Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 293 of 362
Found at i:98470352 original size:19 final size:18
Alignment explanation
Indices: 98470330--98470370 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
98470320 TTTTATAAGA
*
98470330 TTTTACAATTTTTTATATT
1 TTTTACAA-TTTCTATATT
*
98470349 TTTTACGATTTCTATATT
1 TTTTACAATTTCTATATT
98470367 TTTT
1 TTTT
98470371 TCTACTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTACAATTTCTATATT
Found at i:98470418 original size:19 final size:19
Alignment explanation
Indices: 98470390--98470446 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
98470380 TTAATAAAAT
98470390 TTAAATATTTTATATTTTTA
1 TTAAA-ATTTTATATTTTTA
*
98470410 TTAAAATTTAATAGTTTTTA
1 TTAAAATTTTATA-TTTTTA
*
98470430 -T-AACTTTTAT-TTTTTA
1 TTAAAATTTTATATTTTTA
98470446 T
1 T
98470447 AATTTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.19
18 7 0.22
19 8 0.25
20 11 0.34
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTAAAATTTTATATTTTTA
Found at i:98475360 original size:20 final size:19
Alignment explanation
Indices: 98475337--98475383 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
98475327 TATTTCTTAA
98475337 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATT-TACC
* *
98475357 AATTCAAAACTCCATTTAGC
1 AATT-AAAACTCAATTTACC
98475377 AATTAAA
1 AATTAAA
98475384 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 10 0.42
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (19 bp):
AATTAAAACTCAATTTACC
Found at i:98478326 original size:23 final size:21
Alignment explanation
Indices: 98478300--98478345 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
98478290 TTTTGAGCAA
* *
98478300 TTTAATTTTTTCTTTTATGTTCT
1 TTTAACTTCTTCTTTT-T-TTCT
98478323 TTTAACTTCTTCTTTTTTTCT
1 TTTAACTTCTTCTTTTTTTCT
98478344 TT
1 TT
98478346 ATTTTCCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 1 0.05
23 14 0.67
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTAACTTCTTCTTTTTTTCT
Found at i:98478718 original size:14 final size:14
Alignment explanation
Indices: 98478695--98478735 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
98478685 TATATAAGTG
98478695 ATTAAAATATAATA
1 ATTAAAATATAATA
* *
98478709 TTTTAAATATAAATA
1 ATTAAAATAT-AATA
98478724 ATTAAAATATAA
1 ATTAAAATATAA
98478736 CTTAAAGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTAAAATATAATA
Found at i:98481454 original size:52 final size:52
Alignment explanation
Indices: 98481377--98481485 Score: 132
Period size: 52 Copynumber: 2.1 Consensus size: 52
98481367 CTACAGATTA
* * * * * *
98481377 TTAACTCTTCTAAGTAGTGTTTTTCTCATGTAA-ACCTGTTCTGCTCTTATTG
1 TTAACTCTTCTAAATAGTGTATTTCTCAAG-AATACCAGTTCTACTCCTATTG
98481429 TTAACT-TTCTAAATAGTGCTATTTCTCAAGAATACCAGTTCTACTCCTATTG
1 TTAACTCTTCTAAATAGTG-TATTTCTCAAGAATACCAGTTCTACTCCTATTG
98481481 TTAAC
1 TTAAC
98481486 CATAGTACTG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 13 0.27
52 36 0.73
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (52 bp):
TTAACTCTTCTAAATAGTGTATTTCTCAAGAATACCAGTTCTACTCCTATTG
Found at i:98481536 original size:51 final size:52
Alignment explanation
Indices: 98481469--98481567 Score: 164
Period size: 51 Copynumber: 1.9 Consensus size: 52
98481459 AATACCAGTT
*
98481469 CTACTCCTATTGTTAACCATAGT-ACTGATGCTTTTTCTCATGTAACACCAA
1 CTACTCCTATTGTTAACCATAGTAACTGATGCCTTTTCTCATGTAACACCAA
* *
98481520 CTACTCCTATTGTTAACCCTAGTAACTGGTGCCTTTTCTCATGTAACA
1 CTACTCCTATTGTTAACCATAGTAACTGATGCCTTTTCTCATGTAACA
98481568 GTTGTATTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 22 0.50
52 22 0.50
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.37
Consensus pattern (52 bp):
CTACTCCTATTGTTAACCATAGTAACTGATGCCTTTTCTCATGTAACACCAA
Found at i:98485948 original size:23 final size:23
Alignment explanation
Indices: 98485919--98485964 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
98485909 TTTGCTAATC
*
98485919 ATCGTTTTTATTTAATTAATTTT
1 ATCGTTTTTATTCAATTAATTTT
98485942 ATCGTTTTTATTCAATTAATTTT
1 ATCGTTTTTATTCAATTAATTTT
98485965 CTAATACAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (23 bp):
ATCGTTTTTATTCAATTAATTTT
Found at i:98486055 original size:11 final size:11
Alignment explanation
Indices: 98486039--98486073 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
98486029 TTTAAATTAA
98486039 ATTATTTAAAT
1 ATTATTTAAAT
98486050 ATTATTTAAATT
1 ATTATTTAAA-T
98486062 ATTATTTTAAAT
1 ATTA-TTTAAAT
98486074 TAAAAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.45
12 6 0.27
13 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTATTTAAAT
Found at i:98495102 original size:18 final size:18
Alignment explanation
Indices: 98495079--98495142 Score: 67
Period size: 17 Copynumber: 3.5 Consensus size: 18
98495069 TGGTGAAAAT
*
98495079 TATTTTATATATTTTTAA
1 TATTTTTTATATTTTTAA
*
98495097 TATTTTTTACA-TTTTAA
1 TATTTTTTATATTTTTAA
*
98495114 TTTTTTTTATAATTTTTAAA
1 TATTTTTTAT-ATTTTT-AA
*
98495134 TAATTTTTA
1 TATTTTTTA
98495143 AATGATTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 14 0.38
18 10 0.27
19 4 0.11
20 9 0.24
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTATATTTTTAA
Found at i:98495129 original size:9 final size:10
Alignment explanation
Indices: 98495081--98495142 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
98495071 GTGAAAATTA
98495081 TTTTATATAT
1 TTTTATATAT
98495091 TTTTA-ATAT
1 TTTTATATAT
*
98495100 TTTT-TACAT
1 TTTTATATAT
* *
98495109 TTTAAT-TTT
1 TTTTATATAT
98495118 TTTTATA-AT
1 TTTTATATAT
*
98495127 TTTTAAATAAT
1 TTTTATAT-AT
98495138 TTTTA
1 TTTTA
98495143 AATGATTTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
9 27 0.68
10 6 0.15
11 7 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:98495151 original size:10 final size:11
Alignment explanation
Indices: 98495122--98495151 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
98495112 AATTTTTTTT
98495122 ATAATTTTTAA
1 ATAATTTTTAA
98495133 ATAATTTTTAA
1 ATAATTTTTAA
*
98495144 ATGATTTT
1 ATAATTTT
98495152 GAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
ATAATTTTTAA
Found at i:98506080 original size:48 final size:47
Alignment explanation
Indices: 98506028--98506141 Score: 183
Period size: 48 Copynumber: 2.4 Consensus size: 47
98506018 AGGTGGAAGA
*
98506028 ATGTGGCAGTTTATCTGCAAAAGTGGTGGCTTGTCCACAAATTTTATT
1 ATGTGGCAGTTTATCTGCAAAAGTGGTGGCTTGTCCAC-AATTTGATT
* *
98506076 ATGTGGCAGTATATTTGCAAAAGTGGTGGCTTGTCCACAATTTGATT
1 ATGTGGCAGTTTATCTGCAAAAGTGGTGGCTTGTCCACAATTTGATT
*
98506123 ATGTGGAAGTTTATCTGCA
1 ATGTGGCAGTTTATCTGCA
98506142 TTACCGTGAC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 24 0.40
48 36 0.60
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (47 bp):
ATGTGGCAGTTTATCTGCAAAAGTGGTGGCTTGTCCACAATTTGATT
Found at i:98526323 original size:28 final size:28
Alignment explanation
Indices: 98526283--98526338 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
98526273 TAAAACCCTA
98526283 AACTTTTCTCAATAAAAATCTAAATTTT
1 AACTTTTCTCAATAAAAATCTAAATTTT
98526311 AACTTTTCTCAATAAAAATCTAAATTTT
1 AACTTTTCTCAATAAAAATCTAAATTTT
98526339 CTTTTCACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (28 bp):
AACTTTTCTCAATAAAAATCTAAATTTT
Found at i:98526355 original size:28 final size:27
Alignment explanation
Indices: 98526284--98526361 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 27
98526274 AAAACCCTAA
* *
98526284 ACTTTTCTCAATAAAAATCTAAATTTT
1 ACTTTTCACAAGAAAAATCTAAATTTT
* *
98526311 AACTTTTCTCAATAAAAATCTAAATTTT
1 -ACTTTTCACAAGAAAAATCTAAATTTT
98526339 -CTTTTCACTACAGAAAAAT-TAAA
1 ACTTTTCAC-A-AGAAAAATCTAAA
98526362 ATTAATTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
26 7 0.15
27 5 0.11
28 34 0.74
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.40
Consensus pattern (27 bp):
ACTTTTCACAAGAAAAATCTAAATTTT
Found at i:98528221 original size:30 final size:30
Alignment explanation
Indices: 98528187--98528243 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
98528177 ACCGGCTGGC
*
98528187 ACATGGGCGTGTAGCCAG-CCTGTGTGGCTT
1 ACATGGGCATGTAGCCAGTCC-GTGTGGCTT
*
98528217 ACATGGGCATGTGGCCAGTCCGTGTGG
1 ACATGGGCATGTAGCCAGTCCGTGTGG
98528244 ATCCTAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.14, C:0.23, G:0.39, T:0.25
Consensus pattern (30 bp):
ACATGGGCATGTAGCCAGTCCGTGTGGCTT
Found at i:98532678 original size:37 final size:40
Alignment explanation
Indices: 98532637--98532737 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 40
98532627 TAATATTACT
98532637 TTAATAGTTTAATATTAAATTTAAT-TT-AA-T-ACTTATC
1 TTAATAGTTTAATATTAAATTTAATATTAAAGTGA-TTATC
*
98532674 TTAATAGTATT-TTATT-AATTTAATATTAAAGTGATTATC
1 TTAATAGT-TTAATATTAAATTTAATATTAAAGTGATTATC
98532713 TTAATA--TTAA-ATTAAATTTAATATT
1 TTAATAGTTTAATATTAAATTTAATATT
98532738 TATTTTGTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
36 13 0.24
37 25 0.45
38 4 0.07
39 12 0.22
40 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (40 bp):
TTAATAGTTTAATATTAAATTTAATATTAAAGTGATTATC
Found at i:98541591 original size:27 final size:27
Alignment explanation
Indices: 98541543--98541701 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
98541533 GCGAGGCTGC
* *
98541543 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
98541570 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
98541596 CAGATATATGTGACAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
98541623 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
98541650 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
98541677 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
98541702 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:98541636 original size:54 final size:54
Alignment explanation
Indices: 98541543--98541701 Score: 243
Period size: 54 Copynumber: 3.0 Consensus size: 54
98541533 GCGAGGCTGC
* *
98541543 CAGATAT-TGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGACAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
*
98541596 CAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
98541650 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
98541702 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
53 12 0.12
54 85 0.87
55 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:98548656 original size:27 final size:27
Alignment explanation
Indices: 98548608--98548765 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
98548598 GCGAGGCTGC
* *
98548608 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
98548635 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
98548661 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
98548688 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
98548715 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
98548742 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
98548766 AGACGCTTCC
Statistics
Matches: 116, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:98548701 original size:54 final size:54
Alignment explanation
Indices: 98548626--98548765 Score: 246
Period size: 54 Copynumber: 2.6 Consensus size: 54
98548616 GTGACGAAGT
*
98548626 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
98548680 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
98548734 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
98548766 AGACGCTTCC
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:98550964 original size:19 final size:20
Alignment explanation
Indices: 98550942--98550988 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
98550932 TGATGGACTT
* *
98550942 TAATGCATATG-ATGTAATG
1 TAATGCAAATGTATGAAATG
*
98550961 TAATACAAATGTATGAAATG
1 TAATGCAAATGTATGAAATG
98550981 -AATGCAAA
1 TAATGCAAA
98550989 AAGGTGTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (20 bp):
TAATGCAAATGTATGAAATG
Found at i:98552280 original size:7 final size:7
Alignment explanation
Indices: 98552268--98552298 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
98552258 CACCTTTTGT
98552268 AACCCTA
1 AACCCTA
98552275 AACCCTA
1 AACCCTA
98552282 AACCCTA
1 AACCCTA
98552289 AACCCTA
1 AACCCTA
98552296 AAC
1 AAC
98552299 TAAATTGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:98553936 original size:68 final size:67
Alignment explanation
Indices: 98553864--98554013 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
98553854 CATCATGTGT
* * * *
98553864 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
98553926 ATGTAG
62 ATGTAG
** * *
98553932 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
98553997 AG
66 AG
98553999 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
98554014 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:98553969 original size:64 final size:63
Alignment explanation
Indices: 98553888--98554070 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 63
98553878 AGACATTATG
* *
98553888 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTG-TACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
98553952 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-G-TACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
98554017 AA
62 AA
* * *
98554019 ACTG--GCTAGGTCACATGGGTGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGTACTATGTGTACACCATGTAG-ACAAGAGAGC
98554071 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 23 0.23
65 5 0.05
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:98561970 original size:17 final size:17
Alignment explanation
Indices: 98561948--98561980 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
98561938 CAGCCAATAC
*
98561948 ACCATATTTTGTCTGGT
1 ACCATAATTTGTCTGGT
98561965 ACCATAATTTGTCTGG
1 ACCATAATTTGTCTGG
98561981 CATGGGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (17 bp):
ACCATAATTTGTCTGGT
Found at i:98564216 original size:22 final size:22
Alignment explanation
Indices: 98564168--98564216 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
98564158 AAAAAATCAT
* *
98564168 AAAAATATATAAATTCTAGAAA
1 AAAAACATATAAATTATAGAAA
98564190 AAAAACATATAAATTATA-AAA
1 AAAAACATATAAATTATAGAAA
98564211 ATAAAA
1 A-AAAA
98564217 TTTACAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAACATATAAATTATAGAAA
Found at i:98564294 original size:18 final size:18
Alignment explanation
Indices: 98564268--98564304 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
98564258 TAATAATCTT
98564268 ATTACAAAAATTGTAAAA
1 ATTACAAAAATTGTAAAA
*
98564286 ATTATAAAAATTGTAAAA
1 ATTACAAAAATTGTAAAA
98564304 A
1 A
98564305 AAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
ATTACAAAAATTGTAAAA
Found at i:98564303 original size:8 final size:9
Alignment explanation
Indices: 98564273--98564304 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
98564263 ATCTTATTAC
98564273 AAAAATTGT
1 AAAAATTGT
*
98564282 AAAAATTAT
1 AAAAATTGT
98564291 AAAAATTGT
1 AAAAATTGT
98564300 AAAAA
1 AAAAA
98564305 AAATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (9 bp):
AAAAATTGT
Found at i:98564340 original size:19 final size:16
Alignment explanation
Indices: 98564300--98564335 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
98564290 TAAAAATTGT
98564300 AAAAA-AAATATTTTA
1 AAAAATAAATATTTTA
98564315 AAAAATAAATATTATTA
1 AAAAATAAATATT-TTA
98564332 AAAA
1 AAAA
98564336 CAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 7 0.37
17 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATAAATATTTTA
Found at i:98568106 original size:37 final size:37
Alignment explanation
Indices: 98568012--98568107 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 37
98568002 GTAGATTTTA
* * * *
98568012 CTCGTTTGAGCTCCATTCAGTATAACAATAGAATTTT
1 CTCGTTTGAGCTACATTCAGTATAACAACAAAATTTG
* * * *
98568049 CTCATTTGAGCTTCACTCAGTATAACAGCAAAATTTG
1 CTCGTTTGAGCTACATTCAGTATAACAACAAAATTTG
* *
98568086 CTTGTTTGAGCTACTTTCAGTA
1 CTCGTTTGAGCTACATTCAGTA
98568108 GAACCAGTAG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (37 bp):
CTCGTTTGAGCTACATTCAGTATAACAACAAAATTTG
Found at i:98568194 original size:19 final size:18
Alignment explanation
Indices: 98568170--98568209 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
98568160 TCAATAAAGT
98568170 ATATTAACAGAGAGCATAA
1 ATATTAACAGA-AGCATAA
**
98568189 ATATTATTAGAAGCATAA
1 ATATTAACAGAAGCATAA
98568207 ATA
1 ATA
98568210 AACGTACGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (18 bp):
ATATTAACAGAAGCATAA
Found at i:98571192 original size:73 final size:73
Alignment explanation
Indices: 98571106--98571251 Score: 265
Period size: 73 Copynumber: 2.0 Consensus size: 73
98571096 TCAAGTTCTG
*
98571106 GTAGTGAGAATAATTAGTATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAC
1 GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAC
*
98571171 GTTAAAGA
66 GTCAAAGA
*
98571179 GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAT
1 GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAC
98571244 GTCAAAGA
66 GTCAAAGA
98571252 TTTTTTATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (73 bp):
GTAGTGAGAATAATTAATATGGCTATCTCTTTTATGATTATTATATAGCCACTTACTACATCCAC
GTCAAAGA
Found at i:98573180 original size:19 final size:18
Alignment explanation
Indices: 98573153--98573191 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
98573143 AGTTTTGTTT
98573153 TTTAAGTTATATATATTTA
1 TTTAAGTTATATAT-TTTA
* *
98573172 TTTATGTTATTTATTTTA
1 TTTAAGTTATATATTTTA
98573190 TT
1 TT
98573192 GTATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTAAGTTATATATTTTA
Found at i:98596273 original size:20 final size:20
Alignment explanation
Indices: 98596248--98596291 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
98596238 ATAAAATTAA
98596248 ATCACAGAATTTTCACAAAC
1 ATCACAGAATTTTCACAAAC
98596268 ATCACAGAATTTTCACAAAC
1 ATCACAGAATTTTCACAAAC
98596288 ATCA
1 ATCA
98596292 ATTCACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (20 bp):
ATCACAGAATTTTCACAAAC
Found at i:98598295 original size:18 final size:18
Alignment explanation
Indices: 98598274--98598308 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
98598264 ATATATGTTA
*
98598274 AAATAATAAAAGAAAAAC
1 AAATAATAAAACAAAAAC
98598292 AAATAATAAAACAAAAA
1 AAATAATAAAACAAAAA
98598309 GACAACTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (18 bp):
AAATAATAAAACAAAAAC
Found at i:98599177 original size:45 final size:44
Alignment explanation
Indices: 98599071--98599380 Score: 196
Period size: 45 Copynumber: 6.9 Consensus size: 44
98599061 GTGGCTTGAA
* *
98599071 AAATGAATAAGACCATAGTTGAAAGACACTATGGCA-CTAT-ACCGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACATC-ATGA--TG
* * * * *
98599116 GAGTGAATTAGGCCATAGTTGAAAGACACTATGACA-CTATGCTAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACATC-ATGAT-G
* * * ** * * * *
98599161 AAATGAGTAAGACCATAGCTAAAAGATGCTACGGCATCACGATTC
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACATCATGA-TG
* * * * * *
98599206 AAA-CAAGTAAAGACCATAGCTGAAAGACGCTATAACATCACGATT
1 AAATGAA-T-AAGACCATAGTTGAAAGACACTATGACATCATGATG
* ** * * *
98599251 CAATGTGTATGACCATAGTTGAAAGACATTATGACAACATGATG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACATCATGATG
* ** *
98599295 AAAATGAATATGACCATAGTTGAAAGACACTATGGGATCATGCTGG
1 -AAATGAATAAGACCATAGTTGAAAGACACTATGACATCATGAT-G
* *
98599341 AAATAAATAAGACCATAGTTGAAAGACACTATGGCATCAT
1 AAATGAATAAGACCATAGTTGAAAGACACTATGACATCAT
98599381 ATCGGAAGTG
Statistics
Matches: 204, Mismatches: 52, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
44 29 0.14
45 143 0.70
46 32 0.16
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (44 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGACATCATGATG
Found at i:98599328 original size:22 final size:22
Alignment explanation
Indices: 98599258--98599373 Score: 71
Period size: 21 Copynumber: 5.2 Consensus size: 22
98599248 ATTCAATGTG
*
98599258 TATGACCATAGTTGAAAGACAT
1 TATGACCATAGTTGAAAGACAC
*
98599280 TATGACAACAT-GATGAAAATGA-A-
1 TATGAC--CATAGTTG-AAA-GACAC
98599303 TATGACCATAGTTGAAAGACAC
1 TATGACCATAGTTGAAAGACAC
* * * *
98599325 TATGGGATCAT-GCTGGAAATA-AA
1 TAT--GACCATAG-TTGAAAGACAC
*
98599348 TAAGACCATAGTTGAAAGACAC
1 TATGACCATAGTTGAAAGACAC
98599370 TATG
1 TATG
98599374 GCATCATATC
Statistics
Matches: 70, Mismatches: 12, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.03
21 18 0.26
22 17 0.24
23 13 0.19
24 18 0.26
25 2 0.03
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (22 bp):
TATGACCATAGTTGAAAGACAC
Found at i:98601029 original size:40 final size:40
Alignment explanation
Indices: 98600967--98601084 Score: 177
Period size: 40 Copynumber: 3.0 Consensus size: 40
98600957 GTTTGACGAC
*
98600967 GATTTAGAATAGCTTCGGCTATATATGGCACTTAGTGTAT
1 GATTTAGAATAGTTTCGGCTATATATGGCACTTAGTGTAT
*
98601007 GATTCTA-AATAGTTTCGGCTATATATAGCACTTAGTGTAT
1 GATT-TAGAATAGTTTCGGCTATATATGGCACTTAGTGTAT
*
98601047 GATTTAGAGTAGCTTT-GGCTATATATGGCACTTAGTGT
1 GATTTAGAATAG-TTTCGGCTATATATGGCACTTAGTGT
98601085 GCAAGATCAA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
39 2 0.03
40 64 0.90
41 5 0.07
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (40 bp):
GATTTAGAATAGTTTCGGCTATATATGGCACTTAGTGTAT
Found at i:98601120 original size:41 final size:41
Alignment explanation
Indices: 98601075--98601152 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
98601065 CTATATATGG
98601075 CACTTAGTGTGCAAGATCA-AGATAGCTTCGGCTATGTTATA
1 CACTTAGTGTGCAAGATCATA-ATAGCTTCGGCTATGTTATA
* *
98601116 CACTTAGTGTGCGAGATTATAATAGCTTCGGCTATGT
1 CACTTAGTGTGCAAGATCATAATAGCTTCGGCTATGT
98601153 ATTGGCACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
CACTTAGTGTGCAAGATCATAATAGCTTCGGCTATGTTATA
Found at i:98602961 original size:13 final size:13
Alignment explanation
Indices: 98602945--98603016 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
98602935 ATAAAAAGAA
98602945 TATATGAAATGAT
1 TATATGAAATGAT
*
98602958 TATATGAACA-GGT
1 TATATGAA-ATGAT
*
98602971 TATATGGAAATAAT
1 TATAT-GAAATGAT
* *
98602985 TATATAAAATGTT
1 TATATGAAATGAT
* *
98602998 TATACGAAATGTT
1 TATATGAAATGAT
98603011 TATATG
1 TATATG
98603017 GATAGATACA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
13 37 0.79
14 10 0.21
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (13 bp):
TATATGAAATGAT
Found at i:98602974 original size:26 final size:27
Alignment explanation
Indices: 98602945--98603016 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 27
98602935 ATAAAAAGAA
*
98602945 TATATGAAATGATTATATGAACA-GGT
1 TATATGAAATGATTATATGAAAATGGT
* *
98602971 TATATGGAAATAATTATAT-AAAATGTT
1 TATAT-GAAATGATTATATGAAAATGGT
* *
98602998 TATACGAAATGTTTATATG
1 TATATGAAATGATTATATG
98603017 GATAGATACA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 19 0.51
27 18 0.49
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (27 bp):
TATATGAAATGATTATATGAAAATGGT
Found at i:98609552 original size:17 final size:18
Alignment explanation
Indices: 98609516--98609553 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
98609506 ATAACATATG
98609516 AAATTTTCAAAACTTATAA
1 AAATTTTC-AAACTTATAA
*
98609535 AAATTTTC-AACTTTTAA
1 AAATTTTCAAACTTATAA
98609552 AA
1 AA
98609554 GGTCACACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTTCAAACTTATAA
Found at i:98609923 original size:43 final size:42
Alignment explanation
Indices: 98609853--98609943 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 42
98609843 GGACAGACGG
98609853 CCGTGTAAAATGACGTGTGCTGCACACGGCTAAGACACACAC
1 CCGTGTAAAATGACGTGTGCTGCACACGGCTAAGACACACAC
* * *
98609895 CCGTGTAACATGACTGTGTGTTGCACACGGCTAAGACACACGC
1 CCGTGTAAAATGAC-GTGTGCTGCACACGGCTAAGACACACAC
98609938 CCGTGT
1 CCGTGT
98609944 CTCTACCCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 13 0.29
43 32 0.71
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (42 bp):
CCGTGTAAAATGACGTGTGCTGCACACGGCTAAGACACACAC
Found at i:98613259 original size:20 final size:20
Alignment explanation
Indices: 98613234--98613329 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
98613224 TAGATGTGTA
*
98613234 ACAGAGCCACCAAAGTGCAG
1 ACAGAGGCACCAAAGTGCAG
* *
98613254 ACAGAGGCACCGAAGTGCAA
1 ACAGAGGCACCAAAGTGCAG
* * *
98613274 ACAGAGACACTAAAGTGTA-
1 ACAGAGGCACCAAAGTGCAG
* * *
98613293 ATAGAGGCACCGAAGTG-TG
1 ACAGAGGCACCAAAGTGCAG
98613312 AACAGAGGCACCAAAGTG
1 -ACAGAGGCACCAAAGTG
98613330 GAAACCCATA
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 13 0.22
20 47 0.78
ACGTcount: A:0.41, C:0.22, G:0.28, T:0.09
Consensus pattern (20 bp):
ACAGAGGCACCAAAGTGCAG
Found at i:98613307 original size:39 final size:40
Alignment explanation
Indices: 98613233--98613329 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 40
98613223 ATAGATGTGT
*
98613233 AACAGAGCCACCAAAGTGCAGACAGAGGCACCGAAGTGCA
1 AACAGAGACACCAAAGTGCAGACAGAGGCACCGAAGTGCA
* * * **
98613273 AACAGAGACACTAAAGTGTA-ATAGAGGCACCGAAGTGTG
1 AACAGAGACACCAAAGTGCAGACAGAGGCACCGAAGTGCA
*
98613312 AACAGAGGCACCAAAGTG
1 AACAGAGACACCAAAGTG
98613330 GAAACCCATA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 32 0.65
40 17 0.35
ACGTcount: A:0.41, C:0.22, G:0.28, T:0.09
Consensus pattern (40 bp):
AACAGAGACACCAAAGTGCAGACAGAGGCACCGAAGTGCA
Found at i:98616823 original size:20 final size:20
Alignment explanation
Indices: 98616795--98616838 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
98616785 TTATTTCCTT
* *
98616795 TTTCTTTCTTTCCTTCTCTG
1 TTTCATTCTATCCTTCTCTG
* *
98616815 TTTCATTCTATCTTTCTCTT
1 TTTCATTCTATCCTTCTCTG
98616835 TTTC
1 TTTC
98616839 TATTTCTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.27, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTCATTCTATCCTTCTCTG
Found at i:98616859 original size:17 final size:18
Alignment explanation
Indices: 98616831--98616865 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
98616821 TCTATCTTTC
98616831 TCTTTTTCTATTTCTATT
1 TCTTTTTCTATTTCTATT
*
98616849 TCTTTTT-TATTTTTATT
1 TCTTTTTCTATTTCTATT
98616866 ATAATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTTTTTCTATTTCTATT
Found at i:98620335 original size:38 final size:38
Alignment explanation
Indices: 98620276--98620426 Score: 133
Period size: 38 Copynumber: 3.9 Consensus size: 38
98620266 ATTTGATGTG
* *
98620276 TATCCGGGCTTAAAGACCCGCAGGCTTTATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCATGCTGGAATTA
* * *
98620316 TATCCGTGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* * * *
98620354 TATCCGGGTTAAATCCTGCAGGCCT-AGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGAATTA
* * **
98620392 TATCTGAGTTTAAAGTCCCATAGGCTTCATGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCATGCTGG
98620427 TGTTATGTTC
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 58 0.64
39 11 0.12
40 20 0.22
41 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:98622234 original size:57 final size:58
Alignment explanation
Indices: 98622125--98622235 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
98622115 CGAATGATTA
* *
98622125 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
98622183 GAGGCACTGTGTGTGCGAGTTC-TTCAACCAAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGGT
98622236 CAGTGGGCAC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 28 0.58
58 20 0.42
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCAAATTCTTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:98626560 original size:38 final size:38
Alignment explanation
Indices: 98626515--98626649 Score: 128
Period size: 38 Copynumber: 3.5 Consensus size: 38
98626505 GGCTTAAAGA
* *
98626515 CCCGCAGGCTTTATGCTGGAATTATATCCATGTTAAAT
1 CCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAAT
* *
98626553 CCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAAT
1 CCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAAT
* * * * * * *
98626591 CCCACGGGCCT-AGTGTTGGTATTATATCTGAGTTTAAAGT
1 CCCGCAGGCTTCA-TGCTGGAATTATATC-CAGGTTAAA-T
*
98626631 CCCGTAGGCTTCATGCTGG
1 CCCGCAGGCTTCATGCTGG
98626650 TTCGGGTTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
38 56 0.73
39 7 0.09
40 13 0.17
41 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAAT
Found at i:98627710 original size:25 final size:25
Alignment explanation
Indices: 98627682--98627732 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
98627672 TATTTACGGC
98627682 TCAGTTTATAAAAACAAGGTCCCGA
1 TCAGTTTATAAAAACAAGGTCCCGA
* *
98627707 TCAGTTTATAAAAATAAGGTCTCGA
1 TCAGTTTATAAAAACAAGGTCCCGA
98627732 T
1 T
98627733 ACCTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (25 bp):
TCAGTTTATAAAAACAAGGTCCCGA
Found at i:98627739 original size:24 final size:25
Alignment explanation
Indices: 98627687--98627739 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
98627677 ACGGCTCAGT
**
98627687 TTATAAAAACAAGGTCCCGATCAGT
1 TTATAAAAACAAGGTCCCGATCACC
* *
98627712 TTATAAAAATAAGGTCTCGAT-ACC
1 TTATAAAAACAAGGTCCCGATCACC
98627736 TTAT
1 TTAT
98627740 TTTCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (25 bp):
TTATAAAAACAAGGTCCCGATCACC
Found at i:98628427 original size:9 final size:9
Alignment explanation
Indices: 98628410--98628451 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
98628400 GCTTAGGGGT
*
98628410 ATTTCAGTA
1 ATTTTAGTA
98628419 ATTTTAGTA
1 ATTTTAGTA
**
98628428 ATTTTAAAA
1 ATTTTAGTA
98628437 ATTTTAGTA
1 ATTTTAGTA
98628446 ATTTTA
1 ATTTTA
98628452 CAAATCGAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (9 bp):
ATTTTAGTA
Found at i:98628439 original size:18 final size:18
Alignment explanation
Indices: 98628418--98628456 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
98628408 GTATTTCAGT
98628418 AATTTTAGTAATTTTAAA
1 AATTTTAGTAATTTTAAA
*
98628436 AATTTTAGTAATTTTACA
1 AATTTTAGTAATTTTAAA
98628454 AAT
1 AAT
98628457 CGAGGGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (18 bp):
AATTTTAGTAATTTTAAA
Found at i:98628467 original size:27 final size:28
Alignment explanation
Indices: 98628437--98628687 Score: 313
Period size: 27 Copynumber: 9.3 Consensus size: 28
98628427 AATTTTAAAA
* *
98628437 ATTTTAGTAATTTTACAAATCGA-GGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
**
98628464 ATTTCAGTAATTTTACAAAT-CAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
** *
98628491 ATTTCAGTAATTTTACAAAT-TAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
* *
98628518 ATTTTGGTAATCTTACAAAT-TAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
98628545 ATTTTGGTAATTTTACAAAT-CAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
** *
98628572 ATTTTGGTAATTTTACAAA-CCAATGTT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
*
98628599 ATTTTGGTAATTTTACAAA-CCAGGAGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
*
98628626 ATTTTGGTAATTTTACAAA-CCAGGAGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
98628653 ATTTTGGTAATTTTACAAA-CCAGGGGT
1 ATTTTGGTAATTTTACAAATCCAGGGGT
98628680 ATTTTGGT
1 ATTTTGGT
98628688 GATTAGGTAA
Statistics
Matches: 206, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
26 1 0.00
27 205 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (28 bp):
ATTTTGGTAATTTTACAAATCCAGGGGT
Found at i:98632544 original size:6 final size:6
Alignment explanation
Indices: 98632533--98632563 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
98632523 CATTTTCCAA
98632533 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT G
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT G
98632564 GCTTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
GAAAAT
Found at i:98637144 original size:19 final size:19
Alignment explanation
Indices: 98637120--98637158 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
98637110 TTAAATGACC
98637120 AGTGTGAGTAATGCTTTTT
1 AGTGTGAGTAATGCTTTTT
98637139 AGTGTGAGTAATGCTTTTT
1 AGTGTGAGTAATGCTTTTT
98637158 A
1 A
98637159 ATGACGTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (19 bp):
AGTGTGAGTAATGCTTTTT
Found at i:98658321 original size:53 final size:53
Alignment explanation
Indices: 98658191--98658313 Score: 162
Period size: 53 Copynumber: 2.3 Consensus size: 53
98658181 ATTTTGTGCT
* **
98658191 ACATGATA-TTGGTTTTACGAAGGTTCGGATGAATTGTATGGGGAATGTATATG
1 ACATGATATTTGGTTTTGCGAAGGTTCGGATGAATTGTATGAAGAA-GTATATG
* *
98658244 -CATGATATTTGGCTTTGCGAAGGTTCGGGTGAATTGTATGAAGAA-TATATG
1 ACATGATATTTGGTTTTGCGAAGGTTCGGATGAATTGTATGAAGAAGTATATG
98658295 CACATGATATTTGGTTTTG
1 -ACATGATATTTGGTTTTG
98658314 TGGAGGTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
51 6 0.10
52 7 0.11
53 48 0.79
ACGTcount: A:0.27, C:0.07, G:0.28, T:0.37
Consensus pattern (53 bp):
ACATGATATTTGGTTTTGCGAAGGTTCGGATGAATTGTATGAAGAAGTATATG
Found at i:98659058 original size:25 final size:24
Alignment explanation
Indices: 98659024--98659099 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
98659014 GATTAAATTT
98659024 AATATTAAATCTATTAAATTAATAA
1 AATATTAAAT-TATTAAATTAATAA
98659049 AATATTAAATTA--AAATTAA-AA
1 AATATTAAATTATTAAATTAATAA
*
98659070 TAATCATATTAA-TATTAAATTAATAA
1 -AAT-AT-TAAATTATTAAATTAATAA
98659096 AATA
1 AATA
98659100 CTATCAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
21 2 0.05
22 10 0.23
23 4 0.09
24 6 0.14
25 20 0.45
26 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATTAAATTATTAAATTAATAA
Found at i:98659087 original size:42 final size:42
Alignment explanation
Indices: 98659005--98659087 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
98658995 CTTATCAAGA
* * *
98659005 AAAATATTAGATTAAATTTAATATTAAATCTATTAAATTAAT
1 AAAATATTAAATTAAAATTAATAATAAATCTATTAAATTAAT
98659047 AAAATATTAAATTAAAATTAA-AAT-AATCATATTAATATTAA
1 AAAATATTAAATTAAAATTAATAATAAATC-TATTAA-ATTAA
98659088 ATTAATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 4 0.11
41 8 0.22
42 24 0.67
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (42 bp):
AAAATATTAAATTAAAATTAATAATAAATCTATTAAATTAAT
Found at i:98660718 original size:27 final size:27
Alignment explanation
Indices: 98660677--98660746 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
98660667 CTAGTCTGAA
* *
98660677 CCCATGTTTAATGTCTTGGT-GAACTTC
1 CCCATGTTTAATGTCCTGGTAG-ACTAC
*
98660704 CCCATGTTTACTGTCCTGGTAGACTAC
1 CCCATGTTTAATGTCCTGGTAGACTAC
*
98660731 CCCATGTTTATTGTCC
1 CCCATGTTTAATGTCC
98660747 CAATGGACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (27 bp):
CCCATGTTTAATGTCCTGGTAGACTAC
Found at i:98663490 original size:14 final size:14
Alignment explanation
Indices: 98663468--98663498 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
98663458 TAATTTCATT
*
98663468 TATTTTATAATATA
1 TATTATATAATATA
98663482 TATTATATAATATA
1 TATTATATAATATA
98663496 TAT
1 TAT
98663499 ACATACTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATATAATATA
Found at i:98668558 original size:7 final size:7
Alignment explanation
Indices: 98668546--98668610 Score: 57
Period size: 7 Copynumber: 9.7 Consensus size: 7
98668536 ATTTAGTCAT
98668546 TTTTTAA
1 TTTTTAA
98668553 TTTTT-A
1 TTTTTAA
98668559 -TTTTAA
1 TTTTTAA
*
98668565 TATTTTAG
1 T-TTTTAA
*
98668573 TTTTTAG
1 TTTTTAA
98668580 TTTTTAA
1 TTTTTAA
98668587 -TTTT-A
1 TTTTTAA
98668592 TTTTTAA
1 TTTTTAA
* *
98668599 ATTCTAA
1 TTTTTAA
98668606 TTTTT
1 TTTTT
98668611 CTTTTGTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
5 5 0.11
6 10 0.21
7 26 0.55
8 6 0.13
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:98668576 original size:20 final size:19
Alignment explanation
Indices: 98668547--98668597 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
98668537 TTTAGTCATT
98668547 TTTTAATTTTTA-TTTTAATA
1 TTTT-ATTTTTAGTTTTAA-A
*
98668567 TTTTAGTTTTTAGTTTTTAA
1 TTTTA-TTTTTAGTTTTAAA
98668587 TTTTATTTTTA
1 TTTTATTTTTA
98668598 AATTCTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 16 0.57
21 5 0.18
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTAGTTTTAAA
Found at i:98668584 original size:14 final size:13
Alignment explanation
Indices: 98668546--98668597 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 13
98668536 ATTTAGTCAT
98668546 TTTTTAATTTTTA
1 TTTTTAATTTTTA
98668559 -TTTTAATATTTTA
1 TTTTTAAT-TTTTA
*
98668572 GTTTTTAGTTTTTA
1 -TTTTTAATTTTTA
*
98668586 ATTTT-ATTTTTA
1 TTTTTAATTTTTA
98668598 AATTCTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 13 0.39
13 9 0.27
14 5 0.15
15 6 0.18
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTTAATTTTTA
Found at i:98675880 original size:21 final size:20
Alignment explanation
Indices: 98675856--98675894 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
98675846 CTGTGTTGAT
98675856 TTCGTACTTTGGCCCATTTTC
1 TTCG-ACTTTGGCCCATTTTC
*
98675877 TTCGATTTTGGCCCATTT
1 TTCGACTTTGGCCCATTT
98675895 CTCATTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.10, C:0.26, G:0.15, T:0.49
Consensus pattern (20 bp):
TTCGACTTTGGCCCATTTTC
Found at i:98679864 original size:18 final size:18
Alignment explanation
Indices: 98679823--98679884 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
98679813 TATCAATATC
*
98679823 ATTCAATAA-AATCAATT
1 ATTCAGTAACAATCAATT
* *
98679840 TTTCAGTAGCAAT-AAGTT
1 ATTCAGTAACAATCAA-TT
98679858 ATTCAGTAACAATCAATT
1 ATTCAGTAACAATCAATT
98679876 ATTCAGTAA
1 ATTCAGTAA
98679885 TAGTTAGTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 8 0.22
18 27 0.73
19 2 0.05
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (18 bp):
ATTCAGTAACAATCAATT
Found at i:98680845 original size:12 final size:11
Alignment explanation
Indices: 98680805--98680845 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
98680795 TTAATATTTA
98680805 AATTTCTTATTC
1 AATTTC-TATTC
98680817 AATTTCTATTC
1 AATTTCTATTC
*
98680828 AATTTCTACTTT
1 AATTTCTA-TTC
98680840 AATTTC
1 AATTTC
98680846 AATTTTGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTCTATTC
Found at i:98681262 original size:17 final size:15
Alignment explanation
Indices: 98681234--98681267 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
98681224 TCTCTATTTC
98681234 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
98681249 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
98681266 TC
1 TC
98681268 TTTCTCCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:98682149 original size:3 final size:3
Alignment explanation
Indices: 98682141--98682184 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
98682131 AACTTATTTC
98682141 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
98682185 CTAAATTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:98682625 original size:63 final size:63
Alignment explanation
Indices: 98682472--98682599 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
98682462 TGAAATTCGG
98682472 GTCATTACAAGGCTTATATGAACTAAGGGAATATTTGGCCAAGCATGTGTATAAGGAAATTAT
1 GTCATTACAAGGCTTATATGAACTAAGGGAATATTTGGCCAAGCATGTGTATAAGGAAATTAT
98682535 GTCATTACAAGGCTTATATGAACTAAGGGAATATTTGGCCAAGCATGTGTATAAGGAAATTAT
1 GTCATTACAAGGCTTATATGAACTAAGGGAATATTTGGCCAAGCATGTGTATAAGGAAATTAT
98682598 GT
1 GT
98682600 ATATTTTATG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (63 bp):
GTCATTACAAGGCTTATATGAACTAAGGGAATATTTGGCCAAGCATGTGTATAAGGAAATTAT
Found at i:98683152 original size:43 final size:41
Alignment explanation
Indices: 98683051--98683154 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
98683041 TGTGTGAAAT
* * *
98683051 ATGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTC
1 ATGTAAGACCATGTCTGGGACAATGGCATCGTATATGATGC
* *
98683092 GTGTAAGACCCTGTCTGGGACAATGGCATC-TATATGTGATAGC
1 ATGTAAGACCATGTCTGGGACAATGGCATCGTATA--TGAT-GC
*
98683135 ATGTAAGACCATATCTGGGA
1 ATGTAAGACCATGTCTGGGA
98683155 TATGACATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.08
41 26 0.50
42 4 0.08
43 18 0.35
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (41 bp):
ATGTAAGACCATGTCTGGGACAATGGCATCGTATATGATGC
Found at i:98702209 original size:21 final size:21
Alignment explanation
Indices: 98702183--98702242 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
98702173 GTGTGGAAGG
98702183 AGGCACACGACCGTGTGACAA-
1 AGGCACACGACCGTGTGA-AAC
*
98702204 AGGCACACG-CTAGTGTGAAAC
1 AGGCACACGAC-CGTGTGAAAC
*
98702225 AGGGACACGACCGTGTGA
1 AGGCACACGACCGTGTGA
98702243 GCAGATCGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 29 0.88
22 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.32, T:0.12
Consensus pattern (21 bp):
AGGCACACGACCGTGTGAAAC
Found at i:98704290 original size:42 final size:42
Alignment explanation
Indices: 98704231--98704316 Score: 122
Period size: 42 Copynumber: 2.0 Consensus size: 42
98704221 CACGGTCTGG
*
98704231 TACACGGCCTCAGACATGGTCATGTGTACC-AAGCCAATGAGT
1 TACACGGCCTCAGACATGGTCATGT-AACCAAAGCCAATGAGT
*
98704273 TACACGGCCT-ACGACATGGTCATGTAACCAAAGTCAATGAGT
1 TACACGGCCTCA-GACATGGTCATGTAACCAAAGCCAATGAGT
98704315 TA
1 TA
98704317 GAGGGTTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (42 bp):
TACACGGCCTCAGACATGGTCATGTAACCAAAGCCAATGAGT
Found at i:98714530 original size:5 final size:5
Alignment explanation
Indices: 98714520--98714670 Score: 302
Period size: 5 Copynumber: 30.2 Consensus size: 5
98714510 AAGTAAATAT
98714520 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
98714570 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
98714620 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
98714670 T
1 T
98714671 TATAATAAAA
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 146 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:98714754 original size:11 final size:10
Alignment explanation
Indices: 98714693--98714776 Score: 51
Period size: 11 Copynumber: 7.7 Consensus size: 10
98714683 TAAAATAAAT
*
98714693 GAAAGAAATA
1 GAAAGAAAAA
98714703 GAAATAGAAAATA
1 G-AA-AGAAAA-A
***
98714716 GAAAGAAGTT
1 GAAAGAAAAA
*
98714726 GAAACAAAACA
1 GAAAGAAAA-A
*
98714737 GATAGAAAAA
1 GAAAGAAAAA
98714747 GGAAAGAAAAA
1 -GAAAGAAAAA
98714758 GAAAGGAGAAAA
1 GAAA-GA-AAAA
98714770 GAAAGAA
1 GAAAGAA
98714777 GGAAAATTAG
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
10 13 0.23
11 26 0.46
12 15 0.27
13 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.07
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:98717601 original size:26 final size:29
Alignment explanation
Indices: 98717562--98717615 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 29
98717552 TTAAGATTTC
*
98717562 TAATAATTTCATTTTTTTATA-TTTTTTG
1 TAATAATTTCATTTTTTTACACTTTTTTG
98717590 TAATAA-TT-ATTTTTTTACACTTTTTT
1 TAATAATTTCATTTTTTTACACTTTTTT
98717616 AGAAGTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 8 0.33
28 6 0.25
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (29 bp):
TAATAATTTCATTTTTTTACACTTTTTTG
Found at i:98717662 original size:10 final size:9
Alignment explanation
Indices: 98717649--98717709 Score: 50
Period size: 9 Copynumber: 6.2 Consensus size: 9
98717639 TTTTTAAAAA
98717649 TTATACATTT
1 TTATA-ATTT
98717659 TTATAATTT
1 TTATAATTT
*
98717668 TATTTATATTT
1 T-TATA-ATTT
*
98717679 TTGGTAATTTT
1 TT-ATAA-TTT
*
98717690 TTATAATGT
1 TTATAATTT
98717699 TTATAATTT
1 TTATAATTT
98717708 TT
1 TT
98717710 TTAGATGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
9 17 0.40
10 13 0.31
11 12 0.29
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (9 bp):
TTATAATTT
Found at i:98719445 original size:12 final size:12
Alignment explanation
Indices: 98719428--98719460 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
98719418 AAAAATTTAA
98719428 TTTAATAATTAT
1 TTTAATAATTAT
98719440 TTTAATAA-TAT
1 TTTAATAATTAT
*
98719451 TTTATTAATT
1 TTTAATAATT
98719461 TAATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATAATTAT
Found at i:98719462 original size:19 final size:19
Alignment explanation
Indices: 98719435--98719471 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
98719425 TAATTTAATA
*
98719435 ATTATTTTAATAATATTTT
1 ATTAATTTAATAATATTTT
98719454 ATTAATTTAATAATATTT
1 ATTAATTTAATAATATTT
98719472 AATTTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTAATTTAATAATATTTT
Found at i:98722431 original size:23 final size:22
Alignment explanation
Indices: 98722405--98722454 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
98722395 CATTTAAATT
98722405 ATATTTACTATTTTA-AATATAAA
1 ATATTTA-T-TTTTATAATATAAA
*
98722428 ATATTTATTTTTATATTATAAA
1 ATATTTATTTTTATAATATAAA
98722450 A-ATTT
1 ATATTT
98722455 TTAAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 9 0.36
22 9 0.36
23 7 0.28
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTTATTTTTATAATATAAA
Found at i:98724225 original size:20 final size:19
Alignment explanation
Indices: 98724202--98724241 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
98724192 TATTATACAT
98724202 TATAAGATTATTTTATTATA
1 TATAAGATTA-TTTATTATA
**
98724222 TATATTATTATTTATTATA
1 TATAAGATTATTTATTATA
98724241 T
1 T
98724242 CTTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TATAAGATTATTTATTATA
Found at i:98724292 original size:14 final size:14
Alignment explanation
Indices: 98724263--98724297 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
98724253 CAAATTATTG
98724263 TTATTA-TTTTACA
1 TTATTATTTTTACA
*
98724276 TTATTATTTTTATA
1 TTATTATTTTTACA
98724290 TTATTATT
1 TTATTATT
98724298 ATATCTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTATTTTTACA
Found at i:98737150 original size:205 final size:206
Alignment explanation
Indices: 98736678--98737181 Score: 841
Period size: 206 Copynumber: 2.5 Consensus size: 206
98736668 CGGAGAGCAG
*
98736678 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAAATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
98736743 TCTCTGTATTGTCAGAGTACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAATACACA
66 TCTCTGTATTGTCAGAGAACAAATCGAAATCTGGCATCTCCACTTCAATGGAGAGCAAATACACA
*
98736808 GTAAATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
131 GTAAATCTCACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
98736873 ACAAGGAACAA
196 ACAAGGAACAA
* *
98736884 ATCAAAGACGTAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
*
98736949 TCTCTGTATTGTCAGAGAACAAATCGAAATCTGGCATCTCCACTTCAATGGAGAGCAGATACACA
66 TCTCTGTATTGTCAGAGAACAAATCGAAATCTGGCATCTCCACTTCAATGGAGAGCAAATACACA
* * * * *
98737014 GTAGATCTCACCTTCAGATGTTTATG-CTGAAG-TAGATCTAAGATGATTTGGCATCCTTGTGCT
131 GTAAATCTCACCTTCAGACGATTA-GACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCT
98737077 TACAAGGAACAA
195 TACAAGGAACAA
* *
98737089 ATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
98737154 TCTCTATATTGTTAGAGAACAAATCGAA
66 TCTCTGTATTGTCAGAGAACAAATCGAA
98737182 GAAGCAAATT
Statistics
Matches: 279, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
205 128 0.46
206 150 0.54
207 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (206 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTATTGTCAGAGAACAAATCGAAATCTGGCATCTCCACTTCAATGGAGAGCAAATACACA
GTAAATCTCACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
ACAAGGAACAA
Found at i:98738747 original size:17 final size:15
Alignment explanation
Indices: 98738710--98738738 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
98738700 AATTTAGCCC
98738710 TATTTTTTATATATA
1 TATTTTTTATATATA
98738725 TATTTTTTATATAT
1 TATTTTTTATATAT
98738739 TGTTATTTTC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTTATATATA
Found at i:98738801 original size:25 final size:23
Alignment explanation
Indices: 98738765--98738822 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 23
98738755 TTTACCTTAC
98738765 TTTTA-TATTATACATTATAAGATTA
1 TTTTATTA-TATACATTAT--GATTA
* *
98738790 TTTTATTATATATATTATTATTA
1 TTTTATTATATACATTATGATTA
98738813 -TTTATTATAT
1 TTTTATTATAT
98738823 CTTATTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 10 0.33
23 4 0.13
25 14 0.47
26 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATTATATACATTATGATTA
Found at i:98738803 original size:20 final size:22
Alignment explanation
Indices: 98738780--98738822 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
98738770 TATTATACAT
98738780 TATAAGATTA-T-TTTATTATA
1 TATAAGATTATTATTTATTATA
**
98738800 TATATTATTATTATTTATTATA
1 TATAAGATTATTATTTATTATA
98738822 T
1 T
98738823 CTTATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATAAGATTATTATTTATTATA
Found at i:98738827 original size:20 final size:17
Alignment explanation
Indices: 98738786--98738830 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
98738776 ACATTATAAG
98738786 ATTATTTTATTATATAT
1 ATTATTTTATTATATAT
98738803 ATTATTATTATTTATTATAT
1 ATTATT-TTA-TTA-TATAT
*
98738823 CTTATTTT
1 ATTATTTT
98738831 TCACAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 3 0.12
19 5 0.21
20 10 0.42
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTTTATTATATAT
Found at i:98738873 original size:14 final size:14
Alignment explanation
Indices: 98738844--98738877 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
98738834 CAAATTATTG
98738844 TTATTA-TTTTACA
1 TTATTATTTTTACA
*
98738857 TTATTATTTTTATA
1 TTATTATTTTTACA
98738871 TTATTAT
1 TTATTAT
98738878 ATCTTACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATTTTTACA
Found at i:98740527 original size:16 final size:16
Alignment explanation
Indices: 98740506--98740536 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98740496 TATTTTATTT
*
98740506 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
98740522 ATATTAAGATAATTA
1 ATATTAAGATAATTA
98740537 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:98740565 original size:28 final size:27
Alignment explanation
Indices: 98740502--98740566 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
98740492 ACTCTATTTT
98740502 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
98740530 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
98740559 ATTTTATT
1 ATTTTATT
98740567 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:98746969 original size:22 final size:22
Alignment explanation
Indices: 98746924--98746965 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
98746914 AACTCAATCT
98746924 TTAATTTTAAATTTTATTTCTA
1 TTAATTTTAAATTTTATTTCTA
*
98746946 TTAATTTT-TATTTTATTTCT
1 TTAATTTTAAATTTTATTTCT
98746966 TATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TTAATTTTAAATTTTATTTCTA
Found at i:98746970 original size:12 final size:12
Alignment explanation
Indices: 98746934--98746975 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
98746924 TTAATTTTAA
98746934 ATTTTATTTC-T
1 ATTTTATTTCTT
*
98746945 A-TTAATTT-TT
1 ATTTTATTTCTT
98746955 ATTTTATTTCTT
1 ATTTTATTTCTT
98746967 ATTTTATTT
1 ATTTTATTT
98746976 TATTTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 8 0.31
11 7 0.27
12 11 0.42
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (12 bp):
ATTTTATTTCTT
Found at i:98747001 original size:16 final size:16
Alignment explanation
Indices: 98746952--98747009 Score: 66
Period size: 15 Copynumber: 3.7 Consensus size: 16
98746942 TCTATTAATT
*
98746952 TTTATTTTATTTCTTAT
1 TTTATTTTATTT-TTAA
*
98746969 TTTATTTTA-TTTCAA
1 TTTATTTTATTTTTAA
*
98746984 TTTGTTTTATTTTTAA
1 TTTATTTTATTTTTAA
98747000 -TTATTTTATT
1 TTTATTTTATT
98747010 GTATTAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 19 0.54
16 7 0.20
17 9 0.26
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTATTTTATTTTTAA
Found at i:98750271 original size:16 final size:16
Alignment explanation
Indices: 98750250--98750280 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98750240 CATTTTATTT
*
98750250 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
98750266 ATATTAAGATAATTA
1 ATATTAAGATAATTA
98750281 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:98750309 original size:28 final size:27
Alignment explanation
Indices: 98750246--98750310 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
98750236 ACTCCATTTT
98750246 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
98750274 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
98750303 ATTTTATT
1 ATTTTATT
98750311 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:98752150 original size:18 final size:18
Alignment explanation
Indices: 98752127--98752162 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
98752117 GTAATCAAGA
98752127 CCCATCGGCTTCAATCTT
1 CCCATCGGCTTCAATCTT
98752145 CCCATCGGCTTCAATCTT
1 CCCATCGGCTTCAATCTT
98752163 ACATTGATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.39, G:0.11, T:0.33
Consensus pattern (18 bp):
CCCATCGGCTTCAATCTT
Found at i:98759112 original size:3 final size:3
Alignment explanation
Indices: 98759104--98759133 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
98759094 AGTAAAAAGA
98759104 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
98759134 GATGATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:98759329 original size:16 final size:16
Alignment explanation
Indices: 98759291--98759332 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
98759281 TATTATAGTG
98759291 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
98759307 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
98759322 TATTAATTATA
1 TATTAATTATA
98759333 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:98759691 original size:24 final size:23
Alignment explanation
Indices: 98759656--98759700 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
98759646 TATTATATAT
98759656 TATATTATTATAACATAAAGTAAA
1 TATATTATTAT-ACATAAAGTAAA
*
98759680 TATATT-TCTATATATAAAGTA
1 TATATTAT-TATACATAAAGTA
98759701 TAAAAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TATATTATTATACATAAAGTAAA
Found at i:98761579 original size:41 final size:41
Alignment explanation
Indices: 98761517--98761603 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
98761507 AAAGAATGGT
*
98761517 ATTTGGTATTTTGGTGTTTAAACTAATGAAATGGTATGAAA
1 ATTTAGTATTTTGGTGTTTAAACTAATGAAATGGTATGAAA
98761558 ATTTAGTATTTTGGTGTTTAAACTAATGAAATGGTATGAAA
1 ATTTAGTATTTTGGTGTTTAAACTAATGAAATGGTATGAAA
98761599 ATTTA
1 ATTTA
98761604 CATGATATGC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.43
Consensus pattern (41 bp):
ATTTAGTATTTTGGTGTTTAAACTAATGAAATGGTATGAAA
Found at i:98764085 original size:137 final size:137
Alignment explanation
Indices: 98763837--98764123 Score: 511
Period size: 137 Copynumber: 2.1 Consensus size: 137
98763827 TATTGGGCCT
** *
98763837 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
98763902 AGCCCCTTATTCAGATAACAGTATGGCACATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCACATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
98763967 CATATGC
131 CATATGC
* *
98763974 AAGCCCATTTGGGTAACAGTGGTACTAGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
98764039 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTTAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCACATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
98764104 CATATGC
131 CATATGC
98764111 AAGCCCATTTGGG
1 AAGCCCATTTGGG
98764124 GAGACTACTC
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCACATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:98765947 original size:26 final size:26
Alignment explanation
Indices: 98765909--98765966 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
98765899 CATGAAATTC
98765909 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
98765935 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
98765961 TTATCA
1 TTATCA
98765967 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:98781602 original size:21 final size:20
Alignment explanation
Indices: 98781544--98781607 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 20
98781534 GTTTTCATTA
*
98781544 TTTTTAATAATTTTAATAAT
1 TTTTTAATATTTTTAATAAT
* * *
98781564 TTCTT-ATATTATTGATAAT
1 TTTTTAATATTTTTAATAAT
98781583 TTTTTACATATTTTTAATAAT
1 TTTTTA-ATATTTTTAATAAT
98781604 TTTT
1 TTTT
98781608 ATATTTATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
19 15 0.43
20 4 0.11
21 16 0.46
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTAATATTTTTAATAAT
Found at i:98784446 original size:48 final size:48
Alignment explanation
Indices: 98784389--98784603 Score: 226
Period size: 48 Copynumber: 4.6 Consensus size: 48
98784379 AAGCTGTCGC
*
98784389 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * ** **
98784437 CATGTCCCAGACATGTCTTACTCTAGC-TCT-CGTCTCAAATCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * *
98784483 CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCAAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * * * *
98784531 CATGTCCTAGACATGTCTTACACTCGCTCT-CATAATGT---GGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTAT-ATCTCAAGGCCGATG
*
98784577 TATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
98784604 ACACATATCA
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
46 65 0.47
47 4 0.03
48 66 0.47
49 4 0.03
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
Found at i:98784498 original size:46 final size:46
Alignment explanation
Indices: 98784389--98784603 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 46
98784379 AAGCTGTCGC
* * * * *
98784389 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGC-TCT-CATCTCAAAGCCGATG
* * * *
98784437 CATGTCCCAGACATGTCTTACTCTAGCTCTCGTCTCAAATCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAAGCCGATG
* * * * *
98784483 CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCAAGGCCAATG
1 CATGTCCTAGACATGTCTTACACTAGC-TCT-CATCTCAAAGCCGATG
* * *** *
98784531 CATGTCCTAGACATGTCTTACACTCGCTCTCATAAT-GTGGTCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTCTCAT-CTCAAAGCCGATG
* *
98784577 TATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCTAGACATGTCTTACACTAGC
98784604 ACACATATCA
Statistics
Matches: 137, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
46 67 0.49
47 7 0.05
48 63 0.46
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAAGCCGATG
Found at i:98784612 original size:94 final size:94
Alignment explanation
Indices: 98784389--98784603 Score: 288
Period size: 94 Copynumber: 2.3 Consensus size: 94
98784379 AAGCTGTCGC
* *
98784389 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCAATGCATGTCCCAGACATGTC
* * *
98784454 TTACTCTAGCTCTCGTCTCAAATCCGATG
66 TTACACTAGCTCTCATATCAAATCCGATG
* * *
98784483 CATGTCCTAGACATGTCTTACACTGGCTTGTATATCTCAAGGCCAATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCAATGCATGTCCCAGACATGTC
* ****
98784548 TTACACTCGCTCTCATAATGTGGT-CGATG
66 TTACACTAGCTCTCAT-ATCAAATCCGATG
*
98784577 TATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
98784604 ACACATATCA
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 102 0.98
95 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATCAAATCCGATG
Found at i:98786532 original size:18 final size:18
Alignment explanation
Indices: 98786509--98786544 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
98786499 TTTCTAGGTG
98786509 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
98786527 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
98786545 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:98787860 original size:25 final size:25
Alignment explanation
Indices: 98787796--98787853 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
98787786 CTTTTCATTC
98787796 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
98787821 CCATATTCTCTGTTTCTTCTTGCTA
1 CCATATTCTCTGTTTCTTCTTGCTA
98787846 CCATATTC
1 CCATATTC
98787854 ACAGTTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (25 bp):
CCATATTCTCTGTTTCTTCTTGCTA
Found at i:98790100 original size:39 final size:40
Alignment explanation
Indices: 98790056--98790153 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 40
98790046 TATTGAATGC
*
98790056 ATACTTTCAATTTACTAA-AATAATAGATGAGTCCGAGAG
1 ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
**
98790095 ATACTTTCAATTTTTTACCAATCTTTCTAATAGATGAGTCCGAGAG
1 ATACTTTCAA---TTTACCAA---TAATAATAGATGAGTCCGAGAG
98790141 ATACTTTCAATTT
1 ATACTTTCAATTT
98790154 TTTACTAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
39 10 0.20
42 7 0.14
43 3 0.06
46 29 0.59
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (40 bp):
ATACTTTCAATTTACCAATAATAATAGATGAGTCCGAGAG
Found at i:98792465 original size:32 final size:32
Alignment explanation
Indices: 98792429--98792588 Score: 266
Period size: 32 Copynumber: 5.0 Consensus size: 32
98792419 TATAACTATG
98792429 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
98792461 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
98792493 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
98792525 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
98792557 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
98792589 ATTTTTTATG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 117 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:98792530 original size:64 final size:64
Alignment explanation
Indices: 98792429--98792588 Score: 293
Period size: 64 Copynumber: 2.5 Consensus size: 64
98792419 TATAACTATG
*
98792429 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
98792493 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
98792557 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
98792589 ATTTTTTATG
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:98794639 original size:21 final size:21
Alignment explanation
Indices: 98794587--98794641 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
98794577 ACCGCTGTTT
* *
98794587 CTAATCTCACAGCTACAGTAT
1 CTAATCTCACCGCTACAGTAA
*
98794608 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
98794629 CTAATCTCACCGC
1 CTAATCTCACCGC
98794642 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.36, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:98798616 original size:47 final size:48
Alignment explanation
Indices: 98798537--98798669 Score: 126
Period size: 49 Copynumber: 2.8 Consensus size: 48
98798527 GAGATAAGAT
* *
98798537 GCCGATACCATGTCCCA-AACATGGTCTTACACTGGCTAGCACAT-CAAA
1 GCCGATGCAATGTCCCAGAA-A-GGTCTTACACTGGCTAGCACATACAAA
* * * * *** *
98798585 GTCGATGCAATGTCTCAGACAGGTCTTACACTGACTTTTATATAACAAA
1 GCCGATGCAATGTCCCAGAAAGGTCTTACACTGGCTAGCACAT-ACAAA
*
98798634 GCCGATGCTATGTCCCAGAAAGGTCTTACACTGGCT
1 GCCGATGCAATGTCCCAGAAAGGTCTTACACTGGCT
98798670 CTTATCAATC
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
47 17 0.25
48 14 0.21
49 36 0.54
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCAATGTCCCAGAAAGGTCTTACACTGGCTAGCACATACAAA
Found at i:98798865 original size:48 final size:48
Alignment explanation
Indices: 98798765--98798865 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
98798755 CATTATCTTT
* * * ***
98798765 ATATCTCGAGGCCGATGCATATCCCAGACATGTCTTACACTGGCTTGT
1 ATATCTCAAGACCGATGCATATCCCAGACATGTCTTACACTAGCTCAC
* *
98798813 ATATCTCAAGACCGATGCATGTCCCAGACATGTTTTACACTAG-TACAC
1 ATATCTCAAGACCGATGCATATCCCAGACATGTCTTACACTAGCT-CAC
98798861 ATATC
1 ATATC
98798866 ACCCAATATC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.98
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (48 bp):
ATATCTCAAGACCGATGCATATCCCAGACATGTCTTACACTAGCTCAC
Found at i:98800139 original size:18 final size:18
Alignment explanation
Indices: 98800103--98800169 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
98800093 ACTAATTTTC
* * *
98800103 AAATTTTAAATTCATAAT
1 AAATTTAAAATTTAAAAT
98800121 AAATTTAAAATTTAAAAT
1 AAATTTAAAATTTAAAAT
**
98800139 AAAATAAACAAATTTAGAAGAT
1 -AAATTTA-AAATTTA-AA-AT
98800161 AAATTTAAA
1 AAATTTAAA
98800170 TCAAAATTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 15 0.39
19 5 0.13
20 9 0.24
21 7 0.18
22 2 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATTTAAAATTTAAAAT
Found at i:98800783 original size:17 final size:18
Alignment explanation
Indices: 98800752--98800785 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98800742 CTCAGAAATA
*
98800752 TATTTTTGGGCCAAAAAG
1 TATTTTTGAGCCAAAAAG
98800770 TATTTTTGAG-CAAAAA
1 TATTTTTGAGCCAAAAA
98800786 TTAAAGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (18 bp):
TATTTTTGAGCCAAAAAG
Found at i:98803216 original size:27 final size:27
Alignment explanation
Indices: 98803172--98803226 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
98803162 AATATATTGG
*
98803172 ATTTATACTCTTGACTTTGGTTCGTCA
1 ATTTATACTATTGACTTTGGTTCGTCA
* * * *
98803199 ATTTGTACTATTGGCTTTTGTTTGTCA
1 ATTTATACTATTGACTTTGGTTCGTCA
98803226 A
1 A
98803227 CTTCTCCCTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.51
Consensus pattern (27 bp):
ATTTATACTATTGACTTTGGTTCGTCA
Found at i:98807319 original size:27 final size:27
Alignment explanation
Indices: 98807266--98807320 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
98807256 TGTAACAACC
* *
98807266 AACCTATTTGAGAGATCTGAGTAGTGA
1 AACCCATTTGAGAGATCTGAGCAGTGA
*
98807293 AACCCATTTGAGAGATCTGAGCGGTGA
1 AACCCATTTGAGAGATCTGAGCAGTGA
98807320 A
1 A
98807321 GAAGTTCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (27 bp):
AACCCATTTGAGAGATCTGAGCAGTGA
Done.