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 149 of 427
Found at i:40788830 original size:140 final size:140
Alignment explanation
Indices: 40788633--40788898 Score: 453
Period size: 140 Copynumber: 1.9 Consensus size: 140
40788623 ATCCATAAGT
*
40788633 GAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCACAAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCACAAACTCGGACTCAACTCA
40788698 ACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGT
66 ACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGT
40788763 TACATTTGAC
131 TACATTTGAC
* *
40788773 GAACTCAGACTCAACTCAACGAG-TTCGGATGCCTAGTTACATTTCACGAACTCGGACTCAACTC
1 GAACTCAGACTCAACTCAACGAGCTT-GGATGCCTAGTTACATCTCACAAACTCGGACTCAACTC
* * * *
40788837 AACGAGTTCGGACGTTCGCATGCATTAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCC
65 AACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCC
40788899 CAAATATCCT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
139 2 0.02
140 116 0.98
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (140 bp):
GAACTCAGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCACAAACTCGGACTCAACTCA
ACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGT
TACATTTGAC
Found at i:40793780 original size:40 final size:40
Alignment explanation
Indices: 40793670--40793781 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 40
40793660 TCGAATGATG
* *
40793670 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* * **
40793710 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* *
40793750 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
40793782 CTATTATAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 1 0.02
40 51 0.86
41 7 0.12
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:40804996 original size:3 final size:3
Alignment explanation
Indices: 40804990--40805017 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
40804980 TACCGTAACT
40804990 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
40805018 AATCTTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:40806930 original size:39 final size:39
Alignment explanation
Indices: 40806879--40807024 Score: 197
Period size: 39 Copynumber: 3.8 Consensus size: 39
40806869 TGAGGTCCGC
40806879 AGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCTGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCTGA
* * * *
40806917 AGGCATTTGTGCTGGTGTTATATCTGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCTGA
* * **
40806956 AGGCATTTGTGCTGGTGTTATATCTAGGCTAAGT-CTCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCT-GA
40806995 AGGCATTTATGCTGGTATTATATCCGGGCT
1 AGGCATTTATGCTGGTATTATATCCGGGCT
40807025 TAAAGTCCCG
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 5 0.05
39 91 0.95
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCTGA
Found at i:40808719 original size:45 final size:45
Alignment explanation
Indices: 40808648--40808821 Score: 267
Period size: 45 Copynumber: 3.9 Consensus size: 45
40808638 GAGTGTTACA
* * *
40808648 ATTCGGGCCTTTGAGCCTAGCGGGCTATGATGCCGGTGAGATATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACT
* * *
40808693 ATTTGGGCCTTTGAGCCTAGTAGGCTATAATGCTGGTGAGATACT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACT
* *
40808738 ATTCGGGCCTTTAAGCCGAGCAGGCTATAATGCCGGTGAGATACT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACT
*
40808783 ATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
40808822 AATGAGATCA
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 115 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACT
Found at i:40817977 original size:42 final size:41
Alignment explanation
Indices: 40817928--40818033 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 41
40817918 ATAGCTCAGC
* **
40817928 TATGGTCTTACACGAAGTCTCATATCGATTTCATATCCCAAA
1 TATGGTCTTACACGAA-TCTCATATAGATGCCATATCCCAAA
*
40817970 TATGGTCTTACACGAAATCTCATATAGATGCCATATCCCAGA
1 TATGGTCTTACACG-AATCTCATATAGATGCCATATCCCAAA
*
40818012 TATGGCCTTACACGTAATCTCA
1 TATGGTCTTACACG-AATCTCA
40818034 GTAACCCTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (41 bp):
TATGGTCTTACACGAATCTCATATAGATGCCATATCCCAAA
Found at i:40822152 original size:12 final size:13
Alignment explanation
Indices: 40822135--40822163 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
40822125 AGATGTACAG
40822135 AATTTGGC-TTTT
1 AATTTGGCTTTTT
40822147 AATTTGGCTTTTT
1 AATTTGGCTTTTT
40822160 AATT
1 AATT
40822164 CATTTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (13 bp):
AATTTGGCTTTTT
Found at i:40825984 original size:15 final size:15
Alignment explanation
Indices: 40825964--40825992 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
40825954 CACACGCCCG
40825964 TATCCCTAACCCATA
1 TATCCCTAACCCATA
40825979 TATCCCTAACCCAT
1 TATCCCTAACCCAT
40825993 GTAACTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.28
Consensus pattern (15 bp):
TATCCCTAACCCATA
Found at i:40826587 original size:42 final size:42
Alignment explanation
Indices: 40826475--40826638 Score: 224
Period size: 42 Copynumber: 3.9 Consensus size: 42
40826465 TACCGTACCA
* *
40826475 ATGCCATATCCCAGATATGGTCTTACATATAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACATAATCTCATATCG
* *
40826517 ATGCCAATAGCCCAGTTATGGTCTTACACA-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACATAA-TCTCATATCG
* **
40826560 ATGCCATATCCCAAATATGGTCTTACACGA-AATCTCATATAA
1 ATGCCATATCCCAGATATGGTCTTACAC-ATAATCTCATATCG
40826602 ATGCCATATCCCAGATATGGTCTTACACATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACATAATCTCA
40826639 GTAACCCTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 69 0.64
43 38 0.35
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACATAATCTCATATCG
Found at i:40830155 original size:19 final size:19
Alignment explanation
Indices: 40830124--40830162 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
40830114 AGGGTGTATA
*
40830124 TGTTTCACTTTTTTTTATT
1 TGTTTCACTTTTTTTAATT
40830143 TGTTGTCAC-TTTTTTAATT
1 TGTT-TCACTTTTTTTAATT
40830162 T
1 T
40830163 TTTAGGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.69
Consensus pattern (19 bp):
TGTTTCACTTTTTTTAATT
Found at i:40831568 original size:23 final size:23
Alignment explanation
Indices: 40831528--40831579 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
40831518 GGTTTTAGGG
*
40831528 TTTATATTTGATGCTTAAATTTTT
1 TTTATATTTGATACTT-AATTTTT
*
40831552 TTTA-ATTTGATATTTAATTTTT
1 TTTATATTTGATACTTAATTTTT
40831574 TATTAT
1 T-TTAT
40831580 TTCAATTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 8 0.33
23 12 0.50
24 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTATATTTGATACTTAATTTTT
Found at i:40831581 original size:22 final size:23
Alignment explanation
Indices: 40831528--40831581 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
40831518 GGTTTTAGGG
*
40831528 TTTA-TATTTGATGCTTAAATTT
1 TTTATTATTTGATGATTAAATTT
*
40831550 TTT-TTAATTTGAT-ATTTAATTT
1 TTTATT-ATTTGATGATTAAATTT
40831572 TTTATTATTT
1 TTTATTATTT
40831582 CAATTAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.67
Consensus pattern (23 bp):
TTTATTATTTGATGATTAAATTT
Found at i:40833537 original size:26 final size:26
Alignment explanation
Indices: 40833508--40833557 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
40833498 TTAAATAAAC
40833508 AGTTAATAAAATCAATTGGTCAAATT
1 AGTTAATAAAATCAATTGGTCAAATT
* * *
40833534 AGTTAATAGAATCAGTTGTTCAAA
1 AGTTAATAAAATCAATTGGTCAAA
40833558 CTAGCCATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (26 bp):
AGTTAATAAAATCAATTGGTCAAATT
Found at i:40835563 original size:83 final size:84
Alignment explanation
Indices: 40835418--40835582 Score: 215
Period size: 83 Copynumber: 2.0 Consensus size: 84
40835408 ACTGATTCTG
* ** * * * * * *
40835418 ATTTGATCTAGCAGTTTAACTGTAACATATCTGTATAGCGGTTTACCGTAATGCACTGTACTGTA
1 ATTTGATCTAGCAATTTAACTACAACATATCTGCACAGCGATTTACCGCAATGCACTATACTGAA
* *
40835483 TCTACGTCAGCTTTGCTAC
66 TATACATCAGCTTTGCTAC
40835502 ATTT-ATCTAGCAATTTAACTACAACATATCTGCACAGCGATTTACCGCAATGCACTATACTGAA
1 ATTTGATCTAGCAATTTAACTACAACATATCTGCACAGCGATTTACCGCAATGCACTATACTGAA
*
40835566 TATACATTAGCTTTGCT
66 TATACATCAGCTTTGCT
40835583 GCGTACTGTA
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
83 65 0.94
84 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (84 bp):
ATTTGATCTAGCAATTTAACTACAACATATCTGCACAGCGATTTACCGCAATGCACTATACTGAA
TATACATCAGCTTTGCTAC
Found at i:40836240 original size:2 final size:2
Alignment explanation
Indices: 40836233--40836274 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
40836223 CATCCACACG
40836233 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40836274 T
1 T
40836275 CGTTCTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:40836654 original size:40 final size:40
Alignment explanation
Indices: 40836502--40836647 Score: 188
Period size: 40 Copynumber: 3.7 Consensus size: 40
40836492 TACCAGCTCG
* * * *
40836502 TAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCA-TA
*
40836542 -AGCCTGCGGGTCTTTAAGCCCGGATAACTTTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
* *
40836581 TAGCCTGCGGGTCTTTAAGCCCAGATAACATTCCAGTATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
* *
40836621 TAGCCTGTGGGTCTTTAAGCTCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
40836648 CAATTCCTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
Found at i:40838347 original size:29 final size:28
Alignment explanation
Indices: 40838264--40838361 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 28
40838254 AATCACGCCT
** *
40838264 ACTTAGTGCCATGTGATTCAAGCCCGCAC
1 ACTTAGTGCCAT-ACATTCAAGCTCGCAC
* * * *
40838293 ACATAGTGCCATATAGTCCAAACTCGCAC
1 ACTTAGTGCCATACA-TTCAAGCTCGCAC
*
40838322 ACTTAGTGCCATACATTACAAGCTCGTAC
1 ACTTAGTGCCATACATT-CAAGCTCGCAC
*
40838351 ACTCAGTGCCA
1 ACTTAGTGCCA
40838362 ATCTCGTCAC
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 2 0.04
29 53 0.96
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (28 bp):
ACTTAGTGCCATACATTCAAGCTCGCAC
Found at i:40845014 original size:17 final size:18
Alignment explanation
Indices: 40844972--40845020 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
40844962 AGTTGAAAAG
40844972 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
40844991 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
40845008 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
40845021 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:40845909 original size:40 final size:40
Alignment explanation
Indices: 40845843--40846009 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
40845833 AAATTGAATG
* * *
40845843 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
40845882 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
40845922 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
40845962 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
40846002 ATATCCGG
1 ATATCCGG
40846010 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:40859874 original size:28 final size:28
Alignment explanation
Indices: 40859805--40859905 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
40859795 GACAAGATTG
* * * *
40859805 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
40859835 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40859863 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
40859892 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40859906 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40866227 original size:24 final size:23
Alignment explanation
Indices: 40866200--40866250 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
40866190 TTTTCTCCTA
*
40866200 AATTTT-AATTTTATTTAATTAATT
1 AATTTTCAA-TTTATTGAATT-ATT
40866224 AATTTTTCAATTTATTGAATTATT
1 AA-TTTTCAATTTATTGAATTATT
40866248 AAT
1 AAT
40866251 ATTTTATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
23 1 0.04
24 7 0.29
25 14 0.58
26 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
AATTTTCAATTTATTGAATTATT
Found at i:40867158 original size:21 final size:21
Alignment explanation
Indices: 40867133--40867172 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
40867123 ACAATAAGTT
40867133 GAAGAA-AGCAAGGATCCCAAA
1 GAAGAAGAGCAA-GATCCCAAA
*
40867154 GAAGAAGAGGAAGATCCCA
1 GAAGAAGAGCAAGATCCCA
40867173 CAGAGATCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.50, C:0.17, G:0.28, T:0.05
Consensus pattern (21 bp):
GAAGAAGAGCAAGATCCCAAA
Found at i:40869319 original size:22 final size:22
Alignment explanation
Indices: 40869272--40869320 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
40869262 GGCACGCTCG
* * * *
40869272 TGTGGTTGCCGGAGTGTGGTCG
1 TGTGGTGGCCGGAGTCTAGTCA
40869294 TGTGGTGGCCGGAGTCTAGTCA
1 TGTGGTGGCCGGAGTCTAGTCA
40869316 TGTGG
1 TGTGG
40869321 GCCACATGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.08, C:0.14, G:0.47, T:0.31
Consensus pattern (22 bp):
TGTGGTGGCCGGAGTCTAGTCA
Found at i:40871679 original size:40 final size:40
Alignment explanation
Indices: 40871577--40871760 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
40871567 AAATTGAATG
* * * * * *
40871577 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
40871617 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
40871657 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
40871697 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
40871737 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
40871761 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:40871785 original size:80 final size:80
Alignment explanation
Indices: 40871617--40871798 Score: 179
Period size: 80 Copynumber: 2.3 Consensus size: 80
40871607 GCTGGAAATT
* * *
40871617 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
40871682 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
40871697 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
40871760 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* *
40871777 ATAACCGGGCTATGTCCCGAAG
1 ATAACCGGGCTAAGACCCGAAG
40871799 ACGATTGAAC
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
79 3 0.04
80 77 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:40874403 original size:83 final size:83
Alignment explanation
Indices: 40874264--40874429 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
40874254 CTATAAAAAA
* *
40874264 GAGAGAAAAAAAAGGGAGTGAGCATAAAGCTTAGTAAGTTCGCATGTAAATAAATAACAATATCC
1 GAGAGAAAAAAAAGGGAGTAAGCATAAAGCTTAGTAAGTTCGCATGTAAATAAATAACAACATCC
40874329 TAAATGAATTATCAAGAT
66 TAAATGAATTATCAAGAT
* * *
40874347 GAGAGAAAATAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTGCATGTAAATAAATAACAACATTC
1 GAGAGAAAAAAAAGGGAGTAAGCATAAAGCTTAGTAAGTTCGCATGTAAATAAATAACAACATCC
40874412 TAAATGAATTATCAAGAT
66 TAAATGAATTATCAAGAT
40874430 AACCTAAACC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (83 bp):
GAGAGAAAAAAAAGGGAGTAAGCATAAAGCTTAGTAAGTTCGCATGTAAATAAATAACAACATCC
TAAATGAATTATCAAGAT
Found at i:40874626 original size:52 final size:53
Alignment explanation
Indices: 40874540--40874743 Score: 176
Period size: 55 Copynumber: 3.8 Consensus size: 53
40874530 TTCCTTTTTA
* * *
40874540 AACTTACCATTGCAATGTCTTGACATGGTCTTACATGGTATCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTGCCTTATAG
* * * * * * *
40874592 AACTCACCATTGCCATGCCTTGGCATGGTTTTACATGGGATCTTTTCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-TTGCCTTATAG
** * * * * * *
40874646 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTCTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTAT-CTTGCCTTATAG
* * *
40874701 AACTTACCAAATGTCATGCCTTGGCATGGTCTTACTTGGTATC
1 AACTTACC-AATGCCATGCCTTGACATGGTCTTACATGGTATC
40874744 CTTAAGCCCT
Statistics
Matches: 116, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
52 36 0.31
53 8 0.07
54 7 0.06
55 64 0.55
56 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTGCCTTATAG
Found at i:40884091 original size:43 final size:44
Alignment explanation
Indices: 40884038--40884126 Score: 162
Period size: 43 Copynumber: 2.0 Consensus size: 44
40884028 GAATCACTTA
*
40884038 CTACGAAGCTTGGAAGCTTGACAAAACCCT-GCTATGAAGAACC
1 CTACAAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACC
40884081 CTACAAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACC
1 CTACAAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACC
40884125 CT
1 CT
40884127 TGAAATTTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 29 0.66
44 15 0.34
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (44 bp):
CTACAAAGCTTGGAAGCTTGACAAAACCCTAGCTATGAAGAACC
Found at i:40885661 original size:46 final size:47
Alignment explanation
Indices: 40885559--40885731 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 47
40885549 TTATTTGTGT
* * * *
40885559 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCCAATGTAAGACATGTCTAGGACATGGCATCGGCCTTGAGATGTA-A
* *
40885606 GCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTTGAGATGTAA
1 GCCAATGTAAGACATGTCTAGGACATGGCATCGGCCTTGAGATGTAA
* * * **
40885652 GCCAATGTAAGACATGTTTGGGACAT-GCATCAG-CTACAAGATGT--
1 GCCAATGTAAGACATGTCTAGGACATGGCATCGGCCT-TGAGATGTAA
*
40885696 GTCAATGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCCAATGTAAGA-CATGTCTAGGACATGGCATCGGC
40885732 ACGTGTGGAG
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 11 0.10
45 14 0.13
46 56 0.53
47 25 0.24
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAATGTAAGACATGTCTAGGACATGGCATCGGCCTTGAGATGTAA
Found at i:40896293 original size:13 final size:13
Alignment explanation
Indices: 40896275--40896303 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
40896265 TAATCTGTTA
40896275 TTTCTGTATCTAT
1 TTTCTGTATCTAT
40896288 TTTCTGTATCTAT
1 TTTCTGTATCTAT
40896301 TTT
1 TTT
40896304 GAGGTGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (13 bp):
TTTCTGTATCTAT
Found at i:40897281 original size:13 final size:13
Alignment explanation
Indices: 40897263--40897288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40897253 TGAATTTAAA
40897263 AAAAAAAAGAGAG
1 AAAAAAAAGAGAG
40897276 AAAAAAAAGAGAG
1 AAAAAAAAGAGAG
40897289 CATATGTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAG
Found at i:40898035 original size:65 final size:67
Alignment explanation
Indices: 40897931--40898129 Score: 330
Period size: 65 Copynumber: 3.0 Consensus size: 67
40897921 AAAAATATTT
*
40897931 AATTATTAGAAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTT-T-
1 AATTATTATAAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATA
*
40897994 GC
66 GA
40897996 AATTATTATAAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATA
1 AATTATTATAAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTAT-
*
40898061 ATA
65 AGA
*
40898064 AATTTTTATTAAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTAT
1 AATTATTA-TAAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTAT
40898129 A
65 A
40898130 ATAAATTTTG
Statistics
Matches: 126, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
65 61 0.48
66 1 0.01
68 8 0.06
69 56 0.44
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.46
Consensus pattern (67 bp):
AATTATTATAAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATA
GA
Found at i:40898066 original size:38 final size:38
Alignment explanation
Indices: 40898024--40898136 Score: 91
Period size: 38 Copynumber: 3.2 Consensus size: 38
40898014 AAATTGCACT
40898024 TAAATTATTAACATGTTGAATTTTACTTAATTTTATAA
1 TAAATTATTAACATGTTGAATTTTACTTAATTTTATAA
* ** * **
40898062 TAAATT-TT----TATT-AA-AATAATTAAATTGCACT--
1 TAAATTATTAACATGTTGAATTTTACTT-AATTTTA-TAA
40898093 TAAATTATTAACATGTTGAATTTTACTTAATTTTATAA
1 TAAATTATTAACATGTTGAATTTTACTTAATTTTATAA
40898131 TAAATT
1 TAAATT
40898137 TTGATTACTT
Statistics
Matches: 52, Mismatches: 12, Indels: 22
0.60 0.14 0.26
Matches are distributed among these distances:
31 10 0.19
32 9 0.17
33 4 0.08
36 4 0.08
37 9 0.17
38 16 0.31
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (38 bp):
TAAATTATTAACATGTTGAATTTTACTTAATTTTATAA
Found at i:40898115 original size:69 final size:69
Alignment explanation
Indices: 40897940--40898143 Score: 344
Period size: 69 Copynumber: 3.0 Consensus size: 69
40897930 TAATTATTAG
** *
40897940 AAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTT-T--GCAATTAT
1 AAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATAATAAATTTT
40898002 TA-T
66 TATT
40898005 AAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATAATAAATTTT
1 AAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATAATAAATTTT
40898070 TATT
66 TATT
40898074 AAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATAATAAATTTT
1 AAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATAATAAATTTT
*
40898139 GATT
66 TATT
40898143 A
1 A
40898144 CTTTCGATAG
Statistics
Matches: 131, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
65 53 0.40
66 1 0.01
68 7 0.05
69 70 0.53
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (69 bp):
AAAATAATTAAATTGCACTTAAATTATTAACATGTTGAATTTTACTTAATTTTATAATAAATTTT
TATT
Found at i:40902055 original size:28 final size:28
Alignment explanation
Indices: 40902023--40902091 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
40902013 GCGTAGATCA
40902023 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40902051 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
40902079 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
40902092 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 3 0.08
27 8 0.20
28 29 0.73
ACGTcount: A:0.45, C:0.28, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:40903929 original size:28 final size:28
Alignment explanation
Indices: 40903897--40903960 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
40903887 CCTCACGCCT
* *
40903897 GTGTGGTCCACACGGCCCACACACACTC
1 GTGTGGCCCACACGACCCACACACACTC
*
40903925 GTGTGGCCCACACGACCCACACACACCC
1 GTGTGGCCCACACGACCCACACACACTC
*
40903953 ATGTGGCC
1 GTGTGGCC
40903961 GGTACGCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.12
Consensus pattern (28 bp):
GTGTGGCCCACACGACCCACACACACTC
Found at i:40905792 original size:22 final size:21
Alignment explanation
Indices: 40905766--40905807 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
40905756 GTGAGTAATG
*
40905766 TGAACTGCGAATTGTGATATTA
1 TGAACTACGAATTGTG-TATTA
*
40905788 TGAACTATGAATTGTGTATT
1 TGAACTACGAATTGTGTATT
40905808 GTGTAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (21 bp):
TGAACTACGAATTGTGTATTA
Found at i:40906278 original size:17 final size:17
Alignment explanation
Indices: 40906258--40906305 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
40906248 GAATGAACTA
40906258 TTATTTTGCATGAAATG
1 TTATTTTGCATGAAATG
* * *
40906275 TTATTTGGTATGAATTG
1 TTATTTTGCATGAAATG
* *
40906292 ATATTTTACATGAA
1 TTATTTTGCATGAA
40906306 CAACTTACTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (17 bp):
TTATTTTGCATGAAATG
Found at i:40913736 original size:20 final size:20
Alignment explanation
Indices: 40913713--40913771 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
40913703 TAAACATGGT
*
40913713 ATGTATGATATACACATGAA
1 ATGTATGATATGCACATGAA
* *
40913733 ATGTATGATATGCACATTAT
1 ATGTATGATATGCACATGAA
40913753 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
40913772 TGTATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:40913847 original size:24 final size:24
Alignment explanation
Indices: 40913821--40913941 Score: 181
Period size: 24 Copynumber: 5.0 Consensus size: 24
40913811 GAGGAAGTGC
*
40913821 AAAAGGGCTTATGCCCCAGTTATCA
1 AAAAGGGCTTATGCCCCAGTTAT-T
40913846 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
40913870 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
40913894 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
40913918 AAAAGAGG-TTAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
40913942 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
24 57 0.63
25 33 0.37
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:40921994 original size:20 final size:20
Alignment explanation
Indices: 40921971--40922009 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
40921961 TAAACATGGT
40921971 ATGTATGATATCCACATGAC
1 ATGTATGATATCCACATGAC
*
40921991 ATGTATGATATGCACATGA
1 ATGTATGATATCCACATGA
40922010 TGTATTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGTATGATATCCACATGAC
Found at i:40922086 original size:24 final size:24
Alignment explanation
Indices: 40922060--40922214 Score: 238
Period size: 24 Copynumber: 6.4 Consensus size: 24
40922050 GAGGAAGTGC
*
40922060 AAAAGGGCTTATGCCCCAGTTATCA
1 AAAAGGGCTTATGCCCCAGTTAT-T
*
40922085 AAAATGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
40922109 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
40922133 AAAAGGGCTTATGCCCTAGTCATT
1 AAAAGGGCTTATGCCCCAGTTATT
40922157 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
40922181 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
40922205 AAAAGAGGCT
1 AAAAG-GGCT
40922215 AGGCCTCTAG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
24 93 0.78
25 26 0.22
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:40923290 original size:26 final size:26
Alignment explanation
Indices: 40923259--40923308 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
40923249 TCTCACCCCA
40923259 ATTTTACCCCCAATAAAATTTTGACG
1 ATTTTACCCCCAATAAAATTTTGACG
* *
40923285 ATTTTACCCTCAATAGAATTTTGA
1 ATTTTACCCCCAATAAAATTTTGA
40923309 AAAAATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (26 bp):
ATTTTACCCCCAATAAAATTTTGACG
Found at i:40927056 original size:16 final size:16
Alignment explanation
Indices: 40927037--40927067 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40927027 CTTCTTCACT
40927037 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
40927053 TACTTACTTACTTAA
1 TACTCACTTACTTAA
40927068 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:40927073 original size:20 final size:20
Alignment explanation
Indices: 40927034--40927073 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
40927024 AAACTTCTTC
* *
40927034 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
40927054 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
40927074 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:40927442 original size:55 final size:54
Alignment explanation
Indices: 40927260--40927514 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
40927250 AGACGGGTAC
* ** * * *
40927260 CTTACCATTGCCATAACTTGTCATGGTCTTACGTGGTAACCTT---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
40927310 CTTACC-ATCGCCATGTCTCGACATGGTCTTACATGGTATCCTTG-CTTATG-AA
1 CTTACCAAT-GCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
40927362 CTCACCAATGCCATGCCTTCG-CATGGTCTTACATGGGA-CCTTTGCCTTATGGAAA
1 CTTACCAATGCCATGCCTT-GACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
40927417 CTTATCAATGCCATGTCTTGACATGGTCTCACATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
40927470 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
40927515 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
49 1 0.01
50 34 0.20
51 2 0.01
52 36 0.21
53 14 0.08
54 9 0.05
55 70 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:40927451 original size:107 final size:110
Alignment explanation
Indices: 40927306--40927507 Score: 288
Period size: 107 Copynumber: 1.9 Consensus size: 110
40927296 TAACCTTTTT
* * *
40927306 GAAACTTACCATCGCCATGTCTCGACATGGTCTTACATGGTATCCTTG-CTTATG-AA-CTCACC
1 GAAACTTACAATCGCCATGTCTCGACATGGTCTCACATGATATCCTTGCCTTA-GAAACCTCACC
40927368 AA-TGCCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATG
65 AATTGCCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATG
* *
40927413 GAAACTTATCAAT-GCCATGTCTTGACATGGTCTCACATGATATCCTTGCCTTAGAAACCTTACC
1 GAAACTTA-CAATCGCCATGTCTCGACATGGTCTCACATGATATCCTTGCCTTAGAAACCTCACC
* *
40927477 AATTTCCATGCCTTGGCATGGTCTTACATGG
65 AATTGCCATGCCTTCGCATGGTCTTACATGG
40927508 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
107 41 0.49
108 9 0.11
109 7 0.08
110 26 0.31
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (110 bp):
GAAACTTACAATCGCCATGTCTCGACATGGTCTCACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATG
Found at i:40927884 original size:30 final size:30
Alignment explanation
Indices: 40927850--40927908 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
40927840 TTCTTGACTC
*
40927850 AAACTTTGACAAAATTACA-TTTTTGCCCCT
1 AAACTTTCACAAAATTACACTTTTT-CCCCT
* *
40927880 AAACTTTCACATATTTACACTTTTTCCCC
1 AAACTTTCACAAAATTACACTTTTTCCCC
40927909 AAGGCCCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (30 bp):
AAACTTTCACAAAATTACACTTTTTCCCCT
Found at i:40930976 original size:48 final size:47
Alignment explanation
Indices: 40930854--40931079 Score: 226
Period size: 46 Copynumber: 4.8 Consensus size: 47
40930844 TTAATATTGG
* ** * *
40930854 GAGATATGTATGCTAGTGTAAGACATGTCTAAGACATGCATCTGCCAC
1 GAGATAT-TAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
* * *
40930902 -A-ATATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTC
1 GAGATATTA-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
* * * *
40930948 GAGATATTTAAGCTAGTGTAAGGCATGTCTGGGACATGCATCAGCATT
1 GAGATA-TTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
* * * *
40930996 GAGACGA--GAGCTAGTGTAAGACATGTTTGGGACATGCATTGGCCTC
1 GAGA-TATTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
*
40931042 GAGATAGTTAAGCTAGTGTAAGACCTGTCTGGGACATG
1 GAGATA-TTAAGCTAGTGTAAGACATGTCTGGGACATG
40931080 GTGTCAGCTT
Statistics
Matches: 145, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 73 0.50
47 2 0.01
48 65 0.45
49 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (47 bp):
GAGATATTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
Found at i:40931015 original size:94 final size:94
Alignment explanation
Indices: 40930854--40931079 Score: 292
Period size: 94 Copynumber: 2.4 Consensus size: 94
40930844 TTAATATTGG
* * ** * * *
40930854 GAGATATGTATGCTAGTGTAAGACATGTCTAAGACATGCATCTGCCACAATATGAGAGCCAGTGT
1 GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACGAGAGCCAGTGT
40930919 AAGACATGTCTAGGACATGCATCGGCCTC
66 AAGACATGTCTAGGACATGCATCGGCCTC
* ** *
40930948 GAGATATTTAAGCTAGTGTAAGGCATGTCTGGGACATGCATCAG-CATTGAGACGAGAGCTAGTG
1 GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-CAAGACGAGAGCCAGTG
* * *
40931012 TAAGACATGTTTGGGACATGCATTGGCCTC
65 TAAGACATGTCTAGGACATGCATCGGCCTC
* *
40931042 GAGATAGTTAAGCTAGTGTAAGACCTGTCTGGGACATG
1 GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATG
40931080 GTGTCAGCTT
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
93 2 0.02
94 112 0.98
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (94 bp):
GAGATATTTAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGACGAGAGCCAGTGT
AAGACATGTCTAGGACATGCATCGGCCTC
Found at i:40931166 original size:49 final size:50
Alignment explanation
Indices: 40931100--40931228 Score: 172
Period size: 49 Copynumber: 2.6 Consensus size: 50
40931090 GTTGTGTGTC
* * *
40931100 AGTGTAAAACCTGTCTGGGACATGGCATCGAAAC-CAATAGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGATATGGCATCGAAACTCAATAGATGAAAGCT
** * *
40931149 AGTGTAAGACCTGTCTGGGATATGGCATC-AGCCTCACTATATGAAAGCT
1 AGTGTAAGACCTGTCTGGGATATGGCATCGAAACTCAATAGATGAAAGCT
40931198 AGTGTAAGACCATGTCTGGGATATGGCATCG
1 AGTGTAAGACC-TGTCTGGGATATGGCATCG
40931229 GCATCTTAAC
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 2 0.03
49 50 0.71
50 18 0.26
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCTGTCTGGGATATGGCATCGAAACTCAATAGATGAAAGCT
Found at i:40937881 original size:43 final size:42
Alignment explanation
Indices: 40937815--40937906 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 42
40937805 AAATCGTACA
**
40937815 ATGCCAACGTCCCAGACGTGGTCTTACATC-TAGCCACATATCG
1 ATGCC-ACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
40937858 ATGCCACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
40937901 ATGCCA
1 ATGCCA
40937907 TGGTCTTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
42 4 0.09
43 39 0.89
44 1 0.02
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:40939496 original size:41 final size:41
Alignment explanation
Indices: 40939451--40939534 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
40939441 ATATCTACGA
40939451 AGCATCGAGACATGAAATACATTGTGGATCTCTTCTAACTC
1 AGCATCGAGACATGAAATACATTGTGGATCTCTTCTAACTC
*
40939492 AGCATCGAGACATGAAATACATTGTGGATCTTTTCTAACTC
1 AGCATCGAGACATGAAATACATTGTGGATCTCTTCTAACTC
40939533 AG
1 AG
40939535 GTGGCAACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
AGCATCGAGACATGAAATACATTGTGGATCTCTTCTAACTC
Found at i:40941357 original size:27 final size:27
Alignment explanation
Indices: 40940908--40941357 Score: 532
Period size: 27 Copynumber: 16.7 Consensus size: 27
40940898 CCAAAGTACT
*
40940908 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
40940935 CT-TAGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
* *
40940962 CTAGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
40940989 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
* *
40941016 CTTGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* * **
40941043 CTTGATTTATAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
** *
40941070 CTCGATTTGTAAAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
40941097 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
40941124 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
* *
40941151 CTCGATTTACAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* * **
40941178 C-CAATTTACATAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
40941204 CCCGATTTACATAATTA-TCGTTTTACC
1 CTCGATTTACAGAATTACT-GTTTTACC
* *
40941231 CTTGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
**
40941258 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
40941285 CTCGATTTATAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
40941312 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
40941339 CTCGATTTACAAAATTACT
1 CTCGATTTACAGAATTACT
40941358 AAAATACCCT
Statistics
Matches: 367, Mismatches: 47, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
26 26 0.07
27 338 0.92
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACTGTTTTACC
Found at i:40941393 original size:81 final size:81
Alignment explanation
Indices: 40940874--40941394 Score: 262
Period size: 81 Copynumber: 6.4 Consensus size: 81
40940864 CCAATTACTG
* * * * * *
40940874 AAATGCCCTCGACTTGTAAAATTACCA-AAGTACTCTCGATTTACAGAATTACCGTTTTACCCT-
1 AAATACCCTCGATTTATAGAATTACCACAA-TACCCTTGATTTACAGAATTACCGTTTTACCCTC
* * *
40940937 TAGTTTACAGAATTACTA
65 GA-TTTACAAAATTACCA
*** * * **** * ** *
40940955 TTTTACCCTAGATTTACAGAATTACCGTTTTACCC-TCAGTTTACAGAATTATTGTTTTACCCTT
1 AAATACCCTCGATTTATAGAATTACCACAATACCCTTGA-TTTACAGAATTACCGTTTTACCCTC
* * **
40941019 GATTTATAGAATTACTG
65 GATTTACAAAATTACCA
*** * *** * ** * *
40941036 TTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTCG
1 AAATACCCTCGATTTATAGAATTACCACAATACCCTTGATTTACAGAATTACCGTTTTACCCTCG
* *
40941101 ATTTACAGAATTACCG
66 ATTTACAAAATTACCA
*** * * *** * *
40941117 TTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCC-C
1 AAATACCCTCGA-TTTATAGAATTACCACAATACCCTTGATTTACAGAATTACCGTTTTACCCTC
* *
40941180 AATTTACATAATTACCA
65 GATTTACAAAATTACCA
*** * * * * ****
40941197 TTTTACCCCCGATTTACATAATTATCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCG
1 AAATACCCTCGATTTATAGAATTACCACAATACCCTTGATTTACAGAATTACCGTTTTACCCTCG
*
40941262 ATTTACAGAATTACCA
66 ATTTACAAAATTACCA
*** * *** *
40941278 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCG
1 AAATACCCTCGATTTATAGAATTACCACAATACCCTTGATTTACAGAATTACCGTTTTACCCTCG
*
40941343 ATTTACAAAATTACTA
66 ATTTACAAAATTACCA
* * * *
40941359 AAATACCCTTGGTTTGT-GAAATTACCGCAATACCCT
1 AAATACCCTCGATTTATAG-AATTACCACAATACCCT
40941395 CAATTTGTAA
Statistics
Matches: 362, Mismatches: 70, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
80 71 0.20
81 289 0.80
82 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (81 bp):
AAATACCCTCGATTTATAGAATTACCACAATACCCTTGATTTACAGAATTACCGTTTTACCCTCG
ATTTACAAAATTACCA
Found at i:40942687 original size:9 final size:9
Alignment explanation
Indices: 40942673--40942749 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
40942663 TTTTATAAAC
40942673 ATGATATGT
1 ATGATATGT
*
40942682 ATGATATGCAC
1 ATGATATG--T
40942693 ATGATATGT
1 ATGATATGT
*
40942702 ATGATATGCAC
1 ATGATATG--T
*
40942713 ATGACATGT
1 ATGATATGT
*
40942722 ATGATATGCAC
1 ATGATATG--T
40942733 ATGATATGT
1 ATGATATGT
40942742 ATGATATG
1 ATGATATG
40942750 CACACGAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:40942698 original size:11 final size:11
Alignment explanation
Indices: 40942682--40942753 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
40942672 CATGATATGT
40942682 ATGATATGCAC
1 ATGATATGCAC
*
40942693 ATGATATG--T
1 ATGATATGCAC
40942702 ATGATATGCAC
1 ATGATATGCAC
* *
40942713 ATGACATG--T
1 ATGATATGCAC
40942722 ATGATATGCAC
1 ATGATATGCAC
*
40942733 ATGATATG--T
1 ATGATATGCAC
40942742 ATGATATGCAC
1 ATGATATGCAC
40942753 A
1 A
40942754 CGAAATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:40942761 original size:20 final size:20
Alignment explanation
Indices: 40942671--40942753 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
40942661 ATTTTTATAA
40942671 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
40942691 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
40942711 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
40942731 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
40942751 ACA
1 ACA
40942754 CGAAATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:40942864 original size:24 final size:23
Alignment explanation
Indices: 40942808--40942975 Score: 212
Period size: 24 Copynumber: 7.0 Consensus size: 23
40942798 GAGGAAGTGA
40942808 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
40942831 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
40942854 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
40942878 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
40942902 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
40942925 AAAAAAAGGCTTTTGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTA-T
*
40942951 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
40942975 A
1 A
40942976 TGAAAAGCAG
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
23 43 0.34
24 55 0.43
25 29 0.23
26 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:40942877 original size:47 final size:47
Alignment explanation
Indices: 40942808--40942975 Score: 214
Period size: 47 Copynumber: 3.5 Consensus size: 47
40942798 GAGGAAGTGA
*
40942808 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
40942854 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
40942902 TAAAGGGCTTATGCCCCAGTTATAAAAAAAGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAAGGGCTTATGCCCCAGTTA-T
*
40942951 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
40942976 TGAAAAGCAG
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
47 45 0.42
48 40 0.37
49 11 0.10
50 11 0.10
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:40943203 original size:31 final size:31
Alignment explanation
Indices: 40943167--40943230 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
40943157 CGTTTACAGT
* *
40943167 AAAGGCTTCGGCCTAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
40943198 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
40943229 AA
1 AA
40943231 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:40949412 original size:35 final size:35
Alignment explanation
Indices: 40949373--40949443 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
40949363 TCGATAAGTA
40949373 TATCTGAGTAATCATTGAGTGGTATCGATTGTAGG
1 TATCTGAGTAATCATTGAGTGGTATCGATTGTAGG
40949408 TATCTGAGTAATCATTGAGTGGTATCGATTGTAGG
1 TATCTGAGTAATCATTGAGTGGTATCGATTGTAGG
40949443 T
1 T
40949444 TCATGGTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.38
Consensus pattern (35 bp):
TATCTGAGTAATCATTGAGTGGTATCGATTGTAGG
Found at i:40957347 original size:14 final size:16
Alignment explanation
Indices: 40957328--40957360 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
40957318 TTCAATCTAT
40957328 TTCCCATAT-TAT-CA
1 TTCCCATATGTATCCA
40957342 TTCCCATATGTATCCA
1 TTCCCATATGTATCCA
40957358 TTC
1 TTC
40957361 ACTAGGCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 3 0.18
16 5 0.29
ACGTcount: A:0.24, C:0.30, G:0.03, T:0.42
Consensus pattern (16 bp):
TTCCCATATGTATCCA
Found at i:40967037 original size:93 final size:93
Alignment explanation
Indices: 40966925--40967096 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
40966915 CGCCCATAAG
* *
40966925 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
40966990 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
40967018 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
40967083 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40967097 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:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40967112 original size:46 final size:46
Alignment explanation
Indices: 40966918--40967098 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
40966908 TGTAACCCGC
* * * *
40966918 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
40966964 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
40967014 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
40967057 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
40967099 AACCATCCTA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:40968914 original size:31 final size:30
Alignment explanation
Indices: 40968879--40968941 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
40968869 CGTTTACAGT
40968879 AAAGGATTCGGCCCAGTAATATGAAACATGA
1 AAAGGATTCGGCCCAGTAATAT-AAACATGA
* * *
40968910 AAAGGCTTCGGCCCAGTATTATAAATATGA
1 AAAGGATTCGGCCCAGTAATATAAACATGA
40968940 AA
1 AA
40968942 TACGAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (30 bp):
AAAGGATTCGGCCCAGTAATATAAACATGA
Found at i:40971620 original size:38 final size:38
Alignment explanation
Indices: 40971569--40971920 Score: 510
Period size: 38 Copynumber: 9.3 Consensus size: 38
40971559 GGCACGAAGG
* * * * *
40971569 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
40971607 CCCGGATCTAATACCAGCACGAAGTCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * **
40971645 CCCGGATATTTTACCATCACGAAGCCTGCGAGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCG-GGATTTAA
*
40971684 GCCCGGATATAATACCAGCACGAAGCCTGCGGGGTTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
40971723 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
40971761 CCCGGATAT--TACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
40971797 TCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
40971835 CCCGGATATATTACCAGCACGAACCCAGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
40971873 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
40971911 CCCGGATATA
1 CCCGGATATA
40971921 CATCGAATAT
Statistics
Matches: 283, Mismatches: 27, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
36 35 0.12
38 209 0.74
39 12 0.04
40 27 0.10
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:40977650 original size:41 final size:41
Alignment explanation
Indices: 40977605--40977722 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
40977595 TGAAAGATAA
40977605 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
40977646 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40977676 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40977717 ATGTAG
1 ATGTAG
40977723 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:40977661 original size:71 final size:71
Alignment explanation
Indices: 40977573--40977736 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
40977563 GAGATGTATC
40977573 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40977638 AGGACA
66 AGGACA
40977644 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40977709 AGGACA
66 AGGACA
40977715 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
40977737 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:40985230 original size:41 final size:41
Alignment explanation
Indices: 40985185--40985302 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
40985175 TGAAAGATAA
40985185 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
40985226 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40985256 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
40985297 ATGTAG
1 ATGTAG
40985303 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:40985241 original size:71 final size:71
Alignment explanation
Indices: 40985153--40985316 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
40985143 GAGATGTATC
40985153 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40985218 AGGACA
66 AGGACA
40985224 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
40985289 AGGACA
66 AGGACA
40985295 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
40985317 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:40987929 original size:51 final size:49
Alignment explanation
Indices: 40987802--40988039 Score: 282
Period size: 51 Copynumber: 4.8 Consensus size: 49
40987792 TATTGTGAGG
* * * * * *
40987802 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGGTTATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAATTGA
**
40987850 TGGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAA-TT-GA
* * *
40987901 TCACATGTGTAGTACTAAGTGTAGGCTACTATCCGTACCCGATAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAA--TTGA
* * *
40987952 TCACATGTGTAGTACTAAGTGCAGGCTACTA-CCTGTACCGGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGC-GTACCTGATAATTGA
*
40988001 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
40988040 AAATAGCTTT
Statistics
Matches: 165, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
48 32 0.19
49 43 0.26
50 5 0.03
51 83 0.50
52 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAATTGA
Found at i:40988050 original size:100 final size:102
Alignment explanation
Indices: 40987853--40988050 Score: 285
Period size: 100 Copynumber: 2.0 Consensus size: 102
40987843 TTATTGGTGG
* *
40987853 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACATGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATCCGTACCGGATAACTTCGATCACATGTGTAGTACTA
* **
40987918 AGTGTAGGCTACTATCCGTACCCGATAACTTTGATCA
66 AGTGCAGGCTACTATCCGTACCAAATAACTTTGATCA
* *
40987955 CATGTGTAGTACTAAGTGCAGGCTACTA-CCTGTACCGGATAA-TT-GGTCGCATGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTATCC-GTACCGGATAACTTCGATCACATGTGTAGTACT
* *
40988017 AAGTGCAGGCTACTATGCGTACCAAATAGCTTTG
65 AAGTGCAGGCTACTATCCGTACCAAATAACTTTG
40988051 GGTACAAGTG
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 45 0.52
101 3 0.03
102 38 0.44
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (102 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATCCGTACCGGATAACTTCGATCACATGTGTAGTACTA
AGTGCAGGCTACTATCCGTACCAAATAACTTTGATCA
Found at i:40988074 original size:100 final size:102
Alignment explanation
Indices: 40987856--40988077 Score: 238
Period size: 100 Copynumber: 2.2 Consensus size: 102
40987846 TTGGTGGCAT
* * * *
40987856 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACATGTGTAGTACTAAGT
1 GTGTAGAAATAAGTGCAGGCTACTATCCGTACCGGATAACTTCGATCACATGTGTAGTACTAAGT
* ** *
40987921 GTAGGCTACTATCCGTACCCGATAACTTTGATCACAT
66 GCAGGCTACTATCCGTACCAAATAACTTTGATCACAA
* * * *
40987958 GTGTAGTACTAAGTGCAGGCTACTA-CCTGTACCGGATAA-TT-GGTCGCATGTGTAGTACTAAG
1 GTGTAGAAATAAGTGCAGGCTACTATCC-GTACCGGATAACTTCGATCACATGTGTAGTACTAAG
* * *
40988020 TGCAGGCTACTATGCGTACCAAATAGCTTTGGGT-ACAA
65 TGCAGGCTACTATCCGTACCAAATAACTTT-GATCACAA
*
40988058 GTGT-GAAAATATGTGCAGGC
1 GTGTAG-AAATAAGTGCAGGC
40988078 AATTGAGTAT
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
99 1 0.01
100 62 0.60
101 5 0.05
102 35 0.34
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (102 bp):
GTGTAGAAATAAGTGCAGGCTACTATCCGTACCGGATAACTTCGATCACATGTGTAGTACTAAGT
GCAGGCTACTATCCGTACCAAATAACTTTGATCACAA
Found at i:40996319 original size:53 final size:53
Alignment explanation
Indices: 40996250--40996354 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
40996240 TTCCTTTTTA
* * * *
40996250 AACTTACCATTTCCATGTCTT-GACATAGTCTTACATGGTATCCTTACCTTATG
1 AACTCACCATTACCATGCCTTCG-CATAGTCTTACATGGAATCCTTACCTTATG
* * *
40996303 AACTCACCATTACCATGCCTTCGCATGGTCTTACATGGAATCTTTGCCTTAT
1 AACTCACCATTACCATGCCTTCGCATAGTCTTACATGGAATCCTTACCTTAT
40996355 CATAGTATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 43 0.98
54 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (53 bp):
AACTCACCATTACCATGCCTTCGCATAGTCTTACATGGAATCCTTACCTTATG
Found at i:41000164 original size:43 final size:43
Alignment explanation
Indices: 41000103--41000189 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
41000093 ACCTAGCTAC
41000103 CTCATAATGTCTCATAGCTCTCTTGTACACATGGTATACATCT
1 CTCATAATGTCTCATAGCTCTCTTGTACACATGGTATACATCT
*
41000146 CTCATAATGTCTCGTAGCTCTCTTGTACACATGGTATACATCT
1 CTCATAATGTCTCATAGCTCTCTTGTACACATGGTATACATCT
41000189 C
1 C
41000190 GTATTACACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (43 bp):
CTCATAATGTCTCATAGCTCTCTTGTACACATGGTATACATCT
Found at i:41014224 original size:17 final size:18
Alignment explanation
Indices: 41014202--41014235 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41014192 CATTCTAGAA
41014202 GCTTTA-AATATGAAATT
1 GCTTTAGAATATGAAATT
*
41014219 GCTTTAGATTATGAAAT
1 GCTTTAGAATATGAAAT
41014236 AGAGGTTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (18 bp):
GCTTTAGAATATGAAATT
Found at i:41016397 original size:24 final size:24
Alignment explanation
Indices: 41016369--41016415 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
41016359 GCAATTCTGC
41016369 TACAAATACTATTTAGTACCGAAA
1 TACAAATACTATTTAGTACCGAAA
*
41016393 TACAAATACTGTTTAGTACCGAA
1 TACAAATACTATTTAGTACCGAA
41016416 TTGGTACGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (24 bp):
TACAAATACTATTTAGTACCGAAA
Found at i:41017981 original size:43 final size:43
Alignment explanation
Indices: 41017910--41017995 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
41017900 GATATATGTC
* * * * *
41017910 GCATCTGAGCTCGTTCAGTACTCTGAGTTTATTATGGATGCGA
1 GCATCCGAGCTCGTTCAGTACTCCGAGTTCATAATAGATGCGA
* **
41017953 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATAGATGCGA
1 GCATCCGAGCTCGTTCAGTACTCCGAGTTCATAATAGATGCGA
41017996 TACATGTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
GCATCCGAGCTCGTTCAGTACTCCGAGTTCATAATAGATGCGA
Found at i:41020381 original size:2 final size:2
Alignment explanation
Indices: 41020374--41020414 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
41020364 CTCTTGCACG
41020374 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41020415 GTTTGCACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:41021277 original size:40 final size:40
Alignment explanation
Indices: 41021128--41021313 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
41021118 TCGAATGATG
* * *
41021128 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
41021168 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
**
41021208 TCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41021248 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
41021289 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41021314 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41029256 original size:40 final size:40
Alignment explanation
Indices: 41029199--41029344 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 40
41029189 TCGAATGATG
*
41029199 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACTAAA
* * *
41029239 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTGACTAAA
* *
41029279 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTA-AA
* *
41029320 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41029345 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:41029351 original size:80 final size:80
Alignment explanation
Indices: 41029199--41029367 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 80
41029189 TCGAATGATG
* *
41029199 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
41029264 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
41029279 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTATAACCGGGCTATG-TCCCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATAACCGGACTAAGAT-CCGAAGGCA
*
41029341 TTTGAACGAGTAGCTATA
63 TTTGAACGAGTAGCTAAA
41029359 TCC-GGTTAA
1 TCCGGGTTAA
41029368 ACTCCGAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
79 9 0.12
80 59 0.78
81 8 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:41029358 original size:40 final size:40
Alignment explanation
Indices: 41029200--41029363 Score: 122
Period size: 40 Copynumber: 4.1 Consensus size: 40
41029190 CGAATGATGT
** * *
41029200 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGCT-ACTATAA
* ** *
41029240 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* **
41029279 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
* * *
41029320 CCGGGCTATGTCCCGAAGGTATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTA-CTATAA
41029360 CCGG
1 CCGG
41029364 TTAAACTCCG
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
39 4 0.04
40 90 0.86
41 11 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
Found at i:41039992 original size:43 final size:43
Alignment explanation
Indices: 41039935--41040020 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
41039925 GATATATGTG
* * *
41039935 GCATCCAAGTTCGTTGAGTAGTCCGAGATCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGTAGCCCGAGATCATAATGGATGCGA
* * *
41039978 GCATCCGAGCTCGTTGAGTGGCCCGAGTTCATAATGGATGCGA
1 GCATCCAAGCTCGTTGAGTAGCCCGAGATCATAATGGATGCGA
41040021 TACATGTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGTAGCCCGAGATCATAATGGATGCGA
Found at i:41042326 original size:40 final size:39
Alignment explanation
Indices: 41042282--41042474 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
41042272 GTTCAAAACA
* * ** * *
41042282 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
41042322 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
41042362 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
41042401 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
41042440 CCTTCGGGCTTAGCCCAGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
41042475 TTCATTCACA
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 98 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:41042393 original size:39 final size:39
Alignment explanation
Indices: 41042312--41042474 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
41042302 TATGGTAACC
* *
41042312 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
41042352 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
41042391 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
41042430 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
41042469 CGCACA
1 CGCACA
41042475 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 98 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:41048069 original size:40 final size:39
Alignment explanation
Indices: 41048025--41048217 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
41048015 GTTCAAAACA
* * ** * *
41048025 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
41048065 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
41048105 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
41048144 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
41048183 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
41048218 TTCATCACAT
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:41048136 original size:39 final size:39
Alignment explanation
Indices: 41048055--41048217 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
41048045 TATGGTAACC
* *
41048055 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
41048095 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
41048134 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
41048173 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
41048212 CGCACA
1 CGCACA
41048218 TTCATCACAT
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:41057549 original size:28 final size:28
Alignment explanation
Indices: 41057484--41057584 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
41057474 ATAGTGAATC
*
41057484 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
41057513 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41057541 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
41057571 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41057585 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41065499 original size:63 final size:63
Alignment explanation
Indices: 41065400--41065520 Score: 215
Period size: 63 Copynumber: 1.9 Consensus size: 63
41065390 GTTAGATAGG
* *
41065400 TTTTCTCGTGAGGTTTCAATTGTCTCGAGGTATAAGCCACAATTGTACCCTCTTGCATCTAGT
1 TTTTCTCATGAGGTTTCAATTGTCTCGAGGTATAAGCCACAATTGTACCCTATTGCATCTAGT
*
41065463 TTTTCTCATGAGGTTTCAATTGTCTCGAGGTATAAGCCACAATTTTACCCTATTGCAT
1 TTTTCTCATGAGGTTTCAATTGTCTCGAGGTATAAGCCACAATTGTACCCTATTGCAT
41065521 AATTACACAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.39
Consensus pattern (63 bp):
TTTTCTCATGAGGTTTCAATTGTCTCGAGGTATAAGCCACAATTGTACCCTATTGCATCTAGT
Found at i:41071276 original size:49 final size:49
Alignment explanation
Indices: 41071220--41071630 Score: 720
Period size: 49 Copynumber: 8.4 Consensus size: 49
41071210 TATCAAAATT
41071220 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
41071269 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
41071318 TGTGAAAAG-GTATATATATGTGATAAGGCCTCATGGCCGATGTGATGAA
1 TGTG-AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
41071367 TGTGAAAGTGTATATATATATGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
41071416 TGTGAAAAG-GTATATATATGTGATAAGGCCTCATGGCCGATGTGATGAA
1 TGTG-AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
41071465 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
41071514 TGTGAAAAG-GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTG-AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
41071563 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
41071612 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
41071631 ATGTGGTAAA
Statistics
Matches: 345, Mismatches: 11, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
48 11 0.03
49 322 0.93
50 12 0.03
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:41071758 original size:37 final size:36
Alignment explanation
Indices: 41071699--41071790 Score: 139
Period size: 37 Copynumber: 2.4 Consensus size: 36
41071689 AACTTGGAAA
*
41071699 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACTCGATGACTACGTGTGGAGAT
41071737 TATGTCCGGGTACGACTCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACTCGATGACTACGTGTGGAGAT
41071774 TATGTCCGGGTAAGACT
1 TATGTCCGGGT-AGACT
41071791 TCGTAATAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 1 0.02
37 45 0.88
38 5 0.10
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (36 bp):
TATGTCCGGGTAGACTCGATGACTACGTGTGGAGAT
Found at i:41077789 original size:3 final size:3
Alignment explanation
Indices: 41077773--41077806 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
41077763 TGAAATCTTC
* *
41077773 ATT ATT ATG GTT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
41077807 GTTTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:41081310 original size:20 final size:18
Alignment explanation
Indices: 41081285--41081321 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
41081275 ACCTAACACA
41081285 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
41081305 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
41081322 CAACATCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:41082918 original size:18 final size:18
Alignment explanation
Indices: 41082873--41082929 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
41082863 TGATTGATAA
41082873 AATGATTTTTATGAAAAC
1 AATGATTTTTATGAAAAC
* * **
41082891 GATGACTTTTTTTGAAAGT
1 AATGA-TTTTTATGAAAAC
* *
41082910 AATGATTTTCAAGAAAAC
1 AATGATTTTTATGAAAAC
41082928 AA
1 AA
41082930 AATTGATTTA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (18 bp):
AATGATTTTTATGAAAAC
Found at i:41086945 original size:41 final size:41
Alignment explanation
Indices: 41086900--41087017 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
41086890 TGAAAGATAA
41086900 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41086941 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41086971 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41087012 ATGTAG
1 ATGTAG
41087018 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41086956 original size:71 final size:71
Alignment explanation
Indices: 41086868--41087031 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41086858 GAGATGTATC
41086868 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41086933 AGGACA
66 AGGACA
41086939 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41087004 AGGACA
66 AGGACA
41087010 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41087032 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41094515 original size:41 final size:41
Alignment explanation
Indices: 41094470--41094587 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
41094460 TGAAAGATAA
41094470 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41094511 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41094541 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41094582 ATGTAG
1 ATGTAG
41094588 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41094526 original size:71 final size:71
Alignment explanation
Indices: 41094438--41094601 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41094428 GAGATGTATC
41094438 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41094503 AGGACA
66 AGGACA
41094509 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41094574 AGGACA
66 AGGACA
41094580 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41094602 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41097053 original size:40 final size:40
Alignment explanation
Indices: 41097009--41097249 Score: 410
Period size: 40 Copynumber: 6.0 Consensus size: 40
41096999 AGAATTGAGA
*
41097009 GTTATATCCGGGCTATGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
41097049 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
*
41097089 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCTTGCTGGT
1 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
* *
41097129 GTTATATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
*
41097169 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
* * *
41097209 GTTATATCCGAGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
41097249 G
1 G
41097250 ATGTGTATTC
Statistics
Matches: 191, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 191 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (40 bp):
GTTATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGT
Found at i:41100942 original size:48 final size:48
Alignment explanation
Indices: 41100871--41101209 Score: 579
Period size: 48 Copynumber: 7.0 Consensus size: 48
41100861 AGATAAATAT
*
41100871 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAACATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
41100919 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
41100967 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
41101015 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
41101063 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTAAAATATATAAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT--ATGAG
*
41101113 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
41101161 ATATGTATATGTGGTAAAGCCGAATGGCTAGTATGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
41101209 A
1 A
41101210 GGTGTGTATA
Statistics
Matches: 281, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 235 0.84
50 46 0.16
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:41105194 original size:27 final size:26
Alignment explanation
Indices: 41105164--41105356 Score: 187
Period size: 27 Copynumber: 7.2 Consensus size: 26
41105154 TAACAAAGAG
*
41105164 AAATTATCGAAGTACCCTCTGTTTGTA
1 AAATTATCGAAATACCCTC-GTTTGTA
*
41105191 AAATTATCGAAATACCCTCGGTT-TA
1 AAATTATCGAAATACCCTCGTTTGTA
* *
41105216 CAACATTA-CTGAAATACCCTGGATTTATA
1 -AA-ATTATC-GAAATACCCTCG-TTTGTA
* * * *
41105245 AAATTACCAAAATACTCTCGATTGTA
1 AAATTATCGAAATACCCTCGTTTGTA
41105271 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCG-TTTGTA
41105298 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTATCGAAATACCCTC-G-TTTGTA
* *
41105325 AAATTATCGAAATACCCTCGATTGTG
1 AAATTATCGAAATACCCTCGTTTGTA
41105351 AAATTA
1 AAATTA
41105357 CTAAATGATA
Statistics
Matches: 141, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
25 3 0.02
26 37 0.26
27 92 0.65
28 7 0.05
29 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (26 bp):
AAATTATCGAAATACCCTCGTTTGTA
Found at i:41105321 original size:80 final size:80
Alignment explanation
Indices: 41105176--41105362 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
41105166 ATTATCGAAG
* * *
41105176 TACCCTCTGTTTGTAAAATTA-TCGAAATACCCTCGGTTTACAACATTACTGAAATACCCTGGAT
1 TACCCTC-GATTGTAAAATTACT-GAAATACCCTCGATTTACAAAATTACTGAAATACCCTGGAT
41105240 TTATAAAATTACCAAAA
64 TTATAAAATTACCAAAA
* **
41105257 TACTCTCGATTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTA-TCGAAATACCCCT-GAT
1 TACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTACAAAATTACT-GAAATA-CCCTGGAT
* * *
41105320 TTGTAAAATTATCGAAA
64 TTATAAAATTACCAAAA
*
41105337 TACCCTCGATTGTGAAATTACT-AAAT
1 TACCCTCGATTGTAAAATTACTGAAAT
41105363 GATAAACTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
79 5 0.05
80 76 0.83
81 11 0.12
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (80 bp):
TACCCTCGATTGTAAAATTACTGAAATACCCTCGATTTACAAAATTACTGAAATACCCTGGATTT
ATAAAATTACCAAAA
Found at i:41105341 original size:54 final size:54
Alignment explanation
Indices: 41105176--41105356 Score: 210
Period size: 53 Copynumber: 3.4 Consensus size: 54
41105166 ATTATCGAAG
* ** *
41105176 TACCCTCTG-TTTGTAAAATTATCGAAATACCCTCGGTTTACAACATTACTGAAA
1 TACCCTC-GATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAA
* * * * *
41105230 TACCCTGGATTTATAAAATTACCAAAATACTCTCGA-TTGTAAAATTACTGAAA
1 TACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAA
41105283 TACCCTCGATTTGTAAAATTATCGAAATACCC-CTGATTTGTAAAATTA-TCGAAA
1 TACCCTCGATTTGTAAAATTATCGAAATACCCTC-GATTTGTAAAATTACT-GAAA
*
41105337 TACCCTCGA-TTGTGAAATTA
1 TACCCTCGATTTGTAAAATTA
41105357 CTAAATGATA
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.01
53 55 0.51
54 52 0.48
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAA
Found at i:41107495 original size:11 final size:11
Alignment explanation
Indices: 41107479--41107515 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
41107469 AAGCCCATTG
41107479 GGCCCAGTTTC
1 GGCCCAGTTTC
*
41107490 GGCCCA--TTG
1 GGCCCAGTTTC
41107499 GGCCCAGTTTC
1 GGCCCAGTTTC
41107510 GGCCCA
1 GGCCCA
41107516 TCGAGCCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.11, C:0.38, G:0.30, T:0.22
Consensus pattern (11 bp):
GGCCCAGTTTC
Found at i:41107496 original size:20 final size:20
Alignment explanation
Indices: 41107471--41107516 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
41107461 TGGTCTGTAA
41107471 GCCCATTGGGCCCAGTTTCG
1 GCCCATTGGGCCCAGTTTCG
41107491 GCCCATTGGGCCCAGTTTCG
1 GCCCATTGGGCCCAGTTTCG
41107511 GCCCAT
1 GCCCAT
41107517 CGAGCCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.37, G:0.28, T:0.24
Consensus pattern (20 bp):
GCCCATTGGGCCCAGTTTCG
Found at i:41107523 original size:20 final size:20
Alignment explanation
Indices: 41107480--41107523 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
41107470 AGCCCATTGG
* *
41107480 GCCCAGTTTCGGCCCATTGG
1 GCCCAGTTTCGGCCCATCGA
41107500 GCCCAGTTTCGGCCCATCGA
1 GCCCAGTTTCGGCCCATCGA
41107520 GCCC
1 GCCC
41107524 CTTTTTCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.41, G:0.27, T:0.20
Consensus pattern (20 bp):
GCCCAGTTTCGGCCCATCGA
Found at i:41109143 original size:12 final size:12
Alignment explanation
Indices: 41109128--41109152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41109118 ATAGTAAATA
41109128 ATAAAAATTTTC
1 ATAAAAATTTTC
41109140 ATAAAAATTTTC
1 ATAAAAATTTTC
41109152 A
1 A
41109153 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:41109203 original size:19 final size:18
Alignment explanation
Indices: 41109166--41109209 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
41109156 ATACATACAG
41109166 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
41109183 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
41109202 TACTAATT
1 TAATAATT
41109210 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:41117683 original size:27 final size:27
Alignment explanation
Indices: 41117608--41117844 Score: 257
Period size: 27 Copynumber: 8.9 Consensus size: 27
41117598 ACGATGATTA
* *
41117608 AAATA-CCTCAATTTGT-AAATTATTG
1 AAATACCCTCGATTTGTAAAATTACTG
* * *
41117633 AAATACCCTAGA-TTGTGAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACTG
* *
41117659 AAATACCTTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACTG
*
41117686 AAATACCC-CTGATTTGTGAAATTACTG
1 AAATACCCTC-GATTTGTAAAATTACTG
* *
41117713 AAACACCCTCGATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACTG
* * * * *
41117740 AAACATCCTCAACTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACTG
* * *
41117767 AAACACCCTCGTTTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACTG
*
41117794 AAATACCCTCGATTTGTAAAATTATTG
1 AAATACCCTCGATTTGTAAAATTACTG
*
41117821 AAACACCCTCGATTTGTAAAATTA
1 AAATACCCTCGATTTGTAAAATTA
41117845 TCGACATATC
Statistics
Matches: 180, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
25 9 0.05
26 22 0.12
27 148 0.82
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACTG
Found at i:41117725 original size:54 final size:54
Alignment explanation
Indices: 41117613--41117844 Score: 290
Period size: 54 Copynumber: 4.3 Consensus size: 54
41117603 GATTAAAATA
* ** * * * *
41117613 CCTCAATTTGT-AAATTATTGAAATACCCTAGA-TTGTGAAATTACTAAAATAC
1 CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACAC
* *
41117665 CTTCGATTTGTAAAATTACCGAAATACCC-CTGATTTGTGAAATTACTGAAACAC
1 CCTCGATTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTACTGAAACAC
* * * * *
41117719 CCTCGATTTGTAAAATTACCGAAACATCCTCAACTTGTAAAATTACCGAAACAC
1 CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACAC
* *
41117773 CCTCGTTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAACAC
1 CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACAC
41117827 CCTCGATTTGTAAAATTA
1 CCTCGATTTGTAAAATTA
41117845 TCGACATATC
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
52 9 0.06
53 17 0.11
54 127 0.82
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (54 bp):
CCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACAC
Found at i:41117866 original size:54 final size:54
Alignment explanation
Indices: 41117644--41117883 Score: 225
Period size: 54 Copynumber: 4.4 Consensus size: 54
41117634 AATACCCTAG
* ** * * * * *
41117644 ATTGTGAAATTACTAAAATACCTTCGATTTGTAAAATTACCGAAATACCCCTGAT
1 ATTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATA-TCTTCAT
* * * *
41117699 -TTGTGAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAAACATCCTCA-
1 ATTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATATCTTCAT
* * *
41117751 ACTTGTAAAATTACCGAAACACCCTCGTTTTGTAAAATTACCGAAATACCCTCGAT
1 A-TTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATATCTTC-AT
** * * *
41117807 -TTGTAAAATTATTGAAACACCCTCGATTTGTAAAATTATCGACATATCTTTAT
1 ATTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATATCTTCAT
* * *
41117860 AGTGTAAAATTATCGAAATACCCT
1 ATTGTAAAATTACCGAAACACCCT
41117884 TGTAGTATAA
Statistics
Matches: 158, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
53 6 0.04
54 151 0.96
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (54 bp):
ATTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAAATATCTTCAT
Found at i:41117866 original size:81 final size:80
Alignment explanation
Indices: 41117608--41117883 Score: 270
Period size: 81 Copynumber: 3.4 Consensus size: 80
41117598 ACGATGATTA
** * * * * *
41117608 AAATA-CCTCAATTTGT-AAATTATTGAAATACCCTAGA-TTGTGAAATTACTAAAATACCTTCG
1 AAATACCCTC-ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCG
41117670 ATTTGTAAAATTACCG
65 ATTTGTAAAATTACCG
* * * * * * *
41117686 AAATACCCCTGATTTGTGAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAAACATCCTCA
1 AAATA-CCCTCATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCG
*
41117751 ACTTGTAAAATTACCG
65 ATTTGTAAAATTACCG
* * *
41117767 AAACACCCTCGTTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATTGAAACACCCTCG
1 AAATACCCTC-ATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCG
*
41117832 ATTTGTAAAATTATCG
65 ATTTGTAAAATTACCG
* * * * * *
41117848 ACATATCTTTATAGTGTAAAATTATCGAAATACCCT
1 AAATACCCTCAT-TTGTAAAATTACCGAAATACCCT
41117884 TGTAGTATAA
Statistics
Matches: 160, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
78 5 0.03
79 6 0.04
80 26 0.16
81 123 0.77
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (80 bp):
AAATACCCTCATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGA
TTTGTAAAATTACCG
Found at i:41117889 original size:27 final size:27
Alignment explanation
Indices: 41117673--41117902 Score: 121
Period size: 27 Copynumber: 8.5 Consensus size: 27
41117663 ACCTTCGATT
*
41117673 TGTAAAATTACCGAAATACCC-C-TGATT
1 TGTAAAATTACCGAAATACCCTCGT-A-G
* * * *
41117700 TGTGAAATTACTGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTCGTA-G
* * * *
41117727 TGTAAAATTACCGAAACATCCTC-AACT
1 TGTAAAATTACCGAAATACCCTCGTA-G
* **
41117754 TGTAAAATTACCGAAACACCCTCGTTT
1 TGTAAAATTACCGAAATACCCTCGTAG
*
41117781 TGTAAAATTACCGAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTCGTA-G
** * *
41117808 TGTAAAATTATTGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTCGTA-G
* * * * **
41117835 TGTAAAATTATCGACATATCTTTATAG
1 TGTAAAATTACCGAAATACCCTCGTAG
* *
41117862 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTCGTAG
* *
41117889 TATAAAATGACCGA
1 TGTAAAATTACCGA
41117903 CATGCCCCTG
Statistics
Matches: 167, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
27 165 0.99
28 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTCGTAG
Found at i:41131895 original size:22 final size:24
Alignment explanation
Indices: 41131856--41131899 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
41131846 GTAGTTCAAA
*
41131856 ATTTTTCTATCAATTTATTAAAAG
1 ATTTTCCTATCAATTTATTAAAAG
41131880 ATTTTCCTA-CAA-TTATTAAA
1 ATTTTCCTATCAATTTATTAAA
41131900 TCTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTCCTATCAATTTATTAAAAG
Found at i:41133675 original size:12 final size:12
Alignment explanation
Indices: 41133655--41133687 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
41133645 CGTGTTAGGG
*
41133655 CACATGGCCTAC
1 CACACGGCCTAC
41133667 CACACGGCCTAC
1 CACACGGCCTAC
41133679 CACACGGCC
1 CACACGGCC
41133688 ATATAGCGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:41137482 original size:12 final size:12
Alignment explanation
Indices: 41137465--41137493 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
41137455 GTGTTAGGGA
41137465 ACACGACCTACC
1 ACACGACCTACC
41137477 ACACGACCTACC
1 ACACGACCTACC
41137489 ACACG
1 ACACG
41137494 GTCGTGTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.48, G:0.10, T:0.07
Consensus pattern (12 bp):
ACACGACCTACC
Found at i:41140988 original size:12 final size:12
Alignment explanation
Indices: 41140973--41141003 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
41140963 GGCGCCACGC
*
41140973 GGCCGTGTTGTA
1 GGCCGTGTGGTA
41140985 GGCCGTGTGGTA
1 GGCCGTGTGGTA
41140997 GGCCGTG
1 GGCCGTG
41141004 CATAAAGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.48, T:0.26
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:41145923 original size:31 final size:31
Alignment explanation
Indices: 41145888--41145946 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
41145878 ACTTTGCCAT
41145888 ATAGATGGCCGGCCAAGGGGTGGCTCTTCAC
1 ATAGATGGCCGGCCAAGGGGTGGCTCTTCAC
*
41145919 ATAGATGGCTGGCCAAGGGGTGGCTCTT
1 ATAGATGGCCGGCCAAGGGGTGGCTCTT
41145947 TGGCTGCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.37, T:0.22
Consensus pattern (31 bp):
ATAGATGGCCGGCCAAGGGGTGGCTCTTCAC
Done.