Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 107 of 316
Found at i:33513314 original size:177 final size:177
Alignment explanation
Indices: 33512919--33513673 Score: 1151
Period size: 177 Copynumber: 4.3 Consensus size: 177
33512909 TGTTTAGAGG
*
33512919 AGATCTGT-ATTTTCTAGCCTGTTACCCTACTGCTTAGGGAGTTAAGGCTCGTATCTTCAACCTG
1 AGATCTGTAATTTT-TAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAACCTG
* *
33512983 CTCTCTTACTACCTCAGAGAGATAAGGTCAGTGGCTAAAATCTTCTCCATAGCCGATACATGGAG
65 CTCTCTTACTACCTCAGAGAGATAAGGTCGGTGGCTAAAATCTACTCCATAGCCGATACATGGAG
* ** *
33513048 ATAAG-CTCGCCATCTTTGATCTGCTCCATAATCGATACATGAAGATA
130 ATAAGACTCGCCATCTTTGATCTACTCCATAGCCGATACATGGAGATA
* * *
33513095 AGATTTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTCGTATCTTCAACCTGC
1 AGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAACCTGC
* * * * *
33513160 TCTCTTGCTACCTTAGAGAGATAAGGTCGGTGGCTAAAATCTGCTCCATAGTCGATACATGGGGA
66 TCTCTTACTACCTCAGAGAGATAAGGTCGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGA
33513225 TAAGACTCGCCATCTTTGATCTGA-TCCATAGCCGATACATGGAGATA
131 TAAGACTCGCCATCTTTGATCT-ACTCCATAGCCGATACATGGAGATA
* *
33513272 AGATCTGTAATTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAATCTGC
1 AGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAACCTGC
** * * *
33513337 TCTCTTGTTATCTCAGAGAGATAAGGCCGGTGGCTTAAATCTACTCCATAGCCGATACATGGAGA
66 TCTCTTACTACCTCAGAGAGATAAGGTCGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGA
33513402 TAAGACTCGCCAT-TTTCGATCTACTCCATAGCCGATACATGGAGATA
131 TAAGACTCGCCATCTTT-GATCTACTCCATAGCCGATACATGGAGATA
* * *
33513449 AGATCTGTAATTTTCAGCCTGTTACCATACTGCTTAGGGGGTTAAGGCTCGTATCTTTAACCTGC
1 AGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAACCTGC
33513514 TCTCTTACTACCTCAGAGAGATAAGG-CTGGTGGCTAAAATCTACTCCATAGCCGATACATGGAG
66 TCTCTTACTACCTCAGAGAGATAAGGTC-GGTGGCTAAAATCTACTCCATAGCCGATACATGGAG
* * * *
33513578 ATAAGACTCGCCATTTTTTATCTACTCTATAGTCGATACATGGAGATA
130 ATAAGACTCGCCATCTTTGATCTACTCCATAGCCGATACATGGAGATA
* * *
33513626 AGATCTGTAATTTTTAGTCTGTTACCCTACTGTTTAAGGGGTTAAGGC
1 AGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
33513674 ACGTGACTTC
Statistics
Matches: 528, Mismatches: 44, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
176 123 0.23
177 402 0.76
178 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (177 bp):
AGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTTCAACCTGC
TCTCTTACTACCTCAGAGAGATAAGGTCGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGA
TAAGACTCGCCATCTTTGATCTACTCCATAGCCGATACATGGAGATA
Found at i:33513855 original size:64 final size:64
Alignment explanation
Indices: 33513749--33513870 Score: 208
Period size: 64 Copynumber: 1.9 Consensus size: 64
33513739 TATCTATGCT
* * *
33513749 TATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAGCTAGATGTGATATA
1 TATGCCAAATAATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTGATATA
*
33513813 TATGTCAAATAATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGT
1 TATGCCAAATAATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGT
33513871 ACTATGAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (64 bp):
TATGCCAAATAATTAGGATGCTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTGATATA
Found at i:33524576 original size:40 final size:40
Alignment explanation
Indices: 33524531--33524610 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
33524521 TGAAAAAAGG
33524531 ATAGAAAATAATCAATTTTACGGCTTGACTCTCTTATTGT
1 ATAGAAAATAATCAATTTTACGGCTTGACTCTCTTATTGT
33524571 ATAGAAAATAATCAATTTTACGGCTTGACTCTCTTATTGT
1 ATAGAAAATAATCAATTTTACGGCTTGACTCTCTTATTGT
33524611 CCCCAGCGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (40 bp):
ATAGAAAATAATCAATTTTACGGCTTGACTCTCTTATTGT
Found at i:33525302 original size:127 final size:127
Alignment explanation
Indices: 33525106--33525541 Score: 617
Period size: 127 Copynumber: 3.5 Consensus size: 127
33525096 GCCAAATGGT
* * * * ** **
33525106 AAATCGAAACCTAGCACGATTGGACACGATTTATCAAA-TTTCCAAATACGAAATATTGCCTTAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCGT
*
33525170 GTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGAATATTCTGCACTTTAGTCGAATGAA
66 TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGAATATTCTGCACTTTAGTCGAATGAA
* * *
33525232 AAATTGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCCCAAATTCGAAATATTGCCTCGT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCGT
* * *
33525297 TTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGAATATTCCGCACTTTAGTCGAATGGA
66 TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGAATATTCTGCACTTTAGTCGAATGAA
* *
33525359 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAGCTCCCCAAATTCGAAATATTGCCTCGT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCGT
* * * * * * *
33525424 TTTAATTTAAGAAAACATAGACAAAATTCCAAAAGG-ATATTTTGTATTTTAGTCAAATGAA
66 TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGAATATTCTGCACTTTAGTCGAATGAA
* *
33525485 AAATCGAAACCCAGCACAATTGGGCACGATCTCTCAAACT-CCCAAACACGAAATATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATT
33525542 TCCTTATGTT
Statistics
Matches: 277, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
125 15 0.05
126 89 0.32
127 173 0.62
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCGT
TTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGAATATTCTGCACTTTAGTCGAATGAA
Found at i:33528601 original size:30 final size:30
Alignment explanation
Indices: 33528566--33528625 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
33528556 TAATTTATTA
33528566 TTAATTTTATTATTATTTTAAAGGAATTTG
1 TTAATTTTATTATTATTTTAAAGGAATTTG
* *
33528596 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGAATTTG
33528626 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGAATTTG
Found at i:33541003 original size:51 final size:51
Alignment explanation
Indices: 33540944--33541042 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
33540934 ATGCATGTCT
* * *
33540944 AAGTCCACTTGAAACTTTATTTTATATAGTCTCCAAAGAAAGTGAGTGGGC
1 AAGTCCACTTAAAACTTTAATTTATATAGTCTCCAAAGAAAATGAGTGGGC
* *
33540995 AAGTCCACTTAAAACTTTAATTTATCTAGTCTCCTAAGAAAATGAGTG
1 AAGTCCACTTAAAACTTTAATTTATATAGTCTCCAAAGAAAATGAGTG
33541043 TGCATTCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (51 bp):
AAGTCCACTTAAAACTTTAATTTATATAGTCTCCAAAGAAAATGAGTGGGC
Found at i:33541327 original size:13 final size:13
Alignment explanation
Indices: 33541306--33541376 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
33541296 AGTTTGGCAA
*
33541306 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
*
33541319 TGTTTTTGAGAAG
1 TGCTTTTGAGAAG
*
33541332 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
33541345 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
33541358 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
33541371 TGCTTT
1 TGCTTT
33541377 AGAAAAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:33541339 original size:26 final size:26
Alignment explanation
Indices: 33541308--33541376 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
33541298 TTTGGCAATG
* *
33541308 CTTTTGAAAAGTGTTTTTGAGAAGTA
1 CTTTTGAGAAGTGCTTTTGAGAAGTA
33541334 CTTTTGAGAAGTGCTTTTGAGAAGTA
1 CTTTTGAGAAGTGCTTTTGAGAAGTA
33541360 CTTTTGAGAAGTGCTTT
1 CTTTTGAGAAGTGCTTT
33541377 AGAAAAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (26 bp):
CTTTTGAGAAGTGCTTTTGAGAAGTA
Found at i:33541666 original size:21 final size:19
Alignment explanation
Indices: 33541598--33541670 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 19
33541588 AGTAATTAAT
* *
33541598 ATTAATTATTTATTAAATTTA
1 ATTAAATATTTA--AAATATA
*
33541619 ATTAGAATATATAAAATATA
1 ATTA-AATATTTAAAATATA
*
33541639 TTTAAATATTTAAATATAATA
1 ATTAAATATTTAAA-AT-ATA
33541660 ATTAAATATTT
1 ATTAAATATTT
33541671 GTAATTAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.21
20 11 0.26
21 17 0.40
22 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (19 bp):
ATTAAATATTTAAAATATA
Found at i:33547857 original size:59 final size:58
Alignment explanation
Indices: 33547783--33547893 Score: 159
Period size: 59 Copynumber: 1.9 Consensus size: 58
33547773 TTGTTATTAA
* *
33547783 ATTTTAATAACATTATTATTAAATATAATTTAATAAAATATAATAAATAATATAATCAT
1 ATTTTAATAAAATTATTATTAAATATAATTTAACAAAA-ATAATAAATAATATAATCAT
* * * *
33547842 ATTTTTATAAAATTATTATTATATATAATTTAACAATAATAATATATAATAT
1 ATTTTAATAAAATTATTATTAAATATAATTTAACAAAAATAATAAATAATAT
33547894 TAGAAAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 13 0.28
59 33 0.72
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (58 bp):
ATTTTAATAAAATTATTATTAAATATAATTTAACAAAAATAATAAATAATATAATCAT
Found at i:33547887 original size:21 final size:21
Alignment explanation
Indices: 33547862--33547910 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
33547852 AATTATTATT
33547862 ATATATAAT-TTA-ACAATAATA
1 ATATATAATATTAGA-AA-AATA
33547883 ATATATAATATTAGAAAAATA
1 ATATATAATATTAGAAAAATA
33547904 ATATATA
1 ATATATA
33547911 GCCATAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 20 0.77
22 5 0.19
23 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATATAATATTAGAAAAATA
Found at i:33548841 original size:26 final size:26
Alignment explanation
Indices: 33548812--33548864 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
33548802 TGCGATCTCC
33548812 TCACGTTCTAAGAATTTCATACCAAG
1 TCACGTTCTAAGAATTTCATACCAAG
*
33548838 TCACGTTCTAAGAATTTCATAGCAAG
1 TCACGTTCTAAGAATTTCATACCAAG
33548864 T
1 T
33548865 TGCTGCAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
TCACGTTCTAAGAATTTCATACCAAG
Found at i:33553658 original size:19 final size:18
Alignment explanation
Indices: 33553636--33553687 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
33553626 CTTTTGCATT
*
33553636 TATTTAATATAAATAATTA
1 TATTTAATATAAATAA-AA
*
33553655 TATTT-ATCTAATATAAAA
1 TATTTAATATAA-ATAAAA
33553673 TATTTTAATATAAAT
1 TA-TTTAATATAAAT
33553688 TTTTTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 8 0.30
19 14 0.52
20 5 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTTAATATAAATAAAA
Found at i:33561144 original size:23 final size:21
Alignment explanation
Indices: 33561070--33561136 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
33561060 CCTGATCAGT
** * *
33561070 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
33561091 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
33561112 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
33561133 ATAC
1 ATAC
33561137 ACGACACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:33561152 original size:23 final size:22
Alignment explanation
Indices: 33561072--33561157 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 22
33561062 TGATCAGTAT
* *
33561072 ACGACACATAAAGTGCCT-AAA
1 ACGACACACAAAGTGCCTGATA
* *
33561093 ACGACACACGAGGTGCCTGAT-
1 ACGACACACAAAGTGCCTGATA
* *
33561114 ACGACACACGAGGTGCCTGATA
1 ACGACACACAAAGTGCCTGATA
*
33561136 CACGACACATAAAGTGCCTGAT
1 -ACGACACACAAAGTGCCTGAT
33561158 CGATAAAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 36 0.65
22 1 0.02
23 18 0.33
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (22 bp):
ACGACACACAAAGTGCCTGATA
Found at i:33561552 original size:15 final size:15
Alignment explanation
Indices: 33561527--33561584 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
33561517 TCATATATAT
33561527 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
33561543 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
33561558 AATAATTTCAATCAA
1 TATAAATTCAATCAA
33561573 TATAAATTCAAT
1 TATAAATTCAAT
33561585 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:33562839 original size:13 final size:13
Alignment explanation
Indices: 33562821--33562848 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33562811 CCTCTTTTTA
33562821 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
33562834 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
33562847 TT
1 TT
33562849 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:33567613 original size:21 final size:21
Alignment explanation
Indices: 33567589--33567656 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
33567579 GTAAGTATAT
33567589 CAATGTGAAATGTAGGTTCAC
1 CAATGTGAAATGTAGGTTCAC
** * *
33567610 CAATGTGTTGA-GTAAGTAT-AT
1 CAATGTG-AAATGTAGGT-TCAC
33567631 CAATGTGAAATGTAGGTTCAC
1 CAATGTGAAATGTAGGTTCAC
33567652 CAATG
1 CAATG
33567657 GGTTTGGGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 2 0.06
21 31 0.89
22 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (21 bp):
CAATGTGAAATGTAGGTTCAC
Found at i:33567636 original size:42 final size:42
Alignment explanation
Indices: 33567577--33567656 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
33567567 GATTGAACTA
33567577 GAGTAAGTATATCAATGTGAAATGTAGGTTCACCAATGTGTT
1 GAGTAAGTATATCAATGTGAAATGTAGGTTCACCAATGTGTT
33567619 GAGTAAGTATATCAATGTGAAATGTAGGTTCACCAATG
1 GAGTAAGTATATCAATGTGAAATGTAGGTTCACCAATG
33567657 GGTTTGGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (42 bp):
GAGTAAGTATATCAATGTGAAATGTAGGTTCACCAATGTGTT
Found at i:33569996 original size:68 final size:67
Alignment explanation
Indices: 33569823--33570071 Score: 230
Period size: 69 Copynumber: 3.6 Consensus size: 67
33569813 TCATTGTGAA
* * * *
33569823 CCTTAATGTGACAACTAGGAGCTTTTCTCTCATTAACTGTGTTTGAGGCTGTGACTCTTCGCCTA
1 CCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACTGTG-TTG-GGCTGTGGCTCTTCGCCTA
*
33569888 CGAG
64 CAAG
* * * ** * * * *
33569892 CCTTAATATGAC-AGTTGGAAGCTTTACTCTTGCTAACTATGCTAGGGCTGCGGCTCCTCGCCTA
1 CCTTAATATGACAACTAGG-AGCTTTGCTCTCACTAACTGTG-TTGGGCTGTGGCTCTTCGCCTA
*
33569956 CTAG
64 CAAG
* * * * * * *
33569960 CCTTAATATGACAGCTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGATTATAGATTTTCGCCTA
1 CCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACTGTGTTGG-G-CTGTGGCTCTTCGCCTA
33570025 CAAG
64 CAAG
*
33570029 CCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACAGTGTT
1 CCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACTGTGTT
33570072 AGAGATTACG
Statistics
Matches: 143, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
67 3 0.02
68 54 0.38
69 86 0.60
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (67 bp):
CCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACTGTGTTGGGCTGTGGCTCTTCGCCTACA
AG
Found at i:33570077 original size:69 final size:69
Alignment explanation
Indices: 33569949--33570110 Score: 243
Period size: 69 Copynumber: 2.3 Consensus size: 69
33569939 CTGCGGCTCC
* * * * * *
33569949 TCGCCTACTAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGATTATAG
1 TCGCCTACAAGCCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACAGTGTTAGAGATTACAG
33570014 ATTT
66 ATTT
*
33570018 TCGCCTACAAGCCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACAGTGTTAGAGATTACGG
1 TCGCCTACAAGCCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACAGTGTTAGAGATTACAG
33570083 ATTT
66 ATTT
* *
33570087 TCACCTACGAGCCTTAATATGACA
1 TCGCCTACAAGCCTTAATATGACA
33570111 CGAATGTTGT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 84 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (69 bp):
TCGCCTACAAGCCTTAATATGACAACTAGGAGCTTTGCTCTCACTAACAGTGTTAGAGATTACAG
ATTT
Found at i:33578625 original size:68 final size:69
Alignment explanation
Indices: 33578465--33578632 Score: 214
Period size: 69 Copynumber: 2.4 Consensus size: 69
33578455 ATGATTCTGC
* * * * * * *
33578465 GCCCAGCACTAGTTAGACAAGCTGACAAAAGTTGCGCCCAGTGCTAATCGAATGAACTGACAATT
1 GCCCAGCACTAGTCAGACAAGCTGACAAAGGCTGCGCCCAATGCTAATAGAATGAACTCAAAATT
33578530 GTGT
66 GTGT
*
33578534 GCCCAGCACTAGTCAGACAAGCTGACAAAGGCTGCGCCCAATGCTAATTAGATTG-AC-CAAAAT
1 GCCCAGCACTAGTCAGACAAGCTGACAAAGGCTGCGCCCAATGCTAA-TAGAATGAACTCAAAAT
*
33578597 TGTTT
65 TGTGT
* *
33578602 GCCCAACACTAGTCAGACAAGCTGAAAAAGG
1 GCCCAGCACTAGTCAGACAAGCTGACAAAGG
33578633 TTGTGTAACA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
68 37 0.43
69 45 0.52
70 5 0.06
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (69 bp):
GCCCAGCACTAGTCAGACAAGCTGACAAAGGCTGCGCCCAATGCTAATAGAATGAACTCAAAATT
GTGT
Found at i:33581854 original size:48 final size:48
Alignment explanation
Indices: 33581783--33581996 Score: 191
Period size: 48 Copynumber: 4.5 Consensus size: 48
33581773 AAGCTGACGC
* * * **
33581783 CATGTCCTAGCCAGGTCTTACACTAGCTTGTATATCACGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCACGAGGCCGATG
* * ** * * **** *
33581831 CATGTCCTAGACATATCTTACACTAGCTCT-CGTCTTA--ATATTGATC
1 CATGTCCCAGACATGTCTTACACTAGCT-TAAATATCACGAGGCCGATG
* * * *
33581877 CACGTCCCAGACATGTCTTACATTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCACGAGGCCGATG
* * *
33581925 CATGTCCCAGGCATGTCTTACACTAGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCACGAGGCCGATG
33581973 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
33581997 GTCTCTCATG
Statistics
Matches: 129, Mismatches: 33, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
45 1 0.01
46 29 0.22
48 98 0.76
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCACGAGGCCGATG
Found at i:33582054 original size:142 final size:140
Alignment explanation
Indices: 33581783--33582054 Score: 296
Period size: 142 Copynumber: 1.9 Consensus size: 140
33581773 AAGCTGACGC
* ** *
33581783 CATGTCCTAGCCAGGTCTTACACTAGCTTGTATATCACGAGGCCGATGCATGTCCTAGACATATC
1 CATGTCCCAGCCAGGTCTTACACTAGCTTAAATATCACGAGGCCGATGCATGTCCCAGACATATC
* * * **
33581848 TTACACTAGCTCTCGTCTTAATATTGATCCACGTCCCAGACATGTCTTACATTGGCTTAAATATC
66 TTACACTAGCTCTCATCTTAATA-T-ATCCACGTCCCAGACATGTCTTACACTAGCACAAATATC
33581913 TCGAGGCCGATG
129 TCGAGGCCGATG
* * * * *
33581925 CATGTCCCAGGCATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCCAGCCAGGTCTTACACTAGCTTAAATATCACGAGGCCGATGCATGTCCCAGACATATC
** * * * *
33581990 TTACACT-GTCTCTCATGCTGTGGCTA-ATGCATGTCTCAGACATGTCTTACACTAGCACACATA
66 TTACACTAG-CTCTCAT-CT-T-AATATATCCACGTCCCAGACATGTCTTACACTAGCACAAATA
33582053 TC
127 TC
33582055 ACCCATTATC
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
141 1 0.01
142 100 0.94
143 2 0.02
144 1 0.01
145 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (140 bp):
CATGTCCCAGCCAGGTCTTACACTAGCTTAAATATCACGAGGCCGATGCATGTCCCAGACATATC
TTACACTAGCTCTCATCTTAATATATCCACGTCCCAGACATGTCTTACACTAGCACAAATATCTC
GAGGCCGATG
Found at i:33589082 original size:20 final size:20
Alignment explanation
Indices: 33589053--33589097 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33589043 AGCATATGTA
* *
33589053 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
33589073 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
33589093 TTCAT
1 TTCAT
33589098 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:33595959 original size:19 final size:20
Alignment explanation
Indices: 33595937--33595978 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
33595927 AAAAAAAAAG
*
33595937 AAATTATAAAAAT-TATTAT
1 AAATTACAAAAATATATTAT
33595956 AAATTACAAAAATATATTAT
1 AAATTACAAAAATATATTAT
33595976 AAA
1 AAA
33595979 AATTGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTACAAAAATATATTAT
Found at i:33596642 original size:19 final size:19
Alignment explanation
Indices: 33596620--33596674 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
33596610 TTTAAATTTG
33596620 TTTTATAAT-TTTTTTATGA
1 TTTTATAATATTTTTTAT-A
*
33596639 TTTTGTAATATTTTTTATA
1 TTTTATAATATTTTTTATA
33596658 TTTT-TAAATATTATTTT
1 TTTTAT-AATATT-TTTT
33596675 TCATAACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.03
19 19 0.59
20 12 0.38
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTATAATATTTTTTATA
Found at i:33596703 original size:10 final size:10
Alignment explanation
Indices: 33596620--33596703 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 10
33596610 TTTAAATTTG
33596620 TTTTATA-AT
1 TTTTATATAT
*
33596629 TTTTTTATGAT
1 TTTTATAT-AT
33596640 TTTGTA-ATAT
1 TTT-TATATAT
33596650 TTTT-TATAT
1 TTTTATATAT
*
33596659 TTTTAAATAT
1 TTTTATATAT
* *
33596669 TATTTTTCATAA
1 T-TTTAT-ATAT
* *
33596681 CTTTA-ACAT
1 TTTTATATAT
33596690 TTTTATATAT
1 TTTTATATAT
33596700 TTTT
1 TTTT
33596704 TTCATAATTT
Statistics
Matches: 55, Mismatches: 12, Indels: 15
0.67 0.15 0.18
Matches are distributed among these distances:
9 21 0.38
10 17 0.31
11 13 0.24
12 4 0.07
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:33596714 original size:29 final size:31
Alignment explanation
Indices: 33596657--33596714 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
33596647 TATTTTTTAT
33596657 ATTTTTAAATATTATTTTTCATAACTTTAAC
1 ATTTTTAAATATTATTTTTCATAACTTTAAC
*
33596688 ATTTTTATATATT-TTTTTCATAA-TTTA
1 ATTTTTAAATATTATTTTTCATAACTTTA
33596715 TATAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 10 0.38
31 12 0.46
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTTTTAAATATTATTTTTCATAACTTTAAC
Found at i:33597420 original size:18 final size:18
Alignment explanation
Indices: 33597393--33597442 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
33597383 ACAAGTTTAT
*
33597393 AAAACTATAAAACTT-AGG
1 AAAA-TATAAAAATTAAGG
*
33597411 AAAATAATAAAAATTAATG
1 AAAAT-ATAAAAATTAAGG
33597430 AAAATATAAAAAT
1 AAAATATAAAAAT
33597443 ATTATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 20 0.71
19 7 0.25
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATATAAAAATTAAGG
Found at i:33597452 original size:19 final size:19
Alignment explanation
Indices: 33597411--33597452 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
33597401 AAAACTTAGG
*
33597411 AAAATAATAAAAATTAATG
1 AAAATAATAAAAATTAATA
*
33597430 AAAAT-ATAAAAATATTATA
1 AAAATAATAAAAAT-TAATA
33597449 AAAA
1 AAAA
33597453 ATTTGAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAATAATAAAAATTAATA
Found at i:33597478 original size:18 final size:19
Alignment explanation
Indices: 33597439--33597488 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
33597429 GAAAATATAA
*
33597439 AAATATTATAAAAAATTTG
1 AAATATTATAAAAAATTGG
33597458 AAATA-TATAAAAACA-TGG
1 AAATATTATAAAAA-ATTGG
*
33597476 AAAAATTATAAAA
1 AAATATTATAAAA
33597489 TATTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATATTATAAAAAATTGG
Found at i:33598358 original size:13 final size:13
Alignment explanation
Indices: 33598342--33598394 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
33598332 TTTAAACCAA
33598342 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
33598355 ACTTCTT-AAAAAC
1 ACTT-TTCAAAAGC
*
33598368 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
33598381 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
33598394 A
1 A
33598395 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 5 0.16
13 23 0.72
14 4 0.12
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:33601539 original size:19 final size:20
Alignment explanation
Indices: 33601510--33601554 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
33601500 GGTATCGACA
33601510 ATTTTTCAT-AAGTATCAAT
1 ATTTTTCATAAAGTATCAAT
*
33601529 ACTTTTT-ATAAAGTATCTAT
1 A-TTTTTCATAAAGTATCAAT
33601549 ATTTTT
1 ATTTTT
33601555 GTATCAGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (20 bp):
ATTTTTCATAAAGTATCAAT
Found at i:33601604 original size:21 final size:21
Alignment explanation
Indices: 33601575--33601619 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
33601565 CGATACCAAA
33601575 TGCCCATTCTATTTTGCTAAG
1 TGCCCATTCTATTTTGCTAAG
* *
33601596 TGCCTATTCTGTTTTGCTAAG
1 TGCCCATTCTATTTTGCTAAG
33601617 TGC
1 TGC
33601620 AAATTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (21 bp):
TGCCCATTCTATTTTGCTAAG
Found at i:33611253 original size:35 final size:35
Alignment explanation
Indices: 33611175--33611256 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
33611165 CAAACATCAA
* *
33611175 ACAAATACAAAT-TAGGGCCTAAGCCTATTATAGAT
1 ACAAATACAGATAT-GGGCCTAAGCCTATTACAGAT
*
33611210 GCAAATACAGATATGGGCCTAAGCCTATCT-CAGAT
1 ACAAATACAGATATGGGCCTAAGCCTAT-TACAGAT
*
33611245 ACAGATACAGAT
1 ACAAATACAGAT
33611257 GTGCAATTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 38 0.95
36 2 0.05
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (35 bp):
ACAAATACAGATATGGGCCTAAGCCTATTACAGAT
Found at i:33616680 original size:44 final size:45
Alignment explanation
Indices: 33616601--33616817 Score: 131
Period size: 44 Copynumber: 4.7 Consensus size: 45
33616591 GTATACATGC
*
33616601 CATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-ATCCAT-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG----CACATAAT-CATAGCCGATG
* * * * *
33616650 CATGTCCTAGACATGTCTTACACTAGCACAT-CTCGTAGCTGATA
1 CATGTCCCAGACATGTCTTACACTAGCACATAATCATAGCCGATG
* * **
33616694 CATGTCCCAGACATGTCTTACACTATCTC-TCGTC-TCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACATAATCAT--A-GCCGATG
* * * * *
33616740 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG--CACATAATCATAGCCGATG
*
33616788 CATGTCCAAGACATGTCTTACACTAGCACA
1 CATGTCCCAGACATGTCTTACACTAGCACA
33616818 CACACATCGC
Statistics
Matches: 136, Mismatches: 21, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
43 4 0.03
44 42 0.31
45 1 0.01
46 16 0.12
47 27 0.20
48 27 0.20
49 13 0.10
50 3 0.02
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCACATAATCATAGCCGATG
Found at i:33616772 original size:48 final size:45
Alignment explanation
Indices: 33616597--33616814 Score: 169
Period size: 48 Copynumber: 4.7 Consensus size: 45
33616587 TAGGGTATAC
* *
33616597 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCATGCCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCT--C-TCT-CATGCCG
* * *
33616647 ATG-CATGTCCTAGACATGTCTTACACTAGCACATCTCGT-A-GCTG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTC-TCTC-TCATGCCG
* *
33616691 AT-ACATGTCCCAGACATGTCTTACACTATCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTC-ATGCCG
* * * *
33616737 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTC-T-CTCAT-GCCG
*
33616785 ATG-CATGTCCAAGACATGTCTTACACTAGC
1 ATGCCATGTCCCAGACATGTCTTACACTAGC
33616815 ACACACACAT
Statistics
Matches: 139, Mismatches: 18, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.02
44 33 0.24
45 2 0.01
46 18 0.13
47 30 0.22
48 35 0.25
49 15 0.11
50 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCATGCCG
Found at i:33616807 original size:94 final size:90
Alignment explanation
Indices: 33616641--33616812 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 90
33616631 TCACATATCC
* *
33616641 ATGCCGATGCATGTCCTAGACATGTCTTACACTAGCACATCTCGTAGCTGATACATGTCCCAGAC
1 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCTGATACATGTCCAAGAC
33616706 ATGTCTTACACTATCTCTCGTCTCA
66 ATGTCTTACACTATCTCTCGTCTCA
* * * * *
33616731 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCTGATGCATGTCC
1 ATGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATC-T--CGTAGCTGATACATGTCC
33616795 AAGACATGTCTTACACTA
61 AAGACATGTCTTACACTA
33616813 GCACACACAC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
90 9 0.13
91 15 0.21
92 14 0.20
94 32 0.46
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (90 bp):
ATGCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCTGATACATGTCCAAGAC
ATGTCTTACACTATCTCTCGTCTCA
Found at i:33632817 original size:20 final size:20
Alignment explanation
Indices: 33632772--33632853 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 20
33632762 AAAGCTTAGT
*
33632772 TTAACAAAAATTATAAAAAA
1 TTAATAAAAATTATAAAAAA
*
33632792 TT-ATAAAAAGTTAT-AAAAC
1 TTAATAAAAA-TTATAAAAAA
* * *
33632811 TTAAT--AATTTATTAAATAG
1 TTAATAAAAATTA-TAAAAAA
33632830 TT-ATAAAAATTATAAAAATA
1 TTAATAAAAATTATAAAAA-A
33632850 TTAA
1 TTAA
33632854 AGAGTATATA
Statistics
Matches: 46, Mismatches: 8, Indels: 15
0.67 0.12 0.22
Matches are distributed among these distances:
17 3 0.07
18 5 0.11
19 22 0.48
20 15 0.33
21 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAATAAAAATTATAAAAAA
Found at i:33632851 original size:28 final size:28
Alignment explanation
Indices: 33632777--33632866 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
33632767 TTAGTTTAAC
33632777 AAAAATTATAAAAA-ATTATAAAAAGTTAT
1 AAAAATTATAAAAATA-T-TAAAAAGTTAT
* ** *
33632806 AAAACTTA-ATAATTTATTAAATAGTTAT
1 AAAAATTATA-AAAATATTAAAAAGTTAT
*
33632834 AAAAATTATAAAAATATTAAAGAGTATAT
1 AAAAATTATAAAAATATTAAAAAGT-TAT
33632863 AAAA
1 AAAA
33632867 TTGTATTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
28 30 0.61
29 18 0.37
30 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAAATTATAAAAATATTAAAAAGTTAT
Found at i:33632854 original size:9 final size:9
Alignment explanation
Indices: 33632777--33632848 Score: 65
Period size: 10 Copynumber: 7.7 Consensus size: 9
33632767 TTAGTTTAAC
33632777 AAAAATTAT
1 AAAAATTAT
33632786 AAAAAATTAT
1 -AAAAATTAT
33632796 AAAAAGTTAT
1 AAAAA-TTAT
*
33632806 AAAACTTA-
1 AAAAATTAT
* *
33632814 ATAATTTATT
1 AAAAATTA-T
*
33632824 AAATAGTTAT
1 AAA-AATTAT
33632834 AAAAATTAT
1 AAAAATTAT
33632843 AAAAAT
1 AAAAAT
33632849 ATTAAAGAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 6 0.12
9 19 0.37
10 23 0.44
11 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:33636375 original size:81 final size:81
Alignment explanation
Indices: 33636276--33636441 Score: 314
Period size: 81 Copynumber: 2.0 Consensus size: 81
33636266 ATAAATACAA
*
33636276 TCTTAGGGGTTTGATGTAACTAAGTCATCTTAGACGCATCCAAAAACCTTTGTAGTTTAGGAGTA
1 TCTTAGGGGTTTGATGTAACTAAGTCATCTTAGACGCATCCAAAAACCCTTGTAGTTTAGGAGTA
33636341 GGATTAGATTAAGTTT
66 GGATTAGATTAAGTTT
*
33636357 TCTTAGGGGTTTGATGTAACTAAGTCATCTTCGACGCATCCAAAAACCCTTGTAGTTTAGGAGTA
1 TCTTAGGGGTTTGATGTAACTAAGTCATCTTAGACGCATCCAAAAACCCTTGTAGTTTAGGAGTA
33636422 GGATTAGATTAAGTTT
66 GGATTAGATTAAGTTT
33636438 TCTT
1 TCTT
33636442 TTATTTTTCA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (81 bp):
TCTTAGGGGTTTGATGTAACTAAGTCATCTTAGACGCATCCAAAAACCCTTGTAGTTTAGGAGTA
GGATTAGATTAAGTTT
Found at i:33651536 original size:416 final size:416
Alignment explanation
Indices: 33650756--33651551 Score: 1206
Period size: 416 Copynumber: 1.9 Consensus size: 416
33650746 AGTACGCTTC
* *
33650756 AGAAGGAAAAGGGTAAAGGGGCAAGTTCAAAAGAACTTAGTGAGTTCCATAGAGATCTTAAGCAG
1 AGAAGGAAAAGGGTAAAGAGGCAAGTGCAAAAGAACTTAGTGAGTTCCATAGAGATCTTAAGCAG
* * * *
33650821 AATACTAAAAGCACAATCCAATCTTTCAAAAGAATTACTCAACACGAAAGAGTATGCCTAATGAC
66 AATACTAAAAGCACAATCCAATCTTTCAAAAGAATCACTCAACACGAAAGAGTACGCCCAATGAA
* *
33650886 GTATACAAAACTCAGACAGACTCAGTACGCCAATGGCATGTCACATGGGTGAATACTATATGCCA
131 GTATACAAAACTCAGACAGACTCAGTACGCCAATGGCATGTCACATGGGGGAATACTATACGCCA
* * * *
33650951 AGACAACATAACTCAGACATTCCATTTTCATGCTAGCCACATACTTAAAGTTCAGAGTCAGATTC
196 AGACAACATAACTCAGACATTCCATTTTCATGCCAACCACATACCTAAAGTTCAGAGTCAAATTC
* *
33651016 ATATAAGATGTTTTCGTTTCATTCATATACATTCTCTCCTTATAGCTCCTTATTTAGAATCATTC
261 ATATAAGATGTTTTCGTTTAATTCATATACATTCTCTCCTTATAGCTCCTTATTTAGAATCACTC
*
33651081 AGTAACATGTTTAATTGTGTTATACCAATTCAGTTTGTAATATATATTTTCCCTAACAGATATCC
326 AGTAACATGTTTAATTGTGTTATACCAATTCAGTTTGTAATATATATTTACCCTAACAGATATCC
33651146 TCTAGCATAGTCCTTTAGAAAGCCTG
391 TCTAGCATAGTCCTTTAGAAAGCCTG
* * *
33651172 AGAAGGAAGAGGGTAACA-AGGTAAGTGCAAAAGAA-TTAAGTGAGTTCCATAGAGATCTTAAGT
1 AGAAGGAAAAGGGTAA-AGAGGCAAGTGCAAAAGAACTT-AGTGAGTTCCATAGAGATCTTAAGC
* * *
33651235 AGAATACTAAAAGC-CAAATCTAATCTTTCAAAAGAATCACTCAACATGACAGAGTACGCCCAAT
64 AGAATACTAAAAGCAC-AATCCAATCTTTCAAAAGAATCACTCAACACGAAAGAGTACGCCCAAT
* * * * *
33651299 GAAGTATACAAAACTTATACAGACTTAGTACGCCAATGGCATGTTATATGGGGGAATACTATACG
128 GAAGTATACAAAACTCAGACAGACTCAGTACGCCAATGGCATGTCACATGGGGGAATACTATACG
* * *
33651364 CCAATACAACATAACTCAGACATTCCATTTTCATGCCAACCACATACCTAGAGTTCATAGTCAAA
193 CCAAGACAACATAACTCAGACATTCCATTTTCATGCCAACCACATACCTAAAGTTCAGAGTCAAA
* *
33651429 TTCATATAAGATGTTTTTGTTTAATTCATATACATTCTCTCCTTATATCT-CTTAATTTAGAATC
258 TTCATATAAGATGTTTTCGTTTAATTCATATACATTCTCTCCTTATAGCTCCTT-ATTTAGAATC
* **
33651493 ACTCAGTAGCATGTTTAATTGTGTTATGTCAATTC-GATTTGTAATATATATTTACCCTA
322 ACTCAGTAACATGTTTAATTGTGTTATACCAATTCAG-TTTGTAATATATATTTACCCTA
33651552 CTAGAGGCTA
Statistics
Matches: 341, Mismatches: 34, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
415 7 0.02
416 333 0.98
417 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (416 bp):
AGAAGGAAAAGGGTAAAGAGGCAAGTGCAAAAGAACTTAGTGAGTTCCATAGAGATCTTAAGCAG
AATACTAAAAGCACAATCCAATCTTTCAAAAGAATCACTCAACACGAAAGAGTACGCCCAATGAA
GTATACAAAACTCAGACAGACTCAGTACGCCAATGGCATGTCACATGGGGGAATACTATACGCCA
AGACAACATAACTCAGACATTCCATTTTCATGCCAACCACATACCTAAAGTTCAGAGTCAAATTC
ATATAAGATGTTTTCGTTTAATTCATATACATTCTCTCCTTATAGCTCCTTATTTAGAATCACTC
AGTAACATGTTTAATTGTGTTATACCAATTCAGTTTGTAATATATATTTACCCTAACAGATATCC
TCTAGCATAGTCCTTTAGAAAGCCTG
Found at i:33661919 original size:25 final size:25
Alignment explanation
Indices: 33661891--33661960 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
33661881 ACAACCCAAC
33661891 CAGAACAG-GACAGAGCAGAACATAA
1 CAGAACAGAG-CAGAGCAGAACATAA
* * *
33661916 CAGAACATAGTAGAGCAGAGCATAA
1 CAGAACAGAGCAGAGCAGAACATAA
*
33661941 CAAAACAGAGCAGAGCAGAA
1 CAGAACAGAGCAGAGCAGAA
33661961 TAGAATAGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.51, C:0.19, G:0.24, T:0.06
Consensus pattern (25 bp):
CAGAACAGAGCAGAGCAGAACATAA
Found at i:33662029 original size:15 final size:15
Alignment explanation
Indices: 33661984--33662032 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
33661974 AACATAACAT
*
33661984 AACATAGCAAAATAG
1 AACAGAGCAAAATAG
*
33661999 AATAGAG-AAGAATAG
1 AACAGAGCAA-AATAG
*
33662014 AACAGAGCAAAGTAG
1 AACAGAGCAAAATAG
33662029 AACA
1 AACA
33662033 TAATAGAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.10
Consensus pattern (15 bp):
AACAGAGCAAAATAG
Found at i:33662119 original size:31 final size:30
Alignment explanation
Indices: 33662078--33662143 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
33662068 GTGCAGAATG
* * *
33662078 GAACATAATAGAACAAAGCAAAAGCATAACA
1 GAACAGAATAGAACAAAACAAAA-CAAAACA
* *
33662109 GAACAGAATAGAGCAAAACATAACAAAACA
1 GAACAGAATAGAACAAAACAAAACAAAACA
33662139 GAACA
1 GAACA
33662144 ATACATAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.62, C:0.17, G:0.14, T:0.08
Consensus pattern (30 bp):
GAACAGAATAGAACAAAACAAAACAAAACA
Found at i:33666079 original size:27 final size:27
Alignment explanation
Indices: 33666020--33666171 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
33666010 TAAATTGTAC
*
33666020 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
33666048 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
33666075 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
33666102 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
33666130 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
33666157 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33666172 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:33666086 original size:55 final size:55
Alignment explanation
Indices: 33666020--33666171 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
33666010 TAAATTGTAC
33666020 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
33666075 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
33666130 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
33666172 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:33666134 original size:82 final size:82
Alignment explanation
Indices: 33666020--33666171 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
33666010 TAAATTGTAC
* *
33666020 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
33666085 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
33666102 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
33666167 GTGCG
66 GTGCG
33666172 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:33668780 original size:29 final size:29
Alignment explanation
Indices: 33668728--33668785 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
33668718 CAACTAGCCC
* * * *
33668728 AGCTCGTGTGGCCTACATGGCCTAACACA
1 AGCTCGTGTGACCCACACGACCTAACACA
33668757 AGCTCGTGTGACCCACACGACCTAACACA
1 AGCTCGTGTGACCCACACGACCTAACACA
33668786 CACATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (29 bp):
AGCTCGTGTGACCCACACGACCTAACACA
Found at i:33669444 original size:21 final size:20
Alignment explanation
Indices: 33669418--33669457 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
33669408 AAAAATATGG
33669418 ATAAAAACTTAGAAATAAAAA
1 ATAAAAACTTA-AAATAAAAA
*
33669439 ATAAAAACTTAAAGTAAAA
1 ATAAAAACTTAAAATAAAA
33669458 CCTACCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (20 bp):
ATAAAAACTTAAAATAAAAA
Found at i:33671187 original size:20 final size:20
Alignment explanation
Indices: 33671159--33671206 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
33671149 TTTATCTATA
33671159 TTTATATTATTTTATAAAGTT
1 TTTA-ATTATTTTATAAAGTT
33671180 TTTAATTATTTTATAAAGTT
1 TTTAATTATTTTATAAAGTT
*
33671200 GTTAATT
1 TTTAATT
33671207 CAATTGGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTAATTATTTTATAAAGTT
Found at i:33697722 original size:18 final size:17
Alignment explanation
Indices: 33697699--33697733 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33697689 CAAGGGCACG
33697699 TCATCGACCTTGCCTATT
1 TCATCGACCTTG-CTATT
*
33697717 TCATCGCCCTTGCTATT
1 TCATCGACCTTGCTATT
33697734 CAACACCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.40
Consensus pattern (17 bp):
TCATCGACCTTGCTATT
Found at i:33700697 original size:121 final size:121
Alignment explanation
Indices: 33700478--33700705 Score: 447
Period size: 121 Copynumber: 1.9 Consensus size: 121
33700468 TCAATTTCCC
33700478 TTCATTTTATACCATAAATTTATAATTTTCATCATATACATCCATGACCTAATTTCAATACTTTG
1 TTCATTTTATACCATAAATTTATAATTTTCATCATATACATCCATGACCTAATTTCAATACTTTG
*
33700543 ATAATCTTCAAATTGATCCCCCAAATAGGTAGATTAAGCTATACCATCAACAACCT
66 ATAATCTTCAAATTGATCCCCCAAATAGATAGATTAAGCTATACCATCAACAACCT
33700599 TTCATTTTATACCATAAATTTATAATTTTCATCATATACATCCATGACCTAATTTCAATACTTTG
1 TTCATTTTATACCATAAATTTATAATTTTCATCATATACATCCATGACCTAATTTCAATACTTTG
33700664 ATAATCTTCAAATTGATCCCCCAAATAGATAGATTAAGCTAT
66 ATAATCTTCAAATTGATCCCCCAAATAGATAGATTAAGCTAT
33700706 CCCGATTTCA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 106 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (121 bp):
TTCATTTTATACCATAAATTTATAATTTTCATCATATACATCCATGACCTAATTTCAATACTTTG
ATAATCTTCAAATTGATCCCCCAAATAGATAGATTAAGCTATACCATCAACAACCT
Found at i:33706210 original size:21 final size:22
Alignment explanation
Indices: 33706172--33706221 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
33706162 GGGCTCACAC
*
33706172 GCCCATGTGGACCATGGGATAA-
1 GCCCGTGTGGACCATGGGA-AAT
*
33706194 GCCCGTGT-GACCCTGGGAAAT
1 GCCCGTGTGGACCATGGGAAAT
33706215 GCCCGTG
1 GCCCGTG
33706222 CTACAGGTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.64
22 7 0.28
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (22 bp):
GCCCGTGTGGACCATGGGAAAT
Found at i:33707720 original size:48 final size:48
Alignment explanation
Indices: 33707655--33707791 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 48
33707645 ACATGTCTAT
* * *
33707655 GAGAGCCAGTGTAAGACCATGTCTAGGACATGGTATCGGC-ATTGA-GAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCAAAT-ATG-C
* * * *
33707703 GAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGCACAAATATGT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGTATCG-GCAAATATGC
*
33707752 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGTGTCGGC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGC
33707792 CTCGATTTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
48 35 0.47
49 37 0.49
50 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCAAATATGC
Found at i:33720602 original size:22 final size:23
Alignment explanation
Indices: 33720576--33720622 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
33720566 CACCTCATAA
*
33720576 AATTGACTAGAT-TTT-GAATTAT
1 AATTGA-TAGATGTTTACAATTAT
33720598 AATTGATAGATGTTTACAATTAT
1 AATTGATAGATGTTTACAATTAT
33720621 AA
1 AA
33720623 ATTTATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 9 0.41
23 8 0.36
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
AATTGATAGATGTTTACAATTAT
Found at i:33722483 original size:18 final size:18
Alignment explanation
Indices: 33722460--33722496 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33722450 ACCCTTATGC
33722460 ATGCAAAATTACAATTTT
1 ATGCAAAATTACAATTTT
33722478 ATGCAAAATTACAATTTT
1 ATGCAAAATTACAATTTT
33722496 A
1 A
33722497 CCCCTAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (18 bp):
ATGCAAAATTACAATTTT
Found at i:33722774 original size:27 final size:27
Alignment explanation
Indices: 33722722--33722808 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
33722712 ATATATATAT
* * * *
33722722 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACTTCGTCACA
33722748 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACTTCGTCACA
33722775 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACTTCGTCACA
33722802 ATATCTG
1 ATATCTG
33722809 GCAGCCTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
26 8 0.14
27 48 0.86
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACTTCGTCACA
Found at i:33729974 original size:21 final size:20
Alignment explanation
Indices: 33729950--33730001 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
33729940 TTTGTGTAAC
33729950 TAAAATGTATGTTTAT-ATGTT
1 TAAAATGTATG-TTATGAT-TT
* *
33729971 TAAATTGAATGTTATGATTT
1 TAAAATGTATGTTATGATTT
*
33729991 TGAAATGTATG
1 TAAAATGTATG
33730002 ATTGTCATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (20 bp):
TAAAATGTATGTTATGATTT
Found at i:33730349 original size:25 final size:24
Alignment explanation
Indices: 33730307--33730359 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
33730297 CACAAACGTA
*
33730307 GCTCTTTATAAGCGTCCTGCTATAG
1 GCTCTTTATAAGCGTCCTGATAT-G
* * *
33730332 GCTCTTTGTGAGCTTCCTGATATG
1 GCTCTTTATAAGCGTCCTGATATG
33730356 GCTC
1 GCTC
33730360 ACTTGAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (24 bp):
GCTCTTTATAAGCGTCCTGATATG
Found at i:33736671 original size:38 final size:38
Alignment explanation
Indices: 33736620--33736695 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
33736610 CTTACAGTGA
*
33736620 AAAACCGATCAAAATTCTTGCACGGGAAACGAAAGAGT
1 AAAACCAATCAAAATTCTTGCACGGGAAACGAAAGAGT
*
33736658 AAAACCAATCAAAATTCTTGCACGGGAAATGAAAGAGT
1 AAAACCAATCAAAATTCTTGCACGGGAAACGAAAGAGT
33736696 TAAGAAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (38 bp):
AAAACCAATCAAAATTCTTGCACGGGAAACGAAAGAGT
Found at i:33753949 original size:7 final size:7
Alignment explanation
Indices: 33753937--33753962 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33753927 AGAAGATAGA
33753937 TTTTTGT
1 TTTTTGT
33753944 TTTTTGT
1 TTTTTGT
33753951 TTTTTGT
1 TTTTTGT
33753958 TTTTT
1 TTTTT
33753963 TTTATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:33757089 original size:61 final size:60
Alignment explanation
Indices: 33756969--33757096 Score: 136
Period size: 61 Copynumber: 2.1 Consensus size: 60
33756959 AAAGAAATTG
* * * * *
33756969 AAAAATTATGATTTTTCATTGAAATTTTTAGAAAATTTTAATTAAGTGTTCAACTTTTTTGT
1 AAAAATTATGATTTTTCATTGAAATTTTTAAAAAATTTGAATTAACTCTTCAAC-ATTTT-T
* *
33757031 AAAAATT-T-ATTTTTCTCTTGAAGTTTTTAAAAAATTTGAATTAAACTCTTCAA-ATTTTT
1 AAAAATTATGATTTTTC-ATTGAAATTTTTAAAAAATTTGAATT-AACTCTTCAACATTTTT
33757090 AAAAATT
1 AAAAATT
33757097 CTTATTATAC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
59 8 0.14
60 11 0.19
61 23 0.40
62 15 0.26
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.48
Consensus pattern (60 bp):
AAAAATTATGATTTTTCATTGAAATTTTTAAAAAATTTGAATTAACTCTTCAACATTTTT
Found at i:33770623 original size:41 final size:40
Alignment explanation
Indices: 33770552--33770704 Score: 164
Period size: 41 Copynumber: 3.8 Consensus size: 40
33770542 AAATAGGGCT
** *
33770552 TTAGCGGCG-TTTTGACAAAAACGCCGCTAAAAACTGAGCA
1 TTAGCGGCGTTTTTG-GTAAAACGCCGCTAAAAACAGAGCA
* * *
33770592 ATAGCGGCGTTTTTTGTTAAAACGCCACTAAAAACAGAGCA
1 TTAGCGGCG-TTTTTGGTAAAACGCCGCTAAAAACAGAGCA
* * *
33770633 TTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGTTTTTGGTAAAACGCCGCTAAA-AACAGAGCA
* * *
33770674 TTAGCGGCGCTTTTGGTGAAATGCCGCTAAA
1 TTAGCGGCGTTTTTGGTAAAACGCCGCTAAA
33770705 GATACCAACT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
40 26 0.27
41 67 0.68
42 5 0.05
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCA
Found at i:33770706 original size:41 final size:40
Alignment explanation
Indices: 33770570--33770704 Score: 180
Period size: 41 Copynumber: 3.3 Consensus size: 40
33770560 GTTTTGACAA
* * * * *
33770570 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTTGTTA
1 AAACGCCGCTAAAAACAGAGCATTAGCGGCG-CTTTTGGTG
*
33770611 AAACGCCACTAAAAACAGAGCATTAGCGGCGCTTTTGGTG
1 AAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTG
*
33770651 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
1 AAACGCCGCTAAA-AACAGAGCATTAGCGGCGCTTTTGGTG
*
33770692 AAATGCCGCTAAA
1 AAACGCCGCTAAA
33770705 GATACCAACT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
40 18 0.21
41 66 0.79
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (40 bp):
AAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGTG
Found at i:33770835 original size:7 final size:7
Alignment explanation
Indices: 33770824--33770863 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
33770814 TAGGGGTTAG
33770824 GGGTTCA
1 GGGTTCA
*
33770831 TGGTTCA
1 GGGTTCA
* *
33770838 TGGTTTA
1 GGGTTCA
33770845 GGGTTCA
1 GGGTTCA
33770852 GGGTTCA
1 GGGTTCA
33770859 GGGTT
1 GGGTT
33770864 TATGTTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (7 bp):
GGGTTCA
Found at i:33770848 original size:21 final size:21
Alignment explanation
Indices: 33770815--33770909 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
33770805 TTTAAGTGTT
* *
33770815 AGGGGTTAGGGGTTCATGGTTC
1 AGGGTTTA-GGGTTCAGGGTTC
*
33770837 ATGGTTTAGGGTTCAGGGTTC
1 AGGGTTTAGGGTTCAGGGTTC
* * * *
33770858 AGGGTTTATGTTTTAGGGTTT
1 AGGGTTTAGGGTTCAGGGTTC
** *
33770879 AATGTTTAGGGATT-AGGAGTTT
1 AGGGTTTAGGG-TTCAGG-GTTC
33770901 AGGGTTTAG
1 AGGGTTTAG
33770910 ATTAGTTAAC
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
21 38 0.67
22 19 0.33
ACGTcount: A:0.18, C:0.04, G:0.38, T:0.40
Consensus pattern (21 bp):
AGGGTTTAGGGTTCAGGGTTC
Found at i:33770879 original size:7 final size:7
Alignment explanation
Indices: 33770839--33770909 Score: 70
Period size: 7 Copynumber: 10.0 Consensus size: 7
33770829 CATGGTTCAT
33770839 GGTTTAG
1 GGTTTAG
*
33770846 GGTTCAG
1 GGTTTAG
*
33770853 GGTTCAG
1 GGTTTAG
*
33770860 GGTTTAT
1 GGTTTAG
*
33770867 GTTTTAG
1 GGTTTAG
*
33770874 GGTTTAA
1 GGTTTAG
*
33770881 TGTTTAG
1 GGTTTAG
*
33770888 GGATTAG
1 GGTTTAG
33770895 GAGTTTAG
1 G-GTTTAG
33770903 GGTTTAG
1 GGTTTAG
33770910 ATTAGTTAAC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
7 45 0.88
8 6 0.12
ACGTcount: A:0.18, C:0.03, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:33771535 original size:16 final size:16
Alignment explanation
Indices: 33771514--33771545 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33771504 AAAAATTTTC
*
33771514 ATAAAAAATTTAAAAA
1 ATAAAAAACTTAAAAA
33771530 ATAAAAAACTTAAAAA
1 ATAAAAAACTTAAAAA
33771546 TTTAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
ATAAAAAACTTAAAAA
Found at i:33775373 original size:43 final size:43
Alignment explanation
Indices: 33775308--33775404 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 43
33775298 ATTTTATGAC
*
33775308 CTTTAGCGGCGTTTGCGGGAAAAGCGCCGCAAAAAGTCCTGGA
1 CTTTAGCGGCGTTTGCGAGAAAAGCGCCGCAAAAAGTCCTGGA
*** * * * *
33775351 CTTTAGCGGCGTTTTTTAGAAAAGCGTCGCTAAAAGTTCTGGT
1 CTTTAGCGGCGTTTGCGAGAAAAGCGCCGCAAAAAGTCCTGGA
33775394 CTTTAGCGGCG
1 CTTTAGCGGCG
33775405 CTTAAAAACG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGCGAGAAAAGCGCCGCAAAAAGTCCTGGA
Found at i:33778847 original size:161 final size:161
Alignment explanation
Indices: 33778589--33778909 Score: 579
Period size: 161 Copynumber: 2.0 Consensus size: 161
33778579 TAACCAAATA
33778589 ATATTTACATCAACCAACCACGATAAATTTAGTTACAAATCATCATTTTCATGCACACAACAACC
1 ATATTTACATCAACCAACCACGATAAATTTAGTTACAAATCATCATTTTCATGCACACAACAACC
* * *
33778654 AAACATATACTTAAATCATACATTAAAATAAGCATGAGAATAGGGTTAACAAAAGCTTAGAAATC
66 AAACATATACTCAAATCATACATCAAAATAAGCATAAGAATAGGGTTAACAAAAGCTTAGAAATC
33778719 TCTTTATGGATGCTTGAAGAAGACAATAATT
131 TCTTTATGGATGCTTGAAGAAGACAATAATT
*
33778750 ATATTTACATCAATCAACCACGATAAATTTAGTTACAAATCATCATTTTCATGCACACAACAACC
1 ATATTTACATCAACCAACCACGATAAATTTAGTTACAAATCATCATTTTCATGCACACAACAACC
* *
33778815 AAACATATACTCAAATCATACATCAAAATAAGCATAAGAATAGGGTTAAGAAACGCTTAGAAATC
66 AAACATATACTCAAATCATACATCAAAATAAGCATAAGAATAGGGTTAACAAAAGCTTAGAAATC
*
33778880 TCTTTGTGGATGCTTGAAGAAGACAATAAT
131 TCTTTATGGATGCTTGAAGAAGACAATAAT
33778910 AGCAACAATG
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
161 153 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (161 bp):
ATATTTACATCAACCAACCACGATAAATTTAGTTACAAATCATCATTTTCATGCACACAACAACC
AAACATATACTCAAATCATACATCAAAATAAGCATAAGAATAGGGTTAACAAAAGCTTAGAAATC
TCTTTATGGATGCTTGAAGAAGACAATAATT
Found at i:33780844 original size:47 final size:47
Alignment explanation
Indices: 33780790--33781337 Score: 907
Period size: 47 Copynumber: 11.6 Consensus size: 47
33780780 TATTTGAATA
33780790 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
33780837 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33780884 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
33780933 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
**
33780980 AATGTGAAAGTGTATATATGTGATAAGGTTTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
33781027 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
33781074 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
33781123 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
33781170 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGACGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33781217 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
33781264 AATGTGAAAGTGTATATATGTGATAGGGTCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
33781311 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
33781338 TCCCGAAGGG
Statistics
Matches: 470, Mismatches: 27, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 381 0.81
49 89 0.19
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:33781113 original size:190 final size:190
Alignment explanation
Indices: 33780790--33781337 Score: 947
Period size: 190 Copynumber: 2.9 Consensus size: 190
33780780 TATTTGAATA
33780790 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
33780855 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
33780920 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
**
33780980 AATGTGAAAGTGTATATATGTGATAAGGTTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
33781045 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* *
33781110 GGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
*
33781170 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
33781235 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGTCGAGT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* * * *
33781298 GGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
33781338 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
188 53 0.16
190 287 0.84
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:33796653 original size:27 final size:27
Alignment explanation
Indices: 33796616--33796793 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33796606 TAAATTGTAC
33796616 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33796643 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33796669 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33796697 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33796725 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33796752 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33796779 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33796794 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33796680 original size:54 final size:55
Alignment explanation
Indices: 33796588--33796793 Score: 213
Period size: 54 Copynumber: 3.8 Consensus size: 55
33796578 CATGAGATTG
* * * *
33796588 GCACTAAGTGCGCGGAATTAAAT-TGTACAGCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGC-GAATTGAATATG-ATAGCACTAAGTGTGCGATTTGACTATGTA
* * * **
33796644 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTA
* * * *
33796698 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGA-ATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTA
* * *
33796753 GCACTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCG
33796794 GACTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
54 61 0.48
55 51 0.40
56 14 0.11
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (55 bp):
GCACTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTA
Found at i:33796730 original size:82 final size:81
Alignment explanation
Indices: 33796617--33796772 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33796607 AAATTGTACA
* *
33796617 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33796681 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33796698 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33796763 TGCGAGTTGA
65 TGCGAATTGA
33796773 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33796784 original size:82 final size:81
Alignment explanation
Indices: 33796613--33796793 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33796603 AATTAAATTG
* *
33796613 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33796678 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33796694 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33796758 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33796776 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33796794 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33804241 original size:12 final size:12
Alignment explanation
Indices: 33804224--33804250 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33804214 ATTCCGAAGT
33804224 ATATATATATAC
1 ATATATATATAC
33804236 ATATATATATAC
1 ATATATATATAC
33804248 ATA
1 ATA
33804251 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:33804761 original size:27 final size:27
Alignment explanation
Indices: 33804730--33804907 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33804720 TAAATTGTAC
33804730 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
33804757 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33804783 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
33804811 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
33804839 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
33804866 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
33804893 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33804908 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:33804844 original size:82 final size:81
Alignment explanation
Indices: 33804731--33804886 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33804721 AAATTGTACA
* *
33804731 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
33804795 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
33804812 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
33804877 TGCGAGTTGA
65 TGCGAATTGA
33804887 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33804898 original size:82 final size:81
Alignment explanation
Indices: 33804727--33804907 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
33804717 GATTAAATTG
* *
33804727 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33804792 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
33804808 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
33804872 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33804890 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33804908 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33807631 original size:20 final size:20
Alignment explanation
Indices: 33807597--33807646 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
33807587 TTTACAACAC
*
33807597 ATTTATTCATAAAATTTTAGA
1 ATTT-TTCATAAAATTTTACA
*
33807618 ATTTTTCATCAAATTTTACA
1 ATTTTTCATAAAATTTTACA
*
33807638 ACTTTTCAT
1 ATTTTTCAT
33807647 TTTAGTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTTTCATAAAATTTTACA
Found at i:33812958 original size:41 final size:41
Alignment explanation
Indices: 33812908--33813241 Score: 168
Period size: 41 Copynumber: 8.2 Consensus size: 41
33812898 CGTTTGTCCG
*
33812908 AAACGCCACTAAAAACTAAACTATAACAGCGTTTTTGGCCA
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
* *** * *
33812949 AAATGCCACTAAAAACTGGTCAATAGCGGCGTTTTTGGCCA
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
*** * * **
33812990 AAACGCCACTAAAAACTGGTCAATAGCGGCGTTTTTCACC-
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
* * * * * *** *
33813030 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTAATCCC
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
* * ** * ** *
33813071 AAACGCCACTAAAAACTGATCAATTGCTGCGTTTTTATCCC
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
* * **** **
33813112 AAACGCCACTAAAAACTGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
* * * **** **
33813153 AAATGCCACTAAAAACTGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
* ** * *
33813194 AAACGCCACTAAAAACTGATTAATAGCGGCGTTTTTGGTCC-
1 AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGG-CCA
33813235 AAACGCC
1 AAACGCC
33813242 GTAAAAAGTT
Statistics
Matches: 262, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
40 35 0.13
41 225 0.86
42 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTAAACAATAACAGCGTTTTTGGCCA
Found at i:33813000 original size:82 final size:82
Alignment explanation
Indices: 33812892--33813241 Score: 413
Period size: 82 Copynumber: 4.3 Consensus size: 82
33812882 TAACAAACAT
* * * * * * ** *
33812892 TAGCGGCG--TTTGTCCGAAACGCCACTAAAAACTAAACTATAACAGCGTTTTTGGCCAAAATGC
1 TAGCGGCGTTTTTGTCCAAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACGC
*
33812955 CACTAAAAACTGGTCAA
66 CACTAAAAACTGATCAA
* *
33812972 TAGCGGCGTTTTTGGCCAAAACGCCACTAAAAACTGGTCAATAGCGGCGTTTTTCA-CC-AAACG
1 TAGCGGCGTTTTTGTCCAAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-ATCCAAAACG
*
33813035 CCACTAAAAGCTGATCAA
65 CCACTAAAAACTGATCAA
** * * * *
33813053 TAGCGGCGTTTTAATCCCAAACGCCACTAAAAACTGATCAATTGCTGCGTTTTTATCCCAAACGC
1 TAGCGGCGTTTTTGTCCAAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACGC
33813118 CACTAAAAACTGATCAA
66 CACTAAAAACTGATCAA
* * * * * *
33813135 TTGTGGCGTTTTTATCCAAAATGCCACTAAAAACTGATCAATTGTGGCGTTTTTATCCAAAACGC
1 TAGCGGCGTTTTTGTCCAAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACGC
*
33813200 CACTAAAAACTGATTAA
66 CACTAAAAACTGATCAA
33813217 TAGCGGCGTTTTTGGTCC-AAACGCC
1 TAGCGGCGTTTTT-GTCCAAAACGCC
33813242 GTAAAAAGTT
Statistics
Matches: 231, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
80 9 0.04
81 69 0.30
82 150 0.65
83 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (82 bp):
TAGCGGCGTTTTTGTCCAAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACGC
CACTAAAAACTGATCAA
Found at i:33813237 original size:123 final size:122
Alignment explanation
Indices: 33812892--33813241 Score: 420
Period size: 122 Copynumber: 2.9 Consensus size: 122
33812882 TAACAAACAT
* * * * * * * ** *
33812892 TAGCGGCGTTTGTC-CGAAACGCCACTAAAAACTAAACTATAACAGCGTTTTTGGCCAAAATGCC
1 TAGCGGCGTTTTTCACCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACGCC
* *
33812956 ACTAAAAACTGGTCAATAGCGGCGTTTTTGG-CCAAAACGCCACTAAAAACTGGTCAA
66 ACTAAAAACTGATCAATAGCGGCGTTTTTGGTCC-AAACGCCACTAAAAACTGATCAA
* * *
33813013 TAGCGGCGTTTTTCACCAAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTAATCCCAAACGCC
1 TAGCGGCGTTTTTCACCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACGCC
* * *
33813078 ACTAAAAACTGATCAATTGCTGCGTTTTT-ATCCCAAACGCCACTAAAAACTGATCAA
66 ACTAAAAACTGATCAATAGCGGCGTTTTTGGT-CCAAACGCCACTAAAAACTGATCAA
* * * * *
33813135 TTGTGGCGTTTTT-ATCCAAAATGCCACTAAAAACTGATCAATTGTGGCGTTTTTATCCAAAACG
1 TAGCGGCGTTTTTCA-CC-AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACG
*
33813199 CCACTAAAAACTGATTAATAGCGGCGTTTTTGGTCCAAACGCC
64 CCACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCAAACGCC
33813242 GTAAAAAGTT
Statistics
Matches: 193, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
121 14 0.07
122 99 0.51
123 79 0.41
124 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (122 bp):
TAGCGGCGTTTTTCACCAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCCAAAACGCC
ACTAAAAACTGATCAATAGCGGCGTTTTTGGTCCAAACGCCACTAAAAACTGATCAA
Found at i:33813602 original size:20 final size:21
Alignment explanation
Indices: 33813547--33813621 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 21
33813537 CTTAAATCTT
* * *
33813547 AAACATTAAACCCTAAACCCT
1 AAACACTAAACCATAAACCCA
*** *
33813568 AAATTTTAAAACATAAA-CCA
1 AAACACTAAACCATAAACCCA
33813588 AAACACTAAACCATAAACTCCA
1 AAACACTAAACCATAAAC-CCA
*
33813610 AAACCCTAAACC
1 AAACACTAAACC
33813622 CCCCAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
20 15 0.36
21 13 0.31
22 14 0.33
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACACTAAACCATAAACCCA
Found at i:33814985 original size:40 final size:41
Alignment explanation
Indices: 33814940--33815034 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 41
33814930 GCGTTTTTAC
* *
33814940 AAAAAACGCCACTAAAAA-TAGAGAATTAGTGGCGCTTTCGT
1 AAAAAACGCCACTAAAAACT-GAGAATTAGCGACGCTTTCGT
* * * *
33814981 AAAAAATGCCGC-AAAAACTTAGAATTAGCGACGCTTTTGT
1 AAAAAACGCCACTAAAAACTGAGAATTAGCGACGCTTTCGT
33815021 --AAAACGCCACTAAA
1 AAAAAACGCCACTAAA
33815035 TGTTTAATTG
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
38 8 0.18
39 3 0.07
40 22 0.50
41 11 0.25
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAAAACGCCACTAAAAACTGAGAATTAGCGACGCTTTCGT
Found at i:33815643 original size:18 final size:19
Alignment explanation
Indices: 33815609--33815644 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33815599 CTTCTTTCTG
33815609 TAGAATTGCAAAGATGAAA
1 TAGAATTGCAAAGATGAAA
*
33815628 TAGAATTG-AGAGATGAA
1 TAGAATTGCAAAGATGAA
33815645 GAATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.22
Consensus pattern (19 bp):
TAGAATTGCAAAGATGAAA
Found at i:33816039 original size:11 final size:11
Alignment explanation
Indices: 33816023--33816072 Score: 64
Period size: 11 Copynumber: 4.4 Consensus size: 11
33816013 CAACTTGTAT
33816023 ATTTGTCAAGA
1 ATTTGTCAAGA
33816034 ATTTGTCAAGA
1 ATTTGTCAAGA
* *
33816045 ATTTGACAAAATA
1 ATTTGTC--AAGA
33816058 ATTTGTCAAGA
1 ATTTGTCAAGA
33816069 ATTT
1 ATTT
33816073 TTAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 24 0.73
13 9 0.27
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (11 bp):
ATTTGTCAAGA
Found at i:33823114 original size:31 final size:31
Alignment explanation
Indices: 33823068--33823134 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
33823058 TGGTTGTATT
* *
33823068 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
33823099 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
33823130 TTTTA
1 TTTTA
33823135 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:33831433 original size:24 final size:24
Alignment explanation
Indices: 33831401--33831447 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
33831391 CTCTGGATAT
33831401 CAGAAAGGACGTCAAGCATAACTC
1 CAGAAAGGACGTCAAGCATAACTC
*
33831425 CAGAAAGGATGTCAAGCATAACT
1 CAGAAAGGACGTCAAGCATAACT
33831448 GTCAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (24 bp):
CAGAAAGGACGTCAAGCATAACTC
Found at i:33839099 original size:27 final size:26
Alignment explanation
Indices: 33839062--33839176 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
33839052 AGCATGGCTG
* *
33839062 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
33839088 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
33839116 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
33839143 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
33839170 CCAGAAC
1 CCAGAAC
33839177 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:33839126 original size:54 final size:54
Alignment explanation
Indices: 33839062--33839176 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
33839052 AGCATGGCTG
*
33839062 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
33839116 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
33839170 CCAGAAC
1 CCAGAAC
33839177 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:33840829 original size:26 final size:26
Alignment explanation
Indices: 33840793--33840902 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
33840783 CATGAAATAC
33840793 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
33840819 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
33840845 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
33840871 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
33840897 TTATCA
1 TTATCA
33840903 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:33840913 original size:10 final size:10
Alignment explanation
Indices: 33840898--33840924 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
33840888 CCTAACCTAT
33840898 TATCAATTTG
1 TATCAATTTG
33840908 TATCAATTTG
1 TATCAATTTG
33840918 TATCAAT
1 TATCAAT
33840925 AAATTATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:33847191 original size:19 final size:19
Alignment explanation
Indices: 33847169--33847211 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
33847159 AACAAGTTTA
* *
33847169 TAAAAAATATAAAAAATAC
1 TAAAAAATAAAAAAAAAAC
*
33847188 TAAAAATTAAAAAAAAAAC
1 TAAAAAATAAAAAAAAAAC
33847207 TAAAA
1 TAAAA
33847212 TTGATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (19 bp):
TAAAAAATAAAAAAAAAAC
Found at i:33847239 original size:28 final size:28
Alignment explanation
Indices: 33847208--33847389 Score: 102
Period size: 28 Copynumber: 6.2 Consensus size: 28
33847198 AAAAAAAACT
*
33847208 AAAATTGATATAAACTTATAAAAATTA-A
1 AAAATTCATA-AAACTTATAAAAATTATA
* * *
33847236 AAAAATCATAAAAACTTATAAATATTATG
1 AAAATTCAT-AAAACTTATAAAAATTATA
* * *
33847265 AAAATTTATAAAAATTATAATATATTATAA
1 AAAATTCATAAAACTTATAA-AAATTAT-A
* *
33847295 AAAATTAATAAAACATATTTAAAACATT-TA
1 AAAATTCATAAAAC-T-TATAAAA-ATTATA
* * * *
33847325 AAATTTTATAAAAACTTAATAGAAATTCAAA
1 AAAATTCAT-AAAACTT-ATAAAAATT-ATA
*
33847356 AAAATT-ATAAATA-ATATAAAAATTATGA
1 AAAATTCATAAA-ACTTATAAAAATTAT-A
33847384 AAAATT
1 AAAATT
33847390 AGATATTATT
Statistics
Matches: 120, Mismatches: 21, Indels: 26
0.72 0.13 0.16
Matches are distributed among these distances:
27 1 0.01
28 47 0.39
29 23 0.19
30 28 0.23
31 14 0.12
32 7 0.06
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATTCATAAAACTTATAAAAATTATA
Found at i:33847249 original size:19 final size:19
Alignment explanation
Indices: 33847223--33847390 Score: 83
Period size: 19 Copynumber: 8.7 Consensus size: 19
33847213 TGATATAAAC
33847223 TTAT-AAAAATTAAAAAAA
1 TTATAAAAAATTAAAAAAA
* * * *
33847241 TCATAAAAACTTATAAATA
1 TTATAAAAAATTAAAAAAA
* * *
33847260 TTATGAAAATTTATAAAAA
1 TTATAAAAAATTAAAAAAA
* *
33847279 TTATAATATATTATAAAAAA
1 TTATAAAAAATTA-AAAAAA
* *
33847299 TTAATAAAACATATTTAAAACA
1 TT-ATAAAA-A-ATTAAAAAAA
** *
33847321 TT-TAAAATTTTATAAAAAC
1 TTATAAAAAATTA-AAAAAA
*
33847340 TTA-ATAGAAATTCAAAAAAA
1 TTATA-AAAAATT-AAAAAAA
* *
33847360 TTATAAATAA-TATAAAAA
1 TTATAAAAAATTAAAAAAA
*
33847378 TTATGAAAAATTA
1 TTATAAAAAATTA
33847391 GATATTATTA
Statistics
Matches: 108, Mismatches: 31, Indels: 21
0.68 0.19 0.13
Matches are distributed among these distances:
18 19 0.18
19 45 0.42
20 27 0.25
21 7 0.06
22 7 0.06
23 3 0.03
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.34
Consensus pattern (19 bp):
TTATAAAAAATTAAAAAAA
Found at i:33847256 original size:10 final size:9
Alignment explanation
Indices: 33847166--33847390 Score: 132
Period size: 9 Copynumber: 23.3 Consensus size: 9
33847156 ATTAACAAGT
33847166 TTATAAAAA
1 TTATAAAAA
*
33847175 ATATAAAAA
1 TTATAAAAA
*
33847184 ATACTAAAAA
1 TTA-TAAAAA
*
33847194 TTAAAAAAA
1 TTATAAAAA
**
33847203 AAACT-AAAA
1 TTA-TAAAAA
*
33847212 TTGATATAAAC
1 TT-ATA-AAAA
33847223 TTATAAAAA
1 TTATAAAAA
*
33847232 TTAAAAAAA
1 TTATAAAAA
*
33847241 TCATAAAAA
1 TTATAAAAA
*
33847250 CTTATAAATA
1 -TTATAAAAA
*
33847260 TTATGAAAAT
1 TTAT-AAAAA
33847270 TTATAAAAA
1 TTATAAAAA
*
33847279 TTATAATATA
1 TTATAA-AAA
33847289 TTATAAAAAA
1 TTAT-AAAAA
33847299 TTAATAAAACA
1 TT-ATAAAA-A
*
33847310 TATTTAAAACA
1 T-TATAAAA-A
*
33847321 TT-TAAAATT
1 TTATAAAA-A
33847330 TTATAAAAA
1 TTATAAAAA
*
33847339 CTTAATAGAAA
1 -TT-ATAAAAA
*
33847350 TTCAAAAAAA
1 TT-ATAAAAA
33847360 TTATAAATAA
1 TTATAAA-AA
33847370 -TATAAAAA
1 TTATAAAAA
33847378 TTATGAAAAA
1 TTAT-AAAAA
33847388 TTA
1 TTA
33847391 GATATTATTA
Statistics
Matches: 169, Mismatches: 29, Indels: 35
0.73 0.12 0.15
Matches are distributed among these distances:
8 2 0.01
9 74 0.44
10 67 0.40
11 25 0.15
12 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:33859806 original size:39 final size:40
Alignment explanation
Indices: 33859761--33859932 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
33859751 GCTCCTCATT
* * *
33859761 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
33859801 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
33859840 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
33859880 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
33859920 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
33859933 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:33859945 original size:80 final size:79
Alignment explanation
Indices: 33859761--33859985 Score: 204
Period size: 80 Copynumber: 2.8 Consensus size: 79
33859751 GCTCCTCATT
* * * * * * *
33859761 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
33859825 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * *
33859840 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** *
33859905 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
** * * * *
33859920 CAAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAAGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
33859984 GA
63 GA
33859986 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 67 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAAAGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAACAACTCGCA
Found at i:33859994 original size:41 final size:41
Alignment explanation
Indices: 33859917--33859994 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
33859907 TTTGTATCTC
* * *
33859917 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
33859958 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
33859995 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:33865316 original size:47 final size:47
Alignment explanation
Indices: 33865238--33865651 Score: 621
Period size: 47 Copynumber: 8.6 Consensus size: 47
33865228 CCCTTCGGGA
* * * * * *
33865238 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33865285 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33865332 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33865379 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33865428 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33865477 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33865524 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33865571 CTTATCACATATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
33865622 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
33865652 TCAAATATAC
Statistics
Matches: 341, Mismatches: 20, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
47 200 0.59
49 102 0.30
51 39 0.11
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33865510 original size:145 final size:145
Alignment explanation
Indices: 33865238--33865651 Score: 660
Period size: 145 Copynumber: 2.9 Consensus size: 145
33865228 CCCTTCGGGA
* * * * *
33865238 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
33865299 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
33865364 CATCAGCCATTAGGC
131 CATCAGCCATTAGGC
33865379 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
*
33865444 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* *
33865509 CATCGGCTATTAGGC
131 CATCAGCCATTAGGC
* *
33865524 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
* *
33865587 ACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCAT
66 --ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
33865652 TCAAATATAC
Statistics
Matches: 254, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 92 0.36
145 151 0.59
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCAGCCATTAGGC
Found at i:33865576 original size:192 final size:193
Alignment explanation
Indices: 33865238--33865651 Score: 694
Period size: 192 Copynumber: 2.2 Consensus size: 193
33865228 CCCTTCGGGA
* * * * *
33865238 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
33865301 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
33865366 TCAGCCATTAGGCCTTATCACATATATAT-ACACTTTCACATTCATCACATTGGCCATTCGGC
131 TCAGCCATTAGGCCTTATCACATATATATAACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
33865428 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
33865493 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
33865558 TCGGCCATTAGGCCTTATCACATATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
131 TCAGCCATTAGGCCTTATCACATATATATA-ACACTTTCACATTCATCACATTGGCCATTCGGC
33865622 CTTATCAC--ATATATACACTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
33865652 TCAAATATAC
Statistics
Matches: 210, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
190 10 0.05
191 1 0.00
192 158 0.75
194 41 0.20
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (193 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCAGCCATTAGGCCTTATCACATATATATAACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:33867919 original size:85 final size:85
Alignment explanation
Indices: 33867790--33867968 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
33867780 TATTTTATTG
*
33867790 CCCATGCCCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33867855 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
33867875 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33867940 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
33867960 CCCATGCTC
1 CCCATGCTC
33867969 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:33869488 original size:57 final size:58
Alignment explanation
Indices: 33869415--33869523 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
33869405 GCCCACTGAT
* * *
33869415 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACATAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
33869472 CGATTTCGCACACATAGTGCTCGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
33869524 TAATCATTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 24 0.53
58 21 0.47
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:33869511 original size:29 final size:28
Alignment explanation
Indices: 33869422--33869520 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 28
33869412 GATCGATCTC
* * * *
33869422 GCACACATAGTGCTTGGTTGAAGAACTC
1 GCACACATAGTGCTCGGTTAAAGAATTT
** **
33869450 GCACACATAGTGCCTCAATTACCG-ATTT
1 GCACACATAGTG-CTCGGTTAAAGAATTT
33869478 CGCACACATAGTGCTCGGTTAAAAGAATTT
1 -GCACACATAGTGCTCGGTT-AAAGAATTT
*
33869508 GCACACACAGTGC
1 GCACACATAGTGC
33869521 CTCTAATCAT
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
28 19 0.35
29 31 0.57
30 4 0.07
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (28 bp):
GCACACATAGTGCTCGGTTAAAGAATTT
Found at i:33869767 original size:40 final size:40
Alignment explanation
Indices: 33869735--33870164 Score: 729
Period size: 40 Copynumber: 10.8 Consensus size: 40
33869725 CCAGCATGAT
* * *
33869735 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
33869775 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
33869815 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
33869855 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33869895 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
33869935 TGCTCCTC-GGACTTAGCCCGGATATATCACTACCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33869974 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
33870014 TGCTC-TCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33870053 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
33870093 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33870133 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
33870165 CTCAATTCTC
Statistics
Matches: 367, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 75 0.20
40 292 0.80
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:33871669 original size:47 final size:47
Alignment explanation
Indices: 33871617--33871977 Score: 596
Period size: 47 Copynumber: 7.6 Consensus size: 47
33871607 CTCGGCCCTG
33871617 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
33871664 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
33871711 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
33871760 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
33871809 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
33871856 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
33871903 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
33871952 TCACATAAATACGCTTTCACATTCAT
1 TCACATATATACACTTTCACATTCAT
33871978 TCAAATATAC
Statistics
Matches: 300, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
47 164 0.55
49 136 0.45
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:33871757 original size:96 final size:96
Alignment explanation
Indices: 33871621--33871977 Score: 610
Period size: 96 Copynumber: 3.7 Consensus size: 96
33871611 GCCCTGTCAC
33871621 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
33871686 TCATCACATCGGCCATTAGGCCTTATCACAT
66 TCATCACATCGGCCATTAGGCCTTATCACAT
* *
33871717 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCAC
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCAC
*
33871782 ATTCATCACATCGGCTATTAGGCCTTATCAC--
64 ATTCATCACATCGGCCATTAGGCCTTATCACAT
*
33871813 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
33871878 TCATCACATCGGCCATTAGGCCTTATCACAT
66 TCATCACATCGGCCATTAGGCCTTATCACAT
* * * *
33871909 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAAATACGCTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
33871974 TCAT
66 TCAT
33871978 TCAAATATAC
Statistics
Matches: 245, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
94 46 0.19
96 153 0.62
98 46 0.19
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:33871829 original size:38 final size:42
Alignment explanation
Indices: 33871633--33871958 Score: 238
Period size: 49 Copynumber: 6.9 Consensus size: 42
33871623 ATATACACTT
*
33871633 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
*
33871677 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCAC--ATATATA-A
* * *
33871726 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCAC--ATATATA-A
33871775 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
33871822 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
*
33871869 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCAC--ATATATA-A
* * *
33871918 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATA
33871959 AATACGCTTT
Statistics
Matches: 267, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
47 131 0.49
49 136 0.51
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (42 bp):
TCACATTATCACATCGGCTATTAGGCCTTATCACATATATAA
Found at i:33871921 original size:192 final size:190
Alignment explanation
Indices: 33871617--33871977 Score: 686
Period size: 192 Copynumber: 1.9 Consensus size: 190
33871607 CTCGGCCCTG
33871617 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
33871682 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGG
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGG
33871747 CCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
131 CCATTCGGCCTTATCACATA-A-ATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
33871809 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
33871874 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGG
66 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGG
*
33871939 CCATTCGGCCTTATCACATAAATACGCTTTCACATTCAT
131 CCATTCGGCCTTATCACATAAATACACTTTCACATTCAT
33871978 TCAAATATAC
Statistics
Matches: 167, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
190 17 0.10
191 1 0.01
192 149 0.89
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (190 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGG
CCATTCGGCCTTATCACATAAATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
Found at i:33873987 original size:85 final size:85
Alignment explanation
Indices: 33873858--33874036 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
33873848 TATTTTATTG
*
33873858 CCCATGCCCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33873923 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
33873943 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
33874008 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
33874028 CCCATGCTC
1 CCCATGCTC
33874037 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTATATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:33904606 original size:23 final size:25
Alignment explanation
Indices: 33904547--33904607 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
33904537 GTGTTTTGTT
33904547 TTAATT-AAAA-TAACCTTTAATAA
1 TTAATTCAAAATTAACCTTTAATAA
*
33904570 TTAAATACCAAAATTAACCTTT-A-AA
1 TT-AAT-TCAAAATTAACCTTTAATAA
33904595 TTAATTCAAAATT
1 TTAATTCAAAATT
33904608 TCGTTTATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
23 9 0.28
24 6 0.19
25 4 0.12
26 5 0.16
27 8 0.25
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (25 bp):
TTAATTCAAAATTAACCTTTAATAA
Found at i:33905661 original size:144 final size:144
Alignment explanation
Indices: 33905401--33905800 Score: 672
Period size: 144 Copynumber: 2.8 Consensus size: 144
33905391 TTTTATCTCC
*
33905401 CACTTAATAATTTAATCCAACCCAATACTTGTTTTCTATTTCCCAAAATTAATATTATTTATTTA
1 CACTTCATAATTTAATCCAACCCAATACTTGTTTTCTATTTCCCAAAATTAATATTATTTATTTA
33905466 ATTAATGAAATCAACTAAACCAATTTCCTAATTAAATAATTTTTTCAATCCAGTTCTAACCAGTC
66 ATTAATGAAATCAACTAAACCAATTTCCTAATTAAATAATTTTTTCAATCCAGTTCTAACCAGTC
33905531 CAATTTTGATCTTG
131 CAATTTTGATCTTG
33905545 CACTTCATAATTTAATCCAACCCAATACTTGTTTTCTATTTCCCAAAATTAATATTATTTATTTA
1 CACTTCATAATTTAATCCAACCCAATACTTGTTTTCTATTTCCCAAAATTAATATTATTTATTTA
33905610 ATTAATGAAATCAACTAAACCAATTTCCTAATTAAATAATTTTTTCAATCCAGTTCTAACCAGTC
66 ATTAATGAAATCAACTAAACCAATTTCCTAATTAAATAATTTTTTCAATCCAGTTCTAACCAGTC
33905675 CAATTTTGATCTTG
131 CAATTTTGATCTTG
*
33905689 CACTTCATAATTTAATCCAACCCAATACTTGTTTTCTATTTTCCAAAA-T-A-A--A--TA-TTA
1 CACTTCATAATTTAATCCAACCCAATACTTGTTTTCTATTTCCCAAAATTAATATTATTTATTTA
* ** ** *
33905746 ATTAATTAAATCAACTAAATTAATTTTTTAATTAAATAATTTTCTCAATCCAGTT
66 ATTAATGAAATCAACTAAACCAATTTCCTAATTAAATAATTTTTTCAATCCAGTT
33905801 TTAATTCCAT
Statistics
Matches: 248, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
136 52 0.21
137 2 0.01
139 1 0.00
141 1 0.00
142 1 0.00
143 1 0.00
144 190 0.77
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (144 bp):
CACTTCATAATTTAATCCAACCCAATACTTGTTTTCTATTTCCCAAAATTAATATTATTTATTTA
ATTAATGAAATCAACTAAACCAATTTCCTAATTAAATAATTTTTTCAATCCAGTTCTAACCAGTC
CAATTTTGATCTTG
Found at i:33907686 original size:18 final size:17
Alignment explanation
Indices: 33907662--33907707 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
33907652 TTTTACATAC
33907662 TTTTTAATATTTATAAT
1 TTTTTAATATTTATAAT
* *
33907679 TTTCTTAAAAATTATAAT
1 TTT-TTAATATTTATAAT
33907697 TTTTT-ATATTT
1 TTTTTAATATTT
33907708 CATTAGAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAATATTTATAAT
Found at i:33907865 original size:10 final size:9
Alignment explanation
Indices: 33907729--33907957 Score: 71
Period size: 9 Copynumber: 23.7 Consensus size: 9
33907719 ATTATGAATC
33907729 TTTTATAACT
1 TTTTATAA-T
*
33907739 TTTGATAA-
1 TTTTATAAT
33907747 TTTTATAAGT
1 TTTTATAA-T
* *
33907757 TTATAGAAT
1 TTTTATAAT
33907766 GTTTT-TATAT
1 -TTTTATA-AT
33907776 TTTTA-ACAT
1 TTTTATA-AT
33907785 GTTTTAT--T
1 -TTTTATAAT
33907793 TTTTATAATT
1 TTTTATAA-T
33907803 ACTTTTATAA-
1 --TTTTATAAT
*
33907813 TTTAATAGTAT
1 TTTTATA--AT
33907824 CTTTTATAAT
1 -TTTTATAAT
33907834 TTTTATAAT
1 TTTTATAAT
*
33907843 ATTTATAAGT
1 TTTTATAA-T
33907853 TTTTATGAATTT
1 TTTTAT-AA--T
* **
33907865 TTTTGTAGC
1 TTTTATAAT
33907874 TTTTATAAGT
1 TTTTATAA-T
33907884 TTCTGTA-AAT
1 TT-T-TATAAT
*
33907894 ATTTCATACAT
1 -TTTTATA-AT
33907905 TTTT-TAAT
1 TTTTATAAT
33907913 ATTTT-TAAAT
1 -TTTTAT-AAT
*
33907923 TTGTAATAAT
1 TT-TTATAAT
*
33907933 CTTTTATGAT
1 -TTTTATAAT
33907943 TTTTATAAT
1 TTTTATAAT
33907952 TTTTAT
1 TTTTAT
33907958 GAGAAAAATA
Statistics
Matches: 165, Mismatches: 24, Indels: 61
0.66 0.10 0.24
Matches are distributed among these distances:
7 6 0.04
8 16 0.10
9 55 0.33
10 53 0.32
11 13 0.08
12 22 0.13
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Done.