Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 189 of 438
Found at i:58500988 original size:40 final size:40
Alignment explanation
Indices: 58500943--58501110 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
58500933 CGGAATATAA
58500943 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58500983 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
58501023 CCGGATATAGCCACTAGCACAATTGCCTTTGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * * *
58501063 CCGGATATAATTTCCAGCATAATTGTCTTTGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58501103 CCGGATAT
1 CCGGATAT
58501111 TATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58502828 original size:29 final size:29
Alignment explanation
Indices: 58502795--58502868 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
58502785 CCTTCGAGCT
58502795 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
58502824 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58502853 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
58502869 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:58502829 original size:58 final size:58
Alignment explanation
Indices: 58502736--58502868 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
58502726 ATACTCGATT
* * * * *
58502736 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
58502794 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
58502852 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
58502869 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:58523977 original size:27 final size:28
Alignment explanation
Indices: 58523947--58524016 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58523937 ATAATAAGTC
*
58523947 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
58523974 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
58524002 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58524017 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58527836 original size:27 final size:26
Alignment explanation
Indices: 58527806--58528093 Score: 279
Period size: 27 Copynumber: 10.7 Consensus size: 26
58527796 TTAGTTTACC
58527806 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
* *
58527833 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
* *
58527860 AAATCACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
* * *
58527887 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
58527914 AAATTACCAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
58527941 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCC-TGGTTTGTA
* *
58527968 AAATTATCAAAATACCTCTAGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
** *
58527995 AAATTACCAAAATATCCCTAATTTGTG
1 AAATTACCAAAATA-CCCTGGTTTGTA
** ***
58528022 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
*** **
58528049 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
58528076 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
58528094 TGATTTACAG
Statistics
Matches: 221, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.04
27 207 0.94
28 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGGTTTGTA
Found at i:58527871 original size:54 final size:54
Alignment explanation
Indices: 58527806--58528013 Score: 308
Period size: 54 Copynumber: 3.8 Consensus size: 54
58527796 TTAGTTTACC
*
58527806 AAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
58527860 AAATCACCAAAATACCATTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
58527914 AAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
58527968 AAATTATCAAAATACCTCTAGTTTGTAAAATTACCAAAATATCCCT
1 AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATA-CCCT
58528014 AATTTGTGAA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
54 135 0.97
55 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATTACCAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:58528186 original size:27 final size:27
Alignment explanation
Indices: 58528153--58528496 Score: 463
Period size: 27 Copynumber: 12.7 Consensus size: 27
58528143 AACCCAATAA
**
58528153 GGTAGAATTACTAAAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* * * *
58528180 GGCAGAAATACCGAAATACCCTTATAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
58528207 GGTAGAATTACCGCAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* *
58528234 GGTAGAATTAACGCAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
58528261 GGTAGAATTACCGCAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* *
58528288 GGTAGAATTACCAAAATACCCCTATAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* *
58528315 GGTAGAATTACCGGAATACCCTTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
58528342 GGTAGAATTACCGAAATATCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
58528369 GGTAGAATTACCGAAATACCCTTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
58528396 GTTAGAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* *
58528423 GGTAGAATTATCGCAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
** *
58528450 GGTAGAATTACTAAAATACCCCTGTAT
1 GGTAGAATTACCGAAATACCCCTGTAG
** *
58528477 GGCGGAATTACCGAGATACC
1 GGTAGAATTACCGAAATACC
58528497 TTGTGGGGTA
Statistics
Matches: 277, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 277 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
GGTAGAATTACCGAAATACCCCTGTAG
Found at i:58528944 original size:27 final size:27
Alignment explanation
Indices: 58528904--58528955 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
58528894 GCCATCTTGA
*
58528904 CTATGGCTTCGTGCCAAACGTATTTAC
1 CTATGGCTTCGTGCCAAACATATTTAC
*
58528931 CTATGGCTAT-GTGCCTAACATATTT
1 CTATGGCT-TCGTGCCAAACATATTT
58528956 TTTCATGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (27 bp):
CTATGGCTTCGTGCCAAACATATTTAC
Found at i:58529316 original size:6 final size:6
Alignment explanation
Indices: 58529285--58529360 Score: 66
Period size: 6 Copynumber: 12.3 Consensus size: 6
58529275 TTGTATTCCC
* *
58529285 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
58529334 -TCACCTG ATTCTG ATTCTG GTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT
58529361 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
5 3 0.05
6 45 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:58529323 original size:31 final size:31
Alignment explanation
Indices: 58529285--58529360 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
58529275 TTGTATTCCC
* *
58529285 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
58529316 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
58529347 ATTCTGGTTCTGAT
1 ATTCTGATTCTGAT
58529361 AATGTTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:58533473 original size:15 final size:15
Alignment explanation
Indices: 58533425--58533474 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
58533415 ACAGGGGCTG
58533425 ACACCTAGAGGTTCAC
1 ACACCTAG-GGTTCAC
* * **
58533441 ATACCTAGTGTTTTC
1 ACACCTAGGGTTCAC
58533456 ACACCTAGGGTTCAC
1 ACACCTAGGGTTCAC
58533471 ACAC
1 ACAC
58533475 ATGTGATCAC
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (15 bp):
ACACCTAGGGTTCAC
Found at i:58533675 original size:44 final size:44
Alignment explanation
Indices: 58533627--58533763 Score: 157
Period size: 44 Copynumber: 3.1 Consensus size: 44
58533617 ATGTACTAAT
* * * *
58533627 ATATATGTTCGCATATTCCAACGTATAGGCTCGCATAATTAAAC
1 ATATATGTTCACATATTCTAACGTATAAGATCGCATAATTAAAC
* * * * *
58533671 ATATATTTTCAAAAATTCTAACATATAAGATCGCATAATTGAAC
1 ATATATGTTCACATATTCTAACGTATAAGATCGCATAATTAAAC
* * * *
58533715 ATATAGGGTCACATATTCTAGCGTATAAGATCGAATAATTAAAC
1 ATATATGTTCACATATTCTAACGTATAAGATCGCATAATTAAAC
58533759 ATATA
1 ATATA
58533764 GGCTTACATA
Statistics
Matches: 75, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (44 bp):
ATATATGTTCACATATTCTAACGTATAAGATCGCATAATTAAAC
Found at i:58533715 original size:22 final size:22
Alignment explanation
Indices: 58533690--58533763 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
58533680 CAAAAATTCT
*
58533690 AACATATAAGATCGCATAATTG
1 AACATATAAGATCGCATAATTA
* * * *
58533712 AACATATAGGGTCACAT-ATTCT
1 AACATATAAGATCGCATAATT-A
* * *
58533734 AGCGTATAAGATCGAATAATTA
1 AACATATAAGATCGCATAATTA
58533756 AACATATA
1 AACATATA
58533764 GGCTTACATA
Statistics
Matches: 37, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
21 3 0.08
22 31 0.84
23 3 0.08
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (22 bp):
AACATATAAGATCGCATAATTA
Found at i:58536299 original size:13 final size:13
Alignment explanation
Indices: 58536278--58536311 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
58536268 TCTTTGATTT
58536278 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
58536292 GTTATTTATTTTA
1 ATTATTTATTTTA
58536305 ATTATTT
1 ATTATTT
58536312 TATCTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:58537330 original size:26 final size:26
Alignment explanation
Indices: 58537296--58537353 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
58537286 ATGCCTAAAA
58537296 TAAG-TAAGCTAATCAATTTCAAACC
1 TAAGTTAAGCTAATCAATTTCAAACC
58537321 TAAGTTAAGCTAATCAATTTCAAACC
1 TAAGTTAAGCTAATCAATTTCAAACC
58537347 TAAGTTA
1 TAAGTTA
58537354 TGAAAGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (26 bp):
TAAGTTAAGCTAATCAATTTCAAACC
Found at i:58544377 original size:44 final size:44
Alignment explanation
Indices: 58544327--58544421 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
58544317 TCGTACATAC
* * * *
58544327 AAACATATATCTTCGCATATTCCAAAATATAGGCTCACGTAATT
1 AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
* * * *
58544371 AAACATATATTTTCACAAATTCTAATATATAAGCTCGCATAATT
1 AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
58544415 AAACATA
1 AAACATA
58544422 CTTGCTTGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (44 bp):
AAACATATATCTTCACAAATTCCAAAATATAAGCTCACATAATT
Found at i:58544517 original size:21 final size:22
Alignment explanation
Indices: 58544476--58544517 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
58544466 GTTTTAGGTT
*
58544476 TCACATGTGTTTTGTATAGGGA
1 TCACATGTGTTTTCTATAGGGA
58544498 TCACATG-GTTTTACTA-AGGG
1 TCACATGTGTTTT-CTATAGGG
58544518 TTCCCATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (22 bp):
TCACATGTGTTTTCTATAGGGA
Found at i:58547828 original size:29 final size:29
Alignment explanation
Indices: 58547800--58547901 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
58547790 CCTCCGAGCT
** * * *
58547800 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
58547829 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58547858 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58547887 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
58547902 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:58555653 original size:29 final size:29
Alignment explanation
Indices: 58555625--58555726 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
58555615 CCTCCGAGCT
** * * *
58555625 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
58555654 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58555683 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
58555712 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
58555727 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:58559058 original size:40 final size:40
Alignment explanation
Indices: 58559014--58559106 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
58559004 TATTTGTGGA
* * *
58559014 ACTTAGTGTGCGATTCGATATAGCTTCAGCTA-GATATGGT
1 ACTTAGTGTGCGATTCGAGATAGCTTCAGCTATGA-ACGGC
*
58559054 ACTTA-TGGTGCGATTTGAGATAGCTTCAGCTATGAACGGC
1 ACTTAGT-GTGCGATTCGAGATAGCTTCAGCTATGAACGGC
58559094 ACTTAGTGTGCGA
1 ACTTAGTGTGCGA
58559107 GGTATCAAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 1 0.02
40 42 0.91
41 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (40 bp):
ACTTAGTGTGCGATTCGAGATAGCTTCAGCTATGAACGGC
Found at i:58559169 original size:28 final size:28
Alignment explanation
Indices: 58559091--58559174 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
58559081 AGCTATGAAC
* ** *
58559091 GGCACTTAGTGTGCGAGGTATCAAGTGT
1 GGCACTTAGTGTGCGAGGAATTGAGTAT
* *
58559119 GGCACTTAGTGTGCAAGAAATTGAGTAT
1 GGCACTTAGTGTGCGAGGAATTGAGTAT
*
58559147 GGCACTTAGTGTGCGAGGCATTGAGTAT
1 GGCACTTAGTGTGCGAGGAATTGAGTAT
58559175 TCAACGACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGGAATTGAGTAT
Found at i:58562939 original size:55 final size:55
Alignment explanation
Indices: 58562855--58562964 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
58562845 ATTTCATGGT
58562855 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
1 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
58562910 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
1 TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
58562965 GCCATTCCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (55 bp):
TTCCATGGATTAGCTAGTAATTTGACATACATAGGACCAAATATGATCATAATTA
Found at i:58563888 original size:40 final size:41
Alignment explanation
Indices: 58563799--58563948 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
58563789 TGCTGACTCA
* *
58563799 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
58563840 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
58563880 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
58563921 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
58563949 TAAACCCCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 32 0.34
41 61 0.66
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:58573621 original size:40 final size:39
Alignment explanation
Indices: 58573562--58573764 Score: 194
Period size: 40 Copynumber: 5.1 Consensus size: 39
58573552 GGAATTTAGT
* ** *
58573562 CGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGCC
* *** *
58573602 CGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGCC
58573642 CGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGCC
* * *
58573682 CGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGCC
* * *
58573722 CGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGCC
58573762 CGG
1 CGG
58573765 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 140 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGCC
Found at i:58573705 original size:80 final size:78
Alignment explanation
Indices: 58573562--58573764 Score: 244
Period size: 80 Copynumber: 2.5 Consensus size: 78
58573552 GGAATTTAGT
* * * ** *
58573562 CGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGC
1 CGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATGC
*
58573627 CTTCGGGTCTTAGCC
64 CTTCGGGACTTAGCC
* * *
58573642 CGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
1 CGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATGC
58573707 CTTCGGGACTTAGCC
64 CTTCGGGACTTAGCC
* *
58573722 CGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCCCGG
58573765 GTATCATTCA
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 102 0.96
81 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATGCCT
TCGGGACTTAGCC
Found at i:58590548 original size:26 final size:26
Alignment explanation
Indices: 58590518--58590575 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
58590508 TAGATAGAAA
*
58590518 TTTTAAAAAGGAAATGATTTAAATAT
1 TTTTAAAAAGGAAATAATTTAAATAT
* * *
58590544 TTTTATATAGGTAATAATTTAAATAT
1 TTTTAAAAAGGAAATAATTTAAATAT
58590570 TATTTA
1 T-TTTA
58590576 TTATGTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.47
Consensus pattern (26 bp):
TTTTAAAAAGGAAATAATTTAAATAT
Found at i:58591428 original size:14 final size:14
Alignment explanation
Indices: 58591411--58591442 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58591401 AAGAAATATA
58591411 AAATCGATAATAAT
1 AAATCGATAATAAT
*
58591425 AAATCGATAATGAT
1 AAATCGATAATAAT
58591439 AAAT
1 AAAT
58591443 TATATTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.28
Consensus pattern (14 bp):
AAATCGATAATAAT
Found at i:58594003 original size:30 final size:29
Alignment explanation
Indices: 58593948--58594009 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
58593938 GACACGGGCT
*
58593948 AGGACACGGGCATGTCATGGCCGTGTG-C
1 AGGACACGGGCATGACATGGCCGTGTGTC
*
58593976 AGGACACGGGCCATAGACATGGGCGTGTGTC
1 AGGACACGGG-CAT-GACATGGCCGTGTGTC
58594007 AGG
1 AGG
58594010 CCGTGTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.34
29 3 0.10
30 12 0.41
31 4 0.14
ACGTcount: A:0.21, C:0.23, G:0.40, T:0.16
Consensus pattern (29 bp):
AGGACACGGGCATGACATGGCCGTGTGTC
Found at i:58594161 original size:21 final size:21
Alignment explanation
Indices: 58594136--58594191 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
58594126 GTCATAATAG
58594136 CCACACGGGCGTGTTGTCCTT
1 CCACACGGGCGTGTTGTCCTT
58594157 CCACACGGGCGTGTTGTCCTT
1 CCACACGGGCGTGTTGTCCTT
58594178 CCACACGGGCGTGT
1 CCACACGGGCGTGT
58594192 GCCTTGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.11, C:0.34, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTGTCCTT
Found at i:58595999 original size:2 final size:2
Alignment explanation
Indices: 58595994--58596024 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58595984 TTATTGATGC
58595994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58596025 AAGTAGACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58598536 original size:29 final size:29
Alignment explanation
Indices: 58598464--58598528 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
58598454 GTGACGAGAT
58598464 CGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAATATA
*
58598493 TGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAATATA
58598522 CGGCACT
1 CGGCACT
58598529 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (29 bp):
CGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:58606344 original size:29 final size:29
Alignment explanation
Indices: 58606274--58606336 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
58606264 GACGAGATCA
*
58606274 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATACG
58606303 GCACTAAGTGTGCATGCTGGAAATATACG
1 GCACTAAGTGTGCATGCTGGAAATATACG
58606332 GCACT
1 GCACT
58606337 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATACG
Found at i:58622251 original size:40 final size:40
Alignment explanation
Indices: 58622196--58622437 Score: 337
Period size: 40 Copynumber: 6.0 Consensus size: 40
58622186 GATGATAATG
* *
58622196 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
58622236 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
58622276 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
58622316 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * ** *
58622356 GGGCTAAGTCCCGAAGACATTTGTACGAACTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
58622396 GGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
58622436 GG
1 GG
58622438 TTAAATCCCA
Statistics
Matches: 183, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:58627240 original size:28 final size:28
Alignment explanation
Indices: 58627193--58627288 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
58627183 ATTTAAACCC
*
58627193 TAGGGGT-ATATT-GGTAATTTTGCTCCT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
58627220 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
58627248 TAGGGGTAA-TTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
58627275 TAAGGGTAATTTCG
1 TAGGGGTAATTTCG
58627289 TGTTCTACAT
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
27 35 0.55
28 29 0.45
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:58628941 original size:20 final size:20
Alignment explanation
Indices: 58628918--58628955 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58628908 CACATCCAAA
*
58628918 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
58628938 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
58628956 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:58635196 original size:27 final size:26
Alignment explanation
Indices: 58635165--58635256 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 26
58635155 ATTTAAACCC
*
58635165 TAGGGGTATATTGGTAATTTTGCTCCT
1 TAGGGGTA-ATTGGTAATTTTGCTCTT
*
58635192 TAGGGGTAATTTCGTAATTTTGCTCTT
1 TAGGGGTAA-TTGGTAATTTTGCTCTT
58635219 TAGGGGTAATTCGGTAATTTTGCTCTT
1 TAGGGGTAATT-GGTAATTTTGCTCTT
*
58635246 TAAGGGTAATT
1 TAGGGGTAATT
58635257 TCGTGTTCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.05
27 56 0.95
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.45
Consensus pattern (26 bp):
TAGGGGTAATTGGTAATTTTGCTCTT
Found at i:58643489 original size:42 final size:42
Alignment explanation
Indices: 58643443--58643584 Score: 158
Period size: 42 Copynumber: 3.4 Consensus size: 42
58643433 AGACCATATT
* *
58643443 TGGGATATGGCGTTGATATGAGATTTCATGTAAGACCACGTC
1 TGGGACATGGCATTGATATGAGATTTCATGTAAGACCACGTC
* * * **
58643485 TGGGACATGGCATTGAAATAAGATTTTCATATAAGACCATATC
1 TGGGACATGGCATTGATATGAGA-TTTCATGTAAGACCACGTC
* ** * **
58643528 TGGGATATGGCATCAATGTGAGATCCCATGTAAGACCACGTC
1 TGGGACATGGCATTGATATGAGATTTCATGTAAGACCACGTC
58643570 TGGGACATGGCATTG
1 TGGGACATGGCATTG
58643585 GCATCTTAAT
Statistics
Matches: 78, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 45 0.58
43 33 0.42
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (42 bp):
TGGGACATGGCATTGATATGAGATTTCATGTAAGACCACGTC
Found at i:58643530 original size:43 final size:42
Alignment explanation
Indices: 58643431--58643540 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
58643421 TGTTATCAAG
* * * * *
58643431 TAAGACCATATTTGGGATATGGCGTTGATATGAGATTTCATG
1 TAAGACCATATCTGGGATATGGCATTGAAATAAGATTTCATA
** *
58643473 TAAGACCACGTCTGGGACATGGCATTGAAATAAGATTTTCATA
1 TAAGACCATATCTGGGATATGGCATTGAAATAAGA-TTTCATA
58643516 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
58643541 CAATGTGAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATTGAAATAAGATTTCATA
Found at i:58649257 original size:17 final size:17
Alignment explanation
Indices: 58649235--58649268 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
58649225 TTAATGATTG
58649235 AAAGAATG-TATACATTA
1 AAAGAATGAT-TACATTA
58649252 AAAGAATGATTACATTA
1 AAAGAATGATTACATTA
58649269 TATATGCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AAAGAATGATTACATTA
Found at i:58649723 original size:31 final size:31
Alignment explanation
Indices: 58649688--58649750 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
58649678 TCGTTGCCGG
* **
58649688 GCAACCGGGGGTGGCGGGTCATCGCTGTCGA
1 GCAACCGAGGGTGGCCAGTCATCGCTGTCGA
* *
58649719 GCAACCTAGGGTGGCCAGTCATCGTTGTCGA
1 GCAACCGAGGGTGGCCAGTCATCGCTGTCGA
58649750 G
1 G
58649751 TAGCTCAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.40, T:0.19
Consensus pattern (31 bp):
GCAACCGAGGGTGGCCAGTCATCGCTGTCGA
Found at i:58653227 original size:39 final size:39
Alignment explanation
Indices: 58653136--58653227 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 39
58653126 GGTCTTTAAC
* * *
58653136 CCGGATATTTTTCCAGCATGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCTAGCATATAACCTGCGGACCTCAAGT
** * * *
58653175 CCAAATATATTTCTAGCATATAACCTGCGGATCTCATGT
1 CCGGATATTTTTCTAGCATATAACCTGCGGACCTCAAGT
58653214 CCGGATATTTTTCT
1 CCGGATATTTTTCT
58653228 TTCTCAAACA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (39 bp):
CCGGATATTTTTCTAGCATATAACCTGCGGACCTCAAGT
Found at i:58661339 original size:40 final size:40
Alignment explanation
Indices: 58661256--58661462 Score: 177
Period size: 40 Copynumber: 5.2 Consensus size: 40
58661246 CGGGATTTAA
* * * * * *
58661256 CCGGATATAGTGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
58661296 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
58661336 CCGGATTTGGTAACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
58661376 CCGGATATA-TCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGT-AACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58661416 CCGGATGTAATTACTAGCA-TAATTGCCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGCACGAA-TGCCTTCGGGTCTTAGC
58661455 CCGGATAT
1 CCGGATAT
58661463 CATTCCAATG
Statistics
Matches: 136, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 18 0.13
40 117 0.86
41 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.29
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58661444 original size:80 final size:79
Alignment explanation
Indices: 58661310--58661462 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
58661300 TTATAGTGAT
* * ** * *
58661310 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAAGGCCTTCGGGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAATAACTAGCACAAAGGCCTTC-GGACTTAG
58661375 CCCGGATATATCAAC
65 CCCGGATATATCAAC
* * * **
58661390 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAATTACTAGCATAATTGCCTTCGGACTTAGC
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAATAACTAGCACAAAGGCCTTCGGACTTAGC
58661455 CCGGATAT
66 CCGGATAT
58661463 CATTCCAATG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 16 0.26
80 46 0.74
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.28
Consensus pattern (79 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATGTAATAACTAGCACAAAGGCCTTCGGACTTAGC
CCGGATATATCAAC
Found at i:58663557 original size:39 final size:39
Alignment explanation
Indices: 58663466--58663558 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 39
58663456 GGTCTTTAAC
* *
58663466 CCGGATATTTTTCCAACATGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCTAACATATAGCCTGCGGACCTCAAGT
* * * * *
58663505 CCAGATATATTTCTAGCATATAGCCTG-GGAATCTCATGT
1 CCGGATATTTTTCTAACATATAGCCTGCGG-ACCTCAAGT
58663544 CCGGATATTTTTCTA
1 CCGGATATTTTTCTA
58663559 TCTCAAACAC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 2 0.05
39 42 0.95
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCTAACATATAGCCTGCGGACCTCAAGT
Found at i:58667021 original size:42 final size:43
Alignment explanation
Indices: 58666924--58667068 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 43
58666914 AGCTTGTGCA
* *
58666924 ATGCCAACGTCCTAGAC-GTGGTCTTACACGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGAAATCAAATATCG
** * *
58666967 ATGCCATTGTCCCAGACAGGGTCCTACATGAAATCAAATAT-G
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
* * *
58667009 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAACGTCCCAGACAGGGTCTTACACG-AAATCA-AATATCG
*
58667053 ATGCCAACATCCCAGA
1 ATGCCAACGTCCCAGA
58667069 TGTAGTCTTA
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 26 0.31
43 40 0.48
44 18 0.21
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:58672481 original size:37 final size:37
Alignment explanation
Indices: 58672422--58672527 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
58672412 AGCTCAGACG
* *
58672422 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58672459 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
58672496 TAGTCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
58672528 AGAATATATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58672731 original size:48 final size:48
Alignment explanation
Indices: 58672677--58672811 Score: 207
Period size: 48 Copynumber: 2.8 Consensus size: 48
58672667 GGACATCGCC
58672677 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
** *
58672725 TACATATTTTGCACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * * *
58672773 TACATATTTCACATTGGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
58672812 TGCATGCTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:58672846 original size:47 final size:47
Alignment explanation
Indices: 58672781--58673068 Score: 486
Period size: 47 Copynumber: 6.1 Consensus size: 47
58672771 CATACATATT
* *
58672781 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
58672828 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * *
58672875 TCACATTGGCCATTCGGTCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
58672922 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
58672969 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
58673016 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
58673063 TCACAT
1 TCACAT
58673069 AAAATCCTAA
Statistics
Matches: 225, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 225 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:58672972 original size:25 final size:25
Alignment explanation
Indices: 58672943--58673020 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
58672933 ATTCGGCCTT
58672943 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
58672968 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
58672990 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
58673015 ATCACA
1 ATCACA
58673021 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:58672995 original size:22 final size:22
Alignment explanation
Indices: 58672968--58673043 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
58672958 GCTCACATTC
58672968 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
58672990 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
58673014 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58673037 ATCACAT
1 ATCACAT
58673044 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58676697 original size:40 final size:40
Alignment explanation
Indices: 58676633--58677137 Score: 769
Period size: 40 Copynumber: 12.6 Consensus size: 40
58676623 CCAGCATGAT
* * * *
58676633 TGCTCTTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTC-TTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
58676674 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58676714 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
58676754 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
58676794 TGCTCTTCGAAACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
58676834 TGCTCTTCGGGACTTAGTCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58676874 TGCTCTTCGGGACTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58676914 TGCTCTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58676954 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
58676994 TGCTCTTCGGG-TTTAGCACGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
58677033 TGCTCTTTGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
58677073 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58677113 TGTTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATA
58677138 TATATATAAC
Statistics
Matches: 420, Mismatches: 43, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.08
40 381 0.91
41 5 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:58676896 original size:23 final size:23
Alignment explanation
Indices: 58676865--58676931 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
58676855 GTTACATCAC
58676865 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * *
58676888 TAGCCCGAAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
58676905 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
58676928 TAGC
1 TAGC
58676932 CCGGTTACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 2 0.06
19 3 0.09
21 3 0.09
22 2 0.06
23 13 0.41
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:58678462 original size:37 final size:37
Alignment explanation
Indices: 58678412--58678523 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
58678402 CTTTAGCTCA
* *
58678412 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
58678449 GACAAAATCTCCACACGTAGTCATCGGGTCTTA-CCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
58678485 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
58678522 GA
1 GA
58678524 ATATATTTCC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 35 0.49
37 36 0.51
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:58678494 original size:36 final size:36
Alignment explanation
Indices: 58678412--58678519 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
58678402 CTTTAGCTCA
* *
58678412 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTA-CCG
58678449 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCG
*
58678485 GACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACC
58678520 CGGAATATAT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 37 0.54
37 31 0.46
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (36 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCG
Found at i:58678724 original size:48 final size:48
Alignment explanation
Indices: 58678670--58678804 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
58678660 GCACATCGCC
58678670 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAACTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAACTCA
* *
58678718 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAACTCA
* * * *
58678766 TACATATTTCACATTGGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
58678805 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAACTCA
Found at i:58678839 original size:47 final size:47
Alignment explanation
Indices: 58678774--58679061 Score: 477
Period size: 47 Copynumber: 6.1 Consensus size: 47
58678764 CATACATATT
* * *
58678774 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
58678821 TGATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * *
58678868 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
58678915 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
58678962 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
58679009 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
58679056 TCACAT
1 TCACAT
58679062 AAAATCCTAA
Statistics
Matches: 224, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:58678965 original size:25 final size:25
Alignment explanation
Indices: 58678936--58679013 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
58678926 ATTCGGCCTT
58678936 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
58678961 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
58678983 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
58679008 ATCACA
1 ATCACA
58679014 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:58678988 original size:22 final size:22
Alignment explanation
Indices: 58678961--58679036 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
58678951 GCTCACATTC
58678961 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
58678983 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
58679007 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58679030 ATCACAT
1 ATCACAT
58679037 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58681953 original size:8 final size:8
Alignment explanation
Indices: 58681913--58681956 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
58681903 GACATCCCAA
*
58681913 TTTTTGGC
1 TTTTCGGC
*
58681921 TTTTCGAC
1 TTTTCGGC
*
58681929 TTTTCGAC
1 TTTTCGGC
58681937 TTTTCGGC
1 TTTTCGGC
*
58681945 TTTTTGGC
1 TTTTCGGC
58681953 TTTT
1 TTTT
58681957 GCTATTACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.05, C:0.18, G:0.18, T:0.59
Consensus pattern (8 bp):
TTTTCGGC
Found at i:58681955 original size:16 final size:16
Alignment explanation
Indices: 58681913--58681956 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
58681903 GACATCCCAA
58681913 TTTTTGGCTTTTCGAC
1 TTTTTGGCTTTTCGAC
* * *
58681929 TTTTCGACTTTTCGGC
1 TTTTTGGCTTTTCGAC
58681945 TTTTTGGCTTTT
1 TTTTTGGCTTTT
58681957 GCTATTACAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.05, C:0.18, G:0.18, T:0.59
Consensus pattern (16 bp):
TTTTTGGCTTTTCGAC
Found at i:58685011 original size:50 final size:48
Alignment explanation
Indices: 58684893--58685203 Score: 162
Period size: 46 Copynumber: 6.7 Consensus size: 48
58684883 GGGTAGAGTA
58684893 CCGATGCCATGTCCCAGACATGGTCTTACACT-A-TCATCCATCAAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAGT
** *
58684939 -TAATGCCATGTCCCAGATATGGTCTTACACTGACTC-TCACAT-ATTAGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-CATCA--AGT
* * * ** **
58684987 GCCGATGCCATGTCCTAGACATGGTCTTACATTGACACAT-TTTGTAG-
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAGT
* * *
58685034 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACA-CC-TCGAGGT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-T-CATCCATC-AAGT
* *
58685081 -CGATG-CATTTCCAAGACAT-GTCTTACACT-AGCTC-TCGTC-TCAA-T
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATC--CATCAAGT
* * * * *
58685125 GCCAATGCCATGTCCCAGACATGGTTTTACACTGGCTC-T-CATAATATGG
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA-A-GT
*
58685174 CCGATG-CATGTCCCAAACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
58685204 AGCACACAAA
Statistics
Matches: 202, Mismatches: 36, Indels: 54
0.69 0.12 0.18
Matches are distributed among these distances:
44 14 0.07
45 45 0.22
46 57 0.28
47 31 0.15
48 23 0.11
49 1 0.00
50 30 0.15
51 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAGT
Found at i:58686750 original size:56 final size:55
Alignment explanation
Indices: 58686682--58686812 Score: 151
Period size: 56 Copynumber: 2.3 Consensus size: 55
58686672 TGGCAACTTG
* *
58686682 TGTAGTCCTGTTGAGAGGCAT-GTAATTATGTGGTACACGCTAGGTCCGAGA-GCT-TA
1 TGTAGCCCTGTTGAGAGGCATGGT-A--ATGTGATACACGCTAGGTCCG-GATGCTATA
* * *
58686738 TGTAGCCCTGTTGAGAGGCGTGGTAATGTGATGCATGCTAGGTCCGGATGCTCATA
1 TGTAGCCCTGTTGAGAGGCATGGTAATGTGATACACGCTAGGTCCGGATGCT-ATA
58686794 TGTAGCCCTGTTGAGAGGC
1 TGTAGCCCTGTTGAGAGGC
58686813 GTGCTATGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
53 2 0.03
54 21 0.32
56 41 0.62
57 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.29
Consensus pattern (55 bp):
TGTAGCCCTGTTGAGAGGCATGGTAATGTGATACACGCTAGGTCCGGATGCTATA
Found at i:58690964 original size:40 final size:40
Alignment explanation
Indices: 58690905--58691073 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
58690895 CGGGACTTTA
* * *
58690905 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
58690945 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
58690985 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
58691025 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
58691065 CCCGGATAT
1 CCCGGATAT
58691074 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:58698251 original size:40 final size:40
Alignment explanation
Indices: 58698192--58698360 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
58698182 CGGGACTTTA
* * *
58698192 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
58698232 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
58698272 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
58698312 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
58698352 CCCGGATAT
1 CCCGGATAT
58698361 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:58700534 original size:39 final size:40
Alignment explanation
Indices: 58700422--58700601 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
58700412 TATTCGGATG
*
58700422 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
58700462 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
58700502 ATATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
58700541 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACT
* *
58700581 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58700602 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 13, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 47 0.38
40 76 0.61
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:58700554 original size:79 final size:80
Alignment explanation
Indices: 58700422--58700572 Score: 277
Period size: 79 Copynumber: 1.9 Consensus size: 80
58700412 TATTCGGATG
*
58700422 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
58700487 TTTGTGCTAGCGACC
66 TTTGTGCTAGCGACC
*
58700502 ATATCCGGGCTAAGT-CCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
58700566 TTTGTGC
66 TTTGTGC
58700573 GAGTTGCTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 54 0.78
80 15 0.22
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCTAGCGACC
Found at i:58707656 original size:34 final size:31
Alignment explanation
Indices: 58707605--58707695 Score: 94
Period size: 34 Copynumber: 2.8 Consensus size: 31
58707595 GAGCCCATTG
*
58707605 GGCCTAAGCCCTATTCAGATAACAGTACACAGTA
1 GGCCTAAGCCCTTTTCAGATAACAGTA-ACA--A
*
58707639 GGCCGAAGCCCTTTTCAGA-ATACAGTAACAA
1 GGCCTAAGCCCTTTTCAGATA-ACAGTAACAA
* * *
58707670 GGCCTTAGCCCTTTTTACATAACAGT
1 GGCCTAAGCCCTTTTCAGATAACAGT
58707696 GTGGCCCATA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
31 21 0.43
32 1 0.02
33 4 0.08
34 23 0.47
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (31 bp):
GGCCTAAGCCCTTTTCAGATAACAGTAACAA
Found at i:58708706 original size:27 final size:27
Alignment explanation
Indices: 58708676--58708734 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
58708666 TTAACACCCT
58708676 AGGGGCAAAAT-GGTAATTCTACCCTAC
1 AGGGG-AAAATCGGTAATTCTACCCTAC
* ** *
58708703 AGGGGTATTTCGGTAATTTTACCCTAC
1 AGGGGAAAATCGGTAATTCTACCCTAC
58708730 AGGGG
1 AGGGG
58708735 TATTTTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (27 bp):
AGGGGAAAATCGGTAATTCTACCCTAC
Found at i:58708735 original size:27 final size:27
Alignment explanation
Indices: 58708687--58708749 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
58708677 GGGGCAAAAT
*
58708687 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
58708714 GGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
*
58708741 AGTAATTTT
1 GGTAATTTT
58708750 GCAAACCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:58708762 original size:27 final size:27
Alignment explanation
Indices: 58708732--58708834 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
58708722 TACCCTACAG
* *
58708732 GGGTATTTTAGTAATTTTGCAAACCAT
1 GGGTATTTTAGTAATTTTACAAACCAA
* * *
58708759 GGGTATTTTCGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAA
*
58708786 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAA
*
58708813 GGGTATTTTGGTAATTTTACAA
1 GGGTATTTTAGTAATTTTACAA
58708835 GTCGAGGGCA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAA
Found at i:58708763 original size:54 final size:55
Alignment explanation
Indices: 58708702--58708832 Score: 169
Period size: 54 Copynumber: 2.4 Consensus size: 55
58708692 TTCTACCCTA
** * *
58708702 CAGGGGTATTTCGGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTGCAAAC
1 CAGGGGTATTTCGGTAATTTTACCAAACAAAGGGTATTTTAGTAATTTTACAAAC
* *
58708756 CATGGGTATTTTC-GTAATTTTA-TAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTA-TTTCGGTAATTTTACCAAACAAAGGGTATTTTAGTAATTTTACAAAC
*
58708810 CAGGGGTATTTTGGTAATTTTAC
1 CAGGGGTATTTCGGTAATTTTAC
58708833 AAGTCGAGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
53 5 0.08
54 56 0.86
55 4 0.06
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (55 bp):
CAGGGGTATTTCGGTAATTTTACCAAACAAAGGGTATTTTAGTAATTTTACAAAC
Found at i:58708853 original size:54 final size:52
Alignment explanation
Indices: 58708702--58708855 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 52
58708692 TTCTACCCTA
* ** *
58708702 CAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAT-CA-GGGTATTTTAGTAATTTTACAAAC
* * * *
58708756 CATGGGTATTTTCGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAATC--AGGGTATTTTAGTAATTTTACAAAC
* *
58708810 CAGGGGTATTTTGGTAATTTTACAAGTCGAGGGCATTTCAGTAATT
1 CAGGGGTATTTTGGTAATTTTACAA-TC-AGGGTATTTTAGTAATT
58708856 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
53 1 0.01
54 79 0.96
55 2 0.02
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (52 bp):
CAGGGGTATTTTGGTAATTTTACAATCAGGGTATTTTAGTAATTTTACAAAC
Found at i:58712527 original size:27 final size:27
Alignment explanation
Indices: 58712497--58712555 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
58712487 TTAACACCCT
58712497 AGGGGCAAAAT-GGTAATTCTACCCTAC
1 AGGGG-AAAATCGGTAATTCTACCCTAC
* ** *
58712524 AGGGGTATTTCGGTAATTTTACCCTAC
1 AGGGGAAAATCGGTAATTCTACCCTAC
58712551 AGGGG
1 AGGGG
58712556 TATTTTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (27 bp):
AGGGGAAAATCGGTAATTCTACCCTAC
Found at i:58712556 original size:27 final size:27
Alignment explanation
Indices: 58712508--58712570 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
58712498 GGGGCAAAAT
*
58712508 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
58712535 GGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
*
58712562 AGTAATTTT
1 GGTAATTTT
58712571 GCAAACCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:58712583 original size:27 final size:27
Alignment explanation
Indices: 58712553--58712655 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
58712543 TACCCTACAG
* *
58712553 GGGTATTTTAGTAATTTTGCAAACCAT
1 GGGTATTTTAGTAATTTTACAAACCAA
* * *
58712580 GGGTATTTTCGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAA
*
58712607 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAA
* *
58712634 GGGTATTTTGGTGATTTTACAA
1 GGGTATTTTAGTAATTTTACAA
58712656 GTCGAGGGCA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAA
Found at i:58712584 original size:54 final size:55
Alignment explanation
Indices: 58712523--58712653 Score: 160
Period size: 54 Copynumber: 2.4 Consensus size: 55
58712513 TTCTACCCTA
** * *
58712523 CAGGGGTATTTCGGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTGCAAAC
1 CAGGGGTATTTCGGTAATTTTACCAAACAAAGGGTATTTTAGTAATTTTACAAAC
* *
58712577 CATGGGTATTTTC-GTAATTTTA-TAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTA-TTTCGGTAATTTTACCAAACAAAGGGTATTTTAGTAATTTTACAAAC
* *
58712631 CAGGGGTATTTTGGTGATTTTAC
1 CAGGGGTATTTCGGTAATTTTAC
58712654 AAGTCGAGGG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
53 5 0.08
54 55 0.86
55 4 0.06
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (55 bp):
CAGGGGTATTTCGGTAATTTTACCAAACAAAGGGTATTTTAGTAATTTTACAAAC
Found at i:58715316 original size:40 final size:40
Alignment explanation
Indices: 58715259--58715430 Score: 231
Period size: 40 Copynumber: 4.3 Consensus size: 40
58715249 TATTCGGAAG
*
58715259 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTATTGACT
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
* * * * *
58715299 ATATCCGGGCTATGTCCCGAAGGCATTTGTGCTAGCGACC
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
58715339 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
* * * *
58715379 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAG-TGACT
58715419 ATATCC-GGCTAA
1 ATATCCGGGCTAA
58715431 ATCTCGAAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 6 0.05
40 108 0.93
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACT
Found at i:58715398 original size:80 final size:80
Alignment explanation
Indices: 58715259--58715410 Score: 277
Period size: 80 Copynumber: 1.9 Consensus size: 80
58715249 TATTCGGAAG
* * *
58715259 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTATTGACTATATCCGGGCTATGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
58715324 TTTGTGCTAGCGACC
66 TTTGTGCTAGCGACC
58715339 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
58715404 TTTGTGC
66 TTTGTGC
58715411 GAGTTGCTAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCTAGCGACC
Found at i:58724459 original size:17 final size:18
Alignment explanation
Indices: 58724437--58724472 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58724427 AGCATTGAAG
58724437 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
58724454 TGTTTTCATTGAAAACCT
1 TGTTTTCAGTGAAAACCT
58724472 T
1 T
58724473 TCTTACAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:58725642 original size:29 final size:29
Alignment explanation
Indices: 58725581--58725692 Score: 145
Period size: 29 Copynumber: 3.9 Consensus size: 29
58725571 ACATACATGG
* * *
58725581 ATATAGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
58725609 ATATGGCCCATTAGTCCCAAATCATATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
58725638 GTATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
58725667 ATATGGCCCATTAAGCCAAAATCACA
1 ATATGGCCCATTAGGCCCAAATCACA
58725693 AGCACATACA
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 15 0.21
29 57 0.79
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:58749622 original size:13 final size:13
Alignment explanation
Indices: 58749604--58749630 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58749594 CAGCATCCCC
58749604 AAATTGACACACG
1 AAATTGACACACG
58749617 AAATTGACACACG
1 AAATTGACACACG
58749630 A
1 A
58749631 CCAAGGCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (13 bp):
AAATTGACACACG
Found at i:58752613 original size:55 final size:55
Alignment explanation
Indices: 58752529--58752638 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
58752519 GGATCACTAT
58752529 AAATCACAAATTTTTTACCAGACTCTGGCTGAACCAATACAGGGGCCTCGGTTAA
1 AAATCACAAATTTTTTACCAGACTCTGGCTGAACCAATACAGGGGCCTCGGTTAA
58752584 AAATCACAAATTTTTTACCAGACTCTGGCTGAACCAATACAGGGGCCTCGGTTAA
1 AAATCACAAATTTTTTACCAGACTCTGGCTGAACCAATACAGGGGCCTCGGTTAA
58752639 CAACGCTTTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (55 bp):
AAATCACAAATTTTTTACCAGACTCTGGCTGAACCAATACAGGGGCCTCGGTTAA
Found at i:58755410 original size:40 final size:40
Alignment explanation
Indices: 58755365--58755531 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58755355 CGGAATATAA
58755365 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58755405 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58755445 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58755485 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58755524 CCGGATAT
1 CCGGATAT
58755532 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58756376 original size:17 final size:19
Alignment explanation
Indices: 58756353--58756398 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
58756343 AAGAAGCATG
58756353 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
58756371 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
58756389 AATCATGCTC
1 AATCATGCTC
58756399 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:58763408 original size:39 final size:40
Alignment explanation
Indices: 58763364--58763529 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 40
58763354 CGGAATATAA
*
58763364 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58763403 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
58763443 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58763483 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58763522 CCGGATAT
1 CCGGATAT
58763530 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 25 0.24
40 79 0.76
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58764373 original size:17 final size:19
Alignment explanation
Indices: 58764350--58764395 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
58764340 AAGAAGCATG
58764350 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
58764368 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
58764386 AATCATGCTC
1 AATCATGCTC
58764396 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:58767969 original size:16 final size:14
Alignment explanation
Indices: 58767933--58767960 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58767923 TCAAATGAAA
58767933 ATACATCATTTGAT
1 ATACATCATTTGAT
58767947 ATACATCATTTGAT
1 ATACATCATTTGAT
58767961 TCATACATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
ATACATCATTTGAT
Found at i:58772748 original size:28 final size:28
Alignment explanation
Indices: 58772717--58772779 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
58772707 TCGATATTTT
58772717 GCACACTAAGTGACATTCTCAATATCTC
1 GCACACTAAGTGACATTCTCAATATCTC
* * *
58772745 GCACACTAAGTGCCATTCTTAATATTTC
1 GCACACTAAGTGACATTCTCAATATCTC
*
58772773 GTACACT
1 GCACACT
58772780 GAGTACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGACATTCTCAATATCTC
Found at i:58772788 original size:28 final size:28
Alignment explanation
Indices: 58772717--58772788 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
58772707 TCGATATTTT
58772717 GCACACTAAGTGA-CATTCTCAATATCTC
1 GCACACTAAGT-ACCATTCTCAATATCTC
* * *
58772745 GCACACTAAGTGCCATTCTTAATATTTC
1 GCACACTAAGTACCATTCTCAATATCTC
* *
58772773 GTACACTGAGTACCAT
1 GCACACTAAGTACCAT
58772789 ATTTGATTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTACCATTCTCAATATCTC
Found at i:58777766 original size:28 final size:28
Alignment explanation
Indices: 58777732--58777938 Score: 180
Period size: 28 Copynumber: 7.3 Consensus size: 28
58777722 ACCGATCATA
* *
58777732 CACACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCTCGGTTACCGAACTCG
**** * *
58777760 CACACACAGTGCCTCAACAACCGATCTCA
1 CACACACAGTG-CTCGGTTACCGAACTCG
* *
58777789 CACACATAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCTCGGTTACCGAACTCG
** * *
58777817 CACACACAGTGCCTCAATAACCGATCTCG
1 CACACACAGTG-CTCGGTTACCGAACTCG
* *
58777846 CACACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCTCGGTTACCGAACTCG
**** *
58777874 CACACACAGTGGCTCAACAACCGATCTCG
1 CACACACAGT-GCTCGGTTACCGAACTCG
* *
58777903 CACACACAGTGCTCGGTTACAGAACTCA
1 CACACACAGTGCTCGGTTACCGAACTCG
58777931 CACACACA
1 CACACACA
58777939 CAGTACCTAT
Statistics
Matches: 134, Mismatches: 42, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
28 71 0.53
29 63 0.47
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.17
Consensus pattern (28 bp):
CACACACAGTGCTCGGTTACCGAACTCG
Found at i:58777792 original size:57 final size:57
Alignment explanation
Indices: 58777701--58777938 Score: 352
Period size: 57 Copynumber: 4.1 Consensus size: 57
58777691 GATCTCATTT
* *
58777701 CACACACTTAGTGCCCCAACAACCGATCAT-ACACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATC-TCACACACACAGTGCTCGGTTACGGAACTCG
*
58777760 CACACACAGTGCCTCAACAACCGATCTCACACACATAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACGGAACTCG
* * *
58777817 CACACACAGTGCCTCAATAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACGGAACTCG
* * * *
58777874 CACACACAGTGGCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACAGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACGGAACTCG
58777931 CACACACA
1 CACACACA
58777939 CAGTACCTAT
Statistics
Matches: 166, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
56 1 0.01
57 158 0.95
59 7 0.04
ACGTcount: A:0.31, C:0.35, G:0.17, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACGGAACTCG
Found at i:58777800 original size:29 final size:29
Alignment explanation
Indices: 58777756--58777914 Score: 160
Period size: 29 Copynumber: 5.6 Consensus size: 29
58777746 GGTTACGGAA
*
58777756 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAATAACCGAT
* * ** * * *
58777785 CTCACACACATAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAATAACCGAT
58777813 CTCGCACACACAGTGCCTCAATAACCGAT
1 CTCGCACACACAGTGCCTCAATAACCGAT
*** * * *
58777842 CTCGCACACACAGTG-CTTGGTTACGGAA
1 CTCGCACACACAGTGCCTCAATAACCGAT
* *
58777870 CTCGCACACACAGTGGCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAATAACCGAT
58777899 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
58777915 TCGGTTACAG
Statistics
Matches: 99, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
28 42 0.42
29 57 0.58
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAATAACCGAT
Found at i:58780163 original size:27 final size:28
Alignment explanation
Indices: 58780106--58780175 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58780096 AAATTTGTAC
**
58780106 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
58780134 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
58780161 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58780176 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:58780184 original size:27 final size:27
Alignment explanation
Indices: 58780106--58780187 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
58780096 AAATTTGTAC
* *
58780106 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
58780134 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
58780161 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
58780188 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:58788060 original size:28 final size:28
Alignment explanation
Indices: 58788020--58788090 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 28
58788010 AAATTTGTAC
**
58788020 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
58788048 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
58788075 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
58788091 CTTATTATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:58788077 original size:27 final size:26
Alignment explanation
Indices: 58788020--58788098 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 26
58788010 AAATTTGTAC
*
58788020 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCG-A-CTGATTATAT
*
58788048 AGCACTATGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGA-CTGATTATAT
*
58788075 AGCACTAAGTGTGCGACTTATTAT
1 AGCACTAAGTGTGCGACTGATTAT
58788099 TGCTTGCTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.15
27 25 0.54
28 14 0.30
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (26 bp):
AGCACTAAGTGTGCGACTGATTATAT
Found at i:58802889 original size:28 final size:28
Alignment explanation
Indices: 58802828--58802925 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
58802818 TCACAAATTG
** * *
58802828 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
58802857 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
58802885 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
58802913 GCACTAAGTGTGC
1 GCACTAAGTGTGC
58802926 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:58823803 original size:2 final size:2
Alignment explanation
Indices: 58823796--58823821 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58823786 ATGTGCAAAC
58823796 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
58823822 GCTAGAGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58828030 original size:15 final size:15
Alignment explanation
Indices: 58827998--58828026 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58827988 ATTTTCAGTG
58827998 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
58828013 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
58828027 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:58831197 original size:40 final size:40
Alignment explanation
Indices: 58831031--58831215 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
58831021 TTCGAATGAT
* * *
58831031 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
58831071 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
58831111 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
58831151 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
58831192 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
58831216 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:58831209 original size:80 final size:80
Alignment explanation
Indices: 58831031--58831218 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
58831021 TTCGAATGAT
* *
58831031 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
58831096 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
58831111 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
58831172 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
58831192 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
58831219 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:58833984 original size:68 final size:70
Alignment explanation
Indices: 58833912--58834109 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
58833902 ACACCCTGTA
* * * *
58833912 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
58833974 ATAAAT
65 ATAAAT
*
58833980 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
58834045 ATAAAT
65 ATAAAT
*
58834051 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
58834110 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:58834023 original size:41 final size:41
Alignment explanation
Indices: 58833978--58834095 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58833968 TGAAAGATAA
58833978 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58834019 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58834049 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58834090 ATGTAG
1 ATGTAG
58834096 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58834035 original size:71 final size:71
Alignment explanation
Indices: 58833946--58834109 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58833936 GAGATGTATC
58833946 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58834011 AGGACA
66 AGGACA
58834017 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58834082 AGGACA
66 AGGACA
58834088 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58834110 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58837686 original size:24 final size:23
Alignment explanation
Indices: 58837654--58837738 Score: 107
Period size: 24 Copynumber: 3.6 Consensus size: 23
58837644 ACCAAACGTT
* **
58837654 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
58837678 GCACACATAGTGTCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
58837702 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
58837726 GCACACATAGTGC
1 GCACACATAGTGC
58837739 ATTTGAGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 48 0.89
25 5 0.09
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:58850835 original size:29 final size:29
Alignment explanation
Indices: 58850803--58850963 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
58850793 AATTTAAGCC
* *** *
58850803 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
58850832 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
58850861 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
58850891 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
58850919 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
58850948 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
58850964 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:58861282 original size:14 final size:14
Alignment explanation
Indices: 58861263--58861294 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
58861253 CCTCCCTTTG
58861263 GTACGATCCTCGGA
1 GTACGATCCTCGGA
58861277 GTACGATCCTCGGA
1 GTACGATCCTCGGA
58861291 GTAC
1 GTAC
58861295 TTCCATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (14 bp):
GTACGATCCTCGGA
Found at i:58871586 original size:40 final size:40
Alignment explanation
Indices: 58871538--58871725 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
58871528 GCTTCTCGCT
58871538 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
* *
58871578 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
* *
58871618 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACT-AGCA
* * *
58871658 CAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
58871698 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
58871726 CAATCCGAAT
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 12 0.09
40 123 0.91
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:58888982 original size:49 final size:49
Alignment explanation
Indices: 58888916--58889153 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
58888906 TAGCCAAAGC
* * * * * * *
58888916 TATCTGGTACGCATAGTAGCCTGAACATAGTAGTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
58888965 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
58889014 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
58889064 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-T
* * * * *
58889115 TTTCGGGTACGCATAGTAGCCTCCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
58889154 TGCGACCTTA
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 85 0.52
50 46 0.28
51 32 0.20
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:58889101 original size:99 final size:100
Alignment explanation
Indices: 58888916--58889160 Score: 314
Period size: 99 Copynumber: 2.5 Consensus size: 100
58888906 TAGCCAAAGC
* * * * ** *
58888916 TATCTGGTACGCATAGTAGCCTGAACATAGTAGTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
58888981 TAGCCTGCACTTAGTACTACACACATGACCA-A-T
66 TAGCCTGCACTTAGTACTACACACATGACCATAGT
* * * *
58889014 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
* *
58889079 GTAGCCTGCACTTAGTACTACACACGTGATCATAGT
65 GTAGCCTGCACTTAGTACTACACACATGACCATAGT
* * * *
58889115 TTTCGGGTACGCATAGTAGCCTCCACTTAGTACTACACATGCGACC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
58889161 TTACAATAGA
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.31
99 44 0.35
100 1 0.01
101 40 0.32
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACATGACCATAGT
Found at i:58895461 original size:28 final size:28
Alignment explanation
Indices: 58895429--58895492 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
58895419 TGTGTCGGCT
* *
58895429 CGTGTCCCTCACAGGGCCATGACACGCC
1 CGTGTCCCTCACACGGCCAGGACACGCC
*
58895457 CGTGTCCCTCACACGGCCAGGACACGCG
1 CGTGTCCCTCACACGGCCAGGACACGCC
58895485 CGTG-CCCT
1 CGTGTCCCT
58895493 AACCCATGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.16, C:0.44, G:0.27, T:0.14
Consensus pattern (28 bp):
CGTGTCCCTCACACGGCCAGGACACGCC
Found at i:58896899 original size:31 final size:31
Alignment explanation
Indices: 58896858--58896921 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
58896848 CCTTTTCATA
* *
58896858 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
**
58896889 TTTCAAATTTCATATTACTGGGCCAAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
58896920 TT
1 TT
58896922 ACGGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCAAAGCCT
Found at i:58897170 original size:23 final size:23
Alignment explanation
Indices: 58897114--58897279 Score: 235
Period size: 23 Copynumber: 7.0 Consensus size: 23
58897104 TGCTTTATCA
*
58897114 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
58897138 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
58897162 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
58897185 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
58897208 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
58897231 ATCATAACTGGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
*
58897256 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
58897279 T
1 T
58897280 GCACTTCCTC
Statistics
Matches: 131, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
23 88 0.67
24 9 0.07
25 34 0.26
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:58897249 original size:71 final size:69
Alignment explanation
Indices: 58897136--58897278 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 69
58897126 CCTAGCCTCT
58897136 TTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
1 TTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
58897201 GCCC
66 GCCC
*
58897205 TTTAATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCAAAAGCCCTTT-T-ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCAT
58897270 AAGCCC
64 AAGCCC
58897276 TTT
1 TTT
58897279 TGCACTTCCT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
69 25 0.35
70 1 0.01
71 45 0.63
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (69 bp):
TTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
GCCC
Found at i:58897351 original size:9 final size:9
Alignment explanation
Indices: 58897337--58897412 Score: 62
Period size: 9 Copynumber: 7.8 Consensus size: 9
58897327 ATCTCGTGTG
58897337 CATATCATA
1 CATATCATA
*
58897346 CATATCATGTG
1 CATATCA--TA
58897357 CATATCATA
1 CATATCATA
* *
58897366 CATGTCATGTG
1 CATATCA--TA
58897377 CATATCATA
1 CATATCATA
*
58897386 CATATCATGTG
1 CATATCA--TA
58897397 CATATCATA
1 CATATCATA
58897406 CATATCA
1 CATATCA
58897413 CGTTTATCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 30 0.57
11 23 0.43
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:58897356 original size:20 final size:20
Alignment explanation
Indices: 58897333--58897412 Score: 151
Period size: 20 Copynumber: 4.0 Consensus size: 20
58897323 GAACATCTCG
58897333 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
58897353 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
58897373 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
58897393 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
58897413 CGTTTATCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:58897362 original size:11 final size:11
Alignment explanation
Indices: 58897333--58897404 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
58897323 GAACATCTCG
58897333 TGTGCATATCA
1 TGTGCATATCA
*
58897344 --TACATATCA
1 TGTGCATATCA
58897353 TGTGCATATCA
1 TGTGCATATCA
* *
58897364 --TACATGTCA
1 TGTGCATATCA
58897373 TGTGCATATCA
1 TGTGCATATCA
*
58897384 --TACATATCA
1 TGTGCATATCA
58897393 TGTGCATATCA
1 TGTGCATATCA
58897404 T
1 T
58897405 ACATATCACG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:58900308 original size:47 final size:47
Alignment explanation
Indices: 58900239--58900649 Score: 216
Period size: 47 Copynumber: 8.7 Consensus size: 47
58900229 AGGGTATAAT
58900239 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
* * * **
58900286 GTCGATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCGAAATCGTG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATC-AA
* ** * * *
58900335 GCCGACACCATGTCCCAGACAAGGTCTTACACTAGCTC-TCACAT-ATCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCA--A
* * * * *
58900383 GTGCGAATGTCATGTCCCAGACATGGTCTTACACTGACACCA-CTAT-AT
1 GT-CG-ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCCATCAA
* * * * * *
58900431 GTGCCAATGCCATATCCAAGACATGGTCTTACACTGACACAT-C-TCGTA
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AA
* *
58900479 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATCAA
* * *
58900524 GGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TTCGTC-TCAA
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA
*
58900570 -TGCTGATTCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AA
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
58900615 TGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 -GT---CGATGCCATGTCCCAGACATGGTCTTACACT
58900650 AGCACACAAA
Statistics
Matches: 285, Mismatches: 50, Indels: 59
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 12 0.04
45 19 0.07
46 64 0.22
47 66 0.23
48 56 0.20
49 36 0.13
50 29 0.10
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
Found at i:58900532 original size:46 final size:46
Alignment explanation
Indices: 58900241--58900649 Score: 216
Period size: 46 Copynumber: 8.6 Consensus size: 46
58900231 GGTATAATGT
* *
58900241 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC-AAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-C-TCGAGGC
* * ** *
58900288 CGATGCCATGTCCTAGACATGGTCTTACACTGAC-TATCGAAATCGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-C-ATCTCGAGGC
** * * * *
58900337 CGACACCATGTCCCAGACAAGGTCTTACACTAGCTCTCACATATCCG-TG-
1 CGA-TGCATGTCCCAGAC-ATGTCTTACACTGGCT-T-ACATCT-CGAGGC
* **
58900386 CGAATGTCATGTCCCAGACATGGTCTTACACTGAC--ACCA-CTATATGTGC
1 CG-ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGA-G-GC
* * * *
58900435 CAATGCCATATCCAAGACATGGTCTTACACTGAC--ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGC
58900481 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
* * * * * *
58900527 TGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
* * * *
58900573 TGATTCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGC
1 CGA-TGCATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
58900621 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
58900650 AGCACACAAA
Statistics
Matches: 286, Mismatches: 49, Indels: 55
0.73 0.13 0.14
Matches are distributed among these distances:
44 12 0.04
45 13 0.05
46 71 0.25
47 67 0.23
48 54 0.19
49 34 0.12
50 30 0.10
51 4 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
Found at i:58900626 original size:94 final size:93
Alignment explanation
Indices: 58900241--58900655 Score: 293
Period size: 94 Copynumber: 4.4 Consensus size: 93
58900231 GGTATAATGT
* * * *
58900241 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-G-TCGATGCCATGTCCTAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACAT-C-TCAATGCT-GATTCCATGTCCCAG
*
58900304 ACATGGTCTTACACTGACTATCGA-AATCGTGGC
61 ACATGGTCTTACACTGACTCTC-ATAATCGTGGC
** * * * *
58900337 CGACACCATGTCCCAGACAAGGTCTTACACTAGCTC-TCACATATCCGTGCGAATGT-CATGTCC
1 CGA-TGCATGTCCCAGAC-ATGTCTTACACTAGCACATCTCA-ATGC-T--G-AT-TCCATGTCC
*
58900400 CAGACATGGTCTTACACTGACAC-CACTATAT-GT-GC
58 CAGACATGGTCTTACACTGACTCTCA-TA-ATCGTGGC
* * * * * *
58900435 CAATGCCATATCCAAGACATGGTCTTACACT-GACACATCTC-GTAGCCGA-TGCATGTCCCAGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CACATCTCAAT-GCTGATTCCATGTCCCAGA
* * *
58900497 CAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
62 CATGGTCTTACACTGACTCT-CATAATCGTGGC
* * *
58900527 TGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGCTGATTCCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCAATGCTGATTCCATGTCCCAGACA
*
58900592 TGGTCTTACACTGGCTCTCATAAT-GTGGC
64 TGGTCTTACACTGACTCTCATAATCGTGGC
58900621 CGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACA
58900656 CAAATAACCC
Statistics
Matches: 250, Mismatches: 39, Indels: 64
0.71 0.11 0.18
Matches are distributed among these distances:
90 12 0.05
91 14 0.06
92 29 0.12
93 34 0.14
94 55 0.22
95 4 0.02
96 29 0.12
97 6 0.02
98 30 0.12
99 35 0.14
100 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCAATGCTGATTCCATGTCCCAGACATG
GTCTTACACTGACTCTCATAATCGTGGC
Done.