Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 169 of 290
Found at i:57950660 original size:11 final size:11
Alignment explanation
Indices: 57950622--57950911 Score: 58
Period size: 12 Copynumber: 25.3 Consensus size: 11
57950612 TTTTTCACAA
57950622 ATTATTATTATT
1 ATTATTA-TATT
57950634 ATT-TTACGTCATT
1 ATTATTA--T-ATT
*
57950647 ATTTTTATATT
1 ATTATTATATT
57950658 ATTATTATATT
1 ATTATTATATT
* *
57950669 TTTACTTGTATT
1 ATTA-TTATATT
57950681 ATATATT-TATT
1 AT-TATTATATT
57950692 AATTATTTATATAT
1 -ATTA-TTATAT-T
*
57950706 ATTGTT-T-TT
1 ATTATTATATT
*
57950715 A-CATATATACTT
1 ATTAT-TATA-TT
* *
57950727 -TCATTATTTT
1 ATTATTATATT
57950737 A-TATTATATCT
1 ATTATTATAT-T
57950748 ATTA-TATTACTT
1 ATTATTA-TA-TT
*
57950760 ATTTTCTATATAT
1 ATTAT-TATAT-T
57950773 ATTTAAATTATATT
1 A-TT--ATTATATT
57950787 -TTATTATATAACT
1 ATTATTATAT---T
*
57950800 TTTATTATATT
1 ATTATTATATT
*
57950811 TTTATT-T-TT
1 ATTATTATATT
*
57950820 ATT-CTATATT
1 ATTATTATATT
* *
57950830 ACTTATCATTTT
1 A-TTATTATATT
*
57950842 TTTA-TATATGCT
1 ATTATTATAT--T
57950854 ATGTA-TATATT
1 AT-TATTATATT
57950865 A-TATTATCTATT
1 ATTATTA--TATT
57950877 A-TATTAT-TT
1 ATTATTATATT
57950886 ATGT-TTATATT
1 AT-TATTATATT
57950897 ATTCATTATATT
1 ATT-ATTATATT
57950909 ATT
1 ATT
57950912 TAAAATTTTA
Statistics
Matches: 212, Mismatches: 22, Indels: 88
0.66 0.07 0.27
Matches are distributed among these distances:
8 2 0.01
9 13 0.06
10 32 0.15
11 52 0.25
12 62 0.29
13 27 0.13
14 18 0.08
15 5 0.02
16 1 0.00
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (11 bp):
ATTATTATATT
Found at i:57950668 original size:19 final size:19
Alignment explanation
Indices: 57950646--57950708 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
57950636 TTTACGTCAT
57950646 TATTTTTATATTATTATTA
1 TATTTTTATATTATTATTA
57950665 TATTTTTACT-TGTATTA-TA
1 TATTTTTA-TAT-TATTATTA
57950684 TATTTATTA-ATTATTTATATA
1 TATTT-TTATATTA-TTAT-TA
57950705 TATT
1 TATT
57950709 GTTTTTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 9 0.24
21 6 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTATATTATTATTA
Found at i:57950893 original size:15 final size:15
Alignment explanation
Indices: 57950853--57950899 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
57950843 TTATATATGC
*
57950853 TATGTATATATTATAT
1 TATGTTTATATTAT-T
*
57950869 TATCTATTATATTATT
1 TATGT-TTATATTATT
57950885 TATGTTTATATTATT
1 TATGTTTATATTATT
57950900 CATTATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 10 0.37
16 9 0.33
17 8 0.30
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (15 bp):
TATGTTTATATTATT
Found at i:57954484 original size:98 final size:98
Alignment explanation
Indices: 57954315--57954511 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
57954305 TTGCTTTATA
57954315 TCTGGGTTATTCAACTCCTGGAGTCCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAACCT
1 TCTGGGTTATTCAACTCCTGGAGTCCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAACCT
57954380 TTTTACCTTTAGGAAGTTTCACAAGGTCCCATG
66 TTTTACCTTTAGGAAGTTTCACAAGGTCCCATG
* * *
57954413 TCTGGGTTCTTTAACTCCTGGAGTCCCTTCTTTCTTTTTAAACACCCATTTACAACGAACAACCT
1 TCTGGGTTATTCAACTCCTGGAGTCCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAACCT
57954478 TTTTACCTTTAGGAAGTTTCACAAGGTCCCATG
66 TTTTACCTTTAGGAAGTTTCACAAGGTCCCATG
57954511 T
1 T
57954512 TCTATTTTTG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (98 bp):
TCTGGGTTATTCAACTCCTGGAGTCCCTTCTTTCTTTTTAAACACCCATTTACAACAAACAACCT
TTTTACCTTTAGGAAGTTTCACAAGGTCCCATG
Found at i:57958695 original size:49 final size:49
Alignment explanation
Indices: 57958631--57958875 Score: 285
Period size: 49 Copynumber: 4.9 Consensus size: 49
57958621 TAGACAAGGC
* * *
57958631 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
57958680 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * ** * *
57958730 CATCTGATACATGTAGTAGCCTGCATTTAGTACTACACACGTGATCAAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* ***
57958781 TAT-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAAT
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
57958830 TTTCTGGTACACATAGTAGCCTGCACTTACTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
57958876 TCACAATAGA
Statistics
Matches: 160, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 80 0.50
50 46 0.29
51 34 0.21
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:57958815 original size:101 final size:98
Alignment explanation
Indices: 57958632--57958874 Score: 279
Period size: 100 Copynumber: 2.4 Consensus size: 98
57958622 AGACAAGGCT
* * * * *
57958632 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATATGTGACCAATTATCCGGTACACATAGT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACATAGT
**
57958697 AGCCTACACTTAGTACTACACACGTGACCTAACC
66 AGCCTACACTTAGTACTACACACACGACC-AACC
** * ** *
57958731 ATCTGATACATGTAGTAGCCTGCATTTAGTACTACACACGTGATCAAAGTTATTGGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCGGTACACATA
* * **
57958796 GTAGCCTGCACTTAGTACTACACATACGACCAATT
64 GTAGCCTACACTTAGTACTACACACACGACCAACC
* * *
57958831 TTCTGGTACACATAGTAGCCTGCACTTACTACTACACACGTGAC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
57958875 CTCACAATAG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
99 37 0.31
100 42 0.35
101 40 0.34
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (98 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCGGTACACATAGT
AGCCTACACTTAGTACTACACACACGACCAACC
Found at i:57961034 original size:28 final size:28
Alignment explanation
Indices: 57961002--57961056 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
57960992 AACGAGCATC
*
57961002 ACAAGAGAAATCTTTGAATTCATTAATT
1 ACAAGAGAAATCTTTGAATTCAATAATT
57961030 ACAAGAGAAATCTTTGAATTCAATAAT
1 ACAAGAGAAATCTTTGAATTCAATAAT
57961057 CTTTTAGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (28 bp):
ACAAGAGAAATCTTTGAATTCAATAATT
Found at i:57963584 original size:17 final size:17
Alignment explanation
Indices: 57963555--57963587 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57963545 AATTTATTTA
57963555 CAAAAAAATAAATAAAC
1 CAAAAAAATAAATAAAC
57963572 CAAATAAAA-AAATAAA
1 CAAA-AAAATAAATAAA
57963588 ATATAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (17 bp):
CAAAAAAATAAATAAAC
Found at i:57965809 original size:177 final size:177
Alignment explanation
Indices: 57965549--57965895 Score: 525
Period size: 177 Copynumber: 2.0 Consensus size: 177
57965539 TGAAGATTGA
* * *
57965549 AGATCCTATCTCCTTAAGCAGTAGTGGAGCAGATCACAGATGGCGAATCTTATCTTCCCGAGATA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCGAGATA
* * * * * * *
57965614 GTAGGGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGATAGCAAGAGAGCCGGTTGAAGAT
66 GCAGGGGAGCAAATTTTAGCCACCAACCTTATCTCTCTAAGATAACAAGAGAGCAGGTTAAAGAT
57965679 T-TAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGGACTGT
131 TGT-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGGACTGT
* * * *
57965726 AGATCCTATCTCCCTAAGTAGTAGTGGAGCGGATCAAAGATGGCAAATTTTATCTTCCCGAGGTA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCGAGATA
* * *
57965791 GCAGGGGAGCAAATTTTAGCCCCCAACCTTATCTCTCTAAGGTAACAAGAGAGTAGGTTAAAGAT
66 GCAGGGGAGCAAATTTTAGCCACCAACCTTATCTCTCTAAGATAACAAGAGAGCAGGTTAAAGAT
57965856 TGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGA
131 TGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGA
57965896 ATATGGTAGA
Statistics
Matches: 152, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
177 151 0.99
178 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (177 bp):
AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCTTATCTTCCCGAGATA
GCAGGGGAGCAAATTTTAGCCACCAACCTTATCTCTCTAAGATAACAAGAGAGCAGGTTAAAGAT
TGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGGACTGT
Found at i:57965907 original size:177 final size:177
Alignment explanation
Indices: 57965530--57965915 Score: 524
Period size: 177 Copynumber: 2.2 Consensus size: 177
57965520 AAGTTGTAGA
* * * * * * *
57965530 GAAGTAGATTGAAGATTGAAGATCCTATCTCCTTAAGCAGTAGTGGAGCAGATCACAGATGGCGA
1 GAAGCAGACTGAAGACTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
* * * * *
57965595 ATCTTATCTTCCCGAGATAGTAGGGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGATAGC
66 ATCTTATCTTCCCGAGATAGCAGGGGAGCAAATTTTAGCCACCAACCTTATCTCTCTAAGATAAC
* *
57965660 AAGAGAGCCGGTTGAAGATTTAAGTCTTATCTTCCTGAGGTAGCAAG
131 AAGAGAGCAGGTTAAAGATTTAAGTCTTATCTTCCTGAGGTAGCAAG
* * *
57965707 GAAGCAGACTGAGGACTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCGGATCAAAGATGGCAA
1 GAAGCAGACTGAAGACTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
* * * *
57965772 ATTTTATCTTCCCGAGGTAGCAGGGGAGCAAATTTTAGCCCCCAACCTTATCTCTCTAAGGTAAC
66 ATCTTATCTTCCCGAGATAGCAGGGGAGCAAATTTTAGCCACCAACCTTATCTCTCTAAGATAAC
*
57965837 AAGAGAGTAGGTTAAAGATTGT-AGTCTTATCTTCCTGAGGTAGCAAG
131 AAGAGAGCAGGTTAAAGATT-TAAGTCTTATCTTCCTGAGGTAGCAAG
* *
57965884 GAAGCAGACTGAATA-TGGTAGATCTTATCTCC
1 GAAGCAGACTGAAGACT-GTAGATCCTATCTCC
57965916 TTGAGGTTGC
Statistics
Matches: 182, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
176 1 0.01
177 180 0.99
178 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (177 bp):
GAAGCAGACTGAAGACTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAA
ATCTTATCTTCCCGAGATAGCAGGGGAGCAAATTTTAGCCACCAACCTTATCTCTCTAAGATAAC
AAGAGAGCAGGTTAAAGATTTAAGTCTTATCTTCCTGAGGTAGCAAG
Found at i:57976042 original size:18 final size:18
Alignment explanation
Indices: 57976019--57976065 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
57976009 TCATCTTTTA
*
57976019 TTTATTTTTATTTTTATC
1 TTTATTTTTATTTTTAAC
* *
57976037 TTTATTTATCTTTTTAAC
1 TTTATTTTTATTTTTAAC
57976055 -TTACTTTTTAT
1 TTTA-TTTTTAT
57976066 CCTATTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTATTTTTAAC
Found at i:57988759 original size:88 final size:88
Alignment explanation
Indices: 57988664--57988947 Score: 236
Period size: 88 Copynumber: 3.2 Consensus size: 88
57988654 ATGGCGAATC
* * *
57988664 TTATCTTCCCGAGATAGCGGGGGATCAGATTTTAGCCACCAATCTTATCTCTCTAAGGTAGTAAG
1 TTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAATCTTATCTCTCTAAGGTAGTAAG
57988729 AGAGCAGATTGAAGATTGATGTT
66 AGAGCAGATTGAAGATTGATGTT
* * * * * ** * *
57988752 TTATCTTCCTGAGGTAGCTA-GGAAGCAGA-CTGAG-GATTGTAGATCCTATCTCCCTAA-GTAG
1 TTATCTTCCCGAGGTAGC-AGGGGAGCAGATTTTAGCCA--CCA-ATCTTATCTCTCTAAGGTAG
** * * * **
57988813 TACTAGAGCGGATCGAAGATGGAAAATT
62 TAAGAGAGCAGATTGAAGATTG-ATGTT
* * * *
57988841 TTATCTTCCCGAGGTAGCAGGGGAGAAAATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAG
1 TTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAATCTTATCTCTCTAAGGTAGTAAG
* * *
57988906 AGAGTAGGTTGAAGATTG-TAGTC
66 AGAGCAGATTGAAGATTGAT-GTT
*
57988929 TTATCTTCCTGAGGTAGCA
1 TTATCTTCCCGAGGTAGCA
57988948 ATGAAACAGA
Statistics
Matches: 143, Mismatches: 43, Indels: 20
0.69 0.21 0.10
Matches are distributed among these distances:
86 1 0.01
87 3 0.02
88 77 0.54
89 58 0.41
90 3 0.02
91 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (88 bp):
TTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAATCTTATCTCTCTAAGGTAGTAAG
AGAGCAGATTGAAGATTGATGTT
Found at i:57988852 original size:177 final size:177
Alignment explanation
Indices: 57988623--57988946 Score: 461
Period size: 177 Copynumber: 1.8 Consensus size: 177
57988613 GAAGATCTTG
* * * ** *
57988623 TCTCCCTAAGCAATAGTGGAGCAGATCGCAGATGGCGAATCTTATCTTCCCGAGATAGCGGGGGA
1 TCTCCCTAAGCAATACTAGAGCAGATCGAAGATGGAAAATCTTATCTTCCCGAGATAGCAGGGGA
** * * *
57988688 TCAGATTTTAGCCACCAATCTTATCTCTCTAAGGTAGTAAGAGAGCAGATTGAAGATTG-ATGTT
66 GAAAATTTTAGCCACCAATCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGATTGTA-GTC
57988752 TTATCTTCCTGAGGTAGCTAGGAAGCAGACTGAGGATTGTAGATCCTA
130 TTATCTTCCTGAGGTAGCTAGGAAGCAGACTGAGGATTGTAGATCCTA
* * * * *
57988800 TCTCCCTAAGTAGTACTAGAGCGGATCGAAGATGGAAAATTTTATCTTCCCGAGGTAGCAGGGGA
1 TCTCCCTAAGCAATACTAGAGCAGATCGAAGATGGAAAATCTTATCTTCCCGAGATAGCAGGGGA
* * *
57988865 GAAAATTTTAGCCACCAGTCTTATCTCTCTAAGGTAGCAAGAGAGTAGGTTGAAGATTGTAGTCT
66 GAAAATTTTAGCCACCAATCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGATTGTAGTCT
57988930 TATCTTCCTGAGGTAGC
131 TATCTTCCTGAGGTAGC
57988947 AATGAAACAG
Statistics
Matches: 127, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
177 126 0.99
178 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (177 bp):
TCTCCCTAAGCAATACTAGAGCAGATCGAAGATGGAAAATCTTATCTTCCCGAGATAGCAGGGGA
GAAAATTTTAGCCACCAATCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGATTGTAGTCT
TATCTTCCTGAGGTAGCTAGGAAGCAGACTGAGGATTGTAGATCCTA
Found at i:57989081 original size:41 final size:41
Alignment explanation
Indices: 57988972--57989084 Score: 154
Period size: 41 Copynumber: 2.8 Consensus size: 41
57988962 ATATGGTAGA
* * *
57988972 TCTTATCTCCTTGAAGTTGCAATGGAGCAGATCAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCAAG
* * * * *
57989013 CCTTATCTCCCTAAACTGGCAGTGGAGTAGATTAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCAAG
57989054 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
57989085 CTGAAGATTG
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCAAG
Found at i:57995651 original size:30 final size:30
Alignment explanation
Indices: 57995615--57995674 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
57995605 AAAAGACCGA
57995615 TAGTTTATATGGTTCTACT-TAGGTACATCC
1 TAGTTTATATGGTTCTACTCT-GGTACATCC
57995645 TAGTTTATATGGTTCTACTCTGGTACATCC
1 TAGTTTATATGGTTCTACTCTGGTACATCC
57995675 AGTGATGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (30 bp):
TAGTTTATATGGTTCTACTCTGGTACATCC
Found at i:57999095 original size:13 final size:13
Alignment explanation
Indices: 57999077--57999103 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57999067 TATGTTGCTA
57999077 CTTGCGATAAATG
1 CTTGCGATAAATG
57999090 CTTGCGATAAATG
1 CTTGCGATAAATG
57999103 C
1 C
57999104 CAACGGACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CTTGCGATAAATG
Found at i:58000602 original size:18 final size:18
Alignment explanation
Indices: 58000579--58000625 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
58000569 TCATCTTTTA
*
58000579 TTTATTTTTATTTTTATC
1 TTTATTTTTATTTTTAAC
* *
58000597 TTTATTTCTCTTTTTAAC
1 TTTATTTTTATTTTTAAC
58000615 -TTACTTTTTAT
1 TTTA-TTTTTAT
58000626 CATATTTCTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTATTTTTAAC
Found at i:58003033 original size:14 final size:14
Alignment explanation
Indices: 58003011--58003040 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58003001 GATAAATACT
*
58003011 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
58003025 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
58003039 TT
1 TT
58003041 CTTACTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:58011740 original size:52 final size:52
Alignment explanation
Indices: 58011642--58011740 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
58011632 GAAGGAAATA
** * * *
58011642 GGCCAAAGTGAAAACCCGCAAAGGGTGCTTTGTGATCTATTTAAAAAAAGGG
1 GGCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGATCTAATAAAAAAAAGGG
* *
58011694 GGCCAAGGTGAAAACCCGCAAATGGCACTTTGAGAAT-TAATAAAAAA
1 GGCCAAAGTGAAAACCCGCAAAGGGCACTTTGAG-ATCTAATAAAAAA
58011741 TAAAAAGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 37 0.95
53 2 0.05
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.19
Consensus pattern (52 bp):
GGCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGATCTAATAAAAAAAAGGG
Found at i:58013184 original size:44 final size:44
Alignment explanation
Indices: 58013101--58013184 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
58013091 AGCCACAAGC
**
58013101 CTTATCTCTCTGAGGTAGCAATAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTCTCTGAGGTAGCAATAGAGCAGACTGAAGATTGAAGT
* *
58013145 CTTATCT-TCCTGAGGTAGCAA-GGATGCAGACTGAGGATTG
1 CTTATCTCT-CTGAGGTAGCAATAGA-GCAGACTGAAGATTG
58013185 TAGATCCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAATAGAGCAGACTGAAGATTGAAGT
Found at i:58013260 original size:177 final size:177
Alignment explanation
Indices: 58013003--58013530 Score: 786
Period size: 177 Copynumber: 3.0 Consensus size: 177
58012993 TTAGATTGAA
* * * * * *
58013003 GATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAGATGGCAAATCTTATCTTCCC
1 GATTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCGGATCGAAGATGGCAAATTTTATCTTCCC
* * * * * * *
58013068 GAGATAGCGGGGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAGCAATAGAGCAGGTT
66 GAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGTAGGTT
* *
58013133 GAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGATGCAGACTGAG
131 GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAG
* *
58013180 GATTGTAGATCCTATCTCCCTAAGTAGCAGTGGAGCGGATCGAAGATGGCGAATTTTATCTTCCC
1 GATTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCGGATCGAAGATGGCAAATTTTATCTTCCC
* * * *
58013245 AAGGTAGCAGGGGAGCAAATCTTAGCCACCAGCCTTATCTCTCTCAGGTAGCAAGAGAGTAGATT
66 GAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGTAGGTT
*
58013310 AAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAG
131 GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAG
* *
58013357 GATTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCGGATCAAAGATGACAAATTTTATCTTCCC
1 GATTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCGGATCGAAGATGGCAAATTTTATCTTCCC
* * * *
58013422 GGGGCAGCAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGTAAGTT
66 GAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGTAGGTT
* *
58013487 GAAGATTGTAGTCTTATCCTCCTGAGGTAGCAATGAAGCAGACT
131 GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT
58013531 CAATATGGTA
Statistics
Matches: 315, Mismatches: 36, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 315 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (177 bp):
GATTGTAGATCCTATCTCCCTAAGTAGTAGTGGAGCGGATCGAAGATGGCAAATTTTATCTTCCC
GAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGTAGGTT
GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAG
Found at i:58013553 original size:44 final size:44
Alignment explanation
Indices: 58013494--58013577 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
58013484 GTTGAAGATT
58013494 GTAGTCTTATCCTCC-TGAGGTAGCAATGAAGCAGACTCAATATG
1 GTAGTCTTATCCTCCTTGAGGTAGCAATGAAGCAGA-TCAATATG
* *
58013538 GTAGATCTTAT-CTCCTTGAGGTTGCAATGGAGCAGATCAA
1 GTAG-TCTTATCCTCCTTGAGGTAGCAATGAAGCAGATCAA
58013578 AGCAAGTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
44 12 0.33
45 24 0.67
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
GTAGTCTTATCCTCCTTGAGGTAGCAATGAAGCAGATCAATATG
Found at i:58013653 original size:41 final size:41
Alignment explanation
Indices: 58013543--58013655 Score: 145
Period size: 41 Copynumber: 2.8 Consensus size: 41
58013533 ATATGGTAGA
* * * *
58013543 TCTTATCTCCTTGAGGTTGCAATGGAGCAGATCAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCAAG
* * *
58013584 TCTTATCTCCCTAAAGTGGCAGTGGAGTAGATTAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCAAG
* *
58013625 TCTTATCTCCCTGAAGTTGTAGTAGAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
58013656 CTGAAGATTG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCAAG
Found at i:58017981 original size:13 final size:13
Alignment explanation
Indices: 58017963--58018078 Score: 232
Period size: 13 Copynumber: 8.9 Consensus size: 13
58017953 AGTTCTTCAT
58017963 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58017976 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58017989 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58018002 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58018015 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58018028 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58018041 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58018054 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
58018067 TGCTTTTGAGAA
1 TGCTTTTGAGAA
58018079 TTTTGAGTGT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 103 1.00
ACGTcount: A:0.23, C:0.08, G:0.30, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:58026642 original size:24 final size:24
Alignment explanation
Indices: 58026610--58026661 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
58026600 TGATTTACTT
*
58026610 TTTTTTTAA-ATGTATTTAGTATA
1 TTTTTTTAAGATGTAGTTAGTATA
*
58026633 CTTTTTTTAAGGTGTAGTTAGTATA
1 -TTTTTTTAAGATGTAGTTAGTATA
58026658 TTTT
1 TTTT
58026662 CATAATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.25, C:0.02, G:0.13, T:0.60
Consensus pattern (24 bp):
TTTTTTTAAGATGTAGTTAGTATA
Found at i:58026661 original size:23 final size:23
Alignment explanation
Indices: 58026611--58026661 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
58026601 GATTTACTTT
*
58026611 TTTTTTAAATGTATTTAGTATAC
1 TTTTTTAAATGTAGTTAGTATAC
*
58026634 TTTTTTTAAGGTGTAGTTAGTATA-
1 -TTTTTTAA-ATGTAGTTAGTATAC
58026658 TTTT
1 TTTT
58026662 CATAATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 8 0.33
25 12 0.50
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (23 bp):
TTTTTTAAATGTAGTTAGTATAC
Found at i:58028763 original size:31 final size:30
Alignment explanation
Indices: 58028725--58028797 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
58028715 GATAATTTTA
* *
58028725 AGGGGAGGAGGATTGTCGTTAGGCAGCACCT
1 AGGGGAGGAGGA-TGTCGTCAGACAGCACCT
*
58028756 AGGGGAGGAGGGATGTTGTCAGACAGCACCT
1 AGGGGAGGA-GGATGTCGTCAGACAGCACCT
*
58028787 AAGGGAGGAGG
1 AGGGGAGGAGG
58028798 GCTGGGGAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.05
31 32 0.86
32 3 0.08
ACGTcount: A:0.26, C:0.14, G:0.45, T:0.15
Consensus pattern (30 bp):
AGGGGAGGAGGATGTCGTCAGACAGCACCT
Found at i:58043052 original size:20 final size:20
Alignment explanation
Indices: 58043027--58043066 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
58043017 TAATTTTAGG
58043027 ATTTATTT-TCATTTATCTTT
1 ATTTATTTAT-ATTTATCTTT
58043047 ATTTATTTATATTTATCTTT
1 ATTTATTTATATTTATCTTT
58043067 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTATTTATATTTATCTTT
Found at i:58043814 original size:17 final size:18
Alignment explanation
Indices: 58043782--58043815 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58043772 TTTTTTCCAT
58043782 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
58043800 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
58043816 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:58046858 original size:15 final size:17
Alignment explanation
Indices: 58046812--58046864 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
58046802 ACAACCTAAT
* *
58046812 TTTTATTTTTGTT-TTA
1 TTTTATTTATCTTATTA
58046828 TTTTATTTTATCTTATTA
1 TTTTA-TTTATCTTATTA
58046846 TTTTA-TTAT-TTATTA
1 TTTTATTTATCTTATTA
58046861 TTTT
1 TTTT
58046865 TAGATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 10 0.30
16 9 0.27
17 6 0.18
18 8 0.24
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTATTTATCTTATTA
Found at i:58048510 original size:10 final size:10
Alignment explanation
Indices: 58048495--58048544 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
58048485 TAATTTTAGG
58048495 ATTTAT-TTT
1 ATTTATCTTT
58048504 CATTTATCTTT
1 -ATTTATCTTT
*
58048515 AATTATCTTT
1 ATTTATCTTT
58048525 ATTTAT-TTGT
1 ATTTATCTT-T
58048535 ATTTATCTTT
1 ATTTATCTTT
58048545 TAGAGTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:58052352 original size:10 final size:10
Alignment explanation
Indices: 58052339--58052374 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
58052329 TAAGCTCGAT
58052339 TGAGCTCAAA
1 TGAGCTCAAA
*
58052349 TGAGCTGAAA
1 TGAGCTCAAA
*
58052359 CGAGCTCAAA
1 TGAGCTCAAA
58052369 TGAGCT
1 TGAGCT
58052375 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:58052383 original size:20 final size:20
Alignment explanation
Indices: 58052337--58052384 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
58052327 AGTAAGCTCG
58052337 ATTGAGCTCAAATGAGCTGA
1 ATTGAGCTCAAATGAGCTGA
**
58052357 AACGAGCTCAAATGAGCTGA
1 ATTGAGCTCAAATGAGCTGA
*
58052377 GTTGAGCT
1 ATTGAGCT
58052385 GGACGGAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (20 bp):
ATTGAGCTCAAATGAGCTGA
Found at i:58055296 original size:29 final size:31
Alignment explanation
Indices: 58055239--58055297 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
58055229 GGAGGTGAGA
*
58055239 TAGGAATGGAGTAAAAGTTTTAGGGGAAAAG
1 TAGGAATGGAATAAAAGTTTTAGGGGAAAAG
58055270 TAGG-ATGGAATAAAA-TTTT-GAGGGAAAA
1 TAGGAATGGAATAAAAGTTTTAG-GGGAAAA
58055298 TAAAAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 11 0.42
30 10 0.38
31 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (31 bp):
TAGGAATGGAATAAAAGTTTTAGGGGAAAAG
Found at i:58055717 original size:53 final size:54
Alignment explanation
Indices: 58055660--58055769 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
58055650 TTATGATTTT
* *
58055660 AAATATATTTGATTTATTATATTTTT-AATTTTTTTATTTAATGAAATAAGCAA
1 AAATATATTTGATTTATTATATTTTTAAAATTTTTTAGTTAATGAAATAAGCAA
58055713 AAATATATTTGATTTATTATATTTTTAAAATTTTTTAGTTAATGAAATAAGCAA
1 AAATATATTTGATTTATTATATTTTTAAAATTTTTTAGTTAATGAAATAAGCAA
58055767 AAA
1 AAA
58055770 AAAATTAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 26 0.48
54 28 0.52
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (54 bp):
AAATATATTTGATTTATTATATTTTTAAAATTTTTTAGTTAATGAAATAAGCAA
Found at i:58056474 original size:74 final size:74
Alignment explanation
Indices: 58056387--58056535 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
58056377 TTTCGCTATT
*
58056387 TCCAAGCAATTGTTTATTGAATTAATATAAAGATTTCCTCTTAATTCTTAAACTATATTACCATT
1 TCCAAGCAATTGTTTATTGAATTAATATAAAGATTGCCTCTTAATTCTTAAACTATATTACCATT
58056452 TAAACTTAA
66 TAAACTTAA
*
58056461 TCCAAGCAATTGTTTATTGAATTAATATAAAGATTGCCTCTTAATTCTTAAACTATATTACTATT
1 TCCAAGCAATTGTTTATTGAATTAATATAAAGATTGCCTCTTAATTCTTAAACTATATTACCATT
58056526 TAAACTTAA
66 TAAACTTAA
58056535 T
1 T
58056536 ATATTTTTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (74 bp):
TCCAAGCAATTGTTTATTGAATTAATATAAAGATTGCCTCTTAATTCTTAAACTATATTACCATT
TAAACTTAA
Found at i:58060167 original size:17 final size:17
Alignment explanation
Indices: 58060145--58060179 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58060135 TCGATGTAGT
58060145 GACATCAAACATGGGAC
1 GACATCAAACATGGGAC
58060162 GACATCAAACATGGGAC
1 GACATCAAACATGGGAC
58060179 G
1 G
58060180 CCACGATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (17 bp):
GACATCAAACATGGGAC
Found at i:58061252 original size:188 final size:189
Alignment explanation
Indices: 58060925--58061294 Score: 519
Period size: 188 Copynumber: 1.9 Consensus size: 189
58060915 ACTAAGACCA
* ** ** *
58060925 ATTCACAGTTTCAACATTCAACATTATGTCACAATTCAATCCAATCCTTTATCTCGATATCACTA
1 ATTCACAGTTTCAACATTCAACACTATCACACAATTCAATCCAATCCACTATCTCGATATCAATA
* * *
58060990 TCAATCACACCAATTCAATTCATACAATCATTAAATACTCACCTCAATATTCAATCGTGTAATTA
66 TCAATCACACCAATTCAATTCATACAATC---AAATACTCACCTCAACATTAAATCGTGCAATTA
*
58061055 ACTTGTATATACAAACAATTAAATTGATCCCAAATCATAAAAGTACAAACCGATGGCTTGAT
128 ACATGTATATACAAACAATTAAATTGATCCCAAATCATAAAAGTACAAACCGATGGCTTGAT
* * * *
58061117 ATTCACAGTTTCGACATTCAACACTGTCACACAATTCAATTCAATCCACTATCTTGATATTCAAT
1 ATTCACAGTTTCAACATTCAACACTATCACACAATTCAATCCAATCCACTATCTCGATA-TCAAT
* * *
58061182 ATCAATCACACCAGTTCAGTTCATACAA-C-CATACTCACCTCAACATTAAATCGTGCAATTAAC
65 ATCAATCACACCAATTCAATTCATACAATCAAATACTCACCTCAACATTAAATCGTGCAATTAAC
* *
58061245 ATGTATATGCAAACAATTAAATTGATTCCAAATCATAAAAGTACAAACCG
130 ATGTATATACAAACAATTAAATTGATCCCAAATCATAAAAGTACAAACCG
58061295 GGGTCTTGCG
Statistics
Matches: 158, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
188 77 0.49
192 51 0.32
193 30 0.19
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (189 bp):
ATTCACAGTTTCAACATTCAACACTATCACACAATTCAATCCAATCCACTATCTCGATATCAATA
TCAATCACACCAATTCAATTCATACAATCAAATACTCACCTCAACATTAAATCGTGCAATTAACA
TGTATATACAAACAATTAAATTGATCCCAAATCATAAAAGTACAAACCGATGGCTTGAT
Found at i:58062270 original size:14 final size:14
Alignment explanation
Indices: 58062251--58062308 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
58062241 GACATTTTGT
58062251 ATCTATGAATCCAC
1 ATCTATGAATCCAC
**
58062265 ATCTATGAATCCGT
1 ATCTATGAATCCAC
* *
58062279 ATCTATGAATTCGC
1 ATCTATGAATCCAC
*
58062293 ATCTATAAATCCAC
1 ATCTATGAATCCAC
58062307 AT
1 AT
58062309 TGATAAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (14 bp):
ATCTATGAATCCAC
Found at i:58062280 original size:28 final size:28
Alignment explanation
Indices: 58062249--58062304 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
58062239 GAGACATTTT
*
58062249 GTATCTATGAATCCACATCTATGAATCC
1 GTATCTATGAATCCACATCTATAAATCC
* *
58062277 GTATCTATGAATTCGCATCTATAAATCC
1 GTATCTATGAATCCACATCTATAAATCC
58062305 ACATTGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (28 bp):
GTATCTATGAATCCACATCTATAAATCC
Found at i:58062361 original size:14 final size:14
Alignment explanation
Indices: 58062311--58062362 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
58062301 ATCCACATTG
* *
58062311 ATAAATTTGCATGT
1 ATAAATCTGCGTGT
* *
58062325 ATAAATCCGCGTAT
1 ATAAATCTGCGTGT
*
58062339 ATAATTCTGCGTGT
1 ATAAATCTGCGTGT
58062353 ATAAATCTGC
1 ATAAATCTGC
58062363 ATCTATGAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
ATAAATCTGCGTGT
Found at i:58064043 original size:21 final size:21
Alignment explanation
Indices: 58064017--58064101 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
58064007 TGATCAGTAT
*
58064017 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
58064038 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
58064059 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
58064081 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
58064102 TTGGTAAAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 34 0.65
22 3 0.06
23 15 0.29
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:58064067 original size:23 final size:22
Alignment explanation
Indices: 58064015--58064089 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
58064005 CCTGATCAGT
** *
58064015 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
58064036 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
58064057 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
58064080 ATACGACACA
1 ATACGACACA
58064090 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:58064500 original size:15 final size:15
Alignment explanation
Indices: 58064472--58064529 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
58064462 TCATATATAT
*
58064472 TATATAATTTAATCAA
1 TATA-AATTCAATCAA
58064488 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
58064503 AATAATTTCAATCAA
1 TATAAATTCAATCAA
58064518 TATAAATTCAAT
1 TATAAATTCAAT
58064530 AAAACAGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:58064518 original size:30 final size:28
Alignment explanation
Indices: 58064475--58064533 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
58064465 TATATATTAT
58064475 ATAATTTAATCAATATAAATTCAATCAAA
1 ATAATTTAATCAATATAAATTCAAT-AAA
58064504 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAATTT-AATCAATATAAATTCAATAAA
58064533 A
1 A
58064534 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATTTAATCAATATAAATTCAATAAA
Found at i:58064692 original size:2 final size:2
Alignment explanation
Indices: 58064685--58065470 Score: 1572
Period size: 2 Copynumber: 393.0 Consensus size: 2
58064675 ATATCTCATT
58064685 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58064727 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58064769 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58064811 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58064853 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58064895 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58064937 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58064979 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065021 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065063 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065105 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065147 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065189 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065231 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065273 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065315 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065357 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065399 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065441 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
58065471 TATATATATT
Statistics
Matches: 784, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 784 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:58069707 original size:17 final size:17
Alignment explanation
Indices: 58069685--58069719 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
58069675 ACTGTACATT
58069685 TCCATTGCCAGCATTCC
1 TCCATTGCCAGCATTCC
*
58069702 TCCATTGCCAGCCTTCC
1 TCCATTGCCAGCATTCC
58069719 T
1 T
58069720 GCCAATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.43, G:0.11, T:0.31
Consensus pattern (17 bp):
TCCATTGCCAGCATTCC
Found at i:58099233 original size:41 final size:41
Alignment explanation
Indices: 58099171--58099248 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
58099161 CACAAAGCAA
58099171 TACATAGAGAGTCTCCCGTTGAACACTTCGGATCAATGTAG
1 TACATAGAGAGTCTCCCGTTGAACACTTCGGATCAATGTAG
**
58099212 TACATAGTA-AGTCTCTTGTTGAACACTTCGGATCAAT
1 TACATAG-AGAGTCTCCCGTTGAACACTTCGGATCAAT
58099249 CCTCGATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (41 bp):
TACATAGAGAGTCTCCCGTTGAACACTTCGGATCAATGTAG
Found at i:58099519 original size:68 final size:65
Alignment explanation
Indices: 58099299--58099548 Score: 215
Period size: 68 Copynumber: 3.8 Consensus size: 65
58099289 ATATAGTTCG
* * * * *
58099299 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCTA-GTTTA-TCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGT
58099361 A
65 A
* * * * * *
58099362 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACACATGCGACCTAGCTACATATATCCT-
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCTC
58099426 GTA
63 GTA
* *
58099429 GCTCTCTTATCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
58099494 GTA
63 GTA
* * ** *
58099497 GCTCTCTTGTAC-ACATGATGTACAC-TCAGCACCATACATGTGACCTAGCTAC
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTAC
58099549 TTATCATCTG
Statistics
Matches: 150, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 28 0.19
65 2 0.01
66 26 0.17
67 28 0.19
68 46 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
Found at i:58107635 original size:34 final size:33
Alignment explanation
Indices: 58107597--58107669 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
58107587 TCAGTGGAAA
*
58107597 TATCAATGTGGGCCTTAGCCC-ATTATAGTAACAG
1 TATCAATGTGGGCCTTAGCCCAATT-CAGT-ACAG
*
58107631 TATCAGTGTGGGCCTTAGCCCAATTCAGTACAG
1 TATCAATGTGGGCCTTAGCCCAATTCAGTACAG
58107664 TATCAA
1 TATCAA
58107670 AAATGCATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 9 0.26
34 23 0.66
35 3 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (33 bp):
TATCAATGTGGGCCTTAGCCCAATTCAGTACAG
Found at i:58108637 original size:26 final size:26
Alignment explanation
Indices: 58108601--58108652 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
58108591 ATGATGGCCA
58108601 CCAAACACATGACGCGAGACTAACAT
1 CCAAACACATGACGCGAGACTAACAT
58108627 CCAAACACATGACGCGAGACTAACAT
1 CCAAACACATGACGCGAGACTAACAT
58108653 ACAACTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.31, G:0.15, T:0.12
Consensus pattern (26 bp):
CCAAACACATGACGCGAGACTAACAT
Found at i:58109090 original size:26 final size:26
Alignment explanation
Indices: 58109060--58109112 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
58109050 GTCAAAGGAA
58109060 GGAGGAGAAAAGAAAAGATGAAAGAT
1 GGAGGAGAAAAGAAAAGATGAAAGAT
58109086 GGAGGAGAAAAGAAAAGATGAAAGAT
1 GGAGGAGAAAAGAAAAGATGAAAGAT
58109112 G
1 G
58109113 AAAGAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.36, T:0.08
Consensus pattern (26 bp):
GGAGGAGAAAAGAAAAGATGAAAGAT
Found at i:58116383 original size:260 final size:260
Alignment explanation
Indices: 58115922--58116433 Score: 819
Period size: 260 Copynumber: 2.0 Consensus size: 260
58115912 AATTGGGCTA
* *
58115922 CAGTATAACTCTTAGAGATCACGATACATCTTATTTCCACTGGGATGCATAAAATAAGGGCTACT
1 CAGTATAACTCTCAGAGATCACGATACATCTTATTTCCACCGGGATGCATAAAATAAGGGCTACT
*
58115987 ATACATTTCCTGTAATATGGATTGCCTCAACCCAGCATTATTAGGCACAAAAACCTAACCTCTGA
66 ATACACTTCCTGTAATATGGATTGCCTCAACCCAGCATTATTAGGCACAAAAACCTAACCTCTGA
* * * * *
58116052 AACATAGAACACCCTTACTATTTAGCCCAAAATCAGAATTCCTATCCTCTTAAACCTTTTAAAAT
131 AACACAAAACACCCTTACTATTTAGCCCAAAATCAGAAGTCCTACCCTCTTAAACCTCTTAAAAT
* *
58116117 CGAAGAATCAAAA-AATCATCCATTATCTGCTTATCTTGAATATGATCAATCCAAGTCTAAGCCA
196 CGAAGAAT-AAAATAATCATCCACTATCTGCTTATCTCGAATATGATCAATCCAAGTCTAAGCCA
58116181 C
260 C
** *
58116182 CAGTATAACTCTCAGAGATCTTGATACATCTTATTTCCACCGGGATGCATAACATAAGGGCTACT
1 CAGTATAACTCTCAGAGATCACGATACATCTTATTTCCACCGGGATGCATAAAATAAGGGCTACT
* * * * *
58116247 ATGCACTTCCTGTAATATGGATTGCCTCAACTCAGTATTATTAGGCACAAAAACTTGACCTCTGA
66 ATACACTTCCTGTAATATGGATTGCCTCAACCCAGCATTATTAGGCACAAAAACCTAACCTCTGA
*
58116312 AACACAAAACACCCTTACTATTTAGCCCAAAATCAGAAGTCCTACCCTCTTCAACCTCTTAAAAT
131 AACACAAAACACCCTTACTATTTAGCCCAAAATCAGAAGTCCTACCCTCTTAAACCTCTTAAAAT
* *
58116377 CGAAGAATAAAATAATCATCCACTATTTGCTTATCTCGAATCTGATCAATCCAAGTC
196 CGAAGAATAAAATAATCATCCACTATCTGCTTATCTCGAATATGATCAATCCAAGTC
58116434 GGCTTGACTT
Statistics
Matches: 230, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
259 4 0.02
260 226 0.98
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (260 bp):
CAGTATAACTCTCAGAGATCACGATACATCTTATTTCCACCGGGATGCATAAAATAAGGGCTACT
ATACACTTCCTGTAATATGGATTGCCTCAACCCAGCATTATTAGGCACAAAAACCTAACCTCTGA
AACACAAAACACCCTTACTATTTAGCCCAAAATCAGAAGTCCTACCCTCTTAAACCTCTTAAAAT
CGAAGAATAAAATAATCATCCACTATCTGCTTATCTCGAATATGATCAATCCAAGTCTAAGCCAC
Found at i:58137476 original size:9 final size:9
Alignment explanation
Indices: 58137462--58137486 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
58137452 AACTAACTAC
58137462 AAGAACACT
1 AAGAACACT
58137471 AAGAACACT
1 AAGAACACT
58137480 AAGAACA
1 AAGAACA
58137487 ACAGGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.20, G:0.12, T:0.08
Consensus pattern (9 bp):
AAGAACACT
Found at i:58138791 original size:27 final size:27
Alignment explanation
Indices: 58138761--58138817 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
58138751 TTGAACTCTA
**
58138761 TTTTACATCAATAAAATTAACACAACT
1 TTTTACAAAAATAAAATTAACACAACT
**
58138788 TTTTTTAAAAATAAAATTAACACAACT
1 TTTTACAAAAATAAAATTAACACAACT
58138815 TTT
1 TTT
58138818 GTTTTCCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (27 bp):
TTTTACAAAAATAAAATTAACACAACT
Found at i:58143686 original size:20 final size:20
Alignment explanation
Indices: 58143658--58143699 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
58143648 GGGACGGGGG
*
58143658 TTCGGAAACAAACTCTGGCA
1 TTCGAAAACAAACTCTGGCA
58143678 TTCGAAAACAAACTCTGGCA
1 TTCGAAAACAAACTCTGGCA
58143698 TT
1 TT
58143700 GAAGTAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
TTCGAAAACAAACTCTGGCA
Found at i:58147728 original size:3 final size:3
Alignment explanation
Indices: 58147720--58147745 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58147710 TAAACTAAAC
58147720 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
58147746 CAAAACATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:58148518 original size:29 final size:30
Alignment explanation
Indices: 58148493--58148553 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
58148483 GTATTTTCGT
*
58148493 AAAATC-GA-CTAGTCCCGT-AATTTTTTG
1 AAAATCTGACCTAATCCCGTAAATTTTTTG
* *
58148520 AAAATCTGACCTAATCCGGTAAATTTTTTA
1 AAAATCTGACCTAATCCCGTAAATTTTTTG
58148550 AAAA
1 AAAA
58148554 ATTTATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.21
28 2 0.07
29 8 0.29
30 12 0.43
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (30 bp):
AAAATCTGACCTAATCCCGTAAATTTTTTG
Found at i:58150441 original size:29 final size:28
Alignment explanation
Indices: 58150382--58150453 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
58150372 ACAAATAATT
*
58150382 AAAAAAATAAAAAAATTCTAAATTTTGA
1 AAAAAAATAAAAATATTCTAAATTTTGA
58150410 AAAAAAATAAAAATATT-TAAAATTTTGA
1 AAAAAAATAAAAATATTCT-AAATTTTGA
58150438 AAAAAAATGAAAAATA
1 AAAAAAAT-AAAAATA
58150454 AAAATAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 1 0.02
28 33 0.80
29 7 0.17
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAAAAATAAAAATATTCTAAATTTTGA
Found at i:58150975 original size:16 final size:18
Alignment explanation
Indices: 58150956--58150988 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
58150946 CATACAAATT
58150956 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
58150972 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
58150989 GTTACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:58151629 original size:43 final size:43
Alignment explanation
Indices: 58151573--58151665 Score: 168
Period size: 43 Copynumber: 2.2 Consensus size: 43
58151563 ATTACTGCTA
* *
58151573 CTAGGCTCGAAGCCCGATATTAACTCACCGGTATTATAGCCTG
1 CTAGGCTCAAAGCCCGATATTAACTCACCGGCATTATAGCCTG
58151616 CTAGGCTCAAAGCCCGATATTAACTCACCGGCATTATAGCCTG
1 CTAGGCTCAAAGCCCGATATTAACTCACCGGCATTATAGCCTG
58151659 CTAGGCT
1 CTAGGCT
58151666 TGAAGGCCCG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
CTAGGCTCAAAGCCCGATATTAACTCACCGGCATTATAGCCTG
Found at i:58159280 original size:26 final size:27
Alignment explanation
Indices: 58159229--58159281 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58159219 AATTATAAAA
* *
58159229 TTAATTAAAATTAAATATTTTAATAAT
1 TTAAGTAAAAATAAATATTTTAATAAT
*
58159256 TTAAGTAAAAATAATTATTTT-ATAAT
1 TTAAGTAAAAATAAATATTTTAATAAT
58159282 AATTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAAGTAAAAATAAATATTTTAATAAT
Found at i:58162244 original size:40 final size:39
Alignment explanation
Indices: 58162111--58162254 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
58162101 TCGGTTGATA
*
58162111 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* *
58162150 ACCGGGCTAAGTCCTGAAGGCATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* *
58162189 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
58162228 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
58162255 AGCTAGTGGC
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 71 0.73
40 26 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
Found at i:58162285 original size:79 final size:78
Alignment explanation
Indices: 58162111--58162287 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 78
58162101 TCGGTTGATA
* * * *
58162111 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATACCGGGCTAAGTCCTGAAGGCATTTA
1 ACCGGGCTAACTCCCGAAGGCATTCGTGCGAGTCACTATACCGGGCTAAGTCCCGAAGGCATTTA
* *
58162176 TGCGAGTTATTAT
66 TGCGAGTGACTAT
* *
58162189 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAACTCCCGAAGGCATTCGTGCGAGTCACTAT-ACCGGGCTAAGTCCCGAAGGCATTT
* *
58162254 GA-GCTAGTGGCTAT
65 -ATGCGAGTGACTAT
58162268 ATCC-GGCTAAACT-CCGAAGG
1 A-CCGGGCT-AACTCCCGAAGG
58162288 TACTGGTTTG
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.42
79 44 0.51
80 6 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (78 bp):
ACCGGGCTAACTCCCGAAGGCATTCGTGCGAGTCACTATACCGGGCTAAGTCCCGAAGGCATTTA
TGCGAGTGACTAT
Found at i:58162287 original size:39 final size:40
Alignment explanation
Indices: 58162108--58162287 Score: 163
Period size: 39 Copynumber: 4.6 Consensus size: 40
58162098 TATTCGGTTG
* * * * *
58162108 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
* * * *
58162148 AT-ACCGGGCTAAGTCCTGAAGGCATTT-ATGCGAGTTATT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGA-GCGAGTCACT
* *
58162187 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
* * **
58162226 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
*
58162266 ATATCC-GGCTAAACT-CCGAAGG
1 ATAACCGGGCT-AACTCCCGAAGG
58162288 TACTGGTTTG
Statistics
Matches: 123, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 80 0.65
40 43 0.35
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
Found at i:58168834 original size:22 final size:22
Alignment explanation
Indices: 58168809--58168862 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
58168799 AGTTAGTAAT
58168809 AAAGAAATG-GAAAAAAAAAGA
1 AAAGAAATGAGAAAAAAAAAGA
*
58168830 GAAAGAAAATGATGAAAACAAAAGA
1 -AAAG-AAATGA-GAAAAAAAAAGA
58168855 AAA-AAATG
1 AAAGAAATG
58168863 TGTCCATCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.32
23 5 0.18
24 3 0.11
25 11 0.39
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (22 bp):
AAAGAAATGAGAAAAAAAAAGA
Found at i:58170230 original size:40 final size:39
Alignment explanation
Indices: 58170097--58170240 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
58170087 TCGGTTGATA
* *
58170097 ACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* *
58170136 ACCGGGCTAAGTCCCGAAGGAATTTATGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
* *
58170175 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
58170214 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
58170241 AGCTAGTGGC
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 70 0.73
40 26 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT
Found at i:58171992 original size:42 final size:42
Alignment explanation
Indices: 58171902--58172003 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
58171892 GAAATGGACA
* *
58171902 TGCTCACACGTGCTGTGGGTCGGAATATAAGCTACGTGAAGC
1 TGCTCACACGAGCTATGGGTCGGAATATAAGCTACGTGAAGC
* * * **
58171944 TACTCACACGAGTTATGGGTCGGAATGTAAGCTACAG-GCTGC
1 TGCTCACACGAGCTATGGGTCGGAATATAAGCTAC-GTGAAGC
*
58171986 TGCTCACAAGAGCTATGG
1 TGCTCACACGAGCTATGG
58172004 ATATCCACAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (42 bp):
TGCTCACACGAGCTATGGGTCGGAATATAAGCTACGTGAAGC
Found at i:58174447 original size:53 final size:53
Alignment explanation
Indices: 58174349--58174453 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
58174339 ATAAACTACT
* ** *
58174349 ATAAGGCAAAGATCCCATGTAAGACCATGCCAACGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCATGTAAGACCATGCCAACGCATGAAAATGGTAAGTTC
* * **
58174402 ATAAGGTAAGGATACCATGTAAGACCATTTCAA-GACATGAAAATGGTAAGTT
1 ATAAGGCAAAGATACCATGTAAGACCATGCCAACG-CATGAAAATGGTAAGTT
58174454 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.02
53 42 0.98
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
ATAAGGCAAAGATACCATGTAAGACCATGCCAACGCATGAAAATGGTAAGTTC
Found at i:58188175 original size:662 final size:662
Alignment explanation
Indices: 58186870--58188193 Score: 1890
Period size: 662 Copynumber: 2.0 Consensus size: 662
58186860 TAATTTCAAC
* *
58186870 GTATTTATTAATAATTCTCTCGAAAATTGTAGGCAATTAAGAAGGCAAATTCTGAAACATTTGAC
1 GTATTTATTAATAATTCTCTCGAAAATTGTAGGCAATTAAGAAGGCAAATTCTGAAACACTTAAC
* *
58186935 ACTTGTTAAATTATACTATGTAAGTTAGGTTATATACATGTGAGAAATGAGTTCTGATGGGGTTC
66 ACTTGTTAAATTACACTATGTAAGTTAAGTTATATACATGTGAGAAATGAGTTCTGATGGGGTTC
* *
58187000 TTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAAGTCTAAATGTATCCT
131 TTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAAGCCTAAATATATCCT
* * * * *
58187065 ACATTGATGATCTAGAGGCCATGGTTCTTTTATGATTATTAGTTACTTCGCATCAGACTAAGTAT
196 ACATCGATGAGCTAAAGGCAATGGTTCTTTTATGATTAATAGTTACTTCGCATCAGACTAAGTAT
** * * * * * *
58187130 TTTGGCTCTGCATGTTAAATAATGAATAAGAAAATCTGTATTTGGTAATTTGACAGTGAAATTGT
261 TTCAGCTCTGCATATTAAATAATGAATAAGAAAATCTATATTTCGTAATTGGACAGCGAAACTGT
* * * *
58187195 AAGTATAGGGTTTTTGCACAGGATTGTCACCACTGAAATGATAAGTAATTTGTATGTACAAAAGT
326 AAGAATAAGGTTTCTGCACAGGATTGTCACCACTGAAATGATAAGTAATATGTATGTACAAAAGT
* * *
58187260 ATTAATGGTGAAATTATGTTTCTAAGCTGTTGTTGCTATTGATTCGTAATGGATATCTGGATCTG
391 ATTAATGGTGAAATTATGTTTCTAAGCTATGGTTGCTATTGATTCGTAATGGATATCTGGATCTA
* * * * *
58187325 GAGTTTTGAACTATAGTAGGTGAGAATCAGGTGAATTCCTTTGCTAACTCATCTAGTATATTGTT
456 GAGCTTTGAACTATAGTAGGTAAAAATCAGGTGAATTCCTATGCTAACTCATCAAGTATATTGTT
* * *
58187390 TATACTGAAGCACATCTGTAGGAAAATTGATTAAACTATGAATCAGAAACCATGAAAAGTATAGT
521 TATACTGAAGCACATCTGTAGGAAAATCGATCAAACTATGAACCAGAAACCATGAAAAGTATAGT
* * * *
58187455 ATGAAAATGATATGTATGTGACTACATGAATGATGTCTAAAGAAAATTTATGAGTGTATGAATGT
586 ATGAAAATAATATATATGTGACTACATGAATAATGTCTAAAGAAAATCTATGAGTGTATGAATGT
58187520 TTGTTGAGGATA
651 TTGTTGAGGATA
* * *
58187532 GTATTTATTAATAATTCTCTC-AGAAATTGTAGGCCATTAAGAAGGTAAGTTCTGAAACACTTAA
1 GTATTTATTAATAATTCTCTCGA-AAATTGTAGGCAATTAAGAAGGCAAATTCTGAAACACTTAA
* * * *
58187596 CACTTGTTAAATTACATTATGTAAGTTAAGTTATATATATGTGGGAGATGAGTTCTGA-GGGGTT
65 CACTTGTTAAATTACACTATGTAAGTTAAGTTATATACATGTGAGAAATGAGTTCTGATGGGG-T
* * * *
58187660 TCTTGTTTCTTTTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAAGCCTAACTATATT
129 TCTTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAAGCCTAAATATATC
58187725 CTACATCGATGAGCTAAAGGCAATGGTTCTTTTATGATTAAT-GTTACTTCGCATCAGGA-T-AG
194 CTACATCGATGAGCTAAAGGCAATGGTTCTTTTATGATTAATAGTTACTTCGCATCA-GACTAAG
* * * * * * *
58187787 TTATTTCAGCTCTGTATATTAAGTACTGAATGAA-CAAATTTATATTTCGTAATTGGGCAGCGAG
258 -TATTTCAGCTCTGCATATTAAATAATGAAT-AAGAAAATCTATATTTCGTAATTGGACAGCGAA
* * * *
58187851 ACTGTAAGAATAAGGTTTCTGCA-TGGAATTGTCAACTATTGAAATGATAAGTAATATGTATGTC
321 ACTGTAAGAATAAGGTTTCTGCACAGG-ATTGTC-ACCACTGAAATGATAAGTAATATGTATGTA
* * * * * *
58187915 CAAGAGTATTAATGGTGAAATTATGTTTCTACGCTATGGTTGTTATTGGTTCGTTATGGATATTT
384 CAAAAGTATTAATGGTGAAATTATGTTTCTAAGCTATGGTTGCTATTGATTCGTAATGGATATCT
* *
58187980 GGATCTAGAGCTTTGAACTATAGTAGGTAAAAATCAGGTGAGTTCCTATGCTGACTCATGCAAGT
449 GGATCTAGAGCTTTGAACTATAGTAGGTAAAAATCAGGTGAATTCCTATGCTAACTCAT-CAAGT
*
58188045 ATATTGTTTATACTGAAGCACATCTGTAGGAAAATCGATCAAACTATGAACCCGAAACCATGAAA
513 ATATTGTTTATACTGAAGCACATCTGTAGGAAAATCGATCAAACTATGAACCAGAAACCATGAAA
*
58188110 AGTATAGTATGAAAATAATATATATGTGACTACATGAATAATTTCTAAAGAAAATCTAT-AGTGT
578 AGTATAGTATGAAAATAATATATATGTGACTACATGAATAATGTCTAAAGAAAATCTATGAGTGT
58188174 ATGAATGTTTGTTGAGGATA
643 ATGAATGTTTGTTGAGGATA
58188194 ATGTTTATGT
Statistics
Matches: 584, Mismatches: 70, Indels: 16
0.87 0.10 0.02
Matches are distributed among these distances:
660 4 0.01
661 91 0.16
662 370 0.63
663 119 0.20
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (662 bp):
GTATTTATTAATAATTCTCTCGAAAATTGTAGGCAATTAAGAAGGCAAATTCTGAAACACTTAAC
ACTTGTTAAATTACACTATGTAAGTTAAGTTATATACATGTGAGAAATGAGTTCTGATGGGGTTC
TTCTTTCTTCTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAAGCCTAAATATATCCT
ACATCGATGAGCTAAAGGCAATGGTTCTTTTATGATTAATAGTTACTTCGCATCAGACTAAGTAT
TTCAGCTCTGCATATTAAATAATGAATAAGAAAATCTATATTTCGTAATTGGACAGCGAAACTGT
AAGAATAAGGTTTCTGCACAGGATTGTCACCACTGAAATGATAAGTAATATGTATGTACAAAAGT
ATTAATGGTGAAATTATGTTTCTAAGCTATGGTTGCTATTGATTCGTAATGGATATCTGGATCTA
GAGCTTTGAACTATAGTAGGTAAAAATCAGGTGAATTCCTATGCTAACTCATCAAGTATATTGTT
TATACTGAAGCACATCTGTAGGAAAATCGATCAAACTATGAACCAGAAACCATGAAAAGTATAGT
ATGAAAATAATATATATGTGACTACATGAATAATGTCTAAAGAAAATCTATGAGTGTATGAATGT
TTGTTGAGGATA
Found at i:58188693 original size:26 final size:26
Alignment explanation
Indices: 58188611--58188683 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 26
58188601 AACACGACAA
* *
58188611 CTAAGAAATAGCCTTTGTGGCGAACT
1 CTAAAAAATAGCTTTTGTGGCGAACT
*
58188637 CTAAAAAAATAGCTTTTGTGGCAAACT
1 CT-AAAAAATAGCTTTTGTGGCGAACT
*
58188664 CTAAATAATAGCTTTTGTGG
1 CTAAAAAATAGCTTTTGTGG
58188684 TGTATTCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (26 bp):
CTAAAAAATAGCTTTTGTGGCGAACT
Found at i:58192277 original size:13 final size:13
Alignment explanation
Indices: 58192259--58192305 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
58192249 AGTTTGTTAG
58192259 ATATTTTTATATA
1 ATATTTTTATATA
*
58192272 ATATTTTTATAAA
1 ATATTTTTATATA
*
58192285 TATATTTTTACATA
1 -ATATTTTTATATA
58192299 AT-TTTTT
1 ATATTTTT
58192306 CACCTAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 5 0.17
13 14 0.47
14 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTTTATATA
Found at i:58192423 original size:25 final size:26
Alignment explanation
Indices: 58192380--58192429 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
58192370 ATTCAGATAG
58192380 AATATTATATAATATTTAAA-AAATT
1 AATATTATATAATATTTAAAGAAATT
*
58192405 AATATTATATTCATA-TTAAAGAAAT
1 AATATTATA-TAATATTTAAAGAAAT
58192430 AGTCTACTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
AATATTATATAATATTTAAAGAAATT
Found at i:58195598 original size:21 final size:22
Alignment explanation
Indices: 58195572--58195618 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
58195562 CTCTGCTCAA
*
58195572 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
58195593 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
58195615 ACTC
1 ACTC
58195619 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:58201295 original size:71 final size:70
Alignment explanation
Indices: 58201165--58201310 Score: 193
Period size: 71 Copynumber: 2.1 Consensus size: 70
58201155 AGTGTAAGGC
* * ** *
58201165 ACAACAATTATCGGTTTATCGACTAGCACTGGGTGCAAAACATCGTCGGTTTATTCGACCATTAT
1 ACAACAATTATCGGTTTATCAACTAGCACTGGGTGCAAAACATCATCGGTTTAACCGACCAGTAT
58201230 AGGGA
66 AGGGA
* * * *
58201235 ACAACAATTTTTGGTTTATTCAACTAGCACTGGGTGCAAAACATCATTGGTTTAACCGACCAGTG
1 ACAACAATTATCGGTTTA-TCAACTAGCACTGGGTGCAAAACATCATCGGTTTAACCGACCAGTA
*
58201300 TAGGGC
65 TAGGGA
58201306 ACAAC
1 ACAAC
58201311 TTTGTCAGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
70 16 0.25
71 49 0.75
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (70 bp):
ACAACAATTATCGGTTTATCAACTAGCACTGGGTGCAAAACATCATCGGTTTAACCGACCAGTAT
AGGGA
Found at i:58205825 original size:94 final size:94
Alignment explanation
Indices: 58205654--58205834 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 94
58205644 AGAAATAGAT
* * * * *
58205654 TTGGCATCTCCATATTCGACAGAGAATAGATCGGAGACATAGCAGATCTGACCTTCGGATGTTTT
1 TTGGCATCTCCATATTCGACAGAGAACAAATCGAAGACATAGCAGATCTAACCTTCAGATGTTTT
58205719 CACATAGAAGCAGATCCAAGATAACAGAC
66 CACATAGAAGCAGATCCAAGATAACAGAC
* * * *
58205748 TTGGCATCTCTATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTAACCTTTAGATGTTTT
1 TTGGCATCTCCATATTCGACAGAGAACAAATCGAAGACATAGCAGATCTAACCTTCAGATGTTTT
**
58205813 TGCATCAG-AGCAGATCCAAGAT
66 CACAT-AGAAGCAGATCCAAGAT
58205835 GATTTGGCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
94 73 0.97
95 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (94 bp):
TTGGCATCTCCATATTCGACAGAGAACAAATCGAAGACATAGCAGATCTAACCTTCAGATGTTTT
CACATAGAAGCAGATCCAAGATAACAGAC
Found at i:58206214 original size:94 final size:94
Alignment explanation
Indices: 58206043--58206223 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 94
58206033 AGAAATAGAT
* * * * *
58206043 TTGGCATCTCCATATTCGACGGAGAATAGATCGGAGACATAGCAGATCTGACCTTCGGATGTTTT
1 TTGGCATCTCCATATTCGACGGAGAACAAATCGAAGACATAGCAGATCTAACCTTCAGATGTTTT
58206108 CACATAGAAGCAGATCCAAGATAACAGAC
66 CACATAGAAGCAGATCCAAGATAACAGAC
* * *
58206137 TTGGCATCTCTATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTAACCTTTAGATGTTTT
1 TTGGCATCTCCATATTCGACGGAGAACAAATCGAAGACATAGCAGATCTAACCTTCAGATGTTTT
**
58206202 TGCATCAG-AGCAGATCCAAGAT
66 CACAT-AGAAGCAGATCCAAGAT
58206224 GATTTGGCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 74 0.97
95 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (94 bp):
TTGGCATCTCCATATTCGACGGAGAACAAATCGAAGACATAGCAGATCTAACCTTCAGATGTTTT
CACATAGAAGCAGATCCAAGATAACAGAC
Found at i:58206340 original size:389 final size:389
Alignment explanation
Indices: 58205623--58206400 Score: 1547
Period size: 389 Copynumber: 2.0 Consensus size: 389
58205613 GGCATCTCTG
58205623 TATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACAGAGAATAGATCGG
1 TATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACAGAGAATAGATCGG
58205688 AGACATAGCAGATCTGACCTTCGGATGTTTTCACATAGAAGCAGATCCAAGATAACAGACTTGGC
66 AGACATAGCAGATCTGACCTTCGGATGTTTTCACATAGAAGCAGATCCAAGATAACAGACTTGGC
58205753 ATCTCTATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTAACCTTTAGATGTTTTTGCAT
131 ATCTCTATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTAACCTTTAGATGTTTTTGCAT
58205818 CAGAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAAATCGAAGATAATAGATT
196 CAGAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAAATCGAAGATAATAGATT
58205883 TTCCGTCTCTATATTGTCATTGAGTAGATCAAAGATAACGGATTTGGCATCTTTTGATTGTCAGG
261 TTCCGTCTCTATATTGTCATTGAGTAGATCAAAGATAACGGATTTGGCATCTTTTGATTGTCAGG
58205948 GAATAAAGCGAAGAAGCAAAATTGGCGTCTTTGTGTTCGACGGAGAGCATATCGAAATATCAGT
326 GAATAAAGCGAAGAAGCAAAATTGGCGTCTTTGTGTTCGACGGAGAGCATATCGAAATATCAGT
*
58206012 TATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAATAGATCGG
1 TATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACAGAGAATAGATCGG
58206077 AGACATAGCAGATCTGACCTTCGGATGTTTTCACATAGAAGCAGATCCAAGATAACAGACTTGGC
66 AGACATAGCAGATCTGACCTTCGGATGTTTTCACATAGAAGCAGATCCAAGATAACAGACTTGGC
58206142 ATCTCTATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTAACCTTTAGATGTTTTTGCAT
131 ATCTCTATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTAACCTTTAGATGTTTTTGCAT
58206207 CAGAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAAATCGAAGATAATAGATT
196 CAGAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAAATCGAAGATAATAGATT
58206272 TTCCGTCTCTATATTGTCATTGAGTAGATCAAAGATAACGGATTTGGCATCTTTTGATTGTCAGG
261 TTCCGTCTCTATATTGTCATTGAGTAGATCAAAGATAACGGATTTGGCATCTTTTGATTGTCAGG
58206337 GAATAAAGCGAAGAAGCAAAATTGGCGTCTTTGTGTTCGACGGAGAGCATATCGAAATATCAGT
326 GAATAAAGCGAAGAAGCAAAATTGGCGTCTTTGTGTTCGACGGAGAGCATATCGAAATATCAGT
58206401 ATGACAATCT
Statistics
Matches: 388, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
389 388 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (389 bp):
TATTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACAGAGAATAGATCGG
AGACATAGCAGATCTGACCTTCGGATGTTTTCACATAGAAGCAGATCCAAGATAACAGACTTGGC
ATCTCTATATTCGACGGAGAGCAAATCGAAGACATAGCAGATCTAACCTTTAGATGTTTTTGCAT
CAGAGCAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGCAAATCGAAGATAATAGATT
TTCCGTCTCTATATTGTCATTGAGTAGATCAAAGATAACGGATTTGGCATCTTTTGATTGTCAGG
GAATAAAGCGAAGAAGCAAAATTGGCGTCTTTGTGTTCGACGGAGAGCATATCGAAATATCAGT
Found at i:58207885 original size:94 final size:94
Alignment explanation
Indices: 58207720--58207911 Score: 271
Period size: 94 Copynumber: 2.1 Consensus size: 94
58207710 GAACAAATCG
* * ** * * *
58207720 AAGA-AACAGATTTGGCATCTCCATATTCGACGGAGAGTAGATCAGAGACATAGCAGATCTGACC
1 AAGATAACAGACTTGGAATCTCCATATTCGACGGAGACCAAATCAGAAACATAGCAGATCTAACC
58207784 TTCGGATGTTTTCACATCGAAGCAGATCC
66 TTCGGATGTTTTCACATCGAAGCAGATCC
58207813 AAGATAACAGACTTGGAATCTCCATATTCGACGGAGACCAAATC-GAAAACATAGCAGATCTAAC
1 AAGATAACAGACTTGGAATCTCCATATTCGACGGAGACCAAATCAG-AAACATAGCAGATCTAAC
** *
58207877 CTTCGGATGTTTTTGCATCGGAGCAGATCC
65 CTTCGGATGTTTTCACATCGAAGCAGATCC
58207907 AAGAT
1 AAGAT
58207912 GATTTGGCAT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 5 0.06
94 82 0.94
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (94 bp):
AAGATAACAGACTTGGAATCTCCATATTCGACGGAGACCAAATCAGAAACATAGCAGATCTAACC
TTCGGATGTTTTCACATCGAAGCAGATCC
Found at i:58210061 original size:22 final size:20
Alignment explanation
Indices: 58210013--58210108 Score: 86
Period size: 22 Copynumber: 4.5 Consensus size: 20
58210003 TTTACTTCAA
* *
58210013 ATATTATTATTTATTTAGTAT
1 ATATTATTATTT-TATATTAT
58210034 ATATTATTATTTTATATTAT
1 ATATTATTATTTTATATTAT
*
58210054 ACTCATTATTATTTTATATTAA
1 A-T-ATTATTATTTTATATTAT
* *
58210076 AAATTA-TATGTTATATTTAT
1 ATATTATTATTTTATA-TTAT
58210096 ATACTTTATTATT
1 ATA--TTATTATT
58210109 AGATATTGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.13
20 16 0.26
21 13 0.21
22 21 0.34
23 3 0.05
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTATTATTTTATATTAT
Found at i:58217400 original size:6 final size:6
Alignment explanation
Indices: 58217377--58217437 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
58217367 AATTAAACAG
* * * * *
58217377 AAAAAT AATAAC AAAACT AAAACT AAAACT AAAAAT AAAAAT -AAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
58217424 -AAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAA
58217438 TGAACTCAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
5 10 0.21
6 38 0.79
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:58217404 original size:12 final size:12
Alignment explanation
Indices: 58217389--58217437 Score: 66
Period size: 11 Copynumber: 4.2 Consensus size: 12
58217379 AAATAATAAC
*
58217389 AAAACTAAAACT
1 AAAACTAAAAAT
58217401 AAAACTAAAAAT
1 AAAACTAAAAAT
*
58217413 AAAAAT-AAAAT
1 AAAACTAAAAAT
58217424 AAAA-TAAAAAT
1 AAAACTAAAAAT
58217435 AAA
1 AAA
58217438 TGAACTCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 1 0.03
11 17 0.50
12 16 0.47
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAACTAAAAAT
Found at i:58217424 original size:11 final size:11
Alignment explanation
Indices: 58217378--58217437 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
58217368 ATTAAACAGA
* *
58217378 AAAATAATAAC
1 AAAATAAAAAT
*
58217389 AAAACTAAAACT
1 AAAA-TAAAAAT
58217401 AAAACTAAAAAT
1 AAAA-TAAAAAT
58217413 AAAA-ATAAAAT
1 AAAATA-AAAAT
58217424 AAAATAAAAAT
1 AAAATAAAAAT
58217435 AAA
1 AAA
58217438 TGAACTCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
10 1 0.02
11 21 0.50
12 20 0.48
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:58219469 original size:51 final size:50
Alignment explanation
Indices: 58219394--58219500 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 50
58219384 GCTGTTGAGG
58219394 GAAGGGTGGGAAGATGAGGGAGAGGCA-AGAAAAGGATACGAAAGAAAGGA
1 GAAGGGTGGGAAGATGAGGGAGAGG-AGAGAAAAGGATACGAAAGAAAGGA
58219444 GAAGGGNTGGGAAGATGAGGGAGAGGAGAGAAAAGGATACGAAAGAAAGGA
1 GAAGGG-TGGGAAGATGAGGGAGAGGAGAGAAAAGGATACGAAAGAAAGGA
58219495 GAAGGG
1 GAAGGG
58219501 AAAGAGCGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
50 7 0.13
51 48 0.87
ACGTcount: A:0.45, C:0.03, G:0.46, T:0.06
Consensus pattern (50 bp):
GAAGGGTGGGAAGATGAGGGAGAGGAGAGAAAAGGATACGAAAGAAAGGA
Found at i:58220292 original size:24 final size:24
Alignment explanation
Indices: 58220260--58220305 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
58220250 GTCAAACTCT
* *
58220260 TTAATATGGGCTTACGAGGCCTCC
1 TTAATATGGGCCTACAAGGCCTCC
58220284 TTAATATGGGCCTACAAGGCCT
1 TTAATATGGGCCTACAAGGCCT
58220306 TAAACATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (24 bp):
TTAATATGGGCCTACAAGGCCTCC
Found at i:58226005 original size:16 final size:17
Alignment explanation
Indices: 58225981--58226014 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58225971 GAAAAGTTAG
*
58225981 TAAACACAAAT-TAAAA
1 TAAAAACAAATATAAAA
58225997 TAAAAACAAATATAAAA
1 TAAAAACAAATATAAAA
58226014 T
1 T
58226015 GCAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAAACAAATATAAAA
Found at i:58232728 original size:20 final size:20
Alignment explanation
Indices: 58232703--58232742 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
58232693 TGTCCACACA
58232703 GCCCGTGACACAGGCGTGTG
1 GCCCGTGACACAGGCGTGTG
*
58232723 GCCCGTGACACTGGCGTGTG
1 GCCCGTGACACAGGCGTGTG
58232743 TCCCTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.40, T:0.17
Consensus pattern (20 bp):
GCCCGTGACACAGGCGTGTG
Found at i:58235652 original size:30 final size:30
Alignment explanation
Indices: 58235597--58235661 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
58235587 TTAAATTTTA
58235597 TTATTAAAATAAAATTATAATATTAAATAAT
1 TTATTAAAATAAAATTATAATATT-AATAAT
* * * *
58235628 TTATTGAAAT-AATTTATTATATTAATAGT
1 TTATTAAAATAAAATTATAATATTAATAAT
58235657 TTATT
1 TTATT
58235662 TTTGATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.33
30 11 0.37
31 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TTATTAAAATAAAATTATAATATTAATAAT
Found at i:58235653 original size:13 final size:13
Alignment explanation
Indices: 58235617--58235645 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58235607 AAAATTATAA
58235617 TATT-AAATAATT
1 TATTGAAATAATT
58235629 TATTGAAATAATT
1 TATTGAAATAATT
58235642 TATT
1 TATT
58235646 ATATTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TATTGAAATAATT
Found at i:58240817 original size:20 final size:20
Alignment explanation
Indices: 58240792--58240846 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
58240782 TGTGGTTCAA
*
58240792 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
58240812 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
58240832 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
58240847 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:58241229 original size:45 final size:45
Alignment explanation
Indices: 58241179--58241372 Score: 280
Period size: 45 Copynumber: 4.3 Consensus size: 45
58241169 GAACGGCATG
*
58241179 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTTATGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
58241224 AAATTAAGGAAGCACTTGACCAACATCATGCATAGTTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * *
58241269 AATTTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAG
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
* * * *
58241314 AATTTAAGGAAGCATTTGGCCAACATCATGCATAATTTAAGGAAC
1 AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
*
58241359 AAATTGAGGAAGCA
1 AAATTAAGGAAGCA
58241373 CCATGGCCGA
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (45 bp):
AAATTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAC
Found at i:58254098 original size:27 final size:26
Alignment explanation
Indices: 58254045--58254106 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
58254035 TTAGCTCTTA
* *
58254045 TGAGCATCCTGATTAAAGGCTCTTTG
1 TGAGCTTCCTGATTAAAGGCTCCTTG
58254071 TGAGCTTCCT-ATTAAATTGGCTCCTTG
1 TGAGCTTCCTGATTAAA--GGCTCCTTG
58254098 TGAGCTTCC
1 TGAGCTTCC
58254107 CAAAAGTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 6 0.19
26 9 0.28
27 17 0.53
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
TGAGCTTCCTGATTAAAGGCTCCTTG
Found at i:58262007 original size:25 final size:25
Alignment explanation
Indices: 58261974--58262033 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 25
58261964 TAGCTCTTAT
58261974 GAGCGTTCCGATTA-AAGGCTCTTCGA
1 GAGC-TTCCG-TTACAAGGCTCTTCGA
* * *
58262000 GAGCTTCCCGTTACATGGCTCTTTGT
1 GAGCTT-CCGTTACAAGGCTCTTCGA
58262026 GAGCTTCC
1 GAGCTTCC
58262034 CCGATAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.32
Consensus pattern (25 bp):
GAGCTTCCGTTACAAGGCTCTTCGA
Found at i:58262873 original size:30 final size:30
Alignment explanation
Indices: 58262837--58262893 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
58262827 GCCGTATGAA
58262837 AAATTTTATTTTCAAAATTTATGTGCAAGC
1 AAATTTTATTTTCAAAATTTATGTGCAAGC
*
58262867 AAATTTTATTTTCGAAATTTATGTGCA
1 AAATTTTATTTTCAAAATTTATGTGCA
58262894 GTTTCACACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (30 bp):
AAATTTTATTTTCAAAATTTATGTGCAAGC
Found at i:58272158 original size:84 final size:84
Alignment explanation
Indices: 58272054--58272266 Score: 347
Period size: 84 Copynumber: 2.5 Consensus size: 84
58272044 CACCGGCAAT
* * *
58272054 AAGCCTGCTAGACCTTTAAGTTTGATATCATTCCACTGGCATTACGCCTGCTAGGCTCGAAGCCC
1 AAGCTTGCTAGACCTTTAAGTTTGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
58272119 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* * *
58272138 AAGCTTGCTAGACCTTTAAGTTCGATATCATTTCACCGGCAATACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTTTGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
58272203 GATAATATTCACCAGCTTA
66 GATAATATTCACCAGCTTA
* *
58272222 AAGCTTTCTAGACCTTTAAGTCTGAT-TCATTTCACCGGCATTACG
1 AAGCTTGCTAGACCTTTAAGTTTGATATCATTTCACCGGCATTACG
58272267 AAGTCCGATA
Statistics
Matches: 119, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
83 18 0.15
84 101 0.85
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTTTGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGAAGCCC
GATAATATTCACCAGCTTA
Found at i:58272174 original size:43 final size:42
Alignment explanation
Indices: 58272126--58272257 Score: 96
Period size: 42 Copynumber: 3.1 Consensus size: 42
58272116 CCCGATAATA
58272126 TTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTTCGATATCAT
1 TTCACCAGCTTAAAGCTTGCTAGACCTTTAAG-TCGATATCAT
* * * *** *
58272169 TTCACCGGC--AATACGCCTGCTAG-GCTCGGAGCCCGATA--AT
1 TTCACCAGCTTAA-A-GCTTGCTAGACCTTTAAG-TCGATATCAT
*
58272209 ATTCACCAGCTTAAAGCTTTCTAGACCTTTAAGTCTGAT-TCAT
1 -TTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTC-GATATCAT
58272252 TTCACC
1 TTCACC
58272258 GGCATTACGA
Statistics
Matches: 64, Mismatches: 16, Indels: 19
0.65 0.16 0.19
Matches are distributed among these distances:
40 2 0.03
41 18 0.28
42 24 0.38
43 20 0.31
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (42 bp):
TTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTCGATATCAT
Found at i:58272271 original size:28 final size:29
Alignment explanation
Indices: 58272239--58272293 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
58272229 CTAGACCTTT
*
58272239 AAGTCTGAT-TCATTTCACCGGCATTACG
1 AAGTCCGATATCATTTCACCGGCATTACG
*
58272267 AAGTCCGATATCATTTCATCGGCATTA
1 AAGTCCGATATCATTTCACCGGCATTA
58272294 TGCCTACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (29 bp):
AAGTCCGATATCATTTCACCGGCATTACG
Found at i:58272383 original size:43 final size:43
Alignment explanation
Indices: 58272266--58272387 Score: 108
Period size: 42 Copynumber: 2.9 Consensus size: 43
58272256 CCGGCATTAC
* * * * *
58272266 GAAGTCCGATATCATTTCATCGGCATTATGCCTACTA-AGCTT
1 GAAGTCCGATATCATTTCACCGGCATTAAGCTTGCTAGACCTT
* * *
58272308 GGAGCCCGATA--ATATTCACCAGC-TTAAAGCTTGCTAGACCTT
1 GAAGTCCGATATCAT-TTCACCGGCATT-AAGCTTGCTAGACCTT
* *
58272350 TAAGTCCGATATCATTTCACCGGCATTACGCTTGCTAG
1 GAAGTCCGATATCATTTCACCGGCATTAAGCTTGCTAG
58272388 GCTCAAAGCC
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
40 4 0.07
41 14 0.23
42 21 0.34
43 18 0.30
44 4 0.07
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (43 bp):
GAAGTCCGATATCATTTCACCGGCATTAAGCTTGCTAGACCTT
Found at i:58279182 original size:198 final size:199
Alignment explanation
Indices: 58278843--58279235 Score: 779
Period size: 198 Copynumber: 2.0 Consensus size: 199
58278833 AAAAAAAAAG
58278843 GTGTGTGTAGTGTTTGTTCCCCCCCATTGCCGTGAGCTCAAGAGAAGAAAGGAGAAAAGTTTGTG
1 GTGTGTGTAGTGTTTGTTCCCCCCCATTGCCGTGAGCTCAAGAGAAGAAAGGAGAAAAGTTTGTG
58278908 TTCATCCTTTCTCACCTCCATTCTAGCCTAAATTAGAAAGAAAAAAAAACAAAGAAAAAAATTTC
66 TTCATCCTTTCTCACCTCCATTCTAGCCTAAATTAGAAAGAAAAAAAAACAAAGAAAAAAATTTC
58278973 TCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAGATT
131 TCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAGATT
58279038 AAAT
196 AAAT
58279042 GTGTGTGTAGTGTTTGTT-CCCCCCATTGCCGTGAGCTCAAGAGAAGAAAGGAGAAAAGTTTGTG
1 GTGTGTGTAGTGTTTGTTCCCCCCCATTGCCGTGAGCTCAAGAGAAGAAAGGAGAAAAGTTTGTG
58279106 TTCATCCTTTCTCACCTCCATTCTAGCCTAAATTAGAAAGAAAAAAAAACAAAGAAAAAAATTTC
66 TTCATCCTTTCTCACCTCCATTCTAGCCTAAATTAGAAAGAAAAAAAAACAAAGAAAAAAATTTC
58279171 TCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAGATT
131 TCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAGATT
58279236 CGGCCATGCA
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
198 176 0.91
199 18 0.09
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (199 bp):
GTGTGTGTAGTGTTTGTTCCCCCCCATTGCCGTGAGCTCAAGAGAAGAAAGGAGAAAAGTTTGTG
TTCATCCTTTCTCACCTCCATTCTAGCCTAAATTAGAAAGAAAAAAAAACAAAGAAAAAAATTTC
TCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAGATT
AAAT
Found at i:58280335 original size:39 final size:40
Alignment explanation
Indices: 58280131--58280353 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
58280121 TTGAATGCTG
* * * * * *
58280131 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
58280171 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
58280211 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
58280251 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
58280291 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
58280330 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
58280354 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:58280373 original size:79 final size:80
Alignment explanation
Indices: 58280206--58280388 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
58280196 GTGCGAGATA
* * *
58280206 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
58280271 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
58280286 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
58280350 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
58280365 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
58280389 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:58288125 original size:40 final size:39
Alignment explanation
Indices: 58288094--58288303 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
58288084 GGACTAAGAT
* *
58288094 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
58288134 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
58288174 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
58288214 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
58288254 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
58288293 CCGAAGGCATT
1 CCGAAGGCATT
58288304 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:58288257 original size:120 final size:120
Alignment explanation
Indices: 58288041--58288303 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
58288031 TTGAATGCTG
* *
58288041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
58288105 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
58288161 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
58288224 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
58288280 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
58288304 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:58288323 original size:79 final size:80
Alignment explanation
Indices: 58288042--58288338 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
58288032 TGAATGCTGT
* ** * * * **
58288042 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
58288105 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
58288122 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
58288186 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
58288202 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
58288266 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
58288281 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
58288339 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:58293371 original size:22 final size:22
Alignment explanation
Indices: 58293346--58293429 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
58293336 CAAAGGACTA
*
58293346 AACAGAGAGCACTAAAGTGCTG
1 AACAGAGAGCACCAAAGTGCTG
* *
58293368 AACAGGGAGTACCAAAGAT--TG
1 AACAGAGAGCACCAAAG-TGCTG
* *
58293389 AACAAAGAGCACCAAAGTGCTA
1 AACAGAGAGCACCAAAGTGCTG
* *
58293411 AACAGAAAGCACAAAAGTG
1 AACAGAGAGCACCAAAGTG
58293430 TTAAACCCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
20 1 0.02
21 16 0.33
22 31 0.63
23 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.11
Consensus pattern (22 bp):
AACAGAGAGCACCAAAGTGCTG
Found at i:58293408 original size:43 final size:44
Alignment explanation
Indices: 58293330--58293415 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 44
58293320 GTGGATCAAT
* * *
58293330 GAGTACCAAAGGACTAAACAGAGAGCACTAAAGTGCTGAACAGG
1 GAGTACCAAAGGACTAAACAAAGAGCACCAAAGTGCTAAACAGG
* *
58293374 GAGTACCAAA-GATTGAACAAAGAGCACCAAAGTGCTAAACAG
1 GAGTACCAAAGGACTAAACAAAGAGCACCAAAGTGCTAAACAG
58293416 AAAGCACAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 27 0.73
44 10 0.27
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (44 bp):
GAGTACCAAAGGACTAAACAAAGAGCACCAAAGTGCTAAACAGG
Found at i:58298643 original size:9 final size:9
Alignment explanation
Indices: 58298629--58298661 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
58298619 TTACTCTCAA
58298629 TTATTTTAT
1 TTATTTTAT
58298638 TTA-TTTAT
1 TTATTTTAT
58298646 TTATTTTAT
1 TTATTTTAT
58298655 TTATTTT
1 TTATTTT
58298662 GAAACCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:58304504 original size:6 final size:6
Alignment explanation
Indices: 58304484--58304534 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
58304474 ATTTGTAATT
58304484 TTTTTC -TTTTC -TTTTC TTTTTAC TATTTTC TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTT-C T-TTTTC TTTTTC TTTTTC TTTTTC
58304531 TTTT
1 TTTT
58304535 ATAACATTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 15 0.37
6 18 0.44
7 4 0.10
8 4 0.10
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:58304514 original size:14 final size:12
Alignment explanation
Indices: 58304484--58304534 Score: 63
Period size: 11 Copynumber: 4.3 Consensus size: 12
58304474 ATTTGTAATT
58304484 TTTTTC-TTTTC
1 TTTTTCTTTTTC
58304495 -TTTTCTTTTTAC
1 TTTTTCTTTTT-C
58304507 TATTTTCTTTTTC
1 T-TTTTCTTTTTC
58304520 TTTTT-TTTTTC
1 TTTTTCTTTTTC
58304531 TTTT
1 TTTT
58304535 ATAACATTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.14
11 14 0.39
12 5 0.14
13 2 0.06
14 10 0.28
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTCTTTTTC
Found at i:58311148 original size:41 final size:41
Alignment explanation
Indices: 58311103--58311184 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
58311093 CCAGGAATGC
* *
58311103 CTCTTTTCATGCTTTAATGACAAACTTGTAGAAATTAAATA
1 CTCTTCTCATGCATTAATGACAAACTTGTAGAAATTAAATA
58311144 CTCTTCTCATGCATTAATGACAAACTTGTAGAAATTAAATA
1 CTCTTCTCATGCATTAATGACAAACTTGTAGAAATTAAATA
58311185 TAACTAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (41 bp):
CTCTTCTCATGCATTAATGACAAACTTGTAGAAATTAAATA
Found at i:58319244 original size:27 final size:28
Alignment explanation
Indices: 58319135--58319257 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
58319125 GAGATTGGCG
* * * *
58319135 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
58319164 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58319192 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
58319220 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
58319247 CTGAGTGTGCG
1 CTAAGTGTGCG
58319258 GACTTAATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.27
28 50 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:58319268 original size:27 final size:27
Alignment explanation
Indices: 58319160--58319271 Score: 145
Period size: 28 Copynumber: 4.1 Consensus size: 27
58319150 TAAATTGTAC
*
58319160 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
58319188 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
58319216 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
58319243 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
58319270 AG
1 AG
58319272 TTTTGAATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
27 31 0.39
28 48 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:58328410 original size:40 final size:40
Alignment explanation
Indices: 58328355--58328658 Score: 391
Period size: 40 Copynumber: 7.7 Consensus size: 40
58328345 CTAACGGGGT
*
58328355 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
*
58328395 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* *
58328435 TAAGTCCCGAAGGCTTTTGTGCGAGTTACAAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* *
58328475 TAAGTCTCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* * * *
58328515 TAAATCTCGAAGGCTTTTGTGCGAGTTACAAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
* **
58328555 TAAGCCCCGAAGGCATTTGTGCGAGTTA-TTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAT-TCCGGGC
* * * *
58328595 TAAGTCCC-AAGGCATTTGTGCTAGTGAC-CATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACAAAT-TCCGGGC
* *
58328634 TAAGACCCGAAGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
58328659 GGTTATATCC
Statistics
Matches: 233, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 44 0.19
40 189 0.81
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCCGGGC
Found at i:58328653 original size:39 final size:39
Alignment explanation
Indices: 58328554--58328659 Score: 106
Period size: 39 Copynumber: 2.7 Consensus size: 39
58328544 AAATTTCGGG
* * * ** *
58328554 CTAAGCCCCGAAGGCATTTGTGCGAGTTATTATATCCGGG
1 CTAAGACCC-AAGGCACTTGTGCGAGTGACCATATCCGGA
* * *
58328594 CTAAGTCCCAAGGCATTTGTGCTAGTGACCATATCCGGA
1 CTAAGACCCAAGGCACTTGTGCGAGTGACCATATCCGGA
58328633 CTAAGACCCGAAGGC-CTTGTGCGAGTG
1 CTAAGACCC-AAGGCACTTGTGCGAGTG
58328660 GTTATATCCG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
39 43 0.77
40 13 0.23
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
CTAAGACCCAAGGCACTTGTGCGAGTGACCATATCCGGA
Found at i:58333136 original size:20 final size:20
Alignment explanation
Indices: 58333107--58333150 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
58333097 AGAGGAGATA
*
58333107 AATC-AACTGTAGGGTAAAG
1 AATCTAACTGTAAGGTAAAG
*
58333126 AATCTAACTGTAAGGTAAGG
1 AATCTAACTGTAAGGTAAAG
58333146 AATCT
1 AATCT
58333151 GTTTTAGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (20 bp):
AATCTAACTGTAAGGTAAAG
Found at i:58344017 original size:15 final size:15
Alignment explanation
Indices: 58343997--58344027 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58343987 TTTACTTTCC
58343997 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
58344012 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
58344027 A
1 A
58344028 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:58351134 original size:54 final size:54
Alignment explanation
Indices: 58351052--58351187 Score: 263
Period size: 54 Copynumber: 2.5 Consensus size: 54
58351042 AAGAGAATCT
58351052 AAGGTGAAAACCCGCAAAGGGCGCCTTGAAAAAAAAATCAAAAACGGAGAGGCC
1 AAGGTGAAAACCCGCAAAGGGCGCCTTGAAAAAAAAATCAAAAACGGAGAGGCC
58351106 AAGGTGAAAACCCGCAAAGGGCGCCTTGAAAAAAAAATCAAAAACGGAGAGGCC
1 AAGGTGAAAACCCGCAAAGGGCGCCTTGAAAAAAAAATCAAAAACGGAGAGGCC
*
58351160 AAGGTGAAAACCCGCAAAGGGCACCTTG
1 AAGGTGAAAACCCGCAAAGGGCGCCTTG
58351188 TGACCAAAAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.08
Consensus pattern (54 bp):
AAGGTGAAAACCCGCAAAGGGCGCCTTGAAAAAAAAATCAAAAACGGAGAGGCC
Found at i:58351289 original size:85 final size:85
Alignment explanation
Indices: 58351162--58351326 Score: 312
Period size: 85 Copynumber: 1.9 Consensus size: 85
58351152 GAGAGGCCAA
58351162 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
1 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
58351227 CTCAAATTTTGAAGATCACT
66 CTCAAATTTTGAAGATCACT
* *
58351247 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGGTTTTGAGTTGAAAACCTATAAGGGCAG
1 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
58351312 CTCAAATTTTGAAGA
66 CTCAAATTTTGAAGA
58351327 GTACACAGTG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (85 bp):
GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
CTCAAATTTTGAAGATCACT
Found at i:58360106 original size:205 final size:204
Alignment explanation
Indices: 58359726--58360119 Score: 657
Period size: 205 Copynumber: 1.9 Consensus size: 204
58359716 TAGGCCGCAG
*
58359726 CATAACAGATCTGGCCTACAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
1 CATAACAGATCTCGCCTACAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
*
58359791 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
66 TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
* * * * * *
58359856 AGATGATTTGTGGTCTTTGTATTGTCAGAGAACGAATCGAAGTTTGGTATCTTCACTTTGATGGA
131 AGATGATTTGTGATCCTAGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTTCACTTTGATGGA
58359921 GAGCAAACA
196 GAGCAAACA
* *
58359930 CATAGCAGATCTCGCCTTCAGATGATT-TCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAACAGATCTCGCCTACAGATG-TTAT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
58359994 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
64 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
58360059 TAAGATGATTTG-GCATCCTAGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTTCACTTT
129 TAAGATGATTTGTG-ATCCTAGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTTCACTTT
58360120 TTATGATGAA
Statistics
Matches: 177, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
204 23 0.13
205 154 0.87
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (204 bp):
CATAACAGATCTCGCCTACAGATGTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
AGATGATTTGTGATCCTAGTATTGTCAGAGAACAAATCAAAGTTTGGCATCTTCACTTTGATGGA
GAGCAAACA
Found at i:58360175 original size:78 final size:78
Alignment explanation
Indices: 58360046--58360197 Score: 252
Period size: 78 Copynumber: 1.9 Consensus size: 78
58360036 ACGTGATTAC
*
58360046 GATGAAGCAAATCTAAGATGATTTGGCATCCTAGTATTGTCAGAGAACAAATCAAAGTTTGGCAT
1 GATGAAGCAAATCTAAGATGATTTAGCATCCTAGTATTGTCAGAGAACAAATCAAAGTTTGGCAT
58360111 CTTCACTTTTTAT
66 CTTCACTTTTTAT
* * *
58360124 GATGAAGCAAATCTAAGATGATTTATCGTCTCT-GTATTGTCAGAGAACAAATCGAAGTTTGGCA
1 GATGAAGCAAATCTAAGATGATTTAGCATC-CTAGTATTGTCAGAGAACAAATCAAAGTTTGGCA
58360188 TCTTCACTTT
65 TCTTCACTTT
58360198 GATGGAGAGC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 67 0.97
79 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (78 bp):
GATGAAGCAAATCTAAGATGATTTAGCATCCTAGTATTGTCAGAGAACAAATCAAAGTTTGGCAT
CTTCACTTTTTAT
Done.