Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 307 of 328
Found at i:91286157 original size:69 final size:68
Alignment explanation
Indices: 91286079--91286303 Score: 332
Period size: 67 Copynumber: 3.3 Consensus size: 68
91286069 TTAGTAAGTG
* *
91286079 TTTTTTAATATGCATGCAATGATTGTTGGTGTCTATGA-TGGTTTTTTAATATACATGATGTTTA
1 TTTTTTAATATGCATGCAATGATTGTTGGTGTGTATGACT-GTTTTTTAATATACATGATGTTTG
91286143 ACTA
65 ACTA
91286147 TTTTTTTAATATGCATGCAATGATTGTTGGTGTGTATGACTGTTTTTTAATATACAT-AT-TATT
1 -TTTTTTAATATGCATGCAATGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGATGT-TT
91286210 GACTA
64 GACTA
* * *
91286215 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTATAACTGTTTTTTAATATACATGTTG-TTGA
1 TTTTTTAATATGCATGCAATGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGATGTTTGA
91286279 CTA
66 CTA
* *
91286282 TTTTTTAATAGGTATGCAATGA
1 TTTTTTAATATGCATGCAATGA
91286304 GTATTTTTTT
Statistics
Matches: 144, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
67 81 0.56
68 9 0.06
69 53 0.37
70 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.49
Consensus pattern (68 bp):
TTTTTTAATATGCATGCAATGATTGTTGGTGTGTATGACTGTTTTTTAATATACATGATGTTTGA
CTA
Found at i:91286342 original size:28 final size:28
Alignment explanation
Indices: 91286261--91286343 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
91286251 AACTGTTTTT
* *
91286261 TAATATACATGTTGTTGACTATTTTTTAA
1 TAATATGCATGTAG-TGACTATTTTTTAA
* * *
91286290 TAGGTATGCAATG-AGT-ATTTTTTTTTTAA
1 TA-ATATGC-ATGTAGTGA-CTATTTTTTAA
91286319 TAATATGCATGTAGTGACTATTTTT
1 TAATATGCATGTAGTGACTATTTTT
91286344 AGGTGTGTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 11
0.68 0.13 0.18
Matches are distributed among these distances:
27 3 0.07
28 15 0.37
29 15 0.37
30 5 0.12
31 3 0.07
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (28 bp):
TAATATGCATGTAGTGACTATTTTTTAA
Found at i:91287192 original size:29 final size:28
Alignment explanation
Indices: 91287156--91287212 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
91287146 AGCATCTCCA
*
91287156 TCTTTCCTCTTCTCCTTCTTTTTTTTCT
1 TCTTTCCTCTTCTCCTTCTTCTTTTTCT
*
91287184 TCTTATCCTCTTCTTCTTCTTCTTTTTCT
1 TCTT-TCCTCTTCTCCTTCTTCTTTTTCT
91287213 CTAACCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (28 bp):
TCTTTCCTCTTCTCCTTCTTCTTTTTCT
Found at i:91287880 original size:28 final size:28
Alignment explanation
Indices: 91287841--91287923 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 28
91287831 TTGAGAGTGC
*
91287841 CATCAAAATGAGAGTGTTTTATAATGTAT
1 CATC-AAATGAGAGTGTTTTGTAATGTAT
** *
91287870 CATCAAATGAGTTTTTTTTGTAATCG-AT
1 CATCAAATGAGAGTGTTTTGTAAT-GTAT
*
91287898 C-GCAAATGAGAGTGTTTTGTAATGTA
1 CATCAAATGAGAGTGTTTTGTAATGTA
91287924 CAACCGAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.02
27 19 0.43
28 19 0.43
29 5 0.11
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (28 bp):
CATCAAATGAGAGTGTTTTGTAATGTAT
Found at i:91288387 original size:89 final size:83
Alignment explanation
Indices: 91288188--91288405 Score: 249
Period size: 89 Copynumber: 2.5 Consensus size: 83
91288178 ATTCAAGATT
* * ** *
91288188 TTTGTATTATTTTTGTGTCTGTAAATAAAATTTAGTCTGTATTATTTGTTGTTCGAATTATATAT
1 TTTGTATT-TTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTGTTGTTCAAATTATATAT
* * *
91288253 GTATTAATTTTTTAAAATG
65 GTATTAATATTCTAAAATA
* *
91288272 TTTGAATTTTCTTGTATCTATAAATTTAATTTAGTCTGTATTATTTGTTGTTCAAATTTTATATT
1 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTGTTGTTCAAA--TTATA--
*
91288337 TTCATGTATTAATATTCTAGAATA
62 -T-ATGTATTAATATTCTAAAATA
*
91288361 TTTGTATTTTCTTGTATCTGTAAATTTAATTTGGTGC-GTATTATT
1 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGT-CTGTATTATT
91288406 ATTTTTTTGA
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
83 42 0.37
84 7 0.06
85 5 0.04
88 1 0.01
89 57 0.50
90 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.56
Consensus pattern (83 bp):
TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTGTTGTTCAAATTATATATG
TATTAATATTCTAAAATA
Found at i:91290624 original size:20 final size:20
Alignment explanation
Indices: 91290599--91290638 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
91290589 ATCGATAGTA
*
91290599 AACGATGGTGAATGGCGGTG
1 AACGATAGTGAATGGCGGTG
*
91290619 AACGATAGTTAATGGCGGTG
1 AACGATAGTGAATGGCGGTG
91290639 GTGATCAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.40, T:0.23
Consensus pattern (20 bp):
AACGATAGTGAATGGCGGTG
Found at i:91291003 original size:17 final size:17
Alignment explanation
Indices: 91290969--91291107 Score: 54
Period size: 17 Copynumber: 8.1 Consensus size: 17
91290959 CATTTTTTTC
* * *
91290969 TAATGTCATTTGAATTT
1 TAATTTCATTTCACTTT
91290986 TAATTTCATTTCACTTT
1 TAATTTCATTTCACTTT
* * **
91291003 T-TTTTAATTAAAAC-TT
1 TAATTTCATT-TCACTTT
* *
91291019 TATTTCTCATGTCAACTTTT
1 TAATT-TCATTTC-AC-TTT
91291039 TTAATTTCAATTTCA-TTT
1 -TAATTTC-ATTTCACTTT
* *
91291057 T-TTTCTCATGTCA-TTT
1 TAATT-TCATTTCACTTT
* *
91291073 GAATTTCATTTCAATTT
1 TAATTTCATTTCACTTT
*
91291090 GAATTTCATTTCACTTT
1 TAATTTCATTTCACTTT
91291107 T
1 T
91291108 TTCTTTTTTT
Statistics
Matches: 91, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
16 26 0.29
17 44 0.48
18 8 0.09
20 5 0.05
21 8 0.09
ACGTcount: A:0.25, C:0.14, G:0.04, T:0.57
Consensus pattern (17 bp):
TAATTTCATTTCACTTT
Found at i:91291230 original size:114 final size:113
Alignment explanation
Indices: 91291110--91291336 Score: 323
Period size: 114 Copynumber: 2.0 Consensus size: 113
91291100 TCACTTTTTT
*
91291110 CTTTTTTT-TTT-TAATTAAAACCTCATTTGTCATGTCAATTTTTTTTTTCATTTCAATCTCTTC
1 CTTTTTTTCTTTGTAATTAAAACCTCATTTGTCATGTCAA-ATTTTTTTTCATTTCAA--T-TTC
91291173 TTAAAATTCATTTGAATTCCATGTTTTCTCATGTGATTTGAATTTCATTTAA
62 TTAAAATTCATTTGAATTCCATGTTTTCTCATGTGATTTGAATTTCATTTAA
*
91291225 CTTTTTTTCCTTTGTAATTAAAACTTCATTTGTCATGTCAAATTTTTTTTCATTTCAATTTCTTA
1 CTTTTTTT-CTTTGTAATTAAAACCTCATTTGTCATGTCAAATTTTTTTTCATTTCAATTTCTTA
* ** * **
91291290 AAGTTCATTTGAATTTTATTTTTTCTCATGTTTTTTGAATTTCATTT
65 AAATTCATTTGAATTCCATGTTTTCTCATGTGATTTGAATTTCATTT
91291337 CAATTCTAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
114 47 0.47
115 9 0.09
117 19 0.19
118 26 0.26
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (113 bp):
CTTTTTTTCTTTGTAATTAAAACCTCATTTGTCATGTCAAATTTTTTTTCATTTCAATTTCTTAA
AATTCATTTGAATTCCATGTTTTCTCATGTGATTTGAATTTCATTTAA
Found at i:91291471 original size:133 final size:131
Alignment explanation
Indices: 91291213--91291474 Score: 357
Period size: 132 Copynumber: 2.0 Consensus size: 131
91291203 ATGTGATTTG
* *
91291213 AATTTCATTTAACTTTTTTTCCTTTGTAATTAAAACTTCATTTGTCATGTCAAATTTTTTTTCAT
1 AATTTCATTTAACTTTTTTTCCTTTGTAATTAAAACTTCATTTCTCATGTCAAATGTTTTTTCAT
* * *
91291278 TTCAATTTCTTAAAGTTCATTTGAATTTTATTTTTTCTCATGTTTTTTGAATTTCATTTCAATTC
66 TTCAATTTCTTAAAGTTCATTTGAATTTCATTTTTTCTAATGTTATTTGAATTTCATTTCAATTC
91291343 T
131 T
* * * * *
91291344 AATTTCATTTCACTTTTTTTTCTTTTTTAATTAAAATTTTATTTCTCATGTC-AATGTTTTTTCA
1 AATTTCATTTAAC-TTTTTTTCCTTTGTAATTAAAACTTCATTTCTCATGTCAAATGTTTTTTCA
* * *
91291408 TTTCAATTTATTTTTAAATTTCATTTGAATTTCA-TTTTTCTAATGTTATTTGAATTTCTTTTCA
65 TTTCAA--T-TTCTTAAAGTTCATTTGAATTTCATTTTTTCTAATGTTATTTGAATTTCATTTCA
91291472 ATT
127 ATT
91291475 TTTCTTTTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
131 29 0.25
132 33 0.29
133 31 0.27
134 21 0.18
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (131 bp):
AATTTCATTTAACTTTTTTTCCTTTGTAATTAAAACTTCATTTCTCATGTCAAATGTTTTTTCAT
TTCAATTTCTTAAAGTTCATTTGAATTTCATTTTTTCTAATGTTATTTGAATTTCATTTCAATTC
T
Found at i:91291781 original size:17 final size:17
Alignment explanation
Indices: 91291751--91291791 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
91291741 ATATAATATG
91291751 TTTTC-ATTTCAATTTC
1 TTTTCAATTTCAATTTC
*
91291767 TTTTCAATTTGAATTTC
1 TTTTCAATTTCAATTTC
*
91291784 ATTTCAAT
1 TTTTCAAT
91291792 ACAAATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTCAATTTCAATTTC
Found at i:91292073 original size:6 final size:6
Alignment explanation
Indices: 91292064--91292138 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
91292054 ATATAAATTC
* * * * * *
91292064 ATTTCA ATTTCA TTTTTA ATTCCA ATTTGA ATTTCA AATTGA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
*
91292112 A-TTCA A-TACA ACTTTCA ATTTCA ATTT
1 ATTTCA ATTTCA A-TTTCA ATTTCA ATTT
91292139 TTTTTATATT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
5 9 0.17
6 40 0.75
7 4 0.08
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.48
Consensus pattern (6 bp):
ATTTCA
Found at i:91305509 original size:82 final size:82
Alignment explanation
Indices: 91305421--91305611 Score: 328
Period size: 82 Copynumber: 2.3 Consensus size: 82
91305411 TAGCAGCAGG
*
91305421 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGGTGGAGTTGGTGTGGATT
1 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGGTAGAGTTGGTGTGGATT
91305486 TTAAACCCTTAGAAAGT
66 TTAAACCCTTAGAAAGT
91305503 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGGTAGAGTTGGTGTGGATT
1 GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGGTAGAGTTGGTGTGGATT
91305568 TTAAACCCTTAGAAAGT
66 TTAAACCCTTAGAAAGT
* *
91305585 GGTTAGTTATGGGATTTTATTTTGTTT
1 GG-TA-TGA-GTGATTTTATTTTGTTT
91305612 TATCCTATTT
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
82 83 0.81
83 2 0.02
84 2 0.02
85 16 0.16
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.45
Consensus pattern (82 bp):
GGTATGAGTGATTTTATTTTGTTTGTTTCAGCTCTGCTGTTAAGATGGTAGAGTTGGTGTGGATT
TTAAACCCTTAGAAAGT
Found at i:91309010 original size:17 final size:17
Alignment explanation
Indices: 91308988--91309020 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
91308978 GATATGATAC
91308988 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
91309005 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
91309021 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:91309021 original size:18 final size:17
Alignment explanation
Indices: 91308988--91309021 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
91308978 GATATGATAC
*
91308988 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
91309005 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
91309022 ATCAGGGAAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:91309370 original size:35 final size:37
Alignment explanation
Indices: 91309307--91309385 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
91309297 ATTATAAAAT
91309307 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
91309343 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
91309378 CATATCAT
1 CATATCAT
91309386 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:91309383 original size:14 final size:15
Alignment explanation
Indices: 91309328--91309383 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
91309318 AGATTGCATA
91309328 TCATATCTAAGATTG
1 TCATATCTAAGATTG
91309343 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
91309361 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
91309378 -CATATC
1 TCATATC
91309384 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:91309393 original size:17 final size:19
Alignment explanation
Indices: 91309314--91309385 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
91309304 AATCATATCT
91309314 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
91309333 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
91309351 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
91309368 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
91309386 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:91310564 original size:23 final size:23
Alignment explanation
Indices: 91310538--91310598 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
91310528 TATTGAAATT
91310538 TATTTCAAATATATAACA-TTATA
1 TATTT-AAATATATAACAGTTATA
* *
91310561 TATTTAAATTTATAATAGTTATA
1 TATTTAAATATATAACAGTTATA
*
91310584 TTATATAGAATATAT
1 -TATTTA-AATATAT
91310599 TTTTCAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 10 0.32
23 10 0.32
24 5 0.16
25 6 0.19
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (23 bp):
TATTTAAATATATAACAGTTATA
Found at i:91310574 original size:22 final size:24
Alignment explanation
Indices: 91310538--91310584 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
91310528 TATTGAAATT
91310538 TATTTCAAATATATAACA-TTATA
1 TATTTCAAATATATAACAGTTATA
* *
91310561 TATTT-AAATTTATAATAGTTATA
1 TATTTCAAATATATAACAGTTATA
91310584 T
1 T
91310585 TATATAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
TATTTCAAATATATAACAGTTATA
Found at i:91311578 original size:11 final size:12
Alignment explanation
Indices: 91311564--91311592 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
91311554 TCTAAATTAC
91311564 ATTTCTTTC-AA
1 ATTTCTTTCTAA
91311575 ATTTCTTTCTAA
1 ATTTCTTTCTAA
91311587 ATTTCT
1 ATTTCT
91311593 CAAAAAGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTCTTTCTAA
Found at i:91311790 original size:28 final size:27
Alignment explanation
Indices: 91311754--91311823 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 27
91311744 TAAGGGTTAA
* *
91311754 TTTTAATTTTTTAATATTATTTAA-ATT
1 TTTTTATTTTTTAAT-TTAATTAACATT
*
91311781 TTTTTCATTTATGTAATTTAATTAACATT
1 TTTTT-ATTT-TTTAATTTAATTAACATT
91311810 TTTTATATTTTTTA
1 TTTT-TATTTTTTA
91311824 TAACAGTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 4 0.11
28 14 0.40
29 16 0.46
30 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTTTATTTTTTAATTTAATTAACATT
Found at i:91314125 original size:13 final size:13
Alignment explanation
Indices: 91314107--91314152 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
91314097 AGTTTGGCAA
91314107 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
**
91314120 TGCTTTTGGAAAG
1 TGCTTTTAAAAAG
* *
91314133 TGCTATGAAAAAG
1 TGCTTTTAAAAAG
91314146 TGCTTTT
1 TGCTTTT
91314153 GAGAAGTATT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:91314159 original size:13 final size:13
Alignment explanation
Indices: 91314107--91314159 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
91314097 AGTTTGGCAA
*
91314107 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
91314120 TGCTTTTGGAAAG
1 TGCTTTTGAAAAG
*
91314133 TGC-TATGAAAAAG
1 TGCTTTTG-AAAAG
*
91314146 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
91314159 T
1 T
91314160 ATTTTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.09
13 26 0.81
14 3 0.09
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:91314170 original size:26 final size:25
Alignment explanation
Indices: 91314110--91314169 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
91314100 TTGGCAATGC
*
91314110 TTTTAAAAAGTGCTTTTGGAAAGTGC
1 TTTTAAAAAGTGCTTTTGGAAAGT-A
* *
91314136 TATGAAAAAGTGCTTTT-GAGAAGTA
1 TTTTAAAAAGTGCTTTTGGA-AAGTA
91314161 TTTTAAAAA
1 TTTTAAAAA
91314170 ATTTGGTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (25 bp):
TTTTAAAAAGTGCTTTTGGAAAGTA
Found at i:91314422 original size:20 final size:21
Alignment explanation
Indices: 91314394--91314444 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
91314384 GTAAAATTTA
91314394 ATTAGAATATATAAACTAT-ATT
1 ATTA-AATATATAAA-TATAATT
*
91314416 -TTAAATATTTAAATATAATT
1 ATTAAATATATAAATATAATT
91314436 ATTAAATAT
1 ATTAAATAT
91314445 TTGTAATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATATATAAATATAATT
Found at i:91314442 original size:21 final size:21
Alignment explanation
Indices: 91314394--91314446 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
91314384 GTAAAATTTA
*
91314394 ATTAGAATATATAAACTATATT
1 ATTA-AATATTTAAACTATATT
91314416 -TTAAATATTTAAA-TATAATT
1 ATTAAATATTTAAACTAT-ATT
91314436 ATTAAATATTT
1 ATTAAATATTT
91314447 GTAATTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATTAAATATTTAAACTATATT
Found at i:91314453 original size:14 final size:13
Alignment explanation
Indices: 91314436--91314506 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 13
91314426 AAATATAATT
91314436 ATTAAATATTTGTA
1 ATTAAATATTT-TA
*
91314450 ATT-AGTATTTTA
1 ATTAAATATTTTA
91314462 A--AAATATTTT-
1 ATTAAATATTTTA
91314472 -TTAAATATTTGTA
1 ATTAAATATTT-TA
*
91314485 ATT-AGTATTTTA
1 ATTAAATATTTTA
91314497 A--AAATATTTT
1 ATTAAATATTTT
91314507 TTTATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
11 22 0.48
12 7 0.15
13 12 0.26
14 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (13 bp):
ATTAAATATTTTA
Found at i:91314503 original size:35 final size:35
Alignment explanation
Indices: 91314423--91314508 Score: 145
Period size: 35 Copynumber: 2.5 Consensus size: 35
91314413 ATTTTAAATA
* * *
91314423 TTTAAATATAATTATTAAATATTTGTAATTAGTAT
1 TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
91314458 TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
1 TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
91314493 TTTAAAAATATTTTTT
1 TTTAAAAATATTTTTT
91314509 TATTTTTAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (35 bp):
TTTAAAAATATTTTTTAAATATTTGTAATTAGTAT
Found at i:91321847 original size:33 final size:33
Alignment explanation
Indices: 91321810--91321872 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
91321800 CGACACAAAA
91321810 GATAAACATCACCACATTTGAGTTCGGGATAAG
1 GATAAACATCACCACATTTGAGTTCGGGATAAG
91321843 GATAAACATCACCACATTTGAGTTCGGGAT
1 GATAAACATCACCACATTTGAGTTCGGGAT
91321873 TGTTGTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (33 bp):
GATAAACATCACCACATTTGAGTTCGGGATAAG
Found at i:91322189 original size:26 final size:26
Alignment explanation
Indices: 91322152--91322287 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
91322142 TGATACAAAT
* *
91322152 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91322178 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
91322204 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91322230 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91322256 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
91322282 TGATAA
1 TGATAA
91322288 AATATCATGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:91324306 original size:137 final size:137
Alignment explanation
Indices: 91324061--91324620 Score: 1023
Period size: 137 Copynumber: 4.1 Consensus size: 137
91324051 GAGTAGTCTC
*
91324061 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
91324125 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91324190 ACTGTTA
131 ACTGTTA
91324197 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
91324262 TGTTATCTGAATAAGGGGCTAAGACCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91324327 ACTGTTA
131 ACTGTTA
91324334 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
91324399 TGTTATTTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGACCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91324464 ACTGTTA
131 ACTGTTA
*
91324471 CCCAAATGAGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
91324536 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
91324601 ACTGTTG
131 ACTGTTA
**
91324608 CCTGAATGGGCTT
1 CCCAAATGGGCTT
91324621 AGGCCCAATA
Statistics
Matches: 409, Mismatches: 14, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
136 20 0.05
137 389 0.95
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:91325873 original size:40 final size:40
Alignment explanation
Indices: 91325824--91325961 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
91325814 AACACACTAG
* *
91325824 TTTGGCACCCAGTGTCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGGATAATCCGAAGTAATAA
* *
91325864 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGTCTCATCGGATAATCCGAAGTAATAA
* * * *
91325902 -TTGGCACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGACACCCAGTGTCTCATCGGA-TAATCCGAAGTAATAA
* *
91325942 ATTGACACACAGTGTCTCAT
1 TTTGACACCCAGTGTCTCAT
91325962 TGACTCGAAG
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.23
38 12 0.15
39 1 0.01
40 33 0.41
41 16 0.20
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGTCTCATCGGATAATCCGAAGTAATAA
Found at i:91330542 original size:43 final size:43
Alignment explanation
Indices: 91330474--91330620 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
91330464 CCTAGATATA
* * * *
91330474 GTCTTACATGTTATCACATTTCGATGTCACTGTCCCATACAGG
1 GTCTTACACGTAATCACAATACGATGTCACTGTCCCATACAGG
* * * * *
91330517 GTCTTACACG-AAGTC-GATTAACGATGCCGA-TGTCCTATACAAG
1 GTCTTACACGTAA-TCACAAT-ACGATGTC-ACTGTCCCATACAGG
*
91330560 GTCTTACACGTAATCACAATACAATGTCACTGTCCCATACAGG
1 GTCTTACACGTAATCACAATACGATGTCACTGTCCCATACAGG
*
91330603 GTCTTACATGTAATCACA
1 GTCTTACACGTAATCACA
91330621 TCTCGGTAAC
Statistics
Matches: 84, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 5 0.06
43 74 0.88
44 5 0.06
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
GTCTTACACGTAATCACAATACGATGTCACTGTCCCATACAGG
Found at i:91349902 original size:13 final size:13
Alignment explanation
Indices: 91349886--91349925 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
91349876 CATGGCTGTG
91349886 AAAATAAAATAAT-
1 AAAATAAAA-AATA
91349899 AAAATAAAAAATA
1 AAAATAAAAAATA
91349912 AAAAT-AAAAATA
1 AAAATAAAAAATA
91349924 AA
1 AA
91349926 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:91349913 original size:12 final size:12
Alignment explanation
Indices: 91349886--91349925 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
91349876 CATGGCTGTG
91349886 AAAATAAAATAAT
1 AAAATAAAA-AAT
91349899 AAAATAAAAAAT
1 AAAATAAAAAAT
91349911 AAAA-ATAAAAAT
1 AAAATA-AAAAAT
91349923 AAA
1 AAA
91349926 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 1 0.04
12 16 0.62
13 9 0.35
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:91354964 original size:19 final size:19
Alignment explanation
Indices: 91354940--91354981 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
91354930 TTCCCAAAAT
*
91354940 GCATTATTTCAAAGGACAA
1 GCATTATTTCAAAGAACAA
91354959 GCATTATTTCAAAGAACAA
1 GCATTATTTCAAAGAACAA
91354978 GCAT
1 GCAT
91354982 CATTCAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (19 bp):
GCATTATTTCAAAGAACAA
Found at i:91355482 original size:20 final size:20
Alignment explanation
Indices: 91355457--91355498 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
91355447 ATGGCAGGAT
*
91355457 TTGTCCCATCATAGACATCC
1 TTGTCCCATCATAAACATCC
*
91355477 TTGTCCCGTCATAAACATCC
1 TTGTCCCATCATAAACATCC
91355497 TT
1 TT
91355499 ACACATTCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.10, T:0.33
Consensus pattern (20 bp):
TTGTCCCATCATAAACATCC
Found at i:91356185 original size:27 final size:31
Alignment explanation
Indices: 91356153--91356209 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 31
91356143 AAAATTGTAT
91356153 AATTTTAATTA-TA-T-TTAT-TTTATTAAA
1 AATTTTAATTATTATTCTTATATTTATTAAA
*
91356180 AATTTTCATTATTATTCTTATATTTATTAA
1 AATTTTAATTATTATTCTTATATTTATTAA
91356210 CCCTTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 2 0.08
29 1 0.04
30 4 0.16
31 8 0.32
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (31 bp):
AATTTTAATTATTATTCTTATATTTATTAAA
Found at i:91357914 original size:26 final size:27
Alignment explanation
Indices: 91357885--91357935 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
91357875 AGGACTTGAG
*
91357885 TTTTTAAATTTATATT-T-GTTTTTTGT
1 TTTTTAAACTTA-ATTATAGTTTTTTGT
91357911 TTTTTAAACTTAATTATAGTTTTTT
1 TTTTTAAACTTAATTATAGTTTTTT
91357936 TATCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 12 0.55
27 7 0.32
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (27 bp):
TTTTTAAACTTAATTATAGTTTTTTGT
Found at i:91368834 original size:18 final size:19
Alignment explanation
Indices: 91368811--91368846 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
91368801 GAGAATAGAA
91368811 GAGAAGAAAG-AAAGAAAG
1 GAGAAGAAAGAAAAGAAAG
91368829 GAGAAGAAAGAAAAGAAA
1 GAGAAGAAAGAAAAGAAA
91368847 AGGTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
GAGAAGAAAGAAAAGAAAG
Found at i:91373250 original size:22 final size:23
Alignment explanation
Indices: 91373222--91373288 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 23
91373212 AAGAAAATAA
91373222 AATTTAAAGTAAATAAT-AAAAC
1 AATTTAAAGTAAATAATAAAAAC
*
91373244 AATTTAAAATGAATAATACATAAAAAC
1 AATTT-AAA-GTA-AATA-ATAAAAAC
*
91373271 AAGTTTAAAATAAATAAT
1 AA-TTTAAAGTAAATAAT
91373289 GTATAAAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
22 5 0.14
23 3 0.08
24 4 0.11
25 8 0.22
26 3 0.08
27 10 0.28
28 3 0.08
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (23 bp):
AATTTAAAGTAAATAATAAAAAC
Found at i:91373294 original size:28 final size:27
Alignment explanation
Indices: 91373239--91373408 Score: 83
Period size: 26 Copynumber: 6.5 Consensus size: 27
91373229 AGTAAATAAT
*
91373239 AAAACAATTTAAAATGAATAATACATA
1 AAAACAATTTAAAATAAATAATACATA
**
91373266 AAAACAAGTTTAAAATAAATAATGTATA
1 AAAACAA-TTTAAAATAAATAATACATA
**
91373294 AAGCAACCTAAAGTAAAA-AAA-AA-ACATA
1 AA--AA-C-AATTTAAAATAAATAATACATA
* * * **
91373322 AAAA-AGTTTCAAATAAAGAATGTATA
1 AAAACAATTTAAAATAAATAATACATA
91373348 AAAAC---TTAAAATAAATAATAC-TA
1 AAAACAATTTAAAATAAATAATACATA
* **
91373371 AAGA-AGCTTAAAATAAATAAATACA-A
1 AAAACAATTTAAAATAAAT-AATACATA
*
91373397 AAGA-AATTTAAA
1 AAAACAATTTAAA
91373409 GGTGAATAAC
Statistics
Matches: 109, Mismatches: 20, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
23 10 0.09
24 15 0.14
25 13 0.12
26 25 0.23
27 7 0.06
28 24 0.22
29 2 0.02
30 5 0.05
31 6 0.06
32 2 0.02
ACGTcount: A:0.64, C:0.07, G:0.06, T:0.23
Consensus pattern (27 bp):
AAAACAATTTAAAATAAATAATACATA
Found at i:91373359 original size:24 final size:25
Alignment explanation
Indices: 91373332--91373401 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
91373322 AAAAAGTTTC
91373332 AAATAAAGAATGTA-TAAA-AA-CTTA
1 AAATAAAGAA--TACTAAAGAAGCTTA
*
91373356 AAATAAATAATACTAAAGAAGCTTA
1 AAATAAAGAATACTAAAGAAGCTTA
* *
91373381 AAATAAATAAATACAAAAGAA
1 AAATAAA-GAATACTAAAGAA
91373402 ATTTAAAGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 4 0.10
24 11 0.28
25 11 0.28
26 11 0.28
ACGTcount: A:0.66, C:0.06, G:0.07, T:0.21
Consensus pattern (25 bp):
AAATAAAGAATACTAAAGAAGCTTA
Found at i:91373383 original size:25 final size:26
Alignment explanation
Indices: 91373352--91373401 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
91373342 TGTATAAAAA
*
91373352 CTTAAAATAAAT-AATACTAAAGAAG
1 CTTAAAATAAATAAATACAAAAGAAG
91373377 CTTAAAATAAATAAATACAAAAGAA
1 CTTAAAATAAATAAATACAAAAGAA
91373402 ATTTAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (26 bp):
CTTAAAATAAATAAATACAAAAGAAG
Found at i:91373407 original size:26 final size:25
Alignment explanation
Indices: 91373349--91373408 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
91373339 GAATGTATAA
*
91373349 AAACTTAAAATAAATAATACTAAAG
1 AAACTTAAAATAAATAATACAAAAG
*
91373374 AAGCTTAAAATAAATAAATACAAAAG
1 AAACTTAAAATAAAT-AATACAAAAG
*
91373400 AAATTTAAA
1 AAACTTAAA
91373409 GGTGAATAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (25 bp):
AAACTTAAAATAAATAATACAAAAG
Found at i:91373819 original size:44 final size:44
Alignment explanation
Indices: 91373771--91373866 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
91373761 AATACAAATT
*
91373771 TAAAATA-CATAATATAAAAAAACAAGCTTTGAATAAATGAATAA
1 TAAAATAGCATAATA-AAAAAAACAAGCTTTGAATAAATAAATAA
** **
91373815 TAAAATAGTTTCCTAAAAAAAACAAGCTTTGAATAAATAAATAA
1 TAAAATAGCATAATAAAAAAAACAAGCTTTGAATAAATAAATAA
91373859 TAAAATAG
1 TAAAATAG
91373867 TTTCCTAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 43 0.93
45 3 0.07
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (44 bp):
TAAAATAGCATAATAAAAAAAACAAGCTTTGAATAAATAAATAA
Found at i:91373867 original size:44 final size:44
Alignment explanation
Indices: 91373786--91373875 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
91373776 TACATAATAT
*
91373786 AAAAAAACAAGCTTTGAATAAATGAATAATAAAATAGTTTCCTA
1 AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCTA
91373830 AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCTA
1 AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCTA
91373874 AA
1 AA
91373876 GAATGAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.27
Consensus pattern (44 bp):
AAAAAAACAAGCTTTGAATAAATAAATAATAAAATAGTTTCCTA
Found at i:91374811 original size:19 final size:19
Alignment explanation
Indices: 91374776--91374813 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
91374766 GCCGAAAGCA
*
91374776 AAAATAAAAAAGGAAAAAT
1 AAAATAAAAAAGAAAAAAT
91374795 AAAATAAAAATA-AAAAAAT
1 AAAATAAAAA-AGAAAAAAT
91374814 GCTCTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAAGAAAAAAT
Found at i:91375091 original size:7 final size:7
Alignment explanation
Indices: 91375079--91375108 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
91375069 GGGCTTGTTG
91375079 TTTGGGT
1 TTTGGGT
91375086 TTTGGGT
1 TTTGGGT
91375093 TTTGGGT
1 TTTGGGT
*
91375100 TATGGGT
1 TTTGGGT
91375107 TT
1 TT
91375109 GCTTAGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.03, C:0.00, G:0.40, T:0.57
Consensus pattern (7 bp):
TTTGGGT
Found at i:91378138 original size:8 final size:8
Alignment explanation
Indices: 91378125--91378153 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
91378115 TTATGTTTAG
91378125 TATATTAT
1 TATATTAT
91378133 TATATTAT
1 TATATTAT
91378141 TATATTAT
1 TATATTAT
91378149 TATAT
1 TATAT
91378154 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:91378186 original size:5 final size:5
Alignment explanation
Indices: 91378176--91378211 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
91378166 TCATGTTTTA
91378176 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
91378212 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:91379358 original size:21 final size:21
Alignment explanation
Indices: 91379334--91379376 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
91379324 GTTAGTGTTA
91379334 GAATTATGATGTTTTACAATT
1 GAATTATGATGTTTTACAATT
91379355 GAATTATGATGTTTTACAATT
1 GAATTATGATGTTTTACAATT
91379376 G
1 G
91379377 GAATGGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (21 bp):
GAATTATGATGTTTTACAATT
Found at i:91379428 original size:15 final size:15
Alignment explanation
Indices: 91379408--91379464 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
91379398 CGATGAATTT
91379408 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
91379423 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
91379438 ATTGAATTTATATTG
1 ATTGAATTTATATTG
91379453 ATTGAA-TTATAT
1 ATTGAATTTATAT
91379465 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:91379871 original size:23 final size:23
Alignment explanation
Indices: 91379845--91379905 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
91379835 CGGCACTTTA
91379845 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
91379868 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
91379889 TGTGTCGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
91379906 TTTATGTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 26 0.72
22 1 0.03
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:91383645 original size:8 final size:8
Alignment explanation
Indices: 91383632--91383660 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
91383622 TTATGTTTAG
91383632 TATATTAT
1 TATATTAT
91383640 TATATTAT
1 TATATTAT
91383648 TATATTAT
1 TATATTAT
91383656 TATAT
1 TATAT
91383661 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:91383693 original size:5 final size:5
Alignment explanation
Indices: 91383683--91383713 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
91383673 TTATGTTTTA
91383683 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
91383714 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:91386058 original size:49 final size:49
Alignment explanation
Indices: 91386003--91386221 Score: 155
Period size: 50 Copynumber: 4.4 Consensus size: 49
91385993 TTTCGTATTT
*
91386003 TATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG
1 TATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTACTATTTTAG
* * * *
91386052 TATTTTTTTATATTAATTTAGTACAAAACTCTGGTTT----TG-GCCA-TTT-G
1 TA-TTTTTTATATTATTTTAGTACATAA---T-GTTTCAAATGTACTATTTTAG
* * * ** * * * * * *
91386099 TTTTTTTTATTTTATTTTCGTATTTTATTTTTTAAAATATTCTATTTTCG
1 TATTTTTTATATTATTTTAGTA-CATAATGTTTCAAATGTACTATTTTAG
*
91386149 TATTTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG
1 TA--TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTACTATTTTAG
*
91386200 TATTTTTTATATTAATTTAGTA
1 TATTTTTTATATTATTTTAGTA
91386222 AAAAACTCTG
Statistics
Matches: 125, Mismatches: 30, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
43 3 0.02
44 1 0.01
46 17 0.14
47 4 0.03
48 5 0.04
49 25 0.20
50 27 0.22
51 20 0.16
52 18 0.14
53 1 0.01
54 4 0.03
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.60
Consensus pattern (49 bp):
TATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTACTATTTTAG
Found at i:91386153 original size:151 final size:149
Alignment explanation
Indices: 91385666--91386476 Score: 1120
Period size: 151 Copynumber: 5.5 Consensus size: 149
91385656 TATTTTGGTA
* * *
91385666 TTTATTTTATTTACGGATTTTATTTATTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* *
91385731 TTTAGTAC-TAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAAACTCT
* *
91385795 GATTTTGGCC----CTTTT
131 GGTTTTGGCCTTTGTTTTT
* *
91385810 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATAGTA
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTA
* *
91385875 TTTTAGTAGATAATGTTTCAAATGCATTATTTTAGTGTTTTTTTATATTAATTTAGTAAAAAACT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTTATATTAATTTAGTAAAAAACT
*
91385940 CTGGTTTTGGCC-TT-TTGTT
129 CTGGTTTTGGCCTTTGTTTTT
*
91385959 TTTA--TTA--TT--TATTTTATTTTTTAAAATATGCTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
91386018 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATTTAGTACAAAACTC
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTTATATTAATTTAGTAAAAAACTC
91386083 TGGTTTTGGCCATTTGTTTTT
130 TGGTTTTGGCC-TTTGTTTTT
*
91386104 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATTCTATTTTCGTA--TT-TTTTTTATATTAT
1 TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
*
91386166 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAAACTCT
*
91386231 GATTTTGGCCCTTTGTTTTTATT
131 GGTTTTGG-CCTTTG--TTT-TT
* * * *
91386254 ATTTATTCTATTTTCGGATTTTATTTTTTAAAATATCCTATTTTCGGATTTTA-TTTTTATATTA
1 -TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
* * * *
91386318 TTTTAGTATATAATGTTTTCAAATATATAATTTTAGTTTTTTTTATATTAATTTAGTAAAGAACT
65 TTTTAGTACATAATG-TTTCAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAAACT
*
91386383 CTGGTTTTGGCCCTTTGTTCTTA
129 CTGGTTTTGG-CCTTTGTT-TTT
* *
91386406 TTT-TTTTATTTTCGTATTTTATTTTTTAAAAATAAACTATTTTTGTATTTTA-TTTTTATATTA
1 TTTATTTTATTTTCGTATTTTATTTTTT-AAAATATACTATTTTCGTATTTTATTTTTTATATTA
91386469 TTTTAGTA
65 TTTTAGTA
91386477 AAAAACCCGC
Statistics
Matches: 602, Mismatches: 40, Indels: 43
0.88 0.06 0.06
Matches are distributed among these distances:
142 84 0.14
143 35 0.06
144 51 0.08
145 29 0.05
146 24 0.04
147 83 0.14
148 50 0.08
149 14 0.02
150 24 0.04
151 116 0.19
152 3 0.00
153 28 0.05
154 61 0.10
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (149 bp):
TTTATTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAAACTCT
GGTTTTGGCCTTTGTTTTT
Found at i:91386275 original size:25 final size:25
Alignment explanation
Indices: 91386247--91386321 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 25
91386237 GGCCCTTTGT
91386247 TTTTATTATTTAT-TCTATTTTCGGA
1 TTTTATT-TTTATATCTATTTTCGGA
91386272 TTTTATTTTTTAAAATATCCTATTTTCGGA
1 TTTTA-TTTTT---ATAT-CTATTTTCGGA
91386302 TTTTATTTTTATAT-TATTTT
1 TTTTATTTTTATATCTATTTT
91386322 AGTATATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
24 6 0.14
25 8 0.18
26 6 0.14
28 2 0.05
29 6 0.14
30 16 0.36
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (25 bp):
TTTTATTTTTATATCTATTTTCGGA
Found at i:91386415 original size:301 final size:293
Alignment explanation
Indices: 91385664--91386476 Score: 1139
Period size: 301 Copynumber: 2.7 Consensus size: 293
91385654 TATATTTTGG
* *
91385664 TATTTATTTTATTTACGGATTTTATTTATTAAAATATACTATTTTCGTATTTTATTTTTTATATT
1 TATTTA-TTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* *
91385729 ATTTTAGTACTAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAAAAACTC
65 ATTTTAGTAATAATGTTTCAAATATATTATTTTAGTTTTTTTTATATTAATTTAGT-AAAAACTC
* *
91385794 TGATTTTGGCCCTTT-TTTTA---TTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTCG
129 TGGTTTTGGCCCTTTGTTTTATTTTTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCG
* * *
91385855 TATTTTATTTTTTTATAGTATTTTAGTAGATAATGTTTCAAATGCATTATTTTAGTGTTTTTTTA
194 TA--TT-TTTTTTTATATTATTTTAGTACATAATGTTTCAAATGCATTATTTTAGTGATTTTTTA
* *
91385920 TATTAATTTAGTAAAAAACTCTGGTTTTGGCCTTTTGT
256 TATTAATTTAGTAAAAAACTCTGATTTTGGCCTTTTAT
*
91385958 T-TTTA-TTA-TTT---ATTTTATTTTTTAAAATATGCTATTTTCGTATTTTATTTTTTATATTA
1 TATTTATTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
91386017 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATTTAGTACAAAACT
66 TTTTAGTA-ATAATGTTTCAAATATATTATTTTAGT-TTTTTTTATATTAATTTAGTA-AAAACT
* * *
91386082 CTGGTTTTGGCCATTTGTTTTTTTTATTTTATTTTCGTATTTTATTTTTTAAAATATTCTATTTT
128 CTGGTTTTGGCCCTTTGTTTTATTT-TTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTT
*
91386147 CGTA-TTTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-ATTTTTTAT
192 CGTATTTTTTTTTATATTATTTTAGTACATAATGTTTCAAATGCATTATTTTAGTGATTTTTTAT
91386210 ATTAATTTAGTAAAAAACTCTGATTTTGGCCCTTTGTTTTTAT
257 ATTAATTTAGTAAAAAACTCTGATTTTGG-CC-----TTTTAT
* *
91386253 TATTTATTCTATTTTCGGATTTTATTTTTTAAAATATCCTATTTTCGGATTTTA-TTTTTATATT
1 TATTTATT-TATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
*
91386317 ATTTTAGTATATAATGTTTTCAAATATATAATTTTAGTTTTTTTTATATTAATTTAGTAAAGAAC
65 ATTTTAGTA-ATAATG-TTTCAAATATATTATTTTAGTTTTTTTTATATTAATTTAGTAAA-AAC
*
91386382 TCTGGTTTTGGCCCTTTGTTCTTATTTTTTTATTTTCGTATTTTATTTTTTAAAAATAAACTATT
127 TCTGGTTTTGGCCCTTTGTT-TTATTTTTTTATTTTCGTATTTTATTTTTT-AAAATATACTATT
*
91386447 TTTGTATTTTATTTTTATATTATTTTAGTA
190 TTCGTATTTT-TTTTTATATTATTTTAGTA
91386477 AAAAACCCGC
Statistics
Matches: 465, Mismatches: 27, Indels: 44
0.87 0.05 0.08
Matches are distributed among these distances:
287 54 0.12
288 26 0.06
289 75 0.16
290 54 0.12
291 4 0.01
293 4 0.01
294 42 0.09
295 6 0.01
296 4 0.01
297 1 0.00
298 2 0.00
299 3 0.01
300 2 0.00
301 92 0.20
302 74 0.16
303 3 0.01
304 19 0.04
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (293 bp):
TATTTATTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTAATAATGTTTCAAATATATTATTTTAGTTTTTTTTATATTAATTTAGTAAAAACTCTG
GTTTTGGCCCTTTGTTTTATTTTTTTATTTTCGTATTTTATTTTTTAAAATATACTATTTTCGTA
TTTTTTTTTATATTATTTTAGTACATAATGTTTCAAATGCATTATTTTAGTGATTTTTTATATTA
ATTTAGTAAAAAACTCTGATTTTGGCCTTTTAT
Found at i:91386940 original size:27 final size:27
Alignment explanation
Indices: 91386910--91386965 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
91386900 TAATAATAAC
91386910 AATTAA-AA-TAAATAATTTATTTCCTTA
1 AATTAACAACTAAA-AA-TTATTTCCTTA
91386937 AATTAACAACTAAAAATTATTTCCTTA
1 AATTAACAACTAAAAATTATTTCCTTA
91386964 AA
1 AA
91386966 AAAAATTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 19 0.70
28 4 0.15
29 4 0.15
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (27 bp):
AATTAACAACTAAAAATTATTTCCTTA
Found at i:91387017 original size:20 final size:19
Alignment explanation
Indices: 91386994--91387037 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
91386984 CTTCCCTCCC
91386994 TCTTCTTCTCCTTCTCTTTT
1 TCTTCTTCTCCTTCT-TTTT
* **
91387014 TCTTTTTCTTTTTCTTTTT
1 TCTTCTTCTCCTTCTTTTT
91387033 TCTTC
1 TCTTC
91387038 CCTCACCGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCTTCTCCTTCTTTTT
Found at i:91387025 original size:5 final size:6
Alignment explanation
Indices: 91387008--91387032 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
91386998 CTTCTCCTTC
91387008 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
91387033 TCTTCCCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:91387293 original size:19 final size:18
Alignment explanation
Indices: 91387265--91387300 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
91387255 TACCCTTGTT
91387265 TTATTATTTTTTTGACCTA
1 TTATTATTTTTTT-ACCTA
*
91387284 TTATTTTTTTTTTACCT
1 TTATTATTTTTTTACCT
91387301 GTACATGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTATTTTTTTACCTA
Found at i:91387774 original size:15 final size:17
Alignment explanation
Indices: 91387756--91387796 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
91387746 GTTTTTTAGG
91387756 TTTTAGGGTT-AGGTTT
1 TTTTAGGGTTAAGGTTT
*
91387772 TTTTA-AGTTAAGG-TT
1 TTTTAGGGTTAAGGTTT
91387787 TTTTAGGGTT
1 TTTTAGGGTT
91387797 TTAGGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (17 bp):
TTTTAGGGTTAAGGTTT
Found at i:91388726 original size:127 final size:127
Alignment explanation
Indices: 91388513--91388751 Score: 327
Period size: 127 Copynumber: 1.9 Consensus size: 127
91388503 CGATCAGATG
* * * * * **
91388513 TTTCTGAACAAATATTGTCGAATAACGCTTCAAGCAATATGCATTGTCAACAAAATTTCTGGAAA
1 TTTCTGAACAAATAGTATCGAATAACGCTTCAAACAAGATGCACTGTCAACAAAATTTCTAAAAA
91388578 AAGCTCCCACATGGACACTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTTTGAGTAGACA
66 AAGCTCCCACATGGACACTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTTTGAGTAGACA
* * * * *
91388640 TTTCTGAACAAATAGTATTGAA-AATGCTTCAAACAGGATGCACTGTCAGCAAAATTTTTAAAAA
1 TTTCTGAACAAATAGTATCGAATAACGCTTCAAACAAGATGCACTGTCAACAAAATTTCT-AAAA
* * *
91388704 AAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAAAAT
65 AAAGCTCCCACATGGACACTCTTTTGCTACAGTAGTTCGTAGAAAAAT
91388752 GAGGCTATAA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
126 30 0.31
127 66 0.69
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (127 bp):
TTTCTGAACAAATAGTATCGAATAACGCTTCAAACAAGATGCACTGTCAACAAAATTTCTAAAAA
AAGCTCCCACATGGACACTCTTTTGCTACAGTAGTTCGTAGAAAAATAATTTTGAGTAGACA
Found at i:91391262 original size:47 final size:47
Alignment explanation
Indices: 91391132--91391303 Score: 168
Period size: 47 Copynumber: 3.6 Consensus size: 47
91391122 ATAGTAAAAC
* * * *
91391132 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTACACAGTAG-CACATATCAC--ACCGATGCCATATCCCAGA
* * * * *
91391181 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCATA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* *
91391227 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
* * *
91391274 TATGGTCTTTATACGGAAGCACATATCACA
1 TATGGTC-TTACACAGTAGCACATATCACA
91391304 TTTCTCCGAA
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
46 25 0.25
47 35 0.34
48 30 0.29
49 12 0.12
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
TATGGTCTTACACAGTAGCACATATCACACCGATGCCATATCCCAGA
Found at i:91391350 original size:53 final size:49
Alignment explanation
Indices: 91391150--91391343 Score: 184
Period size: 47 Copynumber: 4.0 Consensus size: 49
91391140 TGCACATAGT
* ** * *
91391150 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * *
91391198 CACATATCACACT--GATGCCATATCCCATATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
91391245 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTC-TTATACGGAAG
* *
91391293 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
91391344 ATCACATTTC
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
46 24 0.20
47 33 0.28
48 31 0.26
49 1 0.01
52 10 0.08
53 21 0.17
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:91391356 original size:53 final size:53
Alignment explanation
Indices: 91391214--91391357 Score: 140
Period size: 53 Copynumber: 2.8 Consensus size: 53
91391204 TCACACTGAT
* * * * *
91391214 GCCATATCCCATATATGGTC-TTATACAGTAGCACATATCACA-----CCGAT
1 GCCATAGCCCAGATATGGTCTTTATACGGAAGCACATATCACATTTCTCCGAA
* *
91391261 GCCATATCCCGGATATGGTCTTTATACGGAAGCACATATCACATTTCTCCGAA
1 GCCATAGCCCAGATATGGTCTTTATACGGAAGCACATATCACATTTCTCCGAA
* * *
91391314 GCCATAGCCCAGCTATGGTC-TTATACGGAAATCACATTTCACAT
1 GCCATAGCCCAGATATGGTCTTTATACGG-AAGCACATATCACAT
91391358 GCTGCCATGG
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
47 18 0.22
48 20 0.25
52 8 0.10
53 34 0.43
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (53 bp):
GCCATAGCCCAGATATGGTCTTTATACGGAAGCACATATCACATTTCTCCGAA
Found at i:91396569 original size:7 final size:7
Alignment explanation
Indices: 91396559--91396601 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
91396549 CATAATGCAT
91396559 AATACTA
1 AATACTA
91396566 AATACTA
1 AATACTA
91396573 AATACTA
1 AATACTA
91396580 AATACTA
1 AATACTA
*
91396587 AATACAA
1 AATACTA
91396594 AATGACTA
1 AAT-ACTA
91396602 TTTTATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
7 30 0.91
8 3 0.09
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (7 bp):
AATACTA
Found at i:91396570 original size:21 final size:21
Alignment explanation
Indices: 91396546--91396597 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
91396536 TATTACTTAT
91396546 ATACATAATGC-ATAATACTAA
1 ATACATAATGCTA-AATACTAA
*
91396567 ATAC-TAAATACTAAATACTAA
1 ATACAT-AATGCTAAATACTAA
*
91396588 ATACAAAATG
1 ATACATAATG
91396598 ACTATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (21 bp):
ATACATAATGCTAAATACTAA
Found at i:91397242 original size:15 final size:15
Alignment explanation
Indices: 91397222--91397260 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
91397212 CAGTAGATGA
91397222 TGCGGACCCGGTGAC
1 TGCGGACCCGGTGAC
91397237 TGCGGACCCGGTGAC
1 TGCGGACCCGGTGAC
*
91397252 TGCGTACCC
1 TGCGGACCC
91397261 ATCTACCGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.36, G:0.36, T:0.15
Consensus pattern (15 bp):
TGCGGACCCGGTGAC
Found at i:91397630 original size:49 final size:49
Alignment explanation
Indices: 91397576--91397711 Score: 138
Period size: 48 Copynumber: 2.8 Consensus size: 49
91397566 ATGCAAACAT
*
91397576 CATAAAGGAAAAAAAAAAT-AAAGCAGTATTG-AAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAAAAATCAAA-CAGTATTGCAAATT-TAATTA-AATTTG
* * *
91397625 CATAAATG-AATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
* * * *
91397673 CATAAAT-TAAAAAAATATCAAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAAAAATCAAACAGTATTGCAAATTTAA
91397712 AATTATCACT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
47 2 0.03
48 60 0.78
49 15 0.19
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (49 bp):
CATAAATGAAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
Found at i:91397665 original size:48 final size:47
Alignment explanation
Indices: 91397600--91397711 Score: 163
Period size: 48 Copynumber: 2.3 Consensus size: 47
91397590 AAAATAAAGC
*
91397600 AGTATTGAAATTGTAATTATAA-TTGCATAAATGAATAAAATATCAAAT
1 AGTATTGAAATT-TAATTA-AATTTGCATAAATGAAAAAAATATCAAAT
*
91397648 AGTATTGCAAATTTAATTAAATTTGCATAAATTAAAAAAATATCAAAT
1 AGTATTG-AAATTTAATTAAATTTGCATAAATGAAAAAAATATCAAAT
91397696 AGTATTGAAAATTTAA
1 AGTATTG-AAATTTAA
91397712 AATTATCACT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
47 2 0.03
48 52 0.88
49 5 0.08
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (47 bp):
AGTATTGAAATTTAATTAAATTTGCATAAATGAAAAAAATATCAAAT
Found at i:91402099 original size:69 final size:69
Alignment explanation
Indices: 91401981--91402188 Score: 265
Period size: 69 Copynumber: 3.0 Consensus size: 69
91401971 TGTATCATCT
* * * * * * *
91401981 TACAATTAAATACAAAAAGTTATATTACTCCACCACCACATCCAATTACACATATAAAAAGTGAC
1 TACAATTACATATAAAAAGTGATATTAGTCCACCACCACACCCATTTACACATAAAAAAAGTGAC
91402046 AACC
66 AACC
* * * * *
91402050 TATAATTACATATAAAAAGTGATATTAGTCCATCACCATACCCATTTACACATAGAAAAAGTGTC
1 TACAATTACATATAAAAAGTGATATTAGTCCACCACCACACCCATTTACACATAAAAAAAGTGAC
91402115 AACC
66 AACC
* *
91402119 TACAATTACATATAAAAAGTTG-TATTAGTTCACCACCACACGCATTTACACATAAAACAAAGTG
1 TACAATTACATATAAAAAG-TGATATTAGTCCACCACCACACCCATTTACACATAAAA-AAAGTG
91402183 ACAACC
64 ACAACC
91402189 CTTTATGGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
69 106 0.89
70 13 0.11
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (69 bp):
TACAATTACATATAAAAAGTGATATTAGTCCACCACCACACCCATTTACACATAAAAAAAGTGAC
AACC
Found at i:91410224 original size:13 final size:13
Alignment explanation
Indices: 91410206--91410232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91410196 GATCTCTCAT
91410206 TATGTATTTGATC
1 TATGTATTTGATC
91410219 TATGTATTTGATC
1 TATGTATTTGATC
91410232 T
1 T
91410233 TTGGTGAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TATGTATTTGATC
Found at i:91419508 original size:3 final size:3
Alignment explanation
Indices: 91419500--91419527 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
91419490 TTAATAACAG
91419500 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
91419528 TATTCTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:91423037 original size:21 final size:21
Alignment explanation
Indices: 91423011--91423056 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
91423001 ATCTAACGTG
91423011 GCAAGTTAACTGGCCACATCA
1 GCAAGTTAACTGGCCACATCA
*
91423032 GCAAGTTAACTTGCCACATCA
1 GCAAGTTAACTGGCCACATCA
91423053 GCAA
1 GCAA
91423057 TCTCGTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (21 bp):
GCAAGTTAACTGGCCACATCA
Found at i:91423154 original size:30 final size:31
Alignment explanation
Indices: 91423085--91423154 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
91423075 AGAATCTGTT
*
91423085 AATTAGTGACTGTTTTGTCTCTTTTTTATAA
1 AATTAGTGACTGTTTTGTCTATTTTTTATAA
**
91423116 CGTTAGTGACTGTTTTGT-TATTTTTTA-AA
1 AATTAGTGACTGTTTTGTCTATTTTTTATAA
91423145 AATTGAGTGA
1 AATT-AGTGA
91423155 TTGAAATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 4 0.12
30 13 0.39
31 16 0.48
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.51
Consensus pattern (31 bp):
AATTAGTGACTGTTTTGTCTATTTTTTATAA
Found at i:91425844 original size:14 final size:14
Alignment explanation
Indices: 91425825--91425867 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
91425815 CTTTGTTTCT
*
91425825 TTTTTTTTCTTTTA
1 TTTTTTTTATTTTA
91425839 TTTTTTTTATTTT-
1 TTTTTTTTATTTTA
*
91425852 TTTGTTTTATTGTTA
1 TTTTTTTTATT-TTA
91425867 T
1 T
91425868 ATAATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.40
14 14 0.56
15 1 0.04
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (14 bp):
TTTTTTTTATTTTA
Found at i:91425881 original size:5 final size:5
Alignment explanation
Indices: 91425871--91425901 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
91425861 TTGTTATATA
91425871 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
91425902 ATTATTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:91426435 original size:19 final size:20
Alignment explanation
Indices: 91426413--91426452 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
91426403 ATTTTAATAT
*
91426413 ATGTATATCA-TTTTACCAC
1 ATGTATATCACTATTACCAC
*
91426432 ATGTATTTCACTATTACCAC
1 ATGTATATCACTATTACCAC
91426452 A
1 A
91426453 CACTTGCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (20 bp):
ATGTATATCACTATTACCAC
Found at i:91429539 original size:6 final size:6
Alignment explanation
Indices: 91429530--91429556 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
91429520 AAGGGGAATT
91429530 AGGGGA AGGGGA AGGGGA AGGGGA AGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGG
91429557 AGAAAGCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:91431002 original size:20 final size:19
Alignment explanation
Indices: 91430979--91431026 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
91430969 AAAATTACAA
91430979 AAAATAAATTAAAATAATTC
1 AAAATAAATTAAAA-AATTC
**
91430999 AAAATAAATTTTAAAATTC
1 AAAATAAATTAAAAAATTC
91431018 AAAATAAAT
1 AAAATAAAT
91431027 ATTTATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATAAATTAAAAAATTC
Found at i:91431018 original size:19 final size:20
Alignment explanation
Indices: 91430979--91431031 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
91430969 AAAATTACAA
**
91430979 AAAATAAATTAAAATAATTC
1 AAAATAAATTTTAATAATTC
91430999 AAAATAAATTTTAA-AATTC
1 AAAATAAATTTTAATAATTC
91431018 AAAATAAATATTTA
1 AAAATAAAT-TTTA
91431032 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAAATTTTAATAATTC
Found at i:91431092 original size:15 final size:15
Alignment explanation
Indices: 91431050--91431092 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
91431040 AAGCATATTT
91431050 TATATTTTTAAATATA
1 TATATTTTT-AATATA
* *
91431066 TATAATTCTAATATA
1 TATATTTTTAATATA
91431081 TATATTTTTAAT
1 TATATTTTTAAT
91431093 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTTTTAATATA
Found at i:91433002 original size:11 final size:11
Alignment explanation
Indices: 91432986--91433010 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
91432976 ATTACAGTAA
91432986 AAAAAAAAAAG
1 AAAAAAAAAAG
91432997 AAAAAAAAAAG
1 AAAAAAAAAAG
91433008 AAA
1 AAA
91433011 TACAGTTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:91437140 original size:39 final size:39
Alignment explanation
Indices: 91437054--91437182 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 39
91437044 GGGACTTTAA
* * * * *
91437054 GCCCGGATATAATACCCGCAC-AAGGCCTGCGGGACTTTA
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTG
*
91437093 GCCCGGATATAACATCAGCACGAATGCCTTCGGGACTTG
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
*
91437132 GCCTGGATATAACACCAGCACGAATGCCTTCGGGACTTG
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
*
91437171 GCCCGAATATAA
1 GCCCGGATATAA
91437183 TTCTCCATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 67 0.85
40 12 0.15
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (39 bp):
GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
Found at i:91439807 original size:2 final size:2
Alignment explanation
Indices: 91439800--91439877 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
91439790 GTATTAGCAT
91439800 CA CA CA CA 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 CA CA CA CA
91439842 CA 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 CA
91439878 TATATATATA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:91440062 original size:26 final size:26
Alignment explanation
Indices: 91440023--91440072 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
91440013 ACAAAAATTC
91440023 CTTCTGAAATTAAACCGT-CACATATA
1 CTTCTGAAATTAAA-CGTACACATATA
91440049 CTTCTGAAGA-TAAACGTACACATA
1 CTTCTGAA-ATTAAACGTACACATA
91440073 GAATGCCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.14
26 18 0.82
27 1 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (26 bp):
CTTCTGAAATTAAACGTACACATATA
Found at i:91442622 original size:39 final size:39
Alignment explanation
Indices: 91442536--91442664 Score: 161
Period size: 39 Copynumber: 3.3 Consensus size: 39
91442526 GGGACTTTAA
* * * * *
91442536 GCCCGGATATAATACCCGCAC-AAGGCCTGCGGGACTTTA
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTG
*
91442575 GCCCGGATATAACATCAGCACGAATGCCTTCGGGACTTG
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
* *
91442614 GCCTGGATATAACACCAGCACGAATGCCTTCAGGACTTG
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
*
91442653 GCCCGAATATAA
1 GCCCGGATATAA
91442665 TTCTCCATTA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 66 0.85
40 12 0.15
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (39 bp):
GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTG
Found at i:91445256 original size:51 final size:50
Alignment explanation
Indices: 91445201--91445329 Score: 152
Period size: 51 Copynumber: 2.6 Consensus size: 50
91445191 CAAAACACCA
91445201 TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATA-ACACT
1 TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATATA-A-T
* * * * *
91445252 TTTGTGAACAAGCCACCATTGAATTGCAGATATACTACTACTGATATAAT
1 TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATATAAT
* * * *
91445302 TTTATGGACATGCCACCACTAATTTGCA
1 TTTGTGAACAAGCCACCACTGATTTGCA
91445330 GATATATTGC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 23 0.35
51 42 0.64
52 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (50 bp):
TTTGTGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATATAAT
Found at i:91445330 original size:50 final size:51
Alignment explanation
Indices: 91445205--91445344 Score: 151
Period size: 51 Copynumber: 2.8 Consensus size: 51
91445195 ACACCATTTG
* * * *
91445205 TGAACAAGCCACCACTGATTTGCAAATAAACTACCACTGATAACACTTTTG
1 TGAACAAGCCACCACTAATTTGCAGATATACTACCACTGATAACACTTTTA
* *
91445256 TGAACAAGCCACCATTGAA-TTGCAGATATACTACTACTGATATA-A-TTTTA
1 TGAACAAGCCACCACT-AATTTGCAGATATACTACCACTGATA-ACACTTTTA
* * * *
91445306 TGGACATGCCACCACTAATTTGCAGATATATTGCCACTG
1 TGAACAAGCCACCACTAATTTGCAGATATACTACCACTG
91445345 CTTCCACCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
49 2 0.03
50 34 0.46
51 36 0.49
52 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (51 bp):
TGAACAAGCCACCACTAATTTGCAGATATACTACCACTGATAACACTTTTA
Found at i:91452892 original size:68 final size:68
Alignment explanation
Indices: 91452820--91453043 Score: 263
Period size: 68 Copynumber: 3.2 Consensus size: 68
91452810 CATCATGTGT
* * **
91452820 ACAAGAAAGCTACGAGACACCATGTA-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGAGCTACGAGA-AACATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
91452884 GTAG
65 GTAG
* *
91452888 ACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
1 ACAAGAGAGCTACGAGAAACATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
91452953 TAG
66 TAG
* * * * * * * *
91452956 ACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA-CAC
1 ACAAGAGAGCTACGAGAAACATAAATGTAGCTAGGTCACATGTGTGA-T--ACGGGATGTATC-C
91453020 CATGTAG
62 CATGTAG
91453027 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
91453044 CAAATCGGCT
Statistics
Matches: 138, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
67 4 0.03
68 102 0.74
69 1 0.01
70 1 0.01
71 30 0.22
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAAACATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:91454811 original size:36 final size:36
Alignment explanation
Indices: 91454770--91454841 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
91454760 AAAATCAATT
91454770 GAACTTTCAAACCATTGTTTATTGAAACTTGACCAA
1 GAACTTTCAAACCATTGTTTATTGAAACTTGACCAA
91454806 GAACTTTCAAACCATTGTTTATTGAAACTTGACCAA
1 GAACTTTCAAACCATTGTTTATTGAAACTTGACCAA
91454842 TGAGAAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (36 bp):
GAACTTTCAAACCATTGTTTATTGAAACTTGACCAA
Found at i:91456994 original size:8 final size:9
Alignment explanation
Indices: 91456979--91457004 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
91456969 CAACTCATAG
91456979 ATTTTTTTT
1 ATTTTTTTT
91456988 ATTTTTTTT
1 ATTTTTTTT
91456997 ATTTTTTT
1 ATTTTTTT
91457005 CGTATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:91457010 original size:20 final size:19
Alignment explanation
Indices: 91456979--91457017 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 19
91456969 CAACTCATAG
91456979 ATTTTTTTTATTTT-TTTT
1 ATTTTTTTTATTTTCTTTT
91456997 ATTTTTTTCGTATTTTCTTTT
1 ATTTTTTT--TATTTTCTTTT
91457018 TCTTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (19 bp):
ATTTTTTTTATTTTCTTTT
Found at i:91457422 original size:16 final size:17
Alignment explanation
Indices: 91457396--91457429 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
91457386 AAAACAATTA
91457396 AAATAAATAAATAAAAT
1 AAATAAATAAATAAAAT
*
91457413 AAAT-AATAAATCAAAT
1 AAATAAATAAATAAAAT
91457429 A
1 A
91457430 TTAGAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAATAAATAAAAT
Found at i:91458216 original size:14 final size:14
Alignment explanation
Indices: 91458197--91458225 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
91458187 GCAAGTCTGT
91458197 TGATTTCTCAAGTC
1 TGATTTCTCAAGTC
91458211 TGATTTCTCAAGTC
1 TGATTTCTCAAGTC
91458225 T
1 T
91458226 AAAAATTGGC
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:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (14 bp):
TGATTTCTCAAGTC
Found at i:91467853 original size:35 final size:34
Alignment explanation
Indices: 91467774--91467855 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
91467764 AATTTTTTTA
*
91467774 AATTAAATTTTTTATATTTTTATACTTTTTAAAT
1 AATTCAATTTTTTATATTTTTATACTTTTTAAAT
* * *
91467808 AATTCTATTTTTTAATATTTTTATAATTTTTTGAAT
1 AATTCAATTTTTT-ATATTTTTAT-ACTTTTTAAAT
*
91467844 -TTTCAATTTTTT
1 AATTCAATTTTTT
91467856 TTAAAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 11 0.28
35 20 0.50
36 9 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (34 bp):
AATTCAATTTTTTATATTTTTATACTTTTTAAAT
Found at i:91468379 original size:16 final size:17
Alignment explanation
Indices: 91468349--91468381 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91468339 TAACTAATTA
*
91468349 AAATTTAATTAATTTTC
1 AAATTAAATTAATTTTC
91468366 AAATTAAATT-ATTTTC
1 AAATTAAATTAATTTTC
91468382 TCAATCCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTAAATTAATTTTC
Found at i:91469920 original size:3 final size:3
Alignment explanation
Indices: 91469912--91469946 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
91469902 TCTTAATTAA
91469912 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
91469947 ACATCTTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:91492693 original size:16 final size:17
Alignment explanation
Indices: 91492669--91492701 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
91492659 TTATTAAGAT
91492669 TTTATAATATTAATTAA
1 TTTATAATATTAATTAA
*
91492686 TTTA-AATATTATTTAA
1 TTTATAATATTAATTAA
91492702 ATGTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATAATATTAATTAA
Found at i:91493975 original size:27 final size:28
Alignment explanation
Indices: 91493922--91493981 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
91493912 TAATTTTATT
** *
91493922 TTTTTATTAAATTACCCTAAAATGCTGA
1 TTTTTATTAAATTACCAGAAAAGGCTGA
*
91493950 TTTTT-TTAAATTACCAGAATAGGCTGA
1 TTTTTATTAAATTACCAGAAAAGGCTGA
91493977 TTTTT
1 TTTTT
91493982 GGAATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (28 bp):
TTTTTATTAAATTACCAGAAAAGGCTGA
Found at i:91494685 original size:73 final size:73
Alignment explanation
Indices: 91494566--91494703 Score: 258
Period size: 73 Copynumber: 1.9 Consensus size: 73
91494556 ACTCGTAACT
*
91494566 GTGTTGGTGGAGAGGTGGAGAATGGGACGCACACATTCTACCTTCCATGCGGTGAGTGTACTATC
1 GTGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTACCTTCCATGCGGTGAGTGTACTATC
91494631 TCATAAGC
66 TCATAAGC
*
91494639 GTGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTATCTTCCATGCGGTGAGTGTACTATC
1 GTGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTACCTTCCATGCGGTGAGTGTACTATC
91494704 ACTCTGGATG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (73 bp):
GTGTTGGTGGAGAGGTGGAGAATGAGACGCACACATTCTACCTTCCATGCGGTGAGTGTACTATC
TCATAAGC
Found at i:91496760 original size:22 final size:23
Alignment explanation
Indices: 91496735--91496780 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
91496725 CAACCAAACC
91496735 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
91496757 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
91496780 A
1 A
91496781 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:91496786 original size:23 final size:23
Alignment explanation
Indices: 91496742--91496786 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
91496732 ACCAATTCAA
*
91496742 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
91496765 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
91496787 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:91502735 original size:28 final size:28
Alignment explanation
Indices: 91502703--91502769 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
91502693 TGTGAATCTT
*** *
91502703 GCACTAAGTGTACGAATTTCGTTATTGA
1 GCACTAAGTGTACGAATTTAAATATCGA
* *
91502731 GCACTAAGTGTGCGAGTTTAAATATCGA
1 GCACTAAGTGTACGAATTTAAATATCGA
91502759 GCACTAAGTGT
1 GCACTAAGTGT
91502770 GCAAACTCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTACGAATTTAAATATCGA
Found at i:91504962 original size:9 final size:9
Alignment explanation
Indices: 91504948--91504977 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
91504938 ACATCAATCT
91504948 ATTATTCGA
1 ATTATTCGA
*
91504957 ATTATTCAA
1 ATTATTCGA
91504966 ATTATTCGA
1 ATTATTCGA
91504975 ATT
1 ATT
91504978 GTAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:91505428 original size:6 final size:7
Alignment explanation
Indices: 91505410--91505436 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
91505400 AGCTCTCATG
91505410 ATTTTTT
1 ATTTTTT
91505417 ATTTTTT
1 ATTTTTT
91505424 ATTTTTT
1 ATTTTTT
91505431 ATTTTT
1 ATTTTT
91505437 GTCAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:91506533 original size:11 final size:11
Alignment explanation
Indices: 91506517--91506566 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
91506507 CAAAATTTGT
91506517 ATAATTATTTA
1 ATAATTATTTA
*
91506528 ATAATTATTAA
1 ATAATTATTTA
91506539 ATAATAATATTTA
1 ATAAT--TATTTA
91506552 AT-A-TATTT-
1 ATAATTATTTA
91506560 ATAATTA
1 ATAATTA
91506567 AATTTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
8 2 0.06
9 6 0.18
10 2 0.06
11 15 0.45
12 1 0.03
13 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATAATTATTTA
Found at i:91506925 original size:24 final size:25
Alignment explanation
Indices: 91506885--91506945 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
91506875 GACGCGACTC
*
91506885 TTTTTTTA-TATTAAAAT-ATATTA
1 TTTTTTTATTTTTAAAATAATATTA
*
91506908 TTTTTTTATTTTTTAAATAAGATATTA
1 TTTTTTTATTTTTAAAAT-A-ATATTA
91506935 -TTTTTTATTTT
1 TTTTTTTATTTT
91506946 CGGATCAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 8 0.25
24 7 0.22
26 11 0.34
27 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTTATTTTTAAAATAATATTA
Found at i:91507015 original size:27 final size:27
Alignment explanation
Indices: 91506980--91507046 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
91506970 ATACGAATAT
* *
91506980 GTTGCGCCTATCTCTGAGGCACGACTA
1 GTTGAGCCTATCTCAGAGGCACGACTA
* *
91507007 GTTGAGCCTTTCTCAGAGGCGCGACTA
1 GTTGAGCCTATCTCAGAGGCACGACTA
* *
91507034 ATTGTGCCTATCT
1 GTTGAGCCTATCT
91507047 TGGAGCCACA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (27 bp):
GTTGAGCCTATCTCAGAGGCACGACTA
Found at i:91507473 original size:20 final size:19
Alignment explanation
Indices: 91507428--91507465 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91507418 CATCCCAACA
*
91507428 CCAGAAAAGTAAATTATTT
1 CCAGAAAAGTAAATCATTT
91507447 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
91507466 TCTAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:91508484 original size:28 final size:27
Alignment explanation
Indices: 91508452--91508516 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
91508442 TTTAAATATT
*
91508452 TTTAATAAAAATAAAAAATAATATTTTA
1 TTTAA-AAAAACAAAAAATAATATTTTA
* *
91508480 TTTAAAAAACCCAAAAATAATATTTTAA
1 TTTAAAAAAACAAAAAATAATATTTT-A
*
91508508 TATAAAAAA
1 TTTAAAAAA
91508517 GAGTCGCGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (27 bp):
TTTAAAAAAACAAAAAATAATATTTTA
Found at i:91509617 original size:21 final size:20
Alignment explanation
Indices: 91509593--91509631 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
91509583 ATCTCACTCG
* *
91509593 ATTTGACTCGACTCGAATTTT
1 ATTTCACTCAACTC-AATTTT
91509614 ATTTCACTCAACTCAATT
1 ATTTCACTCAACTCAATT
91509632 CGAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (20 bp):
ATTTCACTCAACTCAATTTT
Found at i:91512356 original size:21 final size:21
Alignment explanation
Indices: 91512332--91512371 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
91512322 AAGGTTGAAA
*
91512332 CTAGCCTTGATGGGTTAGATG
1 CTAGCCTTAATGGGTTAGATG
**
91512353 CTAGGGTTAATGGGTTAGA
1 CTAGCCTTAATGGGTTAGA
91512372 GTCTGGGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.35, T:0.33
Consensus pattern (21 bp):
CTAGCCTTAATGGGTTAGATG
Found at i:91521128 original size:18 final size:17
Alignment explanation
Indices: 91521105--91521138 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
91521095 AGTAAGGTGG
91521105 GAAAAAAATTAGAAAGAT
1 GAAAAAAA-TAGAAAGAT
91521123 GAAAAAAATAGAAAGA
1 GAAAAAAATAGAAAGA
91521139 AAGATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (17 bp):
GAAAAAAATAGAAAGAT
Found at i:91522446 original size:29 final size:31
Alignment explanation
Indices: 91522414--91522474 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
91522404 AAACCTCTTT
91522414 ACTTTCCCT-CAAAACTTTTAC-TCCCTCCC
1 ACTTTCCCTCCAAAACTTTTACTTCCCTCCC
*
91522443 ACTTTCCCTCCAAAACTTTTACTTTCCTCCC
1 ACTTTCCCTCCAAAACTTTTACTTCCCTCCC
91522474 A
1 A
91522475 TCCCACCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.31
30 12 0.41
31 8 0.28
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (31 bp):
ACTTTCCCTCCAAAACTTTTACTTCCCTCCC
Found at i:91526892 original size:60 final size:60
Alignment explanation
Indices: 91526799--91526919 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
91526789 AGAAAAATAA
91526799 TAATATATACTCAAAATAAATCACTTAATTAATTTCTATATGCTAGCTATAGATTCAAAC
1 TAATATATACTCAAAATAAATCACTTAATTAATTTCTATATGCTAGCTATAGATTCAAAC
91526859 TAATATATACTCAAAATAAATCACTTAATTAATTTCTATATGCTAGCTATAGATTCAAAC
1 TAATATATACTCAAAATAAATCACTTAATTAATTTCTATATGCTAGCTATAGATTCAAAC
91526919 T
1 T
91526920 TAAATAGTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (60 bp):
TAATATATACTCAAAATAAATCACTTAATTAATTTCTATATGCTAGCTATAGATTCAAAC
Done.