCGATTACACTC
* *
15598 AGCTCAAAGGCACATCATTTGTAGCTTAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
**
15663 AGTTCGATTTGACTC
66 AGTTCGATTACACTC
* * *
15678 AGCTCAAAGGCACATCATTTGCAGCATAACTTAAGGCAAGAAGGGCTATCTACCAAAGACCTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
*
15743 AGTTTGATTACACTC
66 AGTTCGATTACACTC
* *
15758 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGATCTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
* *
15823 AGTTCAATTTCACTC
66 AGTTCGATTACACTC
* * * *
15838 GGCTCAAAGGAACATCATTTGCAGCATAGCTCAAGACAAGAAGGGTTATCTGCCAAAGACCTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
15903 AGTTCGATTACACTC
66 AGTTCGATTACACTC
* * *
15918 AGCTCAAAGGCACATAATTTGCAGCATAGCTCAAGACAAGAAGGGCTACCTGCCAAAGACCTTCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
15983 AGTTCGATTACACTC
66 AGTTCGATTACACTC
* *
15998 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTGCG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
*
16063 AGTTCGATTACATTC
66 AGTTCGATTACACTC
* * * * * * ** * * *
16078 AACTCAAAGGCATACCAAATTTACAGCATAACTCGAGGTGAGAAGGGTTATCTATCATCTAAGAC
1 AGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCT-GC--CAAAGAC
*
16143 CTTCGAGTTCGATTACATTC
61 CTTCGAGTTCGATTACACTC
* * * * ** *
16163 AACTCAGAGGCAAATCAAACTTATAACATAGCTCAAGGCAAGAAGGGCTAT
1 AGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTAT
16214 ATGTCAACAA
Statistics
Matches: 685, Mismatches: 84, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
79 68 0.10
80 521 0.76
82 30 0.04
83 1 0.00
85 65 0.09
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (80 bp):
AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
AGTTCGATTACACTC
Found at i:15586 original size:267 final size:266
Alignment explanation
Indices: 15092--15635 Score: 759
Period size: 267 Copynumber: 2.0 Consensus size: 266
15082 GATTACATTC
* * *
15092 AGCTCAAAGGCACATCATTTGCAATATAGCTTAAGGAAAGAAGGGCTATCTGCCAAAGACCTTTG
1 AGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGAAAGAAGGGCTATCTGCCAAAGACCTTCG
* *
15157 AGTTCGATTACACTCAGCTCAAAGGAAAATCATTTGTAGCATAGCTCAAGGCAAGAAAGGTTATC
66 AGTTCGATTACACTCAGCTCAAAGGAAAATCATTTGCAGCATAGCTCAAGGCAAGAAAGGCTATC
**
15222 TACCAAAAACCTTCGAGTTCGATTTCACTCAGCTCAAAGGTAAATCATTTGCAGAATAGCTAAAG
131 TACCAAAAACCTTCGAGTTCGATTTCACTCAGCTCAAAGACAAATCATTTGCAGAATAGCTAAAG
* * * * *
15287 GAAAGAAGGGTTATCTGCCTAAAACCTTCGAGTTCGATTTCACTCATCTCAAAGGCACATCATTT
196 GAAAGAAGGGCTACCTGCCTAAAACCTTCGAGTTC-AATACACTCAGCTCAAAGGCACATCATTT
15352 ACAGCAT
260 ACAGCAT
* *
15359 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCG
1 AGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGAAAGAAGGGCTATCTGCCAAAGACCTTCG
* * * * * * * *
15424 AGTTCGATTTCATTCAGCTCAAATGCACATCATTTGCAGCATAGCTTAAGGCTAGAAGGGCTATC
66 AGTTCGATTACACTCAGCTCAAAGGAAAATCATTTGCAGCATAGCTCAAGGCAAGAAAGGCTATC
* * * * * *
15489 TGCCAAAGACCTTCGAGTTTGATTTCACTCAGCTCAAAGACACATTATTTGCAGCATAGCTAAAG
131 TACCAAAAACCTTCGAGTTCGATTTCACTCAGCTCAAAGACAAATCATTTGCAGAATAGCTAAAG
* *
15554 GAAATAAGGGCTACCTGCC-AAAGACTTTCGAGTTCAATACACTCAGCTCAAAGGCACATCATTT
196 GAAAGAAGGGCTACCTGCCTAAA-ACCTTCGAGTTCAATACACTCAGCTCAAAGGCACATCATTT
** *
15618 GTAGCTT
260 ACAGCAT
15625 AGCTC-AAGGCA
1 AGCTCAAAGGCA
15636 AGAAGGGCTA
Statistics
Matches: 243, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
265 6 0.02
266 38 0.16
267 199 0.82
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (266 bp):
AGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGAAAGAAGGGCTATCTGCCAAAGACCTTCG
AGTTCGATTACACTCAGCTCAAAGGAAAATCATTTGCAGCATAGCTCAAGGCAAGAAAGGCTATC
TACCAAAAACCTTCGAGTTCGATTTCACTCAGCTCAAAGACAAATCATTTGCAGAATAGCTAAAG
GAAAGAAGGGCTACCTGCCTAAAACCTTCGAGTTCAATACACTCAGCTCAAAGGCACATCATTTA
CAGCAT
Found at i:16781 original size:18 final size:19
Alignment explanation
Indices: 16758--16801 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
16748 TTTCGTCCGT
*
16758 ATATATTTATTTATAT-GC
1 ATATATTTATTAATATAGC
*
16776 ATATATATATTAATATAGC
1 ATATATTTATTAATATAGC
16795 ATA-ATTT
1 ATATATTT
16802 TTGAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (19 bp):
ATATATTTATTAATATAGC
Found at i:16924 original size:36 final size:34
Alignment explanation
Indices: 16854--16930 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
16844 GCAGTTTTCA
* * * *
16854 AAAATATATATTATGTAGTTTTGAAAACGCTTTG
1 AAAACATATATTATATAGTTTTAAAAAAGCTTTG
*
16888 AAAACATATATTATATAGTTTTAAAAATAGTTTTTG
1 AAAACATATATTATATAGTTTTAAAAA-AG-CTTTG
16924 AAAACAT
1 AAAACAT
16931 TTTTTTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 24 0.67
35 1 0.03
36 11 0.31
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.40
Consensus pattern (34 bp):
AAAACATATATTATATAGTTTTAAAAAAGCTTTG
Found at i:16947 original size:84 final size:84
Alignment explanation
Indices: 16848--17049 Score: 200
Period size: 85 Copynumber: 2.4 Consensus size: 84
16838 TATAAAGCAG
*
16848 TTTTCAAAAATATATATTATGTAGTTTTGAAAAC-GCTTTGAA-A-ACATATAT-TATATAGTTT
1 TTTTC-AAAATATATATTAT-TAGTTTTGAAAACAGCTTTGAATATACATATATATATATA-TAT
*
16909 TAAAA-ATAGTTTTTGAAAACAT
63 AAAAATATAGTTTTTG-AAACAT
** ** * *
16931 TTTTTTAAATATATA-TATATAGTGTTTGAAAACATTTTTTAATATATATATATATATATATATA
1 TTTTCAAAATATATATTAT-TAGT-TTTGAAAACAGCTTTGAATATACATATATATATATATATA
16995 AAAATATAGTTTTTGAAACAT
64 AAAATATAGTTTTTGAAACAT
* * *
17016 TTTTGAAAACATATATTATATGGTTTTGAAAACA
1 TTTTCAAAATATATATTAT-TAGTTTTGAAAACA
17050 TATATTATAT
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
81 7 0.07
82 18 0.18
83 9 0.09
84 1 0.01
85 41 0.41
86 23 0.23
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (84 bp):
TTTTCAAAATATATATTATTAGTTTTGAAAACAGCTTTGAATATACATATATATATATATATAAA
AATATAGTTTTTGAAACAT
Found at i:16975 original size:33 final size:35
Alignment explanation
Indices: 16914--16986 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
16904 AGTTTTAAAA
*
16914 ATAGTTTTTGAAAACATTTTTTTAAATATATATAT
1 ATAGTGTTTGAAAACATTTTTTTAAATATATATAT
16949 ATAGTGTTTGAAAACA-TTTTTTAATATATATATAT
1 ATAGTGTTTGAAAACATTTTTTTAA-ATATATATAT
16984 ATA
1 ATA
16987 TATATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 8 0.22
35 28 0.78
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (35 bp):
ATAGTGTTTGAAAACATTTTTTTAAATATATATAT
Found at i:17044 original size:85 final size:85
Alignment explanation
Indices: 16893--17050 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 85
16883 CTTTGAAAAC
* * ** *
16893 ATATATTATATAGTTTTAAAAATAGTTTTTGAAAACATTTTTTTAAATATATATATATAGTGTTT
1 ATATATTATATAGTATAAAAAATAGTTTTTGAAAACATTTTTGAAAACATATATATATAGTGTTT
16958 GAAAACATTTTTTAATATAT
66 GAAAACATTTTTTAATATAT
*
16978 ATATATATATATA-TATAAAAATATAGTTTTTG-AAACATTTTTGAAAACATATATTATATGGT-
1 ATATAT-TATATAGTATAAAAA-ATAGTTTTTGAAAACATTTTTGAAAACATATA-TATATAGTG
17040 TTTGAAAACAT
63 TTTGAAAACAT
17051 ATATTATATG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 41 0.64
86 23 0.36
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (85 bp):
ATATATTATATAGTATAAAAAATAGTTTTTGAAAACATTTTTGAAAACATATATATATAGTGTTT
GAAAACATTTTTTAATATAT
Found at i:17077 original size:25 final size:23
Alignment explanation
Indices: 17016--17096 Score: 126
Period size: 23 Copynumber: 3.4 Consensus size: 23
17006 TTTGAAACAT
17016 TTTTGAAAACATATATTATATGG
1 TTTTGAAAACATATATTATATGG
17039 TTTTGAAAACATATATTATATGG
1 TTTTGAAAACATATATTATATGG
17062 TTTTGAAAACATATATATAATATAGG
1 TTTTGAAAACATATAT-T-ATAT-GG
*
17088 TTTTTAAAA
1 TTTTGAAAA
17097 TATTTTTGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
23 39 0.72
24 1 0.02
25 4 0.07
26 10 0.19
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
TTTTGAAAACATATATTATATGG
Found at i:17108 original size:11 final size:11
Alignment explanation
Indices: 17088--17143 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
17078 ATAATATAGG
17088 TTTTTAAAATA
1 TTTTTAAAATA
*
17099 TTTTTGAAATA
1 TTTTTAAAATA
* * *
17110 TATATATAAT-
1 TTTTTAAAATA
*
17120 TTTTTAAAACA
1 TTTTTAAAATA
17131 TTTTTAAATATA
1 TTTTTAAA-ATA
17143 T
1 T
17144 ATAATATATA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
10 6 0.18
11 24 0.73
12 3 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:17111 original size:33 final size:33
Alignment explanation
Indices: 17074--17174 Score: 116
Period size: 32 Copynumber: 3.1 Consensus size: 33
17064 TTGAAAACAT
*
17074 ATATATAATATAGGTTTTTAAAATATTTTTGAA
1 ATATATAATATAAGTTTTTAAAATATTTTTGAA
* * *
17107 ATATAT-ATATAATTTTTTAAAACATTTTTAAA
1 ATATATAATATAAGTTTTTAAAATATTTTTGAA
* *
17139 TATATATAATATATAG-TTTGAAAATGTTTTTGAA
1 -ATATATAATATA-AGTTTTTAAAATATTTTTGAA
17173 AT
1 AT
17175 TTTGAAAACA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
32 22 0.39
33 14 0.25
34 19 0.34
35 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.49
Consensus pattern (33 bp):
ATATATAATATAAGTTTTTAAAATATTTTTGAA
Found at i:17248 original size:17 final size:16
Alignment explanation
Indices: 17214--17261 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
17204 TATATATTTG
*
17214 TTTTTTATTATTTATT
1 TTTTTTATTATTCATT
*
17230 TTATTTTATTATTCGTT
1 TT-TTTTATTATTCATT
17247 TTTGTTTATTTATTC
1 TTT-TTTA-TTATTC
17262 TTTAGTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 3 0.11
17 18 0.67
18 6 0.22
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTTTTATTATTCATT
Found at i:18430 original size:16 final size:15
Alignment explanation
Indices: 18402--18460 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
18392 CATTAGCATT
18402 ATTATTCTTATTTTTC
1 ATTATT-TTATTTTTC
*
18418 ATGTATTTTATTTTTT
1 AT-TATTTTATTTTTC
*
18434 ATTTTTTTATTTTATC
1 ATTATTTTATTTT-TC
*
18450 -TCATTTTATTT
1 ATTATTTTATTT
18461 CTTCGATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 19 0.53
16 13 0.36
17 4 0.11
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTATTTTATTTTTC
Found at i:18441 original size:8 final size:8
Alignment explanation
Indices: 18423--18545 Score: 61
Period size: 8 Copynumber: 15.0 Consensus size: 8
18413 TTTTCATGTA
18423 TTTTA-TT
1 TTTTATTT
18430 TTTTATTT
1 TTTTATTT
18438 TTTTA-TT
1 TTTTATTT
* * **
18445 TTATCTCA
1 TTTTATTT
18453 TTTTATTT
1 TTTTATTT
**
18461 CTTCGATTT
1 -TTTTATTT
* *
18470 TTTCTCTAT
1 TTT-TATTT
18479 TTTTATTT
1 TTTTATTT
*
18487 ATTTATTT
1 TTTTATTT
*
18495 TTTTCTTCT
1 TTTTATT-T
18504 CTTTTGATTT
1 -TTTT-ATTT
*
18514 TATTATTT
1 TTTTATTT
*
18522 TTTTAGTT
1 TTTTATTT
*
18530 TATTATTT
1 TTTTATTT
*
18538 TTATATTT
1 TTTTATTT
18546 GTCTTTGATC
Statistics
Matches: 82, Mismatches: 27, Indels: 13
0.67 0.22 0.11
Matches are distributed among these distances:
7 10 0.12
8 50 0.61
9 15 0.18
10 5 0.06
11 2 0.02
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTTATTT
Found at i:18496 original size:26 final size:24
Alignment explanation
Indices: 18429--18524 Score: 79
Period size: 26 Copynumber: 3.8 Consensus size: 24
18419 TGTATTTTAT
*
18429 TTTTTATTTTTTTATTTTATCTC-A
1 TTTTTA-TTTTTTATTTTTTCTCTA
*
18453 -TTTTATTTCTTCGATTTTTTCTCTA
1 TTTTTATTT-TT-TATTTTTTCTCTA
*
18478 TTTTTATTTATTTATTTTTTTCTTCTC
1 TTTTTATTT-TTTA-TTTTTTC-TCTA
*
18505 TTTTGATTTTATTATTTTTT
1 TTTTTATTTT-TTATTTTTT
18525 TAGTTTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
22 3 0.05
23 7 0.12
24 9 0.15
25 2 0.03
26 24 0.41
27 14 0.24
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTTATTTTTTATTTTTTCTCTA
Found at i:18508 original size:27 final size:26
Alignment explanation
Indices: 18467--18525 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
18457 ATTTCTTCGA
*
18467 TTTTTTCTCTATTTTTA-TTTATTTAT
1 TTTTTTCTCTATTTTGATTTTA-TTAT
*
18493 TTTTTTCTTCTCTTTTGATTTTATTAT
1 TTTTTTC-TCTATTTTGATTTTATTAT
18520 TTTTTT
1 TTTTTT
18526 AGTTTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.24
27 18 0.62
28 4 0.14
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTTTCTCTATTTTGATTTTATTAT
Found at i:21893 original size:46 final size:45
Alignment explanation
Indices: 21804--22142 Score: 205
Period size: 46 Copynumber: 7.8 Consensus size: 45
21794 TGGTCGAGTA
*
21804 ATGACATGGTTCCTACGCGATGAGGACGGTA-T-GTCATCTAAGGGTG
1 ATGACATGGTTCCTACGTGATGAGGAC-G-ACTGGTCATC-AAGGGTG
* * *
21850 ATAACATTGTTCCTACGTGATGAGGACGACTGGTTATCAAAGGG-G
1 ATGACATGGTTCCTACGTGATGAGGACGACTGGTCATC-AAGGGTG
* * *
21895 -TGACACGGCTCCTACGTGATGAGGA-GATCAGG---TC-A-GGTG
1 ATGACATGGTTCCTACGTGATGAGGACGA-CTGGTCATCAAGGGTG
* * *
21934 ATGACATGGTTCCTACGTGATGAGGACGA-TAGATCATTTAAAGGTG
1 ATGACATGGTTCCTACGTGATGAGGACGACT-GGTCA-TCAAGGGTG
* * * * * *
21980 ATAACACGATTCCTATGTGATGAGGACGACTGGTTATC-TGGG-G
1 ATGACATGGTTCCTACGTGATGAGGACGACTGGTCATCAAGGGTG
* * *
22023 TTGACATGGTTCCTACGTGATGAGGA-AATCAGG---TC--GGGTG
1 ATGACATGGTTCCTACGTGATGAGGACGA-CTGGTCATCAAGGGTG
* * **
22063 ATGACACGGTTCCTACGCGATGAGGACGACAT-ACCATCTAAGGGTG
1 ATGACATGGTTCCTACGTGATGAGGACGAC-TGGTCATC-AAGGGTG
* ** *
22109 ATAACACAGTTCCTGCGTGATGAGGACGACTGGT
1 ATGACATGGTTCCTACGTGATGAGGACGACTGGT
22143 TATCTGGGTT
Statistics
Matches: 225, Mismatches: 43, Indels: 50
0.71 0.14 0.16
Matches are distributed among these distances:
38 2 0.01
39 5 0.02
40 51 0.23
41 5 0.02
42 1 0.00
43 29 0.13
44 28 0.12
45 6 0.03
46 97 0.43
47 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
ATGACATGGTTCCTACGTGATGAGGACGACTGGTCATCAAGGGTG
Found at i:21896 original size:130 final size:131
Alignment explanation
Indices: 21713--22219 Score: 559
Period size: 130 Copynumber: 3.9 Consensus size: 131
21703 TATCTTTACG
* ** * * *
21713 AAGGGTGATAAC-TCGATTCCTACGCGATGAGGATAACTAGCTATCAAAGGGGTGACACGACTCC
1 AAGGGTGATAACATCGATTCCTACGTGATGAGGACGACTGGTTATCAAAGGGGTGACACGGCTCC
* * * *
21777 TATGTGATGAGGAGATCTGGTCGAGTAATGACATGGTTCCTACGCGATGAGGACGGTATGTCATC
66 TACGTGATGAGGAGATCAGGTCGAGTGATGACATGGTTCCTACGCGATGAGGACGATATGTCATC
21842 T
131 T
*
21843 AAGGGTGATAACATTG-TTCCTACGTGATGAGGACGACTGGTTATCAAAGGGGTGACACGGCTCC
1 AAGGGTGATAACATCGATTCCTACGTGATGAGGACGACTGGTTATCAAAGGGGTGACACGGCTCC
*
21907 TACGTGATGAGGAGATCAGGTC-AGGTGATGACATGGTTCCTACGTGATGAGGACGATA-GATCA
66 TACGTGATGAGGAGATCAGGTCGA-GTGATGACATGGTTCCTACGCGATGAGGACGATATG-TCA
*
21970 TTT
129 TCT
* * * * *
21973 AAAGGTGATAACA-CGATTCCTATGTGATGAGGACGACTGGTTATC--TGGGGTTGACATGGTTC
1 AAGGGTGATAACATCGATTCCTACGTGATGAGGACGACTGGTTATCAAAGGGG-TGACACGGCTC
* * * * **
22035 CTACGTGATGAGGAAATCAGGTCGGGTGATGACACGGTTCCTACGCGATGAGGACGACATACCAT
65 CTACGTGATGAGGAGATCAGGTCGAGTGATGACATGGTTCCTACGCGATGAGGACGATATGTCAT
22100 CT
130 CT
* * * * *
22102 AAGGGTGATAACA-C-AGTTCCTGCGTGATGAGGACGACTGGTTATC--TGGGTTGACACAGCTT
1 AAGGGTGATAACATCGA-TTCCTACGTGATGAGGACGACTGGTTATCAAAGGGGTGACACGGCTC
* * * * * * * **
22163 CTACATAATGAGGAAATCTGGTCGGGTGATGACACGGTTCATACATGATGAGGACGA
65 CTACGTGATGAGGAGATCAGGTCGAGTGATGACATGGTTCCTACGCGATGAGGACGA
22220 CTGGTTATCT
Statistics
Matches: 328, Mismatches: 41, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
128 63 0.19
129 113 0.34
130 150 0.46
131 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (131 bp):
AAGGGTGATAACATCGATTCCTACGTGATGAGGACGACTGGTTATCAAAGGGGTGACACGGCTCC
TACGTGATGAGGAGATCAGGTCGAGTGATGACATGGTTCCTACGCGATGAGGACGATATGTCATC
T
Found at i:21950 original size:40 final size:41
Alignment explanation
Indices: 21774--22091 Score: 166
Period size: 40 Copynumber: 7.5 Consensus size: 41
21764 GTGACACGAC
* * *
21774 TCCTATGTGATGAGGA-GATCTGGTC-GAGTAATGACATGGT
1 TCCTACGTGATGAGGACGATCAGGTCAG-GTGATGACATGGT
* ** * * *
21814 TCCTACGCGATGAGGACGGTATGTCATCTAAGGGTGATAACATTGT
1 TCCTACGTGATGAGGAC-G-A--TCAGGTCA-GGTGATGACATGGT
* * * *
21860 TCCTACGTGATGAGGACGA-CTGGTTATCAAAGG-GGTGACACGGC
1 TCCTACGTGATGAGGACGATCAGG---TC--AGGTGATGACATGGT
21904 TCCTACGTGATGAGGA-GATCAGGTCAGGTGATGACATGGT
1 TCCTACGTGATGAGGACGATCAGGTCAGGTGATGACATGGT
* * * *
21944 TCCTACGTGATGAGGACGAT-AGATCATTTAAAGGTGATAACACGAT
1 TCCTACGTGATGAGGACGATCAGGTC------AGGTGATGACATGGT
* * * * *
21990 TCCTATGTGATGAGGACGA-CTGGTTATCTGGGGTTGACATGGT
1 TCCTACGTGATGAGGACGATCAGG---TCAGGTGATGACATGGT
* * *
22033 TCCTACGTGATGAGGA-AATCAGGTCGGGTGATGACACGGT
1 TCCTACGTGATGAGGACGATCAGGTCAGGTGATGACATGGT
*
22073 TCCTACGCGATGAGGACGA
1 TCCTACGTGATGAGGACGA
22092 CATACCATCT
Statistics
Matches: 206, Mismatches: 45, Indels: 53
0.68 0.15 0.17
Matches are distributed among these distances:
39 3 0.01
40 70 0.34
41 7 0.03
42 2 0.01
43 30 0.15
44 27 0.13
45 6 0.03
46 58 0.28
47 1 0.00
49 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (41 bp):
TCCTACGTGATGAGGACGATCAGGTCAGGTGATGACATGGT
Found at i:22174 original size:42 final size:42
Alignment explanation
Indices: 22126--22255 Score: 137
Period size: 42 Copynumber: 3.1 Consensus size: 42
22116 AGTTCCTGCG
22126 TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTTCTACA
1 TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTTCTACA
* * *
22168 TAATGAGGA-AATCTGG---TC-GGGTGATGACAC-GGTTCATACA
1 TGATGAGGACGA-CTGGTTATCTGGGT--TGACACAGCTTC-TACA
* *
22208 TGATGAGGACGACTGGTTATCTGGGTTGATACAGCTCCTACA
1 TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTTCTACA
22250 TGATGA
1 TGATGA
22256 AGAGATCTGG
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
38 4 0.06
39 6 0.09
40 22 0.31
41 2 0.03
42 27 0.39
43 5 0.07
44 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (42 bp):
TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTTCTACA
Found at i:22213 original size:82 final size:82
Alignment explanation
Indices: 22126--22293 Score: 248
Period size: 82 Copynumber: 2.0 Consensus size: 82
22116 AGTTCCTGCG
* *
22126 TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTTCTACATAATGAGGAAATCTGGTCGG-GT
1 TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATAATGAAGAAATCTGGTCGGTG-
*
22190 GATGACACGGTTCATACA
65 GATGACACGGCTCATACA
* * *
22208 TGATGAGGACGACTGGTTATCTGGGTTGATACAGCTCCTACATGATGAAGAGATCTGGTCGGTGG
1 TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATAATGAAGAAATCTGGTCGGTGG
* *
22273 ATGACATGGCTCATACG
66 ATGACACGGCTCATACA
22290 TGAT
1 TGAT
22294 AAAGAGTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 76 0.99
83 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (82 bp):
TGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATAATGAAGAAATCTGGTCGGTGG
ATGACACGGCTCATACA
Found at i:22224 original size:40 final size:41
Alignment explanation
Indices: 21765--22224 Score: 178
Period size: 46 Copynumber: 10.8 Consensus size: 41
21755 ATCAAAGGGG
** * * *
21765 TGACACGACTCCTATGTGATGAGGA-GATCTGGTC-GAGTAA
1 TGACACGGTTCCTACGTGATGAGGACGA-CTGGTCTGGGTGA
* * *
21805 TGACATGGTTCCTACGCGATGAGGACGGTA-TGTCATCTAAGGGTGA
1 TGACACGGTTCCTACGTGATGAGGAC-G-ACTG--GTCT--GGGTGA
* ** *
21851 TAACATTGTTCCTACGTGATGAGGACGACTGGTTATCAAAGGG-G-
1 TGACACGGTTCCTACGTGATGAGGACGACTGG---TC--TGGGTGA
* * *
21895 TGACACGGCTCCTACGTGATGAGGA-GATCAGGTC-AGGTGA
1 TGACACGGTTCCTACGTGATGAGGACGA-CTGGTCTGGGTGA
* * *
21935 TGACATGGTTCCTACGTGATGAGGACGA-TAGATCATTTAAAGGTGA
1 TGACACGGTTCCTACGTGATGAGGACGACT-GGTC---T--GGGTGA
* * * *
21981 TAACACGATTCCTATGTGATGAGGACGACTGGTTATCTGGG-GT
1 TGACACGGTTCCTACGTGATGAGGACGACTGG---TCTGGGTGA
* * *
22024 TGACATGGTTCCTACGTGATGAGGA-AATCAGGTC-GGGTGA
1 TGACACGGTTCCTACGTGATGAGGACGA-CTGGTCTGGGTGA
* **
22064 TGACACGGTTCCTACGCGATGAGGACGACATACCATCTAAGGGTGA
1 TGACACGGTTCCTACGTGATGAGGACGAC-T--GGTCT--GGGTGA
* * *
22110 TAACACAGTTCCTGCGTGATGAGGACGACTGGTTATCTGGGT--
1 TGACACGGTTCCTACGTGATGAGGACGACTGG---TCTGGGTGA
* * * *
22152 TGACACAGCTT-CTACATAATGAGGA-AATCTGGTC-GGGTGA
1 TGACAC-GGTTCCTACGTGATGAGGACGA-CTGGTCTGGGTGA
* *
22192 TGACACGGTTCATACATGATGAGGACGACTGGT
1 TGACACGGTTCCTACGTGATGAGGACGACTGGT
22225 TATCTGGGTT
Statistics
Matches: 313, Mismatches: 60, Indels: 94
0.67 0.13 0.20
Matches are distributed among these distances:
38 6 0.02
39 9 0.03
40 96 0.31
41 9 0.03
42 22 0.07
43 34 0.11
44 31 0.10
45 5 0.02
46 98 0.31
47 1 0.00
49 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (41 bp):
TGACACGGTTCCTACGTGATGAGGACGACTGGTCTGGGTGA
Found at i:22399 original size:20 final size:21
Alignment explanation
Indices: 22374--22420 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
22364 ATATGTCTCA
*
22374 AAAGAG-AAAATTTTGTTTTT
1 AAAGAGAAAAATTTTGTTTTC
22394 AAAGAGACAAAATTTTGTTTTC
1 AAAGAGA-AAAATTTTGTTTTC
22416 AAAGA
1 AAAGA
22421 AACAAACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
22 18 0.75
ACGTcount: A:0.45, C:0.04, G:0.15, T:0.36
Consensus pattern (21 bp):
AAAGAGAAAAATTTTGTTTTC
Found at i:22408 original size:22 final size:22
Alignment explanation
Indices: 22380--22426 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
22370 CTCAAAAGAG
* *
22380 AAAATTTTGTTTTTAAAGAGAC
1 AAAATTTTGTTTTCAAAGAAAC
22402 AAAATTTTGTTTTCAAAGAAAC
1 AAAATTTTGTTTTCAAAGAAAC
22424 AAA
1 AAA
22427 CTCAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (22 bp):
AAAATTTTGTTTTCAAAGAAAC
Found at i:22709 original size:32 final size:32
Alignment explanation
Indices: 22668--22751 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
22658 TTCACATCAG
* *
22668 GATGTTGAATCCCCAAAGATACCCCAATATTC
1 GATGTTGAATCTCCAAAGATACCCCAACATTC
* *
22700 GATGTTGAATCTCCAAAGATGCCCCAACATTT
1 GATGTTGAATCTCCAAAGATACCCCAACATTC
*
22732 GATGTTGAATCTTCAAAGAT
1 GATGTTGAATCTCCAAAGAT
22752 TCCCTCATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATACCCCAACATTC
Found at i:23802 original size:7 final size:7
Alignment explanation
Indices: 23790--23865 Score: 57
Period size: 7 Copynumber: 10.1 Consensus size: 7
23780 TTTTTCTTTG
23790 TTTTTTC
1 TTTTTTC
23797 TTTTTTTC
1 -TTTTTTC
23805 TTTGTTTC
1 TTT-TTTC
23813 -TTTTTC
1 TTTTTTC
23819 TTTTTGCTC
1 TTTTT--TC
*
23828 TTTGTTGC
1 TTT-TTTC
*
23836 TCTTTTC
1 TTTTTTC
23843 TTTTTTC
1 TTTTTTC
23850 TTTCTTT-
1 TTT-TTTC
23857 TTTTGTTC
1 TTTT-TTC
23865 T
1 T
23866 GATTGGATCT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
6 5 0.09
7 26 0.46
8 18 0.32
9 5 0.09
10 2 0.04
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:23822 original size:19 final size:19
Alignment explanation
Indices: 23781--23822 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23771 TCTCGTCCAT
*
23781 TTTTCTTTGTTTTTTCTTT
1 TTTTCTTTGTTTTTTCTTC
23800 TTTTCTTTGTTTCTTT-TTC
1 TTTTCTTTGTTT-TTTCTTC
23819 TTTT
1 TTTT
23823 TGCTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (19 bp):
TTTTCTTTGTTTTTTCTTC
Found at i:23824 original size:16 final size:16
Alignment explanation
Indices: 23780--23824 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
23770 TTCTCGTCCA
*
23780 TTTTTCTTTGTTTTTTC
1 TTTTTCTTT-TTGTTTC
23797 TTTTT-TTCTTTGTTTC
1 TTTTTCTT-TTTGTTTC
23813 TTTTTCTTTTTG
1 TTTTTCTTTTTG
23825 CTCTTTGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTTGTTTC
Found at i:23860 original size:19 final size:20
Alignment explanation
Indices: 23780--23852 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 20
23770 TTCTCGTCCA
23780 TTTTTCTTTGTTT-TTTCTT
1 TTTTTCTTTGTTTCTTTCTT
23799 TTTTTCTTTGTTTCTTTTTCTT
1 TTTTTCTTTGTTTC--TTTCTT
*
23821 TTTGCTCTTTGTTGCTCTTT-TCT
1 TTT-TTCTTTGTT--TCTTTCT-T
23844 TTTTTCTTT
1 TTTTTCTTT
23853 CTTTTTTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
19 13 0.29
22 15 0.33
23 15 0.33
25 2 0.04
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTCTTTGTTTCTTTCTT
Found at i:26034 original size:63 final size:63
Alignment explanation
Indices: 25935--26099 Score: 240
Period size: 63 Copynumber: 2.6 Consensus size: 63
25925 ATTTATGATG
* * *
25935 ATCATGCAAAATGCGAAGAAGCAAATGCAGATGCAAAATTGATGATCCTATGAAATACAATAC
1 ATCATGCAGAATGCGAAGATGCAAATACAGATGCAAAATTGATGATCCTATGAAATACAATAC
* * * *
25998 ATCATGCAGAATGCGAAGATGCAAATATAGATGCAAAATTGATGATCCTCTGAAATGCAATGC
1 ATCATGCAGAATGCGAAGATGCAAATACAGATGCAAAATTGATGATCCTATGAAATACAATAC
* * *
26061 ATCATGCAGAATGTGAAGATACAAATACATATGCAAAAT
1 ATCATGCAGAATGCGAAGATGCAAATACAGATGCAAAAT
26100 GCAAAGATGC
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.22
Consensus pattern (63 bp):
ATCATGCAGAATGCGAAGATGCAAATACAGATGCAAAATTGATGATCCTATGAAATACAATAC
Found at i:28162 original size:2 final size:2
Alignment explanation
Indices: 28155--28222 Score: 72
Period size: 2 Copynumber: 35.5 Consensus size: 2
28145 TGTTAAAATA
* *
28155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT CAT AA AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
*
28196 A- AA AT AT -T AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28223 ACTACTCGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
1 4 0.07
2 52 0.90
3 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:29553 original size:3 final size:3
Alignment explanation
Indices: 29545--29578 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
29535 AATCTATTTA
29545 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
29579 GTTTATGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32039 original size:31 final size:31
Alignment explanation
Indices: 32004--32107 Score: 172
Period size: 31 Copynumber: 3.4 Consensus size: 31
31994 CAAAAGAACC
* *
32004 CATTTTAAATTGGTGCTCAAATTATAACCCT
1 CATTTTAAATTAGTGCTCAAACTATAACCCT
*
32035 CATTTTAAATTAATGCTCAAACTATAACCCT
1 CATTTTAAATTAGTGCTCAAACTATAACCCT
*
32066 CATTTTAAATTAGTGCTCAAACTATAACTCT
1 CATTTTAAATTAGTGCTCAAACTATAACCCT
32097 CATTTTAAATT
1 CATTTTAAATT
32108 GGTGATTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (31 bp):
CATTTTAAATTAGTGCTCAAACTATAACCCT
Found at i:32561 original size:14 final size:14
Alignment explanation
Indices: 32538--32572 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32528 TTCGATTTTA
*
32538 CGTTCGTTTATGTC
1 CGTTCATTTATGTC
32552 CGTTCATTTATGTC
1 CGTTCATTTATGTC
*
32566 CATTCAT
1 CGTTCAT
32573 GTTCGTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (14 bp):
CGTTCATTTATGTC
Found at i:32873 original size:10 final size:10
Alignment explanation
Indices: 32858--32894 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
32848 TTGTGTTGTC
32858 CGTTTATGTT
1 CGTTTATGTT
*
32868 CGTTTACGTT
1 CGTTTATGTT
32878 CGTTTATGTT
1 CGTTTATGTT
32888 CGTTTAT
1 CGTTTAT
32895 CATTTAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.11, C:0.14, G:0.19, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:33844 original size:20 final size:21
Alignment explanation
Indices: 33795--33844 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
33785 TGATTAAAAT
33795 TCATTATTTTTATTAGTTATC
1 TCATTATTTTTATTAGTTATC
* *
33816 T-ATTGTTTTT-TTAGATTATG
1 TCATTATTTTTATTAG-TTATC
33836 TCATT-TTTT
1 TCATTATTTT
33845 CTTTTCTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (21 bp):
TCATTATTTTTATTAGTTATC
Found at i:34223 original size:22 final size:22
Alignment explanation
Indices: 34198--34248 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
34188 ACGTGAGAAT
*
34198 CACGGGTTCTGCAAGGAGAGAG
1 CACGGGTTCTGCAAGGAGAAAG
*
34220 CACGGGTTCTGCAAGGAGAAAT
1 CACGGGTTCTGCAAGGAGAAAG
34242 CACGGGT
1 CACGGGT
34249 CCTGGGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.16
Consensus pattern (22 bp):
CACGGGTTCTGCAAGGAGAAAG
Found at i:34291 original size:23 final size:23
Alignment explanation
Indices: 34265--34308 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
34255 TCCTGCAAGG
34265 CTGCACGTCTGCATGTGGGGGTC
1 CTGCACGTCTGCATGTGGGGGTC
34288 CTGCACGTCTGCATGTGGGGG
1 CTGCACGTCTGCATGTGGGGG
34309 GCATGCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.25, G:0.41, T:0.25
Consensus pattern (23 bp):
CTGCACGTCTGCATGTGGGGGTC
Found at i:34315 original size:23 final size:23
Alignment explanation
Indices: 34266--34315 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
34256 CCTGCAAGGC
* *
34266 TGCACGTCTGCATGTGGGGGTCC
1 TGCACGTCTGCATGTGGGGGGCA
34289 TGCACGTCTGCATGTGGGGGGCA
1 TGCACGTCTGCATGTGGGGGGCA
34312 TGCA
1 TGCA
34316 ACTGATGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (23 bp):
TGCACGTCTGCATGTGGGGGGCA
Found at i:35044 original size:172 final size:172
Alignment explanation
Indices: 34758--35115 Score: 558
Period size: 173 Copynumber: 2.1 Consensus size: 172
34748 ATTGTAAGTT
* * * *
34758 TTAGGGACCATTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTGCTATA
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTGCTATA
*
34823 CTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-TG
66 CTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT-
*
34886 GATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
130 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * * *
34929 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGAAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAG-TGCTAT
* *
34994 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
65 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
35059 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
130 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
35102 TTAGGGATCATTTT
1 TTAGGGATCATTTT
35116 ATATTTGATG
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
171 51 0.30
172 57 0.34
173 60 0.36
174 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (172 bp):
TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTGCTATA
CTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGTG
ATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:37544 original size:36 final size:37
Alignment explanation
Indices: 37448--37980 Score: 446
Period size: 37 Copynumber: 13.7 Consensus size: 37
37438 TTATTAAATC
*
37448 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
1 ATTAAATCATT-AA-CATTAAATCATTAAAGTAATTATT
37487 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATT-AA-CATTAAATCATTAAAGTAATTATT
37526 ATTAAATCA-TAA-AGTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAACA-TTAAATCATTAAAGTAATTATT
* *
37562 A--AAATCATTAATCATTAAATCATTAAATCATTAAAATAATT
1 ATTAAATCATTAA-CATTAAATCATT-AA--AGT--AATTATT
37603 ATTAAATCATTAATCATTAAATCATTAAAGTAATTATTATT
1 ATTAAATCATTAA-CATTAAATCATTAAAGT-A--ATTATT
* ** *
37644 CATTAAAGTAATTATTATT-AATCATTAAAGTTAAATCATT
1 -ATTAAA-TCATTAACATTAAATCATTAAAG-T-AATTATT
* * * *
37684 A-AAGTAATTATTAAATCATTAAATCATTAAA-TCATTAAATC
1 ATTA--AATCATT-AA-CATTAAATCATTAAAGTAATT--ATT
* * * *
37725 ATTAAATCATTAA-AGT-AATTATTAAA-TCATTAATC
1 ATTAAATCATTAACATTAAATCATTAAAGTAATT-ATT
37760 ATT-AATCATTAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAA-CATTAAATCATTAAAGTAATTATT
* *
37797 ATTAAATCATTAAATCATTAAATCATTAAATCATTAAATAATT
1 ATTAAATCATT-AA-CATTAAATCATT-AA--AGT-AATTATT
37840 ATTATTAATCATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTA--AATCATT-AA-CATTAAATCATTAAAGTAATTATT
37881 ATTAAATCATTAA-AGTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAACA-TTAAATCATTAAAGTAATTATT
37918 ATTAAATCATTAA-AGTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAACA-TTAAATCATTAAAGTAATTATT
*
37955 ATTAAATCATTAA-AGTTAAATAATTA
1 ATTAAATCATTAACA-TTAAATCATTA
37981 TATTAAATCA
Statistics
Matches: 428, Mismatches: 29, Indels: 76
0.80 0.05 0.14
Matches are distributed among these distances:
34 15 0.04
35 11 0.03
36 50 0.12
37 105 0.25
38 15 0.04
39 82 0.19
40 19 0.04
41 39 0.09
42 29 0.07
43 38 0.09
44 2 0.00
45 23 0.05
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (37 bp):
ATTAAATCATTAACATTAAATCATTAAAGTAATTATT
Found at i:37663 original size:134 final size:136
Alignment explanation
Indices: 37363--37920 Score: 502
Period size: 136 Copynumber: 4.2 Consensus size: 136
37353 AGTAATTATT
* * ** *
37363 ATTAAATCATTAAAATTAATCATTA-AAATT-AAGT-ATTATTATTAAATTATTAAAATTAAATC
1 ATTAAATCATT-AAAGTAATTATTATTCATTAAAGTAATTATTATTAAATCATTAAAATTAAATC
37425 ATTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATT
65 ATTAAA-TAATTATTA-TAAATCATTAAATCATTAAATCATTAAATCATTAAAAT-A--ATTATT
37490 AAATCATTAAATC
125 AAATCATT-AATC
* * * *
37503 ATTAAATCATTAAAGT-A--ATTATT-ATTAAA-TCA-TA-AAGTTAAATCATT-AAAGT-AATT
1 ATTAAATCATTAAAGTAATTATTATTCATTAAAGTAATTATTA-TTAAATCATTAAAATTAAATC
*
37559 ATT-AA-AATCA-T-T-AATCATTAAATCATTAAATCA-T-------TAAAATAATTATTAAATC
65 ATTAAATAATTATTATAAATCATTAAATCATTAAATCATTAAATCATTAAAATAATTATTAAATC
37611 ATTAATC
130 ATTAATC
*
37618 ATTAAATCATTAAAGTAATTATTATTCATTAAAGTAATTATTATT-AATCATTAAAGTTAAATCA
1 ATTAAATCATTAAAGTAATTATTATTCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
*
37682 TTAAAGTAATTATTAAATCATTAAATCATTAAATCATTAAATCATTAAATCATTAAAGTAATTAT
66 TTAAA-TAATTA-T---T-A-TAAATCATTAAATCATTAAATCATTAAATCATTAAAATAATTAT
37747 TAAATCATTAATC
124 TAAATCATTAATC
* *
37760 ATT-AATCATT-AA-TCATTA--AATCATTAAAGTAATTATTATTAAATCATTAAATCATTAAAT
1 ATTAAATCATTAAAGTAATTATTATTCATTAAAGTAATTATTATTAAATCATTAAA--ATTAAAT
* * * *
37820 CATTAAATCATTA-AAT-AATTATTATTAATCATTAAATCATTAAATCATTAAAGTAATTATTAT
64 CATTAAATAATTATTATAAATCATTA--AATCATTAAATCATTAAATCATT-AA--AATAATTAT
37883 TAAATCATTAA--
124 TAAATCATTAATC
37894 AGTTAAATCATTAAAGTAATTATTATT
1 A-TTAAATCATTAAAGTAATTATTATT
37921 AAATCATTAA
Statistics
Matches: 347, Mismatches: 24, Indels: 94
0.75 0.05 0.20
Matches are distributed among these distances:
115 20 0.06
116 15 0.04
118 7 0.02
119 12 0.03
120 9 0.03
121 7 0.02
122 7 0.02
123 2 0.01
125 4 0.01
126 1 0.00
127 21 0.06
128 1 0.00
130 2 0.01
131 11 0.03
132 1 0.00
133 27 0.08
134 30 0.09
135 8 0.02
136 44 0.13
137 26 0.07
138 16 0.05
139 14 0.04
140 28 0.08
141 7 0.02
142 27 0.08
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (136 bp):
ATTAAATCATTAAAGTAATTATTATTCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCA
TTAAATAATTATTATAAATCATTAAATCATTAAATCATTAAATCATTAAAATAATTATTAAATCA
TTAATC
Found at i:37734 original size:222 final size:223
Alignment explanation
Indices: 37423--38009 Score: 667
Period size: 222 Copynumber: 2.6 Consensus size: 223
37413 TAAAATTAAA
* *
37423 TCATTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAATCATTA--AAATAATT--
1 TCATTAAAGTAATTATTATTAAATCATTAAA--GTTAAATCATTAAATCATTATTAAATCATTAA
*
37484 ATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCA-TAAAGTTAAATCA
64 ATAATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
37548 TTAAAGTAATTATTA-AAATCATT-AATCATTAAATCATTAAATCATTAAAATAATTATTA-AAT
129 TTAAAGTAATTATTATAAATCATTAAATCATTAAATCATTAAATCATT-AAATAATTATTATAAT
37610 CATT-AATCATTAAATCATTAAAGTAATTATTAT
193 CATTAAATCATTAAATCATTAAAGT-A--ATTAT
*
37643 TCATTAAAGTAATTATTATT-AATCATTAAAGTTAAATCATTAAAGTAATTATTAAATCATTAAA
1 TCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAA-TCATTATTAAATCATTAAA
*
37707 TCATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTAAATCATTAATCATTAATCATTAA
65 TAATTAAATCATTAAATCATTAAATCATTAAAGTAATTA-T---T-A-T--T-A--AATCATTAA
37772 TCA-TTAAATCATTAAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAATCATTAAAT
119 --AGTTAAATCATTAAAGTAATTATTA-TAAATCATTAAATCATTAAATCATTAAATCATTAAAT
37836 AATTATTATTAATCATTAAATCATTAAATCATTAAAGTAATTAT
181 AATTATTA-TAATCATTAAATCATTAAATCATTAAAGTAATTAT
* * *
37880 T-ATTAAA-TCATTA-AAGTTAAATCATTAAAG-TAATTATTATTAAATCATTAAAGTTAAATCA
1 TCATTAAAGTAATTATTA-TTAAATCATTAAAGTTAA--ATCATTAAATCATT--A-TTAAATCA
* *
37941 TTAAAGTAATT--ATTATTAAATCATTAAA--GTTAAA-TAATTA-TATTAAATCATTAAAGTTA
60 TTAAA-TAATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTA
*
38000 AATAATTAAA
124 AATCATTAAA
38010 TTTAAATAAT
Statistics
Matches: 321, Mismatches: 12, Indels: 66
0.80 0.03 0.17
Matches are distributed among these distances:
217 13 0.04
218 5 0.02
219 10 0.03
220 27 0.08
221 1 0.00
222 51 0.16
223 10 0.03
225 1 0.00
226 2 0.01
227 1 0.00
228 2 0.01
229 1 0.00
230 2 0.01
231 1 0.00
233 5 0.02
234 4 0.01
235 39 0.12
236 27 0.08
237 34 0.11
238 40 0.12
239 21 0.07
240 24 0.07
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (223 bp):
TCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTATTAAATCATTAAAT
AATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATT
AAAGTAATTATTATAAATCATTAAATCATTAAATCATTAAATCATTAAATAATTATTATAATCAT
TAAATCATTAAATCATTAAAGTAATTAT
Found at i:38010 original size:8 final size:8
Alignment explanation
Indices: 37363--37995 Score: 382
Period size: 8 Copynumber: 82.8 Consensus size: 8
37353 AGTAATTATT
37363 ATTAAATC
1 ATTAAATC
37371 ATTAAA--
1 ATTAAATC
37377 ATT-AATC
1 ATTAAATC
37384 ATTAAA--
1 ATTAAATC
*
37390 ATTAAGT-
1 ATTAAATC
*
37397 ATT--ATT
1 ATTAAATC
*
37403 ATTAAATT
1 ATTAAATC
37411 ATTAAA--
1 ATTAAATC
37417 ATTAAATC
1 ATTAAATC
*
37425 ATTAAAGTA
1 ATTAAA-TC
*
37434 ATT--ATT
1 ATTAAATC
37440 ATTAAATC
1 ATTAAATC
37448 ATTAAATC
1 ATTAAATC
37456 ATTAAATC
1 ATTAAATC
37464 ATTAAATC
1 ATTAAATC
*
37472 ATTAAAATA
1 ATT-AAATC
*
37481 ATT--ATT
1 ATTAAATC
37487 ATTAAATC
1 ATTAAATC
37495 ATTAAATC
1 ATTAAATC
37503 ATTAAATC
1 ATTAAATC
*
37511 ATTAAAGTA
1 ATTAAA-TC
*
37520 ATT--ATT
1 ATTAAATC
37526 ATTAAATC
1 ATTAAATC
37534 A-TAAA--
1 ATTAAATC
*
37539 GTTAAATC
1 ATTAAATC
*
37547 ATTAAAGTAATT
1 ATT--A--AATC
37559 ATTAAAATC
1 ATT-AAATC
37568 ATT-AATC
1 ATTAAATC
37575 ATTAAATC
1 ATTAAATC
37583 ATTAAATC
1 ATTAAATC
37591 ATTAAA--
1 ATTAAATC
*
37597 A-T-AATT
1 ATTAAATC
37603 ATTAAATC
1 ATTAAATC
37611 ATT-AATC
1 ATTAAATC
37618 ATTAAATC
1 ATTAAATC
*
37626 ATTAAAGTA
1 ATTAAA-TC
*
37635 ATTATTATTC
1 ATTA--AATC
*
37645 ATTAAAGTA
1 ATTAAA-TC
*
37654 ATT--ATT
1 ATTAAATC
37660 ATT-AATC
1 ATTAAATC
37667 ATTAAA--
1 ATTAAATC
*
37673 GTTAAATC
1 ATTAAATC
*
37681 ATTAAAGTAATT
1 ATT--A--AATC
37693 ATTAAATC
1 ATTAAATC
37701 ATTAAATC
1 ATTAAATC
37709 ATTAAATC
1 ATTAAATC
37717 ATTAAATC
1 ATTAAATC
37725 ATTAAATC
1 ATTAAATC
*
37733 ATTAAAGTAATT
1 ATT--A--AATC
37745 ATTAAATC
1 ATTAAATC
37753 ATT-AATC
1 ATTAAATC
37760 ATT-AATC
1 ATTAAATC
37767 ATT-AATC
1 ATTAAATC
37774 ATTAAATC
1 ATTAAATC
*
37782 ATTAAAGTA
1 ATTAAA-TC
*
37791 ATT--ATT
1 ATTAAATC
37797 ATTAAATC
1 ATTAAATC
37805 ATTAAATC
1 ATTAAATC
37813 ATTAAATC
1 ATTAAATC
37821 ATTAAATC
1 ATTAAATC
*
37829 ATTAAATA
1 ATTAAATC
*
37837 ATT--ATT
1 ATTAAATC
37843 ATT-AATC
1 ATTAAATC
37850 ATTAAATC
1 ATTAAATC
37858 ATTAAATC
1 ATTAAATC
*
37866 ATTAAAGTA
1 ATTAAA-TC
*
37875 ATT--ATT
1 ATTAAATC
37881 ATTAAATC
1 ATTAAATC
37889 ATTAAA--
1 ATTAAATC
*
37895 GTTAAATC
1 ATTAAATC
*
37903 ATTAAAGTA
1 ATTAAA-TC
*
37912 ATT--ATT
1 ATTAAATC
37918 ATTAAATC
1 ATTAAATC
37926 ATTAAA--
1 ATTAAATC
*
37932 GTTAAATC
1 ATTAAATC
*
37940 ATTAAAGTA
1 ATTAAA-TC
*
37949 ATT--ATT
1 ATTAAATC
37955 ATTAAATC
1 ATTAAATC
37963 ATTAAA--
1 ATTAAATC
* *
37969 GTTAAATA
1 ATTAAATC
37977 ATT--AT-
1 ATTAAATC
37982 ATTAAATC
1 ATTAAATC
37990 ATTAAA
1 ATTAAA
37996 GTTAAATAAT
Statistics
Matches: 504, Mismatches: 50, Indels: 142
0.72 0.07 0.20
Matches are distributed among these distances:
4 2 0.00
5 7 0.01
6 83 0.16
7 65 0.13
8 270 0.54
9 46 0.09
10 10 0.02
11 3 0.01
12 18 0.04
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (8 bp):
ATTAAATC
Found at i:38028 original size:14 final size:13
Alignment explanation
Indices: 37866--38021 Score: 99
Period size: 14 Copynumber: 11.9 Consensus size: 13
37856 TCATTAAATC
*
37866 ATTAAAGTAATTATT
1 ATTAAA-TAATTA-A
*
37881 ATTAAATCATTAA
1 ATTAAATAATTAA
*
37894 AGTTAAATCATTAA
1 A-TTAAATAATTAA
* *
37908 AGT-AATTATT--
1 ATTAAATAATTAA
*
37918 ATTAAATCATTAA
1 ATTAAATAATTAA
*
37931 AGTTAAATCATTAA
1 A-TTAAATAATTAA
* *
37945 AGT-AATTATT--
1 ATTAAATAATTAA
*
37955 ATTAAATCATTAA
1 ATTAAATAATTAA
*
37968 AGTTAAATAATTAT
1 A-TTAAATAATTAA
*
37982 ATTAAATCATTAA
1 ATTAAATAATTAA
37995 AGTTAAATAATTAA
1 A-TTAAATAATTAA
38009 ATTTAAATAATTA
1 A-TTAAATAATTA
38022 TTATTAATAT
Statistics
Matches: 115, Mismatches: 16, Indels: 21
0.76 0.11 0.14
Matches are distributed among these distances:
10 4 0.03
11 12 0.10
12 12 0.10
13 16 0.14
14 65 0.57
15 6 0.05
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (13 bp):
ATTAAATAATTAA
Found at i:40426 original size:18 final size:18
Alignment explanation
Indices: 40403--40437 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
40393 ACCAACTTGC
40403 TTCAGACGAATCTCACGT
1 TTCAGACGAATCTCACGT
40421 TTCAGACGAATCTCACG
1 TTCAGACGAATCTCACG
40438 CTTCGGACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
TTCAGACGAATCTCACGT
Found at i:52800 original size:220 final size:220
Alignment explanation
Indices: 52418--52839 Score: 605
Period size: 220 Copynumber: 1.9 Consensus size: 220
52408 TGTTGAACAT
* * * * *
52418 ATGAGGAAATATATCAAGTTGGAGGTTAAGAATAAGTTTTGTATCTTCGTGGAAGAATACACTAG
1 ATGAGGAAAGATATCAAGTTAGAGGTTAAGAATAAGGTTTGTATCTTCGTGGAAGAAGACACTAA
* * * ** *
52483 GATTTGGACGTAAGGATAAGCTGAGTATGAGATTTATTAGGCTATATTATATTCTAAAGAGAGTT
66 GATTTGGACGTAAGGATAAGATAAGTATGAGATTTACTAGGCTATACCATATTCTAAAGAGAGTC
* * * *
52548 AGACCTATTGTTTATTTGCTTAAGTTGCCT-CCCCAGTTTAGTTGTATTCATGAGGTTTTCTATG
131 AGACCTATTGGTTATTAGCTTAAGTTGCCTCCCCCA-TGTAGTTGTATTCATGAGATTTTCTATG
52612 TATCTATGCCGAGGTATGCTGATCAG
195 TATCTATGCCGAGGTATGCTGATCAG
* ** *
52638 ATGAGGAAAGATATCGAGTTAGAGGTTGGGAATAAGGTTTGTATCTTTGTGGAAGAAGACACTAA
1 ATGAGGAAAGATATCAAGTTAGAGGTTAAGAATAAGGTTTGTATCTTCGTGGAAGAAGACACTAA
* *
52703 GATTTGGACGTAAGGGTAAGATAAGTCTGAGATTTACTAGG-TCATACCATATTCTAAAGAGAGT
66 GATTTGGACGTAAGGATAAGATAAGTATGAGATTTACTAGGCT-ATACCATATTCTAAAGAGAGT
* *
52767 CGGACCTATTGGTTATTAGCTTGAGTTGCCTCCCCCATGTAGTTGTATTCATGAGATTTTCTATG
130 CAGACCTATTGGTTATTAGCTTAAGTTGCCTCCCCCATGTAGTTGTATTCATGAGATTTTCTATG
52832 TATCTATG
195 TATCTATG
52840 TTGAGGCGAT
Statistics
Matches: 177, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
219 1 0.01
220 171 0.97
221 5 0.03
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (220 bp):
ATGAGGAAAGATATCAAGTTAGAGGTTAAGAATAAGGTTTGTATCTTCGTGGAAGAAGACACTAA
GATTTGGACGTAAGGATAAGATAAGTATGAGATTTACTAGGCTATACCATATTCTAAAGAGAGTC
AGACCTATTGGTTATTAGCTTAAGTTGCCTCCCCCATGTAGTTGTATTCATGAGATTTTCTATGT
ATCTATGCCGAGGTATGCTGATCAG
Found at i:54340 original size:18 final size:18
Alignment explanation
Indices: 54315--54367 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
54305 ACTTAAAATT
54315 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
54333 TTTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
54351 TGTCCCAAAGGACCACT
1 TGTCCCGAAGGACCACT
54368 TATAACCCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:55059 original size:22 final size:20
Alignment explanation
Indices: 55027--55082 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
55017 ACTATTAACC
*
55027 TGGTATAGATACTACTATAC-T
1 TGGTATCGATAC--CTATACAT
*
55048 ATGGTATCGATACCTCTACAT
1 -TGGTATCGATACCTATACAT
55069 TGGTATCGATACCT
1 TGGTATCGATACCT
55083 CATGAATGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 19 0.61
21 1 0.03
22 11 0.35
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (20 bp):
TGGTATCGATACCTATACAT
Done.