Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 165 of 427
Found at i:45884657 original size:86 final size:85
Alignment explanation
Indices: 45884497--45884657 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
45884487 AGAAATCTCG
* * *
45884497 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACA
45884562 GGGTCTTACATGAAATTAAA
66 GGGTCTTACATGAAATTAAA
* * * *
45884582 TACAATGCTAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCTAG
1 TACAATGCCAACGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAG
45884645 AC-GTGGTCTTACA
63 ACAG-GGTCTTACA
45884658 CGATAACACA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 31 0.48
86 30 0.46
87 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (85 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACA
GGGTCTTACATGAAATTAAA
Found at i:45885461 original size:31 final size:31
Alignment explanation
Indices: 45885425--45885488 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
45885415 TGCTGAGTCT
45885425 AAAACGAAATAGGAGAGTTGAAAACTAACAA
1 AAAACGAAATAGGAGAGTTGAAAACTAACAA
45885456 AAAACGAAATAGGAGAGTTGAAAACTAACAA
1 AAAACGAAATAGGAGAGTTGAAAACTAACAA
45885487 AA
1 AA
45885489 TGTTATAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.59, C:0.09, G:0.19, T:0.12
Consensus pattern (31 bp):
AAAACGAAATAGGAGAGTTGAAAACTAACAA
Found at i:45887910 original size:39 final size:39
Alignment explanation
Indices: 45887838--45888112 Score: 453
Period size: 39 Copynumber: 7.1 Consensus size: 39
45887828 AATTTTATTA
*
45887838 CCAGCACAAAGCCTG-GGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
45887876 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * *
45887915 CCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
45887954 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
45887993 CCAGCACAAAGCCTACGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * *
45888032 CCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
45888071 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
45888110 CCA
1 CCA
45888113 TACACATTTC
Statistics
Matches: 220, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
38 15 0.07
39 205 0.93
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
Found at i:45888059 original size:117 final size:117
Alignment explanation
Indices: 45887833--45888112 Score: 517
Period size: 117 Copynumber: 2.4 Consensus size: 117
45887823 CCCGAAATTT
* *
45887833 TATTACCAGCACAAAGCCTG-GGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTGCGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTACGGGTC
45887897 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
45887949 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTACGGGTC
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTACGGGTC
45888014 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
66 TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
* *
45888066 TATTTCCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTTCCA
1 TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
45888113 TACACATTTC
Statistics
Matches: 159, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
116 19 0.12
117 140 0.88
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (117 bp):
TATTTCCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACAAAGCCTACGGGTC
TTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATA
Found at i:45891828 original size:17 final size:17
Alignment explanation
Indices: 45891788--45891835 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
45891778 TTTTTCAACT
*
45891788 TTCTTTTCGTTCTCACA
1 TTCTTTTCGCTCTCACA
*
45891805 TTTTTTTCGCTCTCA-A
1 TTCTTTTCGCTCTCACA
*
45891821 TCTCTTTTTGCTCTC
1 T-TCTTTTCGCTCTC
45891836 TTTCGTTCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 2 0.08
17 24 0.92
ACGTcount: A:0.08, C:0.29, G:0.06, T:0.56
Consensus pattern (17 bp):
TTCTTTTCGCTCTCACA
Found at i:45894594 original size:40 final size:39
Alignment explanation
Indices: 45894511--45894701 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
45894501 TCGAATGATG
* * * * *
45894511 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
45894551 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
45894591 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
45894630 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** *
45894671 -CCGGGCTTCGTCCCGAAGGCATT-GAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
45894702 CGTTATATCC
Statistics
Matches: 124, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 40 0.32
40 75 0.60
41 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:45894651 original size:79 final size:82
Alignment explanation
Indices: 45894511--45894693 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 82
45894501 TCGAATGATG
* * *
45894511 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
45894575 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
45894591 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
45894653 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
45894671 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
45894694 GAGCGAGTCG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:45906417 original size:40 final size:40
Alignment explanation
Indices: 45906251--45906417 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
45906241 CATTTGAATG
* * * *
45906251 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
45906291 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
45906331 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
45906371 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
45906411 GTATCCG
1 ATATCCG
45906418 TTTAAATCCC
Statistics
Matches: 100, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.03
40 93 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:45910071 original size:2 final size:2
Alignment explanation
Indices: 45910064--45910101 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
45910054 ATTTAACCAA
45910064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45910102 CAAGACATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45912296 original size:17 final size:17
Alignment explanation
Indices: 45912271--45912303 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45912261 TCCCATTTCC
45912271 ACTCCGGAATCATAATT
1 ACTCCGGAATCATAATT
*
45912288 ACTCTGGAATCATAAT
1 ACTCCGGAATCATAAT
45912304 CGGTTGTACT
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:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (17 bp):
ACTCCGGAATCATAATT
Found at i:45917288 original size:25 final size:25
Alignment explanation
Indices: 45917241--45917291 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45917231 CTCTTATAAT
* **
45917241 GTGAAAATGACCATTTTGTCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
*
45917266 GTGAAAATTACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
45917291 G
1 G
45917292 GATATGCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:45917357 original size:11 final size:10
Alignment explanation
Indices: 45917334--45917369 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
45917324 ATTTGTACAC
45917334 GATATGCCAT
1 GATATGCCAT
45917344 GATATGCACAT
1 GATATGC-CAT
45917355 GATATGCCAT
1 GATATGCCAT
45917365 GATAT
1 GATAT
45917370 ATTCATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (10 bp):
GATATGCCAT
Found at i:45937722 original size:136 final size:136
Alignment explanation
Indices: 45937473--45937752 Score: 533
Period size: 136 Copynumber: 2.1 Consensus size: 136
45937463 ATTTACTTAT
45937473 TCATATTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCATATC
1 TCAT-TTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCATATC
45937538 CCAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAAC
65 CCAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAAC
45937603 ACAAACC
130 ACAAACC
45937610 TCATTTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCATATCC
1 TCATTTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCATATCC
*
45937675 CAATGTACCACAAATAAATGGCATTCATTTTACTAATTAATGCATTACATATTATAACTCAAACA
66 CAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAACA
45937740 CAAACC
131 CAAACC
*
45937746 TTATTTA
1 TCATTTA
45937753 CTCCATAATC
Statistics
Matches: 141, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 137 0.97
137 4 0.03
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (136 bp):
TCATTTAATCAATTATCAAATCCATGTAATCAAACATATCATTATTTTATAACATAAGCATATCC
CAATGTACCACAAATAAATGACATTCATTTTACTAATTAATGCATTACATATTATAACTCAAACA
CAAACC
Found at i:45940371 original size:27 final size:27
Alignment explanation
Indices: 45940333--45940416 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
45940323 ATACATATTT
45940333 TGTAATGGGCTTAGGCCCACCTGATTC
1 TGTAATGGGCTTAGGCCCACCTGATTC
*
45940360 TGTAATGGGCTTAGGCCCACCAGATTC
1 TGTAATGGGCTTAGGCCCACCTGATTC
* *
45940387 TGTTAATGGGCTAAGG-CCACCTGATAC
1 TG-TAATGGGCTTAGGCCCACCTGATTC
45940414 TGT
1 TGT
45940417 GTCTATGATG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 39 0.75
28 12 0.23
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (27 bp):
TGTAATGGGCTTAGGCCCACCTGATTC
Found at i:45948779 original size:40 final size:40
Alignment explanation
Indices: 45948652--45948781 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
45948642 ATGCTGGAAA
* *
45948652 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
45948692 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* * *
45948732 TTCTATCCAGGCTAAGACCCGAAGGCATTCATGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
45948772 TTATATCCGG
1 TTATATCCGG
45948782 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:45951448 original size:27 final size:27
Alignment explanation
Indices: 45951410--45951501 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
45951400 GCATCTGATA
*
45951410 CTGATTCTGTAATGGGCTTAGGCCCAG
1 CTGATTCTGTAATGGGCTTAGGCCCAC
*
45951437 CTGATTCTGTAATAGGCTTAGGCCCAC
1 CTGATTCTGTAATGGGCTTAGGCCCAC
* *
45951464 CAGATTCTGTTAATGGGCTAAGG-CCAC
1 CTGATTCTG-TAATGGGCTTAGGCCCAC
*
45951491 CTGATACTGTA
1 CTGATTCTGTA
45951502 TCTATGATGG
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
26 2 0.04
27 44 0.77
28 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (27 bp):
CTGATTCTGTAATGGGCTTAGGCCCAC
Found at i:45962126 original size:9 final size:9
Alignment explanation
Indices: 45962112--45962157 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
45962102 TATAGTTTGA
45962112 TATTCGAAT
1 TATTCGAAT
*
45962121 TATTCGAGT
1 TATTCGAAT
*
45962130 TATTCAAAT
1 TATTCGAAT
*
45962139 TATTCGAGT
1 TATTCGAAT
45962148 TATTCGAAT
1 TATTCGAAT
45962157 T
1 T
45962158 GAAAAACTCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45962139 original size:18 final size:18
Alignment explanation
Indices: 45962112--45962157 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
45962102 TATAGTTTGA
45962112 TATTCGAATTATTCGAGT
1 TATTCGAATTATTCGAGT
*
45962130 TATTCAAATTATTCGAGT
1 TATTCGAATTATTCGAGT
45962148 TATTCGAATT
1 TATTCGAATT
45962158 GAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (18 bp):
TATTCGAATTATTCGAGT
Found at i:45965218 original size:80 final size:80
Alignment explanation
Indices: 45965134--45965282 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
45965124 TATGGTAACC
* * * *
45965134 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
45965198 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
45965214 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
45965279 CCGG
66 CCGG
45965283 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:45965224 original size:40 final size:38
Alignment explanation
Indices: 45965175--45965282 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
45965165 ATCACGATTT
*
45965175 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
45965215 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
45965255 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
45965283 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:45972199 original size:20 final size:20
Alignment explanation
Indices: 45972176--45972213 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
45972166 CACTCTGTAA
45972176 ATATTTATAAAAATATTTAC
1 ATATTTATAAAAATATTTAC
45972196 ATATTTATAAAAATATTT
1 ATATTTATAAAAATATTT
45972214 CTCGCTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTTATAAAAATATTTAC
Found at i:45978141 original size:93 final size:93
Alignment explanation
Indices: 45978028--45978199 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
45978018 CGCCCATAAG
* * *
45978028 CGAACTCTGACTCAACTCAACGAGATCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45978093 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
*
45978121 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45978186 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
45978200 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:45978196 original size:46 final size:46
Alignment explanation
Indices: 45978021--45978196 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
45978011 TGTAACCCGC
* * * * *
45978021 CCATAAGCGAACTCTGACTCAACTCAACGAGATCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
45978067 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
45978113 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45978160 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45978197 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.61
47 33 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45978215 original size:46 final size:46
Alignment explanation
Indices: 45978029--45978215 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
45978019 GCCCATAAGC
* * ** * *
45978029 GAACTCTGACTCAACTCAACGAGATCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
*
45978075 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * * *
45978122 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
45978168 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
45978214 GA
1 GA
45978216 CATGTCACTT
Statistics
Matches: 112, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 60 0.54
47 31 0.28
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:45980954 original size:40 final size:40
Alignment explanation
Indices: 45980899--45981148 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
45980889 AACATTGGAA
45980899 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45980939 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45980979 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
45981019 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
45981059 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
45981098 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
45981139 CTATATCCGG
1 ATATATCCGG
45981149 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:45996128 original size:40 final size:40
Alignment explanation
Indices: 45996020--45996269 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
45996010 CGGGATTTAA
* * * * *
45996020 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
45996060 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45996100 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45996140 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45996180 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45996220 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
45996260 CCGGATATAT
1 CCGGATATAT
45996270 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46004229 original size:40 final size:40
Alignment explanation
Indices: 46004121--46004370 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
46004111 CGGGATTTAA
* * * * *
46004121 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
46004161 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46004201 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46004241 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46004281 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46004321 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46004361 CCGGATATAT
1 CCGGATATAT
46004371 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46007638 original size:22 final size:22
Alignment explanation
Indices: 46007610--46007657 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
46007600 CACGATTTTT
46007610 TCAAAATGACATACTGAAAGGA
1 TCAAAATGACATACTGAAAGGA
* *
46007632 TCAAAATTACATACTTAAAGGA
1 TCAAAATGACATACTGAAAGGA
46007654 -CAAA
1 TCAAA
46007658 TGGACTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (22 bp):
TCAAAATGACATACTGAAAGGA
Found at i:46009254 original size:27 final size:28
Alignment explanation
Indices: 46009224--46009293 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
46009214 ATAATAAGTC
*
46009224 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
46009251 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
46009279 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46009294 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46017179 original size:27 final size:28
Alignment explanation
Indices: 46017149--46017218 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
46017139 ATAATAAGTC
*
46017149 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
46017176 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
46017204 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46017219 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46026136 original size:22 final size:22
Alignment explanation
Indices: 46026090--46026137 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
46026080 CTCAACGCCA
*
46026090 TAAATAGGACAACACATAACTG
1 TAAATAGGACAACACATAACCG
*
46026112 TAAATAGGACAACACATAGCCG
1 TAAATAGGACAACACATAACCG
46026134 TAAA
1 TAAA
46026138 CATCGCATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.17
Consensus pattern (22 bp):
TAAATAGGACAACACATAACCG
Found at i:46026704 original size:20 final size:20
Alignment explanation
Indices: 46026679--46026726 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
46026669 TCATACAAAT
46026679 CACAGTCACAACAGTCCAAC
1 CACAGTCACAACAGTCCAAC
46026699 CACAGTCACAACAGTCCAAC
1 CACAGTCACAACAGTCCAAC
46026719 CACAGTCA
1 CACAGTCA
46026727 TACATTCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.40, G:0.10, T:0.10
Consensus pattern (20 bp):
CACAGTCACAACAGTCCAAC
Found at i:46026705 original size:11 final size:11
Alignment explanation
Indices: 46026689--46026725 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
46026679 CACAGTCACA
46026689 ACAGTCCAACC
1 ACAGTCCAACC
*
46026700 ACAGT-C-ACA
1 ACAGTCCAACC
46026709 ACAGTCCAACC
1 ACAGTCCAACC
46026720 ACAGTC
1 ACAGTC
46026726 ATACATTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.38, C:0.41, G:0.11, T:0.11
Consensus pattern (11 bp):
ACAGTCCAACC
Found at i:46026905 original size:26 final size:27
Alignment explanation
Indices: 46026845--46026905 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
46026835 TTTCACCCTT
**
46026845 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTACTTTGGTAAATCTACAAAC
* *
46026872 TAAGGGTACTTTGGT-AATTTACAAAC
1 CAAGGGTACTTTGGTAAATCTACAAAC
*
46026898 CAATGGTA
1 CAAGGGTA
46026906 TTTCTGTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (27 bp):
CAAGGGTACTTTGGTAAATCTACAAAC
Found at i:46026959 original size:27 final size:27
Alignment explanation
Indices: 46026902--46027107 Score: 152
Period size: 27 Copynumber: 7.6 Consensus size: 27
46026892 ACAAACCAAT
* *
46026902 GGTATTTCTGTAATTTT-TGAAAGTCAAG
1 GGTATTTCGGTAATTTTAT-AAA-TCAGG
** *
46026930 GGTATTTTTGTAATTTTATAAATTAGG
1 GGTATTTCGGTAATTTTATAAATCAGG
** ** *
46026957 GGTATTTCTATAATTTTCCAAATCATG
1 GGTATTTCGGTAATTTTATAAATCAGG
46026984 GGTATTTCGGTAATTTT-TCAAATCAGG
1 GGTATTTCGGTAATTTTAT-AAATCAGG
* * *
46027011 GGTATTTTGGTAATTTTACAAAT-TGAG
1 GGTATTTCGGTAATTTTATAAATCAG-G
* *
46027038 GGTATTTCGGTAATTTTACAAGTC-GAG
1 GGTATTTCGGTAATTTTATAAATCAG-G
** **
46027065 GGTATTTCAATAATTTTATAGGTC-GAG
1 GGTATTTCGGTAATTTTATAAATCAG-G
46027092 GGTATTTCGGTAATTT
1 GGTATTTCGGTAATTT
46027108 CACAAATTAA
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 128 0.86
28 19 0.13
29 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.44
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTATAAATCAGG
Found at i:46026960 original size:81 final size:81
Alignment explanation
Indices: 46026844--46027249 Score: 267
Period size: 81 Copynumber: 5.1 Consensus size: 81
46026834 ATTTCACCCT
* * * * *
46026844 TCAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTACTTT-GGTAA-TTTACAAACCAAT-GGTA
1 TCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCGGTAATTTTACAAACC-ATGGGTA
* *
46026906 TTTCTGTAATTTTTGAAA
64 TTTCGGTAATTTTTCAAA
* * ** * *
46026924 GTCAAGGGTATTTTTGTAATTTTATAAATT-AGGGGTATTTCTATAATTTTCCAAATCATGGGTA
1 -TCAAGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTTACAAACCATGGGTA
46026988 TTTCGGTAATTTTTCAAA
64 TTTCGGTAATTTTTCAAA
* * *
46027006 TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAGTCGA-GGGTAT
1 TCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAA-ACCATGGGTAT
** **
46027070 TTCAATAATTTTAT-AGG
65 TTCGGTAATTTT-TCAAA
* * * *
46027087 TCGAGGGTATTTCGGTAATTTCACAAATT-A----A----GG-AATTTTACAAACTATGGGTATT
1 TCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCATGGGTATT
* * *
46027142 TTGGTAATTTTGCTAA
66 TCGGTAATTTTTCAAA
* * * * **
46027158 TCGAA-GGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTTTAAACCAAT-GGTA
1 TC-AAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC-ATGGGTA
* *
46027221 -TTCAGTAGTTTTGT-AAA
64 TTTCGGTAATTTT-TCAAA
*
46027238 CCAAGGGTATTT
1 TCAAGGGTATTT
46027250 CAGTAATTCT
Statistics
Matches: 249, Mismatches: 53, Indels: 47
0.71 0.15 0.13
Matches are distributed among these distances:
70 2 0.01
71 46 0.18
72 4 0.02
76 2 0.01
79 2 0.01
80 26 0.10
81 134 0.54
82 33 0.13
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
TCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCATGGGTATT
TCGGTAATTTTTCAAA
Found at i:46026997 original size:54 final size:54
Alignment explanation
Indices: 46026902--46027116 Score: 179
Period size: 54 Copynumber: 4.0 Consensus size: 54
46026892 ACAAACCAAT
* ** **
46026902 GGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTTTTGTAATTTTATAAATTAGG
1 GGTATTTCTATAATTTTACAAAGTC-AGGGTATTTCGGTAATTTTATAAATTAGG
* *
46026957 GGTATTTCTATAATTTTCCAAA-TCATGGGTATTTCGGTAATTTT-TCAAATCAGG
1 GGTATTTCTATAATTTTACAAAGTCA-GGGTATTTCGGTAATTTTAT-AAATTAGG
* * * * * *
46027011 GGTATTT-TGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTA-CAAGTCGAG
1 GGTATTTCT-ATAATTTTACAAAGTCAGGGTATTTCGGTAATTTTATAAATTAG-G
* * * * *
46027065 GGTATTTCAATAATTTTA-TAGGTCGAGGGTATTTCGGTAATTTCACAAATTA
1 GGTATTTCTATAATTTTACAAAGTC-AGGGTATTTCGGTAATTTTATAAATTA
46027117 AGGAATTTTA
Statistics
Matches: 128, Mismatches: 23, Indels: 18
0.76 0.14 0.11
Matches are distributed among these distances:
53 8 0.06
54 96 0.75
55 24 0.19
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (54 bp):
GGTATTTCTATAATTTTACAAAGTCAGGGTATTTCGGTAATTTTATAAATTAGG
Found at i:46027166 original size:27 final size:27
Alignment explanation
Indices: 46027136--46027206 Score: 133
Period size: 27 Copynumber: 2.6 Consensus size: 27
46027126 ACAAACTATG
46027136 GGTATTTTGGTAATTTTGCTAATCGAA
1 GGTATTTTGGTAATTTTGCTAATCGAA
*
46027163 GGTATTTTGGTAATTTTGCTAATCGAG
1 GGTATTTTGGTAATTTTGCTAATCGAA
46027190 GGTATTTTGGTAATTTT
1 GGTATTTTGGTAATTTT
46027207 TTAAACCAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.23, C:0.06, G:0.24, T:0.48
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTGCTAATCGAA
Found at i:46027191 original size:98 final size:98
Alignment explanation
Indices: 46027022--46027205 Score: 230
Period size: 98 Copynumber: 1.9 Consensus size: 98
46027012 GTATTTTGGT
* * *
46027022 AATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTATAGG
1 AATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAGTCGAAGGTATTTCAATAATTTTATAGA
46027087 TCGAGGGTATTTCGGTAATTTCACAAATTAAGG
66 TCGAGGGTATTTCGGTAATTTCACAAATTAAGG
* * *** *
46027120 AATTTTACAAACT-ATGGGTATTTTGGTAATTTTGCTAA-TCGAAGGTATTTTGGTAATTTTGCT
1 AATTTTACAAACTGA-GGGTATTTCGGTAATTTTAC-AAGTCGAAGGTATTTCAATAATTTT-AT
*
46027183 A-ATCGAGGGTATTTTGGTAATTT
63 AGATCGAGGGTATTTCGGTAATTT
46027206 TTTAAACCAA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
97 1 0.01
98 68 0.93
99 4 0.05
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (98 bp):
AATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAGTCGAAGGTATTTCAATAATTTTATAGA
TCGAGGGTATTTCGGTAATTTCACAAATTAAGG
Found at i:46027220 original size:27 final size:28
Alignment explanation
Indices: 46027135--46027249 Score: 114
Period size: 27 Copynumber: 4.3 Consensus size: 28
46027125 TACAAACTAT
* *
46027135 GGGTATTTTGGTAATTTTGCTAATCGAA
1 GGGTATTTTGGTAATTTTGCTAAACCAA
* *
46027163 -GGTATTTTGGTAATTTTGCT-AATCGA
1 GGGTATTTTGGTAATTTTGCTAAACCAA
*
46027189 GGGTATTTTGGTAATTTT-TTAAACCAA
1 GGGTATTTTGGTAATTTTGCTAAACCAA
* ** *
46027216 TGGTA-TTCAGTAGTTTTG-TAAACCAA
1 GGGTATTTTGGTAATTTTGCTAAACCAA
46027242 GGGTATTT
1 GGGTATTT
46027250 CAGTAATTCT
Statistics
Matches: 71, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 24 0.34
27 47 0.66
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (28 bp):
GGGTATTTTGGTAATTTTGCTAAACCAA
Found at i:46027237 original size:26 final size:27
Alignment explanation
Indices: 46027188--46027254 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 27
46027178 TTGCTAATCG
** * *
46027188 AGGGTATTTTGGTAATTTTTTAAACCA
1 AGGGTATTTCAGTAGTTTTGTAAACCA
*
46027215 ATGGTA-TTCAGTAGTTTTGTAAACCA
1 AGGGTATTTCAGTAGTTTTGTAAACCA
46027241 AGGGTATTTCAGTA
1 AGGGTATTTCAGTA
46027255 ATTCTACCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAGTTTTGTAAACCA
Found at i:46027276 original size:27 final size:27
Alignment explanation
Indices: 46027246--46027319 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
46027236 AACCAAGGGT
* *
46027246 ATTTCAGTAATTCTACCTTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGAGGC
* *
46027273 ATTTCAGTAATTTTACCCTATAGAGGT
1 ATTTCAGTAATTCTACCCTATAGAGGC
* *
46027300 ATTTCAGTAATACTAGCCTA
1 ATTTCAGTAATTCTACCCTA
46027320 CAGATATGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGAGGC
Found at i:46043801 original size:37 final size:37
Alignment explanation
Indices: 46043721--46043828 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 37
46043711 AGCTCAGACG
* *
46043721 AAATCTCCACACGAAGTTATCGGGTC-TACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
46043757 AAATCTCCATACGTAGTCATTGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
46043794 TACTCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
46043829 ATATATTTCC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
36 22 0.37
37 38 0.63
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:46044044 original size:47 final size:47
Alignment explanation
Indices: 46043991--46044270 Score: 434
Period size: 47 Copynumber: 6.0 Consensus size: 47
46043981 TTTCACACTA
* * *
46043991 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCATATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
46044038 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
46044085 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
46044132 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
46044179 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
46044226 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
46044271 AAAATCTTAA
Statistics
Matches: 215, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 215 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:46044078 original size:25 final size:25
Alignment explanation
Indices: 46044049--46044130 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
46044039 CCATTCGGCC
46044049 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
* * *
46044074 TCATCAC--ATAGGCCA--TTCGGC-C
1 TCATCACATATATG-CATGTTC-ACAT
46044096 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
46044121 TCATCACATA
1 TCATCACATA
46044131 GGCCATTCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
22 10 0.23
23 7 0.16
24 7 0.16
25 20 0.45
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (25 bp):
TCATCACATATATGCATGTTCACAT
Found at i:46048286 original size:40 final size:40
Alignment explanation
Indices: 46048254--46048565 Score: 462
Period size: 40 Copynumber: 7.8 Consensus size: 40
46048244 CCAGCATAAT
* * *
46048254 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
46048294 TGCTCTTCGGAACTTAGCACGGACATATCACTAGCACGAC
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
46048334 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
46048374 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
46048414 TGCTCTTCGGGATTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
46048454 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
46048494 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
46048534 TGCTCTTCGGGATTTAGCCCGGACATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
46048566 CTCAATTCTC
Statistics
Matches: 251, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 251 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:46049940 original size:37 final size:37
Alignment explanation
Indices: 46049828--46049942 Score: 149
Period size: 37 Copynumber: 3.1 Consensus size: 37
46049818 ACCTTTAGCT
* * * *
46049828 CGGACGAAATCTCCACACGAAGTTATCGAGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
46049865 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * * *
46049902 CGGACATACTCTCGACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
46049939 CGGA
1 CGGA
46049943 ATATATTTCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:46051545 original size:93 final size:93
Alignment explanation
Indices: 46051433--46051604 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46051423 CGCCCATAAG
* *
46051433 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46051498 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
*
46051526 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46051591 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46051605 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:46051601 original size:46 final size:46
Alignment explanation
Indices: 46051426--46051601 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
46051416 TGTAACCCGC
* * * *
46051426 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46051472 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
46051518 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
46051565 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
46051602 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 33 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46051620 original size:46 final size:46
Alignment explanation
Indices: 46051434--46051620 Score: 147
Period size: 46 Copynumber: 4.0 Consensus size: 46
46051424 GCCCATAAGC
* ** * *
46051434 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
*
46051480 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * * *
46051527 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
46051573 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
46051619 GA
1 GA
46051621 CATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 61 0.54
47 31 0.27
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:46052971 original size:47 final size:47
Alignment explanation
Indices: 46052895--46053206 Score: 462
Period size: 47 Copynumber: 6.6 Consensus size: 47
46052885 ATTACATTAC
* *
46052895 CACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
46052942 CACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTCAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
46052989 CACATATATGCATGCTCACATTCATCACATAGGCCATTCGGCCTCAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
*
46053036 CACATATATGCATGTTCACATTCATCACATAGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
46053083 CACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * * *
46053130 CACACATATGCATGCTCACATTCATCACATTGGTCATTCGGCGTTAT
1 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* **
46053177 CACATATATACACATTCACATTCATCACAT
1 CACATATATGCATGTTCACATTCATCACAT
46053207 AAAATCCTAA
Statistics
Matches: 242, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 242 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (47 bp):
CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:46053019 original size:25 final size:24
Alignment explanation
Indices: 46052985--46053066 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 24
46052975 CCATTCGGCC
46052985 TCATCACATATATGCATGCTCACAT
1 TCATCACATATATGCATG-TCACAT
* * *
46053010 TCATCAC--ATAGGCCAT-TCGGC-C
1 TCATCACATATATG-CATGTC-ACAT
46053032 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATG-TCACAT
46053057 TCATCACATA
1 TCATCACATA
46053067 GGCCATTCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
22 9 0.20
23 8 0.18
24 8 0.18
25 19 0.43
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.30
Consensus pattern (24 bp):
TCATCACATATATGCATGTCACAT
Found at i:46058842 original size:5 final size:5
Alignment explanation
Indices: 46058832--46058860 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
46058822 TTTTTCTTGC
46058832 AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATT
46058861 ATTATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:46060872 original size:25 final size:25
Alignment explanation
Indices: 46060843--46060890 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46060833 TTATAATATG
* * *
46060843 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
46060868 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
46060891 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:46060993 original size:20 final size:20
Alignment explanation
Indices: 46060927--46060993 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
46060917 ATTTTGATAA
* *
46060927 ACATGGTATGTATGATATAC
1 ACATGATATGTATGATATGC
*
46060947 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46060967 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46060987 ACATGAT
1 ACATGAT
46060994 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46061098 original size:24 final size:23
Alignment explanation
Indices: 46061042--46061193 Score: 232
Period size: 24 Copynumber: 6.4 Consensus size: 23
46061032 GAGGAAGTGA
46061042 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
46061065 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
46061088 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
46061112 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
46061136 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
46061160 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
46061184 AAAAGAGGCT
1 AAAAG-GGCT
46061194 AGGCCTCTAG
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 43 0.36
24 74 0.61
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:46061111 original size:47 final size:46
Alignment explanation
Indices: 46061042--46061193 Score: 232
Period size: 47 Copynumber: 3.2 Consensus size: 46
46061032 GAGGAAGTGA
46061042 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
46061088 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
46061136 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
46061184 AAAAGAGGCT
1 AAAAG-GGCT
46061194 AGGCCTCTAG
Statistics
Matches: 96, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
47 65 0.68
48 27 0.28
49 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:46061158 original size:71 final size:71
Alignment explanation
Indices: 46061042--46061193 Score: 268
Period size: 71 Copynumber: 2.1 Consensus size: 71
46061032 GAGGAAGTGA
46061042 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
46061107 GTTATC
66 GTTATC
* *
46061113 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
46061178 GTTATT
66 GTTATC
46061184 AAAAGAGGCT
1 AAAAG-GGCT
46061194 AGGCCTCTAG
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 73 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:46071627 original size:13 final size:13
Alignment explanation
Indices: 46071599--46071635 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
46071589 TCAATATTTA
*
46071599 AATTTACATCATTC
1 AATTT-CATGATTC
46071613 AATTTCATGATTC
1 AATTTCATGATTC
46071626 AATTTCATGA
1 AATTTCATGA
46071636 CCAAAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (13 bp):
AATTTCATGATTC
Found at i:46074272 original size:40 final size:40
Alignment explanation
Indices: 46074145--46074274 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
46074135 ATGCTGGAAA
* *
46074145 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
46074185 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
46074225 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
46074265 TTATATCCGG
1 TTATATCCGG
46074275 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:46082227 original size:40 final size:40
Alignment explanation
Indices: 46082100--46082229 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
46082090 ATGCTGGAAA
* *
46082100 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
46082140 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
46082180 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
46082220 TTATATCCGG
1 TTATATCCGG
46082230 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:46086431 original size:38 final size:39
Alignment explanation
Indices: 46086348--46086450 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 39
46086338 GCTGGAATTA
* * *
46086348 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 TATCCGGGCTAAGACCCGAAGGC-A-TGTGCGAGTCGCTAC
*
46086389 -ATCCGGGCTAAGACCCGAAGGCATGTGCGAGTCG-TTC
1 TATCCGGGCTAAGACCCGAAGGCATGTGCGAGTCGCTAC
46086426 TATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAT
46086451 TCGTGCACGT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
37 2 0.04
38 33 0.58
39 1 0.02
40 21 0.37
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.20
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATGTGCGAGTCGCTAC
Found at i:46107000 original size:17 final size:17
Alignment explanation
Indices: 46106958--46107002 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
46106948 TATCATTTAC
* *
46106958 CATTTATCGAGCATTAT
1 CATTTATCGGGCACTAT
* *
46106975 TATTGATCGGGCACTAT
1 CATTTATCGGGCACTAT
46106992 CATTTATCGGG
1 CATTTATCGGG
46107003 TTATATCGAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (17 bp):
CATTTATCGGGCACTAT
Found at i:46108577 original size:20 final size:20
Alignment explanation
Indices: 46108538--46108624 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
46108528 GATATGATAT
*
46108538 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
* *
46108558 ACATAATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
46108578 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
46108598 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
46108618 ACATGAT
1 ACATGAT
46108625 GTATTCATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:46108779 original size:25 final size:26
Alignment explanation
Indices: 46108674--46108809 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
46108664 GAGGAAGTGC
46108674 AAAAGGGCTTATGCCCCAGTTCATTG
1 AAAAGGGCTTATGCCCCAGTTCATTG
46108700 AAAAGGGCTTATGCCCCAGTTCATTG
1 AAAAGGGCTTATGCCCCAGTTCATTG
*
46108726 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTCATTG
* * **
46108752 AAAAGGGCTT-TGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTCATTG
*
46108777 AAAAGGGCTT-TTCCCCAGTT-ATT-
1 AAAAGGGCTTATGCCCCAGTTCATTG
46108800 AAAAGAGGCT
1 AAAAG-GGCT
46108810 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.30
26 61 0.60
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTCATTG
Found at i:46109006 original size:42 final size:42
Alignment explanation
Indices: 46108941--46109032 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
46108931 TAGTCTCCCC
* ** *
46108941 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
46108983 AAATGGGCTTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
46109025 AAATGGGC
1 AAATGGGC
46109033 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:46109097 original size:31 final size:31
Alignment explanation
Indices: 46109056--46109158 Score: 170
Period size: 31 Copynumber: 3.3 Consensus size: 31
46109046 CGTTTATAGT
* * *
46109056 AAAGGGTTCGGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46109087 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
46109118 AAAGGTTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
46109149 AAAGGCTTCG
1 AAAGGCTTCG
46109159 ACCTAGTAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:46111832 original size:27 final size:26
Alignment explanation
Indices: 46111761--46111875 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
46111751 TGGAGGAAGC
46111761 GTTCTGGTGGC-CATGCCACAAATATCT
1 GTTCTGGTGGCTC-TGCCAC-AATATCT
* * *
46111788 GTTTCTGGTAGCTATGCCACAAATTTCT
1 G-TTCTGGTGGCTCTGCCAC-AATATCT
*
46111816 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
46111842 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
46111869 GTTCTGG
1 GTTCTGG
46111876 CAACCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 13 0.17
27 39 0.52
28 23 0.31
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:46118052 original size:40 final size:40
Alignment explanation
Indices: 46118016--46118247 Score: 310
Period size: 40 Copynumber: 5.8 Consensus size: 40
46118006 GGATATAGCT
* *
46118016 ACTCGCTCGAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
** *
46118056 GTTCGCACAAATGCCTTTGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
46118096 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
46118136 ACTCGCA-ACAATGCCTTCAGGACTTAGCCCAGAATTAGTA
1 ACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
46118176 ACTCGCA-ACAATGCCTTTGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
46118216 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
46118248 TTATCATTCG
Statistics
Matches: 173, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 169 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:46118142 original size:80 final size:80
Alignment explanation
Indices: 46117990--46118247 Score: 321
Period size: 80 Copynumber: 3.2 Consensus size: 80
46117980 AAACCAAGTA
* * * *
46117990 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACTTAGCCCGG-ATAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-T
**
46118052 AGTAGTTCGCACAAATG
64 AGTAACTCGCACAAATG
*
46118069 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
46118134 TAACTCGCA-ACAATG
66 TAACTCGCACA-AATG
* * *
46118149 CCTTCAGGACTTAGCCCAGA-ATTAGTAACTCGCA-ACAATGCCTTTGGGACTTAGCCCGGAATT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATT
* *
46118212 AGTCACTAGCACAAATG
64 AGTAACTCGCACAAATG
46118229 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46118248 TTATCATTCG
Statistics
Matches: 157, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.10
80 139 0.89
81 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:46118224 original size:120 final size:120
Alignment explanation
Indices: 46118025--46118247 Score: 344
Period size: 120 Copynumber: 1.9 Consensus size: 120
46118015 TACTCGCTCG
* * **
46118025 AATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATGCCTTTGGGACTTAGCCCGGAT
1 AATGCCTTCAGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGGAT
*
46118090 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAC
46118145 AATGCCTTCAGGACTTAGCCCAGAAT-TAGTAACTCGCA-ACAATGCCTTTGGGACTTAGCCCGG
1 AATGCCTTCAGGACTTAGCCC-GAATATAGTAACTCGCACA-AATGCCTTTGGGACTTAGCCCGG
*
46118208 A-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
64 ATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
46118248 TTATCATTCG
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
119 2 0.02
120 89 0.95
121 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCAGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAC
Found at i:46121741 original size:41 final size:42
Alignment explanation
Indices: 46121677--46121797 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 42
46121667 ATGCTGTCAC
* * *
46121677 ATATCGAGGCCACTGTCCTAGACAGGGTCTTACACGAATCAA
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAATCAA
* * *
46121719 ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTAGTCAC
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACG-AATCAA
* * *
46121761 ATATCGATGCCAACGTCTCAGA-TGTGGTCTTACACGA
1 ATATCGATGCCAATGTCCCAGACAG-GGTCTTACACGA
46121798 GAACACATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 28 0.42
42 11 0.17
43 27 0.41
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAATCAA
Found at i:46121805 original size:43 final size:43
Alignment explanation
Indices: 46121640--46121807 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 43
46121630 ATATCGTACA
* ** * *
46121640 ATGCCAACGTCCCACATGTGGTCTTACATGCTG-TCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AGATCACATATCG
* * * *
46121683 AGGCC-ACTGTCCTAGACAGGGTCTTACACGA-ATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAGATCACATATCG
*
46121724 ATGCCAATGTCCCAGACATGGTCTTACACGTAG-TCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AGATCACATATCG
* ** *
46121767 ATGCCAACGTCTCAGATGTGGTCTTACACGAGAACACATAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAGATCACATAT
46121808 AGGAAATCCT
Statistics
Matches: 99, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 26 0.26
42 18 0.18
43 55 0.56
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAGATCACATATCG
Found at i:46125230 original size:27 final size:27
Alignment explanation
Indices: 46125200--46125353 Score: 155
Period size: 27 Copynumber: 5.5 Consensus size: 27
46125190 ATAGTGAATC
46125200 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
46125227 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
46125255 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
46125282 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* * **
46125311 CGTACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
46125340 TGCACACTTAGTGC
1 CGCACACTTAGTGC
46125354 CATTCTCGTC
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 40 0.38
28 27 0.26
29 38 0.36
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:46125247 original size:29 final size:28
Alignment explanation
Indices: 46125200--46125353 Score: 136
Period size: 29 Copynumber: 5.5 Consensus size: 28
46125190 ATAGTGAATC
46125200 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
46125227 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
46125255 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
46125282 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
* **
46125311 CGTACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
46125340 TGCACACTTAGTGC
1 CGCACACTTAGTGC
46125354 CATTCTCGTC
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.27
29 40 0.38
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:46125271 original size:55 final size:55
Alignment explanation
Indices: 46125200--46125303 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
46125190 ATAGTGAATC
46125200 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
46125255 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
46125304 TTGAGCTCGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:46128468 original size:15 final size:15
Alignment explanation
Indices: 46128448--46128479 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46128438 TATGCATGCA
*
46128448 AAATATATAAGACAT
1 AAATATAAAAGACAT
46128463 AAATATAAAAGACAT
1 AAATATAAAAGACAT
46128478 AA
1 AA
46128480 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:46130498 original size:38 final size:38
Alignment explanation
Indices: 46130438--46130744 Score: 438
Period size: 38 Copynumber: 8.1 Consensus size: 38
46130428 ATATTTGATG
* ** * *
46130438 TATATCTGGGTTAAATCTCGCAGGGTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* *
46130476 TATATCTGGGTTTTATCCCGCAGGCTTCGTGCTTGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
*
46130514 TATATCCGGGTTTTATCCCGCAGGTTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
**
46130552 TATATCTAGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
46130590 TATATCCGGG-TTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* * *
46130627 TATATCCGGG-TATATCCCGCAGGCTTTGTGCCGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* *
46130664 TATATCTGGGTTTTATCCTGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
** *
46130702 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
46130740 TATAT
1 TATAT
46130745 TCGAGCTTAA
Statistics
Matches: 242, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
37 70 0.29
38 172 0.71
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.38
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:46135717 original size:40 final size:40
Alignment explanation
Indices: 46135645--46135826 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
46135635 AACCCAAGTA
*
46135645 CCTTCGGGATTTAG-CCGGATATAG-CAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
46135684 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
46135724 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
46135764 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
46135804 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
46135827 CATTCGAATA
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.09
40 119 0.89
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:46142869 original size:8 final size:8
Alignment explanation
Indices: 46142856--46142880 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46142846 ATTCATTAAG
46142856 GGTAAAAT
1 GGTAAAAT
46142864 GGTAAAAT
1 GGTAAAAT
46142872 GGTAAAAT
1 GGTAAAAT
46142880 G
1 G
46142881 TGTATTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (8 bp):
GGTAAAAT
Found at i:46143800 original size:43 final size:43
Alignment explanation
Indices: 46143752--46143914 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
46143742 ATCGAGATGT
* *
46143752 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
46143795 GATTACGTGTAATACCATGTCTCGGACATTGGCATCGTA-TGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * ** *
46143837 TAATTTCGTGTAAGACTTTGTCTGGGACAATGGCATCG-ATATGTA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TG-A
* * *
46143882 -TTTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
46143915 TGTACGAGTT
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 10 0.10
43 84 0.87
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:46145856 original size:68 final size:68
Alignment explanation
Indices: 46145742--46145980 Score: 282
Period size: 68 Copynumber: 3.5 Consensus size: 68
46145732 CCTACAAGAA
* * * * *
46145742 TGTAAGACCATAGCTGGACTATGGCAACGTATGAAGTCCGCCAGGACAGTAAACATGACATCATA
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAATTCTGCTAGGACAGTAAACATGACATCATA
46145807 TAG
66 TAG
* * * * ** *
46145810 TGTAAAACCATAGTTGGGCTATGGCAACATATGAATTCTACTAGGACCGTTTACATGACATTATA
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAATTCTGCTAGGACAGTAAACATGACATCATA
46145875 TAG
66 TAG
* * ** * * *
46145878 TGTAAGACCATAACTGGGTTATGGCAACGCATG-ATGTCTGCTAGGATAGTAAACGTGGCATCAT
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAAT-TCTGCTAGGACAGTAAACATGACATCAT
46145942 ATAG
65 ATAG
*
46145946 TGTAAGACCATAGCTGGGCTATGGAAACATATGAA
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAA
46145981 ATCCATTAGG
Statistics
Matches: 138, Mismatches: 31, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
67 2 0.01
68 135 0.98
69 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (68 bp):
TGTAAGACCATAGCTGGGCTATGGCAACATATGAATTCTGCTAGGACAGTAAACATGACATCATA
TAG
Found at i:46145991 original size:136 final size:136
Alignment explanation
Indices: 46145742--46145992 Score: 358
Period size: 136 Copynumber: 1.8 Consensus size: 136
46145732 CCTACAAGAA
* *
46145742 TGTAAGACCATAGCTGGACTATGGCAACGTATGAAGTCCGCCAGGACAGTAAACATGACATCATA
1 TGTAAGACCATAACTGGACTATGGCAACGCATGAAGTCCGCCAGGACAGTAAACATGACATCATA
* * * *
46145807 TAGTGTAAAACCATAGTTGGGCTATGGCAACATATGAATTCTACTAGGACCGTTTACATGACATT
66 TAGTGTAAAACCATAGCTGGGCTATGGAAACATATGAAATCCACTAGGACCGTTTACATGACATT
46145872 ATATAG
131 ATATAG
** * * * * * *
46145878 TGTAAGACCATAACTGGGTTATGGCAACGCATGATGTCTGCTAGGATAGTAAACGTGGCATCATA
1 TGTAAGACCATAACTGGACTATGGCAACGCATGAAGTCCGCCAGGACAGTAAACATGACATCATA
* *
46145943 TAGTGTAAGACCATAGCTGGGCTATGGAAACATATGAAATCCATTAGGAC
66 TAGTGTAAAACCATAGCTGGGCTATGGAAACATATGAAATCCACTAGGAC
46145993 ATTGAACTAG
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
136 99 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (136 bp):
TGTAAGACCATAACTGGACTATGGCAACGCATGAAGTCCGCCAGGACAGTAAACATGACATCATA
TAGTGTAAAACCATAGCTGGGCTATGGAAACATATGAAATCCACTAGGACCGTTTACATGACATT
ATATAG
Found at i:46149295 original size:40 final size:40
Alignment explanation
Indices: 46149187--46149436 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
46149177 CGGGATTTAA
* * * * *
46149187 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
46149227 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46149267 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46149307 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46149347 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46149387 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46149427 CCGGATATAT
1 CCGGATATAT
46149437 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46157396 original size:40 final size:40
Alignment explanation
Indices: 46157288--46157535 Score: 367
Period size: 40 Copynumber: 6.2 Consensus size: 40
46157278 CGGGATTTAA
* * * * *
46157288 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
46157328 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46157368 CCGGATATATCAACTCGCACGAATGCCTTC-GGTC-TAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46157406 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46157446 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46157486 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46157526 CCGGATATAT
1 CCGGATATAT
46157536 TTCCAATGTT
Statistics
Matches: 189, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 34 0.18
39 9 0.05
40 146 0.77
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46157496 original size:118 final size:120
Alignment explanation
Indices: 46157288--46157535 Score: 367
Period size: 118 Copynumber: 2.1 Consensus size: 120
46157278 CGGGATTTAA
* * * * * * *
46157288 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
46157353 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTC-GGTC-TAGC
66 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
46157406 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACGAAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGAT-AACTCGCACAAAG
46157470 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
46157526 CCGGATATAT
1 CCGGATATAT
46157536 TTCCAATGTT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
117 1 0.01
118 97 0.84
119 4 0.03
120 14 0.12
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (120 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCATAACCCGGATATGATAACTCGCACAAAGG
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:46159660 original size:38 final size:39
Alignment explanation
Indices: 46159578--46159759 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
46159568 AATGTTCGAG
46159578 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
46159617 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46159655 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
46159694 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
46159734 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
46159760 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46167124 original size:38 final size:39
Alignment explanation
Indices: 46167004--46167184 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
46166994 AATGTTCGAG
46167004 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
46167043 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
46167082 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * ** *
46167120 TGATATCCGGGTTAAGTCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
** * *
46167159 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
46167185 GTTTGAACGA
Statistics
Matches: 122, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 33 0.27
39 81 0.66
40 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:46167169 original size:77 final size:78
Alignment explanation
Indices: 46167010--46167184 Score: 217
Period size: 77 Copynumber: 2.2 Consensus size: 78
46167000 CGAGTGATAT
* *
46167010 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGGG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCAATTGGG
** *
46167075 CGAGTTATGATAT
66 CGAGTTACCATAA
* * * ** *
46167088 CCGGGCTAAG-CCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCGAAGGCCTTTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCAATTGGG
*
46167152 CGGGTTACCATAA
66 CGAGTTACCATAA
*
46167165 CCGGGCTATGTCCCGAAGGC
1 CCGGGCTAAG-CCCGAAGGC
46167185 GTTTGAACGA
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 64 0.78
78 10 0.12
79 8 0.10
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCAATTGGG
CGAGTTACCATAA
Found at i:46170655 original size:30 final size:30
Alignment explanation
Indices: 46170621--46170681 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46170611 TCCTTAACTC
46170621 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46170651 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46170681 A
1 A
46170682 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46175321 original size:40 final size:40
Alignment explanation
Indices: 46175276--46175443 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
46175266 CGGAATACAA
*
46175276 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
46175316 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
46175356 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
46175396 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
46175436 CCGGATAT
1 CCGGATAT
46175444 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:46175416 original size:80 final size:80
Alignment explanation
Indices: 46175276--46175443 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
46175266 CGGAATACAA
* * *
46175276 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
46175341 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
46175356 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
46175419 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
46175436 CCGGATAT
1 CCGGATAT
46175444 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:46178509 original size:46 final size:45
Alignment explanation
Indices: 46178459--46178634 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
46178449 TATTTGGGCA
46178459 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* * *
46178505 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAGG
* *
46178550 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGG
* *
46178598 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46178635 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 68 0.61
47 29 0.26
48 4 0.04
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:46178614 original size:93 final size:93
Alignment explanation
Indices: 46178455--46178626 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
46178445 TGGATATTTG
** *
46178455 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
46178520 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
46178548 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
46178613 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
46178627 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:46181552 original size:15 final size:15
Alignment explanation
Indices: 46181532--46181600 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
46181522 GTATCTTGGG
46181532 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
46181547 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
46181562 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
46181577 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
46181592 TTTCTTTAT
1 TTTCTTTAT
46181601 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:46181601 original size:30 final size:30
Alignment explanation
Indices: 46181523--46181610 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
46181513 CATAGTATCG
* * * *
46181523 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
46181553 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
46181583 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
46181611 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:46183698 original size:40 final size:40
Alignment explanation
Indices: 46183633--46183840 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
46183623 TCTTCGGAAT
* ** *
46183633 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
46183672 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
46183712 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
46183752 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
46183792 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
46183832 TTAGCCCGG
1 TTAGCCCGG
46183841 GTATCATTCA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 150 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:46191833 original size:40 final size:40
Alignment explanation
Indices: 46191768--46192055 Score: 463
Period size: 40 Copynumber: 7.2 Consensus size: 40
46191758 TCTTCGGAAT
* ** *
46191768 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
46191807 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
46191847 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
46191887 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
46191927 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
46191967 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
46192007 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
46192047 TTAGCCCGG
1 TTAGCCCGG
46192056 GTATCATTCA
Statistics
Matches: 234, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 3 0.01
40 230 0.98
41 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:46205462 original size:40 final size:40
Alignment explanation
Indices: 46205417--46205624 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
46205407 CGGAATACAA
*
46205417 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
46205457 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
46205497 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
46205537 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTCAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
46205577 CCGGATATAATTGCTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
46205617 CCGGATAT
1 CCGGATAT
46205625 CTTTCAATTG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:46215072 original size:46 final size:45
Alignment explanation
Indices: 46214928--46215142 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 45
46214918 TATGTGCGCT
* * * *
46214928 AGTGTTAGACATGTTTGGGACATGCATCGGCCAC-ATAATAAG-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GAT--GTAGCC
* * * * * * *
46214974 AGTGTGAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-GCC
46215022 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-TAGCC
* * *
46215068 AGTGTCAGACATGTCTGGGACATGCGTCGG-CTACGAGATGT-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAGCC
*
46215112 AATGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
46215143 ACGGTTACAT
Statistics
Matches: 141, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
44 29 0.21
45 3 0.02
46 60 0.43
47 29 0.21
48 19 0.13
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAGCC
Found at i:46215134 original size:90 final size:93
Alignment explanation
Indices: 46214925--46215142 Score: 257
Period size: 94 Copynumber: 2.4 Consensus size: 93
46214915 AGATATGTGC
* * * *
46214925 GCTAGTGTTAGACATGTTTGGGACATGCATCGGCCACATAATAAGAGCCAGTGTGAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATAAGAGCCAGTGTCAGACCATGTC
*
46214990 TGGGACATGGCATCGGCATTGAGACGAAT
66 TGGGACATGGCATCGGCATCGAGACG-AT
* * ***
46215019 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTTAGCCAGTGTCAGA-CATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAATAAGAGCCAGTGTCAGACCATGT
* *
46215082 CTGGGACAT-GCGTCGGC-TACGAGATG-T
65 CTGGGACATGGCATCGGCAT-CGAGACGAT
*
46215109 GCTAATGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
46215143 ACGGTTACAT
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
90 34 0.31
91 1 0.01
92 12 0.11
93 13 0.12
94 48 0.44
95 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATAAGAGCCAGTGTCAGACCATGTC
TGGGACATGGCATCGGCATCGAGACGAT
Found at i:46217905 original size:40 final size:39
Alignment explanation
Indices: 46217826--46218033 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 39
46217816 TCTTTGGAAT
* * * *
46217826 TTAG-CCGGATACAACCACAAGCACAATTGCCTTCAGGTC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTC
* * * * *
46217865 TTAACTCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTC
* *
46217905 TTGGCCCGGATATAACCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTC
*
46217945 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTC
* * *
46217985 TTAGCCCGGATATAATCACTAGCATAAATGCCTTTGGGGC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTC
46218025 TTAGCCCGG
1 TTAGCCCGG
46218034 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 4 0.03
40 141 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTC
Found at i:46217974 original size:80 final size:80
Alignment explanation
Indices: 46217826--46218033 Score: 258
Period size: 80 Copynumber: 2.6 Consensus size: 80
46217816 TCTTTGGAAT
* * * * * * * * *
46217826 TTAG-CCGGATACAACCACAAGCACAATTGCCTTCAGGTCTTAACTCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAACCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
46217890 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
46217905 TTGGCCCGGATATAACCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCA
1 TTAGCCCGGATATAACCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATAT-AGCAACTAGCA
*
46217969 TAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGTC
* * *
46217985 TTAGCCCGGATATAATCACTAGCATAAATGCCTTTGGGGCTTAGCCCGG
1 TTAGCCCGGATATAACCACTAGCATAAATGCCTTCGGGTCTTAGCCCGG
46218034 GTATCATTCA
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
79 3 0.03
80 106 0.95
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAACCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCAC
AAATGCCTTCGGGTC
Found at i:46224248 original size:30 final size:29
Alignment explanation
Indices: 46224212--46224275 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
46224202 ATGAATCAAA
*
46224212 AGCTTTGGCCCTAAGTGTGCAATTTAAACT
1 AGCTTTGGCACTAAGTGTGCAATTT-AACT
*
46224242 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCAATTTAACT
46224271 AGCTT
1 AGCTT
46224276 CAGCTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCAATTTAACT
Found at i:46225233 original size:3 final size:3
Alignment explanation
Indices: 46225222--46225255 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
46225212 AATACGGATG
*
46225222 TTA TCA TTA TTA TTA TT- TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46225256 TCGTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46225247 original size:17 final size:17
Alignment explanation
Indices: 46225222--46225256 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46225212 AATACGGATG
46225222 TTATCATTATTATTATT
1 TTATCATTATTATTATT
*
46225239 TTATTATTATTATTATT
1 TTATCATTATTATTATT
46225256 T
1 T
46225257 CGTATGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATCATTATTATTATT
Found at i:46226614 original size:13 final size:13
Alignment explanation
Indices: 46226596--46226639 Score: 56
Period size: 12 Copynumber: 3.4 Consensus size: 13
46226586 TCATACGAGT
46226596 TAATAAATAAAAA
1 TAATAAATAAAAA
46226609 TAAT-AATAAAAA
1 TAATAAATAAAAA
46226621 TATATAATATAAAAA
1 TA-ATAA-ATAAAAA
46226636 -AATA
1 TAATA
46226640 GGCAATAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.36
13 9 0.32
14 2 0.07
15 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAATAAATAAAAA
Found at i:46229071 original size:40 final size:40
Alignment explanation
Indices: 46228983--46229166 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
46228973 TCGAATGATG
* * * *
46228983 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* *
46229023 TCCAGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
46229063 TCCGGACTAAGAT-CCAAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
46229103 TCCGGGTTAAGTCCCGAAGGCA-TCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTC-GTGCGAGTTACTA-AA
*
46229144 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46229167 TGAATGAGTA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 109 0.90
41 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:46231730 original size:39 final size:39
Alignment explanation
Indices: 46231687--46231813 Score: 152
Period size: 39 Copynumber: 3.2 Consensus size: 39
46231677 CGGAATACAA
46231687 CCGGATATAACCACGTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
46231726 CCGGATAGATCGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
46231766 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTA-C
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
46231805 CCGGATATA
1 CCGGATATA
46231814 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 38 0.50
40 38 0.50
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:46231793 original size:40 final size:40
Alignment explanation
Indices: 46231703--46231811 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
46231693 ATAACCACGT
* * *
46231703 GCACGAATGCCTTC-GGTCTTAGCCCGGATAGATCGACTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAGCCACTA
46231742 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAG-AGCCACTA
46231782 GCAC-AATTGCCTTCGGGTCTTA-CCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
46231812 TATTTCCAGC
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
39 24 0.38
40 39 0.62
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.25
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAGCCACTA
Found at i:46238904 original size:2 final size:2
Alignment explanation
Indices: 46238897--46238924 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46238887 GCTCTTGCAC
46238897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46238925 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46239821 original size:40 final size:40
Alignment explanation
Indices: 46239629--46239814 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
46239619 TCGAATGATG
* * *
46239629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
46239669 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46239709 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46239749 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46239790 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46239815 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46239821 original size:80 final size:80
Alignment explanation
Indices: 46239629--46239847 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
46239619 TCGAATGATG
* * **
46239629 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
46239693 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
46239709 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
46239771 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
46239790 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
46239848 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:46242490 original size:12 final size:12
Alignment explanation
Indices: 46242473--46242505 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
46242463 ATGGAATATT
46242473 TCAAAATCACCA
1 TCAAAATCACCA
46242485 TCAAAATCACCA
1 TCAAAATCACCA
46242497 TCAAAATCA
1 TCAAAATCA
46242506 AAAATTGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (12 bp):
TCAAAATCACCA
Found at i:46242715 original size:11 final size:11
Alignment explanation
Indices: 46242701--46242725 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46242691 TTTAATTTAA
46242701 TTATAATTAGT
1 TTATAATTAGT
46242712 TTATAATTAGT
1 TTATAATTAGT
46242723 TTA
1 TTA
46242726 CCATTTTGCC
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TTATAATTAGT
Found at i:46246211 original size:27 final size:25
Alignment explanation
Indices: 46246154--46246259 Score: 79
Period size: 27 Copynumber: 4.0 Consensus size: 25
46246144 TAGTTTACGA
46246154 AATTACTGAAATACCCTCGACTTGTAA-
1 AATTAC-GAAATACCCTCGA-TT-TAAG
46246181 AATTACGAAAGTACCCTCGATTTACAG
1 AATTACGAAA-TACCCTCGATTTA-AG
***
46246208 AATTACCGTTTTACCCTCGATTTATAG
1 AATTA-CGAAATACCCTCGATTTA-AG
***
46246235 AATTACCGTTTTACCCTCGATTTAA
1 AATTA-CGAAATACCCTCGATTTAA
46246260 AAAATTATTG
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
25 2 0.03
26 8 0.11
27 59 0.83
28 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (25 bp):
AATTACGAAATACCCTCGATTTAAG
Found at i:46246265 original size:27 final size:27
Alignment explanation
Indices: 46246192--46246439 Score: 329
Period size: 27 Copynumber: 9.2 Consensus size: 27
46246182 ATTACGAAAG
*
46246192 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
46246219 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * **
46246246 TACCCTCGATTTAAAAAATTATTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
46246273 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
46246300 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
46246327 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
46246354 TACCCTTC-ATTTATAGAATTACCGTTT
1 TACCC-TCGATTTATAGAATTACCGTTT
* * *
46246381 TACCCTCGATTTACA-ATATTATCATTT
1 TACCCTCGATTTATAGA-ATTACCGTTT
* *
46246408 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
46246435 TACCC
1 TACCC
46246440 CTAGGGTGTT
Statistics
Matches: 195, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
26 3 0.02
27 189 0.97
28 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:46246719 original size:27 final size:26
Alignment explanation
Indices: 46246675--46246725 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
46246665 CTTGCTGCAA
*
46246675 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
46246702 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
46246726 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:46246794 original size:26 final size:27
Alignment explanation
Indices: 46246765--46246824 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
46246755 CCACATATAT
*
46246765 ATATCTGT-TTTGGTGGCCTAGCCACA
1 ATATCTGTATTTGGTGACCTAGCCACA
* * * *
46246791 ATATTTGTATTTGGTGACTTCGTCACA
1 ATATCTGTATTTGGTGACCTAGCCACA
46246818 ATATCTG
1 ATATCTG
46246825 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
ATATCTGTATTTGGTGACCTAGCCACA
Found at i:46246977 original size:19 final size:19
Alignment explanation
Indices: 46246955--46247053 Score: 89
Period size: 19 Copynumber: 5.3 Consensus size: 19
46246945 TCTAATTTTG
* *
46246955 ATTCTGTTACCTGATACTG
1 ATTCTGTTACCTGATTCTA
*
46246974 ATTCTGATT--CTAATTCTA
1 ATTCTG-TTACCTGATTCTA
* *
46246992 ATTCTGTCACCTAATTCTA
1 ATTCTGTTACCTGATTCTA
*
46247011 ATTCTGGTT--CTGATTCTG
1 ATTCT-GTTACCTGATTCTA
*
46247029 ATTCTGTCACCTGATTCTA
1 ATTCTGTTACCTGATTCTA
46247048 ATTCTG
1 ATTCTG
46247054 ATTCTCATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.05
18 24 0.37
19 34 0.52
20 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (19 bp):
ATTCTGTTACCTGATTCTA
Done.