Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 75 of 172
Found at i:24813904 original size:56 final size:55
Alignment explanation
Indices: 24813801--24813945 Score: 170
Period size: 56 Copynumber: 2.6 Consensus size: 55
24813791 TCCCAGATAG
* * *
24813801 GGTCTTACTCGTA-AACATATCGGAATCACATATCATTGCCAACGTATAAAACGT
1 GGTCTTACTCGCACAATATATCGGAGTCACATATCATTGCCAACGTATAAAACGT
* * *
24813855 GGTCTTACTCGCACACATATATCGGAGTCACATATCGA-TGGCAATGTATAAAATGT
1 GGTCTTACTCGCACA-ATATATCGGAGTCACATATC-ATTGCCAACGTATAAAACGT
*
24813911 GGTCTTACTTGCACATATATATCGG-GATCACATAT
1 GGTCTTACTCGCACA-ATATATCGGAG-TCACATAT
24813946 GCTTCCAGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
54 12 0.15
55 2 0.03
56 64 0.81
57 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (55 bp):
GGTCTTACTCGCACAATATATCGGAGTCACATATCATTGCCAACGTATAAAACGT
Found at i:24820422 original size:54 final size:56
Alignment explanation
Indices: 24820364--24820508 Score: 177
Period size: 56 Copynumber: 2.6 Consensus size: 56
24820354 TCCCAGATAG
*
24820364 GGTCTTACTCGTA-A-ACACATCGGAATCACATATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACACACATCGGAATCACATATCAATGCCAACGTATAAAATGT
* * * * * *
24820418 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGGCAATGTATAAAATGT
1 GGTCTTACTCGCACACACACATCGGAATCACATATCAATGCCAACGTATAAAATGT
* * * *
24820474 GGTCTTACTCGCACATATATATCGGGATCACATAT
1 GGTCTTACTCGCACACACACATCGGAATCACATAT
24820509 GTTTCCAGGT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 12 0.15
55 1 0.01
56 66 0.84
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACACACATCGGAATCACATATCAATGCCAACGTATAAAATGT
Found at i:24820467 original size:56 final size:56
Alignment explanation
Indices: 24820382--24820508 Score: 193
Period size: 56 Copynumber: 2.3 Consensus size: 56
24820372 TCGTAAACAC
*
24820382 ATCGGAATCACATATCAATGCCAACGTATAAAATGTGGTCTTACTCGCACACATAT
1 ATCGGAGTCACATATCAATGCCAACGTATAAAATGTGGTCTTACTCGCACACATAT
* * * *
24820438 ATCGGAGTCACATATCGATGGCAATGTATAAAATGTGGTCTTACTCGCACATATAT
1 ATCGGAGTCACATATCAATGCCAACGTATAAAATGTGGTCTTACTCGCACACATAT
24820494 ATCGG-GATCACATAT
1 ATCGGAG-TCACATAT
24820509 GTTTCCAGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 1 0.02
56 64 0.98
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (56 bp):
ATCGGAGTCACATATCAATGCCAACGTATAAAATGTGGTCTTACTCGCACACATAT
Found at i:24823021 original size:91 final size:95
Alignment explanation
Indices: 24822912--24823081 Score: 226
Period size: 91 Copynumber: 1.8 Consensus size: 95
24822902 TATATGTGCT
*
24822912 GATGCATGTCCCGAACATGTCTTACACTAACACGAC-TCT-TA-ACCGATG-CATGTCCCAAACA
1 GATGCATGTCCAGAACATGTCTTACACTAACAC-ACATCTCTACACCGATGCCATGTCCCAAACA
24822973 -CGTCTTACACTGGCTGTCATCATCGAGGTC
65 TCGTCTTACACTGGCTGTCATCATCGAGGTC
** * *
24823003 GATGCATGTCCTAG-ACATGTCTTACACTGGCACTCATCTCTACACCGATGCCATGTCCCAGACA
1 GATGCATGTCC-AGAACATGTCTTACACTAACACACATCTCTACACCGATGCCATGTCCCAAACA
*
24823067 TGGTCTTACACTGGC
65 TCGTCTTACACTGGC
24823082 ACACAAGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
90 1 0.01
91 31 0.46
92 3 0.04
93 7 0.10
94 12 0.18
95 13 0.19
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (95 bp):
GATGCATGTCCAGAACATGTCTTACACTAACACACATCTCTACACCGATGCCATGTCCCAAACAT
CGTCTTACACTGGCTGTCATCATCGAGGTC
Found at i:24823040 original size:47 final size:46
Alignment explanation
Indices: 24822912--24823083 Score: 154
Period size: 47 Copynumber: 3.7 Consensus size: 46
24822902 TATATGTGCT
** * *
24822912 GATGCATGTCCC-GAACATGTCTTACACTAACAC-GA-CTCTTA-ACC
1 GATGCATGTCCCAG-ACATGTCTTACACTGGCACTCATCTC-GACACC
* * ** ***
24822956 GATGCATGTCCCAAACACGTCTTACACTGGCTGTCATCATCGAGGTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TCGACACC
* *
24823003 GATGCATGTCCTAGACATGTCTTACACTGGCACTCATCTCTACACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACACC
24823049 GATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
24823084 ACAAGAAATC
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 26 0.26
45 1 0.01
46 10 0.10
47 49 0.49
48 15 0.15
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACACC
Found at i:24828559 original size:29 final size:29
Alignment explanation
Indices: 24828508--24828583 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
24828498 GTACTATTTT
* **
24828508 AAAATATAGTAAATAAATTATTTAAATATA
1 AAAATATA-AAAATAAAACATTTAAATATA
* *
24828538 AAAATATAAAAATAAAACATTTTAATCTA
1 AAAATATAAAAATAAAACATTTAAATATA
*
24828567 ATTTAATATAAAAATAA
1 A--AAATATAAAAATAA
24828584 TTATATTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.45
30 8 0.21
31 13 0.34
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATATAAAAATAAAACATTTAAATATA
Found at i:24828641 original size:26 final size:26
Alignment explanation
Indices: 24828590--24828641 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
24828580 ATAATTATAT
* *
24828590 TAATAATGTTATTAAAGTATATTTAA
1 TAATAATGTTATTAAAATATAGTTAA
*
24828616 TAATAAT-TATATTAAAATATGGTTAA
1 TAATAATGT-TATTAAAATATAGTTAA
24828642 ATTATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
TAATAATGTTATTAAAATATAGTTAA
Found at i:24828871 original size:16 final size:16
Alignment explanation
Indices: 24828850--24828893 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
24828840 AATTACTCAT
24828850 TACAGCTCTATTCCAC
1 TACAGCTCTATTCCAC
* *
24828866 TACAGCTTTATTCCAT
1 TACAGCTCTATTCCAC
*
24828882 TACAACTCTATT
1 TACAGCTCTATT
24828894 TTATTACAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.39
Consensus pattern (16 bp):
TACAGCTCTATTCCAC
Found at i:24828891 original size:32 final size:32
Alignment explanation
Indices: 24828847--24828914 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
24828837 TTGAATTACT
* *
24828847 CATTACAGCTCTATTCCACTACAGCTTTATTC
1 CATTACAACTCTATTCCACTACAGCCTTATTC
** *
24828879 CATTACAACTCTATTTTATTACAGCCTTATTC
1 CATTACAACTCTATTCCACTACAGCCTTATTC
24828911 CATT
1 CATT
24828915 CCAGTGAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.41
Consensus pattern (32 bp):
CATTACAACTCTATTCCACTACAGCCTTATTC
Found at i:24833968 original size:39 final size:40
Alignment explanation
Indices: 24833811--24834035 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
24833801 GCTACTCGTT
* *
24833811 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
24833851 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
24833891 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
24833931 CCAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
24833970 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24834011 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24834036 CATCATTCGA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 113 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24834019 original size:79 final size:79
Alignment explanation
Indices: 24833811--24834035 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 79
24833801 GCTACTCGTT
* * * * * *
24833811 CAAATGCC-TTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCG
1 CAAATGCCTTTC-GGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCG
*
24833875 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
* * * * *
24833891 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCAGG-CTTAGCCCGG
1 CAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
24833955 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * *
24833970 CAAATGCC-TTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTTCGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
24834034 GA
64 GA
24834036 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 5 0.04
79 55 0.46
80 55 0.46
81 5 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:24834019 original size:119 final size:120
Alignment explanation
Indices: 24833813--24834035 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 120
24833803 TACTCGTTCA
* *
24833813 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGAT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGAT
* * *
24833878 TTAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
24833933 AATGCCTTCAGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
* * *
24833994 GATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 GATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
24834036 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
118 6 0.07
119 63 0.72
120 19 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:24835246 original size:56 final size:56
Alignment explanation
Indices: 24835179--24835466 Score: 549
Period size: 56 Copynumber: 5.1 Consensus size: 56
24835169 TATTAGTTTA
24835179 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
24835235 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
24835291 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGGCATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
24835347 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
24835403 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
24835459 TTGCCCAT
1 TTGCCCAT
24835467 TATCCCTTGT
Statistics
Matches: 229, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 229 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:24839272 original size:40 final size:40
Alignment explanation
Indices: 24839241--24839532 Score: 412
Period size: 40 Copynumber: 7.3 Consensus size: 40
24839231 GGACTAAGAT
24839241 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
24839281 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
24839321 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
24839361 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
24839401 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * * * *
24839441 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
* * * * * *
24839481 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
24839520 CCGAAGGCATTTG
1 CCGAAGGCATTTG
24839533 AACGAGGAGC
Statistics
Matches: 236, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 33 0.14
40 200 0.85
41 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:24839550 original size:79 final size:80
Alignment explanation
Indices: 24839189--24839565 Score: 238
Period size: 80 Copynumber: 4.7 Consensus size: 80
24839179 TGAATGCTGT
* ** * * * ** **
24839189 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCCAT
*
24839252 TGTGCGAGATAC-AAATT
64 TGTGCGAGATACTAAA-A
* * * ** *
24839269 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-AC-AAATTCCGGGTTAAGCCCCGAAGG-CAT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAA-TCCGGGTTAAGTCCCGAAGGCCA-
*
24839331 TTGTGCGAGATAC-AAATT
63 TTGTGCGAGATACTAAA-A
* * * ** * *
24839349 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-AC-AAATTCCGGGTTAAGCCCCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAA-TCCGGGTTAAGTCCCGAAGGCCAT
*
24839412 TGTGCGAGATACTAAAT
64 TGTGCGAGATACTAAAA
* ** * * *
24839429 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGG-CATTG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTG
* *
24839493 TGTGAGTTACTAAAA
66 TGCGAGATACTAAAA
* * * *
24839508 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
24839566 TACGTGATTT
Statistics
Matches: 257, Mismatches: 30, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
78 15 0.06
79 51 0.20
80 176 0.68
81 15 0.06
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCCATTG
TGCGAGATACTAAAA
Found at i:24853706 original size:56 final size:56
Alignment explanation
Indices: 24853639--24853870 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
24853629 TATTAGTTTA
* *
24853639 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
24853695 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
24853751 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
24853807 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
24853863 TTGCCCAT
1 TTGCCCAT
24853871 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:24862932 original size:27 final size:27
Alignment explanation
Indices: 24862899--24862981 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
24862889 CCAAAGTACG
*
24862899 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
24862926 TTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
24862953 CTCGATTTACAAAATTA-TCGTTTTACC
1 CTCGATTTACAGAATTACT-GTTTTACC
24862980 CT
1 CT
24862982 TAATTGTGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 1 0.02
27 48 0.98
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.45
Consensus pattern (27 bp):
CTCGATTTACAGAATTACTGTTTTACC
Found at i:24863074 original size:27 final size:26
Alignment explanation
Indices: 24863019--24863113 Score: 136
Period size: 27 Copynumber: 3.6 Consensus size: 26
24863009 ATAGGGTAGC
24863019 ATTACCAAAATACCCTAGTTTGTAAA
1 ATTACCAAAATACCCTAGTTTGTAAA
* *
24863045 ATTACCAAAATACCACTGGTTTGTGAA
1 ATTACCAAAATACC-CTAGTTTGTAAA
* *
24863072 ATTACCGAAATACCCTCAATTTGTAAA
1 ATTACCAAAATACCCT-AGTTTGTAAA
24863099 ATTACCAAAATACCC
1 ATTACCAAAATACCC
24863114 CTGATTTACA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 16 0.27
27 44 0.73
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (26 bp):
ATTACCAAAATACCCTAGTTTGTAAA
Found at i:24863120 original size:27 final size:26
Alignment explanation
Indices: 24863019--24863129 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
24863009 ATAGGGTAGC
24863019 ATTACCAAAATACCCT-AGTTTGTAAA
1 ATTACCAAAATACCCTGA-TTTGTAAA
* *
24863045 ATTACCAAAATACCACTGGTTTGTGAA
1 ATTACCAAAATACC-CTGATTTGTAAA
* *
24863072 ATTACCGAAATACCCTCAATTTGTAAA
1 ATTACCAAAATACCCT-GATTTGTAAA
**
24863099 ATTACCAAAATACCCCTGATTTACAAA
1 ATTACCAAAATA-CCCTGATTTGTAAA
24863126 ATTA
1 ATTA
24863130 TAGAAATACC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 16 0.23
27 51 0.72
28 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
ATTACCAAAATACCCTGATTTGTAAA
Found at i:24863128 original size:54 final size:53
Alignment explanation
Indices: 24863019--24863218 Score: 172
Period size: 54 Copynumber: 3.7 Consensus size: 53
24863009 ATAGGGTAGC
* ***
24863019 ATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAA
1 ATTACCAAAATACCCTAATTTGTAAAATTACCAAAATACCACTGGTTTACAAA
* * *
24863072 ATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAA
1 ATTACCAAAATACCCT-AATTTGTAAAATTACCAAAATACCACTGGTTTACAAA
* * * *
24863126 ATTA-TAGAAATACCCTTGACATTCT-AAAAATTA-TAGAAATACCATTGGTTTACAAA
1 ATTACCA-AAATACCC-T-A-ATT-TGTAAAATTACCA-AAATACCACTGGTTTACAAA
* * * *
24863182 ATTACTAAAATACCCTTAGTTTGTAGATTTACCAAAA
1 ATTACCAAAATACCC-TAATTTGTAAAATTACCAAAA
24863219 CACCCCTGTA
Statistics
Matches: 118, Mismatches: 20, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
53 16 0.14
54 53 0.45
55 5 0.04
56 41 0.35
57 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (53 bp):
ATTACCAAAATACCCTAATTTGTAAAATTACCAAAATACCACTGGTTTACAAA
Found at i:24863203 original size:27 final size:27
Alignment explanation
Indices: 24863019--24863223 Score: 116
Period size: 27 Copynumber: 7.6 Consensus size: 27
24863009 ATAGGGTAGC
*
24863019 ATTACCAAAATACCC-TAGTTTGTAAA
1 ATTACCAAAATACCCTTAGTTTATAAA
* * *
24863045 ATTACCAAAATACCAC-TGGTTTGTGAA
1 ATTACCAAAATACC-CTTAGTTTATAAA
* * * *
24863072 ATTACCGAAATACCCTCAATTTGTAAA
1 ATTACCAAAATACCCTTAGTTTATAAA
* *
24863099 ATTACCAAAATACCCCT-GATTTACAAA
1 ATTACCAAAATACCCTTAG-TTTATAAA
* *
24863126 ATTA-TAGAAATACCCTTGACATTCTA-AAA
1 ATTACCA-AAATACCCTT-A-GTT-TATAAA
* * * *
24863155 ATTA-TAGAAATACCATTGGTTTACAAA
1 ATTACCA-AAATACCCTTAGTTTATAAA
* * *
24863182 ATTACTAAAATACCCTTAGTTTGTAGA
1 ATTACCAAAATACCCTTAGTTTATAAA
* *
24863209 TTTACCAAAACACCC
1 ATTACCAAAATACCC
24863224 CTGTAGGATG
Statistics
Matches: 142, Mismatches: 27, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
26 18 0.13
27 99 0.70
28 2 0.01
29 21 0.15
30 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
ATTACCAAAATACCCTTAGTTTATAAA
Found at i:24863332 original size:27 final size:27
Alignment explanation
Indices: 24863257--24863333 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
24863247 ACCCCTAATA
* *
24863257 GGTAAAAAGACCGTAAA-GCCCCTGTAG
1 GGTAAAATGACCG-AAATGCCCTTGTAG
* * *
24863284 GGTAAAGTGACCGAAATACCCTTGTAT
1 GGTAAAATGACCGAAATGCCCTTGTAG
24863311 GGTAAAATGA-CGAATATGCCCTT
1 GGTAAAATGACCGAA-ATGCCCTT
24863334 ATGTTCCGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.17
27 34 0.83
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGAAATGCCCTTGTAG
Found at i:24864104 original size:25 final size:26
Alignment explanation
Indices: 24864007--24864129 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
24863997 GAGGAAGTGC
* *
24864007 AAAAGGGCTTATGTCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
24864033 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
24864059 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
24864085 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
24864110 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
24864130 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 34 0.37
26 57 0.63
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:24864333 original size:42 final size:42
Alignment explanation
Indices: 24864274--24864365 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
24864264 TAGTCTCCCC
* * ** *
24864274 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCACTGACATTACATGTGATATTG
24864316 AAATGGGCTTGCATACATCCACTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCACTGACATTACATGTGATATTG
24864358 AAATGGGC
1 AAATGGGC
24864366 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCACTGACATTACATGTGATATTG
Found at i:24864466 original size:31 final size:31
Alignment explanation
Indices: 24864389--24864467 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
24864379 CATTTACAGT
*
24864389 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
24864420 AAAGGTTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
24864451 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
24864468 AACCATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:24866603 original size:39 final size:39
Alignment explanation
Indices: 24866547--24866737 Score: 192
Period size: 39 Copynumber: 4.9 Consensus size: 39
24866537 ATATTTGATG
* *
24866547 TGTATCCAGACTTAGGGTCCGCAGGCTAT-GTGCTGGAAT
1 TGTATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAA
*
24866586 TATATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAA
* **
24866625 TGTATCCGGGC-TAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAGGGT-CCGCAGGCTTCGTGCTGGAAA
* * **
24866664 TGTATCCGGGC-CAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGACTTAGGGT-CCGCAGGCTTCGTGCTGGAAA
* ** *
24866703 TGTATCCGG-GTTAAAGTCCCGCAGGCTTTGTGCTG
1 TGTATCCGGACTTAGGGT-CCGCAGGCTTCGTGCTG
24866738 ATAATATAAT
Statistics
Matches: 138, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 5 0.04
39 133 0.96
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (39 bp):
TGTATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAA
Found at i:24870211 original size:43 final size:43
Alignment explanation
Indices: 24870154--24870262 Score: 148
Period size: 43 Copynumber: 2.5 Consensus size: 43
24870144 GTGCCATATC
* * * *
24870154 CCAGATATGATCTTACATGTTATCGTAT-ATCGATGCCAATGTA
1 CCAGACATGGTCTTACATGTAATCATATAAT-GATGCCAATGTA
* *
24870197 CCAGACATGGTCTTACATGAAATCATATAATGATGCCAATGTC
1 CCAGACATGGTCTTACATGTAATCATATAATGATGCCAATGTA
24870240 CCAGACATGGTCTTACATGTAAT
1 CCAGACATGGTCTTACATGTAAT
24870263 TACATCTTGG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 56 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (43 bp):
CCAGACATGGTCTTACATGTAATCATATAATGATGCCAATGTA
Found at i:24872379 original size:17 final size:17
Alignment explanation
Indices: 24872344--24872398 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
24872334 AATAAAAGAC
* *
24872344 AGAGAATA-AAGAACAA
1 AGAGAATAGGAGATCAA
24872360 AGAGAATAGGAGATCAA
1 AGAGAATAGGAGATCAA
24872377 AGAGAATAGGAGATCAA
1 AGAGAATAGGAGATCAA
24872394 AGAGA
1 AGAGA
24872399 GAGTGTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.58, C:0.05, G:0.27, T:0.09
Consensus pattern (17 bp):
AGAGAATAGGAGATCAA
Found at i:24873532 original size:21 final size:22
Alignment explanation
Indices: 24873508--24873549 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
24873498 CTATGTTCTA
24873508 ATTTTT-TAAAATTTTATTTTT
1 ATTTTTATAAAATTTTATTTTT
*
24873529 ATTTTTCATAATATTTTATTT
1 ATTTTT-ATAAAATTTTATTT
24873550 GGTTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTTATAAAATTTTATTTTT
Found at i:24876181 original size:25 final size:25
Alignment explanation
Indices: 24876153--24876235 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
24876143 GCCAAGGAAT
24876153 GGAATTGATGAGTTCTATAAGGCAA
1 GGAATTGATGAGTTCTATAAGGCAA
* * ** * *
24876178 GGAAATCATGTAAGACCATGCTAAGGCAT
1 GGAATTGATG--AGTTC-T-ATAAGGCAA
* *
24876207 GGAATTGATAAGTTCTATAAGGGAA
1 GGAATTGATGAGTTCTATAAGGCAA
24876232 GGAA
1 GGAA
24876236 ATCATGTAAG
Statistics
Matches: 40, Mismatches: 14, Indels: 8
0.65 0.23 0.13
Matches are distributed among these distances:
25 18 0.45
26 1 0.03
27 6 0.15
28 1 0.03
29 14 0.35
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.24
Consensus pattern (25 bp):
GGAATTGATGAGTTCTATAAGGCAA
Found at i:24876186 original size:54 final size:54
Alignment explanation
Indices: 24876122--24876330 Score: 287
Period size: 54 Copynumber: 3.9 Consensus size: 54
24876112 TTGGTAAGAT
*
24876122 AAGGATATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTCTATAAGGC
* * * *
24876176 AAGGAAATCATGTAAGACCATGCTAAGGCATGGAATTGATAAGTTCTATAAGGG
1 AAGGAAATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTCTATAAGGC
* *
24876230 AAGGAAATCATGTAAGACCATGTCAA-GACATGGCATTGATGAGTTACTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGA-ATGGAATTGATGAGTT-CTATAAGGC
* * *
24876285 AAGGATAA-CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC
1 AAGGA-AATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTC
24876331 AAAAAGGAAA
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 88 0.64
55 45 0.33
56 3 0.02
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTCTATAAGGC
Found at i:24876205 original size:29 final size:29
Alignment explanation
Indices: 24876169--24876251 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 29
24876159 GATGAGTTCT
24876169 ATAAGGCAAGGAAATCATGTAAGACCATG
1 ATAAGGCAAGGAAATCATGTAAGACCATG
* * **
24876198 CTAAGGCATGG-AAT--TGATAAGTTC-T-
1 ATAAGGCAAGGAAATCATG-TAAGACCATG
*
24876223 ATAAGGGAAGGAAATCATGTAAGACCATG
1 ATAAGGCAAGGAAATCATGTAAGACCATG
24876252 TCAAGACATG
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
25 8 0.21
26 6 0.15
27 10 0.26
28 6 0.15
29 9 0.23
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (29 bp):
ATAAGGCAAGGAAATCATGTAAGACCATG
Found at i:24876330 original size:109 final size:108
Alignment explanation
Indices: 24876122--24876322 Score: 316
Period size: 109 Copynumber: 1.9 Consensus size: 108
24876112 TTGGTAAGAT
*
24876122 AAGGATATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTCTATAAGGCAAGGAAATCAT
1 AAGGAAATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTCTATAAGGCAAGGAAATCAT
*
24876187 GTAAGACCATGCTAAGGCATGGAATTGATAAGTTCTATAAGGG
66 GTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGG
* *
24876230 AAGGAAATCATGTAAGACCATGTCAA-GACATGGCATTGATGAGTTACTATAAGGCAAGGATAA-
1 AAGGAAATCATGTAAGACCATGCCAAGGA-ATGGAATTGATGAGTT-CTATAAGGCAAGGA-AAT
*
24876293 CATGTAAGACCATGCCAAGGCATGGCATTG
63 CATGTAAGACCATGCCAAGGCATGGAATTG
24876323 GTGAGTTCAA
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
107 2 0.02
108 39 0.46
109 42 0.49
110 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (108 bp):
AAGGAAATCATGTAAGACCATGCCAAGGAATGGAATTGATGAGTTCTATAAGGCAAGGAAATCAT
GTAAGACCATGCCAAGGCATGGAATTGATAAGTTCTATAAGGG
Found at i:24886717 original size:40 final size:40
Alignment explanation
Indices: 24886673--24886751 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
24886663 TTATCCACAG
* *
24886673 TTATGGACTGACGGTGGGTTGTCGTGAATCATAGGTGCTT
1 TTATGGACTAACGATGGGTTGTCGTGAATCATAGGTGCTT
*
24886713 TTATGGACTAACGATGGGTTTTCGTGAATCATAGGTGCT
1 TTATGGACTAACGATGGGTTGTCGTGAATCATAGGTGCT
24886752 CTGTTCTCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.20, C:0.13, G:0.32, T:0.35
Consensus pattern (40 bp):
TTATGGACTAACGATGGGTTGTCGTGAATCATAGGTGCTT
Found at i:24902887 original size:29 final size:30
Alignment explanation
Indices: 24902824--24902891 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
24902814 AAGGTGTCCG
*
24902824 CGCACACTCAGTGCCATGCACTTTAAACTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
* * *
24902854 -ACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTTAAACTT
24902882 CGCACACTTA
1 CGCACACTTA
24902892 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (30 bp):
CGCACACTTAGTGCCATGCACTTTAAACTT
Found at i:24903036 original size:147 final size:145
Alignment explanation
Indices: 24902854--24903162 Score: 582
Period size: 147 Copynumber: 2.1 Consensus size: 145
24902844 CTTTAAACTT
24902854 ACACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCG
1 ACACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCG
24902919 ATAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGC
66 ATAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGC
24902984 TTAATAATCAACCACTC
131 TTAATAATCAACCA--C
24903001 ACACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCG
1 ACACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCG
*
24903066 GTAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGC
66 ATAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGC
24903131 TTAATAATCAACCAC
131 TTAATAATCAACCAC
*
24903146 GCACACTTAGTGCCATG
1 ACACACTTAGTGCCATG
24903163 TACTTTAAAC
Statistics
Matches: 160, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
145 17 0.11
147 143 0.89
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (145 bp):
ACACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCG
ATAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGC
TTAATAATCAACCAC
Found at i:24903179 original size:29 final size:30
Alignment explanation
Indices: 24903140--24903218 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
24903130 CTTAATAATC
24903140 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
24903170 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
24903199 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
24903219 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:24908663 original size:27 final size:27
Alignment explanation
Indices: 24908628--24908680 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
24908618 CTGGAACATG
* *
24908628 GGCCTGGCACATGGGTGTGTATGGCAT
1 GGCCTGGCACACGGGCGTGTATGGCAT
24908655 GGCCTGGCACACGGGCGTGTATGGCA
1 GGCCTGGCACACGGGCGTGTATGGCA
24908681 AATTTTAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.23, G:0.42, T:0.21
Consensus pattern (27 bp):
GGCCTGGCACACGGGCGTGTATGGCAT
Found at i:24909958 original size:43 final size:43
Alignment explanation
Indices: 24909893--24909983 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
24909883 TCGTTGAGAG
** ** * *
24909893 ATGT-AGCATCCGAGTTCGTTGAGGGGTCCGAGTTCATTATGC
1 ATGTGAGCATCCGAACTCGTTGAGACGTCCAAGTTCATAATGC
*
24909935 ATGTGAGCATCCGAACTCGTTGAGACGTCCAAGTTCATAATGG
1 ATGTGAGCATCCGAACTCGTTGAGACGTCCAAGTTCATAATGC
24909978 ATGTGA
1 ATGTGA
24909984 TTCATGTAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.10
43 37 0.90
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
ATGTGAGCATCCGAACTCGTTGAGACGTCCAAGTTCATAATGC
Found at i:24913337 original size:55 final size:53
Alignment explanation
Indices: 24913182--24913388 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
24913172 TTCCTTTTTA
* * * * *
24913182 AACTTATCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTACCTTATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATC
* * * * ** *
24913235 AACTCACCACTGCCATGTCTTGGCATGGTCTTACATGCGATCTTTGCCTTATC
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATC
* * * *
24913288 ATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-C
* * * * * *
24913344 AACTTACCAATGCCATGCCTTGGCTTGGTCTTACTTGGTATCCTT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
24913389 AAATCCTAAT
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 36 0.30
55 41 0.34
56 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATC
Found at i:24913755 original size:29 final size:30
Alignment explanation
Indices: 24913722--24913781 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
24913712 CAGTCCTTAA
24913722 CTCT-AACTTTTGCAAAATTACAATTTTGC
1 CTCTAAACTTTTGCAAAATTACAATTTTGC
* * *
24913751 CTCTAAACTTTTGCATATTTACACTTTTGC
1 CTCTAAACTTTTGCAAAATTACAATTTTGC
24913781 C
1 C
24913782 CCAAGGCTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (30 bp):
CTCTAAACTTTTGCAAAATTACAATTTTGC
Found at i:24925429 original size:11 final size:11
Alignment explanation
Indices: 24925413--24925496 Score: 72
Period size: 10 Copynumber: 7.8 Consensus size: 11
24925403 CAGTGTTCAA
24925413 AATTTTTTTCG
1 AATTTTTTTCG
24925424 AATTTTTTT--
1 AATTTTTTTCG
24925433 AACTTTTTTT-G
1 AA-TTTTTTTCG
24925444 AATTTTTTTC-
1 AATTTTTTTCG
*
24925454 -ATTTTTTTTG
1 AATTTTTTTCG
*
24925464 AAACTTTTTTTTTG
1 -AA--TTTTTTTCG
24925478 AATTTTTTTCG
1 AATTTTTTTCG
24925489 -ATTTTTTT
1 AATTTTTTT
24925497 AAACTTACTT
Statistics
Matches: 63, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
9 10 0.16
10 22 0.35
11 19 0.30
12 1 0.02
13 2 0.03
14 9 0.14
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (11 bp):
AATTTTTTTCG
Found at i:24925441 original size:20 final size:20
Alignment explanation
Indices: 24925413--24925498 Score: 86
Period size: 20 Copynumber: 4.1 Consensus size: 20
24925403 CAGTGTTCAA
24925413 AATTTTTTTCGAATTTTTTT
1 AATTTTTTTCGAATTTTTTT
24925433 AACTTTTTTT-GAATTTTTTT
1 AA-TTTTTTTCGAATTTTTTT
* *
24925453 CATTTTTTTTGAAACTTTTTTTTT
1 AATTTTTTTCG-AA---TTTTTTT
24925477 GAATTTTTTTCG-ATTTTTTT
1 -AATTTTTTTCGAATTTTTTT
24925497 AA
1 AA
24925499 ACTTACTTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
19 9 0.16
20 21 0.38
21 9 0.16
23 1 0.02
24 7 0.12
25 9 0.16
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (20 bp):
AATTTTTTTCGAATTTTTTT
Found at i:24926683 original size:63 final size:65
Alignment explanation
Indices: 24926615--24926749 Score: 172
Period size: 67 Copynumber: 2.1 Consensus size: 65
24926605 CTAACTTAAA
24926615 TAAATGAAC-TAACACTTATGCATCA-T-TTAAT-CTAGTAACTAGTTTAATTAATAGAAGCAT-
1 TAAATGAACTTAA-ACTTATGCATCACTATT-ATCCTAGTAACTAGTTTAATTAA-AGAAGCATC
24926675 TAT
63 TAT
* *
24926678 TAAATGAACTTTAACTTATGCATCACTAAATTATCCTAGTAACTAGTTTATTTAAAGAAGCATCT
1 TAAATGAACTTAAACTTATGCATCACT--ATTATCCTAGTAACTAGTTTAATTAAAGAAGCATCT
24926743 AT
64 AT
24926745 TAAAT
1 TAAAT
24926750 TGTAACACCC
Statistics
Matches: 63, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
63 21 0.33
64 3 0.05
66 10 0.16
67 29 0.46
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (65 bp):
TAAATGAACTTAAACTTATGCATCACTATTATCCTAGTAACTAGTTTAATTAAAGAAGCATCTAT
Found at i:24929294 original size:27 final size:27
Alignment explanation
Indices: 24929258--24929403 Score: 127
Period size: 27 Copynumber: 5.5 Consensus size: 27
24929248 ACTGGTTTCG
*
24929258 CACACTTAGTGCTCAGAAATTAATTCA
1 CACACATAGTGCTCAGAAATTAATTCA
* *** * *
24929285 CACACATAGTGCTTA-AACCCAACTCG
1 CACACATAGTGCTCAGAAATTAATTCA
* *
24929311 CACACTTAGTGCTTAGAAATTAATTCA
1 CACACATAGTGCTCAGAAATTAATTCA
* * * *
24929338 CACACATAGTGCT--TAAATCCAACTCG
1 CACACATAGTGCTCAGAAAT-TAATTCA
*
24929364 CACACTTAGTGCTCAGAAATTAATTCA
1 CACACATAGTGCTCAGAAATTAATTCA
*
24929391 CACATATAGTGCT
1 CACACATAGTGCT
24929404 TAAACCCAAC
Statistics
Matches: 90, Mismatches: 25, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
25 4 0.04
26 36 0.40
27 46 0.51
28 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (27 bp):
CACACATAGTGCTCAGAAATTAATTCA
Found at i:24929320 original size:26 final size:26
Alignment explanation
Indices: 24929255--24929428 Score: 134
Period size: 26 Copynumber: 6.6 Consensus size: 26
24929245 ATAACTGGTT
* ** *
24929255 TCGCACACTTAGTGCTCAGAAATTAAT
1 TCGCACACTTAGTGCTTA-AAACCAAC
* * *
24929282 TCACACACATAGTGCTTAAACCCAAC
1 TCGCACACTTAGTGCTTAAAACCAAC
** *
24929308 TCGCACACTTAGTGCTTAGAAATTAAT
1 TCGCACACTTAGTGCTTA-AAACCAAC
* * *
24929335 TCACACACATAGTGCTTAAATCCAAC
1 TCGCACACTTAGTGCTTAAAACCAAC
* ** *
24929361 TCGCACACTTAGTGCTCAGAAATTAAT
1 TCGCACACTTAGTGCTTA-AAACCAAC
* *
24929388 TCACACA-TATAGTGCTTAAACCCAAC
1 TCGCACACT-TAGTGCTTAAAACCAAC
24929414 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
24929429 ATCCCTCAAA
Statistics
Matches: 110, Mismatches: 33, Indels: 9
0.72 0.22 0.06
Matches are distributed among these distances:
26 56 0.51
27 54 0.49
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.26
Consensus pattern (26 bp):
TCGCACACTTAGTGCTTAAAACCAAC
Found at i:24929322 original size:53 final size:53
Alignment explanation
Indices: 24929255--24929428 Score: 321
Period size: 53 Copynumber: 3.3 Consensus size: 53
24929245 ATAACTGGTT
24929255 TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAACCCAAC
1 TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAACCCAAC
* *
24929308 TCGCACACTTAGTGCTTAGAAATTAATTCACACACATAGTGCTTAAATCCAAC
1 TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAACCCAAC
*
24929361 TCGCACACTTAGTGCTCAGAAATTAATTCACACATATAGTGCTTAAACCCAAC
1 TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAACCCAAC
24929414 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
24929429 ATCCCTCAAA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 116 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.26
Consensus pattern (53 bp):
TCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAACCCAAC
Found at i:24929919 original size:27 final size:27
Alignment explanation
Indices: 24929836--24929927 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
24929826 TGACATTTCA
* *
24929836 CACACTTAGTGCTCAGAAAT-TAATTCA
1 CACACTTAGTGCTCAG-AATCAAATTCG
* * * *
24929863 CACACATAGTGCTTA-AATCCAACTCG
1 CACACTTAGTGCTCAGAATCAAATTCG
*
24929889 CACACTTAGTGCTCAGTATCAAATTCG
1 CACACTTAGTGCTCAGAATCAAATTCG
24929916 CACACTTAGTGC
1 CACACTTAGTGC
24929928 ATCCCTCAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.06
26 17 0.32
27 33 0.62
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTCAGAATCAAATTCG
Found at i:24930308 original size:499 final size:499
Alignment explanation
Indices: 24929414--24930328 Score: 1812
Period size: 499 Copynumber: 1.8 Consensus size: 499
24929404 TAAACCCAAC
24929414 TCGCACACTTAGTGCATCCCTCAAACTTATTACTCATTTATACATATACACAATAAGCTTAAACA
1 TCGCACACTTAGTGCATCCCTCAAACTTATTACTCATTTATACATATACACAATAAGCTTAAACA
24929479 TCAACCACATATTAACTTATTCATCTCCCTATTCAATATCTCATTTGGATATATTAAACTCACAT
66 TCAACCACATATTAACTTATTCATCTCCCTATTCAATATCTCATTTGGATATATTAAACTCACAT
24929544 ATATATATGTATACATCTCAATCGGCTATATCAAACTACACCTAGATACACATTCGGTTATATCC
131 ATATATATGTATACATCTCAATCGGCTATATCAAACTACACCTAGATACACATTCGGTTATATCC
24929609 AATCACATATATATAGACATTCAACTTTATCCAACTACACATATATACACACTTAGTTATGTCAA
196 AATCACATATATATAGACATTCAACTTTATCCAACTACACATATATACACACTTAGTTATGTCAA
24929674 ACATATATATATCATATTCAACTATATCATTCCATGTATCTATCACATTCGATTATAAGACATTC
261 ACATATATATATCATATTCAACTATATCATTCCATGTATCTATCACATTCGATTATAAGACATTC
24929739 ACCTAAATATCACATTCGGCTATAATAATAGCCTTTATATATATACTTTTAATAAATTCATAAAC
326 ACCTAAATATCACATTCGGCTATAATAATAGCCTTTATATATATACTTTTAATAAATTCATAAAC
24929804 CTCATTAACGATAAATTCAATTTGACATTTCACACACTTAGTGCTCAGAAATTAATTCACACACA
391 CTCATTAACGATAAATTCAATTTGACATTTCACACACTTAGTGCTCAGAAATTAATTCACACACA
24929869 TAGTGCTTAAATCCAACTCGCACACTTAGTGCTCAGTATCAAAT
456 TAGTGCTTAAATCCAACTCGCACACTTAGTGCTCAGTATCAAAT
24929913 TCGCACACTTAGTGCATCCCTCAAACTTATTACTCATTTATACATATACACAATAAGCTTAAACA
1 TCGCACACTTAGTGCATCCCTCAAACTTATTACTCATTTATACATATACACAATAAGCTTAAACA
24929978 TCAACCACATATTAACTTATTCATCTCCCTATTCAATATCTCATTTGGATATATTAAACTCACAT
66 TCAACCACATATTAACTTATTCATCTCCCTATTCAATATCTCATTTGGATATATTAAACTCACAT
24930043 ATATATATGTATACATCTCAATCGGCTATATCAAACTACACCTAGATACACATTCGGTTATATCC
131 ATATATATGTATACATCTCAATCGGCTATATCAAACTACACCTAGATACACATTCGGTTATATCC
24930108 AATCACATATATATAGACATTCAACTTTATCCAACTACACATATATACACACTTAGTTATGTCAA
196 AATCACATATATATAGACATTCAACTTTATCCAACTACACATATATACACACTTAGTTATGTCAA
24930173 ACATATATATATCATATTCAACTATATCATTCCATGTATCTATCACATTCGATTATAAGACATTC
261 ACATATATATATCATATTCAACTATATCATTCCATGTATCTATCACATTCGATTATAAGACATTC
**
24930238 ATGTAAATATCACATTCGGCTATAATAATAGCCTTTATATATATACTTTTAATAAATTCATAAAC
326 ACCTAAATATCACATTCGGCTATAATAATAGCCTTTATATATATACTTTTAATAAATTCATAAAC
24930303 CTCATTAACGATAAATTCAATTTGAC
391 CTCATTAACGATAAATTCAATTTGAC
24930329 TTAATTGCTT
Statistics
Matches: 414, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
499 414 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.34
Consensus pattern (499 bp):
TCGCACACTTAGTGCATCCCTCAAACTTATTACTCATTTATACATATACACAATAAGCTTAAACA
TCAACCACATATTAACTTATTCATCTCCCTATTCAATATCTCATTTGGATATATTAAACTCACAT
ATATATATGTATACATCTCAATCGGCTATATCAAACTACACCTAGATACACATTCGGTTATATCC
AATCACATATATATAGACATTCAACTTTATCCAACTACACATATATACACACTTAGTTATGTCAA
ACATATATATATCATATTCAACTATATCATTCCATGTATCTATCACATTCGATTATAAGACATTC
ACCTAAATATCACATTCGGCTATAATAATAGCCTTTATATATATACTTTTAATAAATTCATAAAC
CTCATTAACGATAAATTCAATTTGACATTTCACACACTTAGTGCTCAGAAATTAATTCACACACA
TAGTGCTTAAATCCAACTCGCACACTTAGTGCTCAGTATCAAAT
Found at i:24933589 original size:50 final size:49
Alignment explanation
Indices: 24933522--24933745 Score: 202
Period size: 46 Copynumber: 4.7 Consensus size: 49
24933512 AATCGAAGCT
*
24933522 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATTTCTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCTCTGTGCC
* * *
24933572 GATGCCATGTCCTAGACATGGTCTTACATTGAG----ACATCT-TGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-GCTCTACATCTCTGT-GCC
* * *
24933618 GATG-CATGTCCCAGACA-CGTCTTACACTGGCT-TAGATCTC-GAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCTG-TGCC
* * ** **
24933664 GATG-CATGTCCTAGACAT-GTCTTACACTAGCTCT-CATCTCAATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCTGTGCC
*
24933710 GATGCCATGTCCCAGACATGGTTTTACACTGGCTCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
24933746 CAGAATGTGG
Statistics
Matches: 142, Mismatches: 20, Indels: 26
0.76 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 15 0.11
46 58 0.41
47 14 0.10
48 14 0.10
50 29 0.20
51 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCTGTGCC
Found at i:24933673 original size:46 final size:47
Alignment explanation
Indices: 24933522--24933785 Score: 170
Period size: 46 Copynumber: 5.6 Consensus size: 47
24933512 AATCGAAGCT
* * *
24933522 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATTTCTG-TGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-AGATCTC-GAGGCC
* * * * *
24933572 GATGCCATGTCCTAGACATGGTCTTACATTGAG----ACATCTTGTA-GTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTG-GCTCTAGATCTCG-AGGCC
*
24933618 GATGCATGTCCCAGACACGTCTTACACTGGCT-TAGATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTAGATCTCGAGGCC
* * * * * **
24933664 GATGCATGTCCTAGACATGTCTTACACTAGCTCT-CATCTCAATGTT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTAGATCTCGAGGCC
* * *
24933710 GATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCAGA-AT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-AGATCTCGAGGCC
* *
24933758 AATGCATGTCCCAGGCATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
24933786 AGTGCACAAA
Statistics
Matches: 170, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 14 0.08
46 68 0.40
47 27 0.16
48 18 0.11
49 1 0.01
50 30 0.18
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTAGATCTCGAGGCC
Found at i:24933737 original size:94 final size:92
Alignment explanation
Indices: 24933521--24933787 Score: 271
Period size: 94 Copynumber: 2.9 Consensus size: 92
24933511 AAATCGAAGC
* * *
24933521 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATTTCTGTGCCGATGCCATGTCCTA
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAGATATC-GGGCCGATG-CATGTCCTA
* *
24933586 GACATGGTCTTACATTGAGACATCTTGTAGT
64 GACAT-GTCTTACACT-AGACATCTTCTAGT
* * *
24933617 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCT-T-AGATCTCGAGGCCGATGCATGTCCTAG
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAGATATCG-GGCCGATGCATGTCCTAG
24933678 ACATGTCTTACACTAG-C-TCTCATCTCAATGT
65 ACATGTCTTACACTAGACATCT--TCT--A-GT
* * *
24933709 TGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCAGA-AT-GTGGCCAATGCATGTCCCAG
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAGATATCG-GGCCGATGCATGTCCTAG
*
24933772 GCATGTCTTACACTAG
65 ACATGTCTTACACTAG
24933788 TGCACAAATG
Statistics
Matches: 146, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
87 3 0.02
88 1 0.01
89 4 0.03
90 9 0.06
91 16 0.11
92 18 0.12
93 14 0.10
94 59 0.40
95 15 0.10
96 7 0.05
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (92 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAGATATCGGGCCGATGCATGTCCTAGA
CATGTCTTACACTAGACATCTTCTAGT
Found at i:24941976 original size:27 final size:27
Alignment explanation
Indices: 24941905--24942022 Score: 152
Period size: 27 Copynumber: 4.4 Consensus size: 27
24941895 AGGTCGTTAT
24941905 ATGACCGTAATGCCTCTGTAGAGTAAA
1 ATGACCGTAATGCCTCTGTAGAGTAAA
*
24941932 ATGA-CGTAATGCCCCTGTAGAGTAAA
1 ATGACCGTAATGCCTCTGTAGAGTAAA
*
24941958 ATGACCGTAATGCCTCTGTAGGGTAAA
1 ATGACCGTAATGCCTCTGTAGAGTAAA
** *
24941985 ACAATCGTAATGCGC-CTGTAG-GTTAAA
1 ATGACCGTAATGC-CTCTGTAGAG-TAAA
24942012 ATGACCGTAAT
1 ATGACCGTAAT
24942023 AACCCTGTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 26 0.33
27 52 0.66
28 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
ATGACCGTAATGCCTCTGTAGAGTAAA
Found at i:24942031 original size:54 final size:53
Alignment explanation
Indices: 24941905--24942022 Score: 175
Period size: 54 Copynumber: 2.2 Consensus size: 53
24941895 AGGTCGTTAT
* **
24941905 ATGACCGTAATGCCTCTGTAGAGTAAAATGACGTAATGCCCCTGTAGAGTAAA
1 ATGACCGTAATGCCTCTGTAGGGTAAAACAACGTAATGCCCCTGTAGAGTAAA
*
24941958 ATGACCGTAATGCCTCTGTAGGGTAAAACAATCGTAATGCGCCTGTAG-GTTAAA
1 ATGACCGTAATGCCTCTGTAGGGTAAAACAA-CGTAATGCCCCTGTAGAG-TAAA
24942012 ATGACCGTAAT
1 ATGACCGTAAT
24942023 AACCCTGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 29 0.49
54 30 0.51
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (53 bp):
ATGACCGTAATGCCTCTGTAGGGTAAAACAACGTAATGCCCCTGTAGAGTAAA
Found at i:24942037 original size:54 final size:54
Alignment explanation
Indices: 24941905--24942038 Score: 166
Period size: 54 Copynumber: 2.5 Consensus size: 54
24941895 AGGTCGTTAT
* * **
24941905 ATGACCGTAATGCCTCTGTAGAGTAAAATGA-CGTAATGCCCCTGTAGAGTAAA
1 ATGACCGTAATACCTCTGTAGGGTAAAACAATCGTAATGCCCCTGTAGAGTAAA
* *
24941958 ATGACCGTAATGCCTCTGTAGGGTAAAACAATCGTAATGCGCCTGTAG-GTTAAA
1 ATGACCGTAATACCTCTGTAGGGTAAAACAATCGTAATGCCCCTGTAGAG-TAAA
*
24942012 ATGACCGTAATAACC-CTGTATGGTAAA
1 ATGACCGTAAT-ACCTCTGTAGGGTAAA
24942039 CTGACGATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
53 29 0.40
54 41 0.57
55 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (54 bp):
ATGACCGTAATACCTCTGTAGGGTAAAACAATCGTAATGCCCCTGTAGAGTAAA
Found at i:24942038 original size:27 final size:25
Alignment explanation
Indices: 24941905--24942043 Score: 136
Period size: 27 Copynumber: 5.2 Consensus size: 25
24941895 AGGTCGTTAT
24941905 ATGACCGTAATGCCTCTGTAGAGTAAA
1 ATGACCGTAATGCC-CTGTAG-GTAAA
24941932 ATGA-CGTAATGCCCCTGTAGAGTAAA
1 ATGACCGTAATG-CCCTGTAG-GTAAA
24941958 ATGACCGTAATGCCTCTGTAGGGTAAA
1 ATGACCGTAATGCC-CTGTA-GGTAAA
** *
24941985 ACAATCGTAATGCGCCTGTAGGTTAAA
1 ATGACCGTAATGC-CCTGTAGG-TAAA
*
24942012 ATGACCGTAATAACCCTGTATGGTAAA
1 ATGACCGTAAT-GCCCTGTA-GGTAAA
*
24942039 CTGAC
1 ATGAC
24942044 GATTATGCCC
Statistics
Matches: 96, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
26 27 0.28
27 64 0.67
28 5 0.05
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (25 bp):
ATGACCGTAATGCCCTGTAGGTAAA
Found at i:24946279 original size:53 final size:54
Alignment explanation
Indices: 24946139--24946349 Score: 255
Period size: 53 Copynumber: 3.9 Consensus size: 54
24946129 TATATGATCG
* * ** * * *
24946139 TAATGCCCCTATAGAGTAAAATGATTGTAATGCCCCTGAAGAGTAATATGACCA
1 TAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCA
* * * *
24946193 TAATGCCCCTGTAGAGTAAAATGGCTGTAATGCCCCTGTAGGGTAAAATGGCCA
1 TAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCA
* *
24946247 TAATG-CTCTGTAGGGTAAAATGACCGTAATGCCTCTGTAGGGT-AAATGACCA
1 TAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCA
* * * *
24946299 TGATGCCCCTGTAGGGTAAAATGATCGTAATACCCCTGTATGGTAAAATGA
1 TAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGA
24946350 TAATTATGCC
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
52 12 0.09
53 66 0.49
54 58 0.43
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (54 bp):
TAATGCCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCA
Found at i:24946350 original size:27 final size:27
Alignment explanation
Indices: 24946132--24946349 Score: 233
Period size: 27 Copynumber: 8.1 Consensus size: 27
24946122 AGGTCATTAT
* * *
24946132 ATGATCGTAATGCCCCTATAGAGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
** * * *
24946159 ATGATTGTAATGCCCCTGAAGAGTAAT
1 ATGACCGTAATGCCCCTGTAGGGTAAA
* *
24946186 ATGACCATAATGCCCCTGTAGAGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
* *
24946213 ATGGCTGTAATGCCCCTGTAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
* * *
24946240 ATGGCCATAATG-CTCTGTAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
*
24946266 ATGACCGTAATGCCTCTGTAGGGT-AA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
* *
24946292 ATGACCATGATGCCCCTGTAGGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
* * *
24946319 ATGATCGTAATACCCCTGTATGGTAAA
1 ATGACCGTAATGCCCCTGTAGGGTAAA
24946346 ATGA
1 ATGA
24946350 TAATTATGCC
Statistics
Matches: 163, Mismatches: 26, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 46 0.28
27 117 0.72
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (27 bp):
ATGACCGTAATGCCCCTGTAGGGTAAA
Found at i:24946548 original size:27 final size:27
Alignment explanation
Indices: 24946518--24946570 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
24946508 CATTCATTGT
*
24946518 TACTAGTGGCTATGCCATAATTACTGA
1 TACTAGTGGCTATGCCACAATTACTGA
* *
24946545 TACTAGTGGCTTTGCCACATTTACTG
1 TACTAGTGGCTATGCCACAATTACTG
24946571 TTTCTTGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
TACTAGTGGCTATGCCACAATTACTGA
Found at i:24946818 original size:33 final size:33
Alignment explanation
Indices: 24946781--24946845 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
24946771 CAGGGCTAGG
24946781 GCCCAAACTGTACTGATACAAAATAGGGCTTAT
1 GCCCAAACTGTACTGATACAAAATAGGGCTTAT
* * ***
24946814 GCCCAGATTGTACTGATATTGAATAGGGCTTA
1 GCCCAAACTGTACTGATACAAAATAGGGCTTA
24946846 GGTCCATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (33 bp):
GCCCAAACTGTACTGATACAAAATAGGGCTTAT
Found at i:24949834 original size:21 final size:21
Alignment explanation
Indices: 24949810--24949876 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
24949800 AAAAGAAATA
24949810 GAGAAGGGAGGAAAATAGAGG
1 GAGAAGGGAGGAAAATAGAGG
* * * * *
24949831 GAGAA-GTA-GAAGAGAAATG
1 GAGAAGGGAGGAAAATAGAGG
24949850 GAGAAGGGAGGAAAATAGAGG
1 GAGAAGGGAGGAAAATAGAGG
24949871 GAGAAG
1 GAGAAG
24949877 TAGAAGAGAA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 12 0.35
20 4 0.12
21 18 0.53
ACGTcount: A:0.49, C:0.00, G:0.45, T:0.06
Consensus pattern (21 bp):
GAGAAGGGAGGAAAATAGAGG
Found at i:24949848 original size:40 final size:40
Alignment explanation
Indices: 24949803--24949886 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
24949793 CTATGTTAAA
24949803 AGAAATAGAGAAGGGAGGAAAATAGAGGGAGAAGTAGAAG
1 AGAAATAGAGAAGGGAGGAAAATAGAGGGAGAAGTAGAAG
*
24949843 AGAAATGGAGAAGGGAGGAAAATAGAGGGAGAAGTAGAAG
1 AGAAATAGAGAAGGGAGGAAAATAGAGGGAGAAGTAGAAG
24949883 AGAA
1 AGAA
24949887 TGGAAAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.52, C:0.00, G:0.40, T:0.07
Consensus pattern (40 bp):
AGAAATAGAGAAGGGAGGAAAATAGAGGGAGAAGTAGAAG
Found at i:24954222 original size:12 final size:12
Alignment explanation
Indices: 24954205--24954231 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24954195 ATTCCGAAGT
24954205 ATATATATATAC
1 ATATATATATAC
24954217 ATATATATATAC
1 ATATATATATAC
24954229 ATA
1 ATA
24954232 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:24954750 original size:27 final size:27
Alignment explanation
Indices: 24954719--24954896 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24954709 TAAATTGTAC
24954719 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24954746 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24954772 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24954800 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24954828 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24954855 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24954882 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24954897 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24954833 original size:82 final size:81
Alignment explanation
Indices: 24954720--24954875 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24954710 AAATTGTACA
* *
24954720 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24954784 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24954801 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24954866 TGCGAGTTGA
65 TGCGAATTGA
24954876 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24954887 original size:82 final size:81
Alignment explanation
Indices: 24954716--24954896 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24954706 GATTAAATTG
* *
24954716 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24954781 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24954797 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24954861 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24954879 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24954897 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24962940 original size:27 final size:27
Alignment explanation
Indices: 24962909--24963086 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24962899 TAAATTGTAC
24962909 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24962936 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24962962 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24962990 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24963018 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24963045 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24963072 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24963087 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24963023 original size:82 final size:81
Alignment explanation
Indices: 24962910--24963065 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24962900 AAATTGTACA
* *
24962910 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24962974 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24962991 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24963056 TGCGAGTTGA
65 TGCGAATTGA
24963066 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24963077 original size:82 final size:81
Alignment explanation
Indices: 24962906--24963086 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24962896 GATTAAATTG
* *
24962906 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24962971 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24962987 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24963051 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24963069 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24963087 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24967936 original size:49 final size:49
Alignment explanation
Indices: 24967863--24968108 Score: 285
Period size: 49 Copynumber: 5.0 Consensus size: 49
24967853 GTAGACAAGG
* * * * * *
24967863 TTATCTGGTACGCATAGTAACCTGCACTTAGTACTACATATGCGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
24967912 TTATCCGGTACACGTAGTAGCCTGCACTTGGTACTACACACGTGACCTAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
** * * * *
24967962 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
24968012 GTTATCGGGTGCGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
*
24968062 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
24968109 TCACAATAGA
Statistics
Matches: 164, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 80 0.49
50 47 0.29
51 37 0.23
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:24968099 original size:100 final size:99
Alignment explanation
Indices: 24967863--24968107 Score: 303
Period size: 100 Copynumber: 2.5 Consensus size: 99
24967853 GTAGACAAGG
* * * * * * * *
24967863 TTATCTGGTACGCATAGTAACCTGCACTTAGTACTACATATGCGACCAATTATCCGGTACACGTA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACATA
* *
24967928 GTAGCCTGCACTTGGTACTACACACGTGACCTAA
66 GTAGCCTGCACTTAGTACTACACACGCGACCTAA
** * * * *
24967962 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTGCGCA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCGGTACACA
*
24968027 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
64 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
*
24968062 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
24968108 CTCACAATAG
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 37 0.30
100 46 0.37
101 40 0.33
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACATA
GTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:24968385 original size:27 final size:27
Alignment explanation
Indices: 24968355--24968408 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24968345 TCATACAACC
* *
24968355 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
24968382 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
24968409 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:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:24972592 original size:23 final size:23
Alignment explanation
Indices: 24972566--24972615 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
24972556 TACTGTACAA
*
24972566 ATTTGGACATTGTTACCAAACTG
1 ATTTGGACACTGTTACCAAACTG
* *
24972589 ATTTTGATACTGTTACCAAACTG
1 ATTTGGACACTGTTACCAAACTG
24972612 ATTT
1 ATTT
24972616 TGATACCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (23 bp):
ATTTGGACACTGTTACCAAACTG
Found at i:24972616 original size:23 final size:23
Alignment explanation
Indices: 24972576--24972621 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24972566 ATTTGGACAT
24972576 TGTTACCAAACTGATTTTGATAC
1 TGTTACCAAACTGATTTTGATAC
24972599 TGTTACCAAACTGATTTTGATAC
1 TGTTACCAAACTGATTTTGATAC
24972622 CGGAATGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (23 bp):
TGTTACCAAACTGATTTTGATAC
Found at i:24989410 original size:72 final size:72
Alignment explanation
Indices: 24989325--24989491 Score: 334
Period size: 72 Copynumber: 2.3 Consensus size: 72
24989315 CAGTTTATCT
24989325 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTAT
24989390 CCTCTCC
66 CCTCTCC
24989397 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTAT
24989462 CCTCTCC
66 CCTCTCC
24989469 CGTAGCTCTCTTGTCTACATGGT
1 CGTAGCTCTCTTGTCTACATGGT
24989492 ATACTTCCCG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 95 1.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (72 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTAT
CCTCTCC
Found at i:24995413 original size:7 final size:7
Alignment explanation
Indices: 24995401--24995429 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
24995391 CCCTCGGACT
24995401 CATCTTA
1 CATCTTA
24995408 CATCTTA
1 CATCTTA
24995415 CATCTTA
1 CATCTTA
24995422 CATCTTA
1 CATCTTA
24995429 C
1 C
24995430 GGCGGGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (7 bp):
CATCTTA
Found at i:24998896 original size:17 final size:18
Alignment explanation
Indices: 24998865--24998898 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24998855 CTCTAGCCCC
*
24998865 GTTTTTAATGTTCTTTAT
1 GTTTTTAATGATCTTTAT
24998883 GTTTTTAA-GATCTTTA
1 GTTTTTAATGATCTTTA
24998899 AAGCATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
GTTTTTAATGATCTTTAT
Found at i:25001011 original size:49 final size:47
Alignment explanation
Indices: 25000890--25001064 Score: 188
Period size: 47 Copynumber: 3.6 Consensus size: 47
25000880 AGGGTATAAT
* **
25000890 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAATAAATCAA
* * * *
25000937 GTCGATGCCATGTCTCAGACATGGTCTTACACTGACTATTGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAAT-AAATC-AA
* * * * **
25000986 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTAATAAAT-CAA
25001036 GCCGATGCCATGTCCCAGACATGGTCTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTA
25001065 TATCGGCACA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
47 36 0.34
48 3 0.03
49 31 0.29
50 32 0.30
51 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTAATAAATCAA
Found at i:25007088 original size:40 final size:40
Alignment explanation
Indices: 25006994--25007178 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
25006984 TATTCGAATG
* *
25006994 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTCGTGCTA-GTGACT
* * *
25007035 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAG-TGACT
* * * *
25007075 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGTGACT
*
25007115 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTC-GTGCTAGTGACT
*
25007155 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
25007179 CTTGCGCAAG
Statistics
Matches: 120, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 88 0.73
41 29 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGTGACT
Found at i:25007165 original size:80 final size:81
Alignment explanation
Indices: 25006994--25007178 Score: 243
Period size: 80 Copynumber: 2.3 Consensus size: 81
25006984 TATTCGAATG
* * *
25006994 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
25007059 ATTCGTGCGAGTTGCT
66 ATTCGTGCGAGTTGCC
* * *
25007075 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
*
25007138 CA-TCTGTGCTAG-TGACC
65 CATTC-GTGCGAGTTG-CC
25007155 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
25007179 CTTGCGCAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
79 5 0.05
80 56 0.61
81 31 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCC
Found at i:25021638 original size:40 final size:40
Alignment explanation
Indices: 25021544--25021768 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
25021534 TATTCGAATG
*
25021544 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
25021585 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
25021625 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
25021665 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
25021705 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
25021745 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
25021769 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:25021724 original size:80 final size:80
Alignment explanation
Indices: 25021544--25021804 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
25021534 TATTCGAATG
* * * *
25021544 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
25021609 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
25021625 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
25021690 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
25021705 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
25021770 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
25021784 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
25021805 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:25021758 original size:120 final size:120
Alignment explanation
Indices: 25021544--25021804 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
25021534 TATTCGAATG
* * *
25021544 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
25021609 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
25021665 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
25021728 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
25021784 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
25021805 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:25026365 original size:46 final size:44
Alignment explanation
Indices: 25026252--25026373 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 44
25026242 TATATCTGTG
* *
25026252 CCGATGCCATGTCCTGGACATAGTCTTACACTGGCACATCTCATAG
1 CCGATG-CATGTCCTAGACAT-GTCTTACACTGGCACATCTCATAA
* * *
25026298 CCGATGCATCTCCCAAACATGTCTTACACTGGCTTACAT-TC-TAAA
1 CCGATGCATGTCCTAGACATGTCTTACACTGGC--ACATCTCAT-AA
25026343 CCTGATGCATGTCCTAGACATGTCTTACACT
1 CC-GATGCATGTCCTAGACATGTCTTACACT
25026374 AACTCTCGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
44 14 0.22
45 15 0.23
46 35 0.55
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (44 bp):
CCGATGCATGTCCTAGACATGTCTTACACTGGCACATCTCATAA
Found at i:25030977 original size:151 final size:151
Alignment explanation
Indices: 25030703--25031005 Score: 606
Period size: 151 Copynumber: 2.0 Consensus size: 151
25030693 AACCCTAATA
25030703 TCAACTAAAACAATCGGCCCAACCTCCCTAAGGCCCTTGCCAAAATTCACTTAAATGATCACATG
1 TCAACTAAAACAATCGGCCCAACCTCCCTAAGGCCCTTGCCAAAATTCACTTAAATGATCACATG
25030768 CCCAGGACATGCCTAAAATTAAAAAGTAACAATATGCCTACCTTGCAACTTGAACCCTGGACCTT
66 CCCAGGACATGCCTAAAATTAAAAAGTAACAATATGCCTACCTTGCAACTTGAACCCTGGACCTT
25030833 TAATTCCTTCCCAAGAGCCTT
131 TAATTCCTTCCCAAGAGCCTT
25030854 TCAACTAAAACAATCGGCCCAACCTCCCTAAGGCCCTTGCCAAAATTCACTTAAATGATCACATG
1 TCAACTAAAACAATCGGCCCAACCTCCCTAAGGCCCTTGCCAAAATTCACTTAAATGATCACATG
25030919 CCCAGGACATGCCTAAAATTAAAAAGTAACAATATGCCTACCTTGCAACTTGAACCCTGGACCTT
66 CCCAGGACATGCCTAAAATTAAAAAGTAACAATATGCCTACCTTGCAACTTGAACCCTGGACCTT
25030984 TAATTCCTTCCCAAGAGCCTT
131 TAATTCCTTCCCAAGAGCCTT
25031005 T
1 T
25031006 TTTTTAGGAA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 152 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (151 bp):
TCAACTAAAACAATCGGCCCAACCTCCCTAAGGCCCTTGCCAAAATTCACTTAAATGATCACATG
CCCAGGACATGCCTAAAATTAAAAAGTAACAATATGCCTACCTTGCAACTTGAACCCTGGACCTT
TAATTCCTTCCCAAGAGCCTT
Found at i:25034337 original size:26 final size:26
Alignment explanation
Indices: 25034303--25034355 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
25034293 CCACATTTAC
*
25034303 TATTTCTGGCAGCTATGCTGCATTAT
1 TATTACTGGCAGCTATGCTGCATTAT
* *
25034329 TATTACTGGCAGCTTTGCTGCGTTAT
1 TATTACTGGCAGCTATGCTGCATTAT
25034355 T
1 T
25034356 GGTGTGCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (26 bp):
TATTACTGGCAGCTATGCTGCATTAT
Found at i:25048980 original size:40 final size:41
Alignment explanation
Indices: 25048897--25049042 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 41
25048887 TTGAATGATG
* * *
25048897 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
25048937 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25048977 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25049018 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25049043 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25049060 original size:80 final size:80
Alignment explanation
Indices: 25048897--25049075 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
25048887 TTGAATGATG
* *
25048897 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
** *
25048962 GTGCGAGTTATTAAA
66 GAACGAGTTACTAAA
* * * * *
25048977 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
25049040 TTGAACGAG-TAGCTATA
64 TTGAACGAGTTA-CTAAA
* *
25049057 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25049076 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:25050445 original size:33 final size:34
Alignment explanation
Indices: 25050408--25050471 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
25050398 CTATTGCTCT
25050408 ATAGGGCTAAGGCCCAGACTG-TACTAATATTGA
1 ATAGGGCTAAGGCCCAGACTGTTACTAATATTGA
* *
25050441 ATAGGGCTCAGGCCCAGACTGTTACTGATAT
1 ATAGGGCTAAGGCCCAGACTGTTACTAATAT
25050472 GGGCTTAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (34 bp):
ATAGGGCTAAGGCCCAGACTGTTACTAATATTGA
Found at i:25054028 original size:27 final size:26
Alignment explanation
Indices: 25053981--25054037 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
25053971 TCAGTTTGTG
* * *
25053981 AAATTATCAAATATCCTTGT-AGTGTA
1 AAATTAACAAATACCCCTGTAAG-GTA
25054007 AAATTAACAAAATACCCCTGTAAGGTA
1 AAATTAAC-AAATACCCCTGTAAGGTA
25054034 AAAT
1 AAAT
25054038 GACCGTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 17 0.65
28 2 0.08
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (26 bp):
AAATTAACAAATACCCCTGTAAGGTA
Found at i:25069103 original size:43 final size:43
Alignment explanation
Indices: 25069055--25069201 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
25069045 ATCATGATGT
*
25069055 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTGA
* * * * *
25069098 GATTACGTGTAAGAACATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCG-TATTGA
* * * * * *
25069141 GATTTCGTGTAAGACCCTGTCTAGGATAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT-TGA
25069184 G-TTAACATGTAAGACCAT
1 GATT-ACATGTAAGACCAT
25069202 ATCTGGGATA
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 76 0.92
44 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTGA
Found at i:25070175 original size:190 final size:190
Alignment explanation
Indices: 25069852--25070233 Score: 728
Period size: 190 Copynumber: 2.0 Consensus size: 190
25069842 CCCGCGGCCA
25069852 ACAAACATGCCCGTGTGCTATGGCCGTGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
1 ACAAACATGCCCGTGTGCTATGGCCGTGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
* *
25069917 CCCTTTATGGGTCATTCTTACAAGCCAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
66 CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
* *
25069982 TGCTCAAAACATGCTTCATTACAACTATTTCATCATCATTCAACAACTTATTCAAACCAT
131 TGCTCAAAACATGCTTCATTAAAACTATTTCATCATCATTCAACAACTCATTCAAACCAT
25070042 ACAAACATGCCCGTGTGCTATGGCCGTGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
1 ACAAACATGCCCGTGTGCTATGGCCGTGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
25070107 CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
66 CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
25070172 TGCTCAAAACATGCTTCATTAAAACTATTTCATCATCATTCAACAACTCATTCAAACCAT
131 TGCTCAAAACATGCTTCATTAAAACTATTTCATCATCATTCAACAACTCATTCAAACCAT
25070232 AC
1 AC
25070234 CAAAACTTAA
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 188 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (190 bp):
ACAAACATGCCCGTGTGCTATGGCCGTGTGGCACAATGCAGGCTTAGTTTAAGCTAATTTGCCAC
CCCTTTATGGGTCATTCCTACAAGACAAATTAAGCAGCATTCATATAAAATATTCAGCCAATTCA
TGCTCAAAACATGCTTCATTAAAACTATTTCATCATCATTCAACAACTCATTCAAACCAT
Found at i:25085005 original size:13 final size:14
Alignment explanation
Indices: 25084973--25085011 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
25084963 TTTTAAAAGG
*
25084973 ATAAAAGTAAAAAC
1 ATAAAAATAAAAAC
*
25084987 ATAAAAATAATAA-
1 ATAAAAATAAAAAC
25085000 ATAAAAATAAAA
1 ATAAAAATAAAA
25085012 GTCTTAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (14 bp):
ATAAAAATAAAAAC
Found at i:25086579 original size:10 final size:10
Alignment explanation
Indices: 25086559--25086588 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
25086549 AGAAACATTC
25086559 AAATAAACAAT
1 AAAT-AACAAT
25086570 AAATAACAAT
1 AAATAACAAT
25086580 AAATAACAA
1 AAATAACAA
25086589 GAGAATAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (10 bp):
AAATAACAAT
Found at i:25100239 original size:14 final size:13
Alignment explanation
Indices: 25100214--25100247 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
25100204 CTGGAATATT
25100214 AAAACAATAATTA
1 AAAACAATAATTA
25100227 AAAACACATAATTA
1 AAAACA-ATAATTA
*
25100241 AGAACAA
1 AAAACAA
25100248 ATCAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAACAATAATTA
Found at i:25104895 original size:55 final size:55
Alignment explanation
Indices: 25104760--25104897 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 55
25104750 TGTATGTATG
* * *
25104760 CACACGCCCGCGTTGTTTTGACAGTCTCGACCACGGATAGTGAGCATGGGCATGT
1 CACACGCCCGTGTTGTTTTGACAGTTTCAACCACGGATAGTGAGCATGGGCATGT
** ** ** * *
25104815 CACACGCCCGTGTTAATTTCTCAGTTTCAACCACGG-TTTTTAGACATGGGCGTGT
1 CACACGCCCGTGTTGTTTTGACAGTTTCAACCACGGATAGTGAG-CATGGGCATGT
*
25104870 CGCACGCCCGTGTTGTTTTGACAGTTTC
1 CACACGCCCGTGTTGTTTTGACAGTTTC
25104898 CTCCACAGCC
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 4 0.06
55 62 0.94
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (55 bp):
CACACGCCCGTGTTGTTTTGACAGTTTCAACCACGGATAGTGAGCATGGGCATGT
Found at i:25113778 original size:27 final size:27
Alignment explanation
Indices: 25113748--25113925 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25113738 ATATTGAGTC
* * * *
25113748 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25113775 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25113802 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25113830 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25113857 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25113884 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25113911 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25113926 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25113887 original size:82 final size:81
Alignment explanation
Indices: 25113769--25113924 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25113759 TGCTATATAA
* *
25113769 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25113834 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25113851 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25113915 CACTTAGTGC
65 CACTTAGTGC
25113925 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25133931 original size:193 final size:194
Alignment explanation
Indices: 25133597--25133955 Score: 460
Period size: 193 Copynumber: 1.9 Consensus size: 194
25133587 ACTTCACGCG
* * * **
25133597 ATTTAGTCCTTTTTATTAAATTGACTAATCAAACGATAAAATTTCTTAATGAAATTTTCACACCA
1 ATTTAGTCCTTCTAATTAAATTGACTAATCAAACAATAAAATTTCTTAACAAAATTTTCACACCA
* * *
25133662 ATAAAATATCATACTGTAAACCTTAAAATAATAATAAAATAAATATTTTGATATCAGTTTTTGGC
66 ATAAAATATCATACTGTAAACCTTAAAAAAATAATAAAATAAATATTTTGATATCAATTTGTGGC
*
25133727 CCTGAAACCACTGTTTTGATTTGA-CTAAAAATGGGCTGTTACACAAATTTTGCACTTATTGCA
131 CCTGAAACCACTATTTTGATTTGACCTAAAAATGGGCTGTTACACAAATTTTGCACTTATTGCA
* *
25133790 ATTTAGTCCTTCTAATTAAATTGAGC-ACTCAATCAATAAAATTTCTTAACAAAATTTTCACA-C
1 ATTTAGTCCTTCTAATTAAATTGA-CTAATCAAACAATAAAATTTCTTAACAAAATTTTCACACC
*** * * *
25133853 AATTATTCTATCATGCTGTAGACCTTAAAAAAATAATAAAATAAATATTTTTACT-TCGAATTTG
65 AA-TAAAATATCATACTGTAAACCTTAAAAAAATAATAAAATAAATATTTTGA-TATC-AATTTG
**
25133917 TGG-TTTCG-AACCACTATTTTGATTTGACCTAAAAATGGG
127 TGGCCCT-GAAACCACTATTTTGATTTGACCTAAAAATGGG
25133956 ATTTTCGTCC
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
192 3 0.02
193 117 0.83
194 21 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (194 bp):
ATTTAGTCCTTCTAATTAAATTGACTAATCAAACAATAAAATTTCTTAACAAAATTTTCACACCA
ATAAAATATCATACTGTAAACCTTAAAAAAATAATAAAATAAATATTTTGATATCAATTTGTGGC
CCTGAAACCACTATTTTGATTTGACCTAAAAATGGGCTGTTACACAAATTTTGCACTTATTGCA
Found at i:25139863 original size:51 final size:49
Alignment explanation
Indices: 25139741--25139864 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
25139731 ACTATGGTGA
* * * *
25139741 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGCGTACACGAAAATT
*** * * *
25139790 GGTCTTATGTGTAGTACTAAGTGCAAGCTAGTATGCGTACCCGAAAATT
1 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGCGTACACGAAAATT
25139839 GTGATCACGTGTGTAGTACTAAGTGC
1 G-G-TCACGTGTGTAGTACTAAGTGC
25139865 GGAAAGGGCT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 40 0.67
50 1 0.02
51 19 0.32
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGCGTACACGAAAATT
Found at i:25140073 original size:49 final size:49
Alignment explanation
Indices: 25139937--25140089 Score: 180
Period size: 49 Copynumber: 3.1 Consensus size: 49
25139927 ATGTTTACAG
** * * *
25139937 GATAATTGGTCTTATGTGTAGTACTAAGTGCAAGCTAGTATGCGTACCC
1 GATAATTGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
* * * * *
25139986 GAAAATTGTGATCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCA
1 GATAATTG-G-TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
* *
25140037 GATTATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GATAATTGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
25140086 GATA
1 GATA
25140090 GCTTCGGCTA
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
49 45 0.54
50 2 0.02
51 37 0.44
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
GATAATTGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
Found at i:25147079 original size:28 final size:29
Alignment explanation
Indices: 25147048--25147107 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
25147038 GATTTTTTAC
* *
25147048 AAAAATGTCAATT-AGGGAG-TAATTTGAG
1 AAAAATGTAAATTAAGGG-GTTAAATTGAG
*
25147076 AAAAGTGTAAATTAAGGGGTTAAATTGAG
1 AAAAATGTAAATTAAGGGGTTAAATTGAG
25147105 AAA
1 AAA
25147108 TAAAAGTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.27
Consensus pattern (29 bp):
AAAAATGTAAATTAAGGGGTTAAATTGAG
Found at i:25155719 original size:40 final size:40
Alignment explanation
Indices: 25155402--25155705 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
25155392 TTGAATGATG
* * *
25155402 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
25155441 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25155481 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
25155520 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
25155560 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
25155600 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25155640 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
25155681 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
25155706 AACGAGGAGC
Statistics
Matches: 246, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 53 0.22
40 183 0.74
41 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25163511 original size:79 final size:81
Alignment explanation
Indices: 25163375--25163559 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
25163365 TTGAATGATG
*
25163375 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
25163439 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
25163454 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
25163516 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
25163534 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25163560 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:25163573 original size:40 final size:39
Alignment explanation
Indices: 25163376--25163559 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
25163366 TGAATGATGT
* * *
25163376 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
25163416 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
25163456 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
25163494 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
25163535 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
25163560 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:25163581 original size:79 final size:79
Alignment explanation
Indices: 25163376--25163592 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
25163366 TGAATGATGT
** * * * **
25163376 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
25163439 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
25163456 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
25163521 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
25163535 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
25163593 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:25169130 original size:10 final size:10
Alignment explanation
Indices: 25169112--25169142 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25169102 CAATGAGTTA
*
25169112 GAATCGAGCT
1 GAATTGAGCT
25169122 GAATTGAGCT
1 GAATTGAGCT
25169132 GAATTGAGCT
1 GAATTGAGCT
25169142 G
1 G
25169143 GAATAGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (10 bp):
GAATTGAGCT
Found at i:25184904 original size:46 final size:46
Alignment explanation
Indices: 25184835--25185003 Score: 275
Period size: 46 Copynumber: 3.7 Consensus size: 46
25184825 NNNNNNNNNN
*
25184835 CGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGC
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
25184881 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
*
25184927 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGA
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
* * * **
25184973 CGAGTGGCTAATGTGAGATATGTATGAGATG
1 CGAATGGCTAATGCGAAACGTGTATGAGATG
25185004 TGTTATATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.34, C:0.09, G:0.33, T:0.24
Consensus pattern (46 bp):
CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
Found at i:25194294 original size:16 final size:16
Alignment explanation
Indices: 25194273--25194309 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25194263 AGGCAAATCT
25194273 TGAAATGCCGAAAAGC
1 TGAAATGCCGAAAAGC
*
25194289 TGAAATGCTGAAAAGC
1 TGAAATGCCGAAAAGC
*
25194305 CGAAA
1 TGAAA
25194310 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (16 bp):
TGAAATGCCGAAAAGC
Found at i:25195562 original size:29 final size:29
Alignment explanation
Indices: 25195486--25195604 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
25195476 TACATACATG
*
25195486 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* * **
25195514 CAAATGGCCCATCTA-ACCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATCATATT
* * *
25195543 CTTATGGCCCACTAGGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAAATCATATT
* *
25195572 AATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAAATCATATT
25195601 -ATAT
1 CATAT
25195605 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 20 0.27
29 53 0.73
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAAATCATATT
Found at i:25200095 original size:29 final size:28
Alignment explanation
Indices: 25199999--25200097 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 28
25199989 ACCCCTACAT
*
25199999 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
** * * *
25200027 TTATTCAAATGGCCCATCT-GGCCTAGTC
1 ACATTCATATGGCCCA-CTAGGCCCAATC
*
25200055 -CATTTTCTTATGGCCCACTAGGCCCAAATC
1 ACA--TTCATATGGCCCACTAGGCCC-AATC
25200085 ACATTCATATGGC
1 ACATTCATATGGC
25200098 TTATTATGTA
Statistics
Matches: 53, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
27 1 0.02
28 21 0.40
29 26 0.49
30 3 0.06
31 2 0.04
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:25201533 original size:19 final size:18
Alignment explanation
Indices: 25201494--25201536 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
25201484 ATTTATTATG
*
25201494 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
25201512 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
25201531 TTTTTG
1 TTTTTG
25201537 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:25202863 original size:62 final size:62
Alignment explanation
Indices: 25202763--25202890 Score: 238
Period size: 62 Copynumber: 2.1 Consensus size: 62
25202753 GATTGTAATA
*
25202763 GTGAAAGTATGTGTGTTTGTGATGGTAATATTCGGGGAACATATTGTGACTTTATTTAAAGT
1 GTGAAAGTATGTGTGTTTGTGATGGTAATATTCCGGGAACATATTGTGACTTTATTTAAAGT
*
25202825 GTGAAAGTATGTGTGTTTGTGATGGTAATATTCCGGGAACATATTGTGACTTTGTTTAAAGT
1 GTGAAAGTATGTGTGTTTGTGATGGTAATATTCCGGGAACATATTGTGACTTTATTTAAAGT
25202887 GTGA
1 GTGA
25202891 TAATGTATTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.27, C:0.05, G:0.28, T:0.40
Consensus pattern (62 bp):
GTGAAAGTATGTGTGTTTGTGATGGTAATATTCCGGGAACATATTGTGACTTTATTTAAAGT
Found at i:25207474 original size:27 final size:27
Alignment explanation
Indices: 25207455--25207611 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
25207445 ATTGCCAAAG
* *
25207455 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCATTT
*
25207482 TACCCTTAATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
* * *
25207509 TACCCTCGATTTATAGAATTGCCATTT
1 TACCCTCAATTTACAGAATTACCATTT
25207536 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCATTT
* *
25207563 TACCCTTAATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCATTT
** *
25207590 TACCCTTGATTTACAAAATTAC
1 TACCCTCAATTTACAGAATTAC
25207612 TAAAATACCC
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCATTT
Found at i:25207493 original size:54 final size:54
Alignment explanation
Indices: 25207442--25207639 Score: 216
Period size: 54 Copynumber: 3.7 Consensus size: 54
25207432 CTCAATTTGT
* *
25207442 AAAATTGCCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* ** * * * *
25207496 AGAATTACCATTTTACCCTCGATTTATAGAATTGCCATTTTACCCTCAATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* ** ** *
25207550 AGAATTACCATTTTACCCTTAATTTACAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
* * * * *
25207604 AAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACC
25207640 AAAATACCCC
Statistics
Matches: 120, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 120 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTAC
Found at i:25207620 original size:27 final size:27
Alignment explanation
Indices: 25207442--25207674 Score: 117
Period size: 27 Copynumber: 8.6 Consensus size: 27
25207432 CTCAATTTGT
* * *
25207442 AAAATTGCCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **** *
25207469 AGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *** * *
25207496 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTTGATTTAC
* * *** **
25207523 AGAATTGCCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *** *
25207550 AGAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ****
25207577 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *
25207604 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **
25207631 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTAC
25207658 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
25207675 ACTGGTTTGT
Statistics
Matches: 174, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAC
Found at i:25207621 original size:81 final size:81
Alignment explanation
Indices: 25207442--25207640 Score: 254
Period size: 81 Copynumber: 2.5 Consensus size: 81
25207432 CTCAATTTGT
* * *
25207442 AAAATTGCCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAGAATTACCAT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCAT
*
25207507 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* * *** * *
25207523 AGAATTGCCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCAT
*
25207588 TTTACCCTTGATTTAC
66 TTTACCCTCGATTTAC
* * * *
25207604 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCA
25207641 AAATACCCCT
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:25207710 original size:27 final size:27
Alignment explanation
Indices: 25207604--25207717 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
25207594 CTTGATTTAC
* * * **
25207604 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
25207631 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
25207658 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * * *
25207685 AAAATTATCGAAATACCCCCAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
25207712 AAAATT
1 AAAATT
25207718 NTGCCCTTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:25207711 original size:54 final size:54
Alignment explanation
Indices: 25207604--25207717 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
25207594 CTTGATTTAC
* * *
25207604 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCCAATTTGT
** * *
25207658 AAAATTACCAAAATACCAC-TGGTTTGTAAAATTATCGAAATACCCCCAATTTGT
1 AAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCCCAATTTGT
25207712 AAAATT
1 AAAATT
25207718 NTGCCCTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCCAATTTGT
Found at i:25208055 original size:21 final size:22
Alignment explanation
Indices: 25208021--25208064 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
25208011 TTTCGTGCAC
25208021 GATGGTAAGTTGGGCCTCAATGG
1 GATGGTAAGTTGGGCCT-AATGG
25208044 GATGG-AA-TTGGGCCTAATGG
1 GATGGTAAGTTGGGCCTAATGG
25208064 G
1 G
25208065 CTTTCGGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 2 0.10
23 5 0.24
ACGTcount: A:0.23, C:0.11, G:0.41, T:0.25
Consensus pattern (22 bp):
GATGGTAAGTTGGGCCTAATGG
Done.