Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 272 of 279
Found at i:88974249 original size:47 final size:47
Alignment explanation
Indices: 88974190--88974399 Score: 341
Period size: 47 Copynumber: 4.5 Consensus size: 47
88974180 CCATGCCTTG
* * * *
88974190 ACATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTTCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
**
88974237 ACATTATCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
88974284 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
**
88974331 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATG-TCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
88974377 ACATGGTCTTACATGGTATCCTT
1 ACATGGTCTTACATGGTATCCTT
88974400 AACCGTCAAT
Statistics
Matches: 153, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 26 0.17
47 127 0.83
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
Found at i:88974483 original size:44 final size:44
Alignment explanation
Indices: 88974404--88974488 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
88974394 ATCCTTAACC
* * *
88974404 GTCAATTCCTCCTTAAATGTCATGTTATGAACATGGACTTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTTCT
* *
88974448 GTCAATTCTTCCTTAATTGCCATGGTA-CAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTATCAA-CATGGACTTT
88974489 GAGATATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTTCT
Found at i:88976921 original size:55 final size:56
Alignment explanation
Indices: 88976801--88976967 Score: 273
Period size: 55 Copynumber: 3.0 Consensus size: 56
88976791 GAACATGACA
* *
88976801 TCGATATATGTGTGTGAGTAAGACAACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
88976857 CCAATATATGTGTGCGAGTAAGACCACGTTTAATA-GTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
88976912 TCGATATATGTGTGCGAGTAAGACCACGTCTAGTACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
88976968 ACATGTAAGA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 51 0.50
56 51 0.50
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:88978627 original size:38 final size:38
Alignment explanation
Indices: 88978544--88978628 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 38
88978534 ACGGTACTTT
** * *
88978544 ATGGTGTGTAGGGTTGGATGGGTCAATTTTATCCCCAT
1 ATGGTGTACAGGGATGGATGGGTCAATTTTATCCCCAC
* *
88978582 ATTTGGTGTACAGGGATGGGTGGGTCGATTTTATCCCCAC
1 A--TGGTGTACAGGGATGGATGGGTCAATTTTATCCCCAC
88978622 ATGGTGT
1 ATGGTGT
88978629 GTTGGGTTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 7 0.18
40 32 0.82
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (38 bp):
ATGGTGTACAGGGATGGATGGGTCAATTTTATCCCCAC
Found at i:88982362 original size:47 final size:45
Alignment explanation
Indices: 88982206--88982516 Score: 213
Period size: 47 Copynumber: 6.7 Consensus size: 45
88982196 GGATACATTA
* *
88982206 CCGATGCCATGTCCCAAACATGGTCTTACACTAGC--TCTCATATACGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCTC-TGTA-G-G
* * *
88982254 TACTGATGCATGTCCTAGACATGTCTTACACTAGCATAACTCT-TA-G
1 --CCGATGCATGTCCCAGACATGTCTTACACTAGC-TATCTCTGTAGG
* * *
88982300 CCAATGTATGTCCCAGACACGTCTTACACTAGCTATCTCTGTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTGT--AGG
* * * *
88982347 CCGATGTATGTCCCAGACATGTCTTATACTGGCTAT-TACAGTATGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTATCT-CTGTA-GG
* * ** *
88982393 CTGATGCATGTCCCAGACATGTCATACACTAGCCCTCGTCTAG-ATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTATC-TCT-GTAGG
* * *
88982439 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC-T-CTGTAGG
* *
88982487 CCGAAGCATGTCCTAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
88982517 GGCGCACAAA
Statistics
Matches: 212, Mismatches: 33, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.03
44 29 0.14
45 1 0.00
46 50 0.24
47 65 0.31
48 37 0.17
49 15 0.07
50 6 0.03
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTGTAGG
Found at i:88984125 original size:22 final size:21
Alignment explanation
Indices: 88984092--88984133 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
88984082 GAACATGGTG
88984092 AATTTTAGTTAATTTTGTACTT
1 AATTTTAGTTAATTTT-TACTT
88984114 AATTTT-GATTAATTTTTACT
1 AATTTTAG-TTAATTTTTACT
88984134 ATTCTCGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
AATTTTAGTTAATTTTTACTT
Found at i:88990904 original size:15 final size:15
Alignment explanation
Indices: 88990884--88990919 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
88990874 ACATACGAGA
88990884 CACCTTTAGGGATGT
1 CACCTTTAGGGATGT
88990899 CACCTTTAGGGATGT
1 CACCTTTAGGGATGT
88990914 CACCTT
1 CACCTT
88990920 ACAGGTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (15 bp):
CACCTTTAGGGATGT
Found at i:88992513 original size:17 final size:16
Alignment explanation
Indices: 88992479--88992513 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
88992469 TTTTAATTTT
*
88992479 TTTTTCAATTAGTTAA
1 TTTTTCAATTAATTAA
88992495 TTTTTCAATTAATTGAA
1 TTTTTCAATTAATT-AA
88992512 TT
1 TT
88992514 ATTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTTTCAATTAATTAA
Found at i:88995417 original size:10 final size:11
Alignment explanation
Indices: 88995392--88995425 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
88995382 TGAATTTCAG
88995392 TTAATTTTGTAC
1 TTAATTTTG-AC
88995404 TTAATTTTGA-
1 TTAATTTTGAC
88995414 TTAATTTTGAC
1 TTAATTTTGAC
88995425 T
1 T
88995426 ATTTTCGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 2 0.10
12 9 0.43
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (11 bp):
TTAATTTTGAC
Found at i:89003247 original size:46 final size:45
Alignment explanation
Indices: 89003197--89003372 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
89003187 TGTTTGGGCA
*
89003197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
89003243 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
89003290 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
89003336 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
89003373 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:89003352 original size:93 final size:93
Alignment explanation
Indices: 89003193--89003364 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
89003183 AGGATGTTTG
* * *
89003193 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
89003258 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
89003286 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
89003351 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
89003365 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:89007739 original size:53 final size:53
Alignment explanation
Indices: 89007558--89007766 Score: 256
Period size: 53 Copynumber: 3.9 Consensus size: 53
89007548 ATTAGGTTGT
* * * *
89007558 AAGGATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTTATAAGGC
* * * * * *
89007612 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * * *
89007667 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTATAAGGC
*
89007720 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
89007767 AAAAGGAAAG
Statistics
Matches: 130, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 50 0.38
54 39 0.30
55 41 0.32
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:89020730 original size:43 final size:45
Alignment explanation
Indices: 89020663--89020790 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
89020653 CTTGAGTTCA
* **
89020663 TTCACCGGCATT-TCGCCTGCTAGGCTTGAA-GCCCG-ATA-TCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-AT
* *
89020705 TTCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
* *
89020750 CTCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
89020791 TTACTGTACG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 11 0.15
43 15 0.21
44 4 0.05
45 42 0.58
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
Found at i:89024611 original size:8 final size:8
Alignment explanation
Indices: 89024598--89024638 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
89024588 ACAATAGCAA
89024598 CACTGTAG
1 CACTGTAG
89024606 CACTGTAG
1 CACTGTAG
89024614 CACTGTAG
1 CACTGTAG
89024622 CACTGTAG
1 CACTGTAG
*
89024630 CACTCTAG
1 CACTGTAG
89024638 C
1 C
89024639 TGAAACTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (8 bp):
CACTGTAG
Found at i:89037124 original size:21 final size:21
Alignment explanation
Indices: 89037100--89037161 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
89037090 TGGTAAATTA
89037100 TAAACTATAAACCTTAAACCC
1 TAAACTATAAACCTTAAACCC
* *
89037121 TAAA-TATTAAACCTTGAATCC
1 TAAACTA-TAAACCTTAAACCC
* *
89037142 TAAACCATAAAACCCTAAAC
1 TAAACTAT-AAACCTTAAAC
89037162 TATAAATAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 21 0.66
22 9 0.28
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACTATAAACCTTAAACCC
Found at i:89037303 original size:20 final size:20
Alignment explanation
Indices: 89037265--89037304 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89037255 CTTAAAACTA
***
89037265 TAAACCCTAAATTTTAAACC
1 TAAACCCTAAATCCAAAACC
89037285 TAAACCCTAAATCCAAAACC
1 TAAACCCTAAATCCAAAACC
89037305 ATAATACCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAACCCTAAATCCAAAACC
Found at i:89037674 original size:3 final size:3
Alignment explanation
Indices: 89037666--89037715 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
89037656 ATTAATAGTA
* * *
89037666 AAT AAT AAT AAT AAT AAA AAT AAT AAG AAT AAG AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89037714 AA
1 AA
89037716 AAGAGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:89041804 original size:9 final size:9
Alignment explanation
Indices: 89041787--89042066 Score: 347
Period size: 9 Copynumber: 31.7 Consensus size: 9
89041777 TTAGAGTGGN
89041787 AACTTACAT
1 AACTTACAT
*
89041796 AACTCACAT
1 AACTTACAT
89041805 AACTTACAT
1 AACTTACAT
89041814 AACTTACAT
1 AACTTACAT
*
89041823 AACTCACAT
1 AACTTACAT
89041832 AACTTACAT
1 AACTTACAT
89041841 AACTTACAT
1 AACTTACAT
*
89041850 AACTCACAT
1 AACTTACAT
89041859 AACTTACAT
1 AACTTACAT
*
89041868 AACTTATAT
1 AACTTACAT
89041877 AACTTACAT
1 AACTTACAT
89041886 AACTTACAT
1 AACTTACAT
* *
89041895 AACTCACAA
1 AACTTACAT
89041904 AACTTACAT
1 AACTTACAT
*
89041913 AACTTATAT
1 AACTTACAT
89041922 AACTTACAT
1 AACTTACAT
89041931 AACTTACAT
1 AACTTACAT
*
89041940 AACTCACAT
1 AACTTACAT
89041949 AACTTACAT
1 AACTTACAT
89041958 AACTT--AT
1 AACTTACAT
* *
89041965 -ATTTAGAT
1 AACTTACAT
*
89041973 AACTCACAT
1 AACTTACAT
*
89041982 AACTCACAT
1 AACTTACAT
*
89041991 AACTTACAA
1 AACTTACAT
89042000 AACTTACAT
1 AACTTACAT
*
89042009 AATTTACAT
1 AACTTACAT
89042018 AACTTACAT
1 AACTTACAT
89042027 AA--TACAT
1 AACTTACAT
* *
89042034 AA-ATATAT
1 AACTTACAT
* *
89042042 ATCATATCAT
1 AACTTA-CAT
89042052 AACTTACAT
1 AACTTACAT
89042061 AACTTA
1 AACTTA
89042067 ATTAGAGTTA
Statistics
Matches: 235, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
6 3 0.01
7 9 0.04
8 7 0.03
9 210 0.89
10 6 0.03
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:89044559 original size:32 final size:32
Alignment explanation
Indices: 89044523--89044587 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
89044513 TGTATGCATT
89044523 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
89044555 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
89044587 T
1 T
89044588 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:89046109 original size:26 final size:26
Alignment explanation
Indices: 89046057--89046109 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
89046047 TTTATAGTTT
*
89046057 TACCCCTAGGAGATAAATTACCGAAA
1 TACCCCTAGGAGATAAATTAACGAAA
* *
89046083 TACCCCTAGG-GTTAAATTGAACTAAA
1 TACCCCTAGGAGATAAATT-AACGAAA
89046109 T
1 T
89046110 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTAACGAAA
Found at i:89047702 original size:12 final size:12
Alignment explanation
Indices: 89047685--89047713 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
89047675 ACTCAGGGAA
89047685 GAGGCCGTGGTC
1 GAGGCCGTGGTC
89047697 GAGGCCGTGGTC
1 GAGGCCGTGGTC
89047709 GAGGC
1 GAGGC
89047714 TGAGGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.24, G:0.52, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:89050770 original size:47 final size:47
Alignment explanation
Indices: 89050692--89051807 Score: 2079
Period size: 47 Copynumber: 23.7 Consensus size: 47
89050682 CCCTTCGAGA
* * * * * * *
89050692 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
89050739 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89050786 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89050833 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89050880 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89050927 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89050974 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051021 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051068 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051115 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051162 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051209 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051256 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051303 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051350 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051397 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051444 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051538 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89051585 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89051632 CTTATCACACATATACACTTTCACGTTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89051679 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89051726 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89051773 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
89051808 AGAATCCTAA
Statistics
Matches: 1047, Mismatches: 22, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 1047 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89059323 original size:26 final size:26
Alignment explanation
Indices: 89059293--89059345 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
89059283 TTTATAGTTT
89059293 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
89059319 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
89059345 T
1 T
89059346 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:89064166 original size:43 final size:43
Alignment explanation
Indices: 89064119--89064257 Score: 217
Period size: 43 Copynumber: 3.2 Consensus size: 43
89064109 GAAAAAAGCA
* * *
89064119 CCGCTAAAAGTCAT-AGCTTTTAGCGGCGCTTTCCCAACAAACG
1 CCGCTAAAAGCCATGA-CTTTTAGCGGCGCTTCCCCTACAAACG
*
89064162 CCGCTAAAAGCCATGACTTTTAGCGACGCTTCCCCTACAAACG
1 CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCTACAAACG
*
89064205 CCGCTAAAACCCATGACTTTTAGCGGCGCTTCCCCTACAAACG
1 CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCTACAAACG
89064248 CCGCTAAAAG
1 CCGCTAAAAG
89064258 TCTTGATCTT
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 87 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (43 bp):
CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCTACAAACG
Found at i:89070431 original size:48 final size:48
Alignment explanation
Indices: 89070359--89070538 Score: 203
Period size: 48 Copynumber: 3.9 Consensus size: 48
89070349 ATACTAAGAA
* *
89070359 GCCAATGCCATATCCC-GTATATGGTCTTACATGGGATCACATATCGAT
1 GCCAATGCCATGTCCCAG-ACATGGTCTTACATGGGATCACATATCGAT
* *
89070407 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCATATGTCGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGAT
**** *
89070455 GCCAAT---A-G-CCCAG-CTATGGTCTTACACAAAATTACATATCGAT
1 GCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCGAT
*
89070498 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
89070539 CATAACCCTA
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
42 1 0.01
43 31 0.29
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 69 0.64
49 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGAT
Found at i:89076410 original size:40 final size:40
Alignment explanation
Indices: 89076336--89076556 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
89076326 AACCCAAGTA
* * *
89076336 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
89076375 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** * * *
89076415 CCTTCAAGACTTAGCCTGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
89076455 CCTTCCGGACTTAGCCC-GAGTATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGA-TATAGTCACTAGCACAAATG
*
89076495 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
89076534 CCTTCGGGACTTAGCCCAGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89076557 CATCCGAATA
Statistics
Matches: 153, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
39 38 0.25
40 111 0.73
41 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89076468 original size:80 final size:78
Alignment explanation
Indices: 89076336--89076556 Score: 275
Period size: 80 Copynumber: 2.8 Consensus size: 78
89076326 AACCCAAGTA
* *
89076336 CCTTCGAGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGAGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCC-GATATAGT
*
89076401 CACTAGCACAAAAG
65 CAATAGCACAAAAG
* * *
89076415 CCTTCAAGACTTAGCCTGGATATAGCAACTCGCACAAACGCCTTCCGGACTTAGCCCGAGTATAG
1 CCTTCGAGACTTAGCC-GGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGA-TATAG
**
89076480 TCAATAGCACAACTG
64 TCAATAGCACAAAAG
* * *
89076495 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATGCCTTCGGGACTTAGCCCAGATAT
1 CCTTCGAGACTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCC-GATAT
89076557 CATCCGAATA
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
79 37 0.30
80 83 0.67
81 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (78 bp):
CCTTCGAGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAGTC
AATAGCACAAAAG
Found at i:89082996 original size:37 final size:37
Alignment explanation
Indices: 89082935--89083013 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
89082925 TTATAACGAA
* * * *
89082935 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
89082972 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
89083009 GTCTT
1 GTCTT
89083014 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:89083254 original size:49 final size:48
Alignment explanation
Indices: 89083132--89083693 Score: 886
Period size: 47 Copynumber: 11.8 Consensus size: 48
89083122 CCCTTCGGGA
* * * * * *
89083132 CTTA-TCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89083179 CCT-GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89083226 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89083275 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89083324 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89083373 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89083422 CTTATCTCATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTAT-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89083471 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89083518 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89083565 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89083612 CTTA-TCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89083659 CTTA-TCACATATATACACTTTCACATTCATCACAT
1 CTTATTCACATATATACACTTTCACATTCATCACAT
89083694 AGAATCCTAA
Statistics
Matches: 496, Mismatches: 16, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
47 255 0.51
49 241 0.49
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (48 bp):
CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89083318 original size:98 final size:96
Alignment explanation
Indices: 89083143--89083693 Score: 912
Period size: 98 Copynumber: 5.7 Consensus size: 96
89083133 TTATCACATT
* * * * * * *
89083143 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
89083208 TCACATCGGCCATTAGGCCTTATCTCATATA
66 TCACATCGGCCATTAGGCCTTATCTCATATA
*
89083239 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA--TCACATATATACACTTTCACATT
89083304 CATCACATCGGCCATTAGGCCTTATCTCATATA
64 CATCACATCGGCCATTAGGCCTTATCTCATATA
*
89083337 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA--TCACATATATACACTTTCACATT
89083402 CATCACATCGGCCATTAGGCCTTATCTCATATA
64 CATCACATCGGCCATTAGGCCTTATCTCATATA
*
89083435 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
89083500 TCACATCGGCCATTAGGCCTTA--TCACATA
66 TCACATCGGCCATTAGGCCTTATCTCATATA
*
89083529 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
89083594 TCACATCGGCCATTAGGCCTTA--TCACATA
66 TCACATCGGCCATTAGGCCTTATCTCATATA
*
89083623 TATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
89083688 TCACAT
66 TCACAT
89083694 AGAATCCTAA
Statistics
Matches: 438, Mismatches: 15, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
94 167 0.38
96 79 0.18
98 192 0.44
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCTCATATA
Found at i:89088915 original size:40 final size:40
Alignment explanation
Indices: 89088833--89089053 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
89088823 AACCCAAGTA
* * *
89088833 CCTTCGGGATTTAG-CCGAATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
89088872 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAAAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
89088912 CCTTCGGGACTTAGCCCGGATATAG-CAACTCA-CACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
* * * *
89088952 CCTTCGGGACTTAGCCCGGGTATATTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
89088992 CCTTCGGGACTTATACCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89089031 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
89089054 CATCCGAATA
Statistics
Matches: 153, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
39 37 0.24
40 113 0.74
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89091619 original size:27 final size:28
Alignment explanation
Indices: 89091537--89091631 Score: 120
Period size: 27 Copynumber: 3.4 Consensus size: 28
89091527 GAGATTGGCG
* * * *
89091537 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
89091566 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
89091594 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
89091621 CTGAGTGTGCG
1 CTAAGTGTGCG
89091632 GACTTAATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.39
28 21 0.36
29 15 0.25
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:89091642 original size:27 final size:27
Alignment explanation
Indices: 89091562--89091644 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
89091552 TAAATTGTAC
* * *
89091562 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
89091590 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
89091617 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
89091644 A
1 A
89091645 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:89099025 original size:115 final size:116
Alignment explanation
Indices: 89098815--89099229 Score: 685
Period size: 115 Copynumber: 3.6 Consensus size: 116
89098805 TAATTTAACA
* * * *
89098815 TTAGCGGTGTTTATAACCTAGCGCCGCTAAAAAC-CATCTATTGCGGCGTTTAGCCTCAAAACGC
1 TTAGCGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
* * **
89098879 CACTAATAATATAATAAAACGACGCCATTTTTGTTTTAACTGAAATCACCT
66 CACTAATAATATAACAAAACGGCGCTGTTTTTGTTTTAACTGAAATCACCT
*
89098930 TTAGCGGCGTTTATACCCTAGCGTCGCT-AAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
1 TTAGCGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
89098994 CACTAATAATATAACAAAACGGCGCTGTTTTTGTTTTAACTGAAATCACCT
66 CACTAATAATATAACAAAACGGCGCTGTTTTTGTTTTAACTGAAATCACCT
*
89099045 TTAGCGGCGTTTATACCCTAGCGTCGCT-AAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
1 TTAGCGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
89099109 CACTAATAATATAACAAAACGGCGCTGTTTTTGTTTTAACTGAAATCACCT
66 CACTAATAATATAACAAAACGGCGCTGTTTTTGTTTTAACTGAAATCACCT
* * *
89099160 TTAGCGGCGTTTATATCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTTG-CGCAAAACGC
1 TTAGCGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
89099224 CACTAA
66 CACTAA
89099230 CAAATCCAAT
Statistics
Matches: 285, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
114 5 0.02
115 256 0.90
116 24 0.08
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (116 bp):
TTAGCGGCGTTTATACCCTAGCGCCGCTAAAAACGCACCTATTGCGGCGTTTAGCCCCAAAACGC
CACTAATAATATAACAAAACGGCGCTGTTTTTGTTTTAACTGAAATCACCT
Found at i:89099381 original size:16 final size:17
Alignment explanation
Indices: 89099360--89099394 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
89099350 CTTTTAAAAT
89099360 ATATAAATT-AAAAACA
1 ATATAAATTAAAAAACA
89099376 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
89099393 AT
1 AT
89099395 CACTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:89099654 original size:22 final size:24
Alignment explanation
Indices: 89099611--89099656 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
89099601 TAAACTTTAA
89099611 AATTATTTTAAATAATAGTATTTT
1 AATTATTTTAAATAATAGTATTTT
89099635 AATT-TTTTAACAT-ATA-TATTTT
1 AATTATTTTAA-ATAATAGTATTTT
89099657 CACACTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
23 9 0.43
24 6 0.29
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTATTTTAAATAATAGTATTTT
Found at i:89099732 original size:14 final size:15
Alignment explanation
Indices: 89099708--89099749 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
89099698 CTAAAACCCC
89099708 TAACACCTAAATCTTA
1 TAAC-CCTAAATCTTA
*
89099724 -AACCCTAAACCTTA
1 TAACCCTAAATCTTA
89099738 TAACCCATAAAT
1 TAACCC-TAAAT
89099750 TCATAACTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (15 bp):
TAACCCTAAATCTTA
Found at i:89100255 original size:37 final size:37
Alignment explanation
Indices: 89100214--89100284 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
89100204 AACATAAACT
* * *
89100214 GGTTTAGTGTTTTAGGGGTAATAGTTTAGTGTTTATG
1 GGTTTACTGTTTTAGGAGTAATAGATTAGTGTTTATG
*
89100251 GGTTTACTGTTTTAGGAGTTATAGATTAGTGTTT
1 GGTTTACTGTTTTAGGAGTAATAGATTAGTGTTT
89100285 CTGATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (37 bp):
GGTTTACTGTTTTAGGAGTAATAGATTAGTGTTTATG
Found at i:89100414 original size:41 final size:41
Alignment explanation
Indices: 89100368--89100528 Score: 241
Period size: 41 Copynumber: 3.9 Consensus size: 41
89100358 ATTGATCCTG
* *
89100368 TTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCCAT
1 TTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCCAT
* * * *
89100409 TTTTTAGCGGTGTTTTACCAAAAGTGCCGCTAATGCTCCGT
1 TTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCCAT
* * *
89100450 TTATTAGCAGCATTTTACCAAAAGCGCCGCTAATGTTCCAT
1 TTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCCAT
89100491 TTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTC
1 TTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTC
89100529 TGGTTTTTAG
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (41 bp):
TTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCCAT
Found at i:89100536 original size:41 final size:41
Alignment explanation
Indices: 89100367--89100547 Score: 238
Period size: 41 Copynumber: 4.4 Consensus size: 41
89100357 TATTGATCCT
*
89100367 GTTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCCA
1 GTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCA
* * *
89100408 TTTTTTAGCGGTGTTTTACCAAAAGTGCCGCTAATGCTCC-
1 GTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCA
* * *
89100448 GTTTATTAGCAGCATTTTACCAAAAGCGCCGCTAATGTTCCA
1 GTTT-TTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCA
* * **
89100490 TTTTTTAGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
1 GTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCA
*
89100531 GTTTTTAGTGGCGTTTT
1 GTTTTTAGCGGCGTTTT
89100548 TGATAAAACG
Statistics
Matches: 120, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
40 3 0.03
41 114 0.95
42 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (41 bp):
GTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCA
Found at i:89101143 original size:19 final size:18
Alignment explanation
Indices: 89101115--89101150 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89101105 ATGAATAAAA
89101115 TAAAAATAAAATACCCAAT
1 TAAAAAT-AAATACCCAAT
*
89101134 TAAAACTAAATACCCAA
1 TAAAAATAAATACCCAA
89101151 GAGTCCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAAATAAATACCCAAT
Found at i:89101416 original size:34 final size:33
Alignment explanation
Indices: 89101372--89101435 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
89101362 TCTCAGTTAG
*
89101372 GGCCTTAGCCCATTTCAGTAACAGTAGCAGTCTA
1 GGCCTGAGCCCATTTCAGTAACAGTA-CAGTCTA
*
89101406 GGCCTGAGCCCATTTCAGTATCAGTACAGT
1 GGCCTGAGCCCATTTCAGTAACAGTACAGT
89101436 ATGCAATCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (33 bp):
GGCCTGAGCCCATTTCAGTAACAGTACAGTCTA
Found at i:89108324 original size:43 final size:43
Alignment explanation
Indices: 89108263--89108347 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
89108253 AGCTACATTT
89108263 ATCCCGTAGCTCTCTTGTCTACTTGGTATACATCCCGTATCAG
1 ATCCCGTAGCTCTCTTGTCTACTTGGTATACATCCCGTATCAG
*
89108306 ATCCCGTAGCTCTCTTGTCTACTTGGTATACATCCTGTATCA
1 ATCCCGTAGCTCTCTTGTCTACTTGGTATACATCCCGTATCA
89108348 CACATGTGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.36
Consensus pattern (43 bp):
ATCCCGTAGCTCTCTTGTCTACTTGGTATACATCCCGTATCAG
Found at i:89114766 original size:46 final size:46
Alignment explanation
Indices: 89114716--89114888 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
89114706 TGGTTGAGCA
*
89114716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
89114762 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
89114809 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
89114855 CCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89114889 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:89114872 original size:93 final size:93
Alignment explanation
Indices: 89114713--89114883 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
89114703 GGATGGTTGA
* * *
89114713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
89114778 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
89114806 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
89114871 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
89114884 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:89115150 original size:19 final size:20
Alignment explanation
Indices: 89115113--89115150 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
89115103 ATAAGGTGGT
89115113 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
89115133 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
89115151 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:89116737 original size:24 final size:24
Alignment explanation
Indices: 89116638--89116738 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
89116628 AAGTCTGTCA
*
89116638 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
89116662 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
89116686 GGATAGGATTTAGAAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
89116710 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
89116734 GGAGA
1 GGAGA
89116739 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:89118252 original size:26 final size:26
Alignment explanation
Indices: 89118145--89118255 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
89118135 AGGTACCATC
*
89118145 CTGGTGGCTATGCCACATTTATCTGA-T
1 CTGGTGGCTCTGCCACA-TTATCT-ATT
* *
89118172 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTATT
89118199 CTGGTGGCTCTGCCACAATTATCTATT
1 CTGGTGGCTCTGCCAC-ATTATCTATT
* *
89118226 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTATT
89118252 CTGG
1 CTGG
89118256 AAGCAATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:89124596 original size:24 final size:24
Alignment explanation
Indices: 89124526--89124584 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
89124516 CTATCAAGAG
89124526 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* *
89124550 AGGATTTAAGTGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
89124574 AGGATTTAGGA
1 AGGATTTAGGA
89124585 CCTGATTAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:89126036 original size:27 final size:27
Alignment explanation
Indices: 89125995--89126105 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
89125985 AGGAAGCGTC
* *
89125995 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * * *
89126022 CTAGTGGCTTTGCCACATATATATGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
89126049 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
89126076 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
89126102 CTGG
1 CTGG
89126106 CAGCAATACT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 13 0.18
27 59 0.82
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:89134754 original size:42 final size:43
Alignment explanation
Indices: 89134646--89134800 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
89134636 AGCTCGTACA
* * * * *
89134646 ACGCCAATGTGCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ACGCCAATGTCCCAGACATGGTCTTAAACGAAATCAAATATCG
* * * *
89134689 AAGCCATTGTCCCAGACAGGGTCTTAAACGAAATCATATA-CG
1 ACGCCAATGTCCCAGACATGGTCTTAAACGAAATCAAATATCG
* *
89134731 ACGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA-ATCG
1 ACGCCAATGTCCCAGACATGGTCTTAAAC-GAAATCA-AATATCG
* * **
89134775 ATGCGAACATCCCAGACATGGTCTTA
1 ACGCCAATGTCCCAGACATGGTCTTA
89134801 CATGATAACA
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 27 0.30
43 38 0.42
44 25 0.28
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ACGCCAATGTCCCAGACATGGTCTTAAACGAAATCAAATATCG
Found at i:89140851 original size:47 final size:45
Alignment explanation
Indices: 89140720--89140889 Score: 189
Period size: 47 Copynumber: 3.6 Consensus size: 45
89140710 TGTGTGAGCT
* *
89140720 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATATAAGCC
* **
89140766 AGTGTAAGACATGTCTAGGACATGCATCGACTACGAGATGAT-AGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGAT-ATAAGCC
* *
89140812 AGTGTAAGACAATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGACTCGAGATATAAGCC
* *
89140859 AATGTAAGATTATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
89140890 GCACCTTACC
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
45 3 0.03
46 46 0.43
47 49 0.46
48 9 0.08
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATATAAGCC
Found at i:89149198 original size:14 final size:15
Alignment explanation
Indices: 89149181--89149210 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
89149171 ATATCTGTGA
89149181 AATTTTTGTG-ATTT
1 AATTTTTGTGAATTT
89149195 AATTTTTGTGAATTT
1 AATTTTTGTGAATTT
89149210 A
1 A
89149211 TATCTATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (15 bp):
AATTTTTGTGAATTT
Found at i:89151345 original size:26 final size:26
Alignment explanation
Indices: 89151309--89151360 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
89151299 ATGATAAGAA
89151309 TTCTTTCTGAAACTAAACAGTCACAT
1 TTCTTTCTGAAACTAAACAGTCACAT
89151335 TTCTTTCTGAAACTAAACAGTCACAT
1 TTCTTTCTGAAACTAAACAGTCACAT
89151361 ACACTTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (26 bp):
TTCTTTCTGAAACTAAACAGTCACAT
Found at i:89151368 original size:26 final size:26
Alignment explanation
Indices: 89151313--89151368 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
89151303 TAAGAATTCT
* *
89151313 TTCTGAAACTAAACAGTCACATTTCT
1 TTCTGAAACTAAACAGTCACATTACC
89151339 TTCTGAAACTAAACAGTCACA-TACAC
1 TTCTGAAACTAAACAGTCACATTAC-C
89151365 TTCT
1 TTCT
89151369 AAGGATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
TTCTGAAACTAAACAGTCACATTACC
Found at i:89154092 original size:18 final size:18
Alignment explanation
Indices: 89154071--89154164 Score: 59
Period size: 19 Copynumber: 5.1 Consensus size: 18
89154061 AAGAAACATT
89154071 ATCAGAA-CTACAATCAGA
1 ATCAGAATC-ACAATCAGA
*
89154089 ATCAGAATCAGAATCAGA
1 ATCAGAATCACAATCAGA
* * *
89154107 ATCAG-GTGACAGAATTAGA
1 ATCAGAAT--CACAATCAGA
**
89154126 ATCAGAATCAGTATCAGGTA
1 ATCAGAATCACAATCA-G-A
*
89154146 A-CAGAATCAAAATCAGA
1 ATCAGAATCACAATCAGA
89154163 AT
1 AT
89154165 GTGAATTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.05
18 27 0.44
19 28 0.46
20 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (18 bp):
ATCAGAATCACAATCAGA
Found at i:89154093 original size:6 final size:6
Alignment explanation
Indices: 89154082--89154164 Score: 80
Period size: 6 Copynumber: 13.5 Consensus size: 6
89154072 TCAGAACTAC
* *
89154082 AATCAG AATCAG AATCAG AATCAG AATCAG -GTGACAG AATTAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG
* *
89154131 AATCAG TATCAGG TAA-CAG AATCAA AATCAG AAT
1 AATCAG AATCA-G -AATCAG AATCAG AATCAG AAT
89154165 GTGAATTAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.05
6 52 0.83
7 6 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:89154127 original size:31 final size:31
Alignment explanation
Indices: 89154085--89154164 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
89154075 GAACTACAAT
*
89154085 CAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
89154116 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
89154147 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
89154165 GTGAATTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:89154323 original size:27 final size:26
Alignment explanation
Indices: 89154293--89154398 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 26
89154283 CCAAAATAGT
* *
89154293 TATTGTGGCAGAGTCACCAGATACAGA
1 TATTATGGCAGAGCCACCAGA-ACAGA
89154320 TATTATGGCAGAGCCACCAGAACAGA
1 TATTATGGCAGAGCCACCAGAACAGA
* *
89154346 TATT-TGTGCAATAGCCACCAGAAATAGA
1 TATTATG-GC-AGAGCCACCAG-AACAGA
*
89154374 TATTTATGGCATAGCCACCAGAACA
1 TA-TTATGGCAGAGCCACCAGAACA
89154399 CTTCCTCCAT
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.03
26 11 0.16
27 32 0.46
28 18 0.26
29 4 0.06
30 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (26 bp):
TATTATGGCAGAGCCACCAGAACAGA
Found at i:89154630 original size:27 final size:27
Alignment explanation
Indices: 89154600--89154850 Score: 237
Period size: 27 Copynumber: 9.3 Consensus size: 27
89154590 GGGCAAAATG
*
89154600 GTAATTTTACCCTACAAGGGTATCTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
89154627 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTTTACCCTACAAGGGTATTTCA
89154654 GT-ATTTCTACCCTACAAGGGTATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTCA
* * * *
89154681 ATAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCA
* * *
89154708 GTAATTCTACCCTAGAGGGGTATTTC-
1 GTAATTTTACCCTACAAGGGTATTTCA
**
89154734 GGCATTTCTACCCTACAAGGGTATTTC-
1 GTAATTT-TACCCTACAAGGGTATTTCA
*
89154761 GATATTTTTACCCTACATA-GGTATTTCA
1 G-TAATTTTACCCTACA-AGGGTATTTCA
*
89154789 GT-ATTTCTACCCTACATGGGTATTTC-
1 GTAATTT-TACCCTACAAGGGTATTTCA
* *
89154815 G-ATATTTCTACCCTAAAAGGGTATTTCG
1 GTA-ATTT-TACCCTACAAGGGTATTTCA
89154843 GTAATTTT
1 GTAATTTT
89154851 GTAAATCGAG
Statistics
Matches: 186, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
26 11 0.06
27 161 0.87
28 13 0.07
29 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:89154665 original size:54 final size:54
Alignment explanation
Indices: 89154603--89154848 Score: 309
Period size: 54 Copynumber: 4.6 Consensus size: 54
89154593 CAAAATGGTA
* *
89154603 ATTT-TACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT
* *
89154656 ATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTT-TAGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA-T
* * * * * * *
89154710 AATTCTACCCTAGAGGGGTATTTCGGCATTTCTACCCTACAAGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT
* * *
89154764 ATTTTTACCCTACATA-GGTATTTCAGTATTTCTACCCTACATGGGTATTTCGAT
1 ATTTCTACCCTACA-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT
* *
89154818 ATTTCTACCCTAAAAGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATT
89154849 TTGTAAATCG
Statistics
Matches: 164, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
53 5 0.03
54 158 0.96
55 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT
Found at i:89154741 original size:81 final size:81
Alignment explanation
Indices: 89154601--89154850 Score: 358
Period size: 81 Copynumber: 3.1 Consensus size: 81
89154591 GGCAAAATGG
*
89154601 TAATTTTACCCTACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
89154666 TACAAGGGTATTTCAA
66 TACAAGGGTATTTCAA
* * * * *
89154682 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTAGAGGGGTATTTCGGCATTTCTACCC
1 TAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
*
89154747 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCAA
* * * *
89154763 TATTTTTACCCTACATA-GGTATTTCAGTATTTCTACCCTACATGGGTATTTCGATATTTCTACC
1 TAATTTTACCCTACA-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* **
89154827 CTAAAAGGGTATTTCGG
65 CTACAAGGGTATTTCAA
89154844 TAATTTT
1 TAATTTT
89154851 GTAAATCGAG
Statistics
Matches: 149, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 149 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (81 bp):
TAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
TACAAGGGTATTTCAA
Found at i:89154862 original size:27 final size:27
Alignment explanation
Indices: 89154832--89155119 Score: 230
Period size: 27 Copynumber: 10.7 Consensus size: 27
89154822 CTACCCTAAA
* **
89154832 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**** * *
89154859 AGGGTAAAACGGTAATTCTATAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
89154885 AGGGGTACTTTGGTAATTTTACAAGTTG
1 A-GGGTATTTTGGTAATTTTACAAATCG
** * *
89154913 AGGGTATTTTAATAATTTTATAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
** *
89154940 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
*
89154966 AGGGATATTTTGGTAATTTTACAAA-CT
1 AGGG-TATTTTGGTAATTTTACAAATCG
*
89154993 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAATCG
* *
89155020 AGGGGTATTTTGGTAATTTTATAAA-CAA
1 A-GGGTATTTTGGTAATTTTACAAATC-G
* *
89155048 AGGGTATTTTAGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAATCG
*
89155074 AGGGGTATTTTGGTAATTTTACAAAATAG
1 A-GGGTATTTTGGTAATTTTAC-AAATCG
89155103 -GGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
89155120 GGTAAACTAA
Statistics
Matches: 218, Mismatches: 34, Indels: 18
0.81 0.13 0.07
Matches are distributed among these distances:
26 7 0.03
27 203 0.93
28 8 0.04
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:89154929 original size:54 final size:54
Alignment explanation
Indices: 89154869--89155119 Score: 271
Period size: 54 Copynumber: 4.6 Consensus size: 54
89154859 AGGGTAAAAC
* * * *
89154869 GGTAATTCTATAAATCAGGGGTACTTTGGTAATTTTAC-AAGTTGAGGGTATTTT
1 GGTAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
** * ** * *
89154923 AATAATTTTATAAGTC-GAGGGTATTTCAGTAATTTCACAAA-TCAGGGATATTTT
1 GGTAATTTTATAAATCAG-GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTT
*
89154977 GGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTATAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
* *
89155031 GGTAATTTTATAAA-CAAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTATAAATC-AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
*
89155085 GGTAATTTTACAAAAT-AGGGGTATTTTGGTAATTT
1 GGTAATTTTA-TAAATCAGGGGTATTTTGGTAATTT
89155120 GGTAAACTAA
Statistics
Matches: 164, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
53 2 0.01
54 154 0.94
55 8 0.05
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
Found at i:89155095 original size:81 final size:82
Alignment explanation
Indices: 89154966--89155119 Score: 283
Period size: 81 Copynumber: 1.9 Consensus size: 82
89154956 TTCACAAATC
* *
89154966 AGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 AGGGATATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAATAGGGGTATTTT
89155031 GGTAATTTTATAAACAA
66 GGTAATTTTATAAACAA
89155048 AGGG-TATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAATAGGGGTATTTT
1 AGGGATATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAATAGGGGTATTTT
89155112 GGTAATTT
66 GGTAATTT
89155120 GGTAAACTAA
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 66 0.94
82 4 0.06
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (82 bp):
AGGGATATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAATAGGGGTATTTT
GGTAATTTTATAAACAA
Found at i:89158267 original size:40 final size:40
Alignment explanation
Indices: 89158064--89158267 Score: 213
Period size: 40 Copynumber: 5.1 Consensus size: 40
89158054 CAGAATTTAA
** *
89158064 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89158104 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89158144 CCGAAT-TCAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATAT-AGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
89158183 CCGGA-ATTAGTAACTCGCACAAATG-CTTTTGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
89158223 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
89158263 CCGGA
1 CCGGA
89158268 CATCATTCGA
Statistics
Matches: 136, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
38 5 0.04
39 27 0.20
40 89 0.65
41 15 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:89165509 original size:21 final size:21
Alignment explanation
Indices: 89165484--89165524 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89165474 TATGTATTAT
* *
89165484 AAATGGCATAATATATAATAA
1 AAATGACATAATATAAAATAA
89165505 AAATGACATAATATAAAATA
1 AAATGACATAATATAAAATA
89165525 TTACAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (21 bp):
AAATGACATAATATAAAATAA
Found at i:89165993 original size:3 final size:3
Alignment explanation
Indices: 89165985--89166015 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
89165975 AAGCAAATGT
89165985 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
89166016 ACAAACTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:89178477 original size:10 final size:10
Alignment explanation
Indices: 89178462--89178495 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
89178452 TTCCCTTTTT
89178462 CTTAATTTGA
1 CTTAATTTGA
89178472 CTTAATTTGA
1 CTTAATTTGA
89178482 CTTAATTTGA
1 CTTAATTTGA
89178492 CTTA
1 CTTA
89178496 CCAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (10 bp):
CTTAATTTGA
Found at i:89182235 original size:103 final size:104
Alignment explanation
Indices: 89182056--89182320 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
89182046 AACCGTTATT
* * * *
89182056 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
89182121 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
89182159 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
89182224 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
89182263 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
89182321 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:89182682 original size:30 final size:29
Alignment explanation
Indices: 89182648--89182712 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
89182638 TAATCCACCA
89182648 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
89182678 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
89182708 CCCAA
1 CCCAA
89182713 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:89182686 original size:31 final size:30
Alignment explanation
Indices: 89182655--89182712 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
89182645 CCACCCAACT
89182655 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
89182685 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
89182713 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:89186768 original size:5 final size:5
Alignment explanation
Indices: 89186758--89186787 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
89186748 TTCTTTGCCT
89186758 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
89186788 CTTCAGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:89192223 original size:1 final size:1
Alignment explanation
Indices: 89191433--89192211 Score: 1558
Period size: 1 Copynumber: 779.0 Consensus size: 1
89191423 CTCCTCGAGC
89191433 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191498 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191563 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191628 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191693 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191758 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191823 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191888 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89191953 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89192018 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89192083 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89192148 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
89192212 GAAGAAGAAA
Statistics
Matches: 778, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 778 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:89200091 original size:21 final size:21
Alignment explanation
Indices: 89200025--89200154 Score: 93
Period size: 21 Copynumber: 6.2 Consensus size: 21
89200015 TCCATCGAGC
*
89200025 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAACTCTTATGAGT
* *
89200046 TT-TCGTTTAACTCTTTTGAGC
1 TTCT-GTTTAACTCTTATGAGT
* *
89200067 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGAGT
* * * *
89200088 TTCTGTTCAGCTTTTACGAGCT
1 TTCTGTTTAACTCTTATGAG-T
* * * *
89200110 TT-TGCTCAACCCTTATGTGT
1 TTCTGTTTAACTCTTATGAGT
* *
89200130 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTTAACTCTTATGAGT
89200151 TTCT
1 TTCT
89200155 ATTCAGCGTT
Statistics
Matches: 80, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
20 4 0.05
21 72 0.90
22 4 0.05
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGAGT
Found at i:89200109 original size:42 final size:42
Alignment explanation
Indices: 89200020--89200154 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 42
89200010 TTAGCTCCAT
* * *
89200020 CGAGCTTCTGTTTAACTCATATGAGTTT-TCGTTTAACTCTTT-
1 CGAGCTTCTGTTTAACCCTTATGAGTTTCT-GTTTAGCT-TTTA
* * *
89200062 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTTTTA
1 CGAGCTTCTGTTTAACCCTTATGAGTTTCTGTTTAGCTTTTA
* * * * *
89200104 CGAGCTTTTGCTCAACCCTTATGTGTTTCTGTTTAGCTCTTA
1 CGAGCTTCTGTTTAACCCTTATGAGTTTCTGTTTAGCTTTTA
*
89200146 TGAGCTTCT
1 CGAGCTTCT
89200155 ATTCAGCGTT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 3 0.04
42 72 0.95
43 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
CGAGCTTCTGTTTAACCCTTATGAGTTTCTGTTTAGCTTTTA
Found at i:89207624 original size:19 final size:19
Alignment explanation
Indices: 89207583--89207625 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
89207573 TATTAAATCT
* *
89207583 AATATCTGTGTTTTATTAT
1 AATATATGTGTTTTATTAA
89207602 AATATATGTGTTTTCA-TAA
1 AATATATGTGTTTT-ATTAA
89207621 AATAT
1 AATAT
89207626 TCAATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (19 bp):
AATATATGTGTTTTATTAA
Found at i:89211183 original size:39 final size:39
Alignment explanation
Indices: 89211140--89211280 Score: 210
Period size: 39 Copynumber: 3.6 Consensus size: 39
89211130 CATATTCACT
* * * * *
89211140 TTTAAACATATATTACATTACACATATAATCACATAAAA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
89211179 TTTAAGCATATATCACAATACTCATATAATTACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
89211218 TTTAAGCATATATCACAATACTCATGTAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
89211257 TTCAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
89211281 AAAACATGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:89213122 original size:54 final size:54
Alignment explanation
Indices: 89212969--89213102 Score: 241
Period size: 54 Copynumber: 2.5 Consensus size: 54
89212959 GACCCTAAGC
*
89212969 TACACGGGCACAATGAGTTACACGGTCTATCCATATAGTCGTGTGACCTTATAT
1 TACACGGGCACAATGAGTTACACGGTCTATCCATATAGTCGTGTGACATTATAT
89213023 TACACGGGCACAATGAGTTACACGGTCTATCCATATAGTCGTGTGACATTATAT
1 TACACGGGCACAATGAGTTACACGGTCTATCCATATAGTCGTGTGACATTATAT
* *
89213077 TACACGGGCACAGTTAGTTACACGGT
1 TACACGGGCACAATGAGTTACACGGT
89213103 TAGCGTATAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (54 bp):
TACACGGGCACAATGAGTTACACGGTCTATCCATATAGTCGTGTGACATTATAT
Found at i:89215981 original size:23 final size:23
Alignment explanation
Indices: 89215953--89216007 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
89215943 TATATTTTTC
* *
89215953 TTTTCTTTTTTTTTTCATTC-TCT
1 TTTTCTTTTTCTCTTC-TTCTTCT
* *
89215976 TTTTCTATTTCTCTTCTTCTTGT
1 TTTTCTTTTTCTCTTCTTCTTCT
89215999 TTTTCTTTT
1 TTTTCTTTT
89216008 CTCCCCTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTCTTTTTCTCTTCTTCTTCT
Found at i:89217831 original size:5 final size:5
Alignment explanation
Indices: 89217821--89217853 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
89217811 CAATTTGTGA
89217821 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
89217854 GAACACAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:89225375 original size:14 final size:14
Alignment explanation
Indices: 89225339--89225375 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
89225329 AGTCAATTGT
*
89225339 ATATTAACTTTATA
1 ATATTAATTTTATA
89225353 ATATT--TTTTATA
1 ATATTAATTTTATA
89225365 ATATTAATTTT
1 ATATTAATTTT
89225376 TTAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTAATTTTATA
Found at i:89227554 original size:27 final size:27
Alignment explanation
Indices: 89227516--89227572 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
89227506 AGTCACCAAG
89227516 ACTTAGTTAAATTTAAAACTCTTTTGA
1 ACTTAGTTAAATTTAAAACTCTTTTGA
89227543 ACTTAGTTAAATTTAAAACTCTTTTGA
1 ACTTAGTTAAATTTAAAACTCTTTTGA
89227570 ACT
1 ACT
89227573 CTGTTTAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (27 bp):
ACTTAGTTAAATTTAAAACTCTTTTGA
Found at i:89227697 original size:21 final size:21
Alignment explanation
Indices: 89227673--89227732 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
89227663 CTTGAAATAG
89227673 GGCAACACGCCCATGTGGAAA
1 GGCAACACGCCCATGTGGAAA
* *
89227694 GGCAACATGCCCATGTGGAAG
1 GGCAACACGCCCATGTGGAAA
*
89227715 GGCAACACGCCCGTGTGG
1 GGCAACACGCCCATGTGG
89227733 TCATTATAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.28, G:0.33, T:0.12
Consensus pattern (21 bp):
GGCAACACGCCCATGTGGAAA
Found at i:89231532 original size:2 final size:2
Alignment explanation
Indices: 89231525--89231558 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
89231515 AAACCAAATC
89231525 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
89231559 TATATAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:89232004 original size:46 final size:46
Alignment explanation
Indices: 89231873--89232053 Score: 159
Period size: 46 Copynumber: 3.9 Consensus size: 46
89231863 TACACAGGTG
* **
89231873 AAAATAATAGTGTCT-GATTACCCGTTTGGGTTAAACCTACACAAAT
1 AAAATAATAGTGTCTAG-TCACCCGTTAAGGTTAAACCTACACAAAT
* * ** * *
89231919 AATGAATCATAGTTTCTAGTCACATG-TAAGGGTTGAACCTACACGAAT
1 AA--AATAATAGTGTCTAGTCACCCGTTAA-GGTTAAACCTACACAAAT
* *
89231967 AAAATAATAGTGTCTAGTCACTCGTTAAGGTTAAACCTACAAAAAT
1 AAAATAATAGTGTCTAGTCACCCGTTAAGGTTAAACCTACACAAAT
*** * * *
89232013 CGGATAATAGTGCCTGGTCACCCGTTAAGGTTGAACCTACA
1 AAAATAATAGTGTCTAGTCACCCGTTAAGGTTAAACCTACA
89232054 TAACGAATAG
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
46 69 0.64
47 4 0.04
48 33 0.31
49 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (46 bp):
AAAATAATAGTGTCTAGTCACCCGTTAAGGTTAAACCTACACAAAT
Found at i:89232655 original size:21 final size:21
Alignment explanation
Indices: 89232631--89232674 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
89232621 ATACCTCATA
89232631 AACCCAAATCTATAGAAATTT
1 AACCCAAATCTATAGAAATTT
89232652 AACCCAAATCTATAGAAATTT
1 AACCCAAATCTATAGAAATTT
89232673 AA
1 AA
89232675 TGTTACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.27
Consensus pattern (21 bp):
AACCCAAATCTATAGAAATTT
Found at i:89234115 original size:29 final size:28
Alignment explanation
Indices: 89234056--89234120 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
89234046 TAGGAATTAA
* * **
89234056 AATAGGATAAAATAAATAATTAGTTAAT
1 AATAGTATAAAATAAAAAATTAAATAAT
89234084 AATAGTATAAAATAATAAAATTAAATAAT
1 AATAGTATAAAATAA-AAAATTAAATAAT
*
89234113 AATGGTAT
1 AATAGTAT
89234121 TAATAATCGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.32
Consensus pattern (28 bp):
AATAGTATAAAATAAAAAATTAAATAAT
Found at i:89239642 original size:8 final size:9
Alignment explanation
Indices: 89239617--89239641 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
89239607 TCCCAACTTA
89239617 ATTAAAAAT
1 ATTAAAAAT
89239626 ATTAAAAAT
1 ATTAAAAAT
89239635 ATTAAAA
1 ATTAAAA
89239642 TCGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:89241959 original size:19 final size:18
Alignment explanation
Indices: 89241943--89241978 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
89241933 AGAGAAAACC
*
89241943 TGAAATTAACAAAAAAAAA
1 TGAAAGTAA-AAAAAAAAA
89241962 TGAAAGTAAAAAAAAAA
1 TGAAAGTAAAAAAAAAA
89241979 GAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (18 bp):
TGAAAGTAAAAAAAAAAA
Found at i:89246295 original size:19 final size:20
Alignment explanation
Indices: 89246246--89246301 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
89246236 ACCAAAGGTC
89246246 AAGTATCGATACTTTGA-AAA
1 AAGTATCGATA-TTTGAGAAA
* *
89246266 AAGTATAGATATTTGAGCAA
1 AAGTATCGATATTTGAGAAA
89246286 AA-TATCGATATTTGAG
1 AAGTATCGATATTTGAG
89246302 GTTTTTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (20 bp):
AAGTATCGATATTTGAGAAA
Found at i:89247336 original size:131 final size:132
Alignment explanation
Indices: 89247182--89247681 Score: 668
Period size: 131 Copynumber: 3.8 Consensus size: 132
89247172 CTAAAGGAAG
* * *
89247182 ATTCGATTATTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCACAATT-CTTGAATTG
1 ATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACAATTCCGTGAATTG
89247246 CCAAACATC-AAGTATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGG
66 CCAAACATCGAA-TATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGG
89247310 GAT
130 GAT
* * *
89247313 ATTCGATTATTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCACAATT-CTTGAATTG
1 ATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACAATTCCGTGAATTG
89247377 CCAAACATC-AAGTATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGG
66 CCAAACATCGAA-TATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGG
89247441 GAT
130 GAT
* * * * * ** *
89247444 ATTCGATTATTTTGAGCAACCGCA-AGATTGCAACCCAACACGTTAGGGCATTATTCCGCGAATT
1 ATTCGATTATTTTGAACAAACG-AGAAATCGCAACCCAACACGATAGGGCACAATTCCGTGAATT
* * * * *
89247508 GCCAAATATCGCACATCGCCTTCGTTTAAAAGAATTTTTAAAAGGCATGAGTGAAATTTTGAAGG
65 GCCAAACATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGG
89247573 GAT
130 GAT
* * * * * * *
89247576 ATTCGATTATTTTGAGCAACCGCGAAATTGCAACCCAACACGTTAGGGAACTATTCCGTGAATTG
1 ATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACAATTCCGTGAATTG
* * * *
89247641 CCAAATATCGAATCTCGTCTTCGTTTTAGAGAATTTTTAAA
66 CCAAACATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAA
89247682 TGAATACTTA
Statistics
Matches: 338, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
131 175 0.52
132 162 0.48
133 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (132 bp):
ATTCGATTATTTTGAACAAACGAGAAATCGCAACCCAACACGATAGGGCACAATTCCGTGAATTG
CCAAACATCGAATATCGCCTTCGTTTTAAAGAATTTTTAAAAGGCATGAATGAAATTTTGAAGGG
AT
Found at i:89248271 original size:17 final size:18
Alignment explanation
Indices: 89248227--89248271 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
89248217 AGAAGTTAAC
89248227 AAAATACATGATAATAAA
1 AAAATACATGATAATAAA
*
89248245 AAAA-ATATGAT-ATAAA
1 AAAATACATGATAATAAA
89248261 AAAATACATGA
1 AAAATACATGA
89248272 CAAAACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 11 0.46
18 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAATACATGATAATAAA
Found at i:89248520 original size:17 final size:17
Alignment explanation
Indices: 89248484--89248535 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
89248474 AAAAAAATCA
* *
89248484 TAAAACAAAAAGTATTT
1 TAAAATAAAAAGTATAT
*
89248501 TAAAATAAAAAGTCTAT
1 TAAAATAAAAAGTATAT
* * *
89248518 TAAAGTAATAAGTGTAT
1 TAAAATAAAAAGTATAT
89248535 T
1 T
89248536 GATATGTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (17 bp):
TAAAATAAAAAGTATAT
Found at i:89248796 original size:42 final size:42
Alignment explanation
Indices: 89248691--89248859 Score: 266
Period size: 43 Copynumber: 4.0 Consensus size: 42
89248681 TTGGCGTTTA
* *
89248691 TTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
1 TTGGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
*
89248733 TTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCAT
1 TTG-GGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
*
89248776 TTGGGGAAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGT
1 TTGGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
* *
89248818 TTGGGGCAAAAGCGCTGCTAAAGGTCAAGGCGTTTAGCGGCG
1 TTGGGG-AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
89248860 CTTTTTTTAC
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
42 46 0.39
43 71 0.61
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (42 bp):
TTGGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGT
Found at i:89248838 original size:85 final size:85
Alignment explanation
Indices: 89248691--89248858 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 85
89248681 TTGGCGTTTA
89248691 TTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
*
89248756 GTCAAGGCTTTTAGCGGCAT
66 GTCAAGGCGTTTAGCGGCAT
* * * *
89248776 TTGGGGAAAAGCGCCGCTAAAGGTCAGGGCTTTTAGCGGCGTTTG-GGGCAAAAGCGCTGCTAAA
1 TTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAA
89248840 GGTCAAGGCGTTTAGCGGC
65 GGTCAAGGCGTTTAGCGGC
89248859 GCTTTTTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 3 0.04
85 74 0.96
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (85 bp):
TTGGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
GTCAAGGCGTTTAGCGGCAT
Found at i:89254931 original size:9 final size:9
Alignment explanation
Indices: 89254917--89255106 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
89254907 TATTTAAGTA
89254917 TTATGTAAG
1 TTATGTAAG
89254926 TTATGTAAG
1 TTATGTAAG
*
89254935 TTATGATATG
1 TTATG-TAAG
* * *
89254945 ATATAT-AT
1 TTATGTAAG
*
89254953 TTATGTAAA
1 TTATGTAAG
* *
89254962 TTATAT-AT
1 TTATGTAAG
*
89254970 TTATCTAAG
1 TTATGTAAG
*
89254979 TTATATAAG
1 TTATGTAAG
89254988 TTATGTAAG
1 TTATGTAAG
*
89254997 TTATGTAAA
1 TTATGTAAG
*
89255006 TTATGATATAAAA
1 TTATG---T-AAG
*
89255019 TATATTTAAG
1 T-TATGTAAG
89255029 TATTATGTAAG
1 --TTATGTAAG
89255040 TTATGTAAG
1 TTATGTAAG
* *
89255049 TTATAT-AT
1 TTATGTAAG
*
89255057 TTATCTAAG
1 TTATGTAAG
*
89255066 TTATATAAG
1 TTATGTAAG
*
89255075 TTATGTACG
1 TTATGTAAG
*
89255084 TTTTGTAAG
1 TTATGTAAG
* *
89255093 TTATATAAA
1 TTATGTAAG
89255102 TTATG
1 TTATG
89255107 ATATCAAATA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
8 16 0.12
9 98 0.71
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:89254999 original size:71 final size:69
Alignment explanation
Indices: 89254917--89255079 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
89254907 TATTTAAGTA
* * * *
89254917 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
89254981 ATATAAG
64 ATAT-AG
* * *
89254988 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
89255053 ATAT
66 ATAG
* *
89255057 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
89255080 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:89255055 original size:87 final size:90
Alignment explanation
Indices: 89254953--89255137 Score: 259
Period size: 96 Copynumber: 2.0 Consensus size: 90
89254943 TGATATATAT
*
89254953 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TA-TGTAAGTTATGTAAATTATGATAT
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
89255015 AAAATATATTTAAGTATTATGTAAG
66 AAAATATATTTAAGTATTATGTAAG
*
89255040 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA----TTGTAAGTTATATAAATTA
* *
89255105 TGATATCAAATATATTTATGTATTATGTAAG
60 TGATATAAAATATATTTAAGTATTATGTAAG
89255136 TT
1 TT
89255138 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 34 0.40
90 1 0.01
91 2 0.02
96 48 0.56
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (90 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
AAAATATATTTAAGTATTATGTAAG
Found at i:89255093 original size:114 final size:114
Alignment explanation
Indices: 89254893--89255106 Score: 290
Period size: 114 Copynumber: 1.9 Consensus size: 114
89254883 ACTAGTTATG
* * * *
89254893 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
*
89254958 TAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
66 TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
* *
89255007 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-TTATCTAAGTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATAT-AGTTAT
* * *
89255070 ATAAGTTATGTACGTTT-TGTAAGTTATATAAATTATG
65 ATAAATTATATA--TTTATCTAAGTTATATAAATTATG
89255107 ATATCAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 4 0.05
113 18 0.21
114 62 0.71
115 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATGATATGATATATAGTTATA
TAAATTATATATTTATCTAAGTTATATAAATTATGTAAGTTATGTAAAT
Found at i:89255145 original size:87 final size:87
Alignment explanation
Indices: 89254953--89255137 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
89254943 TGATATATAT
*
89254953 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
89255018 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
89255040 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
89255103 TATGATATCAAATATATTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
89255127 TTATGTAAGTT
1 TTATGTAAGTT
89255138 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 70 0.81
88 3 0.03
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:89255231 original size:15 final size:15
Alignment explanation
Indices: 89255211--89255266 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
89255201 AAGTAGCGGG
89255211 ATTAAATAATATTTA
1 ATTAAATAATATTTA
89255226 ATTAAATAATATTT-
1 ATTAAATAATATTTA
89255240 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
89255255 ATTAAGTAATAT
1 ATTAAATAATAT
89255267 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:89256175 original size:15 final size:15
Alignment explanation
Indices: 89256155--89256183 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
89256145 AGAATTTTGA
89256155 AATAAAACGTACCTT
1 AATAAAACGTACCTT
89256170 AATAAAACGTACCT
1 AATAAAACGTACCT
89256184 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:89256692 original size:183 final size:183
Alignment explanation
Indices: 89256384--89256752 Score: 684
Period size: 183 Copynumber: 2.0 Consensus size: 183
89256374 CCTAGAACAG
89256384 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
89256449 ATCAGTACCAAATATGAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATGAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* *
89256514 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
89256567 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
89256632 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATGAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* *
89256697 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
89256750 ATG
1 ATG
89256753 GAACTATATC
Statistics
Matches: 180, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 180 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATGAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:89259695 original size:15 final size:15
Alignment explanation
Indices: 89259675--89259723 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
89259665 GGTAAAAATT
89259675 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
89259690 TT-GGGG-G-A-AAG
1 TTGGGGGAGAAGAAG
*
89259701 TTAGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
89259716 TTGGGGGA
1 TTGGGGGA
89259724 AATCGGGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 2 0.07
14 5 0.17
15 12 0.41
ACGTcount: A:0.31, C:0.00, G:0.53, T:0.16
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:89260036 original size:28 final size:28
Alignment explanation
Indices: 89260004--89260061 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
89259994 AATCAAAACT
*
89260004 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
89260032 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
89260060 CT
1 CT
89260062 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:89260062 original size:21 final size:21
Alignment explanation
Indices: 89260038--89260081 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
89260028 ATCCCTATAA
* *
89260038 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
89260059 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
89260080 CC
1 CC
89260082 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:89260314 original size:7 final size:7
Alignment explanation
Indices: 89260303--89260350 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
89260293 CCCTAAGTAT
*
89260303 TAACCCT
1 TAACCCC
89260310 TAACCCC
1 TAACCCC
89260317 TAACCCC
1 TAACCCC
89260324 TAACCCC
1 TAACCCC
89260331 TAACCCC
1 TAACCCC
89260338 TAACCCC
1 TAACCCC
89260345 TAACCC
1 TAACCC
89260351 TTAAATCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:89260513 original size:41 final size:41
Alignment explanation
Indices: 89260456--89260534 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
89260446 AACCCTAAAC
89260456 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTTA
**
89260497 TTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTC
1 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTC
89260535 CGATAAGCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:89260574 original size:62 final size:62
Alignment explanation
Indices: 89260477--89260906 Score: 824
Period size: 62 Copynumber: 6.9 Consensus size: 62
89260467 ATTTTACCAA
89260477 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
1 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
89260539 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
1 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
89260601 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
1 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
89260663 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
1 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
89260725 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
1 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
89260787 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
1 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
* ** *
89260849 AAGCGCCGCTAATGCTCTTATTTTTAGTGACGTTTTACCAAAAGCGCCGCTATTGCTC
1 AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTC
89260907 TGCTTTTAGC
Statistics
Matches: 364, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 364 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (62 bp):
AAGCGCCGCTAATGCTCTTATTTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCCGAT
Found at i:89265451 original size:14 final size:14
Alignment explanation
Indices: 89265432--89265461 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
89265422 ACTCAACAGA
89265432 AGCCCACCTAAGCT
1 AGCCCACCTAAGCT
89265446 AGCCCACCTAAGCT
1 AGCCCACCTAAGCT
89265460 AG
1 AG
89265462 TCCAATCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.40, G:0.17, T:0.13
Consensus pattern (14 bp):
AGCCCACCTAAGCT
Found at i:89266706 original size:24 final size:25
Alignment explanation
Indices: 89266678--89266739 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
89266668 TACGTATATA
*
89266678 TATACATTTTTATACTA-TATTA-T
1 TATACATTTTTATAATATTATTAGT
*
89266701 GTATACATTCTTA-AATATTATTAGT
1 -TATACATTTTTATAATATTATTAGT
*
89266726 TATATATTTTTATA
1 TATACATTTTTATA
89266740 TTATCATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
23 3 0.10
24 26 0.84
25 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (25 bp):
TATACATTTTTATAATATTATTAGT
Found at i:89266887 original size:25 final size:24
Alignment explanation
Indices: 89266823--89266888 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 24
89266813 TACAGTTTTC
89266823 TTAAATAT-TATAT-TATATATAT
1 TTAAATATATATATGTATATATAT
*
89266845 TTAAATACTAATACTATGTATATATGT
1 TTAAATA-T-ATA-TATGTATATATAT
*
89266872 TTCCAATATATATATGT
1 TT-AAATATATATATGT
89266889 TTACGTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 7 0.19
23 1 0.03
25 7 0.19
26 6 0.17
27 11 0.31
28 4 0.11
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (24 bp):
TTAAATATATATATGTATATATAT
Found at i:89279226 original size:75 final size:72
Alignment explanation
Indices: 89279095--89279261 Score: 196
Period size: 75 Copynumber: 2.3 Consensus size: 72
89279085 TACTCGAATG
* * * * *
89279095 TTTT-AATTTCTGTCTTTCAAAAATCAACTCATATTGTGTAAAGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGTAAAGTGAGTTGAACCTCA-G--ACA
*
89279159 CGCTGAGGTA
63 CGCCGAGGTA
* *
89279169 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCG-AGAGGTGAGTTGAACCTCAGACATG
1 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGTA-AAGTGAGTTGAACCTCAGACACG
89279233 CCGAGGTA
65 CCGAGGTA
89279241 TTTTCAGA-TTATGTTTTTCAA
1 TTTTCA-ATTTATGTTTTTCAA
89279262 TTTATGTTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
72 30 0.37
73 1 0.01
74 6 0.07
75 45 0.55
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (72 bp):
TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGTAAAGTGAGTTGAACCTCAGACACGC
CGAGGTA
Found at i:89279306 original size:163 final size:161
Alignment explanation
Indices: 89279113--89279750 Score: 526
Period size: 163 Copynumber: 3.8 Consensus size: 161
89279103 TCTGTCTTTC
* *
89279113 AAAAATCAACTCATATTGTGTA-AAGTGAGTTGAGCCTCAGG-TCACACGCTGAGGTATTTTCAA
1 AAAAATCAACTCATATTGCG-AGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAA
* *
89279176 TTTATGTTTTTC-AAAAATCAACTCATATGGCGAGAGGTGAGTTGAACCTCAGACATGCCGAGGT
64 TTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACATGCCGAGGT
*
89279240 ATTTTCAGATTATGTTTTTCAATTTATGTTTTCCCA
129 ATTTTCA-ATTATGTTTTT-AATTTATG-TTTCACA
* *
89279276 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* * *
89279341 TCTGTTTTTTATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGAC
66 TATGTTTTTCA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGAC
* * * *
89279406 A---C---G----TTGAAGTA--ATTTTAATTTCTG-TTCATCA
119 ATGCCGAGGTATTTTCAATTATGTTTTTAATTTATGTTTCA-CA
*
89279437 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* *
89279502 TCTGTTTTTCAATTTCTGTTCGTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-AG
66 TATGTTTTTCAA------------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAC
* *
89279566 ATGCGCTGAGGTAATTTT-AATTTCTGTTCTTTAATTTATGTTTCAAA
119 ATGC-C-GAGGT-ATTTTCAA-TTATGTT-TTTAATTTATGTTTCACA
* * *
89279613 AAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAGG---ACACGCTGAGGTATTTTTAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* ** *
89279675 TTCTGTTTTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATGCCCA
65 TTATGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG--ACATGCCGA
*
89279740 GTTATTTTCAA
126 GGTATTTTCAA
89279751 ATTCTGGTTT
Statistics
Matches: 390, Mismatches: 32, Indels: 104
0.74 0.06 0.20
Matches are distributed among these distances:
150 1 0.00
160 5 0.01
161 78 0.20
162 45 0.12
163 105 0.27
164 7 0.02
165 8 0.02
166 4 0.01
167 5 0.01
168 1 0.00
170 1 0.00
172 2 0.01
173 4 0.01
174 30 0.08
175 35 0.09
176 53 0.14
177 6 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (161 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
TATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACATGCCGAGGTAT
TTTCAATTATGTTTTTAATTTATGTTTCACA
Found at i:89279366 original size:88 final size:85
Alignment explanation
Indices: 89279169--89279815 Score: 460
Period size: 88 Copynumber: 7.6 Consensus size: 85
89279159 CGCTGAGGTA
* * * * *
89279169 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATGGCGAGAGGTGAGTTGAACCTCAG-ACATG
1 TTTTTAATTTTTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACATG
* *
89279233 CCGAGGTATTTTCAGA-TTATG
65 CTGAGGTATTTTCA-ATTTCTG
* *
89279254 TTTTTCAATTTATGTTTTCCCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTC
1 TTTTT-AATTTTTGTTTT--C-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-T-
89279319 ACATGCTGAGGTATTTTCAATTTCTG
60 ACATGCTGAGGTATTTTCAATTTCTG
* ** *
89279345 TTTTTTATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAG-ACACG
1 TTTTTAATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGTACATG
* *
89279409 TTGAAGTAATTTT-AATTTCTG
65 CTGAGGT-ATTTTCAATTTCTG
*
89279430 ---TTCA---------TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTTAATTTTTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-T-ACA
89279483 TGCTGAGGTATTTTCAATTTCTG
63 TGCTGAGGTATTTTCAATTTCTG
* * *
89279506 TTTTTCAATTTCTGTTCGTT--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--AAGA
1 TTTTT-AATTTTTGTT--TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACA
89279567 TGCGCTGAGGTAATTTT-AATTTCTG
63 T--GCTGAGGT-ATTTTCAATTTCTG
* * *
89279592 TTCTTTAATTTATG-TTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-A
1 TT-TTTAATTTTTGTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTA
* *
89279655 CACGCTGAGGTATTTTTAATTTCTG
61 CATGCTGAGGTATTTTCAATTTCTG
*
89279680 ----T--TTTTCG---TC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACAT
1 TTTTTAATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GT-ACAT
** * *
89279735 GCCCAGTTATTTTCAAATTCTGG
64 GCTGAGGTATTTTCAATTTCT-G
* * * *
89279758 TTTTTTTTTTAATGTCTGTTTTTCGAAAAATCAACTCATATCGCAAGAGGTGAGTTGA
1 -----TTTTTAATTTTTG-TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
89279816 ACCCAGGGTC
Statistics
Matches: 454, Mismatches: 44, Indels: 118
0.74 0.07 0.19
Matches are distributed among these distances:
73 4 0.01
74 37 0.08
75 41 0.09
76 17 0.04
77 19 0.04
78 1 0.00
79 4 0.01
80 1 0.00
81 4 0.01
82 3 0.01
83 3 0.01
84 3 0.01
85 26 0.06
86 38 0.08
87 50 0.11
88 127 0.28
89 3 0.01
90 13 0.03
91 28 0.06
93 2 0.00
95 30 0.07
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (85 bp):
TTTTTAATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACATGC
TGAGGTATTTTCAATTTCTG
Found at i:89279475 original size:161 final size:161
Alignment explanation
Indices: 89279274--89279725 Score: 529
Period size: 161 Copynumber: 2.8 Consensus size: 161
89279264 TATGTTTTCC
*
89279274 CAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
1 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
* * *
89279339 TTTCTGTTTTT-TATTTTTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTA
66 TTTCTGTTTTTCAATTTCTGTTCTT--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
89279402 AGACACGTTGAAGTAATTTTAATTTCTGTTCAT
129 AGACACGCTGAAGTAATTTTAATTTCTGTTCAT
89279435 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
1 CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
89279500 TTTCTGTTTTTCAATTTCTGTTCGTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 TTTCTGTTTTTCAATTTCTGTTC-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
** *
89279565 GATGCGCTGAGGTAATTTTAATTTCTGTTCTTTAATTTATGTTT
130 GACACGCTGAAGTAATTTTAATTTCTGTTC--------A----T
* * *
89279609 CAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTAAGCCTCAGG---ACACGCTGAGGTATTTT
1 C--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTT
*
89279671 TAATTTCTG---TT---TTTC-G-TC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 CAATTTCTGTTTTTCAATTTCTGTTCTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
89279726 GAGTCACATG
Statistics
Matches: 261, Mismatches: 12, Indels: 34
0.85 0.04 0.11
Matches are distributed among these distances:
161 75 0.29
162 72 0.28
163 37 0.14
164 2 0.01
166 2 0.01
167 1 0.00
168 4 0.02
170 1 0.00
171 2 0.01
174 26 0.10
176 37 0.14
177 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (161 bp):
CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
TTTCTGTTTTTCAATTTCTGTTCTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGCTGAAGTAATTTTAATTTCTGTTCAT
Found at i:89279512 original size:14 final size:14
Alignment explanation
Indices: 89279493--89279521 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89279483 TGCTGAGGTA
89279493 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
89279507 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
89279521 T
1 T
89279522 CGTTAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:89279953 original size:45 final size:45
Alignment explanation
Indices: 89279861--89279954 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
89279851 GGAGCTGATT
*
89279861 GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACTGATC
1 GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACAGATC
* * * * * * *
89279906 GAAGACACTAGATTTTGCCTCCTTGAAGTTGTAGTGGAGCAGGTC
1 GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACAGATC
89279951 GAAG
1 GAAG
89279955 TTGCAAGTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (45 bp):
GAAGACACCAGATTTTGCCTCCCTAAAGTTGCAGCGGAACAGATC
Found at i:89280988 original size:28 final size:27
Alignment explanation
Indices: 89280888--89280988 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 27
89280878 CAGAGTTAAC
* * *
89280888 TGGGCCTTAGCCCATATCAATATTAATC
1 TGGGCC-TAGCCCATATCAGTATCAATA
*
89280916 TGGGCCATAGCCCCT-TACAGTATCAGGGTATA
1 TGGGCC-TAGCCCATAT-CAGTATCA----ATA
89280948 CTGGGCCTAGCCCATATCAGTATCAATA
1 -TGGGCCTAGCCCATATCAGTATCAATA
89280976 TGGGCCGTAGCCC
1 TGGGCC-TAGCCC
89280989 TATTACAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
27 7 0.12
28 28 0.47
32 17 0.29
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (27 bp):
TGGGCCTAGCCCATATCAGTATCAATA
Done.