Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 304 of 444
Found at i:87513782 original size:19 final size:18
Alignment explanation
Indices: 87513760--87513801 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
87513750 CATATTTTTT
87513760 AAAAAATAATAAAAAATCA
1 AAAAAATAATAAAAAAT-A
87513779 AAAAAATAATAAAAAATA
1 AAAAAATAATAAAAAATA
87513797 AAAAA
1 AAAAA
87513802 TACCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAAATAATAAAAAATA
Found at i:87514447 original size:22 final size:23
Alignment explanation
Indices: 87514409--87514468 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
87514399 ATATTTTTGC
* * *
87514409 TATTATCTATTAT-TATCATATT
1 TATTATATATTTTCTATCATATA
*
87514431 TATTAT-TATTTTCTATCCTATA
1 TATTATATATTTTCTATCATATA
87514453 TATTTATATATTTTCT
1 TA-TTATATATTTTCT
87514469 TTTTAGTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.16
22 15 0.47
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTATATATTTTCTATCATATA
Found at i:87514682 original size:3 final size:3
Alignment explanation
Indices: 87514670--87514718 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
87514660 TTTGTTTTTG
* * * *
87514670 TAT T-T TAT TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT TGT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
87514717 TA
1 TA
87514719 ATGTATATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:87514843 original size:27 final size:26
Alignment explanation
Indices: 87514805--87514871 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
87514795 TTATTAGTCC
87514805 TAATA-TATATTATGTATACATTTTT
1 TAATACTATATTATGTATACATTTTT
*
87514830 TAAATACTATATTA--TATATATTTTT
1 T-AATACTATATTATGTATACATTTTT
*
87514855 TAATACCATATTATGTA
1 TAATACTATATTATGTA
87514872 CATATTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 11 0.31
25 12 0.33
26 6 0.17
27 7 0.19
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (26 bp):
TAATACTATATTATGTATACATTTTT
Found at i:87514859 original size:24 final size:24
Alignment explanation
Indices: 87514805--87514874 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
87514795 TTATTAGTCC
87514805 TAATA-TATATTATGTATACATTTTT
1 TAATACTATATTA--TATACATTTTT
*
87514830 TAAATACTATATTATATATATTTTT
1 T-AATACTATATTATATACATTTTT
* *
87514855 TAATACCATATTATGTACAT
1 TAATACTATATTATATACAT
87514875 ATTATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 16 0.41
25 12 0.31
26 4 0.10
27 7 0.18
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (24 bp):
TAATACTATATTATATACATTTTT
Found at i:87514979 original size:18 final size:18
Alignment explanation
Indices: 87514956--87515014 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
87514946 ATATATATAC
*
87514956 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
87514974 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
87514992 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
87515011 TTTT
1 TTTT
87515015 CACTATTGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:87518847 original size:49 final size:49
Alignment explanation
Indices: 87518791--87519036 Score: 287
Period size: 49 Copynumber: 5.0 Consensus size: 49
87518781 GTAGACCAGG
* * *
87518791 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
87518840 TTATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * *
87518890 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
** * * *
87518940 GTTAT-TGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAA
1 -TTATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
87518990 TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
87519037 TTACTATAGA
Statistics
Matches: 164, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 80 0.49
50 48 0.29
51 36 0.22
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:87519024 original size:100 final size:99
Alignment explanation
Indices: 87518791--87519036 Score: 298
Period size: 100 Copynumber: 2.5 Consensus size: 99
87518781 GTAGACCAGG
* * * * *
87518791 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATA
*
87518856 GTAGCCTACACTTAGTACTACACACGTGACCTAA
66 GTAGCCTACACTTAGTACTACACACGCGACCTAA
** * * **
87518890 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TGGGTATGC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCT-GGTACAC
* * *
87518954 ATAGTAGCCTGCACTTAGTACTACACATGCGATC-AA
63 ATAGTAGCCTACACTTAGTACTACACACGCGACCTAA
* *
87518990 TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
87519037 TTACTATAGA
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 39 0.32
100 46 0.37
101 38 0.31
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (99 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATA
GTAGCCTACACTTAGTACTACACACGCGACCTAA
Found at i:87519313 original size:27 final size:27
Alignment explanation
Indices: 87519283--87519336 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
87519273 TCATACAACC
* *
87519283 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
87519310 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
87519337 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:87524711 original size:99 final size:99
Alignment explanation
Indices: 87524540--87524721 Score: 330
Period size: 99 Copynumber: 1.8 Consensus size: 99
87524530 ATCTATAGTG
* *
87524540 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACCGGATAATTGGTCACATGTGTAGT
1 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACATGTGTAGT
87524605 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
87524639 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGA-ATGTGTAG
1 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTC-ACATGTGTAG
87524703 TACTAAGTGCAGGCTACTA
65 TACTAAGTGCAGGCTACTA
87524722 TGCGTACCAA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
99 79 0.99
100 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (99 bp):
AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
Found at i:87524729 original size:49 final size:49
Alignment explanation
Indices: 87524541--87524721 Score: 256
Period size: 49 Copynumber: 3.7 Consensus size: 49
87524531 TCTATAGTGA
* *
87524541 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * **
87524590 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
87524639 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
87524689 GGTCGA-ATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTC-ACATGTGTAGTACTAAGTGCAGGCTACTA
87524722 TGCGTACCAA
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 72 0.63
50 43 0.37
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:87529848 original size:2 final size:2
Alignment explanation
Indices: 87529841--87529866 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87529831 GTGTATCTAT
87529841 TA TA 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
87529867 GAAGAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87529918 original size:19 final size:19
Alignment explanation
Indices: 87529894--87529933 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
87529884 AAGGAGAAAA
*
87529894 ATCTTACTATGTTCGTAAC
1 ATCTTACTATGTTCATAAC
*
87529913 ATCTTACTTTGTTCATAAC
1 ATCTTACTATGTTCATAAC
87529932 AT
1 AT
87529934 TTGCACAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (19 bp):
ATCTTACTATGTTCATAAC
Found at i:87531430 original size:127 final size:127
Alignment explanation
Indices: 87531258--87531489 Score: 383
Period size: 127 Copynumber: 1.8 Consensus size: 127
87531248 ACCTTTTGAG
* *
87531258 AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATTGTACCCTAATGTGCTGGGTTTTGATTT
1 AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
*
87531323 TCCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
66 ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
* * *
87531385 AACAAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCCTAATGTGCTGGGTTTCGGTTT
1 AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
* * *
87531450 ACTGTTTGACCAAATAACCGAATATCCTTTTAAAATTTCA
66 ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCA
87531490 ATGCATGCGT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 96 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (127 bp):
AACAAGACAATATTTTGTGTTTGGAAATTCGAGAAATCGTACCCTAATGTGCTGGGTTTCGATTT
ACCGTTTGACCAAATAACCAAATACCCTTTTAAAATTTCATCCATGTTTTCTTCAATTAAAA
Found at i:87534725 original size:19 final size:19
Alignment explanation
Indices: 87534701--87534745 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
87534691 GACGCCTTTT
* *
87534701 TGCATT-CATTTCATGCATC
1 TGCATTACATTACAT-CATA
87534720 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
87534739 TGCATTA
1 TGCATTA
87534746 AAGTTCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:87534912 original size:12 final size:12
Alignment explanation
Indices: 87534890--87534929 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
87534880 GAACAAATAC
87534890 AGAAGCAGATGCA
1 AGAA-CAGATGCA
87534903 AGAACAGATGCA
1 AGAACAGATGCA
* *
87534915 AGCACAAATGCA
1 AGAACAGATGCA
87534927 AGA
1 AGA
87534930 GCAACTGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.50, C:0.17, G:0.25, T:0.07
Consensus pattern (12 bp):
AGAACAGATGCA
Found at i:87535210 original size:84 final size:84
Alignment explanation
Indices: 87535069--87535234 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 84
87535059 GAATGACCAT
* * * *
87535069 GAAGATCCTCTCTACCCCCCTGGTTTTACCTCGACAAATGCTCAAACGCAACCTGAGATGCACAC
1 GAAGATCCTCTCTACCCCCCTGGGTTCACCCCGAAAAATGCTCAAACGCAACCTGAGATGCACAC
87535134 GCGAAGGCCATCCGTTACA
66 GCGAAGGCCATCCGTTACA
** *
87535153 GAAGATCCTCTCTACCCCTTTGGGTTCACCCCGAAAAATGCTCAAACGTAACCTGAGATGCACAC
1 GAAGATCCTCTCTACCCCCCTGGGTTCACCCCGAAAAATGCTCAAACGCAACCTGAGATGCACAC
*
87535218 GCGAAGGCCATCTGTTA
66 GCGAAGGCCATCCGTTA
87535235 TATTTAGGCC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.21
Consensus pattern (84 bp):
GAAGATCCTCTCTACCCCCCTGGGTTCACCCCGAAAAATGCTCAAACGCAACCTGAGATGCACAC
GCGAAGGCCATCCGTTACA
Found at i:87543840 original size:179 final size:179
Alignment explanation
Indices: 87543537--87544066 Score: 776
Period size: 179 Copynumber: 2.9 Consensus size: 179
87543527 GTTGCAGTAG
* * * * *
87543537 AACAGATCTTGTCTCTCTGAAGTTGCAGTAGAGTAGATCATAGTAAAACTTATCTCTCTGAAGTT
1 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTT
*
87543602 GTAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTTCCC-GAAGTTGCAGTGGAGCAGACTGAAGAT
66 GTAGTGGAGCAGGTTGAAGTTAAAGTCTTATC-TCCCTGAAGTTGCAGTGGAGTAGACTGAAGAT
*
87543666 AGCGAATCTTTTCCCTGAAGTTGCAGTGGAATAGATTGAAGCTATAAATA
130 AGCGAATCTTTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATA
* * *
87543716 AACAGATCTTATCTATCTAAAGTTGCAATAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTT
1 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTT
* * *
87543781 GTAGTGGGGTAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAATGGAGTAGACTGAAGATA
66 GTAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
*
87543846 GTGAATCTTTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATA
131 GCGAATCTTTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATA
* * * *
87543895 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCATAGCAAACATTATCTCCTTAAAGTT
1 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTT
** * * * *
87543960 CCAATGGAGCAAGTTGAAGTTAAAGTCTTATCCCCCTGAAGTTGCAGTGGAATAGACTGAAGATA
66 GTAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
* *
87544025 GC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
131 GCGAA-TCTT-T-TCCCTGAAGTTGCAGTGGAACAGATTGAAG
87544067 ATAGCAAACC
Statistics
Matches: 314, Mismatches: 33, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
178 6 0.02
179 279 0.89
180 1 0.00
181 28 0.09
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (179 bp):
AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTT
GTAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA
GCGAATCTTTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATA
Found at i:87543842 original size:43 final size:43
Alignment explanation
Indices: 87543764--87544145 Score: 199
Period size: 45 Copynumber: 8.6 Consensus size: 43
87543754 CATAGCAAAC
* * * **
87543764 CTTATCTCCCTGAAGTTGTAGTGGGGTAGGTTGAAGTTAAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTAAAGT
* * *
87543807 CTTATCTCCCTGAAGTTGCAATGGAGTAGACTGAAGATAGTGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-T--TAAAGT
* *
87543852 CTT-T-TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATAAACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG---T---T-AA-AG-T
* * * * *
87543902 CTTATCTCTCTGAAGTTGCAGTAGAACAGA-TCATAG-CAAA--
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AGTTAAAGT
* * * * *
87543942 CATTATCTCCTTAAAGTTCCAATGGAGCA-AGTTGAAGTTAAAGT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGTTAAAGT
* ** *
87543986 CTTATCCCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTA--AAGT
* **
87544031 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTA--AAGT
* * * *
87544076 CTTATC-CCCTTGAAGTTGCAGTAGAGCATACTGAAGATGGCAAA-C
1 CTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAAG-T--TAAAGT
*
87544121 CTTATCTCCCTAAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
87544146 ACAGGTTAAA
Statistics
Matches: 267, Mismatches: 45, Indels: 52
0.73 0.12 0.14
Matches are distributed among these distances:
40 2 0.01
41 22 0.08
42 5 0.02
43 85 0.32
44 9 0.03
45 100 0.37
46 10 0.04
47 1 0.00
48 2 0.01
50 4 0.01
51 3 0.01
52 24 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTAAAGT
Found at i:87544046 original size:45 final size:45
Alignment explanation
Indices: 87543986--87544149 Score: 222
Period size: 45 Copynumber: 3.6 Consensus size: 45
87543976 AAGTTAAAGT
* * **
87543986 CTTATCCCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAAC
*
87544031 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAAC
* * * *
87544076 CTTATC-CCCTTGAAGTTGCAGTAGAGCATACTGAAGATGGCAAAC
1 CTTATCTCCC-TGAAGTTGCAGTGGAACAGACTGAAGATAGCAAAC
*
87544121 CTTATCTCCCTAAAGTTGCAGTGGAACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAG
87544150 GTTAAAGTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 3 0.03
45 99 0.94
46 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAAC
Found at i:87544170 original size:90 final size:89
Alignment explanation
Indices: 87543912--87544182 Score: 264
Period size: 90 Copynumber: 3.1 Consensus size: 89
87543902 CTTATCTCTC
* * * * * *
87543912 TGAAGTTGCAGTAGAACAGA-T---CATAGCAAACATTATCTCCTTAAAGTTCCAATGGAGCAAG
1 TGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGG
* *
87543973 TTGAAGTTA-AAGTCTTATCCCCC
66 TTGAAGTTACAAATCTTATCCCCT
* * ** * *
87543996 TGAAGTTGCAGTGGAATAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGG
* * *
87544061 CTGAAGATAGCAAACCTTATCCCCT
66 TTGAAGTTA-CAAATCTTATCCCCT
* * * *
87544086 TGAAGTTGCAGTAGAGCATACTGAAGATGGCAAACCTTATCTCCCTAAAGTTGCAGTGGAACAGG
1 TGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGG
* * *
87544151 TTAAAGTTACCAATTCTTATCCTCT
66 TTGAAGTTA-CAAATCTTATCCCCT
*
87544176 TTAAGTT
1 TGAAGTT
87544183 CTAGTGGAGT
Statistics
Matches: 146, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
84 18 0.12
85 1 0.01
88 37 0.25
90 90 0.62
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (89 bp):
TGAAGTTGCAGTAGAACAGACTGAAGATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGG
TTGAAGTTACAAATCTTATCCCCT
Found at i:87546475 original size:127 final size:127
Alignment explanation
Indices: 87546249--87546480 Score: 374
Period size: 127 Copynumber: 1.8 Consensus size: 127
87546239 TAACCTCTCG
*
87546249 AGAACAAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGGTTTCGAT
1 AGAACAAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGATTTCGAT
* *
87546314 TTTCCATTTGACCAAATGACCAAATACCCTTTTAAAATTTTGTCCGTGTTTTCTTCAATTAA
66 TTACCATTTGACCAAATAACCAAATACCCTTTTAAAATTTTGTCCGTGTTTTCTTCAATTAA
* * *
87546376 AGAACAAGGCAATATTTCGTGTTTGGAAATTTGAGAAATCGTGCCTTAACGTGCTGGATTTCGAT
1 AGAACAAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGATTTCGAT
** * *
87546441 TTACTGTTTGACCAAATAACTAAATATCCTTTTAAAATTT
66 TTACCATTTGACCAAATAACCAAATACCCTTTTAAAATTT
87546481 CAATGCATGA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 95 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (127 bp):
AGAACAAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCGTACCCTAACGTGCTGGATTTCGAT
TTACCATTTGACCAAATAACCAAATACCCTTTTAAAATTTTGTCCGTGTTTTCTTCAATTAA
Found at i:87550880 original size:135 final size:136
Alignment explanation
Indices: 87550637--87550920 Score: 518
Period size: 135 Copynumber: 2.1 Consensus size: 136
87550627 TATTGGGCCT
**
87550637 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
87550702 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAA-
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
87550766 ACTATGC
131 A-TATGC
87550773 AAGCCCATTTGGGTAACAGTGGTACT-GGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
87550837 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
87550902 ATATGC
131 ATATGC
87550908 AAGCCCATTTGGG
1 AAGCCCATTTGGG
87550921 GAGACTACTC
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
135 119 0.83
136 25 0.17
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:87552728 original size:26 final size:26
Alignment explanation
Indices: 87552697--87552805 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
87552687 ATGAAATTCC
*
87552697 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87552723 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87552749 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87552775 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87552801 ATCAT
1 ATCAT
87552806 TTGTATCAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87557671 original size:12 final size:12
Alignment explanation
Indices: 87557654--87557681 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
87557644 ATTACCTCGA
87557654 CCTCGACCACGG
1 CCTCGACCACGG
87557666 CCTCGACCACGG
1 CCTCGACCACGG
87557678 CCTC
1 CCTC
87557682 TTCCCCGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.54, G:0.21, T:0.11
Consensus pattern (12 bp):
CCTCGACCACGG
Found at i:87559187 original size:136 final size:136
Alignment explanation
Indices: 87558920--87559204 Score: 518
Period size: 136 Copynumber: 2.1 Consensus size: 136
87558910 TATTGGGCCT
**
87558920 AAGCCCATTCAGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
87558985 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
87559050 ATATGC
131 ATATGC
*
87559056 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
87559121 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AG-CCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
87559185 CATATGC
130 CATATGC
87559192 AAGCCCATTTGGG
1 AAGCCCATTTGGG
87559205 GAGACTACTC
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
136 86 0.60
137 58 0.40
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGAGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:87561012 original size:26 final size:26
Alignment explanation
Indices: 87560981--87561088 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87560971 TGAAATTCCC
*
87560981 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87561007 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87561033 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
87561059 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87561085 ATCA
1 ATCA
87561089 GTTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87578886 original size:32 final size:31
Alignment explanation
Indices: 87578850--87578909 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
87578840 AACAATAATA
87578850 ACTGTTTCAATTCCGAAATTTGAAAACAAGTG
1 ACTGTTTC-ATTCCGAAATTTGAAAACAAGTG
* * *
87578882 ACTGTTTCGTTTCTAAATTTGAAAACAA
1 ACTGTTTCATTCCGAAATTTGAAAACAA
87578910 ATAAGATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (31 bp):
ACTGTTTCATTCCGAAATTTGAAAACAAGTG
Found at i:87582866 original size:15 final size:15
Alignment explanation
Indices: 87582846--87582878 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
87582836 ACTCCATTTT
87582846 ATTTATATTAGGATA
1 ATTTATATTAGGATA
87582861 ATTTATATTAGGATA
1 ATTTATATTAGGATA
87582876 ATT
1 ATT
87582879 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:87586641 original size:21 final size:23
Alignment explanation
Indices: 87586617--87586673 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 23
87586607 AATTGTTACT
87586617 TTTATTTTAT-TTTATTTTAT-T
1 TTTATTTTATATTTATTTTATCT
87586638 TTTATTTT-TATTTATTTTATCT
1 TTTATTTTATATTTATTTTATCT
87586660 TATTATTTTATATT
1 T-TTATTTTATATT
87586674 AATTCTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 18 0.56
22 2 0.06
23 7 0.22
24 4 0.12
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTATTTTATATTTATTTTATCT
Found at i:87586670 original size:5 final size:5
Alignment explanation
Indices: 87586616--87586663 Score: 62
Period size: 5 Copynumber: 9.4 Consensus size: 5
87586606 CAATTGTTAC
*
87586616 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT- TATTTA TTTTA TCTTA TT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA TT
87586664 ATTTTATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 1 0.03
5 31 0.82
6 6 0.16
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:87588250 original size:15 final size:15
Alignment explanation
Indices: 87588230--87588262 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
87588220 ACTCCATTTT
87588230 ATTTATATTAGGATA
1 ATTTATATTAGGATA
87588245 ATTTATATTAGGATA
1 ATTTATATTAGGATA
87588260 ATT
1 ATT
87588263 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:87588328 original size:20 final size:20
Alignment explanation
Indices: 87588288--87588335 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
87588278 ATTTTAGGAT
*
87588288 TTTAT-TTTAATTATCTCTA
1 TTTATCTTTAATTAACTCTA
*
87588307 TTTATCTTTAATTAACTGTA
1 TTTATCTTTAATTAACTCTA
87588327 TTTATCTTT
1 TTTATCTTT
87588336 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATCTTTAATTAACTCTA
Found at i:87589067 original size:17 final size:19
Alignment explanation
Indices: 87589031--87589068 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
87589021 TTATTTTTCC
87589031 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
87589050 TTATTT-AATTTC-GCAAT
1 TTATTTCAATTTCTGCAAT
87589067 TT
1 TT
87589069 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:87598182 original size:26 final size:26
Alignment explanation
Indices: 87598146--87598229 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
87598136 CATGAAATTC
87598146 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
87598172 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
* *
87598198 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
87598224 TTATCA
1 TTATCA
87598230 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:87601985 original size:19 final size:20
Alignment explanation
Indices: 87601957--87601995 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
87601947 TCCCATTATT
87601957 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
87601976 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
87601996 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:87602013 original size:25 final size:23
Alignment explanation
Indices: 87601976--87602021 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
87601966 TTTGTTTTAA
*
87601976 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
87601999 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
87602022 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:87604496 original size:17 final size:17
Alignment explanation
Indices: 87604474--87604512 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
87604464 TATAATTAAT
* *
87604474 TTTAAATTTTTAATATA
1 TTTAAAATTGTAATATA
87604491 TTTAAAATTGTAATATA
1 TTTAAAATTGTAATATA
*
87604508 CTTAA
1 TTTAA
87604513 TATATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAAATTGTAATATA
Found at i:87604603 original size:17 final size:17
Alignment explanation
Indices: 87604552--87604615 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
87604542 AGATTTTCTT
87604552 AATATATTAAAAATTTTA
1 AATATATT-AAAATTTTA
* * **
87604570 AAAATTTTAATTTTTTTA
1 AATATATTAA-AATTTTA
87604588 AATATATTAAAATTTTA
1 AATATATTAAAATTTTA
*
87604605 AATATGTTAAA
1 AATATATTAAA
87604616 GAAAATGTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 17 0.47
18 19 0.53
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
AATATATTAAAATTTTA
Found at i:87604677 original size:18 final size:19
Alignment explanation
Indices: 87604639--87604688 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
87604629 ATAACCAATT
87604639 TTAAAAT-TTT-AATATAC
1 TTAAAATATTTAAATATAC
87604656 TTAAAATATTTAAATATA-
1 TTAAAATATTTAAATATAC
87604674 TTAAAATATATTAAA
1 TTAAAATAT-TTAAA
87604689 ATTTTGAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 11 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAATATTTAAATATAC
Found at i:87604677 original size:27 final size:24
Alignment explanation
Indices: 87604635--87604704 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 24
87604625 GAGTATAACC
*
87604635 AATTTTAAAATTTTAATATACTTAA
1 AATTTTAAAATATTAATATA-TTAA
87604660 AATATTTAAATATATTAAAATATATTAA
1 AAT-TTTAAA-ATATT--AATATATTAA
*
87604688 AATTTTGAACATATTAA
1 AATTTT-AAAATATTAA
87604705 AAAAAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
25 5 0.13
26 6 0.16
27 12 0.32
28 9 0.24
29 6 0.16
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (24 bp):
AATTTTAAAATATTAATATATTAA
Found at i:87604680 original size:10 final size:10
Alignment explanation
Indices: 87604649--87604690 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
87604639 TTAAAATTTT
87604649 AATATACTTAA
1 AATATA-TTAA
87604660 AATAT-TT-A
1 AATATATTAA
87604668 AATATATTAA
1 AATATATTAA
87604678 AATATATTAA
1 AATATATTAA
87604688 AAT
1 AAT
87604691 TTTGAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 4 0.14
10 14 0.48
11 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AATATATTAA
Found at i:87607782 original size:13 final size:12
Alignment explanation
Indices: 87607755--87607779 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87607745 TTACTCTTTA
87607755 TAATTTTTATTT
1 TAATTTTTATTT
87607767 TAATTTTTATTT
1 TAATTTTTATTT
87607779 T
1 T
87607780 TAAAATTTAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TAATTTTTATTT
Found at i:87607806 original size:21 final size:20
Alignment explanation
Indices: 87607765--87607810 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
87607755 TAATTTTTAT
*
87607765 TTTAATTTTTATTTTTAAAA
1 TTTAATTTTTACTTTTAAAA
87607785 TTTAATTTGTCTACTTTT-AAA
1 TTTAATTT-T-TACTTTTAAAA
87607806 TTTAA
1 TTTAA
87607811 AAAAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAATTTTTACTTTTAAAA
Found at i:87607836 original size:17 final size:18
Alignment explanation
Indices: 87607814--87607849 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
87607804 AATTTAAAAA
*
87607814 AATATTATTCAA-TTATT
1 AATATTATTAAATTTATT
87607831 AATATTATTAAATTTATT
1 AATATTATTAAATTTATT
87607849 A
1 A
87607850 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AATATTATTAAATTTATT
Found at i:87617094 original size:38 final size:38
Alignment explanation
Indices: 87617037--87617123 Score: 138
Period size: 38 Copynumber: 2.2 Consensus size: 38
87617027 TGGGGTGAGC
* *
87617037 TTAACAAGCTTAGTGTGAGACTACACGAGTATTAAGCA
1 TTAACAAGCTCAGTATGAGACTACACGAGTATTAAGCA
87617075 TTAACAAGCTCAGTATGAGACTACACGAGTATTAAGCA
1 TTAACAAGCTCAGTATGAGACTACACGAGTATTAAGCA
87617113 TTCATACAAGC
1 TT-A-ACAAGC
87617124 AATTTCATAG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
38 38 0.84
39 1 0.02
40 6 0.13
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (38 bp):
TTAACAAGCTCAGTATGAGACTACACGAGTATTAAGCA
Found at i:87634267 original size:10 final size:10
Alignment explanation
Indices: 87634250--87634341 Score: 65
Period size: 10 Copynumber: 9.8 Consensus size: 10
87634240 ACTTTTCTTA
87634250 ATTT-TTATT
1 ATTTATTATT
87634259 ATTTATTA-T
1 ATTTATTATT
*
87634268 -TTTATT-TC
1 ATTTATTATT
*
87634276 ATTTTATTAGT
1 A-TTTATTATT
87634287 ATTTATTA-T
1 ATTTATTATT
*
87634296 -TTTATT-TC
1 ATTTATTATT
*
87634304 ATTTTATTAGT
1 A-TTTATTATT
87634315 ATTTATTATT
1 ATTTATTATT
*
87634325 -TTTTTTATT
1 ATTTATTATT
87634334 ATTTATTA
1 ATTTATTA
87634342 CTTTATTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 19
0.70 0.10 0.21
Matches are distributed among these distances:
8 12 0.19
9 14 0.22
10 36 0.56
11 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTATT
Found at i:87634298 original size:28 final size:28
Alignment explanation
Indices: 87634258--87634326 Score: 138
Period size: 28 Copynumber: 2.5 Consensus size: 28
87634248 TAATTTTTAT
87634258 TATTTATTATTTTATTTCATTTTATTAG
1 TATTTATTATTTTATTTCATTTTATTAG
87634286 TATTTATTATTTTATTTCATTTTATTAG
1 TATTTATTATTTTATTTCATTTTATTAG
87634314 TATTTATTATTTT
1 TATTTATTATTTT
87634327 TTTTATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (28 bp):
TATTTATTATTTTATTTCATTTTATTAG
Found at i:87634347 original size:12 final size:11
Alignment explanation
Indices: 87634253--87634349 Score: 58
Period size: 12 Copynumber: 8.3 Consensus size: 11
87634243 TTTCTTAATT
87634253 TTTATTATTTA
1 TTTATTATTTA
*
87634264 TTATTTTATTTCA
1 TT-TATTATTT-A
*
87634277 TTTTATTA-GTA
1 -TTTATTATTTA
87634288 TTTATTATTTTA
1 TTTATTA-TTTA
87634300 TTTCATTTTATTAGTA
1 TTT-A--TTATT--TA
87634316 TTTATTATTT-
1 TTTATTATTTA
87634326 TTT-TTA-TTA
1 TTTATTATTTA
87634335 TTTATTACTTTA
1 TTTATTA-TTTA
87634347 TTT
1 TTT
87634350 TTGGATATTG
Statistics
Matches: 68, Mismatches: 4, Indels: 27
0.69 0.04 0.27
Matches are distributed among these distances:
8 2 0.03
9 6 0.09
10 13 0.19
11 4 0.06
12 19 0.28
13 11 0.16
14 4 0.06
15 4 0.06
16 5 0.07
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:87635646 original size:11 final size:11
Alignment explanation
Indices: 87635630--87635654 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87635620 TAAATAAATA
87635630 AAATTAAAAAG
1 AAATTAAAAAG
87635641 AAATTAAAAAG
1 AAATTAAAAAG
87635652 AAA
1 AAA
87635655 AAATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (11 bp):
AAATTAAAAAG
Found at i:87635664 original size:14 final size:13
Alignment explanation
Indices: 87635615--87635680 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
87635605 ATTCCTAAGT
87635615 AAAAA-TAAATAAA
1 AAAAATTAAA-AAA
*
87635628 TAAAATT--AAAA
1 AAAAATTAAAAAA
*
87635639 AGAAATTAAAAAGA
1 AAAAATTAAAAA-A
*
87635653 AAAAATTTAAAAA
1 AAAAATTAAAAAA
*
87635666 AAAAA-GAAAAAA
1 AAAAATTAAAAAA
87635678 AAA
1 AAA
87635681 GAAGGAGATA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
11 8 0.19
12 9 0.21
13 13 0.31
14 12 0.29
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AAAAATTAAAAAA
Found at i:87635675 original size:26 final size:24
Alignment explanation
Indices: 87635615--87635680 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
87635605 ATTCCTAAGT
* *
87635615 AAAAATAAATAAATAAAATTAAAAA
1 AAAAAGAAA-AAAAAAAATTAAAAA
* **
87635640 GAAATTAAAAAGAAAAAATTTAAAAA
1 AAAAAGAAAAA-AAAAAA-TTAAAAA
87635666 AAAAAGAAAAAAAAA
1 AAAAAGAAAAAAAAA
87635681 GAAGGAGATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.06
25 16 0.48
26 15 0.45
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (24 bp):
AAAAAGAAAAAAAAAAATTAAAAA
Found at i:87636262 original size:10 final size:10
Alignment explanation
Indices: 87636247--87636298 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
87636237 TAATTTTAGG
87636247 ATTTATTTTT
1 ATTTATTTTT
87636257 ATTTATTTTT
1 ATTTATTTTT
*** *
87636267 AACCATCTTT
1 ATTTATTTTT
*
87636277 ATTTATTTGT
1 ATTTATTTTT
87636287 ATTTATCTTTT
1 ATTTAT-TTTT
87636298 A
1 A
87636299 GAATTTAATT
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
10 27 0.87
11 4 0.13
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:87638379 original size:22 final size:22
Alignment explanation
Indices: 87638353--87638395 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
87638343 ATAAACTCAT
*
87638353 TTACATTCAATTAATAAATGTA
1 TTACATTCAATAAATAAATGTA
87638375 TTACATTCAATAAATAAATGT
1 TTACATTCAATAAATAAATGT
87638396 GAATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
TTACATTCAATAAATAAATGTA
Found at i:87639730 original size:5 final size:5
Alignment explanation
Indices: 87639722--87639749 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
87639712 TTTTAAAGAG
87639722 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
87639750 TATTGTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:87653760 original size:24 final size:24
Alignment explanation
Indices: 87653733--87653783 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
87653723 GTTCAAGGTC
87653733 GTCGTTTCGGACTTCGATTTCCAA
1 GTCGTTTCGGACTTCGATTTCCAA
87653757 GTCGTTTCGGACTTCGATTTCCAA
1 GTCGTTTCGGACTTCGATTTCCAA
87653781 GTC
1 GTC
87653784 TACATATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (24 bp):
GTCGTTTCGGACTTCGATTTCCAA
Found at i:87654883 original size:20 final size:22
Alignment explanation
Indices: 87654846--87654892 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
87654836 ATTTGCTTAA
*
87654846 TTTTCATTTATTAGTTTTAAGT
1 TTTTTATTTATTAGTTTTAAGT
*
87654868 TTTTTATTT-TTA-TTTTCAGT
1 TTTTTATTTATTAGTTTTAAGT
87654888 TTTTT
1 TTTTT
87654893 TCTTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 3 0.13
22 8 0.35
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (22 bp):
TTTTTATTTATTAGTTTTAAGT
Found at i:87658090 original size:40 final size:40
Alignment explanation
Indices: 87657960--87658124 Score: 154
Period size: 40 Copynumber: 4.1 Consensus size: 40
87657950 AATTATACTC
* * * *
87657960 TGTTTTTACTTTGGTACCCCTGATTGT-ATATACGTGCTCC-
1 TGTTTGTACTTCGGTACCCCTAATT-TCACATACGTGC-CCA
* * * *
87658000 TGTTTGTACTTCGGTACCTCTAATTACACATACATGCCCC
1 TGTTTGTACTTCGGTACCCCTAATTTCACATACGTGCCCA
87658040 TGTTTGTACTTCGGTACCCCTAATTTCACATACGTGCCCA
1 TGTTTGTACTTCGGTACCCCTAATTTCACATACGTGCCCA
* * * * * * **
87658080 TTTTTTTACTTCAGTATCCCTGATTGCAGTTACGTGCCCA
1 TGTTTGTACTTCGGTACCCCTAATTTCACATACGTGCCCA
87658120 TGTTT
1 TGTTT
87658125 ACATTTCAAT
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 2 0.02
40 101 0.98
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (40 bp):
TGTTTGTACTTCGGTACCCCTAATTTCACATACGTGCCCA
Found at i:87663429 original size:46 final size:45
Alignment explanation
Indices: 87663362--87663484 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 45
87663352 TATGTGTGCT
* *
87663362 AGTGTAAGACATGTATAGGACATGCATCGGC-TACATTATGAGAGCC
1 AGTGTAAGACATGTATGGGACATGCATCGGCATA-A-GATGAGAGCC
*
87663408 AGTGTAAGACATGTATGGGACATGCATCGGCATTAAGATGAGAGCT
1 AGTGTAAGACATGTATGGGACATGCATCGGCA-TAAGATGAGAGCC
*
87663454 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTATGGGACATGCATCGGC
87663485 CTCGAGATAT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
46 68 0.96
47 1 0.01
48 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTATGGGACATGCATCGGCATAAGATGAGAGCC
Found at i:87663724 original size:49 final size:49
Alignment explanation
Indices: 87663545--87663721 Score: 248
Period size: 49 Copynumber: 3.6 Consensus size: 49
87663535 TGTTGTGTGT
* *
87663545 CAGTTTAAGACCTGTCTGGGACATGGCATCAACACCAATAGATGAGAGC
1 CAGTATAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGC
87663594 CAGTATAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGC
1 CAGTATAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGC
* * * *
87663643 CAGTATAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGAAAGT
1 CAGTATAAGACCTGTCTGGGACATGGCATCAACAC-CGATAGATGAGAGC
* * * *
87663692 CAATGTAAGACTTGTTTGGGACATGGCATC
1 CAGTATAAGACCTGTCTGGGACATGGCATC
87663722 GACTTTGATG
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
48 1 0.01
49 116 0.99
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (49 bp):
CAGTATAAGACCTGTCTGGGACATGGCATCAACACCGATAGATGAGAGC
Found at i:87668229 original size:21 final size:20
Alignment explanation
Indices: 87668199--87668237 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
87668189 CGCGTCTACT
87668199 CAAGGCAATTATAATTCAAGA
1 CAAGGCAATT-TAATTCAAGA
* *
87668220 CAAGGGAATTTTATTCAA
1 CAAGGCAATTTAATTCAA
87668238 CAACAACAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
CAAGGCAATTTAATTCAAGA
Found at i:87680709 original size:16 final size:16
Alignment explanation
Indices: 87680688--87680719 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
87680678 GTAACGCCCC
87680688 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
87680704 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
87680720 TGAATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAAATCTCGAAATCT
Found at i:87681951 original size:8 final size:8
Alignment explanation
Indices: 87681938--87681984 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
87681928 GTAGATCGAC
*
87681938 AAAAGCTG
1 AAAAGCCG
87681946 AAAAGCCG
1 AAAAGCCG
*
87681954 AAATGCCG
1 AAAAGCCG
*
87681962 AAAAGTC-
1 AAAAGCCG
87681969 AAAATGCCG
1 AAAA-GCCG
87681978 AAAAGCC
1 AAAAGCC
87681985 TAAAGTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
7 4 0.12
8 24 0.75
9 4 0.12
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:87681966 original size:16 final size:16
Alignment explanation
Indices: 87681945--87681984 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
87681935 GACAAAAGCT
*
87681945 GAAAAGCCGAAATGCC
1 GAAAAGCCAAAATGCC
*
87681961 GAAAAGTCAAAATGCC
1 GAAAAGCCAAAATGCC
87681977 GAAAAGCC
1 GAAAAGCC
87681985 TAAAGTTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.23, G:0.23, T:0.07
Consensus pattern (16 bp):
GAAAAGCCAAAATGCC
Found at i:87682246 original size:29 final size:29
Alignment explanation
Indices: 87682204--87682259 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
87682194 CATGAGTACA
*
87682204 AGGTGATTGGGGCCTAACGGGCCATATAG
1 AGGTGATTGGGGCCTAACAGGCCATATAG
* *
87682233 AGGTGATTTGGGCCTAATAGGCCATAT
1 AGGTGATTGGGGCCTAACAGGCCATAT
87682260 GAATATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
AGGTGATTGGGGCCTAACAGGCCATATAG
Found at i:87682322 original size:29 final size:29
Alignment explanation
Indices: 87682213--87682322 Score: 132
Period size: 29 Copynumber: 3.8 Consensus size: 29
87682203 AAGGTGATTG
* * * *
87682213 GGGCCTAACGGGCCATATAG-AGGTGATTT
1 GGGCCTGATGGGCCATAT-GAATGTGAATT
* * *
87682242 GGGCCTAATAGGCCATATGAATATGAATT
1 GGGCCTGATGGGCCATATGAATGTGAATT
87682271 GGGCCTGATGGGCCATATGAATGTGAATT
1 GGGCCTGATGGGCCATATGAATGTGAATT
*
87682300 GGGCGTGATGGGCCATATGAATG
1 GGGCCTGATGGGCCATATGAATG
87682323 AGATGGGCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 1 0.01
29 70 0.99
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.25
Consensus pattern (29 bp):
GGGCCTGATGGGCCATATGAATGTGAATT
Found at i:87694681 original size:17 final size:19
Alignment explanation
Indices: 87694659--87694693 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
87694649 AAATTTAATG
87694659 ATTAAA-AGAGAC-AAAAA
1 ATTAAATAGAGACTAAAAA
87694676 ATTAAATAGAGACTAAAA
1 ATTAAATAGAGACTAAAA
87694694 TAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (19 bp):
ATTAAATAGAGACTAAAAA
Found at i:87698805 original size:29 final size:30
Alignment explanation
Indices: 87698743--87698807 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
87698733 TTTTTTAAAA
*
87698743 TTAAAATATTATTTTTATAATTTTATGATTT
1 TTAAAATA-TATTTTTATAATTTTATGATAT
*
87698774 TTAAAATA-ATTTTTAT-ATTTTTTGAATAT
1 TTAAAATATATTTTTATAATTTTATG-ATAT
87698803 TTAAA
1 TTAAA
87698808 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.23
29 16 0.52
31 8 0.26
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TTAAAATATATTTTTATAATTTTATGATAT
Found at i:87699041 original size:21 final size:21
Alignment explanation
Indices: 87699015--87699056 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
87699005 TTATACCTTA
87699015 ATTTATTCTAATAGTGTATAT
1 ATTTATTCTAATAGTGTATAT
87699036 ATTTATTCTAATAGTGTATAT
1 ATTTATTCTAATAGTGTATAT
87699057 TGTAGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
ATTTATTCTAATAGTGTATAT
Found at i:87699252 original size:66 final size:66
Alignment explanation
Indices: 87699144--87699275 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
87699134 TTTAAACACT
*
87699144 CCTCGTAAAATTAAAGTATTTTATTGACAGTGTTTTATATACAAACATAAAATATAAATATACTA
1 CCTCGTAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTA
87699209 A
66 A
87699210 CCTCGTAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTA
1 CCTCGTAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTA
87699275 A
66 A
87699276 ATGATTTTAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.36
Consensus pattern (66 bp):
CCTCGTAAAATTAAAGTATTTTATTGACAGTGTTTTAAATACAAACATAAAATATAAATATACTA
A
Found at i:87701049 original size:36 final size:36
Alignment explanation
Indices: 87701002--87701073 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
87700992 ACAAAAGTAC
87701002 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
1 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
*
87701038 ACCCTTAGGTCTTCTAACAAAAAGAGAACCATCTGA
1 ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
87701074 CTTGGCTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (36 bp):
ACCCTCAGGTCTTCTAACAAAAAGAGAACCATCTGA
Found at i:87709599 original size:28 final size:27
Alignment explanation
Indices: 87709546--87709600 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
87709536 ATTTGGGGAT
* *
87709546 TTGGAATTTAGAATAAAAAATTGAGAA
1 TTGGAATTGAGAATAAAAAATCGAGAA
**
87709573 TTGGCAATTGAGAATAATGAATCGAGAA
1 TTGG-AATTGAGAATAAAAAATCGAGAA
87709601 CAATAAGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (27 bp):
TTGGAATTGAGAATAAAAAATCGAGAA
Found at i:87711218 original size:17 final size:18
Alignment explanation
Indices: 87711181--87711232 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
87711171 AACAACACCA
* * *
87711181 TGTTATATTTGTGTATTG
1 TGTTATACTTGTGAATAG
87711199 TGTTATA-TTGTGAATAG
1 TGTTATACTTGTGAATAG
87711216 TGTT-TACTTGGTGAATA
1 TGTTATACTT-GTGAATA
87711233 ATATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 14 0.47
18 14 0.47
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.52
Consensus pattern (18 bp):
TGTTATACTTGTGAATAG
Found at i:87719806 original size:24 final size:25
Alignment explanation
Indices: 87719706--87719808 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
87719696 CAGCTTGTCT
* * *
87719706 GAGCTTACCG-ATTTACACCTTGTGA
1 GAGCTTACCGTATTT-CAGCTCGTAA
* * *
87719731 GAGCCTACCGGTA-CTCAGCTCGTAT
1 GAGCTTACC-GTATTTCAGCTCGTAA
*
87719756 GAGCTTACCGTATTTCAGCTCGGAA
1 GAGCTTACCGTATTTCAGCTCGTAA
*
87719781 GAGCTTACCG-ATTAT-GGCTCGTAA
1 GAGCTTACCGTATT-TCAGCTCGTAA
87719805 GAGC
1 GAGC
87719809 ATACATGTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
24 17 0.27
25 42 0.68
26 2 0.03
27 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.27
Consensus pattern (25 bp):
GAGCTTACCGTATTTCAGCTCGTAA
Found at i:87727046 original size:6 final size:7
Alignment explanation
Indices: 87727029--87727055 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
87727019 TCCAAAGGAA
87727029 AAAAAAT
1 AAAAAAT
87727036 AAAAAAT
1 AAAAAAT
87727043 AAAAAAT
1 AAAAAAT
87727050 AAAAAA
1 AAAAAA
87727056 ACTACGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:87727636 original size:2 final size:2
Alignment explanation
Indices: 87727629--87727653 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87727619 GTTTTGAGAT
87727629 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 T
87727654 TAAAATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87727776 original size:3 final size:3
Alignment explanation
Indices: 87727770--87727797 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
87727760 TTTTTTTAGC
87727770 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
87727798 CGATGATCAA
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:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:87735959 original size:24 final size:24
Alignment explanation
Indices: 87735932--87735979 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
87735922 TATCCCGACG
87735932 CATACAATGGCCTATTTTTTACTT
1 CATACAATGGCCTATTTTTTACTT
*
87735956 CATACAATGGCCTGTTTTTTACTT
1 CATACAATGGCCTATTTTTTACTT
87735980 TCTAAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (24 bp):
CATACAATGGCCTATTTTTTACTT
Found at i:87740410 original size:21 final size:21
Alignment explanation
Indices: 87740387--87740446 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
87740377 CGTTCCCCTT
*
87740387 TTTTTGTTC-TTTCTCTTTTC
1 TTTTTCTTCTTTTCTCTTTTC
*
87740407 TTTTTCTTCTTTTCTATTTTC
1 TTTTTCTTCTTTTCTCTTTTC
87740428 TTTTTCTTCTTTTCTCTTT
1 TTTTTCTTCTTTTCTCTTT
87740447 CGCCGTATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 8 0.22
21 28 0.78
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTCTTCTTTTCTCTTTTC
Found at i:87740445 original size:7 final size:7
Alignment explanation
Indices: 87740396--87740446 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
87740386 TTTTTTGTTC
87740396 TTTCTCT
1 TTTCTCT
87740403 TTTCT-T
1 TTTCTCT
87740409 TTTCTTCT
1 TTTC-TCT
*
87740417 TTTCTAT
1 TTTCTCT
87740424 TTTCT-T
1 TTTCTCT
87740430 TTTCTTCT
1 TTTC-TCT
87740438 TTTCTCT
1 TTTCTCT
87740445 TT
1 TT
87740447 CGCCGTATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 10 0.26
7 19 0.49
8 10 0.26
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCTCT
Found at i:87744478 original size:3 final size:3
Alignment explanation
Indices: 87744470--87744498 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
87744460 AGAATGAAAA
87744470 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
87744499 AAGCAGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:87745610 original size:20 final size:21
Alignment explanation
Indices: 87745580--87745620 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
87745570 GTTAAATATA
*
87745580 ACAATAAATTTATATTTTAAT
1 ACAATAAATTTATAATTTAAT
87745601 ACAA-AAATTTATAATTTAAT
1 ACAATAAATTTATAATTTAAT
87745621 TATGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ACAATAAATTTATAATTTAAT
Found at i:87745939 original size:17 final size:18
Alignment explanation
Indices: 87745913--87745946 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87745903 TCTCTCATTT
87745913 TTTTCATTTAAT-TTTTA
1 TTTTCATTTAATATTTTA
*
87745930 TTTTCGTTTAATATTTT
1 TTTTCATTTAATATTTT
87745947 TTATCATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTCATTTAATATTTTA
Found at i:87746268 original size:2 final size:2
Alignment explanation
Indices: 87746261--87746290 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
87746251 AATAGTCTTC
87746261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87746291 TTCTTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87746468 original size:2 final size:2
Alignment explanation
Indices: 87746461--87746485 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87746451 TTATATTTTG
87746461 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
87746486 AATTCTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87746912 original size:2 final size:2
Alignment explanation
Indices: 87746872--87746896 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87746862 CTAATGACTT
87746872 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 T
87746897 TGGTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87751195 original size:34 final size:34
Alignment explanation
Indices: 87751168--87751238 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
87751158 TGCTATTGAG
*
87751168 TTGAACTATTATAAGCATATTAATTGCTACTGTA
1 TTGAACTATTATAAACATATTAATTGCTACTGTA
* * *
87751202 TTGAACTGTTATAAACATATTGATTTCTACTGTA
1 TTGAACTATTATAAACATATTAATTGCTACTGTA
87751236 TTG
1 TTG
87751239 TTCTATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (34 bp):
TTGAACTATTATAAACATATTAATTGCTACTGTA
Found at i:87751407 original size:45 final size:45
Alignment explanation
Indices: 87751338--87751436 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
87751328 GTATTAGCAA
* * * * * *
87751338 CTTTTATCTACACCGTTTAGTGGTTTATCTATACCGTATGAGTAG
1 CTTTTATCTACACCGATTAATGGTTTACCCACACCGTATGAGAAG
** *
87751383 CTTTTATCTACATTGATTAATGGTTTACCCACACCGTATTAGAAG
1 CTTTTATCTACACCGATTAATGGTTTACCCACACCGTATGAGAAG
*
87751428 CTTTAATCT
1 CTTTTATCT
87751437 GCAAATGTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (45 bp):
CTTTTATCTACACCGATTAATGGTTTACCCACACCGTATGAGAAG
Found at i:87753051 original size:21 final size:21
Alignment explanation
Indices: 87753025--87753107 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
87753015 TGATCAGTAT
*
87753025 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
87753046 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
87753067 ACGACACGCGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
87753089 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
87753108 GATCGATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:87753095 original size:23 final size:22
Alignment explanation
Indices: 87753023--87753097 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
87753013 CCTGATCAGT
** *
87753023 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
*
87753045 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
*
87753065 ATACGACACGCGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
87753088 ATACGACACA
1 ATACGACACA
87753098 TAAAGTGCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 1 0.02
21 32 0.74
22 1 0.02
23 9 0.21
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:87753505 original size:15 final size:15
Alignment explanation
Indices: 87753480--87753537 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
87753470 TCATATATAT
87753480 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
87753496 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
87753511 AATAATTTCAATCAA
1 TATAAATTCAATCAA
87753526 TATAAATTCAAT
1 TATAAATTCAAT
87753538 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:87757245 original size:6 final size:6
Alignment explanation
Indices: 87757234--87757258 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87757224 TTTATCAAAT
87757234 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
87757259 ATTTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:87774027 original size:23 final size:23
Alignment explanation
Indices: 87773976--87774019 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
87773966 TCTGAAAATT
*
87773976 AGATTTGTAAATATTTGTTAGAA
1 AGATTTGTAAATATTTATTAGAA
87773999 AGATTTGTAAATATTTATTAG
1 AGATTTGTAAATATTTATTAG
87774020 CAATATTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (23 bp):
AGATTTGTAAATATTTATTAGAA
Found at i:87774293 original size:17 final size:17
Alignment explanation
Indices: 87774252--87774295 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
87774242 TATATGTACT
87774252 TATTATATAAGGAAATAA
1 TATTATAT-AGGAAATAA
* * *
87774270 TAATATATAGTAAATTA
1 TATTATATAGGAAATAA
87774287 TATTATATA
1 TATTATATA
87774296 ATTAATATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (17 bp):
TATTATATAGGAAATAA
Found at i:87774806 original size:6 final size:6
Alignment explanation
Indices: 87774795--87774820 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
87774785 ACACCATAAG
87774795 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
87774821 CAGGTACAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:87775309 original size:17 final size:18
Alignment explanation
Indices: 87775286--87775330 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
87775276 AATATATTAA
87775286 TTATATAATATAATTTAC
1 TTATATAATATAATTTAC
* *
87775304 -TATATATTATTATTTAC
1 TTATATAATATAATTTAC
87775321 TTATATAATA
1 TTATATAATA
87775331 AGTAAGTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATATAATATAATTTAC
Found at i:87782329 original size:42 final size:43
Alignment explanation
Indices: 87782256--87782359 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 43
87782246 AAGTTATTAA
* * * *
87782256 GATTCCGTATAAGACCATATCCGGGATATGGCCTCGGTATG-T
1 GATTTCGTATAAGACCATATCAGGGACATGGCCTCGATATGAT
* * *
87782298 GATTTCGTATAAGACCATGTTAGGGACATGGCGTCGATATGAT
1 GATTTCGTATAAGACCATATCAGGGACATGGCCTCGATATGAT
* *
87782341 -ATTTCATGTAAGACCATAT
1 GATTTCGTATAAGACCATAT
87782360 TGGAGATATA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCAGGGACATGGCCTCGATATGAT
Found at i:87784818 original size:48 final size:47
Alignment explanation
Indices: 87784650--87784966 Score: 248
Period size: 49 Copynumber: 6.6 Consensus size: 47
87784640 ATCAAAGTCA
* * * *
87784650 ATGCAATGTCCCAGACAGGTCTGACACT-GACTTTCATATATTGAGGTCG
1 ATGC-ATGTCCCAGACATGTCTTACACTAG-CTTT-ATATATCGAGGCCG
* * * * * *
87784699 ATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATC-AGTGTCG
1 ATG-CATGTCCCAGACATGTCTTACACTAGCT-TTATATATCGAG-GCCG
* * *
87784748 ATGGCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGTCG
1 AT-GCATGTCCCAGACATGTCTTACACTAGCTT-TATATATCGAGGCCG
* * * * *
87784797 ATGCATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTTTATATATCGAGGCCG
* * * * *
87784843 ATGCATGTCCCAGACATGTCTTGCACTGGCTGGTATATCTTGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATATCGAGGCCG
* * * * *
87784891 ATGCATGTCCCAGGCATGTCTTAAACTGGCTCTCA-ATAT-GTGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCT-TTATATATCGAGGCCG
*
87784937 ATGCATATCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
87784967 ACATATATCA
Statistics
Matches: 224, Mismatches: 35, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
46 70 0.31
47 5 0.02
48 69 0.31
49 74 0.33
50 6 0.03
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTTTATATATCGAGGCCG
Found at i:87784860 original size:46 final size:47
Alignment explanation
Indices: 87784697--87784975 Score: 224
Period size: 46 Copynumber: 5.9 Consensus size: 47
87784687 ATATTGAGGT
* * * * * * *
87784697 CGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCAGTGT
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-ATATCTCAATGC
* * * * *
87784746 CGATGGCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGT
1 CGAT-GCATGTCCCAGACATGTCTTACACTAGC-TCTATATCTCAATGC
*
87784795 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTATATCTCAATGC
* * * ** *
87784841 CGATGCATGTCCCAGACATGTCTTGCACTGGCTGGTATATCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-CTATATCTCAATGC
* * * * *
87784889 CGATGCATGTCCCAGGCATGTCTTAAACTGGCTCTCAATATGT---GGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT--ATATCTCAATGC
* *
87784935 CGATGCATATCCCAGACATGTCTTACACTAGCACATATATC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC-TATATC
87784976 ACCCAATGTC
Statistics
Matches: 191, Mismatches: 32, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
45 4 0.02
46 70 0.37
47 5 0.03
48 64 0.34
49 45 0.24
50 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTATATCTCAATGC
Found at i:87784974 original size:94 final size:94
Alignment explanation
Indices: 87784606--87784975 Score: 320
Period size: 94 Copynumber: 3.9 Consensus size: 94
87784596 ATGCTGACGC
* ** * * *
87784606 CATGTCCCAGATATGGTCTTACACTGGCTAGCACATCAAAGT--CAATGCAATGTCCCAGACAGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCA-AT-ATAGTGCCGATGC-ATGTCCCAGACATG
* * *
87784669 TCTGACACT-GACT-TTCATATATTGAGGTCGATG
62 TCTTACACTAG-CTCGT-ATATCTTGAGGTCGATG
* * * * *
87784702 CCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGGCATGTCCCAGACAGG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCA-ATAT-AGTGCCGAT-GCATGTCCCAGACATG
* *
87784767 TCTTACACTAGCTTGTATATCTCGAGGTCGATG
62 TCTTACACTAGCTCGTATATCTTGAGGTCGATG
* ** * *
87784800 CATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAATGCCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCAATAT-AGTGCCGATGCATGTCCCAGACATGTCT
* * * *
87784864 TGCACTGGCTGGTATATCTTGAGGCCGATG
65 TACACTAGCTCGTATATCTTGAGGTCGATG
* * *
87784894 CATGTCCCAGGCATGTCTTAAACTGGCTCTCAATAT-GTGGCCGATGCATATCCCAGACATGTCT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCAATATAGT-GCCGATGCATGTCCCAGACATGTCT
* *
87784958 TACACTAGCACATATATC
65 TACACTAGCTCGTATATC
87784976 ACCCAATGTC
Statistics
Matches: 227, Mismatches: 38, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
93 1 0.00
94 107 0.47
95 13 0.06
96 20 0.09
97 40 0.18
98 42 0.19
99 4 0.02
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCAATATAGTGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCTCGTATATCTTGAGGTCGATG
Found at i:87793087 original size:30 final size:28
Alignment explanation
Indices: 87793040--87793273 Score: 123
Period size: 30 Copynumber: 7.9 Consensus size: 28
87793030 GATGTTTGAT
* *
87793040 ACCATTCCTTTCCATAATTTGATAGTCGA
1 ACCATCCCTTTTCATAATTTGATAGTC-A
* * *
87793069 AGCTATCCTTTTTCATAATTTGATGGTCA
1 A-CCATCCCTTTTCATAATTTGATAGTCA
*
87793098 TCACCATCCCTTTTCAT--TGTTGATGGTCA
1 --ACCATCCCTTTTCATAAT-TTGATAGTCA
*
87793127 TCACCATCCCTTTTCATAATTTGATAGCCAA
1 --ACCATCCCTTTTCATAATTTGATAGTC-A
* * * *
87793158 ATCTATCCCTTTTCATGATTCGATAGCCGA
1 A-CCATCCCTTTTCATAATTTGATAGTC-A
* * * *
87793188 AGCCATCCCTTTTCATAGTTCGATGGTCGTC
1 A-CCATCCCTTTTCATAATTTGATAGTC--A
* * * ** *
87793219 ACCATTCTTTTTCGTTGTTGCTGATCGTC-
1 ACCATCCCTTTTCATAATT--TGATAGTCA
87793248 ACCATCCCTTTTCATAATTTGATAGT
1 ACCATCCCTTTTCATAATTTGATAGT
87793274 TGGAGCTATC
Statistics
Matches: 161, Mismatches: 33, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
27 6 0.04
28 1 0.01
29 44 0.27
30 100 0.62
31 4 0.02
32 6 0.04
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (28 bp):
ACCATCCCTTTTCATAATTTGATAGTCA
Found at i:87793147 original size:59 final size:59
Alignment explanation
Indices: 87793073--87793270 Score: 179
Period size: 59 Copynumber: 3.3 Consensus size: 59
87793063 AGTCGAAGCT
*
87793073 ATCCTTTTTCATAATTTGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACC
* * * * * *
87793132 ATCCCTTTTCATAATTTGATAGCCA-AATCTATCCCTTTTCA-TGATTCGATAGCCGA--AGCC
1 ATCCCTTTTCATAATTTGATGGTCATCA-CCATCCCTTTTCATTG-TT-GATGGTC-ATCA-CC
* * * * * * * * *
87793192 ATCCCTTTTCATAGTTCGATGGTCGTCACCATTCTTTTTCGTTGTTGCTGATCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACC
87793251 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
87793271 AGTTGGAGCT
Statistics
Matches: 106, Mismatches: 24, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 60 0.57
60 39 0.37
61 4 0.04
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.41
Consensus pattern (59 bp):
ATCCCTTTTCATAATTTGATGGTCATCACCATCCCTTTTCATTGTTGATGGTCATCACC
Found at i:87793194 original size:89 final size:89
Alignment explanation
Indices: 87793040--87793223 Score: 219
Period size: 89 Copynumber: 2.1 Consensus size: 89
87793030 GATGTTTGAT
* * * * * * *
87793040 ACCATTCCTTTCCATAATTTGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCATCACCAT
1 ACCATCCCTTTCCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAGCCA-CACCAT
*
87793105 CCCTTTTCATTGTT-GATGGTCATC
65 CCCTTTTCATAGTTCGATGGTCATC
* * *
87793129 ACCATCCCTTTTCATAATTTGATAGCCAAATCTATCCCTTTTCATGATTCGATAGCCGA-AGCCA
1 ACCATCCCTTTCCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAGCC-ACA-CCA
*
87793193 TCCCTTTTCATAGTTCGATGGTCGTC
64 TCCCTTTTCATAGTTCGATGGTCATC
87793219 ACCAT
1 ACCAT
87793224 TCTTTTTCGT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
88 1 0.01
89 64 0.80
90 15 0.19
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (89 bp):
ACCATCCCTTTCCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAGCCACACCATC
CCTTTTCATAGTTCGATGGTCATC
Found at i:87793257 original size:119 final size:119
Alignment explanation
Indices: 87793046--87793272 Score: 319
Period size: 119 Copynumber: 1.9 Consensus size: 119
87793036 TGATACCATT
* * * * *
87793046 CCTTTCCATAATTTGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCATCACCATCCCTTT
1 CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
*
87793111 TCATTGTTGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
66 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
* * * * * *
87793165 CCTTTTCATGATTCGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACCATTCTTTT
1 CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* * *
87793230 TCGTTGTTGCTGATCGTCACCATCCCTTTTCATAATTTGATAG
66 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAG
87793273 TTGGAGCTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
119 93 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (119 bp):
CCTTTCCATAATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
Found at i:87793283 original size:119 final size:118
Alignment explanation
Indices: 87793046--87793300 Score: 303
Period size: 119 Copynumber: 2.1 Consensus size: 118
87793036 TGATACCATT
* * * * * *
87793046 CCTTTCCATAATTTGATAGTCGAAGCTATCCTTTTTCATAATTTGATGGTCATCACCATCCCTTT
1 CCTTTTCAT-ATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* *
87793111 TCATTGTTGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCAAATCTATC
65 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
* * * *
87793165 CCTTTTCATGATTCGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACCATTCTTTT
1 CCTTTTCAT-ATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTT
* * * ****
87793230 TCGTTGTTGCTGATCGTCACCATCCCTTTTCATAATTTGATAGTTGGAGCTATC
65 TCATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
*
87793284 CATTTTCATAGTTCGAT
1 CCTTTTCATA-TTCGAT
87793301 GATTGTCGAG
Statistics
Matches: 114, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
118 1 0.01
119 113 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (118 bp):
CCTTTTCATATTCGATAGCCGAAGCCATCCCTTTTCATAATTCGATGGTCATCACCATCCCTTTT
CATTGTTGATGATCATCACCATCCCTTTTCATAATTTGATAGCCAAAGCTATC
Found at i:87799181 original size:10 final size:10
Alignment explanation
Indices: 87799166--87799217 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
87799156 TTGAAATTTG
*
87799166 TTCTTTCTTT
1 TTCTTTGTTT
87799176 TTCTTTGTTT
1 TTCTTTGTTT
* *
87799186 TGCTTAT-TCT
1 TTCTT-TGTTT
*
87799196 TTCTTTTTTT
1 TTCTTTGTTT
87799206 TTCTTTGTTT
1 TTCTTTGTTT
87799216 TT
1 TT
87799218 GATCTTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 1 0.03
10 32 0.94
11 1 0.03
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (10 bp):
TTCTTTGTTT
Found at i:87801911 original size:23 final size:25
Alignment explanation
Indices: 87801860--87801926 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 25
87801850 ACACTATTAT
87801860 GCATGTCTGAGTATTCTAGTATATA
1 GCATGTCTGAGTATTCTAGTATATA
*
87801885 -CATGTCTG-TTA-TCT-GTATATAA
1 GCATGTCTGAGTATTCTAGTATAT-A
*
87801907 GCATG-CTGAGCATGTCTAGT
1 GCATGTCTGAGTAT-TCTAGT
87801927 CTGTAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
21 6 0.18
22 7 0.21
23 7 0.21
24 8 0.24
25 3 0.09
26 2 0.06
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (25 bp):
GCATGTCTGAGTATTCTAGTATATA
Found at i:87807640 original size:20 final size:21
Alignment explanation
Indices: 87807615--87807654 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87807605 CTCTTGAAAC
87807615 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
87807635 AGGGCAACACGCCCTTGTGG
1 AGGGCAACACGCCCGTGTGG
87807655 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:87808911 original size:49 final size:49
Alignment explanation
Indices: 87808838--87808960 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 49
87808828 TGCCAACGCA
* *
87808838 ATGTCCCAGACATGGTCTTACACTGGCTTTCATATAG-CGAG-G-CTGATGCC
1 ATGTCCCAGACA-GGTCTTACACTGGCTCTCATAT-GTCG-GTGTC-AATGCC
* *
87808888 ATGTCCCGGACAGGTCTTACACTGGCTCTCATCTGTCGGTGTCAATGCC
1 ATGTCCCAGACAGGTCTTACACTGGCTCTCATATGTCGGTGTCAATGCC
87808937 ATGTCCCAGACAGGTCTTACACTG
1 ATGTCCCAGACAGGTCTTACACTG
87808961 ACACACAACA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
48 2 0.03
49 51 0.78
50 12 0.18
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACACTGGCTCTCATATGTCGGTGTCAATGCC
Found at i:87808998 original size:44 final size:44
Alignment explanation
Indices: 87808935--87809047 Score: 172
Period size: 44 Copynumber: 2.6 Consensus size: 44
87808925 GGTGTCAATG
* *
87808935 CCATGTCCCAGACAGGTCTTACACTGACACACAACAAGCTGACA
1 CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
* * *
87808979 CCATGTCCCAGACAGGTCTTAGAATGAAACACAACAAGCTAACG
1 CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
*
87809023 CCATGTCCCAGACAAGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
87809048 AGCTTGTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.18
Consensus pattern (44 bp):
CCATGTCCCAGACAGGTCTTACACTGAAACACAACAAGCTAACA
Found at i:87811457 original size:28 final size:28
Alignment explanation
Indices: 87811425--87811495 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
87811415 TACAATTTCT
*
87811425 AGGTACTATGTACTGGTGTTACAGTTCC
1 AGGTACTATGTACTGGTGATACAGTTCC
* *
87811453 AGGTACTCTATGT-C-GGTGATATATTTCC
1 AGGTA--CTATGTACTGGTGATACAGTTCC
*
87811481 AAGTACTATGTACTG
1 AGGTACTATGTACTG
87811496 ATGGTGGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
26 6 0.17
27 1 0.03
28 21 0.60
29 1 0.03
30 6 0.17
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (28 bp):
AGGTACTATGTACTGGTGATACAGTTCC
Found at i:87813934 original size:28 final size:28
Alignment explanation
Indices: 87813902--87813963 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
87813892 ATTTACTAGA
*
87813902 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
87813930 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
87813958 ATACCC
1 ATACCC
87813964 TTAGGGTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:87814130 original size:27 final size:28
Alignment explanation
Indices: 87814072--87814161 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
87814062 AGGAAGCGTC
*
87814072 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
87814100 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
87814127 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
87814156 CTGGTG
1 CTGGTG
87814162 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:87814172 original size:29 final size:28
Alignment explanation
Indices: 87814082--87814172 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
87814072 CTGGTGGCTA
* * *
87814082 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
87814110 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
87814137 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
87814166 TGTCACA
1 TGCCACA
87814173 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:87814180 original size:55 final size:56
Alignment explanation
Indices: 87814072--87814186 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
87814062 AGGAAGCGTC
* * *
87814072 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
87814127 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
87814183 CTGG
1 CTGG
87814187 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:87816505 original size:13 final size:14
Alignment explanation
Indices: 87816479--87816511 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
87816469 GAGCTCGCAT
87816479 AAAACATATCTTTA
1 AAAACATATCTTTA
87816493 AAAACATAT-TTTA
1 AAAACATATCTTTA
87816506 AAAACA
1 AAAACA
87816512 GAGTCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAACATATCTTTA
Found at i:87816559 original size:274 final size:274
Alignment explanation
Indices: 87816062--87816582 Score: 934
Period size: 274 Copynumber: 1.9 Consensus size: 274
87816052 ATCCACAAAG
*
87816062 ACTTATCACAGAGAGCTCGCATAGGGAGCATACTTGAAAATACTTGCTCATGTAGAGCTCGCACA
1 ACTTATCACAGAGAGCTCGCATAGGGAGCATACTTGAAAATACTTGCTCATGTAGAGCTCACACA
87816127 AAATCTTGTAAAACACTATTTATAAAATAGTACTTTAAAAACATCTCTTAAAACATAGGCTCACT
66 AAATCTTGTAAAACACTATTTATAAAATAGTACTTTAAAAACATCTCTTAAAACATAGGCTCACT
* *
87816192 TAGGAGCTCACATAAAACATATCTTTAAAAACATATCTAAAAAATAGAGTTTCAAAACTTGAAAA
131 TAGGAGCTCACATAAAACATATCTTTAAAAACATATCTAAAAAACAGAGTCTCAAAACTTGAAAA
* **
87816257 TAAAGTTTTGTCGAAAAGCTTACTCTTGGAACTTTAGTTCAAAAACAAAGCTTTTGAAGAGACCT
196 CAAAGTTTTGTCGAAAAAATTACTCTTGGAACTTTAGTTCAAAAACAAAGCTTTTGAAGAGACCT
87816322 TGCATAAGGATCTT
261 TGCATAAGGATCTT
*
87816336 ACTTATCACAGAGAGCTTGCATAGGGAGCATACTTGAAAATACTTGCTCATGTAGAGCTCACACA
1 ACTTATCACAGAGAGCTCGCATAGGGAGCATACTTGAAAATACTTGCTCATGTAGAGCTCACACA
*
87816401 AAATCTTGTAAAACACTGTTTATAAAATAGTACTTTAAAAACATCTCTTAAAACATAGGCTCACT
66 AAATCTTGTAAAACACTATTTATAAAATAGTACTTTAAAAACATCTCTTAAAACATAGGCTCACT
* * *
87816466 TAGGAGCTCGCATAAAACATATCTTTAAAAACATATTTTAAAAACAGAGTCTCAAAACTTGAAAA
131 TAGGAGCTCACATAAAACATATCTTTAAAAACATATCTAAAAAACAGAGTCTCAAAACTTGAAAA
*
87816531 CAAAGTTTTGTCGAAAAAATTTCTCTTGGAACTTTAGTTCAAAAACAAAGCT
196 CAAAGTTTTGTCGAAAAAATTACTCTTGGAACTTTAGTTCAAAAACAAAGCT
87816583 CTCGAAAATC
Statistics
Matches: 235, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
274 235 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (274 bp):
ACTTATCACAGAGAGCTCGCATAGGGAGCATACTTGAAAATACTTGCTCATGTAGAGCTCACACA
AAATCTTGTAAAACACTATTTATAAAATAGTACTTTAAAAACATCTCTTAAAACATAGGCTCACT
TAGGAGCTCACATAAAACATATCTTTAAAAACATATCTAAAAAACAGAGTCTCAAAACTTGAAAA
CAAAGTTTTGTCGAAAAAATTACTCTTGGAACTTTAGTTCAAAAACAAAGCTTTTGAAGAGACCT
TGCATAAGGATCTT
Found at i:87816892 original size:28 final size:28
Alignment explanation
Indices: 87816861--87816917 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
87816851 CAGTGTAGAA
87816861 TAGTAAGCATATCCTATAAGATAAAAAG
1 TAGTAAGCATATCCTATAAGATAAAAAG
*
87816889 TAGTAAGCATATCCTATAAGATAACAAG
1 TAGTAAGCATATCCTATAAGATAAAAAG
87816917 T
1 T
87816918 CTTAGGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (28 bp):
TAGTAAGCATATCCTATAAGATAAAAAG
Found at i:87817521 original size:38 final size:39
Alignment explanation
Indices: 87817475--87817589 Score: 126
Period size: 38 Copynumber: 3.0 Consensus size: 39
87817465 ATAGAACTAA
*
87817475 TCAACACTAGTAGTAAATATGCTTAACATGTATTCAATT
1 TCAACACTAGTAGTAAACATGCTTAACATGTATTCAATT
** * * *
87817514 T-GTCACTAGTAATTAACATGCTTAACGTGTATTC-ATT
1 TCAACACTAGTAGTAAACATGCTTAACATGTATTCAATT
* * *
87817551 TCAACACTAGTAGCAAACAGGCATTAACAGGTATTCAAT
1 TCAACACTAGTAGTAAACATGC-TTAACATGTATTCAAT
87817590 AGGGTGGTGA
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
37 4 0.07
38 41 0.69
39 12 0.20
40 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (39 bp):
TCAACACTAGTAGTAAACATGCTTAACATGTATTCAATT
Found at i:87821152 original size:80 final size:80
Alignment explanation
Indices: 87821019--87821168 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 80
87821009 TAATGTGTAA
* *
87821019 TGTTACAGCTCCAAACTCTTCTATTGGAAACTTTGACGGCTACTCTTGCTCCACTTTATGTTCGA
1 TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGACTACTCTTGCTCCACTTTATGTTCGA
87821084 ATAGATCATCAACTT
66 ATAGATCATCAACTT
* * *
87821099 TGTTACAGGTCCAAACTCTTCTATTGGAAAATTTGACGACTACTTTTGTTCCACTTTATGTTCGA
1 TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGACTACTCTTGCTCCACTTTATGTTCGA
87821164 ATAGA
66 ATAGA
87821169 ACATTAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (80 bp):
TGTTACAGCTCCAAACTCTTCTATTGGAAAATTTGACGACTACTCTTGCTCCACTTTATGTTCGA
ATAGATCATCAACTT
Done.