Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 65 of 235
Found at i:22302599 original size:43 final size:43
Alignment explanation
Indices: 22302454--22302630 Score: 203
Period size: 43 Copynumber: 4.1 Consensus size: 43
22302444 AACATGCTAA
** * * * * **
22302454 ATAGAACATGACCTTTAGATGCACTTCTACCATAAACGCAACT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
* ** * *
22302497 ATAGAACATGACCTTTAGCGGCG-ATTCCCTACAAACGTCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
*
22302539 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAATGCCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
* *
22302582 ATAGAACATGACATTTAGTGGCGCTTTTACTAAAAACGCCGCT
1 ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
22302625 ATAGAA
1 ATAGAA
22302631 TTGAGCTTTA
Statistics
Matches: 112, Mismatches: 21, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
42 33 0.29
43 79 0.71
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
ATAGAACATGACCTTTAGCGGCGCTTTTACTAAAAACGCCGCT
Found at i:22306612 original size:49 final size:49
Alignment explanation
Indices: 22306555--22306727 Score: 188
Period size: 51 Copynumber: 3.5 Consensus size: 49
22306545 ATACGCATAA
*
22306555 TAGCCTGCACTTAGTACTACACATGTGA-CCAACAATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGAGCAAACAAT-TGGTACACGTAG
* * * * *
22306604 TAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCATAG
1 TAGCCTGCACTTAGTACTACACATGTGAGC-AA-ACAATTG-GTACACGTAG
* * * * *
22306655 TAGCCTGCATTTAGTACTACACATGCGAGTAAACAGTATGGTACATGTAG
1 TAGCCTGCACTTAGTACTACACATGTGAGCAAACAAT-TGGTACACGTAG
22306705 TAGCCTGCACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
22306728 CGTGTACTTA
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
49 28 0.27
50 35 0.34
51 38 0.37
52 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACATGTGAGCAAACAATTGGTACACGTAG
Found at i:22306677 original size:51 final size:49
Alignment explanation
Indices: 22306540--22306731 Score: 181
Period size: 49 Copynumber: 3.9 Consensus size: 49
22306530 AGTCGAAGCT
* * *
22306540 ATCTGATACGCATAATAGCCTGCACTTAGTACTACACATGTGACCAACA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAACA
* * *
22306589 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--CA
* * * **
22306640 AT-TGAGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGAGTAAACA
1 ATCTG-GTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAACA
* * ***
22306690 GTATGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTG
22306732 TACTTACAAT
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
49 39 0.34
50 37 0.32
51 39 0.34
52 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (49 bp):
ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAACA
Found at i:22306731 original size:101 final size:100
Alignment explanation
Indices: 22306546--22306731 Score: 291
Period size: 101 Copynumber: 1.9 Consensus size: 100
22306536 AGCTATCTGA
* * *
22306546 TACGCATAATAGCCTGCACTTAGTACTACACATGTGACCAACAATCTGGTACACGTAGTAGCCTG
1 TACGCATAATAGCCTGCACTTAGTACTACACATGCGACAAACAATATGGTACACGTAGTAGCCTG
22306611 CACTTAGTACTACACACGTGATCGAAGTCATTGAG
66 CACTTAGTACTACACACGTGATCGAAGTCATTGAG
* * * * *
22306646 TACGCATAGTAGCCTGCATTTAGTACTACACATGCGAGTAAACAGTATGGTACATGTAGTAGCCT
1 TACGCATAATAGCCTGCACTTAGTACTACACATGCGA-CAAACAATATGGTACACGTAGTAGCCT
22306711 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
22306732 TACTTACAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 34 0.44
101 43 0.56
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (100 bp):
TACGCATAATAGCCTGCACTTAGTACTACACATGCGACAAACAATATGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCGAAGTCATTGAG
Found at i:22308679 original size:42 final size:42
Alignment explanation
Indices: 22308632--22308718 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
22308622 TACGCTCATA
*
22308632 TGTGAATCCGTGTGACACACACGACCAATAGACACGCCCGTG
1 TGTGAATCCGTGTGACACACACGACCAATAGACACACCCGTG
* *
22308674 TGTGAATCCGTGTGACACACATGGCCAATAGACACACCCGTG
1 TGTGAATCCGTGTGACACACACGACCAATAGACACACCCGTG
22308716 TGT
1 TGT
22308719 CTAAGCCGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (42 bp):
TGTGAATCCGTGTGACACACACGACCAATAGACACACCCGTG
Found at i:22309817 original size:23 final size:23
Alignment explanation
Indices: 22309733--22309818 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
22309723 GCTGATAAAT
*
22309733 AGTAAGCTC-TATTGAGC-AAAAC
1 AGTAAGCTCTTA-CGAGCTAAAAC
* * * *
22309755 AATAAGCTCTTTCGAGCTGAATC
1 AGTAAGCTCTTACGAGCTAAAAC
* ** *
22309778 GGTAAGCTCCAATGAGCTAAAAC
1 AGTAAGCTCTTACGAGCTAAAAC
22309801 AGTAAGCTCTTACGAGCT
1 AGTAAGCTCTTACGAGCT
22309819 GTGGTGAGTT
Statistics
Matches: 45, Mismatches: 17, Indels: 3
0.69 0.26 0.05
Matches are distributed among these distances:
22 12 0.27
23 33 0.73
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTTACGAGCTAAAAC
Found at i:22314050 original size:9 final size:9
Alignment explanation
Indices: 22314036--22314256 Score: 130
Period size: 9 Copynumber: 25.3 Consensus size: 9
22314026 TAAGTATAAT
22314036 TAAGTTATG
1 TAAGTTATG
22314045 TAAGTTATG
1 TAAGTTATG
22314054 TAAGTTATG
1 TAAGTTATG
22314063 TAAGTTATG
1 TAAGTTATG
* * *
22314072 ATATGATATA
1 -TAAGTTATG
* *
22314082 T-ATTTATA
1 TAAGTTATG
22314090 TAAGTTATG
1 TAAGTTATG
*
22314099 TAAGTAATG
1 TAAGTTATG
*
22314108 -ACATTTATG
1 TA-AGTTATG
*
22314117 -ATA-TGAT-
1 TA-AGTTATG
22314124 TATA-TTCATG
1 TA-AGTT-ATG
22314134 T-A-TTATG
1 TAAGTTATG
22314141 TAAGTTATG
1 TAAGTTATG
22314150 TAAGTTATG
1 TAAGTTATG
* * *
22314159 ATATGATATA
1 -TAAGTTATG
22314169 T-A-TATATG
1 TAAGT-TATG
22314177 TAAGTTATG
1 TAAGTTATG
22314186 TAAGTTATG
1 TAAGTTATG
*
22314195 TATGTTATG
1 TAAGTTATG
*
22314204 TGAGTTATG
1 TAAGTTATG
22314213 TAAGTTATG
1 TAAGTTATG
*
22314222 ATAA-TT-TA
1 -TAAGTTATG
*
22314230 T-A--TATT
1 TAAGTTATG
22314236 TAAGTTATG
1 TAAGTTATG
22314245 TAAGTTATG
1 TAAGTTATG
22314254 TAA
1 TAA
22314257 TTTTAAAGAA
Statistics
Matches: 168, Mismatches: 27, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
5 1 0.01
6 3 0.02
7 6 0.04
8 22 0.13
9 119 0.71
10 17 0.10
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22314094 original size:36 final size:36
Alignment explanation
Indices: 22314049--22314256 Score: 149
Period size: 36 Copynumber: 5.5 Consensus size: 36
22314039 GTTATGTAAG
22314049 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
22314085 TTATATAAGTTATGTAAGTAATGACATTTATGATATGATTATATTCAT
1 TTATGTAAGTTA--T--GTAA-G----TTATGATATGA-TATA-T-AT
*
22314133 GTATTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTA---TGTAAGTTATGTAAGTTATGATATGATATATAT
* * * *
22314172 ATATGTAAGTTATGTAAGTTATG-TATGTTATGTGAG
1 TTATGTAAGTTATGTAAGTTATGATATGATATAT-AT
* *
22314208 TTATGTAAGTTATGATAA-TT-T-ATAT-ATTTA-AG
1 TTATGTAAGTTATG-TAAGTTATGATATGATATATAT
22314240 TTATGTAAGTTATGTAA
1 TTATGTAAGTTATGTAA
22314257 TTTTAAAGAA
Statistics
Matches: 143, Mismatches: 11, Indels: 41
0.73 0.06 0.21
Matches are distributed among these distances:
31 3 0.02
32 16 0.11
34 2 0.01
35 12 0.08
36 47 0.33
37 3 0.02
38 1 0.01
39 4 0.03
40 5 0.03
41 5 0.03
42 11 0.08
45 11 0.08
46 5 0.03
47 5 0.03
48 4 0.03
49 1 0.01
51 8 0.06
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.47
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:22314096 original size:45 final size:45
Alignment explanation
Indices: 22314040--22314203 Score: 237
Period size: 45 Copynumber: 3.7 Consensus size: 45
22314030 TATAATTAAG
22314040 TTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
* * *
22314085 TTATATAAGTTATGTAAGTAATG-ACATTTATGATATGAT-TATAT
1 TTATGTAAGTTATGTAAGTTATGTA-AGTTATGATATGATATATAT
*
22314129 TCATGT-A-TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
* *
22314172 ATATGTAAGTTATGTAAGTTATGTATGTTATG
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATG
22314204 TGAGTTATGT
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
42 26 0.25
43 11 0.11
44 11 0.11
45 56 0.54
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (45 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:22314210 original size:63 final size:59
Alignment explanation
Indices: 22314136--22314255 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
22314126 TATTCATGTA
22314136 TTATGTAAGTTATGTAAGTTATGATATGATATATATATATGTAAGTTATGTAAGTTATGTATG
1 TTATGTAAGTTATGTAAGTTATGATA--AT-T-TATATATGTAAGTTATGTAAGTTATGTATG
* *
22314199 TTATGTGAGTTATGTAAGTTATGATAATTTATATATTTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATAATTTATATATGTAAGTTATGTAAGTTATGTA
22314256 ATTTTAAAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
59 27 0.49
60 1 0.02
61 2 0.04
63 25 0.45
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (59 bp):
TTATGTAAGTTATGTAAGTTATGATAATTTATATATGTAAGTTATGTAAGTTATGTATG
Found at i:22316013 original size:19 final size:19
Alignment explanation
Indices: 22315986--22316025 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22315976 TTGGGATTTT
* *
22315986 GATTTGGGGAAAATTTAGG
1 GATTAGGGGAAAATTGAGG
*
22316005 GATTAGGGGAGAATTGAGG
1 GATTAGGGGAAAATTGAGG
22316024 GA
1 GA
22316026 AATGGGGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.42, T:0.25
Consensus pattern (19 bp):
GATTAGGGGAAAATTGAGG
Found at i:22316317 original size:122 final size:123
Alignment explanation
Indices: 22316135--22316378 Score: 339
Period size: 122 Copynumber: 2.0 Consensus size: 123
22316125 GACCGTTGTA
* * * * * *
22316135 GTGTTTTTTAAAAAGTGACGCTAGTGCTGATATATTGTGGCATTTATAAGCTAGCGCCGCTAATT
1 GTGTTTTTAAAAAAGTGACACTAATACTGATATATTGCGGCATTTATAAGCTAGCACCGCTAATT
* * *
22316200 CCACTAAAGGGTCA-TCTAAAACAACGACGTTTTGATTCAATTAAAA-ATTTTTTTGCG
66 CCACTAAAGAGCCACT-TAAAACAACGACGTTTTCATTCAATTAAAACATTTTTTTGCG
* * **
22316257 GTGTTTTTAAAAAAGTGCCACTAATACTGATCTATTGCGGTGTTTATAAGCTAGCACCGCTAATT
1 GTGTTTTTAAAAAAGTGACACTAATACTGATATATTGCGGCATTTATAAGCTAGCACCGCTAATT
*
22316322 CCACTAAAGAGCCACTTAAAACGACGACGTTTTCATTCAATTAAAACATTTTTTTGC
66 CCACTAAAGAGCCACTTAAAACAACGACGTTTTCATTCAATTAAAACATTTTTTTGC
22316379 AGCATTTTGC
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
122 95 0.90
123 11 0.10
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (123 bp):
GTGTTTTTAAAAAAGTGACACTAATACTGATATATTGCGGCATTTATAAGCTAGCACCGCTAATT
CCACTAAAGAGCCACTTAAAACAACGACGTTTTCATTCAATTAAAACATTTTTTTGCG
Found at i:22316964 original size:7 final size:7
Alignment explanation
Indices: 22316937--22316979 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
22316927 CAAATTTTAT
22316937 CCCTAAA
1 CCCTAAA
* *
22316944 CCTTACA
1 CCCTAAA
*
22316951 CCTTAAA
1 CCCTAAA
22316958 CCCTAAA
1 CCCTAAA
22316965 CCCTAAA
1 CCCTAAA
*
22316972 CCATAAA
1 CCCTAAA
22316979 C
1 C
22316980 ATATACACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:22316978 original size:21 final size:21
Alignment explanation
Indices: 22316937--22316979 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22316927 CAAATTTTAT
* * *
22316937 CCCTAAACCTTACACCTTAAA
1 CCCTAAACCCTAAACCATAAA
22316958 CCCTAAACCCTAAACCATAAA
1 CCCTAAACCCTAAACCATAAA
22316979 C
1 C
22316980 ATATACACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.19
Consensus pattern (21 bp):
CCCTAAACCCTAAACCATAAA
Found at i:22317143 original size:12 final size:13
Alignment explanation
Indices: 22317113--22317145 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
22317103 ATCAAAATCT
22317113 CTAACCCTAAACC
1 CTAACCCTAAACC
*
22317126 CCAACCCT-AACC
1 CTAACCCTAAACC
22317138 CTAACCCT
1 CTAACCCT
22317146 TAAAACCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (13 bp):
CTAACCCTAAACC
Found at i:22317199 original size:22 final size:22
Alignment explanation
Indices: 22317149--22317210 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
22317139 TAACCCTTAA
*
22317149 AACCAT-AAACACTAAGA-CCCT
1 AACCATAAAACACTAA-ACCCCC
*
22317170 AACTATAAAACACTAAACCCCC
1 AACCATAAAACACTAAACCCCC
* *
22317192 AACCATAAAATAATAAACC
1 AACCATAAAACACTAAACC
22317211 ATAACCCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.15
Consensus pattern (22 bp):
AACCATAAAACACTAAACCCCC
Found at i:22317280 original size:15 final size:15
Alignment explanation
Indices: 22317247--22317285 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
22317237 ACTCAAATTA
*
22317247 CTAAA-CATTAAGCC
1 CTAAACCATAAAGCC
*
22317261 ATAAACCATAAAGCC
1 CTAAACCATAAAGCC
22317276 CTAAACCATA
1 CTAAACCATA
22317286 GACTTAACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.18
Consensus pattern (15 bp):
CTAAACCATAAAGCC
Found at i:22317443 original size:41 final size:41
Alignment explanation
Indices: 22317349--22317460 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
22317339 GTATTTTTAT
** *
22317349 AACGCCGCTACTGCTTGACCTTTTGCGACG---TTATCTTA
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
*
22317387 AATGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
* * *
22317428 AACGCTGCTAATGCTTAACCTTTTGCGGTGTTT
1 AACGCCGCTACTGCTTGACCTTTTGCGGTGTTT
22317461 ATGACTGCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 27 0.43
41 36 0.57
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (41 bp):
AACGCCGCTACTGCTTGACCTTTTGCGGTGTTTTTATCATA
Found at i:22327675 original size:104 final size:104
Alignment explanation
Indices: 22327520--22327988 Score: 528
Period size: 104 Copynumber: 4.5 Consensus size: 104
22327510 AAAAGAACTT
* * * * ** * * *
22327520 AGGTTGCGAGCGTAAATCAACTAACCTTTAATCATTAGATCAGAACATAGGT-CAGTGAATTGTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCCA-TGAACTATT
* *
22327584 TCGAAGTTGCGAGCTTAACTCGGTTAACTCAAATAACTGG
65 TCGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* * ** *
22327624 AGGTTACGAGCTTAACTCAACCAACCTTTAATCATCAGTTGGGAACGTAGGTCTGTGAGCTATTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCCATGAACTATTT
* * * *
22327689 GGAAGTTGTGAGCTTAACTCGGCTAACTTAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* ** * *
22327728 AGGTTGCGAGCTTAACTCAGCTAACCTTTAATCATCAACTGGGAACGTAGGTCCACGAGCTATTT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCCATGAACTATTT
* * *
22327793 CGGAGTTGTGAGCTTAACTCAGTTAACTCAAATAACTGG
66 CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
* ** * *
22327832 AGGTTGCAAATTTAACTCAACTAACCTTTAATCATCAATTGGGAACGTAGGTCCA-CAAGCTATT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCCATGAA-CTATT
* * *
22327896 TCGGAGTTGCGGGCTTAACTCAGCTAACTCAAAATAATTGG
65 TCGAAGTTGCGAGCTTAACTCAGCTAACTC-AAATAACTGG
* * * * *
22327937 AGGTTACAAGCTTAACTTATCTAACCCTTAATCATCAGTTGGGAACGTAGGT
1 AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGT
22327989 GTAATGCCCC
Statistics
Matches: 313, Mismatches: 49, Indels: 5
0.85 0.13 0.01
Matches are distributed among these distances:
103 1 0.00
104 258 0.82
105 54 0.17
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (104 bp):
AGGTTGCGAGCTTAACTCAACTAACCTTTAATCATCAGTTGGGAACGTAGGTCCATGAACTATTT
CGAAGTTGCGAGCTTAACTCAGCTAACTCAAATAACTGG
Found at i:22327830 original size:208 final size:207
Alignment explanation
Indices: 22327471--22327988 Score: 583
Period size: 208 Copynumber: 2.5 Consensus size: 207
22327461 TTTAAATCAG
* * * * * * *
22327471 CGAGCTATTTGGAAGTTGTGATCTTAAATCAGTTAAGTTAAAAGAACT-TAGGTTGCGAGCGTAA
1 CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTT-AAATAACTGGAGGTTGCGAGCTTAA
* * ** * * * *
22327535 ATCAACTAACCTTTAATCATTAGATCAGAACATAGGTCAGTGAATTGTTTCGAAGTTGCGAGCTT
65 CTCAACTAACCTTTAATCATCA-ATGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTT
* * * *
22327600 AACTCGGTTAACTCAAATAACTGGAGGTTACGAGCTTAACTCAACCAACCTTTAATCATCAGTTG
129 AACTCAGTTAACTCAAATAACTGGAGGTTACAAACTTAACTCAACCAACCTTTAATCATCAATTG
**
22327665 GGAACGTAGGTCTG
194 GGAACGTAGGTCCA
* *
22327679 TGAGCTATTTGGAAGTTGTGAGCTTAACTCGGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
1 CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
* * * *
22327744 TCAGCTAACCTTTAATCATCAACTGGGAACGTAGGTCCA-CGAGCTATTTCGGAGTTGTGAGCTT
66 TCAACTAACCTTTAATCATCAA-TGGGAACGTAGGT-CAGCGAACTATTTCGAAGTTGCGAGCTT
* * *
22327808 AACTCAGTTAACTCAAATAACTGGAGGTTGCAAATTTAACTCAACTAACCTTTAATCATCAATTG
129 AACTCAGTTAACTCAAATAACTGGAGGTTACAAACTTAACTCAACCAACCTTTAATCATCAATTG
22327873 GGAACGTAGGTCCA
194 GGAACGTAGGTCCA
* * * * * * *
22327887 CAAGCTATTTCGG-AGTTGCGGGCTTAACTCAGCTAACTCAAAATAATTGGAGGTTACAAGCTTA
1 CGAGCTATTT-GGAAGTTGTGAGCTTAACTCAGCTAACT-TAAATAACTGGAGGTTGCGAGCTTA
* * * *
22327951 ACTTATCTAACCCTTAATCATCAGTTGGGAACGTAGGT
64 ACTCAACTAACCTTTAATCATCA-ATGGGAACGTAGGT
22327989 GTAATGCCCC
Statistics
Matches: 261, Mismatches: 43, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
207 8 0.03
208 195 0.75
209 58 0.22
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (207 bp):
CGAGCTATTTGGAAGTTGTGAGCTTAACTCAGCTAACTTAAATAACTGGAGGTTGCGAGCTTAAC
TCAACTAACCTTTAATCATCAATGGGAACGTAGGTCAGCGAACTATTTCGAAGTTGCGAGCTTAA
CTCAGTTAACTCAAATAACTGGAGGTTACAAACTTAACTCAACCAACCTTTAATCATCAATTGGG
AACGTAGGTCCA
Found at i:22329653 original size:43 final size:43
Alignment explanation
Indices: 22329586--22329752 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 43
22329576 AGCTCATACT
* * * *
22329586 ATGCC-ATGTCCCAGATATGATCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCA
* * * * * *
22329628 GTGCCAATGTCCCAGCCATGGTCTTACACGAAATCATATAACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCA
22329671 ATGCCAATGTCCCA-ACCATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGA-CATGGTCTTACATGTAATCACATAT-CA
*
22329714 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
22329753 CTCGGTAGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
42 5 0.05
43 97 0.94
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCA
Found at i:22332462 original size:42 final size:43
Alignment explanation
Indices: 22332325--22332518 Score: 250
Period size: 43 Copynumber: 4.6 Consensus size: 43
22332315 TTATGTAAAA
* * * * *
22332325 AAACGTCGTTAAAGAACATGACCGTTAGCGACGCTTTTACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
22332368 AAACGCTGCTAAAGAACATGGCCTTTAGCGGCAG-TTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGC-GCTTTTCCCAC
**
22332411 AAACGCCGCTAAAGAACATGATATTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
22332453 AAACGCCGCTAAAGAACTTGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
*
22332496 AAACGCCGCTATAGAACA-GACCT
1 AAACGCCGCTAAAGAACATGACCT
22332519 GGAAAAAACG
Statistics
Matches: 131, Mismatches: 17, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
42 44 0.34
43 86 0.66
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:22332491 original size:85 final size:86
Alignment explanation
Indices: 22332325--22332513 Score: 247
Period size: 85 Copynumber: 2.2 Consensus size: 86
22332315 TTATGTAAAA
* * * * *
22332325 AAACGTCGTTAAAGAACATGACCGTTAGCGACGCTTTTACCACAAACGCTGCTAAAGAACATGGC
1 AAACGCCGCTAAAGAACATGACAGTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGAC
22332390 CTTTAGCGGCAGTTTTCCCAC
66 CTTTAGCGGCAGTTTTCCCAC
* * * * *
22332411 AAACGCCGCTAAAGAACATGATATTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGAACTTGAC
1 AAACGCCGCTAAAGAACATGACAGTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGAC
*
22332475 CTTTAGTGGC-GCTTTTCCCAC
66 CTTTAGCGGCAG-TTTTCCCAC
*
22332496 AAACGCCGCTATAGAACA
1 AAACGCCGCTAAAGAACA
22332514 GACCTGGAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
84 1 0.01
85 61 0.68
86 28 0.31
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGACAGTTAGCGACGCTTTTACCACAAACGCCGCTAAAGAACATGAC
CTTTAGCGGCAGTTTTCCCAC
Found at i:22332595 original size:22 final size:24
Alignment explanation
Indices: 22332568--22332611 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
22332558 ATATTTTAAT
22332568 TAAATAATAT-TTAT-TTTTATGA
1 TAAATAATATATTATGTTTTATGA
*
22332590 TAAATATTATATTATGTTTTAT
1 TAAATAATATATTATGTTTTAT
22332612 TTTTGAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATAATATATTATGTTTTATGA
Found at i:22337233 original size:16 final size:16
Alignment explanation
Indices: 22337212--22337263 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
22337202 TTTGGTTCGC
*
22337212 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
22337228 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
22337244 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
22337260 TGTA
1 TGTA
22337264 ATAGCCAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:22337521 original size:18 final size:17
Alignment explanation
Indices: 22337500--22337534 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
22337490 TTATTATTTA
22337500 ATATATTTTAATTAAAAT
1 ATATATTTTAA-TAAAAT
22337518 ATATATTTTAATAAAAT
1 ATATATTTTAATAAAAT
22337535 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATTTTAATAAAAT
Found at i:22337647 original size:144 final size:147
Alignment explanation
Indices: 22337419--22337690 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
22337409 ATGATTATTG
22337419 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
22337484 ACATAATTATTATTTAATATATTTTAATTAAAATATATATTTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
22337549 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
22337568 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
22337630 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
22337691 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:22337665 original size:18 final size:17
Alignment explanation
Indices: 22337644--22337678 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22337634 TTATTATTAA
*
22337644 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22337662 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22337679 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22338212 original size:12 final size:12
Alignment explanation
Indices: 22338197--22338226 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22338187 AATACAAACA
22338197 ACAGAAGCTGCT
1 ACAGAAGCTGCT
22338209 ACAGAAGCTGCT
1 ACAGAAGCTGCT
*
22338221 AAAGAA
1 ACAGAA
22338227 ATTAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:22342381 original size:7 final size:7
Alignment explanation
Indices: 22342369--22342393 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22342359 AATTAATCTA
22342369 AACCCTT
1 AACCCTT
22342376 AACCCTT
1 AACCCTT
22342383 AACCCTT
1 AACCCTT
22342390 AACC
1 AACC
22342394 TCTATCCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (7 bp):
AACCCTT
Found at i:22342393 original size:21 final size:21
Alignment explanation
Indices: 22342369--22342464 Score: 50
Period size: 21 Copynumber: 4.5 Consensus size: 21
22342359 AATTAATCTA
22342369 AACCCTTAACCCTTAACCCTT
1 AACCCTTAACCCTTAACCCTT
* * * *
22342390 AA-CCTCTATCCCCTAAACCAT
1 AACCCT-TAACCCTTAACCCTT
** * *
22342411 AAAACATAACACTTAACCCCTT
1 AACCCTTAACCCTTAA-CCCTT
* * *
22342433 AATCCCTAAACTCTTAACCCGT
1 AA-CCCTTAACCCTTAACCCTT
*
22342455 ATCCCTTAAC
1 AACCCTTAAC
22342465 TACTAATCAC
Statistics
Matches: 52, Mismatches: 19, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
20 3 0.06
21 29 0.56
22 11 0.21
23 9 0.17
ACGTcount: A:0.34, C:0.39, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTTAACCCTTAACCCTT
Found at i:22342500 original size:21 final size:21
Alignment explanation
Indices: 22342476--22342515 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22342466 ACTAATCACT
*
22342476 AACCCCTAAACCTTAAACCCC
1 AACCCCTAAACCGTAAACCCC
*
22342497 AACCCTTAAACCGTAAACC
1 AACCCCTAAACCGTAAACC
22342516 ATAAACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.42, G:0.03, T:0.15
Consensus pattern (21 bp):
AACCCCTAAACCGTAAACCCC
Found at i:22342513 original size:7 final size:7
Alignment explanation
Indices: 22342503--22342607 Score: 70
Period size: 7 Copynumber: 14.7 Consensus size: 7
22342493 CCCCAACCCT
*
22342503 TAAACCG
1 TAAACCA
22342510 TAAACCA
1 TAAACCA
22342517 TAAACCA
1 TAAACCA
* *
22342524 TAATCCC
1 TAAACCA
22342531 TAAACTCA
1 TAAAC-CA
*
22342539 TAATCCA
1 TAAACCA
*
22342546 TAAACCT
1 TAAACCA
22342553 TAAA--A
1 TAAACCA
*
22342558 TAGCAACTCC
1 TA--AAC-CA
*
22342568 TAAACCT
1 TAAACCA
*
22342575 TAAACCC
1 TAAACCA
22342582 TAAACCA
1 TAAACCA
* *
22342589 TATACCC
1 TAAACCA
22342596 TAAACCA
1 TAAACCA
22342603 TAAAC
1 TAAAC
22342608 AGAAAACGAT
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
5 2 0.03
7 63 0.84
8 8 0.11
10 2 0.03
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:22342556 original size:22 final size:21
Alignment explanation
Indices: 22342503--22342607 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 21
22342493 CCCCAACCCT
*
22342503 TAAACCGTAAACCATAAACCA
1 TAAACCCTAAACCATAAACCA
* *
22342524 TAATCCCTAAACTCATAATCCA
1 TAAACCCTAAAC-CATAAACCA
* *
22342546 TAAACCTTAAA--ATAGCAACTCC
1 TAAACCCTAAACCATA--AAC-CA
* *
22342568 TAAACCTTAAACCCTAAACCA
1 TAAACCCTAAACCATAAACCA
*
22342589 TATACCCTAAACCATAAAC
1 TAAACCCTAAACCATAAAC
22342608 AGAAAACGAT
Statistics
Matches: 66, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
19 3 0.05
21 29 0.44
22 32 0.48
24 2 0.03
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACCA
Found at i:22342585 original size:14 final size:14
Alignment explanation
Indices: 22342479--22342607 Score: 91
Period size: 14 Copynumber: 9.1 Consensus size: 14
22342469 AATCACTAAC
*
22342479 CCCTAAACCTTAAA
1 CCCTAAACCATAAA
* * *
22342493 CCCCAACCCTTAAA
1 CCCTAAACCATAAA
*
22342507 CCGTAAACCATAAA
1 CCCTAAACCATAAA
* * *
22342521 CCATAATCCCTAAA
1 CCCTAAACCATAAA
* *
22342535 CTCATAATCCATAAA
1 C-CCTAAACCATAAA
*
22342550 CCTTAAA--ATAGCAA
1 CCCTAAACCATA--AA
*
22342564 CTCCTAAACCTTAAA
1 C-CCTAAACCATAAA
*
22342579 CCCTAAACCATATA
1 CCCTAAACCATAAA
22342593 CCCTAAACCATAAA
1 CCCTAAACCATAAA
22342607 C
1 C
22342608 AGAAAACGAT
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.03
14 66 0.72
15 21 0.23
17 2 0.02
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (14 bp):
CCCTAAACCATAAA
Found at i:22342993 original size:40 final size:40
Alignment explanation
Indices: 22342925--22343027 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
22342915 GTTTTTGCGG
* * *
22342925 CGTTTTTGACAAAGTGCCACTAAAGCTCGATTTATAGCGA
1 CGTTTTTCACAAAGCGCCACTAAAGCTCGATCTATAGCGA
* * * *
22342965 CGTTTTTCAGAAAGCGCCATTAATGCTCGATCTATAGTGGA
1 CGTTTTTCACAAAGCGCCACTAAAGCTCGATCTATAG-CGA
* * *
22343006 -ATTTTTCAAAAAGCGCCGCTAA
1 CGTTTTTCACAAAGCGCCACTAA
22343028 TGACACTAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 49 0.96
41 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (40 bp):
CGTTTTTCACAAAGCGCCACTAAAGCTCGATCTATAGCGA
Found at i:22343203 original size:100 final size:100
Alignment explanation
Indices: 22343030--22343230 Score: 402
Period size: 100 Copynumber: 2.0 Consensus size: 100
22343020 GCCGCTAATG
22343030 ACACTAAAGCTCAACATAAAACGACAGCGTTGTGCTTAATTTTTTTGTGACGTTTTTTAAAAAGC
1 ACACTAAAGCTCAACATAAAACGACAGCGTTGTGCTTAATTTTTTTGTGACGTTTTTTAAAAAGC
22343095 GACGGTAATGGTCGACCTACAGCGGCTTTTTTAAA
66 GACGGTAATGGTCGACCTACAGCGGCTTTTTTAAA
22343130 ACACTAAAGCTCAACATAAAACGACAGCGTTGTGCTTAATTTTTTTGTGACGTTTTTTAAAAAGC
1 ACACTAAAGCTCAACATAAAACGACAGCGTTGTGCTTAATTTTTTTGTGACGTTTTTTAAAAAGC
22343195 GACGGTAATGGTCGACCTACAGCGGCTTTTTTAAA
66 GACGGTAATGGTCGACCTACAGCGGCTTTTTTAAA
22343230 A
1 A
22343231 AAGCGCCGCT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (100 bp):
ACACTAAAGCTCAACATAAAACGACAGCGTTGTGCTTAATTTTTTTGTGACGTTTTTTAAAAAGC
GACGGTAATGGTCGACCTACAGCGGCTTTTTTAAA
Found at i:22343293 original size:40 final size:40
Alignment explanation
Indices: 22343180--22343296 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
22343170 TTTTTTGTGA
* * * * *
22343180 CGTTTTTTAAAAAGCGA-CGGTAATGGTCGACCTACAGCGG
1 CGTTTTTAAAAAAGC-ACCGCTAATGCTCGATCTATAGCGG
* * *
22343220 CTTTTTTAAAAAAGCGCCGCTAATGCTCAATCTATAGCGG
1 CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGCGG
* *
22343260 CGTTTTTCAGAAAGCACCGCTAATGCTCGATCTATAG
1 CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAG
22343297 AAAAACGCCG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
CGTTTTTAAAAAAGCACCGCTAATGCTCGATCTATAGCGG
Found at i:22347901 original size:40 final size:40
Alignment explanation
Indices: 22347803--22348023 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
22347793 ACCCAAGTAT
* * * *
22347803 CTTCGGGATTTAG-CCGGATATAATCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
22347841 CTGCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
22347881 CTTCGGGACTTAGCCCGGATATAGAT-GCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-TCACTAGCACAAATGC
** * * * * *
22347921 CTTCGGGTTTTGGCCCGGCTATAGTAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
22347961 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
22348002 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
22348024 CATTCGAATA
Statistics
Matches: 146, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
38 10 0.07
39 19 0.13
40 87 0.60
41 27 0.18
42 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:22367359 original size:45 final size:42
Alignment explanation
Indices: 22367277--22367359 Score: 103
Period size: 45 Copynumber: 1.9 Consensus size: 42
22367267 TTTCTTGTTG
* *
22367277 CTTTTCTTCTTTTCTCGTTCTTTCTTCTTCAAGTCTTGGATC
1 CTTTTCTTCTTTTCTCGTTCTTTCTTCTCCAACTCTTGGATC
* *
22367319 CTTTTCTTCTCTTTTTCTTTCTTCTTCTTCTCCAACTCTTG
1 CTTTTCTTCT-TTTCTCGTTC-T-TTCTTCTCCAACTCTTG
22367360 AATTCGATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 10 0.29
43 8 0.24
44 1 0.03
45 15 0.44
ACGTcount: A:0.06, C:0.29, G:0.06, T:0.59
Consensus pattern (42 bp):
CTTTTCTTCTTTTCTCGTTCTTTCTTCTCCAACTCTTGGATC
Found at i:22379267 original size:14 final size:14
Alignment explanation
Indices: 22379250--22379291 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
22379240 TTTTATAATA
22379250 TTTCATGTATATAT
1 TTTCATGTATATAT
*
22379264 TTTCATGCATATAT
1 TTTCATGTATATAT
* *
22379278 TTTCTTTTATATAT
1 TTTCATGTATATAT
22379292 CGTGTACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (14 bp):
TTTCATGTATATAT
Found at i:22379322 original size:55 final size:55
Alignment explanation
Indices: 22379260--22379368 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
22379250 TTTCATGTAT
22379260 ATATTTTCATGCATATATTTTCTTTTATATATCGTGTACATACACTTATACTCTG
1 ATATTTTCATGCATATATTTTCTTTTATATATCGTGTACATACACTTATACTCTG
*
22379315 ATATTTTCATGCATATATTTTCTTTTATATATCGTGTACATACGCTTATACTCT
1 ATATTTTCATGCATATATTTTCTTTTATATATCGTGTACATACACTTATACTCT
22379369 ATTAATTAGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (55 bp):
ATATTTTCATGCATATATTTTCTTTTATATATCGTGTACATACACTTATACTCTG
Found at i:22391213 original size:14 final size:14
Alignment explanation
Indices: 22391196--22391233 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22391186 AGGGCATCTT
22391196 AAAAAAAAAGAGAA
1 AAAAAAAAAGAGAA
22391210 AAAATAAAAA-AGAA
1 AAAA-AAAAAGAGAA
*
22391224 AAAGAAAAAG
1 AAAAAAAAAG
22391234 GGGGATCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.24
14 11 0.52
15 5 0.24
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAGAGAA
Found at i:22391229 original size:20 final size:19
Alignment explanation
Indices: 22391195--22391232 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
22391185 AAGGGCATCT
*
22391195 TAAAAAAAAAGAGAAAAAA
1 TAAAAAAAAAAAGAAAAAA
22391214 TAAAAAAGAAAAAGAAAAA
1 TAAAAAA-AAAAAGAAAAA
22391233 GGGGGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (19 bp):
TAAAAAAAAAAAGAAAAAA
Found at i:22393532 original size:46 final size:46
Alignment explanation
Indices: 22393479--22393654 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
22393469 TATTTGGGCA
22393479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
22393525 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* * *
22393572 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
22393618 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22393655 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 72 0.67
47 36 0.33
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:22393634 original size:93 final size:93
Alignment explanation
Indices: 22393475--22393646 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22393465 GGGATATTTG
* *
22393475 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
22393540 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
22393568 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
22393633 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
22393647 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:22395112 original size:87 final size:84
Alignment explanation
Indices: 22394984--22395284 Score: 378
Period size: 87 Copynumber: 3.5 Consensus size: 84
22394974 AATTCTATTT
22394984 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
*
22395048 AATTCTATTTTTCAAATTTCTG
66 ATTTCT-TTTTT--AATTTCTG
* * *
22395070 TTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTAACTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
22395135 ATTTCTTTTTTTTTAATTTCTG
66 ATTTC---TTTTTTAATTTCTG
* * *
22395157 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG-CTATGCTTAGGT-AT
1 -TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC-ACGCTGAGGTAAT
* *
22395219 TTCCAATTTCTGTTTT-AGTTCATG
62 TT-CAATTTCTTTTTTAATTTC-TG
22395243 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
22395285 TTTAATTTCT
Statistics
Matches: 193, Mismatches: 12, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
83 37 0.19
85 9 0.05
86 12 0.06
87 68 0.35
88 9 0.05
89 21 0.11
90 37 0.19
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (84 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTTTTTTAATTTCTG
Found at i:22396565 original size:10 final size:10
Alignment explanation
Indices: 22396550--22396591 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
22396540 AAATTATAAC
*
22396550 AAAAACACAA
1 AAAAACAGAA
22396560 AAAAAC-GAA
1 AAAAACAGAA
*
22396569 AAAACCAGAA
1 AAAAACAGAA
*
22396579 AAAAAGAGAA
1 AAAAACAGAA
22396589 AAA
1 AAA
22396592 TCCTACCTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.79, C:0.12, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAACAGAA
Found at i:22396590 original size:19 final size:18
Alignment explanation
Indices: 22396550--22396591 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
22396540 AAATTATAAC
*
22396550 AAAAACACAAAAAAACGA
1 AAAAACACAAAAAAAAGA
22396568 AAAAAC-CAGAAAAAAAGA
1 AAAAACACA-AAAAAAAGA
22396586 GAAAAA
1 -AAAAA
22396592 TCCTACCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 14 0.67
19 5 0.24
ACGTcount: A:0.79, C:0.12, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAACACAAAAAAAAGA
Found at i:22397637 original size:12 final size:14
Alignment explanation
Indices: 22397599--22397640 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
22397589 TTTTATAATA
22397599 TTTCATGTATATAT
1 TTTCATGTATATAT
22397613 TTTCATGTATATAT
1 TTTCATGTATATAT
* *
22397627 TTTCTTTTATATAT
1 TTTCATGTATATAT
22397641 CGTGTACATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (14 bp):
TTTCATGTATATAT
Found at i:22402374 original size:21 final size:22
Alignment explanation
Indices: 22402330--22402375 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
22402320 TCAAATTTTA
22402330 TTTTATTTTTTTGAAAATTAAC
1 TTTTATTTTTTTGAAAATTAAC
*
22402352 TTTT-TTTTTCTTGAGAATT-AC
1 TTTTATTTTT-TTGAAAATTAAC
22402373 TTT
1 TTT
22402376 GTCATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTATTTTTTTGAAAATTAAC
Found at i:22413141 original size:16 final size:17
Alignment explanation
Indices: 22413111--22413159 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
22413101 ATTAATCATT
22413111 TTAA-GTATATAATTTTA
1 TTAATGTAT-TAATTTTA
22413128 TT-ATGTATTAA-TTTA
1 TTAATGTATTAATTTTA
* *
22413143 TTAATTTATTATTTTTA
1 TTAATGTATTAATTTTA
22413160 AGGAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
17 10 0.37
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TTAATGTATTAATTTTA
Found at i:22413481 original size:17 final size:17
Alignment explanation
Indices: 22413459--22413491 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22413449 TGGTAGGAAC
*
22413459 ATTTTAATTGTTAATTA
1 ATTTTAATTGGTAATTA
22413476 ATTTTAATTGGTAATT
1 ATTTTAATTGGTAATT
22413492 TTTAGTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTTTAATTGGTAATTA
Found at i:22415877 original size:127 final size:127
Alignment explanation
Indices: 22415649--22415885 Score: 341
Period size: 127 Copynumber: 1.9 Consensus size: 127
22415639 AATTCGAGTT
* *
22415649 GGATTTTAAGGTTCACTCGCTTCGAAGAAATAAAATACCACATCCAGCACCTTAGGACACAATAC
1 GGATTTTAAGATTCACTCGCTTCAAAGAAATAAAATACCACATCCAGCACCTTAGGACACAATAC
* *
22415714 TTTAAGCCTCCAAAAACTAAGATCACCTCATGATTTCCAAAACACACGAAGTAACTCCAATC
66 TTTAAGCCTCCAAAAACCAAGATCACCTCATAATTTCCAAAACACACGAAGTAACTCCAATC
* * * * * *
22415776 GGATTTTGAGATTCACTCG-TTCCAAAGGAATGAAATACCACATCCAGTACGTTAGGACACGATA
1 GGATTTTAAGATTCACTCGCTT-CAAAGAAATAAAATACCACATCCAGCACCTTAGGACACAATA
* * *
22415840 TTTTAAGCCTCCAAAAACCAAGATCACTTTATAATTTCCAAAACAC
65 CTTTAAGCCTCCAAAAACCAAGATCACCTCATAATTTCCAAAACAC
22415886 GCGACGAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 2 0.02
127 94 0.98
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (127 bp):
GGATTTTAAGATTCACTCGCTTCAAAGAAATAAAATACCACATCCAGCACCTTAGGACACAATAC
TTTAAGCCTCCAAAAACCAAGATCACCTCATAATTTCCAAAACACACGAAGTAACTCCAATC
Found at i:22418280 original size:176 final size:176
Alignment explanation
Indices: 22418073--22418469 Score: 600
Period size: 176 Copynumber: 2.3 Consensus size: 176
22418063 GGTGGCTAAA
* * * *
22418073 ATCTGCTCCATAGTTGATACATGGAGATAAGATCTGTAATATTCAGTTTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCCTGCAACTTCA
* * * ** *
22418138 GAAAGACAAGACTTGTATCTTCAACTTG-CTCTCTACAACTTCAGAGAGATAAGGCTGGTGGCTA
66 GAAAGACAAGACTTGCATCTTCAACCTGTC-CTCTACAACTTCAGAAAGATAAGAATGGCGGCTA
22418202 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATT-TTCG
130 AAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTCTT-G
* * *
22418249 ATCTGCTCCATAGCCGATACGTGGAGATAAGATCTATAATTTTCAGTCTACTTCCTGCAACTTCA
1 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCCTGCAACTTCA
* * * *
22418314 GGAAGATAAGACTTGCATCTTCAACCTGTCCTCTGCAACTTTAGAAAGATAAGAATGGCGGCTAA
66 GAAAGACAAGACTTGCATCTTCAACCTGTCCTCTACAACTTCAGAAAGATAAGAATGGCGGCTAA
22418379 AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTCTTG
131 AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTCTTG
*
22418425 ATTTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCA
1 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCA
22418470 CTGATGTCGC
Statistics
Matches: 198, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
176 195 0.98
177 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (176 bp):
ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTACTTCCTGCAACTTCA
GAAAGACAAGACTTGCATCTTCAACCTGTCCTCTACAACTTCAGAAAGATAAGAATGGCGGCTAA
AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTCTTG
Found at i:22426444 original size:32 final size:33
Alignment explanation
Indices: 22426385--22426451 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
22426375 GACCATGGGA
* * *
22426385 CTCTTTCCATTTTTGTGGCTTGGCAACTAGTAG
1 CTCTTTCCACTTTTCTGGCTTGCCAACTAGTAG
*
22426418 CTCTTTCC-CTTTTCTGGCTTTCCAACTAGTAG
1 CTCTTTCCACTTTTCTGGCTTGCCAACTAGTAG
22426450 CT
1 CT
22426452 GAGTCAGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.13, C:0.27, G:0.16, T:0.43
Consensus pattern (33 bp):
CTCTTTCCACTTTTCTGGCTTGCCAACTAGTAG
Found at i:22426918 original size:30 final size:31
Alignment explanation
Indices: 22426882--22426951 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
22426872 CACTTAGCAC
*
22426882 ATCAGCCTG-AATCGCTAAAGTCTGTAAACA
1 ATCAGCCTGAAACCGCTAAAGTCTGTAAACA
* *
22426912 ATCAGCCACTGAAACCGCTAAGGTCTGTAAATA
1 ATCAG-C-CTGAAACCGCTAAAGTCTGTAAACA
22426945 ATCAGCC
1 ATCAGCC
22426952 ACTTCTCGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 5 0.15
31 2 0.06
32 4 0.12
33 23 0.68
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (31 bp):
ATCAGCCTGAAACCGCTAAAGTCTGTAAACA
Found at i:22432446 original size:43 final size:43
Alignment explanation
Indices: 22432398--22432520 Score: 128
Period size: 43 Copynumber: 3.1 Consensus size: 43
22432388 TGTAGGTATT
22432398 TTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATA
1 TTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATA
* *
22432441 TTTTAT-T-ATACGTA-TATT--T--C-ATG-TAGGT--AT-T-
1 TTTTATATAATCCTTATTATTGATACCAATGTTA-GTACATATA
22432472 TTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATA
1 TTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATA
22432515 TTTTAT
1 TTTTAT
22432521 TATATGTATT
Statistics
Matches: 62, Mismatches: 4, Indels: 28
0.66 0.04 0.30
Matches are distributed among these distances:
31 6 0.10
32 2 0.03
33 7 0.11
34 6 0.10
35 5 0.08
36 2 0.03
38 2 0.03
39 5 0.08
40 6 0.10
41 7 0.11
42 2 0.03
43 12 0.19
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (43 bp):
TTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATA
Found at i:22432502 original size:74 final size:74
Alignment explanation
Indices: 22432381--22432529 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
22432371 TTTCGCATAC
22432381 TATTTCATGTAGGTATTTTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATATTTTA
1 TATTTCATGTAGGTATTTTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATATTTTA
22432446 TTATACGTA
66 TTATACGTA
22432455 TATTTCATGTAGGTATTTTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATATTTTA
1 TATTTCATGTAGGTATTTTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATATTTTA
*
22432520 TTATATGTA
66 TTATACGTA
22432529 T
1 T
22432530 TTATATTTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (74 bp):
TATTTCATGTAGGTATTTTTTATATAATCCTTATTATTGATACCAATGTTAGTACATATATTTTA
TTATACGTA
Found at i:22432536 original size:20 final size:18
Alignment explanation
Indices: 22432511--22432547 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
22432501 TGTTAGTACA
22432511 TATATTTTATTATATGTATT
1 TATATTTT-TTATA-GTATT
22432531 TATATTTTTTATAGTAT
1 TATATTTTTTATAGTAT
22432548 CATTTTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TATATTTTTTATAGTATT
Found at i:22441692 original size:12 final size:12
Alignment explanation
Indices: 22441675--22441706 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
22441665 GGTTGAACTA
22441675 CATCGCTCGGTT
1 CATCGCTCGGTT
22441687 CATCGCTCGGTT
1 CATCGCTCGGTT
22441699 CATCGCTC
1 CATCGCTC
22441707 AACTGACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.38, G:0.22, T:0.31
Consensus pattern (12 bp):
CATCGCTCGGTT
Found at i:22444956 original size:25 final size:29
Alignment explanation
Indices: 22444903--22444963 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
22444893 ACTAAAAGGG
*
22444903 TATACATATATGTATAATGATATTAGAAA
1 TATACATATATATATAATGATATTAGAAA
22444932 TATAC-TATATATATAAT-AT-TT-GAAA
1 TATACATATATATATAATGATATTAGAAA
22444957 TATACAT
1 TATACAT
22444964 GAAGTGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.30
26 3 0.10
27 2 0.07
28 11 0.37
29 5 0.17
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (29 bp):
TATACATATATATATAATGATATTAGAAA
Found at i:22445292 original size:21 final size:21
Alignment explanation
Indices: 22445262--22445301 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22445252 ATTAATAATA
22445262 ATACTAATAT-TACATAAAGGT
1 ATACTAATATATAC-TAAAGGT
*
22445283 ATACTTATATATACTAAAG
1 ATACTAATATATACTAAAG
22445302 TTATGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
ATACTAATATATACTAAAGGT
Found at i:22445374 original size:3 final size:3
Alignment explanation
Indices: 22445360--22445460 Score: 59
Period size: 3 Copynumber: 33.7 Consensus size: 3
22445350 TACATAACAT
*
22445360 ATA ATA AAA ATA ATA AT- ATA CATA AT- ATA TATA A-A ATA CATA TATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA -ATA -ATA
* * * * **
22445406 ACA A-A ACA TATA CT- ATA ATA ATA ATA ACA ATA AGG ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22445450 ATA ATA ATA AT
1 ATA ATA ATA AT
22445461 GTAAAAAAAC
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 9 0.12
3 53 0.70
4 14 0.18
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:22447607 original size:71 final size:70
Alignment explanation
Indices: 22447527--22447670 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 70
22447517 TTATTTCTGT
* * * * * *
22447527 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAATACACGTTGAGGTATTTTCAGT
1 TTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
22447592 TTATG
66 TTATG
*
22447597 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTC-AAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
*
22447662 TTTCTG
65 TTTATG
22447668 TTT
1 TTT
22447671 TTCAATTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
70 4 0.06
71 61 0.94
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (70 bp):
TTTCAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
TTATG
Found at i:22447686 original size:14 final size:14
Alignment explanation
Indices: 22447656--22447689 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22447646 GCTGAGGTAA
**
22447656 TTTCAATTTCTGTT
1 TTTCAATTTCTACT
22447670 TTTCAATTTCTACT
1 TTTCAATTTCTACT
22447684 TTTCAA
1 TTTCAA
22447690 AAATCAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTACT
Found at i:22447743 original size:87 final size:87
Alignment explanation
Indices: 22447597--22447762 Score: 278
Period size: 87 Copynumber: 1.9 Consensus size: 87
22447587 TCAGTTTATG
* *
22447597 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGAACACGCTGAGGTAATTGCAA
* *
22447662 TTTCTGTTTTTCAATTTCTACT
66 TTTCTATGTTTCAATTTCTACT
* *
22447684 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACGCTGAGGTAATTGCAA
1 TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGAACACGCTGAGGTAATTGCAA
22447749 TTTCTATGTTTCAA
66 TTTCTATGTTTCAA
22447763 AAATCAACTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGAACACGCTGAGGTAATTGCAA
TTTCTATGTTTCAATTTCTACT
Found at i:22447850 original size:75 final size:73
Alignment explanation
Indices: 22447668--22447851 Score: 208
Period size: 73 Copynumber: 2.5 Consensus size: 73
22447658 TCAATTTCTG
* * * *
22447668 TTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAC
1 TTTTT-AATTTCTATTTTTCAAAAATCAACTCATATGGCGAAAGGAGAGTTGAGCCTCAGAACAC
*
22447733 GCTGAGGTA
65 GCCGAGGTA
* ** * *
22447742 ATTGCAATTTCTATGTTTCAAAAATCAACTCATATGGCGAAAGGAGAGTTGAGCCT-AGGCTCAC
1 TTTTTAATTTCTATTTTTCAAAAATCAACTCATATGGCGAAAGGAGAGTTGAGCCTCA-G--AAC
22447806 ACGCCGAGGTA
63 ACGCCGAGGTA
* * *
22447817 TTTTTAATTTCTGTTTTTCAAAAATCGATTCATAT
1 TTTTTAATTTCTATTTTTCAAAAATCAACTCATAT
22447852 TGTGAGAGGT
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
72 1 0.01
73 47 0.52
74 2 0.02
75 40 0.44
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (73 bp):
TTTTTAATTTCTATTTTTCAAAAATCAACTCATATGGCGAAAGGAGAGTTGAGCCTCAGAACACG
CCGAGGTA
Found at i:22447866 original size:75 final size:73
Alignment explanation
Indices: 22447668--22447868 Score: 233
Period size: 75 Copynumber: 2.7 Consensus size: 73
22447658 TCAATTTCTG
*
22447668 TTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAC
1 TTTTT-AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACAC
*
22447733 GCTGAGGTA
65 GCCGAGGTA
* ** * * * * *
22447742 ATTGCAATTTCTATGTTTCAAAAATCAACTCATATGGCGAAAGGAGAGTTGAGCCT-AGGCTCAC
1 TTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-G--AAC
22447806 ACGCCGAGGTA
63 ACGCCGAGGTA
* * * *
22447817 TTTTTAATTTCTGTTTTTCAAAAATCGATTCATATTGTGAGAGGTGAGTTGA
1 TTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
22447869 ACCTTTTTAA
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
72 1 0.01
73 47 0.46
74 2 0.02
75 53 0.51
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACG
CCGAGGTA
Found at i:22447957 original size:54 final size:55
Alignment explanation
Indices: 22447817--22447977 Score: 234
Period size: 55 Copynumber: 2.9 Consensus size: 55
22447807 CGCCGAGGTA
* * *
22447817 TTTTTAATTTCTGTTTTTCAAAAATCGATTCATATTGTGAGAGGTGAGTTGAACC
1 TTTTTAATTTCTATTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAACC
* *
22447872 TTTTTAATCTCTATTTTTCAAAAATCGACTCATATTGCCAGAGGTGAGTTGAACC
1 TTTTTAATTTCTATTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAACC
* * * *
22447927 -TTTTAATTTATATTATTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTTAATTTCTATTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGA
22447978 GCCTCAGGTC
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 45 0.47
55 50 0.53
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (55 bp):
TTTTTAATTTCTATTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAACC
Found at i:22449448 original size:16 final size:16
Alignment explanation
Indices: 22449429--22449459 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22449419 CCTCTCTCCT
22449429 TTCTCCCCTCCCTCTC
1 TTCTCCCCTCCCTCTC
*
22449445 TTCTCCCCTCTCTCT
1 TTCTCCCCTCCCTCT
22449460 TTTTCTTTTT
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:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCTCCCCTCCCTCTC
Found at i:22450565 original size:20 final size:18
Alignment explanation
Indices: 22450540--22450576 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
22450530 TGTTAGTACA
22450540 TATATTTTATTATATGTATT
1 TATATTTT-TTATA-GTATT
22450560 TATATTTTTTATAGTAT
1 TATATTTTTTATAGTAT
22450577 CATTTTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TATATTTTTTATAGTATT
Found at i:22451796 original size:14 final size:13
Alignment explanation
Indices: 22451777--22451832 Score: 62
Period size: 12 Copynumber: 4.4 Consensus size: 13
22451767 ATTTTTTAAA
22451777 ATAAATAATATAAC
1 ATAAATAATAT-AC
22451791 ATAAATAATATAC
1 ATAAATAATATAC
*
22451804 A-AAATAATACAC
1 ATAAATAATATAC
* *
22451816 AT-ATTAATTTAC
1 ATAAATAATATAC
22451828 ATAAA
1 ATAAA
22451833 GAGGCTTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 20 0.57
13 4 0.11
14 11 0.31
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAATAATATAC
Found at i:22451810 original size:12 final size:14
Alignment explanation
Indices: 22451777--22451812 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
22451767 ATTTTTTAAA
22451777 ATAAATAATATAAC
1 ATAAATAATATAAC
22451791 ATAAATAATAT-AC
1 ATAAATAATATAAC
22451804 A-AAATAATA
1 ATAAATAATA
22451813 CACATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 11 0.50
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAATAATATAAC
Found at i:22452020 original size:13 final size:13
Alignment explanation
Indices: 22452002--22452029 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22451992 ATAAAGCTAA
22452002 ATGATGTGAAAAT
1 ATGATGTGAAAAT
22452015 ATGATGTGAAAAT
1 ATGATGTGAAAAT
22452028 AT
1 AT
22452030 AAAAAAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.32
Consensus pattern (13 bp):
ATGATGTGAAAAT
Found at i:22454104 original size:44 final size:43
Alignment explanation
Indices: 22454031--22454117 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 43
22454021 TTAATCACTC
*
22454031 TTCCGATATAAAAGACAAACACAAAGTTAGTGTTTACATTAAA
1 TTCCGATATAAAAAACAAACACAAAGTTAGTGTTTACATTAAA
*
22454074 TTCCGATATAAAAAAACTAACACAAAGTTAGTGTTTACATTAAA
1 TTCCGATAT-AAAAAACAAACACAAAGTTAGTGTTTACATTAAA
22454118 ATAATTCTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 9 0.22
44 32 0.78
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (43 bp):
TTCCGATATAAAAAACAAACACAAAGTTAGTGTTTACATTAAA
Found at i:22455163 original size:27 final size:27
Alignment explanation
Indices: 22455133--22455193 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
22455123 CTTAAAGCCC
*
22455133 AAACCCTAAACCTTAAATATCAAATTG
1 AAACCCTAAACCTTAAATATCAAACTG
* * *
22455160 AAACTCTAAATCTTAAATCTCAAACTG
1 AAACCCTAAACCTTAAATATCAAACTG
*
22455187 AAGCCCT
1 AAACCCT
22455194 GAACATCAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.26
Consensus pattern (27 bp):
AAACCCTAAACCTTAAATATCAAACTG
Found at i:22460202 original size:6 final size:6
Alignment explanation
Indices: 22460191--22460222 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
22460181 CACACTGATT
22460191 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
22460223 TATCGTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CTCTCC
Found at i:22460463 original size:9 final size:9
Alignment explanation
Indices: 22460449--22460475 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22460439 TTTCCTTTTG
22460449 TTTTTGTTT
1 TTTTTGTTT
22460458 TTTTTGTTT
1 TTTTTGTTT
22460467 TTTTTGTTT
1 TTTTTGTTT
22460476 CTAGAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:22469775 original size:85 final size:86
Alignment explanation
Indices: 22469646--22470030 Score: 584
Period size: 85 Copynumber: 4.5 Consensus size: 86
22469636 CAACGAAGAT
* *
22469646 AAGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTAGGAGGTTAAGGTGAGTCTTCGACCTGCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
22469710 CCACCACTGCTCGGAGAG-CC
66 CCACCACTGCTCGGAGAGCCC
* *
22469730 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
*
22469795 CCACCACTGCTCGGTGAGCCC
66 CCACCACTGCTCGGAGAGCCC
* * *
22469816 AAG-TCTGTAAACTTTAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
22469880 CCACCACTGCTC-GACGAGCCC
66 CCACCACTGCTCGGA-GAGCCC
* * * *
22469901 AAG-TATGTAAACTTTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCGAGTCTTCGACCTACT
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
* *
22469965 CCGCCACTGCTCGGCGAGCCC
66 CCACCACTGCTCGGAGAGCCC
*
22469986 -AGATCTGTAAATTTTAGCCTGTTACCCTACTGTTTAGGGGGTTAA
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
22470031 TACGTGTATC
Statistics
Matches: 276, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
84 11 0.04
85 260 0.94
86 5 0.02
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (86 bp):
AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
CCACCACTGCTCGGAGAGCCC
Found at i:22469805 original size:41 final size:41
Alignment explanation
Indices: 22469759--22469890 Score: 101
Period size: 41 Copynumber: 3.1 Consensus size: 41
22469749 CTGTTACCCT
22469759 ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCCACC
1 ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCCACC
* *** * ** *
22469800 ACTGC-TCGGTGAGCCCAAGTCTGTAAACTTT-AGCCTG-T-TACC
1 ACTGCTTAGG-G-GGTTAAGGC-G-AGTCTTTGA-CCTGCTCCACC
22469842 TTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCCACC
1 --ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCCACC
22469885 ACTGCT
1 ACTGCT
22469891 CGACGAGCCC
Statistics
Matches: 64, Mismatches: 16, Indels: 22
0.63 0.16 0.22
Matches are distributed among these distances:
40 3 0.05
41 21 0.33
42 11 0.17
43 11 0.17
44 15 0.23
45 3 0.05
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (41 bp):
ACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCCACC
Found at i:22470104 original size:44 final size:43
Alignment explanation
Indices: 22470056--22470200 Score: 143
Period size: 44 Copynumber: 3.3 Consensus size: 43
22470046 TCTGCTTCAC
*
22470056 TATTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTACCT
1 TATTGCTTAGGGAGATAAGATCTGTAATCTTCA-CTTGTTACCT
* * * * * *
22470100 TATTGCTTAGGGAGTTAA-AGCGTGT-ATCTTTAATCTGCT-CCAC
1 TATTGCTTAGGGAGATAAGATC-TGTAATCTTCACT-TGTTACC-T
*
22470143 TATTACTTAGGGAGATAAGATCTGTAATCTTCATCTTGTTACCT
1 TATTGCTTAGGGAGATAAGATCTGTAATCTTCA-CTTGTTACCT
*
22470187 AATTGCTTAGGGAG
1 TATTGCTTAGGGAG
22470201 TTAAAGCCTG
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
42 3 0.04
43 30 0.38
44 42 0.54
45 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (43 bp):
TATTGCTTAGGGAGATAAGATCTGTAATCTTCACTTGTTACCT
Found at i:22470136 original size:87 final size:87
Alignment explanation
Indices: 22469642--22470292 Score: 351
Period size: 85 Copynumber: 7.6 Consensus size: 87
22469632 TGCTCAACGA
* * *
22469642 AGATAAGATCTGTAAT-TTTAGCCTGTTACCCTACTGCTTA-GGAGGTT-AAG-GTG-AGTCTTC
1 AGATAAGATCTGTAATCTTCAGCTTGTTACCCTACTGCTTAGGGA-GTTAAAGCGTGTA-TCTTT
* * * *
22469702 GACCTGCTCCACCACTGC-TCGGAG
64 GATCTGCTCCACTATTGCTTAGG-G
** * * * * * *
22469726 AGCCAGGATCTGTAAAT-TTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTTG
1 AGATAAGATCTGT-AATCTTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCGTGTATCTTTG
* * * *
22469788 ACCTGCTCCACCACTGC-TCGGTG
65 ATCTGCTCCACTATTGCTTAGG-G
** * * * * * * *
22469811 AGCCCAAG-TCTGTAAACTTTAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCGAG--TCTTTG
1 AG-ATAAGATCTGTAATCTTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCGTGTATCTTTG
* * * * *
22469873 ACCTGCTCCACCACTGC-TCGACG
65 ATCTGCTCCACTATTGCTTAG-GG
** * * * * * * *
22469896 AGCCCAAG-TATGTAAACTTTAGCCTGTTACCCTACTGCTTAGAGG-GTTAAGGCGAG--TCTTC
1 AG-ATAAGATCTGTAATCTTCAGCTTGTTACCCTACTGCTTAG-GGAGTTAAAGCGTGTATCTTT
* * * * * *
22469957 GACCTACTCCGCCACTGC-TCGGCG
64 GATCTGCTCCACTATTGCTTAGG-G
*** * * * *
22469981 AGCCCAGATCTGTAAAT-TTTAGCCTGTTACCCTACTGTTTAGGGGGTTAATA-CGTGTATCTTT
1 AGATAAGATCTGT-AATCTTCAGCTTGTTACCCTACTGCTTAGGGAGTTAA-AGCGTGTATCTTT
*
22470044 GATCTGCTTCACTATTGCTTAGGG
64 GATCTGCTCCACTATTGCTTAGGG
* * * *
22470068 AGATAAGATCTATAATCTTCAGCTTGTTACCTTATTGCTTAGGGAGTTAAAGCGTGTATCTTTAA
1 AGATAAGATCTGTAATCTTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCGTGTATCTTTGA
*
22470133 TCTGCTCCACTATTACTTAGGG
66 TCTGCTCCACTATTGCTTAGGG
* * *
22470155 AGATAAGATCTGTAATCTTCATCTTGTTA-CCTAATTGCTTAGGGAGTTAAAGCCTGCTAT-TTT
1 AGATAAGATCTGTAATCTTCAGCTTGTTACCCT-ACTGCTTAGGGAGTTAAAGCGTG-TATCTTT
*
22470218 CGATCTG-TCCCACTATTGCTTAAGG
64 -GATCTGCT-CCACTATTGCTTAGGG
* * * * * *
22470243 AGACAAGATCTGTAGTTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAA
1 AGATAAGATCTGTAATCTTCAGCTTGTTACCCTACTGCTTAGGGAGTTAA
22470293 GACTGGTGGT
Statistics
Matches: 484, Mismatches: 60, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
84 18 0.04
85 242 0.50
86 18 0.04
87 140 0.29
88 63 0.13
89 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (87 bp):
AGATAAGATCTGTAATCTTCAGCTTGTTACCCTACTGCTTAGGGAGTTAAAGCGTGTATCTTTGA
TCTGCTCCACTATTGCTTAGGG
Found at i:22470236 original size:44 final size:42
Alignment explanation
Indices: 22470100--22470244 Score: 116
Period size: 44 Copynumber: 3.3 Consensus size: 42
22470090 CTTGTTACCT
* *
22470100 TATTGCTTAGGGAGTTAAAGCGTGTATCTTTAATCTG-CTCCAC
1 TATTGCTTAGGGAGTTAAAGCCTGTAT-TTTCATCTGTC-CCAC
* * * * **
22470143 TATTACTTAGGGAGAT-AAGATCTGTAATCTTCATCTTGTTAC-C
1 TATTGCTTAGGGAGTTAAAG-CCTGT-ATTTTCATC-TGTCCCAC
22470186 TAATTGCTTAGGGAGTTAAAGCCTGCTATTTTCGATCTGTCCCAC
1 T-ATTGCTTAGGGAGTTAAAGCCTG-TATTTTC-ATCTGTCCCAC
*
22470231 TATTGCTTAAGGAG
1 TATTGCTTAGGGAG
22470245 ACAAGATCTG
Statistics
Matches: 78, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
42 3 0.04
43 24 0.31
44 42 0.54
45 9 0.12
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (42 bp):
TATTGCTTAGGGAGTTAAAGCCTGTATTTTCATCTGTCCCAC
Found at i:22470384 original size:44 final size:44
Alignment explanation
Indices: 22470336--22470422 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
22470326 CATGGAGATA
* *
22470336 AGATCCGCTGAAATTT-GATCTGTTCCACTCTTGC-CAGTGGGATG
1 AGATCCGCT-AAATTTAGCT-TGTTCCACTCCTGCTCAGTGGGATG
* *
22470380 AGATCTGCTATATTTAGCTTGTTCCACTCCTGCTCAGTGGGAT
1 AGATCCGCTAAATTTAGCTTGTTCCACTCCTGCTCAGTGGGAT
22470423 AATGCTGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 18 0.49
44 19 0.51
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (44 bp):
AGATCCGCTAAATTTAGCTTGTTCCACTCCTGCTCAGTGGGATG
Found at i:22470695 original size:179 final size:178
Alignment explanation
Indices: 22470331--22470785 Score: 691
Period size: 179 Copynumber: 2.6 Consensus size: 178
22470321 CGATACATGG
* *
22470331 AGATAAGATCCG-CTGAAATTTGATCTGTTCCACTCTTGCCAGTGGGATGAGATCTGCTATATTT
1 AGATAAGATCTGTC-GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTT
* * *
22470395 AGCTTGTTCCACTCCTGCTCAGTGGGATAATGCTGGTGGTTTGAATCTGCTCCATTGTCGATACA
65 AGCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTGGTGGTCTGAATCTGCTCCATTGTCGATACA
* * * *
22470460 TGTAGATAAGATTCGTCAAAATTTGATTTGCTCTGCTCCTGCTCAGCGA
130 TGAAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGA
* * *
22470509 AGATAAGATTTGTCGAAATTTGATTTGTTCCACTCCAGCCAGTGGGATGAGATCTGCTATATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTA
*
22470574 GCCTGCTT-CACTCCTGCTCAGTGAAGATAAGGCTGGTGG-CTGAAATCTGCTCCATTGTCGATA
66 GCCTG-TTCCACTCCTGCTCAGTG-GGATAAGGCTGGTGGTCTG-AATCTGCTCCATTGTCGATA
* *
22470637 CATGAAGGTAAGATTTGCCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGA
128 CATGAAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGA
* * *
22470688 AGATAAGATCTGTCGAAATTTGATCTATTTCACTCCTGCTAGTGGGATGAGATCTGCTATATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTA
22470753 GCCTGTTCCACTCCTGCTCAGTGGGATAAGGCT
66 GCCTGTTCCACTCCTGCTCAGTGGGATAAGGCT
22470786 TGCCGAAATC
Statistics
Matches: 250, Mismatches: 22, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
178 90 0.36
179 160 0.64
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (178 bp):
AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTA
GCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTGGTGGTCTGAATCTGCTCCATTGTCGATACAT
GAAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGA
Found at i:22472082 original size:17 final size:16
Alignment explanation
Indices: 22472062--22472122 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 16
22472052 TTCTTTCTCT
*
22472062 TTTTTGTTTTTCTCTTC
1 TTTTTCTTTTT-TCTTC
*
22472079 TTTTTCCTTTTTTTTTC
1 TTTTT-CTTTTTTCTTC
*
22472096 TCTTTCCTTTTTTTCTTC
1 T-TTTTC-TTTTTTCTTC
22472114 TTTTT-TTTT
1 TTTTTCTTTT
22472123 AAAAGTGAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 4 0.11
17 14 0.39
18 18 0.50
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTC
Found at i:22472107 original size:24 final size:23
Alignment explanation
Indices: 22472040--22472099 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
22472030 TGCCCTCTCC
* * * *
22472040 TTTGCTTTTCTTTTCTTTCTCTTT
1 TTTGTTTTTCTCTTCTTTTTC-CT
22472064 TTTGTTTTTCTCTTCTTTTTCCT
1 TTTGTTTTTCTCTTCTTTTTCCT
22472087 TTT-TTTTTCTCTT
1 TTTGTTTTTCTCTT
22472100 TCCTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 10 0.31
23 4 0.12
24 18 0.56
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (23 bp):
TTTGTTTTTCTCTTCTTTTTCCT
Found at i:22472109 original size:37 final size:38
Alignment explanation
Indices: 22472050--22472121 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
22472040 TTTGCTTTTC
*
22472050 TTTTCTTTCTCTTTTTTGTTTTTC-TCTTCTTTTTCCT
1 TTTTCTTTCTCTTTCTTGTTTTTCTTCTTCTTTTTCCT
* *
22472087 TTTTTTTTCTCTTTCCTT-TTTTTCTTCTTTTTTTT
1 TTTTCTTTCTCTTT-CTTGTTTTTCTTCTTCTTTTT
22472122 TAAAAGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.79
Consensus pattern (38 bp):
TTTTCTTTCTCTTTCTTGTTTTTCTTCTTCTTTTTCCT
Found at i:22472115 original size:16 final size:16
Alignment explanation
Indices: 22472076--22472116 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
22472066 TGTTTTTCTC
22472076 TTCTT-TTTCCTTTTT
1 TTCTTCTTTCCTTTTT
*
22472091 TTTTCTCTTTCCTTTTT
1 TTCT-TCTTTCCTTTTT
22472108 TTCTTCTTT
1 TTCTTCTTT
22472117 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 3 0.14
16 6 0.27
17 13 0.59
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCTTCTTTCCTTTTT
Found at i:22478497 original size:17 final size:16
Alignment explanation
Indices: 22478477--22478537 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 16
22478467 TTCTTTCTCT
*
22478477 TTTTTGTTTTTCTCTTC
1 TTTTTCTTTTT-TCTTC
*
22478494 TTTTTCCTTTTTTTTTC
1 TTTTT-CTTTTTTCTTC
*
22478511 TCTTTCCTTTTTTTCTTC
1 T-TTTTC-TTTTTTCTTC
22478529 TTTTT-TTTT
1 TTTTTCTTTT
22478538 AAAAGTGAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 4 0.11
17 14 0.39
18 18 0.50
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTC
Found at i:22478522 original size:24 final size:23
Alignment explanation
Indices: 22478455--22478514 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
22478445 TGCCCTCTCC
* * * *
22478455 TTTGCTTTTCTTTTCTTTCTCTTT
1 TTTGTTTTTCTCTTCTTTTTC-CT
22478479 TTTGTTTTTCTCTTCTTTTTCCT
1 TTTGTTTTTCTCTTCTTTTTCCT
22478502 TTT-TTTTTCTCTT
1 TTTGTTTTTCTCTT
22478515 TCCTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 10 0.31
23 4 0.12
24 18 0.56
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (23 bp):
TTTGTTTTTCTCTTCTTTTTCCT
Found at i:22478524 original size:37 final size:38
Alignment explanation
Indices: 22478465--22478536 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
22478455 TTTGCTTTTC
*
22478465 TTTTCTTTCTCTTTTTTGTTTTTC-TCTTCTTTTTCCT
1 TTTTCTTTCTCTTTCTTGTTTTTCTTCTTCTTTTTCCT
* *
22478502 TTTTTTTTCTCTTTCCTT-TTTTTCTTCTTTTTTTT
1 TTTTCTTTCTCTTT-CTTGTTTTTCTTCTTCTTTTT
22478537 TAAAAGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.79
Consensus pattern (38 bp):
TTTTCTTTCTCTTTCTTGTTTTTCTTCTTCTTTTTCCT
Found at i:22478530 original size:16 final size:16
Alignment explanation
Indices: 22478491--22478531 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
22478481 TGTTTTTCTC
22478491 TTCTT-TTTCCTTTTT
1 TTCTTCTTTCCTTTTT
*
22478506 TTTTCTCTTTCCTTTTT
1 TTCT-TCTTTCCTTTTT
22478523 TTCTTCTTT
1 TTCTTCTTT
22478532 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 3 0.14
16 6 0.27
17 13 0.59
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTCTTCTTTCCTTTTT
Found at i:22482890 original size:126 final size:126
Alignment explanation
Indices: 22482729--22482972 Score: 452
Period size: 126 Copynumber: 1.9 Consensus size: 126
22482719 ATTTTTGCCT
*
22482729 TAAGAAGATATTCGAATATTCAAAACAAACAAAGAAAGTGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAAGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
22482794 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
* *
22482855 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAAGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
22482920 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
22482973 AAGATCAATG
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 114 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAAGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:22483105 original size:13 final size:12
Alignment explanation
Indices: 22483073--22483122 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
22483063 AACCATATAT
22483073 AAATAA-TAA-A
1 AAATAATTAATA
22483083 AAATAA-TAATA
1 AAATAATTAATA
*
22483094 ATAGTAATTAATA
1 A-AATAATTAATA
22483107 GAAATAATTAATA
1 -AAATAATTAATA
22483120 AAA
1 AAA
22483123 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:22483451 original size:14 final size:14
Alignment explanation
Indices: 22483432--22483462 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22483422 ATATATTTAC
*
22483432 ATAATAAATATATA
1 ATAATAAATAAATA
22483446 ATAATAAATAAATA
1 ATAATAAATAAATA
22483460 ATA
1 ATA
22483463 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:22483463 original size:19 final size:18
Alignment explanation
Indices: 22483434--22483470 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
22483424 ATATTTACAT
22483434 AATAAATATATAATAATA
1 AATAAATATATAATAATA
22483452 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
22483471 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:22483522 original size:63 final size:63
Alignment explanation
Indices: 22483445--22483578 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 63
22483435 ATAAATATAT
* *
22483445 AATAATAAATAAA-TAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAATAAA-AAACAAATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAATAGTAA
* *
22483505 AATAATAAAAAACAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAATAGTAA
1 AATAATAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAATAGTAA
*
22483568 AATAACAAAAA
1 AATAATAAAAA
22483579 TAAAAAAGGG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 3 0.05
60 21 0.33
61 7 0.11
62 21 0.33
63 12 0.19
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.27
Consensus pattern (63 bp):
AATAATAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAATAGTAA
Found at i:22483880 original size:18 final size:18
Alignment explanation
Indices: 22483857--22483892 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22483847 ATAACAAGTA
* *
22483857 GGGTGATGGAGTTAGTGG
1 GGGTGACGGAGGTAGTGG
22483875 GGGTGACGGAGGTAGTGG
1 GGGTGACGGAGGTAGTGG
22483893 ATGGTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.58, T:0.22
Consensus pattern (18 bp):
GGGTGACGGAGGTAGTGG
Found at i:22483925 original size:39 final size:39
Alignment explanation
Indices: 22483871--22483945 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
22483861 GATGGAGTTA
*
22483871 GTGGGGGTGACGGAGGTAGTGGATGGTTTAGTAGGGGGT
1 GTGGGGGTGACGGAGGTAGTAGATGGTTTAGTAGGGGGT
*
22483910 GTGGGGGTGATGGAGGTAGTAGATGGTTTAGTAGGG
1 GTGGGGGTGACGGAGGTAGTAGATGGTTTAGTAGGG
22483946 TGATGGAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.17, C:0.01, G:0.55, T:0.27
Consensus pattern (39 bp):
GTGGGGGTGACGGAGGTAGTAGATGGTTTAGTAGGGGGT
Found at i:22483948 original size:29 final size:29
Alignment explanation
Indices: 22483914--22483976 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
22483904 GGGGGTGTGG
22483914 GGGTGATGGAGGTAGTAGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGT-GATCGGTTTAGTA
* *
22483943 GGGTGATGGAGTTAGTGGTCGGTTTAGTA
1 GGGTGATGGAGGTAGTGATCGGTTTAGTA
22483972 GGGTG
1 GGGTG
22483977 TTTAATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.19, C:0.02, G:0.48, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGATCGGTTTAGTA
Found at i:22493580 original size:16 final size:16
Alignment explanation
Indices: 22493556--22493592 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22493546 AGGTTTTGTA
22493556 AAATA-TTTAAAAAAT
1 AAATATTTTAAAAAAT
22493571 AAATATTTTAAAAAAT
1 AAATATTTTAAAAAAT
*
22493587 ATATAT
1 AAATAT
22493593 GTCAATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATTTTAAAAAAT
Found at i:22494972 original size:26 final size:27
Alignment explanation
Indices: 22494937--22494993 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
22494927 TGAATAACAT
* *
22494937 AAAAAAAGTTTAGGTA-CCACTTGTGA
1 AAAAAAAGTTTAGGTATCAACTTGGGA
22494963 AAAAAAAGTTTAGGTATCAACTTGGGA
1 AAAAAAAGTTTAGGTATCAACTTGGGA
22494990 AAAA
1 AAAA
22494994 TGGTATAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (27 bp):
AAAAAAAGTTTAGGTATCAACTTGGGA
Found at i:22502885 original size:98 final size:98
Alignment explanation
Indices: 22502761--22502956 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 98
22502751 AATTTTGTTG
*
22502761 GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGATAAATAAT
1 GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGAGAAATAAT
*
22502826 TAACCCTAAATATTAAAAAGTAAAAGAAAGTTC
66 TAACCCTAAACATTAAAAAGTAAAAGAAAGTTC
* *
22502859 GTTTATGTGAATAACTTAAATGGAAATGGTGGGAGGTGAAATTAGGGAAGGACTTGAGAAATAAT
1 GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGAGAAATAAT
22502924 TAACCCTAAACATTAAAAAGTAAAAGAAAGTTC
66 TAACCCTAAACATTAAAAAGTAAAAGAAAGTTC
22502957 ATAGAGGCCT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.27
Consensus pattern (98 bp):
GTTTATGTGAATAACTTAAATAGAAATGGTGGGAGATGAAATTAGGGAAGGACTTGAGAAATAAT
TAACCCTAAACATTAAAAAGTAAAAGAAAGTTC
Found at i:22517787 original size:18 final size:18
Alignment explanation
Indices: 22517764--22517798 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22517754 AATAAAAAAA
*
22517764 TTTGGATAAAAATATTAG
1 TTTGGATAAAAAAATTAG
22517782 TTTGGATAAAAAAATTA
1 TTTGGATAAAAAAATTA
22517799 AACAGATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (18 bp):
TTTGGATAAAAAAATTAG
Found at i:22520949 original size:11 final size:11
Alignment explanation
Indices: 22520935--22520982 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
22520925 CTTTCCTTCC
22520935 TAATAAAATAA
1 TAATAAAATAA
*
22520946 TAATAAAATATCT
1 TAATAAAATA--A
* *
22520959 TATTAAAATAT
1 TAATAAAATAA
22520970 TAATAAAATAA
1 TAATAAAATAA
22520981 TA
1 TA
22520983 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:22521268 original size:41 final size:41
Alignment explanation
Indices: 22521206--22521290 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
22521196 TTCTAGATTA
*
22521206 TTCCACCCTTAAAATATTTGCACTATTAGTCCTTCCACTTT
1 TTCCACCCTTAAAATATTTGCACTATTAGTCCTTCAACTTT
* *
22521247 TTCCCCCCTTAAAATATTTGCACTATTAGTCTTTCAACTTT
1 TTCCACCCTTAAAATATTTGCACTATTAGTCCTTCAACTTT
22521288 TTC
1 TTC
22521291 ATATTTACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.28, G:0.05, T:0.44
Consensus pattern (41 bp):
TTCCACCCTTAAAATATTTGCACTATTAGTCCTTCAACTTT
Found at i:22523368 original size:12 final size:12
Alignment explanation
Indices: 22523351--22523375 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22523341 TATATGTGAC
22523351 ATGAAAGATTTA
1 ATGAAAGATTTA
22523363 ATGAAAGATTTA
1 ATGAAAGATTTA
22523375 A
1 A
22523376 CTTTTGGTTG
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:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGAAAGATTTA
Found at i:22523832 original size:21 final size:21
Alignment explanation
Indices: 22523806--22523848 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22523796 GCGTGTCAAG
22523806 AGATAGTATTGTAAAGTATAT
1 AGATAGTATTGTAAAGTATAT
22523827 AGATAGTATTGTAAAGTATAT
1 AGATAGTATTGTAAAGTATAT
22523848 A
1 A
22523849 CAGAGTACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (21 bp):
AGATAGTATTGTAAAGTATAT
Found at i:22523855 original size:21 final size:21
Alignment explanation
Indices: 22523810--22523855 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
22523800 GTCAAGAGAT
* *
22523810 AGTATTGTAAAGTATATAGAT
1 AGTATTGTAAAGTATATACAG
22523831 AGTATTGTAAAGTATATACAG
1 AGTATTGTAAAGTATATACAG
22523852 AGTA
1 AGTA
22523856 CCTCAATATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (21 bp):
AGTATTGTAAAGTATATACAG
Found at i:22529952 original size:21 final size:21
Alignment explanation
Indices: 22529913--22529953 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22529903 TATTTTTTAT
*
22529913 TTTTTAATATTTATGAAAATA
1 TTTTTAATATTTATCAAAATA
22529934 TTTTTAATAATTT-TCAAAAT
1 TTTTTAAT-ATTTATCAAAAT
22529954 TTAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTTAATATTTATCAAAATA
Found at i:22530916 original size:94 final size:94
Alignment explanation
Indices: 22530736--22530930 Score: 243
Period size: 94 Copynumber: 2.1 Consensus size: 94
22530726 TTGTTAATTT
* * * * *
22530736 ATATATTTAATTAATAATTCTTTTATTTATATAAATAAAATAATAAATATGGAATTGTACAATAA
1 ATATTTTTAATTAATAATTATTTTATTGATATAAACAAAATAATAAATATGGAATTATACAATAA
* *
22530801 AAATATATCTATCTTTCATTATGTTGA-AA
66 AAATATATCTATATGTCATTATGTT-ACAA
* * *
22530830 ATATTTTTAATTAATAATTATTTTATTGATGTAAACAAAATAATAAATATGGAGTTATATAATGA
1 ATATTTTTAATTAATAATTATTTTATTGATATAAACAAAATAATAAATATGGAATTATACAAT-A
*
22530895 GAATATATAT-TATATGT-ATTATGTTACAA
65 -AAAATATATCTATATGTCATTATGTTACAA
22530924 ATATTTT
1 ATATTTT
22530931 ATTTTTTTGA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
93 1 0.01
94 72 0.83
95 6 0.07
96 8 0.09
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (94 bp):
ATATTTTTAATTAATAATTATTTTATTGATATAAACAAAATAATAAATATGGAATTATACAATAA
AAATATATCTATATGTCATTATGTTACAA
Found at i:22531126 original size:33 final size:34
Alignment explanation
Indices: 22531059--22531126 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
22531049 ATCAAATAAT
* * *
22531059 TATTTTAAATATTATTATTTTTTTAAATATAAAA
1 TATTTTAAAAATTATTATTTTTATAAATAAAAAA
**
22531093 TATTTTAAAAATTA-TATTTTTATATGTAAAAAA
1 TATTTTAAAAATTATTATTTTTATAAATAAAAAA
22531126 T
1 T
22531127 TAATTGATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 16 0.55
34 13 0.45
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (34 bp):
TATTTTAAAAATTATTATTTTTATAAATAAAAAA
Found at i:22531482 original size:2 final size:2
Alignment explanation
Indices: 22531475--22531502 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22531465 AGGAAGAGGC
22531475 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22531503 CGGGGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22548517 original size:15 final size:15
Alignment explanation
Indices: 22548470--22548511 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
22548460 TAATGAAATT
22548470 TTAAAATATAA-CAAA
1 TTAAAATA-AAGCAAA
22548485 TATAAAAATAAAGCAAA
1 T-T-AAAATAAAGCAAA
22548502 TTAAAATAAA
1 TTAAAATAAA
22548512 TGAAATATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.38
16 4 0.17
17 11 0.46
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (15 bp):
TTAAAATAAAGCAAA
Found at i:22548683 original size:12 final size:12
Alignment explanation
Indices: 22548667--22548705 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
22548657 TAAATTATAA
22548667 AAAAATGAAAAT
1 AAAAATGAAAAT
* *
22548679 GAAAATAAAAAT
1 AAAAATGAAAAT
22548691 AAAAATGAAAAT
1 AAAAATGAAAAT
22548703 AAA
1 AAA
22548706 TAATATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:22548690 original size:18 final size:18
Alignment explanation
Indices: 22548667--22548710 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
22548657 TAAATTATAA
*
22548667 AAAAATGAAAATGAAAAT
1 AAAAATAAAAATGAAAAT
22548685 AAAAATAAAAATGAAAAT
1 AAAAATAAAAATGAAAAT
22548703 AAATAATA
1 AAA-AATA
22548711 TATAAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAATGAAAAT
Found at i:22548710 original size:7 final size:6
Alignment explanation
Indices: 22548667--22548710 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
22548657 TAAATTATAA
* * *
22548667 AAAAAT GAAAAT GAAAAT AAAAAT AAAAAT GAAAAT AAATAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT A
22548711 TATAAAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:22548832 original size:20 final size:20
Alignment explanation
Indices: 22548809--22548847 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22548799 ATCTAAAATA
22548809 AATAATATACATA-AAATAAG
1 AATAATATA-ATATAAATAAG
*
22548829 AATAATTTAATATAAATAA
1 AATAATATAATATAAATAA
22548848 TGTATATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
AATAATATAATATAAATAAG
Done.