Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003292.1 Hibiscus syriacus cultivar Beakdansim tig00006922_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: 81708
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:5839 original size:23 final size:23
Alignment explanation
Indices: 5805--5862 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
5795 AGAAATTGCA
5805 CCGAAGTG-CCACATAAAAATGTC
1 CCGAA-TGACCACATAAAAATGTC
** *
5828 CCGAATGACCACATAGTATTGTC
1 CCGAATGACCACATAAAAATGTC
*
5851 CCGAAAGACCAC
1 CCGAATGACCAC
5863 GTAGAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.17
Consensus pattern (23 bp):
CCGAATGACCACATAAAAATGTC
Found at i:5875 original size:23 final size:23
Alignment explanation
Indices: 5826--5891 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
5816 CATAAAAATG
* * * *
5826 TCCCGAATGACCACATAGTATTG
1 TCCCGAAAGACCACGTAGAATTA
5849 TCCCGAAAGACCACGTAGAATTA
1 TCCCGAAAGACCACGTAGAATTA
*
5872 TCCC-AAATGACCGCGTAGAA
1 TCCCGAAA-GACCACGTAGAA
5892 CCCTCGACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (23 bp):
TCCCGAAAGACCACGTAGAATTA
Found at i:6041 original size:44 final size:44
Alignment explanation
Indices: 5975--6108 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 44
5965 TTTATTATAT
* ** * * * *
5975 CTTATATCACATAGACAAGTAATCACGCAGGTCATGTCACATGG
1 CTTATATAACATATTCATGTAATCACGCAGATCATATCACATAG
* * * *
6019 CTTATATCACATGTTCGTGTAATCACGTAGATCATATCACATAG
1 CTTATATAACATATTCATGTAATCACGCAGATCATATCACATAG
* * *
6063 CTTGTATAACATATTCATGTAATCACGGAAATCAATATCACATAG
1 CTTATATAACATATTCATGTAATCACGCAGATC-ATATCACATAG
6108 C
1 C
6109 ATGAATATAA
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 62 0.84
45 12 0.16
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (44 bp):
CTTATATAACATATTCATGTAATCACGCAGATCATATCACATAG
Found at i:6543 original size:61 final size:61
Alignment explanation
Indices: 6448--6574 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 61
6438 CCATATGAGT
*
6448 AGTATCGGTACCCAAGGTACAATATCGATACTTCCTTAGTGTGGTATAAATACTATACTTC
1 AGTATCGGTACCCAAGGTACAATATCGATACTTCCTTACTGTGGTATAAATACTATACTTC
*
6509 AGTATCGGTACCCAAGGTACAATATCGATACTTCCTTACTGTGGTATCAATACTATACTTC
1 AGTATCGGTACCCAAGGTACAATATCGATACTTCCTTACTGTGGTATAAATACTATACTTC
6570 AGTAT
1 AGTAT
6575 TGATACCCTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (61 bp):
AGTATCGGTACCCAAGGTACAATATCGATACTTCCTTACTGTGGTATAAATACTATACTTC
Found at i:15669 original size:105 final size:108
Alignment explanation
Indices: 15386--15670 Score: 269
Period size: 111 Copynumber: 2.6 Consensus size: 108
15376 ACGAAAAATA
* * *
15386 TAAATTAAACTTACCAAACCACTCGAATACAATTTAATATGTAAAATCAAAATAAATAGTCTAAT
1 TAAACTAAACTTACCAAACTACTCAAATACAATTTAATATGTAAAATCAAAATAAATAGTCTAA-
* * * **
15451 TACTTTATATTTACAATAAAAACTCTAAACCCTAAACAATATATTT
65 TAATTTATATTTACAATAAAAAC-ATAAA-CATAAACAATATATAC
* * * * * * * * *
15497 TACACTAAACTTACAAAACTACTCAAATACGATTTAATCTCTAAAATAAAAAT-AATCAATATCA
1 TAAACTAAACTTACCAAACTACTCAAATACAATTTAATATGTAAAATCAAAATAAAT-AGTCTAA
**
15561 TAATTTATA-TTACTCAATAAAAA-ATAAA-ATTTA-AAT-TGA-AC
65 TAATTTATATTTA--CAATAAAAACATAAACATAAACAATAT-ATAC
* *
15602 TAAACTAAACTTACCAAACTACTCAAATACAACTTAATAGGTAAAATCAAAATAAATAGTCTAAT
1 TAAACTAAACTTACCAAACTACTCAAATACAATTTAATATGTAAAATCAAAATAAATAGTCTAAT
15667 AATT
66 AATT
15671 ATTTTTTTAA
Statistics
Matches: 139, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
105 55 0.40
106 7 0.05
107 2 0.01
109 7 0.05
110 11 0.08
111 57 0.41
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (108 bp):
TAAACTAAACTTACCAAACTACTCAAATACAATTTAATATGTAAAATCAAAATAAATAGTCTAAT
AATTTATATTTACAATAAAAACATAAACATAAACAATATATAC
Found at i:18829 original size:21 final size:21
Alignment explanation
Indices: 18788--18829 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18778 CATTCACGTG
*
18788 CTTCAATTCCCAATTCCTCCT
1 CTTCAATTCCCAACTCCTCCT
*
18809 CTTCAA-TCCCTAACTCTTCCT
1 CTTCAATTCCC-AACTCCTCCT
18830 TAATAATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.19, C:0.43, G:0.00, T:0.38
Consensus pattern (21 bp):
CTTCAATTCCCAACTCCTCCT
Found at i:23418 original size:17 final size:17
Alignment explanation
Indices: 23398--23435 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
23388 AATGGCCTAC
23398 AAAGGAAATCATAACAG
1 AAAGGAAATCATAACAG
23415 AAAGGAAATCATAACAG
1 AAAGGAAATCATAACAG
23432 AAAG
1 AAAG
23436 CAAAAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.11, G:0.18, T:0.11
Consensus pattern (17 bp):
AAAGGAAATCATAACAG
Found at i:28415 original size:14 final size:16
Alignment explanation
Indices: 28384--28416 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
28374 CTTTGTGGTT
28384 TTGACATGTTTGTATA
1 TTGACATGTTTGTATA
28400 TTGA-ATGTTT-TATA
1 TTGACATGTTTGTATA
28414 TTG
1 TTG
28417 TTGTAGACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 6 0.35
16 4 0.24
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (16 bp):
TTGACATGTTTGTATA
Found at i:29103 original size:30 final size:30
Alignment explanation
Indices: 29068--29402 Score: 249
Period size: 30 Copynumber: 11.2 Consensus size: 30
29058 GTGGTTGTTA
29068 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
1 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
*
29098 TGAAAGTGGTGGTGTAGAAATGGATAATGC
1 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
* * *
29128 TGAAAGTGGTGGTGTAGAAATGGATACTGT
1 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
* *
29158 TGAAA-TGGGTAGTGTAGAAAG-GGACAATGC
1 TGAAAGT-GGTGGTGTAG-AAGTGGATAATGC
* * **
29188 TGAAA-TGGGTAGTGTTGAAAG-GGGCAATGC
1 TGAAAGT-GGTGGTGTAG-AAGTGGATAATGC
* *
29218 TGAAAGTGGTGGTGTAGAAATGGATAGTGC
1 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
** *
29248 TGAAAGTACTGGTGTAGAAATGGATAATGC
1 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
* * * *
29278 T-AAAATGGGTAGTGTAGAAAG-GGACAATGT
1 TGAAAGT-GGTGGTGTAG-AAGTGGATAATGC
* * *
29308 TGAAA-TGGGTAGTGTAGAAAG-GGACAATGT
1 TGAAAGT-GGTGGTGTAG-AAGTGGATAATGC
* * * *
29338 TGAAA-TGGGTAGTGTTGAAAG-GGACAATGT
1 TGAAAGT-GGTGGTGTAG-AAGTGGATAATGC
* * *
29368 TGAAAGTGTTGGTGTAGAAATGGATAATGT
1 TGAAAGTGGTGGTGTAGAAGTGGATAATGC
29398 TGAAA
1 TGAAA
29403 TGAGTAATGT
Statistics
Matches: 264, Mismatches: 32, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.03
30 246 0.93
31 9 0.03
ACGTcount: A:0.34, C:0.04, G:0.36, T:0.26
Consensus pattern (30 bp):
TGAAAGTGGTGGTGTAGAAGTGGATAATGC
Found at i:29106 original size:16 final size:16
Alignment explanation
Indices: 29085--29136 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
29075 GGTGGTGTAG
29085 AAGTGGATAATGCTGA
1 AAGTGGATAATGCTGA
**
29101 AAGTGG-TGGTG-TAGA
1 AAGTGGATAATGCT-GA
29116 AA-TGGATAATGCTGA
1 AAGTGGATAATGCTGA
29131 AAGTGG
1 AAGTGG
29137 TGGTGTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.25
Consensus pattern (16 bp):
AAGTGGATAATGCTGA
Found at i:29162 original size:60 final size:60
Alignment explanation
Indices: 29068--29426 Score: 384
Period size: 60 Copynumber: 6.0 Consensus size: 60
29058 GTGGTTGTTA
* * * *
29068 TGAAAGTGGTGGTGTAGAAGTGGATAATGCTGAAA-GTGGTGGTGTAGAAATGGATAATGC
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATG-GGTAGTGTAGAAAGGGACAATGC
* *
29128 TGAAAGTGGTGGTGTAGAAATGGATACTGTTGAAATGGGTAGTGTAGAAAGGGACAATGC
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGC
* * * ** * * * *
29188 TGAAA-TGGGTAGTGTTGAAAGGGGCAATGCTGAAA-GTGGTGGTGTAGAAATGGATAGTGC
1 TGAAAGT-GGTGGTGTAGAAATGGATAATGCTGAAATG-GGTAGTGTAGAAAGGGACAATGC
** * *
29248 TGAAAGTACTGGTGTAGAAATGGATAATGCTAAAATGGGTAGTGTAGAAAGGGACAATGT
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGC
* * * * * *
29308 TGAAA-TGGGTAGTGTAGAAAGGGACAATGTTGAAATGGGTAGTGTTGAAAGGGACAATGT
1 TGAAAGT-GGTGGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGC
* * * * *
29368 TGAAAGTGTTGGTGTAGAAATGGATAATGTTGAAATGAGTAATGTTGAAAGGGACAATG
1 TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATG
29427 AGAAAGACAA
Statistics
Matches: 248, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
59 3 0.01
60 241 0.97
61 4 0.02
ACGTcount: A:0.34, C:0.04, G:0.36, T:0.26
Consensus pattern (60 bp):
TGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAATGGGTAGTGTAGAAAGGGACAATGC
Found at i:29164 original size:45 final size:45
Alignment explanation
Indices: 29109--29252 Score: 141
Period size: 45 Copynumber: 3.2 Consensus size: 45
29099 GAAAGTGGTG
* *
29109 GTGTAGAAATGGATAATGCTGAAAGTGGTGGTGTAGAAATGGATA
1 GTGTTGAAATGGGTAATGCTGAAAGTGGTGGTGTAGAAATGGATA
* * *** *
29154 CTGTTGAAATGGGTAGTG-TAGAAAG-GGACAATGCT-GAAATGGGTA
1 GTGTTGAAATGGGTAATGCT-GAAAGTGG-TGGTG-TAGAAATGGATA
* *
29199 GTGTTGAAAGGGGCAATGCTGAAAGTGGTGGTGTAGAAATGGATA
1 GTGTTGAAATGGGTAATGCTGAAAGTGGTGGTGTAGAAATGGATA
*
29244 GTGCTGAAA
1 GTGTTGAAA
29253 GTACTGGTGT
Statistics
Matches: 76, Mismatches: 17, Indels: 12
0.72 0.16 0.11
Matches are distributed among these distances:
44 4 0.05
45 68 0.89
46 4 0.05
ACGTcount: A:0.33, C:0.05, G:0.37, T:0.25
Consensus pattern (45 bp):
GTGTTGAAATGGGTAATGCTGAAAGTGGTGGTGTAGAAATGGATA
Found at i:29261 original size:120 final size:120
Alignment explanation
Indices: 29079--29426 Score: 484
Period size: 120 Copynumber: 2.9 Consensus size: 120
29069 GAAAGTGGTG
* *
29079 GTGTAG-AAGTGGATAATGCTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAGTGGTGGTGT
1 GTGTAGAAAG-GGACAATGCTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAGTGCTGGTGT
*
29143 AGAAATGGATACTGTTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTA
65 AGAAATGGATAATGTTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTA
* * * *
29199 GTGTTGAAAGGGGCAATGCTGAAAGTGGTGGTGTAGAAATGGATAGTGCTGAAAGTACTGGTGTA
1 GTGTAGAAAGGGACAATGCTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAGTGCTGGTGTA
* * *
29264 GAAATGGATAATGCTAAAATGGGTAGTGTAGAAAGGGACAATGTTGAAATGGGTA
66 GAAATGGATAATGTTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTA
* * * * * * *
29319 GTGTAGAAAGGGACAATGTTGAAA-TGGGTAGTGTTGAAAGGGACAATGTTGAAAGTGTTGGTGT
1 GTGTAGAAAGGGACAATGCTGAAAGT-GGTGGTGTAGAAATGGATAATGCTGAAAGTGCTGGTGT
* * *
29383 AGAAATGGATAATGTTGAAATGAGTAATGTTGAAAGGGACAATG
65 AGAAATGGATAATGTTGAAATGGGTAGTGTAGAAAGGGACAATG
29427 AGAAAGACAA
Statistics
Matches: 200, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
119 1 0.00
120 196 0.98
121 3 0.01
ACGTcount: A:0.34, C:0.04, G:0.36, T:0.26
Consensus pattern (120 bp):
GTGTAGAAAGGGACAATGCTGAAAGTGGTGGTGTAGAAATGGATAATGCTGAAAGTGCTGGTGTA
GAAATGGATAATGTTGAAATGGGTAGTGTAGAAAGGGACAATGCTGAAATGGGTA
Found at i:29368 original size:15 final size:15
Alignment explanation
Indices: 29294--29373 Score: 83
Period size: 15 Copynumber: 5.3 Consensus size: 15
29284 GGGTAGTGTA
29294 GAAAGGGACAATGTT
1 GAAAGGGACAATGTT
* * *
29309 GAAATGGG-TAGTGTA
1 GAAA-GGGACAATGTT
29324 GAAAGGGACAATGTT
1 GAAAGGGACAATGTT
* *
29339 GAAATGGG-TAGTGTT
1 GAAA-GGGACAATGTT
29354 GAAAGGGACAATGTT
1 GAAAGGGACAATGTT
29369 GAAAG
1 GAAAG
29374 TGTTGGTGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
14 6 0.12
15 39 0.76
16 6 0.12
ACGTcount: A:0.38, C:0.04, G:0.36, T:0.23
Consensus pattern (15 bp):
GAAAGGGACAATGTT
Found at i:32518 original size:22 final size:21
Alignment explanation
Indices: 32486--32526 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
32476 CTTGCAGTTC
32486 AATGCAAAATGAAGAAAAATTA
1 AATGCAAAATGAA-AAAAATTA
* *
32508 AATGCACAATGCAAAAAAT
1 AATGCAAAATGAAAAAAAT
32527 CAAAGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (21 bp):
AATGCAAAATGAAAAAAATTA
Found at i:32625 original size:15 final size:15
Alignment explanation
Indices: 32605--32650 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
32595 AAACACATAT
32605 AAACTTCCATTACAA
1 AAACTTCCATTACAA
32620 AAACTTCCATTACAA
1 AAACTTCCATTACAA
32635 AAACTTCCATTACAA
1 AAACTTCCATTACAA
32650 A
1 A
32651 GCTTTTAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
AAACTTCCATTACAA
Found at i:36773 original size:16 final size:16
Alignment explanation
Indices: 36752--36790 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
36742 AAAACTGACA
36752 TAGTTAACACCCTTCT
1 TAGTTAACACCCTTCT
36768 TAGTTAACACCCTTCT
1 TAGTTAACACCCTTCT
36784 TAGTTAA
1 TAGTTAA
36791 AACCGACGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (16 bp):
TAGTTAACACCCTTCT
Found at i:37928 original size:12 final size:12
Alignment explanation
Indices: 37902--37936 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
37892 TCCCGTTGAC
*
37902 CAAACATTCCGGA
1 CAAA-ATTCCCGA
37915 CAAAATTCCCGA
1 CAAAATTCCCGA
37927 CAAAATTCCC
1 CAAAATTCCC
37937 TTAACCTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.40, C:0.34, G:0.09, T:0.17
Consensus pattern (12 bp):
CAAAATTCCCGA
Found at i:38231 original size:74 final size:72
Alignment explanation
Indices: 38129--38456 Score: 272
Period size: 74 Copynumber: 4.4 Consensus size: 72
38119 TTATATATAT
* *
38129 ACATATTTTGAAACTACGTATATAATATATAGTTTTTAATAGTTTTTAAAAC-TATATAATATAT
1 ACAT-TTTTGAAA-TA--TATATAATATATAGTTTTTAATACTTTTGAAAACATATATAATATAT
*
38193 AGTTTTAAAAAAA
62 AGTTTT--TAAAA
* * * *
38206 ACATTTTAGAAAATATATATAATATATAATTTTTAAAATCATTTTGAAAACTTATAT-ATATATA
1 ACATTTTTG-AAATATATATAATATATAGTTTTTAATA-C-TTTTGAAAACATATATAATATATA
*
38270 GTTTTTGAAA
63 GTTTTTAAAA
* * * *
38280 ACATTTTTGAAA-ACATAT-ATATATAGTTTTGAAAACATTTTTTTGAAAACATATATATTATAT
1 ACATTTTTGAAATATATATAATATATAGTTTTTAATAC----TTTTGAAAACATATATAATATAT
* *
38343 AGTTTTTGAAG
62 AGTTTTTAAAA
* * * * * *
38354 ATATTTTTGAAACCATATATATTATATAGTTTTTAAAACCATTTTGAAAACTTATATAATAAATA
1 ACATTTTTGAAA-TATATATAATATATAGTTTTTAATA-C-TTTTGAAAACATATATAATATATA
38419 G-TTTTAAAA
63 GTTTTTAAAA
* *
38428 TCA-TTTTGAAATTTATATAATATATAGTT
1 ACATTTTTGAAATATATATAATATATAGTT
38457 GAATTTTTTT
Statistics
Matches: 209, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
70 1 0.00
71 15 0.07
72 20 0.10
73 26 0.12
74 65 0.31
75 22 0.11
76 32 0.15
77 27 0.13
78 1 0.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (72 bp):
ACATTTTTGAAATATATATAATATATAGTTTTTAATACTTTTGAAAACATATATAATATATAGTT
TTTAAAA
Found at i:38249 original size:38 final size:37
Alignment explanation
Indices: 38133--38456 Score: 255
Period size: 38 Copynumber: 8.8 Consensus size: 37
38123 ATATATACAT
*
38133 ATTTTGAAACTACGTATATAATATATAGTTTTT--AAT-
1 ATTTTGAAAATA--TATATAATATATAGTTTTTAAAATC
* * * *
38169 AGTTTTTAAAA-CTATATAATATATAGTTTTAAAAAAAAC
1 A-TTTTGAAAATATATATAATATATAGTTTT--TAAAATC
*
38208 ATTTTAGAAAATATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAATATATATAATATATAGTTTTTAAAATC
38246 ATTTTGAAAACT-TATAT-ATATATAGTTTTTGAAAA-C
1 ATTTTGAAAA-TATATATAATATATAGTTTTT-AAAATC
* *
38282 ATTTTTG-AAA-ACATAT-ATATATAGTTTTGAAAA-C
1 A-TTTTGAAAATATATATAATATATAGTTTTTAAAATC
* * *
38316 ATTTTTTTGAAAACATATATATTATATAGTTTTTGAAGAT-
1 A---TTTTGAAAATATATATAATATATAGTTTTT-AAAATC
** * *
38356 ATTTTTGAAACCATATATATTATATAGTTTTTAAAACC
1 A-TTTTGAAAATATATATAATATATAGTTTTTAAAATC
*
38394 ATTTTGAAAACT-TATATAATAAATAG-TTTTAAAATC
1 ATTTTGAAAA-TATATATAATATATAGTTTTTAAAATC
*
38430 ATTTTG-AAATTTATATAATATATAGTT
1 ATTTTGAAAATATATATAATATATAGTT
38457 GAATTTTTTT
Statistics
Matches: 239, Mismatches: 26, Indels: 46
0.77 0.08 0.15
Matches are distributed among these distances:
34 25 0.10
35 32 0.13
36 40 0.17
37 52 0.22
38 53 0.22
39 16 0.07
40 21 0.09
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (37 bp):
ATTTTGAAAATATATATAATATATAGTTTTTAAAATC
Found at i:38288 original size:12 final size:12
Alignment explanation
Indices: 38271--38295 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38261 ATATATATAG
38271 TTTTTGAAAACA
1 TTTTTGAAAACA
38283 TTTTTGAAAACA
1 TTTTTGAAAACA
38295 T
1 T
38296 ATATATATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:38288 original size:37 final size:35
Alignment explanation
Indices: 38203--38615 Score: 250
Period size: 37 Copynumber: 11.9 Consensus size: 35
38193 AGTTTTAAAA
* *
38203 AAAACATTTTAGAAAA-TATATATAATATATAATTTTT
1 AAAACATTTTTGAAAACT-TATAT-ATATAT-AGTTTT
38240 AAAATCA-TTTTGAAAACTTATATATATATAGTTTTT
1 AAAA-CATTTTTGAAAACTTATATATATATAG-TTTT
38276 GAAAACATTTTTGAAAAC--ATATATATATAGTTTT
1 -AAAACATTTTTGAAAACTTATATATATATAGTTTT
*
38310 GAAAACATTTTTTTGAAAACATATATATTATATAGTTTTT
1 -AAAACA--TTTTTGAAAACTTATATA-TATATAG-TTTT
* * * *
38350 GAAGATATTTTTGAAACCATATATATTATATAGTTTTT
1 -AAAACATTTTTGAAAACTTATATA-TATATAG-TTTT
*
38388 AAAACCA-TTTTGAAAACTTATATAATAAATAGTTTT
1 AAAA-CATTTTTGAAAACTTATAT-ATATATAGTTTT
* *
38424 AAAATCA-TTTTG-AAATTTATATAATATATAG-TTG
1 AAAA-CATTTTTGAAAACTTATAT-ATATATAGTTTT
****
38458 AATTTTTTTTTTTG-AAAC--ATATA-ATATAGTTTT
1 AA--AACATTTTTGAAAACTTATATATATATAGTTTT
* *
38491 AAAACGTTTTTGAAAAC-TATA-ACATATAGTTTT
1 AAAACATTTTTGAAAACTTATATATATATAGTTTT
* *
38524 AAAACATTTTT-AAAA-TTATATA-GTATGGTTTT
1 AAAACATTTTTGAAAACTTATATATATATAGTTTT
*
38556 GAAA-ATATTTTG---A---A-ATATATATAGTTTT
1 AAAACAT-TTTTGAAAACTTATATATATATAGTTTT
*
38584 AAAACATTTTTTTAAAA--TATATATTATATAGT
1 AAAACA-TTTTTGAAAACTTATATA-TATATAGT
38616 ATTTTATTTT
Statistics
Matches: 311, Mismatches: 32, Indels: 68
0.76 0.08 0.17
Matches are distributed among these distances:
27 3 0.01
28 12 0.04
29 5 0.02
30 2 0.01
31 8 0.03
32 35 0.11
33 30 0.10
34 22 0.07
35 38 0.12
36 46 0.15
37 54 0.17
38 40 0.13
39 7 0.02
40 9 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (35 bp):
AAAACATTTTTGAAAACTTATATATATATAGTTTT
Found at i:38501 original size:32 final size:30
Alignment explanation
Indices: 38465--38604 Score: 126
Period size: 33 Copynumber: 4.5 Consensus size: 30
38455 TTGAATTTTT
38465 TTTTTTGAAACATATAATATAGTTTTAAAAC
1 TTTTTTGAAA-ATATAATATAGTTTTAAAAC
*
38496 GTTTTTGAAAACTATAACATATAGTTTTAAAAC
1 TTTTTTGAAAA-TAT-A-ATATAGTTTTAAAAC
* *
38529 ATTTTT-AAAATTATATAGTATGGTTTTGAAAA-
1 TTTTTTGAAAA-TATA-A-TATAGTTTT-AAAAC
*
38561 TATTTTG-AAATAT-ATATAGTTTTAAAAC
1 TTTTTTGAAAATATAATATAGTTTTAAAAC
*
38589 ATTTTTTTAAAATATA
1 -TTTTTTGAAAATATA
38605 TATTATATAG
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
27 4 0.04
28 8 0.09
29 6 0.07
30 7 0.08
31 17 0.19
32 23 0.26
33 24 0.27
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (30 bp):
TTTTTTGAAAATATAATATAGTTTTAAAAC
Found at i:38634 original size:4 final size:4
Alignment explanation
Indices: 38618--38684 Score: 54
Period size: 4 Copynumber: 18.0 Consensus size: 4
38608 TATATAGTAT
* * * **
38618 TTTA TTT- TTTA TTTA TTT- CTTG TTTA -TTA -TTA TTTA CTCG TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
38662 TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA
38685 GGTCTATCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
3 14 0.28
4 36 0.72
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:39965 original size:27 final size:27
Alignment explanation
Indices: 39923--39978 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
39913 TTTTAATTTC
* * *
39923 ATATATATATATATATTTATTATTTTT
1 ATATACATATACATATTTATTATTATT
39950 ATATACATATACATATTTATTATTATT
1 ATATACATATACATATTTATTATTATT
39977 AT
1 AT
39979 TGATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
ATATACATATACATATTTATTATTATT
Found at i:39986 original size:20 final size:20
Alignment explanation
Indices: 39963--40017 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
39953 TACATATACA
39963 TATTTATTATTATTATTGAT
1 TATTTATTATTATTATTGAT
* *
39983 TATTTACTTCTTATT-TTGTT
1 TATTTA-TTATTATTATTGAT
*
40003 TCTTT-TTATT-TTATT
1 TATTTATTATTATTATT
40018 TTATCTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 2 0.07
18 6 0.21
20 14 0.48
21 7 0.24
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (20 bp):
TATTTATTATTATTATTGAT
Found at i:40055 original size:20 final size:20
Alignment explanation
Indices: 40017--40084 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
40007 TTTATTTTAT
*
40017 TTTATCTTACATATATTTTTGG
1 TTTAT-TTA-ATATTTTTTTGG
*
40039 TTTATTTAATATTTTTTAT-T
1 TTTATTTAATATTTTTT-TGG
*
40059 TTTATTTAAT-TTCCTTTTGG
1 TTTATTTAATATT-TTTTTGG
40079 TTTATT
1 TTTATT
40085 CTTTTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 27 0.69
21 4 0.10
22 5 0.13
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (20 bp):
TTTATTTAATATTTTTTTGG
Found at i:45220 original size:84 final size:84
Alignment explanation
Indices: 45014--46049 Score: 1074
Period size: 84 Copynumber: 12.5 Consensus size: 84
45004 TAAACAAACT
** ** * *
45014 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
45079 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
*
45099 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
45164 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * * * *
45183 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAGGACC-CCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
45243 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * ** *
45263 ATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTG-TGACCAAAAGACCTTTGAGTTCGACTA
1 ATTTGCAGCATAACTTAA-GTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTA
45326 CGCTCAGCTCCAAGGCACATC
64 CGCTCAGCTCCAAGGCACATC
45347 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
45412 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * * * * * *
45431 ATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
45496 CTCAGCT-TAACGGCACATC
66 CTCAGCTCCAA-GGCACATC
* * * **
45515 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGA-TCAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT-AC
* * *
45575 ACTCAGCTTCGAGGGCACATC
65 GCTCAGC-TCCAAGGCACATC
* * * * *
45596 ATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
45661 CTCAGCTCCAAGGCACATC
66 CTCAGCTCCAAGGCACATC
* * * ** * *
45680 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
45741 CTCAACTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * *** * ** * *
45761 ATTTACAGCATAACTCAAGGATAAAAGGGTTATCTG-TGACCAAAAGTCCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
45825 GCTCAGCT-CAACGGCACATC
65 GCTCAGCTCCAA-GGCACATC
* * * ** * *
45845 ATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* *
45906 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCCAAGGCACATC
* * * *
45926 ATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
45991 CTCAGCTCCAAGGCATATC
66 CTCAGCTCCAAGGCACATC
* * *
46010 ATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
46050 AGACCCCCGA
Statistics
Matches: 783, Mismatches: 138, Indels: 61
0.80 0.14 0.06
Matches are distributed among these distances:
79 18 0.02
80 117 0.15
81 122 0.16
82 2 0.00
83 7 0.01
84 360 0.46
85 156 0.20
86 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATC
Found at i:45666 original size:165 final size:165
Alignment explanation
Indices: 45014--46119 Score: 1524
Period size: 165 Copynumber: 6.7 Consensus size: 165
45004 TAAACAAACT
* *
45014 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTGACCAAAGACCCCCGAGTTCGATTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA--T-CTG-CCAAAGACCCCCGAGTTCGATTACA
* *
45079 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAA
45144 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
45183 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAGGA-CCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * ** *
45247 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGT-TAGAAGGGTTATCTGTGACCAAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAA-GTCAAGAAGGGTTATCTGCCAACAAAAGAC
45311 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * ** * *
45347 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACA
* * * * * * *
45412 CTCAGC-TCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAA
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAA
* *
45476 GACCTTTGAGTTCGACTATGCTCAGCT-TAACGGCACATC
127 GACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
* *
45515 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATCACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
45580 GCTTCGAGGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCTAACAAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACC
45645 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
45680 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * ** * *
45745 ACTTCGAGGGCACATCATTTACAGCATAACTCAAGGAT-AA-AAGGGTTATCTGTGACCAAAAGT
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAA-G-TCAAGAAGGGTTATCTGCCAACAAAAGA
45808 CCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
129 CCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
*
45845 ATTTCCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * *
45910 GCTTCGAGGGCACATCATTTGCAGCATACCTGAAGTCGAGAAGGGTTGTCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACC
* * *
45975 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
46010 ATTTGTAGCACAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * * * *
46075 ACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGG
46120 CTATTTGTCA
Statistics
Matches: 832, Mismatches: 89, Indels: 36
0.87 0.09 0.04
Matches are distributed among these distances:
163 1 0.00
164 176 0.21
165 472 0.57
166 11 0.01
167 6 0.01
168 117 0.14
169 49 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:46829 original size:37 final size:38
Alignment explanation
Indices: 46705--47020 Score: 236
Period size: 37 Copynumber: 8.8 Consensus size: 38
46695 ATATATACAT
*
46705 ATTTTGAAACTACGTATATA-ATATATAGTTTTT--AAT-
1 ATTTTGAAA--ACTTATATATATATATAGTTTTTAAAATC
* * *
46741 AGTTTTTAAAACTATATA-A--TATATAGTTTTAAAAAAC
1 A-TTTTGAAAACT-TATATATATATATAGTTTTTAAAATC
46778 ATTTT-AGAAA---ATATATATATATA-TTTTTAAAATC
1 ATTTTGA-AAACTTATATATATATATAGTTTTTAAAATC
*
46812 ATTTTGAAAACTTATATATATATATAGTTTTGAAAA-C
1 ATTTTGAAAACTTATATATATATATAGTTTTTAAAATC
*
46849 ATTTTGAAAAC----ATATAT-T-TAGTTTTGAAAA-C
1 ATTTTGAAAACTTATATATATATATAGTTTTTAAAATC
* *
46880 ATTTTTTTGAAAACATATATAT-TATATAGTTTTTGAAGAT-
1 A---TTTTGAAAACTTATATATATATATAGTTTTT-AAAATC
* * *
46920 ATTTTTGAAACCATATATAT-TATATAGTTTTTAAAACC
1 A-TTTTGAAAACTTATATATATATATAGTTTTTAAAATC
*
46958 ATTTTGAAAACTTATATA-ATAAATAG-TTTTAAAATC
1 ATTTTGAAAACTTATATATATATATAGTTTTTAAAATC
*
46994 ATTTTG-AAATTTATATA-ATATATAGTT
1 ATTTTGAAAACTTATATATATATATAGTT
47021 GAAATTGTTT
Statistics
Matches: 234, Mismatches: 18, Indels: 56
0.76 0.06 0.18
Matches are distributed among these distances:
31 14 0.06
32 4 0.02
33 7 0.03
34 38 0.16
35 28 0.12
36 30 0.13
37 58 0.25
38 44 0.19
39 7 0.03
40 4 0.02
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (38 bp):
ATTTTGAAAACTTATATATATATATAGTTTTTAAAATC
Found at i:46835 original size:70 final size:70
Alignment explanation
Indices: 46719--47144 Score: 322
Period size: 70 Copynumber: 6.1 Consensus size: 70
46709 TGAAACTACG
* *
46719 TATATAATATATAGTTTTT--AAT-AGTTTTTAAAACTATATA-ATATATAGTTTTAAAAAACAT
1 TATAT-ATATATAGTTTTTAAAATCA-TTTTGAAAACT-TATATATATATAGTTTT-GAAAACAT
*
46780 TTTAGAAAA
62 TTTTGAAAA
46789 TATATATATATA-TTTTTAAAATCATTTTGAAAACTTATATATATATATAGTTTTGAAAACA-TT
1 TATATATATATAGTTTTTAAAATCATTTTGAAAAC-T-TATATATATATAGTTTTGAAAACATTT
46852 TTGAAAA
64 TTGAAAA
* * * * *
46859 CATATAT-T-TAGTTTTGAAAA-CATTTTTTTGAAAACATATATATTATATAGTTTTTGAAGATA
1 TATATATATATAGTTTTTAAAATCA---TTTTGAAAACTTATATA-TATATAG-TTTTGAAAACA
46921 TTTTTGAAACCA
61 TTTTTGAAA--A
* *
46933 TATATATTATATAGTTTTTAAAACCATTTTGAAAACTTATATAATAAATAGTTTT-AAAATCA-T
1 TATATA-TATATAGTTTTTAAAATCATTTTGAAAACTTATAT-ATATATAGTTTTGAAAA-CATT
*
46996 TTTGAAATT
63 TTTGAAA-A
* * ** *
47005 TATATAATATATAG--TTGAAATTGTTTTTTG-AAAC--ATATA-ATATAGTTTT-AAAACGTTT
1 TATAT-ATATATAGTTTTTAAAAT-CATTTTGAAAACTTATATATATATAGTTTTGAAAACATTT
47063 TTGAAAA
64 TTGAAAA
* * * *
47070 CTATA-ACATATA-TTTTTAAAA-CATTTTTAAAA-TTATATAGTATATGGTTTTGAAAATATTT
1 -TATATATATATAGTTTTTAAAATCATTTTGAAAACTTATATA-TATATAGTTTTGAAAACATTT
47131 TTG-AAA
64 TTGAAAA
47137 TATATATA
1 TATATATA
47145 GTTTTAAAAC
Statistics
Matches: 289, Mismatches: 34, Indels: 69
0.74 0.09 0.18
Matches are distributed among these distances:
63 4 0.01
64 9 0.03
65 11 0.04
66 29 0.10
67 15 0.05
68 23 0.08
69 22 0.08
70 47 0.16
71 37 0.13
72 32 0.11
73 12 0.04
74 11 0.04
75 22 0.08
76 2 0.01
77 11 0.04
78 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (70 bp):
TATATATATATAGTTTTTAAAATCATTTTGAAAACTTATATATATATAGTTTTGAAAACATTTTT
GAAAA
Found at i:47087 original size:33 final size:33
Alignment explanation
Indices: 46761--47177 Score: 231
Period size: 33 Copynumber: 12.2 Consensus size: 33
46751 ACTATATAAT
*
46761 ATATAGTTTTAAAAAACATTTTAGAAAA-TATATA
1 ATATAGTTTT--AAAACATTTTTGAAAACTATATA
*
46795 TATATATTTTTAAAATCA-TTTTGAAAACTTATATATA
1 -ATATAGTTTTAAAA-CATTTTTGAAAAC---TATATA
46832 TATATAGTTTTGAAAACA-TTTTGAAAAC-ATAT-
1 -ATATAGTTTT-AAAACATTTTTGAAAACTATATA
*
46864 ATTTAGTTTTGAAAACATTTTTTTGAAAACATATATA
1 ATATAGTTTT-AAAACA--TTTTTGAAAAC-TATATA
* * *
46901 TTATATAGTTTTTGAAGATATTTTTGAAACCATATATA
1 --ATATAG-TTTT-AAAACATTTTTGAAAAC-TATATA
46939 TTATATAGTTTTTAAAACCA-TTTTGAAAACTTATATA
1 --ATATAG-TTTTAAAA-CATTTTTGAAAAC-TATATA
**
46976 ATAAATAGTTTTAAAATCA-TTTTGAAATTTATATA
1 AT--ATAGTTTTAAAA-CATTTTTGAAAACTATATA
* ***
47011 ATATA-TAGTTGAAATTGTTTTTTG-AAAC-ATATA
1 ATATAGT--TTTAAA-ACATTTTTGAAAACTATATA
*
47044 ATATAGTTTTAAAACGTTTTTGAAAACTATA-A
1 ATATAGTTTTAAAACATTTTTGAAAACTATATA
* *
47076 CATATATTTTTAAAACATTTTT-AAAATTATATA
1 -ATATAGTTTTAAAACATTTTTGAAAACTATATA
* *
47109 GTATATGGTTTTGAAAATATTTTTG--AA--ATAT-
1 --ATATAGTTTT-AAAACATTTTTGAAAACTATATA
*
47140 ATATAGTTTTAAAACATTTTTTTAAAA-TATATA
1 ATATAGTTTTAAAACA-TTTTTGAAAACTATATA
*
47173 TTATA
1 ATATA
47178 TAGTATTTTA
Statistics
Matches: 311, Mismatches: 36, Indels: 72
0.74 0.09 0.17
Matches are distributed among these distances:
28 5 0.02
29 14 0.05
31 24 0.08
32 27 0.09
33 56 0.18
34 30 0.10
35 34 0.11
36 22 0.07
37 50 0.16
38 35 0.11
39 5 0.02
40 9 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.46
Consensus pattern (33 bp):
ATATAGTTTTAAAACATTTTTGAAAACTATATA
Found at i:47169 original size:28 final size:29
Alignment explanation
Indices: 47110--47173 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
47100 AATTATATAG
* *
47110 TATATGGTTTTGAAAATATTTTTGAAATA
1 TATATAGTTTTAAAAATATTTTTGAAATA
* *
47139 TATATAGTTTTAAAACATTTTTTTAAAATA
1 TATATAGTTTTAAAA-ATATTTTTGAAATA
47169 TATAT
1 TATAT
47174 TATATAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.50
Consensus pattern (29 bp):
TATATAGTTTTAAAAATATTTTTGAAATA
Found at i:47181 original size:35 final size:33
Alignment explanation
Indices: 46719--47181 Score: 278
Period size: 35 Copynumber: 13.4 Consensus size: 33
46709 TGAAACTACG
* *
46719 TATATAATATATAGTTTTTAATA-GTTTTT-AAAA
1 TATAT-ATATATAG-TTTTAAAACATTTTTGAAAA
*
46752 CTATATAATATATAGTTTTAAAAAACATTTTAGAAAA
1 -TATAT-ATATATAGTTTT--AAAACATTTTTGAAAA
*
46789 TATATATATATATTTTTAAAATCA-TTTTGAAAACTTA
1 TATATATATATAGTTTTAAAA-CATTTTTG-AAA---A
46826 TATATATATATAGTTTTGAAAACA-TTTTGAAAA
1 TATATATATATAGTTTT-AAAACATTTTTGAAAA
*
46859 CATATAT-T-TAGTTTTGAAAACATTTTTTTGAAAACA
1 TATATATATATAGTTTT-AAAACA--TTTTTG-AAA-A
* *
46895 TATATATTATATAGTTTTTGAAGATATTTTTGAAACCA
1 TATATA-TATATAG-TTTT-AAAACATTTTTGAAA--A
46933 TATATATTATATAGTTTTTAAAACCA-TTTTGAAAA
1 TATATA-TATATAG-TTTTAAAA-CATTTTTGAAAA
* *
46968 CTTATATAATAAATAGTTTTAAAATCA-TTTTGAAATT
1 --TATAT-ATATATAGTTTTAAAA-CATTTTTGAAA-A
* ***
47005 TATATAATATATAG-TTGAAATTGTTTTTTG-AAA
1 TATAT-ATATATAGTTTTAAA-ACATTTTTGAAAA
* *
47038 CATATA-ATATAGTTTTAAAACGTTTTTGAAAA
1 TATATATATATAGTTTTAAAACATTTTTGAAAA
* *
47070 CTATA-ACATATATTTTTAAAACATTTTT-AAAA
1 -TATATATATATAGTTTTAAAACATTTTTGAAAA
* *
47102 TTATATAGTATATGGTTTTGAAAATATTTTTG---A
1 -TATATA-TATATAGTTTT-AAAACATTTTTGAAAA
*
47135 -A-ATATATATAGTTTTAAAACATTTTTTTAAAA
1 TATATATATATAGTTTTAAAACA-TTTTTGAAAA
47167 TATATATTATATAGT
1 TATATA-TATATAGT
47182 ATTTTATTTT
Statistics
Matches: 350, Mismatches: 37, Indels: 83
0.74 0.08 0.18
Matches are distributed among these distances:
28 5 0.01
29 15 0.04
30 3 0.01
31 27 0.08
32 20 0.06
33 48 0.14
34 42 0.12
35 54 0.15
36 36 0.10
37 54 0.15
38 34 0.10
39 3 0.01
40 9 0.03
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (33 bp):
TATATATATATAGTTTTAAAACATTTTTGAAAA
Found at i:48492 original size:2 final size:2
Alignment explanation
Indices: 48485--48547 Score: 83
Period size: 2 Copynumber: 32.0 Consensus size: 2
48475 TTTTAATTTC
48485 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
48526 AT TT TT AT AT AC AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
48548 TTATTATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:49922 original size:13 final size:13
Alignment explanation
Indices: 49903--49953 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
49893 AACGATGATT
49903 TATAATTATAATA
1 TATAATTATAATA
49916 GTA-AATTA-AATA
1 -TATAATTATAATA
49928 TATAATTATAATA
1 TATAATTATAATA
*
49941 -ATTTATTATAATA
1 TA-TAATTATAATA
49954 AATGAAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
11 2 0.06
12 10 0.30
13 19 0.58
14 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
TATAATTATAATA
Found at i:49948 original size:25 final size:26
Alignment explanation
Indices: 49903--49953 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
49893 AACGATGATT
*
49903 TATAATTATAATAGTAAATTA-AATA
1 TATAATTATAATAATAAATTATAATA
**
49928 TATAATTATAATAATTTATTATAATA
1 TATAATTATAATAATAAATTATAATA
49954 AATGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TATAATTATAATAATAAATTATAATA
Found at i:50309 original size:21 final size:22
Alignment explanation
Indices: 50285--50336 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
50275 AAAACGATCG
*
50285 AAAAACGTACC-AAAAGCATAT
1 AAAAACGTACCAAAAAACATAT
*
50306 AAAAGCGTACCATAAAAACATAT
1 AAAAACGTACCA-AAAAACATAT
*
50329 GAAAACGT
1 AAAAACGT
50337 GACATACAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 10 0.40
23 15 0.60
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.15
Consensus pattern (22 bp):
AAAAACGTACCAAAAAACATAT
Found at i:51110 original size:15 final size:15
Alignment explanation
Indices: 51090--51143 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 15
51080 GAGGGGAAGT
51090 AATATATTTTAAAAA
1 AATATATTTTAAAAA
51105 AATATATATTTAAATAA
1 AATATAT-TTTAAA-AA
*
51122 TATATTATTTTAAAAA
1 AATA-TATTTTAAAAA
*
51138 TATATA
1 AATATA
51144 AATGTGACAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 9 0.26
16 12 0.34
17 11 0.31
18 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATTTTAAAAA
Found at i:51113 original size:17 final size:17
Alignment explanation
Indices: 51091--51143 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
51081 AGGGGAAGTA
51091 ATATATTTTAAAAAAAT
1 ATATATTTTAAAAAAAT
*
51108 ATATA-TTT-AAATAAT
1 ATATATTTTAAAAAAAT
*
51123 ATATTATTTTAAAAATAT
1 ATA-TATTTTAAAAAAAT
51141 ATA
1 ATA
51144 AATGTGACAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 9 0.30
16 5 0.17
17 8 0.27
18 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATTTTAAAAAAAT
Found at i:53413 original size:18 final size:18
Alignment explanation
Indices: 53373--53416 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
53363 TGTGCTGGTG
53373 TATTATTTTAGATAATTAC
1 TATT-TTTTAGATAATTAC
53392 -ATTTTTTAGAATAA-TAC
1 TATTTTTTAG-ATAATTAC
53409 TATTTTTT
1 TATTTTTT
53417 TCATCCCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATTTTTTAGATAATTAC
Found at i:55317 original size:22 final size:23
Alignment explanation
Indices: 55278--55328 Score: 95
Period size: 22 Copynumber: 2.3 Consensus size: 23
55268 CCTAAATAGA
55278 ATGCTTTTCCAACTGAGTTATTG
1 ATGCTTTTCCAACTGAGTTATTG
55301 ATGCTTTTCC-ACTGAGTTATTG
1 ATGCTTTTCCAACTGAGTTATTG
55323 ATGCTT
1 ATGCTT
55329 GACTCACTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (23 bp):
ATGCTTTTCCAACTGAGTTATTG
Found at i:58873 original size:21 final size:21
Alignment explanation
Indices: 58839--58894 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
58829 TTTTAAGTTC
58839 ATGACACAATTTTTTTTATCTTT
1 ATGACAC-A-TTTTTTTATCTTT
58862 ATGACACATTTTTTTATCTTT
1 ATGACACATTTTTTTATCTTT
*
58883 -TGACACGTTTTT
1 ATGACACATTTTT
58895 GATCTTATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 11 0.34
21 13 0.41
22 1 0.03
23 7 0.22
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
ATGACACATTTTTTTATCTTT
Found at i:58893 original size:19 final size:21
Alignment explanation
Indices: 58850--58900 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
58840 TGACACAATT
*
58850 TTTTTTATCTTTATGACACAT
1 TTTTTTATCTTTATGACACAG
58871 TTTTTTATCTTT-TGACAC-G
1 TTTTTTATCTTTATGACACAG
*
58890 TTTTTGATCTT
1 TTTTTTATCTT
58901 ATTCATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 6 0.21
21 12 0.43
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.61
Consensus pattern (21 bp):
TTTTTTATCTTTATGACACAG
Found at i:63202 original size:14 final size:15
Alignment explanation
Indices: 63183--63211 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63173 ATATGATATA
63183 CATATAG-ATTTTTT
1 CATATAGAATTTTTT
63197 CATATAGAATTTTTT
1 CATATAGAATTTTTT
63212 TCAAATGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
CATATAGAATTTTTT
Found at i:66445 original size:26 final size:28
Alignment explanation
Indices: 66416--66469 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
66406 TAAGTCATCA
66416 ATAA-AAAATATT-AAAAAATTTA-AGTT
1 ATAATAAAAT-TTAAAAAAATTTAGAGTT
*
66442 ATAATGAAATTTAAAAAAATTTAGAGTT
1 ATAATAAAATTTAAAAAAATTTAGAGTT
66470 GCGACTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 14 0.58
28 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (28 bp):
ATAATAAAATTTAAAAAAATTTAGAGTT
Found at i:68038 original size:17 final size:16
Alignment explanation
Indices: 67999--68041 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
67989 TCTGCTCTTG
67999 GAGTTGTT-GCAGTTA
1 GAGTTGTTAGCAGTTA
*
68014 G-TTTGTTAGTCAGTTA
1 GAGTTGTTAG-CAGTTA
68030 GAGTTGTTAGCA
1 GAGTTGTTAGCA
68042 ATCTTGTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 5 0.22
15 2 0.09
16 9 0.39
17 7 0.30
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.42
Consensus pattern (16 bp):
GAGTTGTTAGCAGTTA
Found at i:71364 original size:46 final size:46
Alignment explanation
Indices: 71295--71412 Score: 173
Period size: 46 Copynumber: 2.6 Consensus size: 46
71285 CACCCATATG
* ** *
71295 CATTTCAATTATGAAATCCTTTCATGCCCTTATATACGCTATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCCTTATATACGATATTATA
* *
71341 CATTTCATTTATGGCATCATTTCATGCCCTTATTTACGATATTATA
1 CATTTCATTTATGGCATCCTTTCATGCCCTTATATACGATATTATA
*
71387 TATTTCATTTATGGCATCCTTTCATG
1 CATTTCATTTATGGCATCCTTTCATG
71413 TATTGTTTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.45
Consensus pattern (46 bp):
CATTTCATTTATGGCATCCTTTCATGCCCTTATATACGATATTATA
Found at i:71617 original size:81 final size:81
Alignment explanation
Indices: 71518--71799 Score: 368
Period size: 81 Copynumber: 3.5 Consensus size: 81
71508 CATATTAATT
* * * * * * * * *
71518 GCATATTTGACACTTTTCTGTCAAATGCACATCTAGTCTATTATTCTTTTACTTAACAATATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTA
71583 ACCGTTCATCTAACTG
66 ACCGTTCATCTAACTG
*
71599 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAACGATATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTA
* *
71664 ATCATTCATCTAACTG
66 ACCGTTCATCTAACTG
* * * * * *
71680 ACATAATTAACACATTTCTGCCAAGTGCACAACTAGGCCATTAATCTTTTACTCAATGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTA
71745 ACCGTTCATCTAACTG
66 ACCGTTCATCTAACTG
* *
71761 GCATAATTGACATCTTTCTACCAAATGCA-AAGCTAGGCC
1 GCATAATTGACACCTTTCTGCCAAATGCACAA-CTAGGCC
71800 TCAAAGGCAC
Statistics
Matches: 174, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 2 0.01
81 172 0.99
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (81 bp):
GCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTAATCTTTTACTCAACGATATTTA
ACCGTTCATCTAACTG
Found at i:71840 original size:68 final size:67
Alignment explanation
Indices: 71749--71935 Score: 248
Period size: 68 Copynumber: 2.7 Consensus size: 67
71739 TATTTAACCG
* ** * * *
71749 TTCATCTAACTGGCATAATTGACATCTTTCTACCAAATGCAAAGCTAGGCCTCAAAGGCACTTGG
1 TTCATCTAACCGGCATAATTGACA-CTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
71814 CCT
65 CCT
* * * *
71817 TTCATCTAACCAGAATAATTGACACATTTCTGTCAAATGCACAGTTAGACCTTAAAGGCACTTAG
1 TTCATCTAACCGGCATAATTGACAC-TTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
71882 CCT
65 CCT
*
71885 TTCATCTAACCGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCC
1 TTCATCTAACCGGCATAATTGACA-CTTTCTGTCAAATGCACAGTTAGGCC
71936 ATTAATATTT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
67 1 0.01
68 101 0.98
69 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (67 bp):
TTCATCTAACCGGCATAATTGACACTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
CT
Found at i:72268 original size:54 final size:54
Alignment explanation
Indices: 72197--72317 Score: 188
Period size: 54 Copynumber: 2.2 Consensus size: 54
72187 TGTGGTTTTT
* * *
72197 CACACATAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTTAGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCAGTGAAATG
* *
72251 CACACTTAGTGCCGAAACGGTTATTTATCCACATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCAGTGAAATG
*
72305 CACAATTAGTGCC
1 CACACTTAGTGCC
72318 TATCTGGTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (54 bp):
CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCAGTGAAATG
Found at i:72684 original size:22 final size:22
Alignment explanation
Indices: 72650--72692 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
72640 TCAGTATTGA
*
72650 TACCCATACATGGTATCGATAC
1 TACCCATACATGGTACCGATAC
72672 TACCC-TACTATGGTACCGATA
1 TACCCATAC-ATGGTACCGATA
72693 TTATGCTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (22 bp):
TACCCATACATGGTACCGATAC
Found at i:75234 original size:21 final size:21
Alignment explanation
Indices: 75195--75234 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
75185 TTCATGTACC
*
75195 ACTTATCTAATATCCTTTTAT
1 ACTTATCTAATATCATTTTAT
75216 ACTTATCT-ATATACATTTT
1 ACTTATCTAATAT-CATTTT
75235 CCTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (21 bp):
ACTTATCTAATATCATTTTAT
Found at i:75659 original size:18 final size:18
Alignment explanation
Indices: 75632--75684 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
75622 ACTGTATATT
*
75632 TGTCCCGAAGAACCACTA
1 TGTCCCGAAGGACCACTA
*
75650 TGTCCAGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
75668 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
75685 CCTTAAGAAC
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:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Done.