Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000275.1 Hibiscus syriacus cultivar Beakdansim tig00000509_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: 95169
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:832 original size:18 final size:18
Alignment explanation
Indices: 811--845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
801 TTTAAAAAGA
* *
811 TTAAATTTAATAAAATAT
1 TTAAAATTAAAAAAATAT
829 TTAAAATTAAAAAAATA
1 TTAAAATTAAAAAAATA
846 ATATTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAATTAAAAAAATAT
Found at i:1723 original size:45 final size:46
Alignment explanation
Indices: 1674--1764 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
1664 ATCTACAATA
1674 TTCCAGTTTTTAAGTTAAAATTA-AATATAATGATTAATTACAAAT
1 TTCCAGTTTTTAAGTTAAAATTACAATATAATGATTAATTACAAAT
*
1719 TTCCAGTTTTTAAGTTAAAATTACGTATATAATGATTAATTACAAA
1 TTCCAGTTTTTAAGTTAAAATTAC-AATATAATGATTAATTACAAA
1765 AATTAACCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
45 23 0.53
47 20 0.47
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (46 bp):
TTCCAGTTTTTAAGTTAAAATTACAATATAATGATTAATTACAAAT
Found at i:3277 original size:43 final size:43
Alignment explanation
Indices: 3210--3730 Score: 484
Period size: 43 Copynumber: 12.3 Consensus size: 43
3200 AGAGGAGTCT
* * * * *
3210 ACGGTAAGGTCTTATCCTATGCACAAAGCATAGGAGCCTGGAAA
1 ACGGTAAGGACTTACCCT-TGCACATAGCAGAGGAGCCTGGGAA
*
3254 ACGATAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
* *
3297 ATGGTAA-GACTTACCCTTGCATATAGCAGAGGAGCCT--G--
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
* * * *
3335 -CGGTAAGGTCTTATCCTATGCACAAAGTC-GAGGAGCCTAGGAAA
1 ACGGTAAGGACTTACCCT-TGCACATAG-CAGAGGAGCCT-GGGAA
* * *
3379 ACGGTAAGGACTTACCCTTGCACATAGAATAGAAGCCTGGGAA
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
* *
3422 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGCAGTA
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTG-GGAA
* *
3466 ACGGTAAAGACTTACCCTTGCACATAGTAGAGGTA-CCT-----
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGG-AGCCTGGGAA
* * * *
3504 ACGGTAAGGTCTTATCCCGTGCACAAAGAAGAGGAGCCTGGGAA
1 ACGGTAAGGACTTA-CCCTTGCACATAGCAGAGGAGCCTGGGAA
** *** * *
3548 ATAGTAAGGACTTATAATTGCACATAGTAGAGGATCCT--G--
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
* * * * *
3587 -CGGTAAGGTCTTATCCTGTGCACAAAGTAGAGGAGCTTGGGAA
1 ACGGTAAGGACTTACCCT-TGCACATAGCAGAGGAGCCTGGGAA
3630 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
* * * *
3673 ATGGTAAGGACTTACCCTTGCACATAGTAAAGGAGCCTGCGGTA
1 ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTG-GGAA
3717 ACGGTAAGGACTTA
1 ACGGTAAGGACTTA
3731 TAAGTCATAG
Statistics
Matches: 389, Mismatches: 62, Indels: 52
0.77 0.12 0.10
Matches are distributed among these distances:
37 5 0.01
38 33 0.08
39 52 0.13
40 2 0.01
41 2 0.01
42 29 0.07
43 142 0.37
44 108 0.28
45 16 0.04
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (43 bp):
ACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAA
Found at i:3416 original size:125 final size:125
Alignment explanation
Indices: 3173--3717 Score: 665
Period size: 125 Copynumber: 4.3 Consensus size: 125
3163 CTGTACACCC
* * * *
3173 GGTAAGGGCTTACCCTGTGCACAAAGTAGAGGAGTCTACGGTAAGGTCTTATCCTATGCACAAAG
1 GGTAAGGACTTACCCT-TGCACATAGTAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAG
* * * *
3238 CATAGGAGCCTGGAAAACGATAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAAAT
65 TAGAGGAGCCTGGAAAACGGTAAGGACTTACCCTTGCACATAGAAGAGGAGCCTGGGAAAT
* *
3299 GGTAA-GACTTACCCTTGCATATAGCAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGT
1 GGTAAGGACTTACCCTTGCACATAGTAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGT
* * * *
3363 CGAGGAGCCTAGGAAAACGGTAAGGACTTACCCTTGCACATAGAATAGAAGCCTGGGAAAC
66 AGAGGAGCCT-GGAAAACGGTAAGGACTTACCCTTGCACATAGAAGAGGAGCCTGGGAAAT
* * *
3424 GGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGCAGTAACGGTAAAGACTTACCCT-TGCA
1 GGTAAGGACTTACCCTTGCACATAGTAGAGGAGCCTGCGGTAA-GGT-----CTTATCCTATGCA
* * * *
3488 CATAGTAGAGGTA-CCT-----ACGGTAAGGTCTTATCCCGTGCACAAAGAAGAGGAGCCTGGGA
60 CAAAGTAGAGG-AGCCTGGAAAACGGTAAGGACTTA-CCCTTGCACATAGAAGAGGAGCCTGGGA
3547 AAT
123 AAT
* *** * *
3550 AGTAAGGACTTATAATTGCACATAGTAGAGGATCCTGCGGTAAGGTCTTATCCTGTGCACAAAGT
1 GGTAAGGACTTACCCTTGCACATAGTAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGT
* * *
3615 AGAGGAGCTTGGGAAACGGTAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAAAT
66 AGAGGAGCCTGGAAAACGGTAAGGACTTACCCTTGCACATAGAAGAGGAGCCTGGGAAAT
*
3675 GGTAAGGACTTACCCTTGCACATAGTAAAGGAGCCTGCGGTAA
1 GGTAAGGACTTACCCTTGCACATAGTAGAGGAGCCTGCGGTAA
3718 CGGTAAGGAC
Statistics
Matches: 357, Mismatches: 45, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
120 8 0.02
121 16 0.04
124 51 0.14
125 140 0.39
126 115 0.32
127 3 0.01
131 16 0.04
132 8 0.02
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (125 bp):
GGTAAGGACTTACCCTTGCACATAGTAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGT
AGAGGAGCCTGGAAAACGGTAAGGACTTACCCTTGCACATAGAAGAGGAGCCTGGGAAAT
Found at i:3569 original size:82 final size:82
Alignment explanation
Indices: 3258--3730 Score: 427
Period size: 82 Copynumber: 5.7 Consensus size: 82
3248 TGGAAAACGA
* * * * *
3258 TAAGGACTTA-CCCTTGCACATAGCAGAGGAGCCTGGGAAATGGTAA-GACTTACCCTTGCATAT
1 TAAGGTCTTATCCCGTGCACAAAGCAGAGGAGCCTGGGAAACGGTAAGGACTTACCCTTGCACAT
* *
3321 AGCAGAGGAGCCTGCGG
66 AGTAGAGGAGCCTACGG
** *
3338 TAAGGTCTTATCCTATGCACAAAGTC-GAGGAGCCTAGGAAAACGGTAAGGACTTACCCTTGCAC
1 TAAGGTCTTATCCCGTGCACAAAG-CAGAGGAGCCT-GGGAAACGGTAAGGACTTACCCTTGCAC
* * *
3402 ATAGAATAGAAGCCTGGGAAACGG
64 ATAGTAGAGGAGCCT-----ACGG
* * * * * *
3426 TAAGGACTTA-CCCTTGCACATAGCAGAGGAGCCTGCAGTAACGGTAAAGACTTACCCTTGCACA
1 TAAGGTCTTATCCCGTGCACAAAGCAGAGGAGCCTG-GGAAACGGTAAGGACTTACCCTTGCACA
3490 TAGTAGAGGTA-CCTACGG
65 TAGTAGAGG-AGCCTACGG
* ** ***
3508 TAAGGTCTTATCCCGTGCACAAAGAAGAGGAGCCTGGGAAATAGTAAGGACTTATAATTGCACAT
1 TAAGGTCTTATCCCGTGCACAAAGCAGAGGAGCCTGGGAAACGGTAAGGACTTACCCTTGCACAT
* *
3573 AGTAGAGGATCCTGCGG
66 AGTAGAGGAGCCTACGG
* * *
3590 TAAGGTCTTATCCTGTGCACAAAGTAGAGGAGCTTGGGAAACGGTAAGGACTTACCCTTGCACAT
1 TAAGGTCTTATCCCGTGCACAAAGCAGAGGAGCCTGGGAAACGGTAAGGACTTACCCTTGCACAT
* *
3655 AGCAGAGGAGCCTGGGAAATGG
66 AGTAGAGGAGCCT-----ACGG
* * * * * *
3677 TAAGGACTTA-CCCTTGCACATAGTAAAGGAGCCTGCGGTAACGGTAAGGACTTA
1 TAAGGTCTTATCCCGTGCACAAAGCAGAGGAGCCTG-GGAAACGGTAAGGACTTA
3731 TAAGTCATAG
Statistics
Matches: 319, Mismatches: 54, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
80 9 0.03
81 20 0.06
82 127 0.40
83 48 0.15
86 22 0.07
87 80 0.25
88 13 0.04
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (82 bp):
TAAGGTCTTATCCCGTGCACAAAGCAGAGGAGCCTGGGAAACGGTAAGGACTTACCCTTGCACAT
AGTAGAGGAGCCTACGG
Found at i:3634 original size:251 final size:250
Alignment explanation
Indices: 3258--3730 Score: 714
Period size: 251 Copynumber: 1.9 Consensus size: 250
3248 TGGAAAACGA
* * * * ** *
3258 TAAGGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAAATGGTAAGACTTACCCTTGCATATAG
1 TAAGGACTTACCCGTGCACAAAGAAGAGGAGCCTGGGAAATAGTAAGACTTACAATTGCACATAG
*
3323 CAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGTCGAGGAGCCTAGGAAAACGGTAAGG
66 CAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGTAGAGGAGCCTAGGAAAACGGTAAGG
* *
3388 ACTTACCCTTGCACATAGAATAGAAGCCTGGGAAACGGTAAGGACTTACCCTTGCACATAGCAGA
131 ACTTACCCTTGCACATAGAAGAGAAGCCTGGGAAACGGTAAGGACTTACCCTTGCACATAGCAAA
3453 GGAGCCTGCAGTAACGGTAAAGACTTACCCTTGCACATAGTAGAGGTACCTACGG
196 GGAGCCTGCAGTAACGGTAAAGACTTACCCTTGCACATAGTAGAGGTACCTACGG
* *
3508 TAAGGTCTTATCCCGTGCACAAAGAAGAGGAGCCTGGGAAATAGTAAGGACTTATAATTGCACAT
1 TAAGGACTTA-CCCGTGCACAAAGAAGAGGAGCCTGGGAAATAGTAA-GACTTACAATTGCACAT
* * * * *
3573 AGTAGAGGATCCTGCGGTAAGGTCTTATCCTGTGCACAAAGTAGAGGAG-CTTGGGAAACGGTAA
64 AGCAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGTAGAGGAGCCTAGGAAAACGGTAA
* * * *
3637 GGACTTACCCTTGCACATAGCAGAGGAGCCTGGGAAATGGTAAGGACTTACCCTTGCACATAGTA
129 GGACTTACCCTTGCACATAGAAGAGAAGCCTGGGAAACGGTAAGGACTTACCCTTGCACATAGCA
* *
3702 AAGGAGCCTGCGGTAACGGTAAGGACTTA
194 AAGGAGCCTGCAGTAACGGTAAAGACTTA
3731 TAAGTCATAG
Statistics
Matches: 198, Mismatches: 23, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
250 9 0.05
251 131 0.66
252 58 0.29
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (250 bp):
TAAGGACTTACCCGTGCACAAAGAAGAGGAGCCTGGGAAATAGTAAGACTTACAATTGCACATAG
CAGAGGAGCCTGCGGTAAGGTCTTATCCTATGCACAAAGTAGAGGAGCCTAGGAAAACGGTAAGG
ACTTACCCTTGCACATAGAAGAGAAGCCTGGGAAACGGTAAGGACTTACCCTTGCACATAGCAAA
GGAGCCTGCAGTAACGGTAAAGACTTACCCTTGCACATAGTAGAGGTACCTACGG
Found at i:5159 original size:27 final size:26
Alignment explanation
Indices: 5128--5204 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 26
5118 ACTTTAGGCT
5128 ATTTTACACTTTAGGGACATTTTGGTC
1 ATTTTACACTTTAGGG-CATTTTGGTC
*
5155 ATTTTACACTTTAAGGGTATTTTGGTC
1 ATTTTACACTTT-AGGGCATTTTGGTC
*
5182 ATTTTACACTTTAAGGCTATTTT
1 ATTTTACACTTTAGGGC-ATTTT
5205 TATAATTCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 38 0.84
28 4 0.09
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (26 bp):
ATTTTACACTTTAGGGCATTTTGGTC
Found at i:5975 original size:17 final size:17
Alignment explanation
Indices: 5953--6001 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
5943 TTTTTGGTCA
* *
5953 GTCAACGGTCAACGGCG
1 GTCAACAGTCAACGGCC
*
5970 GTCAACAGTCAACGACC
1 GTCAACAGTCAACGGCC
5987 GTCAACAGTCAACGG
1 GTCAACAGTCAACGG
6002 ATCAGTCCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.12
Consensus pattern (17 bp):
GTCAACAGTCAACGGCC
Found at i:7365 original size:42 final size:42
Alignment explanation
Indices: 7313--7426 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
7303 CTCTAGTCTC
* * ** *
7313 GGTGTTTTGTGACGTTAATTGTTTTTATCATTAGTCTTAGTT
1 GGTGATTTGTGACGATAATTGTTTTTATCAGCAGTCATAGTT
* *
7355 GGTGATTTGTGACGATAATTGTTTTTGTCAGCATTCATAGTT
1 GGTGATTTGTGACGATAATTGTTTTTATCAGCAGTCATAGTT
* **
7397 GGTGATTTGTGACGACAATACTTTTTATCA
1 GGTGATTTGTGACGATAATTGTTTTTATCA
7427 CTATTGAAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.21, C:0.10, G:0.22, T:0.47
Consensus pattern (42 bp):
GGTGATTTGTGACGATAATTGTTTTTATCAGCAGTCATAGTT
Found at i:10414 original size:15 final size:15
Alignment explanation
Indices: 10396--10471 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 15
10386 TGGACCCGAA
*
10396 AGTCCTCCTTCGGGC
1 AGTCCTCCATCGGGC
*
10411 AGTCCTCCATCTGGC
1 AGTCCTCCATCGGGC
* * * *
10426 ATTCCTCCGTCGAGT
1 AGTCCTCCATCGGGC
* ** *
10441 ATTCCTCCATCTAGT
1 AGTCCTCCATCGGGC
*
10456 AGTCATCCATCGGGC
1 AGTCCTCCATCGGGC
10471 A
1 A
10472 ATCCAATATT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.16, C:0.36, G:0.20, T:0.29
Consensus pattern (15 bp):
AGTCCTCCATCGGGC
Found at i:23207 original size:2 final size:2
Alignment explanation
Indices: 23200--23239 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23190 ACAATGTAAA
23200 AT AT AT AT AT AT AT AT AT AT AT AT 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
23240 GAAATGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27175 original size:38 final size:38
Alignment explanation
Indices: 27124--27202 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
27114 TTCAGCCGTA
*
27124 AATTCCCTCACATTCTCAGTATTGGGCTGGGAAGGCAT
1 AATTCCCTCACATTCTCAGTATTGGGCTGGGAAGACAT
*
27162 AATTCCCTCACATTCTCAGTCTTGGGCTGGGAAGACAT
1 AATTCCCTCACATTCTCAGTATTGGGCTGGGAAGACAT
27200 AAT
1 AAT
27203 ATTAGGCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (38 bp):
AATTCCCTCACATTCTCAGTATTGGGCTGGGAAGACAT
Found at i:28547 original size:17 final size:17
Alignment explanation
Indices: 28525--28559 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
28515 TTTTAAATCA
28525 CAAAATAACCAAAAGGC
1 CAAAATAACCAAAAGGC
*
28542 CAAAATAACCGAAAGGC
1 CAAAATAACCAAAAGGC
28559 C
1 C
28560 CTTCTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.26, G:0.14, T:0.06
Consensus pattern (17 bp):
CAAAATAACCAAAAGGC
Found at i:37902 original size:46 final size:46
Alignment explanation
Indices: 37805--37895 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
37795 AGAGACGAAC
37805 TTTTTATCTTATAATATAATAATATATAATCAAAGAGTTCACACCA
1 TTTTTATCTTATAATATAATAATATATAATCAAAGAGTTCACACCA
*
37851 TTTTTATCTTATAATATAATAATATATAATCAGAGAGTTCACACC
1 TTTTTATCTTATAATATAATAATATATAATCAAAGAGTTCACACC
37896 TGTTTTACGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (46 bp):
TTTTTATCTTATAATATAATAATATATAATCAAAGAGTTCACACCA
Found at i:54249 original size:130 final size:130
Alignment explanation
Indices: 54108--54355 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
54098 TATTTATATA
* *
54108 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
54173 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
54238 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
54303 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
54356 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:54717 original size:28 final size:27
Alignment explanation
Indices: 54686--54748 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
54676 AGTTGATACA
*
54686 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
54714 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
54742 ATATTTT
1 ATATTTT
54749 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:54849 original size:16 final size:18
Alignment explanation
Indices: 54828--54861 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
54818 ATTTCTTATT
54828 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
54844 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
54862 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:55007 original size:21 final size:21
Alignment explanation
Indices: 54983--55025 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
54973 TATTACCTTA
54983 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
55004 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
55025 A
1 A
55026 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:55043 original size:35 final size:35
Alignment explanation
Indices: 54994--55079 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
54984 ATTGAAGTAT
** * *
54994 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
55029 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
55064 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
55080 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:55262 original size:29 final size:29
Alignment explanation
Indices: 55210--55267 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
55200 GCAAACGGAA
* *
55210 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
55239 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
55268 CAGAAATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:56025 original size:29 final size:30
Alignment explanation
Indices: 55960--56025 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
55950 TAAAATTATG
* * *
55960 TTGTTGCTTTCTTTGTAAAATACTATTGGG
1 TTGTTGCTTTCTTCGTAAAATACTACTGGA
*
55990 TTATTGCTTTCTTCGT-AAATACTACTGGA
1 TTGTTGCTTTCTTCGTAAAATACTACTGGA
56019 TTGTTGC
1 TTGTTGC
56026 AACAAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (30 bp):
TTGTTGCTTTCTTCGTAAAATACTACTGGA
Found at i:59698 original size:43 final size:43
Alignment explanation
Indices: 59637--59731 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
59627 CCTCCAACCG
* *
59637 AACACACCATAATGTGTAGGTTTCCTAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
59680 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
59723 AACACACCA
1 AACACACCA
59732 AGTAAGGCTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.37, C:0.36, G:0.11, T:0.17
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:59962 original size:24 final size:24
Alignment explanation
Indices: 59847--59965 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 24
59837 AAACATAATT
* *
59847 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* *
59871 CAGGTCAAGTATCAGATCAGTATC
1 CATGTCAAGTATCAGATCAGAATC
* *
59895 CAAGTCAAGTATCAGATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
*
59919 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
59943 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
59966 TCAAATCGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 2 0.02
24 78 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:59981 original size:72 final size:71
Alignment explanation
Indices: 59847--59988 Score: 189
Period size: 72 Copynumber: 2.0 Consensus size: 71
59837 AAACATAATT
* * *
59847 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGTATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
59912 CAAAATC
66 -AAAATC
* * *
59919 CATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAG
1 CATGTCAAG-TATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATC-AAGAATCAG
59982 ATAAAAT
64 ATAAAAT
59989 ATTCATGTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
71 7 0.11
72 53 0.85
73 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (71 bp):
CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
AAAATC
Found at i:62425 original size:7 final size:7
Alignment explanation
Indices: 62413--62447 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
62403 GTCAACGTCG
62413 GTCAACA
1 GTCAACA
62420 GTCAACA
1 GTCAACA
62427 GTCAACA
1 GTCAACA
62434 GTCAACGA
1 GTCAAC-A
62442 GTCAAC
1 GTCAAC
62448 GGGTCGGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.40, C:0.29, G:0.17, T:0.14
Consensus pattern (7 bp):
GTCAACA
Found at i:62460 original size:13 final size:13
Alignment explanation
Indices: 62442--62496 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
62432 CAGTCAACGA
62442 GTCAACGGGTCGG
1 GTCAACGGGTCGG
*
62455 GTCAACTGGTCGG
1 GTCAACGGGTCGG
*
62468 GTAAACGGGTCGG
1 GTCAACGGGTCGG
*
62481 GTAAACGGGTCGG
1 GTCAACGGGTCGG
62494 GTC
1 GTC
62497 GGGTCGGGTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.18, C:0.20, G:0.44, T:0.18
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:62476 original size:26 final size:25
Alignment explanation
Indices: 62445--62506 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
62435 TCAACGAGTC
*
62445 AACGGGTCGGGTCAACTGGTCGGGT
1 AACGGGTCGGGTCAACGGGTCGGGT
*
62470 AAACGGGTCGGGTAAACGGGTCGGGT
1 -AACGGGTCGGGTCAACGGGTCGGGT
62496 --CGGGTCGGGTC
1 AACGGGTCGGGTC
62507 GAGTTATGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.30
26 23 0.70
ACGTcount: A:0.16, C:0.19, G:0.47, T:0.18
Consensus pattern (25 bp):
AACGGGTCGGGTCAACGGGTCGGGT
Found at i:63390 original size:2 final size:2
Alignment explanation
Indices: 63383--63420 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
63373 AAAAGAGTGT
63383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
63421 CTTTAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65955 original size:30 final size:30
Alignment explanation
Indices: 65921--65980 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
65911 TTGTTGGACT
*
65921 GATTGGAATGCTAATTCTTGTAAATCCCAG
1 GATTGGAATGCTAATTCTTGTAAATACCAG
65951 GATTGGAATGCTAATTCTTGTAAATACCAG
1 GATTGGAATGCTAATTCTTGTAAATACCAG
65981 ATCTTATCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (30 bp):
GATTGGAATGCTAATTCTTGTAAATACCAG
Found at i:70192 original size:4 final size:4
Alignment explanation
Indices: 70183--70217 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
70173 AAAGTAATTG
70183 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
70218 TTCTTCTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:70342 original size:4 final size:4
Alignment explanation
Indices: 70333--70358 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
70323 CAAAAAAGTG
70333 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
70359 CAAAGGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:71385 original size:2 final size:2
Alignment explanation
Indices: 71378--71421 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
71368 TCCCCTTTCA
71378 AT AT AT AT AT AT AT AT AT AT AT AT AT 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
71420 AT
1 AT
71422 TCGTTTTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71481 original size:19 final size:18
Alignment explanation
Indices: 71436--71498 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
71426 TTTCTTTTTG
* *
71436 TTATAATATTATTTAATA
1 TTATAAAATTATTTAAAA
71454 -TATAAAAATTAATTTAAAA
1 TTAT-AAAATT-ATTTAAAA
71473 TTATAAAATATATTTATAATA
1 TTATAAAAT-TATTTA-AA-A
71494 TTATA
1 TTATA
71499 TTTTAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 3 0.08
18 5 0.14
19 17 0.46
20 6 0.16
21 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATAAAATTATTTAAAA
Found at i:71513 original size:14 final size:15
Alignment explanation
Indices: 71475--71516 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
71465 ATTTAAAATT
71475 ATAAAATATATTTATA
1 ATAAAATAT-TTTATA
**
71491 ATATTATATTTTA-A
1 ATAAAATATTTTATA
71505 ATAAAATATTTT
1 ATAAAATATTTT
71517 GAGGGTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 4 0.18
16 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAAAATATTTTATA
Found at i:80277 original size:61 final size:61
Alignment explanation
Indices: 80141--80277 Score: 168
Period size: 61 Copynumber: 2.2 Consensus size: 61
80131 TTTTAGTTTT
* * ** * *
80141 AAATTTGTTCAATTTAGTCCAATTTTAATGATGTAATATATTAATTTAAGCTTCATATTTC
1 AAATTTGTTCAATTTAATCCAAATTTAATGATACAATATATTAACTTAAGCTTCATATTTA
* * * *
80202 AACTTCT-TTTAATTTAATCCAAATTTAATGTTACAATTTATTAACTTAAGCTTCATATTTA
1 AAATT-TGTTCAATTTAATCCAAATTTAATGATACAATATATTAACTTAAGCTTCATATTTA
80263 AAATTTGTTCAATTT
1 AAATTTGTTCAATTT
80278 GATCTTTATA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
60 1 0.02
61 60 0.97
62 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (61 bp):
AAATTTGTTCAATTTAATCCAAATTTAATGATACAATATATTAACTTAAGCTTCATATTTA
Found at i:80356 original size:18 final size:18
Alignment explanation
Indices: 80335--80497 Score: 104
Period size: 18 Copynumber: 8.9 Consensus size: 18
80325 AATAAATTAA
80335 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
80353 TATATAGTTTATATCTAC
1 TATATAGTTTATATATAC
* *
80371 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
80386 TATATAGTTTGTATATACCATATAC
1 TATATAG--T-T-TAT---ATATAC
80411 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
80429 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
* *
80446 TGTATAGCTTATATATAC
1 TATATAGTTTATATATAC
* * *
80464 CATATAGTCTATATATAT
1 TATATAGTTTATATATAC
80482 TATATAGTTTATATAT
1 TATATAGTTTATATAT
80498 TCTAATAAAC
Statistics
Matches: 110, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
14 1 0.01
15 7 0.06
16 4 0.04
17 14 0.13
18 64 0.58
19 1 0.01
21 3 0.03
22 2 0.02
23 2 0.02
25 12 0.11
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:80366 original size:51 final size:51
Alignment explanation
Indices: 80310--80424 Score: 119
Period size: 51 Copynumber: 2.3 Consensus size: 51
80300 CTTTCAATTA
* * *
80310 ATATATGTTTATATTAA-TAAATTAATATATAGTTTATATATACTATATAGT
1 ATATATGTTTATATGAACTAAA-TAATATATAGTTTATATATACCATATACT
* * * * *
80361 TTATATCTACTA-ATGAACTATATAATATATAGTTTGTATATACCATATACT
1 ATATATGT-TTATATGAACTAAATAATATATAGTTTATATATACCATATACT
80412 ATATA-GTTTATAT
1 ATATATGTTTATAT
80425 ATACTAATGA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
49 2 0.04
50 3 0.06
51 40 0.80
52 5 0.10
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (51 bp):
ATATATGTTTATATGAACTAAATAATATATAGTTTATATATACCATATACT
Found at i:80415 original size:58 final size:59
Alignment explanation
Indices: 80347--80487 Score: 196
Period size: 58 Copynumber: 2.4 Consensus size: 59
80337 TATAGTTTAT
* * *
80347 ATATACTATATAGTTTATATCTACTAATGAAC-TATATAATATATAGTTTGTATATACC
1 ATATACTATATAGTTTATATATACTAATGAACATATATAATATATAGCTTATATATACC
*
80405 ATATACTATATAGTTTATATATACTAATGAACTATATATAATGTATAGCTTATATATACC
1 ATATACTATATAGTTTATATATACTAATGAAC-ATATATAATATATAGCTTATATATACC
80465 ATATAGTCTATATA-TATTATATA
1 ATATA--CTATATAGT-TTATATA
80488 GTTTATATAT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
58 31 0.42
60 28 0.38
61 1 0.01
62 14 0.19
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.43
Consensus pattern (59 bp):
ATATACTATATAGTTTATATATACTAATGAACATATATAATATATAGCTTATATATACC
Found at i:80531 original size:7 final size:7
Alignment explanation
Indices: 80521--80555 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
80511 ATAATGTATA
80521 GTTTAGG
1 GTTTAGG
80528 GTTTAGG
1 GTTTAGG
**
80535 GTTTATA
1 GTTTAGG
80542 GTTTAGG
1 GTTTAGG
80549 GTTTAGG
1 GTTTAGG
80556 ATTTTTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:80613 original size:9 final size:9
Alignment explanation
Indices: 80561--80640 Score: 51
Period size: 9 Copynumber: 8.7 Consensus size: 9
80551 TTAGGATTTT
80561 TATATATAG
1 TATATATAG
80570 TTCATATATAG
1 -T-ATATATAG
80581 T-TCATAT-G
1 TAT-ATATAG
*
80589 TAAAT-TA-
1 TATATATAG
80596 TACTATATAG
1 TA-TATATAG
80606 TATATATAG
1 TATATATAG
*
80615 TTTATATATAA
1 --TATATATAG
*
80626 AATATATAG
1 TATATATAG
80635 TATATA
1 TATATA
80641 AATATAAACT
Statistics
Matches: 55, Mismatches: 6, Indels: 19
0.69 0.08 0.24
Matches are distributed among these distances:
7 3 0.05
8 7 0.13
9 25 0.45
10 4 0.07
11 16 0.29
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (9 bp):
TATATATAG
Found at i:80616 original size:34 final size:38
Alignment explanation
Indices: 80563--80640 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 38
80553 AGGATTTTTA
*
80563 TATATAGTTCATATATAGTTCATATGT-AAAT-TATAC
1 TATATAGTTCATATATAGTTCATATATAAAATATATAC
* *
80599 TATATAG-T-ATATATAGTTTATATATAAAATATATAG
1 TATATAGTTCATATATAGTTCATATATAAAATATATAC
80635 TATATA
1 TATATA
80641 AATATAAACT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 15 0.41
35 5 0.14
36 17 0.46
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (38 bp):
TATATAGTTCATATATAGTTCATATATAAAATATATAC
Found at i:80620 original size:11 final size:11
Alignment explanation
Indices: 80559--80624 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
80549 GTTTAGGATT
80559 TTTATATATAG
1 TTTATATATAG
*
80570 TTCATATATAG
1 TTTATATATAG
* * *
80581 TTCATATGTAAA
1 TTTATATAT-AG
80593 TTATACTATATAG
1 TT-TA-TATATAG
80606 --TATATATAG
1 TTTATATATAG
80615 TTTATATATA
1 TTTATATATA
80625 AAATATATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 7 0.16
10 2 0.05
11 26 0.59
12 3 0.07
13 2 0.05
14 4 0.09
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (11 bp):
TTTATATATAG
Found at i:80662 original size:27 final size:27
Alignment explanation
Indices: 80628--80699 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
80618 ATATATAAAA
80628 TATATAGTATATAAATATAAACTATAG
1 TATATAGTATATAAATATAAACTATAG
*
80655 TATGTAGTATATAAATATAAACTATAG
1 TATATAGTATATAAATATAAACTATAG
*
80682 TTTATA-TATATAGAATAT
1 TATATAGTATATA-AATAT
80700 GCTATATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (27 bp):
TATATAGTATATAAATATAAACTATAG
Found at i:80673 original size:20 final size:19
Alignment explanation
Indices: 80609--80673 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
80599 TATATAGTAT
* * *
80609 ATATAGTTTATATATAAAA
1 ATATAGTATATAAATATAA
80628 TATATAGTATATAAATATAA
1 -ATATAGTATATAAATATAA
* *
80648 ACTATAGTATGTAGTATATAA
1 A-TATAGTATATA-AATATAA
80669 ATATA
1 ATATA
80674 AACTATAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.79
21 7 0.18
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.40
Consensus pattern (19 bp):
ATATAGTATATAAATATAA
Found at i:80682 original size:20 final size:20
Alignment explanation
Indices: 80629--80711 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
80619 TATATAAAAT
* *
80629 ATATAGTATATA-AATATAA
1 ATATAGAATATAGTATATAA
* *
80648 ACTATAGTATGTAGTATATAA
1 A-TATAGAATATAGTATATAA
* *
80669 ATATA-AACTATAGTTTATAT
1 ATATAGAA-TATAGTATATAA
80689 ATATAGAATAT-GCTATATAA
1 ATATAGAATATAG-TATATAA
80709 ATA
1 ATA
80712 ATAGTTCACT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
19 3 0.06
20 39 0.76
21 9 0.18
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (20 bp):
ATATAGAATATAGTATATAA
Found at i:80758 original size:20 final size:20
Alignment explanation
Indices: 80733--80859 Score: 89
Period size: 18 Copynumber: 6.7 Consensus size: 20
80723 ATAAACTATA
80733 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATGTAAAC
80753 TATATAGTT--TA--T--A-
1 TATATAGTTCATATGTAAAC
80766 TATATAGTTCATATGTAAATATC
1 TATATAGTTCATATGT-AA-A-C
* *
80789 AACTATAGTTTATATGTAAAC
1 TA-TATAGTTCATATGTAAAC
*
80810 --TATAGTT-AGTATATAAAC
1 TATATAGTTCA-TATGTAAAC
*
80828 TATATAGTTTATATGTAAAC
1 TATATAGTTCATATGTAAAC
80848 --TATAGTTCATAT
1 TATATAGTTCATAT
80860 ATATAGTATA
Statistics
Matches: 87, Mismatches: 5, Indels: 32
0.70 0.04 0.26
Matches are distributed among these distances:
13 9 0.10
14 1 0.01
15 2 0.02
16 1 0.01
17 2 0.02
18 28 0.32
20 24 0.28
21 3 0.03
22 1 0.01
23 3 0.03
24 13 0.15
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.43
Consensus pattern (20 bp):
TATATAGTTCATATGTAAAC
Found at i:80771 original size:33 final size:33
Alignment explanation
Indices: 80729--81039 Score: 118
Period size: 33 Copynumber: 9.1 Consensus size: 33
80719 ACTAATAAAC
80729 TATATATATAGTTCATATGTAAACTATATAGTT
1 TATATATATAGTTCATATGTAAACTATATAGTT
*
80762 TATATATATAGTTCATATGTAAATATCAACTATAGTT
1 TATATATATAGTTCATATGT-AA-A-CTA-TATAGTT
*
80799 TATATGTAAACTATAGTT-AGTATATAAACTATATAGTT
1 TATA--T--A-TATAGTTCA-TATGTAAACTATATAGTT
* * * **
80837 TATATGTAAACTATAGTTCATATATATAGTATATA-AA
1 TATA--T--A-TATAGTTCATATGTAAACTATATAGTT
* * * * * * *
80874 TATAAACTATAATTTATATATATAGTATATA--C
1 TATATA-TATAGTTCATATGTAAACTATATAGTT
* * ** ***
80906 TATATAAATAGTTTATATAGTTCACTA-ATAAAC
1 TATATATATAGTTCATAT-GTAAACTATATAGTT
*
80939 TATATATATAGGTT-ATATGTAAACTATGTAGTT
1 TATATATATA-GTTCATATGTAAACTATATAGTT
* * * ***
80972 TACATAGTTTA--T-ATATATAGTTTATATAGTT
1 TATATA-TATAGTTCATATGTAAACTATATAGTT
* *
81003 TATACATATAGTTCATATGTAAACTATATAATT
1 TATATATATAGTTCATATGTAAACTATATAGTT
81036 TATA
1 TATA
81040 GTTTACATAT
Statistics
Matches: 218, Mismatches: 40, Indels: 40
0.73 0.13 0.13
Matches are distributed among these distances:
30 3 0.01
31 32 0.15
32 16 0.07
33 83 0.38
34 8 0.04
35 1 0.00
36 2 0.01
37 15 0.07
38 38 0.17
39 4 0.02
40 1 0.00
41 4 0.02
42 11 0.05
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (33 bp):
TATATATATAGTTCATATGTAAACTATATAGTT
Found at i:80840 original size:38 final size:38
Alignment explanation
Indices: 80735--80871 Score: 142
Period size: 38 Copynumber: 3.6 Consensus size: 38
80725 AAACTATATA
*
80735 TATAGTTCATATGTAAACTATATAGTTTATA--T--A-
1 TATAGTTCATATATAAACTATATAGTTTATATGTAAAC
* *
80768 TATAGTTCATATGTAAATATCAACTATAGTTTATATGTAAAC
1 TATAGTTCATATAT-AA-A-CTA-TATAGTTTATATGTAAAC
80810 TATAGTT-AGTATATAAACTATATAGTTTATATGTAAAC
1 TATAGTTCA-TATATAAACTATATAGTTTATATGTAAAC
* *
80848 TATAGTTCATATATATAGTATATA
1 TATAGTTCATATATAAACTATATA
80872 AATATAAACT
Statistics
Matches: 88, Mismatches: 5, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
33 14 0.16
34 2 0.02
35 1 0.01
36 2 0.02
37 11 0.12
38 38 0.43
39 4 0.05
40 1 0.01
41 4 0.05
42 11 0.12
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (38 bp):
TATAGTTCATATATAAACTATATAGTTTATATGTAAAC
Found at i:80861 original size:20 final size:18
Alignment explanation
Indices: 80789--80859 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 18
80779 TGTAAATATC
80789 AACTATAGTTTATATGTA
1 AACTATAGTTTATATGTA
*
80807 AACTATAG-TTAGTATATA
1 AACTATAGTTTA-TATGTA
80825 AACTATATAGTTTATATGTA
1 AAC--TATAGTTTATATGTA
*
80845 AACTATAGTTCATAT
1 AACTATAGTTTATAT
80860 ATATAGTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
17 3 0.07
18 27 0.59
20 13 0.28
21 3 0.07
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (18 bp):
AACTATAGTTTATATGTA
Found at i:80884 original size:20 final size:20
Alignment explanation
Indices: 80860--80915 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
80850 TAGTTCATAT
*
80860 ATATAGTATATAAATATA-A
1 ATATAATATATAAATATAGA
* * *
80879 ACTATAATTTATATATATAGT
1 A-TATAATATATAAATATAGA
*
80900 ATATACTATATAAATA
1 ATATAATATATAAATA
80916 GTTTATATAG
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (20 bp):
ATATAATATATAAATATAGA
Found at i:80909 original size:18 final size:18
Alignment explanation
Indices: 80888--80922 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80878 AACTATAATT
*
80888 TATATATATAGTATATAC
1 TATATAAATAGTATATAC
*
80906 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
80923 TAGTTCACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:80993 original size:13 final size:13
Alignment explanation
Indices: 80975--80999 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80965 TGTAGTTTAC
80975 ATAGTTTATATAT
1 ATAGTTTATATAT
80988 ATAGTTTATATA
1 ATAGTTTATATA
81000 GTTTATACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:80995 original size:22 final size:22
Alignment explanation
Indices: 80967--81015 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
80957 GTAAACTATG
*
80967 TAGTTTACATAGTTTATATATA
1 TAGTTTACATAGTTTATACATA
*
80989 TAGTTTATATAGTTTATACATA
1 TAGTTTACATAGTTTATACATA
81011 TAGTT
1 TAGTT
81016 CATATGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (22 bp):
TAGTTTACATAGTTTATACATA
Found at i:81020 original size:22 final size:22
Alignment explanation
Indices: 80975--81020 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
80965 TGTAGTTTAC
* *
80975 ATAGTTTATATATATAGTTTAT
1 ATAGTTTATACATATAGTTCAT
80997 ATAGTTTATACATATAGTTCAT
1 ATAGTTTATACATATAGTTCAT
81019 AT
1 AT
81021 GTAAACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (22 bp):
ATAGTTTATACATATAGTTCAT
Found at i:81183 original size:15 final size:15
Alignment explanation
Indices: 81163--81192 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
81153 AACCTTAAAC
*
81163 CATATATACTATATA
1 CATATAAACTATATA
81178 CATATAAACTATATA
1 CATATAAACTATATA
81193 GTTTATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
CATATAAACTATATA
Found at i:81191 original size:22 final size:22
Alignment explanation
Indices: 81165--81228 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
81155 CCTTAAACCA
* *
81165 TATATACTATATACATATAAAC
1 TATATAATTTATACATATAAAC
* *
81187 TATATAGTTTATA-TTAATAAAC
1 TATATAATTTATACAT-ATAAAC
81209 TATATAATTTATACAGTATA
1 TATATAATTTATACA-TATA
81229 TTATTTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 29 0.85
23 3 0.09
24 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (22 bp):
TATATAATTTATACATATAAAC
Found at i:81251 original size:22 final size:25
Alignment explanation
Indices: 81211--81268 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 25
81201 TAATAAACTA
81211 TATAATTTATACAGTATAT-TATT-
1 TATAATTTATACAGTATATATATTG
81234 TATAA-TTATACA-TAATATATATTG
1 TATAATTTATACAGT-ATATATATTG
*
81258 TATAGTTTATA
1 TATAATTTATA
81269 TAATTCATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 9 0.30
24 4 0.13
25 5 0.17
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (25 bp):
TATAATTTATACAGTATATATATTG
Found at i:81363 original size:20 final size:19
Alignment explanation
Indices: 81330--81393 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
81320 ATACTATATA
*
81330 GTAT-TATAGGTTATACAT
1 GTATATATAGTTTATACAT
81348 GGTATATATAGTTTATACAT
1 -GTATATATAGTTTATACAT
* *
81368 -AATATATAGTTTATATAT
1 GTATATATAGTTTATACAT
81386 AGTATATA
1 -GTATATA
81394 ATAATATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 16 0.42
19 4 0.11
20 18 0.47
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (19 bp):
GTATATATAGTTTATACAT
Found at i:81426 original size:18 final size:18
Alignment explanation
Indices: 81352--81462 Score: 82
Period size: 18 Copynumber: 5.8 Consensus size: 18
81342 ATACATGGTA
*
81352 TATATAGTTTATACATAA-
1 TATATAGTTTATATA-AAC
* *
81370 TATATAGTTTATATATAG
1 TATATAGTTTATATAAAC
*
81388 TATATAATAATATAAATATAAAC
1 TATATAGT--T-T--ATATAAAC
81411 TATATAGTTTATATAATAC
1 TATATAGTTTATATAA-AC
*
81430 -ATATACTTTATATATAAAC
1 TATATA-GTT-TATATAAAC
81449 TATATAGTTTATAT
1 TATATAGTTTATAT
81463 TATATATATA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.01
18 37 0.49
19 8 0.11
20 14 0.19
21 2 0.03
23 13 0.17
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (18 bp):
TATATAGTTTATATAAAC
Found at i:81470 original size:18 final size:19
Alignment explanation
Indices: 81350--81474 Score: 119
Period size: 20 Copynumber: 6.4 Consensus size: 19
81340 TTATACATGG
*
81350 TATATATAGTTTATACATA
1 TATATATAGTTTATATATA
81369 -ATATATAGTTTATATATA
1 TATATATAGTTTATATATA
* * *
81387 GTATATAATAATATAAATATA
1 -TATAT-ATAGTTTATATATA
*
81408 AACTATATAGTTTATATA-A
1 TA-TATATAGTTTATATATA
* *
81427 TACATATACTTTATATATA
1 TATATATAGTTTATATATA
*
81446 AACTATATAGTTTATATTATA
1 TA-TATATAGTTTATA-TATA
81467 TATATATA
1 TATATATA
81475 TTATAGTTGT
Statistics
Matches: 84, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
18 30 0.36
19 4 0.05
20 31 0.37
21 19 0.23
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (19 bp):
TATATATAGTTTATATATA
Found at i:82381 original size:210 final size:209
Alignment explanation
Indices: 81581--82501 Score: 1299
Period size: 216 Copynumber: 4.3 Consensus size: 209
81571 CCCCTTTGTG
* * * *
81581 TTGTTTAATTTATTTAAAATTTAATTTGTAATTTAATTTTTATTCAATTTAGTCATTAAAATTAT
1 TTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAATTAT
* *
81646 ATTTGTATCTGAAATTGACCCATACTTATTACTTATTTCTA-TTTTTAATTGGCCCATAACTTTT
66 ATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAACTTTT
* * *
81710 TAAATGGGTATTATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTTGATT
131 TAAATGGATATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATT
81775 TGATCCCTCATCAA
196 TGATCCCTCATCAA
*
81789 TGTGTGTTTAATTTATTTAAAATGTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAAT
1 --T-TGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAAT
*
81854 TATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAACT
63 TATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAACT
* * *
81919 TTTTAAATGGGTATTATTTAGTACTTTTTTTATTAATTTAAACCTCACAATTTAAAATTATTTCG
128 TTTTAAATGGATATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCG
81984 ATTTGATCCCTCATCAA
193 ATTTGATCCCTCATCAA
* *
82001 TGTGTGTTGTTTAATTTATTTAAAATTTAATTTGTAATTTCGTATTTGTTCAATTTTGTCCTTAA
1 ------TTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAA
*
82066 AATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTTAATTGACCCAT
60 AATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATA-TTTTTTAATTGGCCCAT
* *
82131 AACTTTTTAAAT-GAGTATAATTTATTACTTTTTGTATTAATTTAAACCTCAAAATTTAAAATTA
124 AACTTTTTAAATGGA-TATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTA
*
82195 TTTCGATTTGATCCCTCGTCAA
188 TTTCGATTTGATCCCTCATCAA
* * * * *
82217 -TGTTTAATTTATTTAAATTTTCTATTTGTAACTTCATATGTGTTCAATTTAGTCCTCAAAATTA
1 TTGTTTAATTTATTTAAAATTT-AATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAATTA
* * *
82281 TATTTGCATCTGAAATTGAACTATACTTATTACTTATTTATATTTTTTAATTGGCCCGTAACTTT
65 TATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAACTTT
* * * * *
82346 TTAAATGTATATAATTTAGTACTTTTTTTTATTAATTTCAAGCTTACAATTTAAAATTATTTCGA
130 TTAAATGGATATAATTTAGTAC-TTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGA
*
82411 TTTGATCCCTCGTCAA
194 TTTGATCCCTCATCAA
* * *
82427 TGTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAATTCTTAA
1 ------TTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAA
* *
82492 ATTTGTATTT
60 AATTATATTT
82502 TTCATAAAAT
Statistics
Matches: 648, Mismatches: 45, Indels: 30
0.90 0.06 0.04
Matches are distributed among these distances:
209 59 0.09
210 131 0.20
211 99 0.15
212 100 0.15
215 102 0.16
216 136 0.21
217 21 0.03
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (209 bp):
TTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTAAAATTAT
ATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAACTTTT
TAAATGGATATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCGATT
TGATCCCTCATCAA
Found at i:82397 original size:426 final size:423
Alignment explanation
Indices: 81577--82483 Score: 1447
Period size: 426 Copynumber: 2.1 Consensus size: 423
81567 TTGACCCCTT
* * *
81577 TGTGTTGTTTAATTTATTTAAAATTTAATTTGTAATTTAATTTTTATTCAATTTAGTCATTAAAA
1 TGTGTTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCATTAAAA
* * *
81642 TTATATTTGTATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTAATTGGCCCATAACT
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGACCCATAACT
* * * *
81707 TTTTAAATGGGTATTATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTTG
131 TTTTAAATGAGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCAAAATTTAAAATTATTTCG
* *
81772 ATTTGATCCCTCATCAATGTGTGTTTAATTTATTTAAAATGTAATTTGTAATTTCATATTTGTTC
196 ATTTGATCCCTCATCAA---GTGTTTAATTTATTTAAAATGTAATTTGTAACTTCATATGTGTTC
* * *
81837 AATTTAGTCCTTAAAATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTT
258 AATTTAGTCCTCAAAATTATATTTGCATCTGAAATTGAACCATACTTATTACTTATTTATATTTT
* *
81902 TTAATTGGCCCATAACTTTTTAAATGGGTATTATTTAGTACTTTTTTTATTAATTTAAACCTCAC
323 TTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTTATTAATTTAAACCTCAC
81967 AATTTAAAATTATTTCGATTTGATCCCTCATCAATG
388 AATTTAAAATTATTTCGATTTGATCCCTCATCAATG
* * *
82003 TGTGTTGTTTAATTTATTTAAAATTTAATTTGTAATTTCGTATTTGTTCAATTTTGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCATTAAAA
82068 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTTAATTGACCCATAA
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATA--TTTTTAATTGACCCATAA
*
82133 CTTTTTAAATGAGTATAATTTATTACTTTTTGTATTAATTTAAACCTCAAAATTTAAAATTATTT
129 CTTTTTAAATGAGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCAAAATTTAAAATTATTT
* * * *
82198 CGATTTGATCCCTCGTCAA-TGTTTAATTTATTTAAATTTTCTATTTGTAACTTCATATGTGTTC
194 CGATTTGATCCCTCATCAAGTGTTTAATTTATTTAAAATGT-AATTTGTAACTTCATATGTGTTC
*
82262 AATTTAGTCCTCAAAATTATATTTGCATCTGAAATTGAACTATACTTATTACTTATTTATATTTT
258 AATTTAGTCCTCAAAATTATATTTGCATCTGAAATTGAACCATACTTATTACTTATTTATATTTT
* * * * *
82327 TTAATTGGCCCGTAACTTTTTAAATGTATATAATTTAGTACTTTTTTTTATTAATTTCAAGCTTA
323 TTAATTGGCCCATAACTTTTTAAATGGATATAATTTAGTAC-TTTTTTTATTAATTTAAACCTCA
*
82392 CAATTTAAAATTATTTCGATTTGATCCCTCGTCAATG
387 CAATTTAAAATTATTTCGATTTGATCCCTCATCAATG
*
82429 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTA
82484 ATTCTTAAAT
Statistics
Matches: 442, Mismatches: 35, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
424 19 0.04
425 118 0.27
426 210 0.48
428 95 0.21
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (423 bp):
TGTGTTGTTTAATTTATTTAAAATTTAATTTGTAATTTCATATTTGTTCAATTTAGTCATTAAAA
TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTAATTGACCCATAACT
TTTTAAATGAGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCAAAATTTAAAATTATTTCG
ATTTGATCCCTCATCAAGTGTTTAATTTATTTAAAATGTAATTTGTAACTTCATATGTGTTCAAT
TTAGTCCTCAAAATTATATTTGCATCTGAAATTGAACCATACTTATTACTTATTTATATTTTTTA
ATTGGCCCATAACTTTTTAAATGGATATAATTTAGTACTTTTTTTATTAATTTAAACCTCACAAT
TTAAAATTATTTCGATTTGATCCCTCATCAATG
Found at i:84667 original size:2 final size:2
Alignment explanation
Indices: 84584--84655 Score: 135
Period size: 2 Copynumber: 36.0 Consensus size: 2
84574 GTGATCTGAT
84584 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
84626 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84656 CACGACATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:86545 original size:16 final size:16
Alignment explanation
Indices: 86524--86559 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
86514 AAGATTCGGA
*
86524 AAAAAAGAGAGAAAGG
1 AAAAAAGAAAGAAAGG
86540 AAAAAAGAAAGAAAGG
1 AAAAAAGAAAGAAAGG
86556 AAAA
1 AAAA
86560 CTTGGTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAGAAAGG
Found at i:90205 original size:45 final size:45
Alignment explanation
Indices: 90146--90401 Score: 399
Period size: 45 Copynumber: 5.7 Consensus size: 45
90136 AAAATTTCTC
* *
90146 ACCATTT-GTCCCATAAGCTTGTAAGCTTATTTTACCAAAATACTT
1 ACCATTTAGT-CCATAAGCTCGTAAGCTTATTTTACCAATATACTT
* * *
90191 ATCATTTATTCCATAAGCTCTTAAGCTTATTTTACCAATATACTT
1 ACCATTTAGTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT
*
90236 ACCATTTAGTCTATAAGCTCGTAAGCTTATTTTACCAATATACTT
1 ACCATTTAGTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT
90281 ACCATTTAGTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT
1 ACCATTTAGTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT
*
90326 ACCATTTAGTCCATAAGCTCGTAAGCTAATTTTACCAATATACTT
1 ACCATTTAGTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT
** *
90371 GTCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 ACCATTTAGTCCATAAGCTCGTAAGCTTATTT
90402 GCATGATTAC
Statistics
Matches: 195, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
44 25 0.13
45 169 0.87
46 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (45 bp):
ACCATTTAGTCCATAAGCTCGTAAGCTTATTTTACCAATATACTT
Done.