Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 66 of 126
Found at i:19473136 original size:25 final size:25
Alignment explanation
Indices: 19473108--19473156 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19473098 TACAGTCTAT
* *
19473108 CTATAGTAGTCTCAGTATATACTAG
1 CTATAGCAGTCTCAGGATATACTAG
* *
19473133 CTATAGCAGTTTTAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
19473157 TAAAAAATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAG
Found at i:19476859 original size:41 final size:41
Alignment explanation
Indices: 19476799--19476940 Score: 169
Period size: 41 Copynumber: 3.5 Consensus size: 41
19476789 TTTAAACAGA
* * * *
19476799 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGATAGGCATATAGTCTGATTCAG
* *
19476840 TTCACCGGCACTTAGCCTGATAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
** * * *
19476881 TTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
19476922 TTCACCGGCACTTAGCCTG
1 TTCACCGGCACTTAGCCTG
19476941 CTAGACGAAT
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 85 0.99
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCATATAGTCTGATTCAG
Found at i:19476941 original size:41 final size:41
Alignment explanation
Indices: 19476799--19476957 Score: 162
Period size: 41 Copynumber: 3.9 Consensus size: 41
19476789 TTTAAACAGA
* * * ** *
19476799 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCG
1 TTCACCGGCACTT-AGCCTGATAGACATATAGTCCGATTCAG
* *
19476840 TTCACCGGCACTTAGCCTGATAGGCCTATAG-CCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGACATATAGTCC-GATTCAG
** *
19476881 TTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCAG
1 TTCACCGGCACTTAGCCTGATAGACATATAGTCCGATTCAG
*
19476922 TTCACCGGCACTTAGCCTGCTAGACGA-ATAGTCCGA
1 TTCACCGGCACTTAGCCTGATAGAC-ATATAGTCCGA
19476958 ATAATTTCAC
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
40 2 0.02
41 97 0.95
42 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGACATATAGTCCGATTCAG
Found at i:19476967 original size:41 final size:41
Alignment explanation
Indices: 19476839--19476972 Score: 137
Period size: 41 Copynumber: 3.3 Consensus size: 41
19476829 GTCTAATTCC
* * * * *
19476839 GTTCACCGGCACTTAGCCTGATAGGCCTATAG-CCTGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACATATAGTCC-GAATAA
** * *
19476880 GTTCACTAGCACTTAGCCTGCTAGACATATAGTCCGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACATATAGTCCGAATAA
19476921 GTTCACCGGCACTTAGCCTGCTAGACGA-ATAGTCCGAATAA
1 GTTCACCGGCACTTAGCCTGCTAGAC-ATATAGTCCGAATAA
* *
19476962 TTTCACTGGCA
1 GTTCACCGGCA
19476973 ATAAATCCGA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 77 0.96
42 3 0.04
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (41 bp):
GTTCACCGGCACTTAGCCTGCTAGACATATAGTCCGAATAA
Found at i:19476967 original size:82 final size:82
Alignment explanation
Indices: 19476799--19476968 Score: 182
Period size: 82 Copynumber: 2.1 Consensus size: 82
19476789 TTTAAACAGA
* * * * * *
19476799 TTCACTGGCACTTCACCTGATAGGCTTATAGTCTAATTCCGTTCACCGGCACTTAGCCTGATAGG
1 TTCACTAGCACTTCACCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAGA
* * *
19476864 CCTATAGCCTGATTCAG
66 CCAATAGCCTGAATAAG
* * *
19476881 TTCACTAGCACTT-AGCCTGCTAGACATATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTAGCACTTCA-CCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAG
* *
19476945 ACGAATAGTCC-GAATAAT
65 ACCAATAG-CCTGAATAAG
19476963 TTCACT
1 TTCACT
19476969 GGCAATAAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 1 0.01
82 69 0.96
83 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (82 bp):
TTCACTAGCACTTCACCTGATAGACATATAGTCCAATTCAGTTCACCGGCACTTAGCCTGATAGA
CCAATAGCCTGAATAAG
Found at i:19481371 original size:122 final size:122
Alignment explanation
Indices: 19481154--19481398 Score: 481
Period size: 122 Copynumber: 2.0 Consensus size: 122
19481144 TTCAGTCTTG
19481154 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
1 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
19481219 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
66 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
*
19481276 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACATTTTGACAGCGGCTTCTAAT
1 ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
19481341 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
66 CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
19481398 A
1 A
19481399 AGGTATTTCT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.27
Consensus pattern (122 bp):
ATTTGATTCGAGAAACCAAAGAAAAGGTCAAAGTGATACGTGACAGTTTGACAGCGGCTTCTAAT
CATCAGAAATCTTACGTAGATTTAAAAAGAAAAGATATGGAGTTTCAAGTCGGTGAT
Found at i:19486390 original size:47 final size:47
Alignment explanation
Indices: 19486207--19486390 Score: 296
Period size: 47 Copynumber: 3.9 Consensus size: 47
19486197 AGTATATATA
* * * * *
19486207 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTATATATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AA-CATGTGTATG
*
19486256 CGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
19486303 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
19486350 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
19486391 CNNNNNNNNN
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
47 94 0.73
48 2 0.02
49 32 0.25
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:19495066 original size:44 final size:44
Alignment explanation
Indices: 19495031--19495344 Score: 452
Period size: 44 Copynumber: 7.1 Consensus size: 44
19495021 ACTACTGCTT
*
19495031 AGGGAGATAGGA-TTCACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGTTAGGACTT-ACAATCTTCAACCTATTCCACTGCTGGTC
*
19495075 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
19495119 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACAGCTGATC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
19495163 AAGGAGATAGGACTTACAATCTTCAACCTAGTCCGCTGCTGGTC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
19495207 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * *
19495251 AGGTAGATAGGACTTAAAATCTTCAACCTATTCCACTGCTGG-C
1 AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
19495294 TGGGGAGTTATGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 -AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
19495339 ATGGAG
1 AGGGAG
19495345 CTAGTTTTTG
Statistics
Matches: 240, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
43 1 0.00
44 236 0.98
45 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
AGGGAGTTAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:19499616 original size:25 final size:25
Alignment explanation
Indices: 19499588--19499659 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 25
19499578 ATTATACATT
19499588 AAATTAGACAGCTTAAATATACTCA
1 AAATTAGACAGCTTAAATATACTCA
* * *
19499613 AAATTGGATAGC---ATTATACATC-
1 AAATTAGACAGCTTAAATATAC-TCA
19499635 AAATTAGACAGCTTAAATATACTCA
1 AAATTAGACAGCTTAAATATACTCA
19499660 TAATCGGACA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
22 16 0.44
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (25 bp):
AAATTAGACAGCTTAAATATACTCA
Found at i:19499641 original size:47 final size:47
Alignment explanation
Indices: 19499522--19499856 Score: 406
Period size: 47 Copynumber: 7.1 Consensus size: 47
19499512 CAACCCTGTT
* ** * *
19499522 TTGGACAGCAATTATTCAACAAATTGGACAGCA-ATAATATGCTCAAAA
1 TTGGACAGC-ATTATACATTAAAATGGACAGCATA-AATATACTCAAAA
* * *
19499570 -TGGACAGCATTATACATTAAATTAGACAGCTTAAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * * * * *
19499616 TTGGATAGCATTATACATCAAATTAGACAGCTTAAATATACTCATAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * *
19499663 TCGGACAGCATTATACATTAAAATGGACAGCATCAATACACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * * *
19499710 TTGGACAGCATCATACATTAAAATGGACAGCATTAGTACACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
* * *
19499757 TTGGACAGCATTATACATTAAAATGGACAGCATCAATACATTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
*
19499804 TTGGACAGCATTATACATTAAAATGGACAGCATCAATATACTCAAAA
1 TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
19499851 -TGGACA
1 TTGGACA
19499857 TCAAATTTGG
Statistics
Matches: 257, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
46 36 0.14
47 221 0.86
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (47 bp):
TTGGACAGCATTATACATTAAAATGGACAGCATAAATATACTCAAAA
Found at i:19499669 original size:25 final size:24
Alignment explanation
Indices: 19499541--19499718 Score: 79
Period size: 25 Copynumber: 7.5 Consensus size: 24
19499531 AATTATTCAA
* *
19499541 CAAATTGGACAGC-AATAATATGCT
1 CAAATTGGACAGCTTA-AATATACT
* *
19499565 CAAAATGGACAGC---ATTATACAT
1 CAAATTGGACAGCTTAAATATAC-T
* *
19499587 TAAATTAGACAGCTTAAATATACT
1 CAAATTGGACAGCTTAAATATACT
* *
19499611 CAAAATTGGATAGC---ATTATACAT
1 C-AAATTGGACAGCTTAAATATAC-T
*
19499634 CAAATTAGACAGCTTAAATATACT
1 CAAATTGGACAGCTTAAATATACT
* *
19499658 CATAATCGGACAGC---ATTATACAT
1 CA-AATTGGACAGCTTAAATATAC-T
* * * * *
19499681 TAAAATGGACAGCATCAATACACT
1 CAAATTGGACAGCTTAAATATACT
19499705 CAAAATTGGACAGC
1 C-AAATTGGACAGC
19499719 ATCATACATT
Statistics
Matches: 115, Mismatches: 24, Indels: 29
0.68 0.14 0.17
Matches are distributed among these distances:
21 5 0.04
22 42 0.37
23 4 0.03
24 17 0.15
25 47 0.41
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (24 bp):
CAAATTGGACAGCTTAAATATACT
Found at i:19500875 original size:28 final size:26
Alignment explanation
Indices: 19500843--19500940 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
19500833 TTAATAAGTA
*
19500843 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTT--TAATTAAACT
*
19500871 CGCACACTTAGTGCTTTACATTATACT
1 CGCACACTTAGTGCTTTA-ATTAAACT
19500898 CGCACACTTAGTGCATTTCAATTAAACT
1 CGCACACTTAGTGC-TTT-AATTAAACT
19500926 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19500941 AATCTCATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (26 bp):
CGCACACTTAGTGCTTTAATTAAACT
Found at i:19504748 original size:40 final size:40
Alignment explanation
Indices: 19504704--19504967 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
19504694 GCTCCTCGTT
* *
19504704 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19504744 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
19504784 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
19504824 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
19504864 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19504903 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
19504944 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19504968 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19530058 original size:44 final size:44
Alignment explanation
Indices: 19530010--19530191 Score: 285
Period size: 44 Copynumber: 4.1 Consensus size: 44
19530000 ACTACTGCTT
* *
19530010 AGGGAGATAGGA-TCCACAATCTTCAACCTATTCCACTGCTAGTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* *
19530054 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* *
19530098 AGGTAGATAGGACTTACAGTCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
19530142 GGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
19530186 AGGGAG
1 AGGGAG
19530192 CTAGTTTTTG
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 124 0.99
45 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:19534383 original size:39 final size:41
Alignment explanation
Indices: 19534288--19534431 Score: 160
Period size: 39 Copynumber: 3.6 Consensus size: 41
19534278 TTGAATGATG
*
19534288 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
19534327 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
*
19534367 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
19534406 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19534432 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
38 2 0.02
39 48 0.53
40 30 0.33
41 10 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:19558522 original size:26 final size:25
Alignment explanation
Indices: 19558475--19558662 Score: 139
Period size: 26 Copynumber: 7.2 Consensus size: 25
19558465 CCTATCAAGA
* * *
19558475 TTGAGTGGTTCCGAGGACCCTTGAGT
1 TTGAGTGGGTCAGAGG-TCCTTGAGT
*
19558501 TTGAGATGGGTCAGAGGTCCTTTGTGT
1 TTGAG-TGGGTCAGAGGTCC-TTGAGT
*
19558528 TTGAATGGGTC-GAAGGTCCCTTGAGT
1 TTGAGTGGGTCAG-AGGT-CCTTGAGT
* **
19558554 TTGAGTTGGTCAGAGAACCTTTGAGT
1 TTGAGTGGGTCAGAGGTCC-TTGAGT
** *
19558580 TTGAGTTAGTCAGAGGTCCCTTAAGT
1 TTGAGTGGGTCAGAGGT-CCTTGAGT
*
19558606 TTGAGTGGGTCCA-AGGAACCTTGAGT
1 TTGAGTGGGT-CAGAGG-TCCTTGAGT
* *
19558632 TTGAGTTGGTCAGAGGACCCTTGAG-
1 TTGAGTGGGTCAGAGG-TCCTTGAGT
19558657 TTGAGT
1 TTGAGT
19558663 TGTTCGGAGG
Statistics
Matches: 132, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
25 11 0.08
26 96 0.73
27 25 0.19
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (25 bp):
TTGAGTGGGTCAGAGGTCCTTGAGT
Found at i:19558576 original size:52 final size:52
Alignment explanation
Indices: 19558487--19558662 Score: 198
Period size: 52 Copynumber: 3.4 Consensus size: 52
19558477 GAGTGGTTCC
* ** * * *
19558487 GAGGACCCTTGAGTTTGAGATGGGTCAGAGGTCCTTTGTGTTTGAATGGGTC-
1 GAGGTCCCTTGAGTTTGAG-TGGGTCAGAGAACCTTTGAGTTTGAGTTGGTCA
* *
19558539 GAAGGTCCCTTGAGTTTGAGTTGGTCAGAGAACCTTTGAGTTTGAGTTAGTCA
1 G-AGGTCCCTTGAGTTTGAGTGGGTCAGAGAACCTTTGAGTTTGAGTTGGTCA
*
19558592 GAGGTCCCTTAAGTTTGAGTGGGTCCA-AGGAACC-TTGAGTTTGAGTTGGTCA
1 GAGGTCCCTTGAGTTTGAGTGGGT-CAGA-GAACCTTTGAGTTTGAGTTGGTCA
*
19558644 GAGGACCCTTGAG-TTGAGT
1 GAGGTCCCTTGAGTTTGAGT
19558663 TGTTCGGAGG
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 6 0.06
52 76 0.71
53 25 0.23
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (52 bp):
GAGGTCCCTTGAGTTTGAGTGGGTCAGAGAACCTTTGAGTTTGAGTTGGTCA
Found at i:19558615 original size:78 final size:78
Alignment explanation
Indices: 19558491--19558663 Score: 231
Period size: 78 Copynumber: 2.2 Consensus size: 78
19558481 GGTTCCGAGG
** * ** * **
19558491 ACCCTTGAGTTTGAGATGGGTCAGAGGTCCTTTGTGTTTGAATGGGTCGAAGGTCCCTTGAGTTT
1 ACCCTTGAGTTTGAG-TTAGTCAGAGGTCCCTTAAGTTTGAATGGGTCCAAGGAACCTTGAGTTT
19558556 GAGTTGGTCAGAGA
65 GAGTTGGTCAGAGA
* *
19558570 ACCTTTGAGTTTGAGTTAGTCAGAGGTCCCTTAAGTTTGAGTGGGTCCAAGGAACCTTGAGTTTG
1 ACCCTTGAGTTTGAGTTAGTCAGAGGTCCCTTAAGTTTGAATGGGTCCAAGGAACCTTGAGTTTG
*
19558635 AGTTGGTCAGAGG
66 AGTTGGTCAGAGA
19558648 ACCCTTGAG-TTGAGTT
1 ACCCTTGAGTTTGAGTT
19558664 GTTCGGAGGA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
77 7 0.09
78 61 0.74
79 14 0.17
ACGTcount: A:0.20, C:0.14, G:0.32, T:0.33
Consensus pattern (78 bp):
ACCCTTGAGTTTGAGTTAGTCAGAGGTCCCTTAAGTTTGAATGGGTCCAAGGAACCTTGAGTTTG
AGTTGGTCAGAGA
Found at i:19559576 original size:34 final size:34
Alignment explanation
Indices: 19559533--19559601 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
19559523 AGGTTGATCT
19559533 TTCCCTAAATGGTTTTGAGTGAAATAAAGTAAAA
1 TTCCCTAAATGGTTTTGAGTGAAATAAAGTAAAA
19559567 TTCCCTAAATGGTTTTGAGTGAAATAAAGTAAAA
1 TTCCCTAAATGGTTTTGAGTGAAATAAAGTAAAA
19559601 T
1 T
19559602 AAATTGGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (34 bp):
TTCCCTAAATGGTTTTGAGTGAAATAAAGTAAAA
Found at i:19565233 original size:15 final size:16
Alignment explanation
Indices: 19565204--19565233 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19565194 CAAACATGCT
19565204 TTAACACATTATCAAA
1 TTAACACATTATCAAA
19565220 TTAACACA-TATCAA
1 TTAACACATTATCAA
19565234 TAAGGCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:19570515 original size:26 final size:26
Alignment explanation
Indices: 19570459--19570531 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
19570449 TATTTTCTCG
* * *
19570459 AAATTTTACCACGGGCAAAATTGTCA
1 AAATTTTACCAAGGGTAAAATCGTCA
*
19570485 AAATTTTACCAAGGGTAAAATCGTTA
1 AAATTTTACCAAGGGTAAAATCGTCA
* * * *
19570511 GAATTTTGCTAGGGGTAAAAT
1 AAATTTTACCAAGGGTAAAAT
19570532 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCGTCA
Found at i:19573445 original size:20 final size:19
Alignment explanation
Indices: 19573422--19573472 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
19573412 TACTTTTCTC
*
19573422 TCTTCATTCTCTTCCATTGT
1 TCTTCATTCCCTTCCATT-T
19573442 TCTTCATTCCCTTCCATTT
1 TCTTCATTCCCTTCCATTT
19573461 TACTTCATTCCC
1 T-CTTCATTCCC
19573473 ATGCCGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.12, C:0.35, G:0.02, T:0.51
Consensus pattern (19 bp):
TCTTCATTCCCTTCCATTT
Found at i:19582440 original size:18 final size:18
Alignment explanation
Indices: 19582419--19582463 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
19582409 TTTCCTAAAT
19582419 TTTAATTTTAATTAATTA
1 TTTAATTTTAATTAATTA
19582437 TTTAATTTTAATTAATTA
1 TTTAATTTTAATTAATTA
*
19582455 TTAAATTTT
1 TTTAATTTT
19582464 CCATTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAATTTTAATTAATTA
Found at i:19584043 original size:37 final size:37
Alignment explanation
Indices: 19583970--19584044 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
19583960 TTATTACGAA
* * *
19583970 GTCTTACCCGGACATAATCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
19584007 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCT-CCACACGAAGTCATCGG
19584044 G
1 G
19584045 CCTTTAGAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:19584245 original size:47 final size:47
Alignment explanation
Indices: 19584169--19584294 Score: 171
Period size: 47 Copynumber: 2.7 Consensus size: 47
19584159 CTTCGGGACT
* * * * * *
19584169 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
19584216 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
19584263 TATCACATATATACACTTTCACATTCATCACA
1 TATCACATATATACACTTTCACATTCATCACA
19584295 CTTTCACATT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:19584297 original size:17 final size:17
Alignment explanation
Indices: 19584275--19584375 Score: 90
Period size: 17 Copynumber: 6.2 Consensus size: 17
19584265 TCACATATAT
19584275 ACACTTTCACATTCATC
1 ACACTTTCACATTCATC
19584292 ACACTTTCACATTCATC
1 ACACTTTCACATTCATC
** *
19584309 ACA-TCGGC-CATT-A-G
1 ACACT-TTCACATTCATC
*
19584323 GC-CTTATCACATAT-AT-
1 ACACTT-TCACAT-TCATC
19584339 ACACTTTCACATTCATC
1 ACACTTTCACATTCATC
19584356 ACACTTTCACATTCATC
1 ACACTTTCACATTCATC
19584373 ACA
1 ACA
19584376 TCGGCCATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
14 3 0.04
15 5 0.07
16 16 0.24
17 44 0.65
ACGTcount: A:0.31, C:0.33, G:0.04, T:0.33
Consensus pattern (17 bp):
ACACTTTCACATTCATC
Found at i:19584307 original size:64 final size:64
Alignment explanation
Indices: 19584228--19584422 Score: 381
Period size: 64 Copynumber: 3.0 Consensus size: 64
19584218 TCACATATAT
19584228 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
19584292 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
19584356 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
19584420 ACA
1 ACA
19584423 TCGGCTATTA
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 130 1.00
ACGTcount: A:0.30, C:0.31, G:0.06, T:0.33
Consensus pattern (64 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
Found at i:19584425 original size:47 final size:47
Alignment explanation
Indices: 19584356--19584548 Score: 350
Period size: 47 Copynumber: 4.1 Consensus size: 47
19584346 CACATTCATC
*
19584356 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
* * *
19584403 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTGTCACACATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
19584450 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
19584497 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
19584544 ACACT
1 ACACT
19584549 GTCTTGGCTG
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
Found at i:19586385 original size:8 final size:8
Alignment explanation
Indices: 19586372--19586402 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
19586362 CCTATCACAT
19586372 TTTTTTTA
1 TTTTTTTA
19586380 TTTTTTTA
1 TTTTTTTA
19586388 -TTTTTTA
1 TTTTTTTA
19586395 TTTTTTTA
1 TTTTTTTA
19586403 AAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:19586393 original size:15 final size:15
Alignment explanation
Indices: 19586373--19586402 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19586363 CTATCACATT
19586373 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
19586388 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
19586403 AAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:19604548 original size:20 final size:20
Alignment explanation
Indices: 19604523--19604563 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
19604513 CTGCCAATAT
* *
19604523 TACAGATAAACTTCCAGTAA
1 TACAGACAAACTACCAGTAA
*
19604543 TACAGACAAGCTACCAGTAA
1 TACAGACAAACTACCAGTAA
19604563 T
1 T
19604564 GTGGTCAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.22
Consensus pattern (20 bp):
TACAGACAAACTACCAGTAA
Found at i:19612515 original size:17 final size:17
Alignment explanation
Indices: 19612493--19612525 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19612483 ACATTCATTA
*
19612493 AGATTACTCTCTTAACT
1 AGATTACACTCTTAACT
19612510 AGATTACACTCTTAAC
1 AGATTACACTCTTAAC
19612526 AAAGACTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
AGATTACACTCTTAACT
Found at i:19615120 original size:121 final size:121
Alignment explanation
Indices: 19614906--19615150 Score: 472
Period size: 121 Copynumber: 2.0 Consensus size: 121
19614896 ATGGATAGTT
19614906 TTATATATTTTATCAAAATAAATTCAAATATATGTTCAACCCTTAAATAAGAGAAGTAAAAATGC
1 TTATATATTTTATCAAAATAAATTCAAATATATGTTCAACCCTTAAATAAGAGAAGTAAAAATGC
*
19614971 TTAAATGCACTCAAACTTTCATCCTCTTGCACTGAACAATGCCAATATCAATAGAG
66 TTAAATGCACTCAAACTTTCATCCTCTTGCACTGAACAATGCCAATACCAATAGAG
19615027 TTATATATTTTATCAAAATAAATTCAAATATATGTTCAACCCTTAAATAAGAGAAGTAAAAATGC
1 TTATATATTTTATCAAAATAAATTCAAATATATGTTCAACCCTTAAATAAGAGAAGTAAAAATGC
*
19615092 TTAAATGCACTCAAACTTTCATCCTCTTGCACTGAACAATGCCAATGCCAATAGAG
66 TTAAATGCACTCAAACTTTCATCCTCTTGCACTGAACAATGCCAATACCAATAGAG
19615148 TTA
1 TTA
19615151 AAACTCAATC
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (121 bp):
TTATATATTTTATCAAAATAAATTCAAATATATGTTCAACCCTTAAATAAGAGAAGTAAAAATGC
TTAAATGCACTCAAACTTTCATCCTCTTGCACTGAACAATGCCAATACCAATAGAG
Found at i:19621267 original size:79 final size:82
Alignment explanation
Indices: 19621156--19621340 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
19621146 GCTACTCGTT
* * *
19621156 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
19621219 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
19621236 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
19621299 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
19621316 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19621341 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:19621340 original size:40 final size:40
Alignment explanation
Indices: 19621137--19621340 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
19621127 CGGAATTTAA
** *
19621137 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
19621177 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19621217 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19621256 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19621296 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19621336 CCGGA
1 CCGGA
19621341 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19629231 original size:79 final size:82
Alignment explanation
Indices: 19629120--19629304 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
19629110 GCTACTCGTT
* * *
19629120 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
19629183 GGATTTAGTAAC-TCGCG
65 GGATATAGTAACTTAGCA
* **
19629200 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
19629263 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
19629280 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19629305 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:19629304 original size:40 final size:40
Alignment explanation
Indices: 19629101--19629304 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
19629091 CGGAATTTAA
** *
19629101 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
19629141 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19629181 CCGGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19629220 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19629260 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19629300 CCGGA
1 CCGGA
19629305 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19635723 original size:51 final size:51
Alignment explanation
Indices: 19635647--19635789 Score: 182
Period size: 51 Copynumber: 2.8 Consensus size: 51
19635637 ATGCTATCTA
* * *
19635647 GTACACATAGTAG-TCTACACTTAGTACTACATATGTGACCAATA-CCATCCG
1 GTACACATAGTAGCT-TGCACTTAGTACTACAAATGTGACCAA-AGCCACCCG
* * *
19635698 GTACACATAGTAGCTTGCACATAGTACTACAAACGTGACCAAAGCTACCCG
1 GTACACATAGTAGCTTGCACTTAGTACTACAAATGTGACCAAAGCCACCCG
* *
19635749 GTACACATAGTAGCGTGCACTTAGTACTACACATGTGACCA
1 GTACACATAGTAGCTTGCACTTAGTACTACAAATGTGACCA
19635790 TAACTATCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 78 0.98
52 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (51 bp):
GTACACATAGTAGCTTGCACTTAGTACTACAAATGTGACCAAAGCCACCCG
Found at i:19641329 original size:32 final size:31
Alignment explanation
Indices: 19641284--19641379 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
19641274 CTTAGATAAT
19641284 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19641315 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
19641347 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19641378 TT
1 TT
19641380 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:19641730 original size:4 final size:4
Alignment explanation
Indices: 19641681--19641714 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
19641671 ATCTATCCTT
19641681 TTTA TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
19641715 ACTAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19641975 original size:44 final size:44
Alignment explanation
Indices: 19641904--19641997 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 44
19641894 AATAGTTAAT
19641904 AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
1 AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
19641948 AAAAAAAGAGTTGAGAAAAATCT-AAAAAAAAGCAAACAGCGCAA
1 AAAAAAA-AGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
19641992 AAAAAA
1 AAAAAA
19641998 GTTGCCTACC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 34 0.69
45 15 0.31
ACGTcount: A:0.67, C:0.11, G:0.14, T:0.09
Consensus pattern (44 bp):
AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
Found at i:19647561 original size:32 final size:31
Alignment explanation
Indices: 19647516--19647611 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
19647506 CTTAGATAAT
19647516 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19647547 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
19647579 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19647610 TT
1 TT
19647612 GTAATTTTCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:19652591 original size:17 final size:18
Alignment explanation
Indices: 19652555--19652592 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
19652545 ATTTTCTTGT
19652555 TAACATAAAACTACTAAA
1 TAACATAAAACTACTAAA
* *
19652573 TAACTTAAAA-TACTTAA
1 TAACATAAAACTACTAAA
19652590 TAA
1 TAA
19652593 TTACCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACATAAAACTACTAAA
Found at i:19664978 original size:118 final size:118
Alignment explanation
Indices: 19664770--19665013 Score: 443
Period size: 118 Copynumber: 2.1 Consensus size: 118
19664760 TCAAGCCAAA
* * * *
19664770 CATTGTTTCAGTCTAGCCATTTCTTCCTTATTGTCTCCTGTCATCACTACGTCATCAGTATATAC
1 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
19664835 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
66 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
*
19664888 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCTTATCATCACTACGTCATCAATATATAC
1 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
19664953 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
66 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
19665006 CATTGTTT
1 CATTGTTT
19665014 TGTTGATAAT
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 121 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (118 bp):
CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
Found at i:19665832 original size:18 final size:18
Alignment explanation
Indices: 19665811--19665853 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19665801 CAATCTCCTT
*
19665811 TTGAACAGT-AGTCTCCCC
1 TTGAACAGTAACT-TCCCC
*
19665829 TTGAGCAGTAACTTCCCC
1 TTGAACAGTAACTTCCCC
19665847 TTGAACA
1 TTGAACA
19665854 ATGGTGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (18 bp):
TTGAACAGTAACTTCCCC
Found at i:19673787 original size:29 final size:29
Alignment explanation
Indices: 19673755--19673810 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
19673745 AATTTCTTTT
19673755 TAAAAAAT-ATTTAGAAA-TTATAAAAAACA
1 TAAAAAATCA-TTA-AAAGTTATAAAAAACA
19673784 TAAAAAATCATTAAAAGTTATAAAAAA
1 TAAAAAATCATTAAAAGTTATAAAAAA
19673811 ATTATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 3 0.12
29 21 0.84
30 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (29 bp):
TAAAAAATCATTAAAAGTTATAAAAAACA
Found at i:19674569 original size:31 final size:31
Alignment explanation
Indices: 19674526--19674589 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
19674516 GAAAATTTAA
19674526 ATTCCTTCATATTTGTTTCATATACATAGAG
1 ATTCCTTCATATTTGTTTCATATACATAGAG
* *
19674557 ATTCTTTCATATTTGTTTCATATTCATAGAG
1 ATTCCTTCATATTTGTTTCATATACATAGAG
19674588 AT
1 AT
19674590 AGGGGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.48
Consensus pattern (31 bp):
ATTCCTTCATATTTGTTTCATATACATAGAG
Found at i:19675349 original size:15 final size:14
Alignment explanation
Indices: 19675320--19675367 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
19675310 AAATTAAGCC
19675320 TAAAAATTTATATT
1 TAAAAATTTATATT
*
19675334 TAAAAATTTCTAATT
1 TAAAAATTTAT-ATT
* *
19675349 TTAAAATATATATT
1 TAAAAATTTATATT
19675363 ATAAA
1 -TAAA
19675368 TAAATAATGC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAAATTTATATT
Found at i:19683499 original size:58 final size:58
Alignment explanation
Indices: 19683427--19683537 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
19683417 TGAAGCAAAT
*
19683427 ATATATATACTTATAAAACAAAGAACAAGCA-TAAAACCCGTAAGTAGTCCAAAAGCAA
1 ATATATATACTTATAAAACAAAGAACAAG-AGAAAAACCCGTAAGTAGTCCAAAAGCAA
*
19683485 ATATATATACTTATAAAACAAAGAACAAGAGAAAAATCCGTAAGTAGTCCAAA
1 ATATATATACTTATAAAACAAAGAACAAGAGAAAAACCCGTAAGTAGTCCAAA
19683538 TACATCATGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 1 0.02
58 49 0.98
ACGTcount: A:0.54, C:0.15, G:0.11, T:0.20
Consensus pattern (58 bp):
ATATATATACTTATAAAACAAAGAACAAGAGAAAAACCCGTAAGTAGTCCAAAAGCAA
Found at i:19685933 original size:3 final size:3
Alignment explanation
Indices: 19685925--19685973 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
19685915 TTTTGATAGT
* * *
19685925 TTA TTA TTA TTA TTA -TG TTG TTG TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19685971 TTA
1 TTA
19685974 CTGTTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19688460 original size:27 final size:27
Alignment explanation
Indices: 19688430--19688607 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19688420 ATATTGAGTC
* * * *
19688430 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19688457 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19688484 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19688512 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19688539 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19688566 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19688593 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19688608 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19688569 original size:82 final size:81
Alignment explanation
Indices: 19688451--19688606 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19688441 TGCTATATAA
* *
19688451 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19688516 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19688533 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19688597 CACTTAGTGC
65 CACTTAGTGC
19688607 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19691819 original size:787 final size:787
Alignment explanation
Indices: 19690306--19691876 Score: 2793
Period size: 787 Copynumber: 2.0 Consensus size: 787
19690296 CATTCAAACC
19690306 TTTCGGTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCAC
1 TTTCGGTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCAC
* *
19690371 AACTCTCCCTCACTTAAGAAATTTTCGTCCTCGAAAATCTTACCGGTAAATAGGTTTGGATATCG
66 AACTCTCCCCCACTTAAGAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGATATCG
* *
19690436 TTCTTTCATCGAGCTCTCGGGTTCCCAGGTTGCTTCCTCGATCCCGTGTTTGAGCCACAACACCT
131 TTCTTTCATCGAGCTCTCGGGTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCACAACACCT
19690501 TAACCAACGGAACCCTTTTATTTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATCGGTTCT
196 TAACCAACGGAACCCTTTTATTTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATCGGTTCT
* *
19690566 TCTTCATAGCTCAAGTCAGATTGAATTTCAACTTCTGAGGGATTAATCACATGTGACGGATCGGA
261 TCTTCATAACTCAAGTCAGATTGAATTTCAACTTCTGAGGGATTAATCACAAGTGACGGATCGGA
* * *
19690631 TCTATAACGTCGAAGCATTGAAACATGGAAGACATCGTGCATCCTTTCAAGTTCAGGGGGCAAAA
326 TCTATAACGTCGAAGCATCGAAACATGAAAGACATCGTGAATCCTTTCAAGTTCAGGGGGCAAAA
* * *
19690696 TCAATCTATATGCAACCGGCCCCACTCGTTCGGAAATTTCGTACGGCCCAATGAATCTCGGGCTC
391 TCAATCTATACGCAACCGGACCAACTCGTTCGGAAATTTCGTACGGCCCAATGAATCTCGGGCTC
* * *
19690761 AACTTGCCTTTACGGCCAAATCTGAGTACCTTCTTCCAAGGTGACACTTTAAGAAACACTTTATC
456 AACTTGCCCTTACGGCCAAATCTGAGTACCTTCTTCCAAGGCGAAACTTTAAGAAACACTTTATC
*
19690826 TCCCACCTGATATTCAATGTCCTTTCGTTGTAAATCCGCATACGATTTTTGACGATCTGTGGCTA
521 TCCCACCTGATATTCAATGTCCTTTCATTGTAAATCCGCATACGATTTTTGACGATCTGTGGCTA
* *
19690891 CCTTCAGACTTTCGCGGATTACCTTTACTTTTCGTTCGGCATCTTTAATCAAATCAACTCCGAAA
586 CCTTCAGACTTTCACGGATTACCTTTACTTTTCGTTCGGCATCCTTAATCAAATCAACTCCGAAA
19690956 ATTTTACTTTCACCAAGCTCGGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCTC
651 ATTTTACTTTCACCAAGCTCGGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCTC
*
19691021 ATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAAT
716 ATAAGGTGCCATCTTAATACTTAATTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAAT
19691086 ACCGTCA
781 ACCGTCA
19691093 TTTCGGTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCAC
1 TTTCGGTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCAC
*
19691158 AACTCTCCCCCACTTAAGAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGGTATCG
66 AACTCTCCCCCACTTAAGAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGATATCG
* *
19691223 TTCTTTCATCGAGCTCTCGGTTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCATAACACCT
131 TTCTTTCATCGAGCTCTCGGGTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCACAACACCT
* * *
19691288 TAACTAACGGAACCCTTTTGTTTCGCAACTCTTTTACTTCACGAGCTAGGATACGAATCGGTTCT
196 TAACCAACGGAACCCTTTTATTTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATCGGTTCT
19691353 TCTTCATAACTCAAGTCAGATTGAATTTCAACTTCTGAGGGATTAATCACAAGTGACGGATCGGA
261 TCTTCATAACTCAAGTCAGATTGAATTTCAACTTCTGAGGGATTAATCACAAGTGACGGATCGGA
* *
19691418 TCTATAACGTCGAAGCATCGAAACATGAAAGACATCGTGAATCTTTTCAAGTTCAGGGGGCGAAA
326 TCTATAACGTCGAAGCATCGAAACATGAAAGACATCGTGAATCCTTTCAAGTTCAGGGGGCAAAA
*
19691483 TCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCTCGGGCTC
391 TCAATCTATACGCAACCGGACCAACTCGTTCGGAAATTTCGTACGGCCCAATGAATCTCGGGCTC
*
19691548 AACTTGCCCTTACGGCCAAATCTGAGTACCTTTTTCCAAGGCGAAACTTTAAGAAACACTTTATC
456 AACTTGCCCTTACGGCCAAATCTGAGTACCTTCTTCCAAGGCGAAACTTTAAGAAACACTTTATC
*
19691613 TCCCACCTGATATTCAATGTCTTTTCATT-TCAAATCCGCATACGATTTTTGACGATCTGTGGCT
521 TCCCACCTGATATTCAATGTCCTTTCATTGT-AAATCCGCATACGATTTTTGACGATCTGTGGCT
* * * *
19691677 GCTTTCAGACTTTCACGGATTACCTTTACTTTTTGTTCGGCATCCTTAATCAAATCAACTCTGAA
585 ACCTTCAGACTTTCACGGATTACCTTTACTTTTCGTTCGGCATCCTTAATCAAATCAACTCCGAA
* *
19691742 AATTTTACTTTCACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCT
650 AATTTTACTTTCACCAAGCTCGGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCT
*
19691807 CGTAAGGTGCCATCTTAATACTTAATTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAA
715 CATAAGGTGCCATCTTAATACTTAATTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAA
19691872 TACCG
780 TACCG
19691877 CTCCCATGAA
Statistics
Matches: 746, Mismatches: 37, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
786 1 0.00
787 745 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (787 bp):
TTTCGGTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCAC
AACTCTCCCCCACTTAAGAAATTTTCGTCCCCGAAAATCTTACCGGTAAATAGGTTTGGATATCG
TTCTTTCATCGAGCTCTCGGGTTCCCAAGTAGCTTCCTCGATCCCGTGTTTGAGCCACAACACCT
TAACCAACGGAACCCTTTTATTTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATCGGTTCT
TCTTCATAACTCAAGTCAGATTGAATTTCAACTTCTGAGGGATTAATCACAAGTGACGGATCGGA
TCTATAACGTCGAAGCATCGAAACATGAAAGACATCGTGAATCCTTTCAAGTTCAGGGGGCAAAA
TCAATCTATACGCAACCGGACCAACTCGTTCGGAAATTTCGTACGGCCCAATGAATCTCGGGCTC
AACTTGCCCTTACGGCCAAATCTGAGTACCTTCTTCCAAGGCGAAACTTTAAGAAACACTTTATC
TCCCACCTGATATTCAATGTCCTTTCATTGTAAATCCGCATACGATTTTTGACGATCTGTGGCTA
CCTTCAGACTTTCACGGATTACCTTTACTTTTCGTTCGGCATCCTTAATCAAATCAACTCCGAAA
ATTTTACTTTCACCAAGCTCGGTCCAAAACAATGGCGTACGGCATTTACGACCGTACAAAGCCTC
ATAAGGTGCCATCTTAATACTTAATTGAAAACTATTGTTGTAAGCGAATTCAATCAAAGGTAAAT
ACCGTCA
Found at i:19697376 original size:40 final size:40
Alignment explanation
Indices: 19697339--19697523 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
19697329 GCTACTCGTT
*
19697339 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
19697379 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19697419 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
19697458 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19697499 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19697524 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19697483 original size:79 final size:81
Alignment explanation
Indices: 19697339--19697521 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
19697329 GCTACTCGTT
* ** *
19697339 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
19697404 ATTTAGTAAC-TCGCG
66 ATATAGTAACTTAGCA
* **
19697419 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
19697481 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
19697499 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
19697522 GACATCATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 4 0.05
79 53 0.61
80 30 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:19703959 original size:51 final size:51
Alignment explanation
Indices: 19703883--19704025 Score: 182
Period size: 51 Copynumber: 2.8 Consensus size: 51
19703873 ATGCTATCTA
* * *
19703883 GTACACATAGTAG-TCTACACTTAGTACTACATATGTGACCAATA-CCATCCG
1 GTACACATAGTAGCT-TGCACTTAGTACTACAAATGTGACCAA-AGCCACCCG
* * *
19703934 GTACACATAGTAGCTTGCACATAGTACTACAAACGTGACCAAAGCTACCCG
1 GTACACATAGTAGCTTGCACTTAGTACTACAAATGTGACCAAAGCCACCCG
* *
19703985 GTACACATAGTAGCGTGCACTTAGTACTACACATGTGACCA
1 GTACACATAGTAGCTTGCACTTAGTACTACAAATGTGACCA
19704026 TAACTATCTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 78 0.98
52 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (51 bp):
GTACACATAGTAGCTTGCACTTAGTACTACAAATGTGACCAAAGCCACCCG
Found at i:19709565 original size:32 final size:31
Alignment explanation
Indices: 19709520--19709615 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
19709510 CTTAGATAAT
19709520 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19709551 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
19709583 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19709614 TT
1 TT
19709616 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:19709966 original size:4 final size:4
Alignment explanation
Indices: 19709917--19709950 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
19709907 ATCTATCCTT
19709917 TTTA TTTA TTTA TTTA TTTA TTTA -TTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
19709951 ACTAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:19710211 original size:44 final size:44
Alignment explanation
Indices: 19710140--19710233 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 44
19710130 AATAGTTAAT
19710140 AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
1 AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
19710184 AAAAAAAGAGTTGAGAAAAATCT-AAAAAAAAGCAAACAGCGCAA
1 AAAAAAA-AGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
19710228 AAAAAA
1 AAAAAA
19710234 GTTGCCTACC
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 34 0.69
45 15 0.31
ACGTcount: A:0.67, C:0.11, G:0.14, T:0.09
Consensus pattern (44 bp):
AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGCAA
Found at i:19715797 original size:32 final size:31
Alignment explanation
Indices: 19715752--19715847 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
19715742 CTTAGATAAT
19715752 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19715783 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
19715815 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
19715846 TT
1 TT
19715848 GTAATTTTCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:19720827 original size:17 final size:18
Alignment explanation
Indices: 19720791--19720828 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
19720781 ATTTTCTTGT
19720791 TAACATAAAACTACTAAA
1 TAACATAAAACTACTAAA
* *
19720809 TAACTTAAAA-TACTTAA
1 TAACATAAAACTACTAAA
19720826 TAA
1 TAA
19720829 TTACCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACATAAAACTACTAAA
Found at i:19730022 original size:25 final size:26
Alignment explanation
Indices: 19729992--19730047 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
19729982 AGCCAGATCG
* *
19729992 GGAAGCTC-CAGAGAGCCATTT-ATTA
1 GGAAGCTCACAAAGAGCC-TTTAATCA
19730017 GGAAGCTCACAAAGAGCCTTTAATCA
1 GGAAGCTCACAAAGAGCCTTTAATCA
19730043 GGAAG
1 GGAAG
19730048 TTCTGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTTTAATCA
Found at i:19730716 original size:20 final size:20
Alignment explanation
Indices: 19730678--19730715 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19730668 CCATATATTT
*
19730678 CATAAAATTTAGAATTTTTC
1 CATAAAATTTACAATTTTTC
*
19730698 CATAAATTTTAC-ATTTTT
1 CATAAAATTTACAATTTTT
19730716 TGAATTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (20 bp):
CATAAAATTTACAATTTTTC
Found at i:19733231 original size:25 final size:26
Alignment explanation
Indices: 19733203--19733258 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
19733193 AATTTTTCAA
19733203 ATACATATGCCAAAAGCATA-TATTT
1 ATACATATGCCAAAAGCATACTATTT
19733228 ATACATATGCCAAAAGCATATCTATTT
1 ATACATATGCCAAAAGCATA-CTATTT
19733255 ATAC
1 ATAC
19733259 TTATCAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 20 0.69
27 9 0.31
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (26 bp):
ATACATATGCCAAAAGCATACTATTT
Found at i:19733547 original size:41 final size:41
Alignment explanation
Indices: 19733489--19733763 Score: 397
Period size: 41 Copynumber: 6.7 Consensus size: 41
19733479 TTAACTTAAA
*
19733489 CAGATTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
19733531 CAGATCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * * * *
19733572 CAGTTCACCTGCACTTAGCATGCTAGGCTTATAGCCCGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* **
19733613 CAAATCACCAACACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
19733654 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
19733695 TAAATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
19733736 CAGTTCACTGGCACTTAGCCTGCTAGGC
1 CAGATCACCGGCACTTAGCCTGCTAGGC
19733764 ACTAAGCCTG
Statistics
Matches: 206, Mismatches: 27, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
41 202 0.98
42 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:19733774 original size:82 final size:82
Alignment explanation
Indices: 19733493--19733763 Score: 454
Period size: 82 Copynumber: 3.3 Consensus size: 82
19733483 CTTAAACAGA
* *
19733493 TTCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCAGCACTTAGCCTGCTAGG
19733558 CTTATAACCTGATTCAG
66 CTTATAACCTGATTCAG
* * *
19733575 TTCACCT-GCACTTAGCATGCTAGGCTTATAGCCCGATTCAAATCACCAACACTTAGCCTGCTAG
1 TTCA-CTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCAGCACTTAGCCTGCTAG
19733639 GCTTATAACCTGATTCAG
65 GCTTATAACCTGATTCAG
* * *
19733657 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAAATCACCGGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCAGCACTTAGCCTGCTAGG
19733722 CTTATAACCTGATTCAG
66 CTTATAACCTGATTCAG
19733739 TTCACTGGCACTTAGCCTGCTAGGC
1 TTCACTGGCACTTAGCCTGCTAGGC
19733764 ACTAAGCCTG
Statistics
Matches: 175, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
81 1 0.01
82 172 0.98
83 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (82 bp):
TTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCAGCACTTAGCCTGCTAGG
CTTATAACCTGATTCAG
Found at i:19740778 original size:47 final size:47
Alignment explanation
Indices: 19740726--19741323 Score: 779
Period size: 47 Copynumber: 12.6 Consensus size: 47
19740716 GATAATTGTG
*
19740726 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
19740773 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19740820 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
19740869 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19740916 ATGTGAAAGTGTATATATATGTGACAAGGCCT--TGGCCGATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19740963 ATGTGAAAGTGTATATATATGTGACAAGGCCTAATGGCCGATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
19741012 ATGTGAAAGTGTAGATATATGTGATAAGGCCTAATGGCCTATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19741061 ATG-AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
19741108 ATGTGAAAGTGTAGATATATGTGATAAGGCCTAATGGCCTATGTGATGA
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
19741157 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
19741204 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** * * * * * * * *
19741251 ATGTGAAAATGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
19741298 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAATGTATATATATGTGATAAG
19741324 TCCCGAAGGG
Statistics
Matches: 500, Mismatches: 43, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
47 321 0.64
48 8 0.02
49 171 0.34
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:19740851 original size:96 final size:96
Alignment explanation
Indices: 19740726--19741323 Score: 919
Period size: 96 Copynumber: 6.3 Consensus size: 96
19740716 GATAATTGTG
*
19740726 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
19740789 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
19740820 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
19740885 ATGTGATAAGGCCGAATGGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
*
19740916 ATGTGAAAGTGTATATATATGTGACAAGGCCT--TGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
19740979 ATATGTGACAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
19741012 ATGTGAAAGTGTAGATATATGTGATAAGGCCTAATGGCCTATGTGATGAA--TGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
19741075 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
19741108 ATGTGAAAGTGTAGATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
19741173 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
* *
19741204 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
19741267 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGAATGGCCGATGTGATGA
19741298 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
19741324 TCCCGAAGGG
Statistics
Matches: 472, Mismatches: 22, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
94 122 0.26
95 3 0.01
96 324 0.69
98 23 0.05
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCGATGTGATGA
Found at i:19740875 original size:143 final size:144
Alignment explanation
Indices: 19740726--19741323 Score: 915
Period size: 143 Copynumber: 4.2 Consensus size: 144
19740716 GATAATTGTG
* * *
19740726 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
* *
19740790 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAAT
19740855 GGCCGATGTGATGA
131 GGCCGATGTGATGA
*
19740869 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATAT
*
19740934 ATGTGACAAGGCCT--TGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAA
19740997 TGGCCGATGTGATGA
130 TGGCCGATGTGATGA
*
19741012 ATGTGAAAGTGTAGATATATGTGATAAGGCCTAATGGCCTATGTGATGAA--TGAAAGTGTATAT
1 ATGTGAAAGTGT--ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATAT
* *
19741075 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAGATATATGTGATAAGGCCT
63 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCT
*
19741140 AATGGCCTATGTGATGA
128 AATGGCCGATGTGATGA
*
19741157 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
* * * * *
19741221 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TATATATGTGACAGGGCCGAGT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAAT
* * *
19741284 GGCCAACGTGATGG
131 GGCCGATGTGATGA
*
19741298 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
19741324 TCCCGAAGGG
Statistics
Matches: 421, Mismatches: 26, Indels: 18
0.91 0.06 0.04
Matches are distributed among these distances:
141 53 0.13
143 236 0.56
145 132 0.31
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (144 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAAT
GGCCGATGTGATGA
Found at i:19742933 original size:41 final size:41
Alignment explanation
Indices: 19742877--19743163 Score: 430
Period size: 41 Copynumber: 7.0 Consensus size: 41
19742867 GGGTGTTACA
* * *
19742877 CTTATAACCTGATTCAGTTCACTGGCACTTAGCTTGCTAGA
1 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
* ** *
19742918 CTTATAGCCTGATTCAAATCACCGACACTTAGCCTGCTAGG
1 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
**
19742959 CTTATAACCTGATTCAGTTCACCTACACTTAGCCTGCTAGG
1 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
* * *
19743000 CTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
19743041 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
1 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
* *
19743082 CTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
* *
19743123 CTTATAACCTGATTCGGTTCACCAGCACTTAGCCTGCTAGG
1 CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
19743164 TGGTAAGCGT
Statistics
Matches: 221, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 221 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (41 bp):
CTTATAACCTGATTCAGTTCACCGGCACTTAGCCTGCTAGG
Found at i:19754634 original size:35 final size:35
Alignment explanation
Indices: 19754588--19754657 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
19754578 CTCATCGTAA
19754588 TTGATGTCTTCTTTCTATGTGTAACTTTTCCCTAC
1 TTGATGTCTTCTTTCTATGTGTAACTTTTCCCTAC
19754623 TTGATGTCTTCTTTCTATGTGTAACTTTTCCCTAC
1 TTGATGTCTTCTTTCTATGTGTAACTTTTCCCTAC
19754658 AAGTCTAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.14, C:0.23, G:0.11, T:0.51
Consensus pattern (35 bp):
TTGATGTCTTCTTTCTATGTGTAACTTTTCCCTAC
Found at i:19757814 original size:59 final size:61
Alignment explanation
Indices: 19757739--19757855 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
19757729 ATCTCTTTAA
* * * *
19757739 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAAAATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
* * *
19757798 TATTAAAATAAAATAATGTTTATCTACAATATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAAAATAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
19757856 GATAATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
TATTAAAATAAAATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:19757894 original size:25 final size:25
Alignment explanation
Indices: 19757840--19757894 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
19757830 AAACATTAAA
*
19757840 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
19757865 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
19757889 TATTAA
1 T-TTAA
19757895 GATGAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:19759342 original size:16 final size:16
Alignment explanation
Indices: 19759321--19759351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19759311 CTATGCATGC
*
19759321 AAAATATAAAAGACAG
1 AAAATAGAAAAGACAG
19759337 AAAATAGAAAAGACA
1 AAAATAGAAAAGACA
19759352 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.06, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAATAGAAAAGACAG
Found at i:19771975 original size:66 final size:66
Alignment explanation
Indices: 19771867--19772004 Score: 222
Period size: 66 Copynumber: 2.1 Consensus size: 66
19771857 AAAGAGCTCG
* * * *
19771867 AGGGGGGACCAAGCTAGACCGTGTTAGATCCGAAAACGTCGTTAGTAAGTTTTCATGCATATAGG
1 AGGGGGGACCAAGCTAGACCGTGTTAGATCCAAAAACATCGTTAGTAAGTTGTCATGCATATAAG
19771932 A
66 A
* *
19771933 AGGGGGTACCAAGCTAGACCGTGTTAGATCCAAAAATATCGTTAGTAAGTTGTCATGCATATAAG
1 AGGGGGGACCAAGCTAGACCGTGTTAGATCCAAAAACATCGTTAGTAAGTTGTCATGCATATAAG
19771998 A
66 A
19771999 AGGGGG
1 AGGGGG
19772005 AACCTTTAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (66 bp):
AGGGGGGACCAAGCTAGACCGTGTTAGATCCAAAAACATCGTTAGTAAGTTGTCATGCATATAAG
A
Found at i:19778690 original size:118 final size:118
Alignment explanation
Indices: 19778482--19778725 Score: 443
Period size: 118 Copynumber: 2.1 Consensus size: 118
19778472 TCAAGCCAAA
* * * *
19778482 CATTGTTTCAGTCTAGCCATTTCTTCCTTATTGTCTCCTGTCATCACTACGTCATCAGTATATAC
1 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
19778547 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
66 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
*
19778600 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCTTATCATCACTACGTCATCAATATATAC
1 CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
19778665 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
66 AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
19778718 CATTGTTT
1 CATTGTTT
19778726 TGTTGATAAT
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 121 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (118 bp):
CATTGTTTCAGTCGAGCCATTTCTTCCTTATCGTCTCCTATCATCACTACGTCATCAATATATAC
AATAAGAAGAGTGATTTTACCCTTGTGATGTTTCATGAAAATGGTATGATCAG
Found at i:19779544 original size:18 final size:18
Alignment explanation
Indices: 19779523--19779565 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19779513 CAATCTCCTT
*
19779523 TTGAACAGT-AGTCTCCCC
1 TTGAACAGTAACT-TCCCC
*
19779541 TTGAGCAGTAACTTCCCC
1 TTGAACAGTAACTTCCCC
19779559 TTGAACA
1 TTGAACA
19779566 ATGGTGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (18 bp):
TTGAACAGTAACTTCCCC
Found at i:19784620 original size:1 final size:1
Alignment explanation
Indices: 19784614--19784641 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
19784604 TATATCCCTT
19784614 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
19784642 AACCAAACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:19787490 original size:29 final size:29
Alignment explanation
Indices: 19787458--19787513 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
19787448 AATTTCTTTT
19787458 TAAAAAAT-ATTTAGAAA-TTATAAAAAACA
1 TAAAAAATCA-TTA-AAAGTTATAAAAAACA
19787487 TAAAAAATCATTAAAAGTTATAAAAAA
1 TAAAAAATCATTAAAAGTTATAAAAAA
19787514 ATTATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 3 0.12
29 21 0.84
30 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (29 bp):
TAAAAAATCATTAAAAGTTATAAAAAACA
Found at i:19788272 original size:31 final size:31
Alignment explanation
Indices: 19788229--19788292 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
19788219 GAAAATTTAA
19788229 ATTCCTTCATATTTGTTTCATATACATAGAG
1 ATTCCTTCATATTTGTTTCATATACATAGAG
* *
19788260 ATTCTTTCATATTTGTTTCATATTCATAGAG
1 ATTCCTTCATATTTGTTTCATATACATAGAG
19788291 AT
1 AT
19788293 AGGGGACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.48
Consensus pattern (31 bp):
ATTCCTTCATATTTGTTTCATATACATAGAG
Found at i:19789052 original size:15 final size:14
Alignment explanation
Indices: 19789023--19789070 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
19789013 AAATTAAGCC
19789023 TAAAAATTTATATT
1 TAAAAATTTATATT
*
19789037 TAAAAATTTCTAATT
1 TAAAAATTTAT-ATT
* *
19789052 TTAAAATATATATT
1 TAAAAATTTATATT
19789066 ATAAA
1 -TAAA
19789071 TAAATAATGC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAAAATTTATATT
Found at i:19797202 original size:58 final size:58
Alignment explanation
Indices: 19797130--19797240 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
19797120 TGAAGCAAAT
*
19797130 ATATATATACTTATAAAACAAAGAACAAGCA-TAAAACCCGTAAGTAGTCCAAAAGCAA
1 ATATATATACTTATAAAACAAAGAACAAG-AGAAAAACCCGTAAGTAGTCCAAAAGCAA
*
19797188 ATATATATACTTATAAAACAAAGAACAAGAGAAAAATCCGTAAGTAGTCCAAA
1 ATATATATACTTATAAAACAAAGAACAAGAGAAAAACCCGTAAGTAGTCCAAA
19797241 TACATCATGG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 1 0.02
58 49 0.98
ACGTcount: A:0.54, C:0.15, G:0.11, T:0.20
Consensus pattern (58 bp):
ATATATATACTTATAAAACAAAGAACAAGAGAAAAACCCGTAAGTAGTCCAAAAGCAA
Found at i:19799636 original size:3 final size:3
Alignment explanation
Indices: 19799628--19799676 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
19799618 TTTTGATAGT
* * *
19799628 TTA TTA TTA TTA TTA -TG TTG TTG TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19799674 TTA
1 TTA
19799677 CTGTTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19802163 original size:27 final size:27
Alignment explanation
Indices: 19802133--19802310 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19802123 ATATTGAGTC
* * * *
19802133 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19802160 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19802187 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19802215 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19802242 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19802269 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19802296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19802311 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19802272 original size:82 final size:81
Alignment explanation
Indices: 19802154--19802309 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19802144 TGCTATATAA
* *
19802154 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19802219 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19802236 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19802300 CACTTAGTGC
65 CACTTAGTGC
19802310 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19810226 original size:27 final size:27
Alignment explanation
Indices: 19810196--19810373 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19810186 ATATTGAGTC
* * * *
19810196 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19810223 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19810250 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19810278 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19810305 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19810332 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19810359 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19810374 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19810335 original size:82 final size:81
Alignment explanation
Indices: 19810217--19810372 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19810207 TGCTATATAA
* *
19810217 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19810282 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19810299 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19810363 CACTTAGTGC
65 CACTTAGTGC
19810373 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19815836 original size:50 final size:50
Alignment explanation
Indices: 19815707--19815997 Score: 260
Period size: 50 Copynumber: 5.7 Consensus size: 50
19815697 GATAATAACA
* ** * * **
19815707 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCAT-GTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * * * **
19815756 TGCCAATGCCATATCCTAGATATGGTCTTACTTGGGAGTTCTCATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * ** * *
19815806 TGCCCATGCTATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
** * * * * *
19815856 TGCCAACACTATGTCCCAGACATGGTCTTACATGGGACCTATCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* *
19815906 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-AT-T---GG
*
19815961 ATGCCAATGCCATGTCCCATACATGGTCTTACATGGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
19815998 TTCTCTTTAC
Statistics
Matches: 196, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 37 0.19
50 123 0.63
51 1 0.01
55 2 0.01
56 33 0.17
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
Found at i:19823868 original size:77 final size:79
Alignment explanation
Indices: 19823736--19823911 Score: 223
Period size: 77 Copynumber: 2.3 Consensus size: 79
19823726 AGACATTATA
* * *
19823736 ATGCATTCAGGGGCTACCGAAGTACAAACAGGGGCACGCCTGTGCATTCAGGGGTATCGAAGTAC
1 ATGCATTCAGGGG-TACCAAAGTACAAACAGGGGCACGCCTGTGCATTCAAGGGTACCGAAGTAC
* *
19823801 AACA-GGTCACGTCT
65 AACAGGGGCACGTAT
* * *
19823815 ATGCATTCAGGGGTACCAAAGTAC-AACAGGGGCATGTCTGTGTATTCAAGGGTACCGAAGTACA
1 ATGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGCCTGTGCATTCAAGGGTACCGAAGTACA
*
19823879 ATAGGGGCACGTAT
66 ACAGGGGCACGTAT
* *
19823893 TTGCATTCA-AGGTACCAAA
1 ATGCATTCAGGGGTACCAAA
19823912 ATAAATTCAC
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
77 46 0.54
78 26 0.31
79 13 0.15
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (79 bp):
ATGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGCCTGTGCATTCAAGGGTACCGAAGTACA
ACAGGGGCACGTAT
Found at i:19823904 original size:39 final size:39
Alignment explanation
Indices: 19823737--19823901 Score: 206
Period size: 39 Copynumber: 4.2 Consensus size: 39
19823727 GACATTATAA
*
19823737 TGCATTCAGGGGCTACCGAAGTACAAACAGGGGCACGCCTG
1 TGCATTCAGGGG-TACCGAAGTAC-AACAGGGGCACGTCTG
* * *
19823778 TGCATTCAGGGGTATCGAAGTACAACA-GGTCACGTCTA
1 TGCATTCAGGGGTACCGAAGTACAACAGGGGCACGTCTG
* *
19823816 TGCATTCAGGGGTACCAAAGTACAACAGGGGCATGTCTG
1 TGCATTCAGGGGTACCGAAGTACAACAGGGGCACGTCTG
* * * * *
19823855 TGTATTCAAGGGTACCGAAGTACAATAGGGGCACGTATT
1 TGCATTCAGGGGTACCGAAGTACAACAGGGGCACGTCTG
19823894 TGCATTCA
1 TGCATTCA
19823902 AGGTACCAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
38 33 0.31
39 51 0.48
40 10 0.09
41 12 0.11
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (39 bp):
TGCATTCAGGGGTACCGAAGTACAACAGGGGCACGTCTG
Found at i:19830058 original size:79 final size:78
Alignment explanation
Indices: 19829956--19830178 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
19829946 GCTCCTCGTT
* *
19829956 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
19830021 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
19830036 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
19830099 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
19830114 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
19830177 GA
63 GA
19830179 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:19830073 original size:39 final size:40
Alignment explanation
Indices: 19829956--19830178 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
19829946 GCTCCTCGTT
* *
19829956 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
19829996 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19830036 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19830075 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
19830114 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
19830155 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19830179 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:19838064 original size:79 final size:82
Alignment explanation
Indices: 19837947--19838131 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
19837937 GCTCCTCGTT
* * * *
19837947 CAAATGCCTTCGGGACATAGTCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
19838010 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
19838027 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
19838090 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
19838107 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19838132 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:19838131 original size:40 final size:40
Alignment explanation
Indices: 19837947--19838131 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
19837937 GCTCCTCGTT
* * *
19837947 CAAATGCCTTCGGGACATAGTCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
19837987 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
19838027 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
19838066 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
19838107 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19838132 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:19852241 original size:14 final size:14
Alignment explanation
Indices: 19852219--19852259 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
19852209 TTTTATCTTT
*
19852219 CTTTTCTTTAATTG
1 CTTTACTTTAATTG
19852233 CTTTACTTTAATTG
1 CTTTACTTTAATTG
19852247 CTTTACTTTAATT
1 CTTTACTTTAATT
19852260 TTATTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (14 bp):
CTTTACTTTAATTG
Found at i:19857804 original size:45 final size:44
Alignment explanation
Indices: 19857720--19857833 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
19857710 CTATACGCTT
* * ****
19857720 AAAATGAGTAAAACCATAGCTAAAAGATGTTATTGCATCATGATA
1 AAAATGAGTAAGACCATAGCTTAAAGACACCATTGCATCAT-ATA
19857765 AAAATGAGTAAGACCATAGCTTAAAGACACCA-TGACATCATATA
1 AAAATGAGTAAGACCATAGCTTAAAGACACCATTG-CATCATATA
* * *
19857809 AAAATGTGTGAGGCCATAGCTTAAA
1 AAAATGAGTAAGACCATAGCTTAAA
19857834 TAGGACTAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 27 0.46
45 32 0.54
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.24
Consensus pattern (44 bp):
AAAATGAGTAAGACCATAGCTTAAAGACACCATTGCATCATATA
Found at i:19862774 original size:672 final size:672
Alignment explanation
Indices: 19861491--19862815 Score: 2580
Period size: 672 Copynumber: 2.0 Consensus size: 672
19861481 ATGGATCACG
19861491 AGCCCAAATTCTTGAAGGCGAGGCCCAATAACCAAAATCCAGCCCAATCAAGAAATTTCTTCATA
1 AGCCCAAATTCTTGAAGGCGAGGCCCAATAACCAAAATCCAGCCCAATCAAGAAATTTCTTCATA
19861556 CTTAGTTGAAAATCAGGCCAAAATGTCAAAGGGCCCAATTTGTAAACATCTTACTTGTTTAATTT
66 CTTAGTTGAAAATCAGGCCAAAATGTCAAAGGGCCCAATTTGTAAACATCTTACTTGTTTAATTT
*
19861621 AATTTTTTAATCTTTAGGAGCATTACATGTAAAATTCGGCCCAAAACAGCCCATATAAGTGCATG
131 AATTTTTTAATCTTTAGGAGCATTACATGTAAAATTCGGCCCAAAACAGCCCATATAAGTCCATG
19861686 GCCGAATTTACCTTGTTATTTTATTAATTAGGTTTAATTTTTTATTAGTTACTTGTGAGATTAGG
196 GCCGAATTTACCTTGTTATTTTATTAATTAGGTTTAATTTTTTATTAGTTACTTGTGAGATTAGG
*
19861751 ATTTGTTGGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAACATCTTATTATTATTTT
261 ATTTGTTGGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAACATCTCATTATTATTTT
19861816 TTCTATCAAATTTCAGATTTGTTGAGTGCAGAATTTTCTTTGGGGTTTTCTCCAAGAATTCTCTC
326 TTCTATCAAATTTCAGATTTGTTGAGTGCAGAATTTTCTTTGGGGTTTTCTCCAAGAATTCTCTC
19861881 TTGAGTTTTCTTTAGAAGTTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAACCTTCTTC
391 TTGAGTTTTCTTTAGAAGTTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAACCTTCTTC
19861946 TTGCCATCGATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAATCTTTCGGG
456 TTGCCATCGATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAATCTTTCGGG
19862011 ATTTCAAGGATCTTTAGGACTTATCCTTTAATTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTC
521 ATTTCAAGGATCTTTAGGACTTATCCTTTAATTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTC
*
19862076 TTTGCTTATACTTGTGCAGATTTCTCATCTAATATTTTGCTGTTCTTGTTTGTGTTT-CAGCCTT
586 TTTGCTTATACTTGTGCAGATTTCTCATCTAATATTTTGCTGTTCTTGTTTGT-TTTCCAGCATT
19862140 GATTCAATGATACGAGTCACAAA
650 GATTCAATGATACGAGTCACAAA
19862163 AGCCCAAATTCTTGAAGGCGAGGCCCAATAACCAAAATCCAGCCCAATCAAGAAATTTCTTCATA
1 AGCCCAAATTCTTGAAGGCGAGGCCCAATAACCAAAATCCAGCCCAATCAAGAAATTTCTTCATA
19862228 CTTAGTTGAAAATCAGGCCAAAATGTCAAAGGGCCCAATTTGTAAACATCTTACTTGTTTAATTT
66 CTTAGTTGAAAATCAGGCCAAAATGTCAAAGGGCCCAATTTGTAAACATCTTACTTGTTTAATTT
19862293 AATTTTTTAATCTTTAGGAGCATTACATGTAAAATTCGGCCCAAAACAGCCCATATAAGTCCATG
131 AATTTTTTAATCTTTAGGAGCATTACATGTAAAATTCGGCCCAAAACAGCCCATATAAGTCCATG
19862358 GCCGAATTTACCTTGTTATTTTATTAATTAGGTTTAATTTTTTATTAGTTACTTGTGAGATTAGG
196 GCCGAATTTACCTTGTTATTTTATTAATTAGGTTTAATTTTTTATTAGTTACTTGTGAGATTAGG
19862423 ATTTGTTGGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAACATCTCATTATTATTTT
261 ATTTGTTGGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAACATCTCATTATTATTTT
*
19862488 TTCTATCAAATTTTAGATTTGTTGAGTGCAGAATTTTCTTTGGGGTTTTCTCCAAGAATTCTCTC
326 TTCTATCAAATTTCAGATTTGTTGAGTGCAGAATTTTCTTTGGGGTTTTCTCCAAGAATTCTCTC
19862553 TTGAGTTTTCTTTAGAAGTTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAACCTTCTTC
391 TTGAGTTTTCTTTAGAAGTTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAACCTTCTTC
*
19862618 TTGCCATCGATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAATCTTTTGGG
456 TTGCCATCGATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAATCTTTCGGG
19862683 ATTTCAAGGATCTTTAGGACTTATCCTTTAATTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTC
521 ATTTCAAGGATCTTTAGGACTTATCCTTTAATTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTC
*
19862748 TTTGCTTATACTTGTGCCGATTTCTCATCTAATATTTTGCTGTTCTTGTTTGTTTTCCAGCATTG
586 TTTGCTTATACTTGTGCAGATTTCTCATCTAATATTTTGCTGTTCTTGTTTGTTTTCCAGCATTG
19862813 ATT
651 ATT
19862816 AAACTCAAGA
Statistics
Matches: 646, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
671 3 0.00
672 643 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (672 bp):
AGCCCAAATTCTTGAAGGCGAGGCCCAATAACCAAAATCCAGCCCAATCAAGAAATTTCTTCATA
CTTAGTTGAAAATCAGGCCAAAATGTCAAAGGGCCCAATTTGTAAACATCTTACTTGTTTAATTT
AATTTTTTAATCTTTAGGAGCATTACATGTAAAATTCGGCCCAAAACAGCCCATATAAGTCCATG
GCCGAATTTACCTTGTTATTTTATTAATTAGGTTTAATTTTTTATTAGTTACTTGTGAGATTAGG
ATTTGTTGGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAACATCTCATTATTATTTT
TTCTATCAAATTTCAGATTTGTTGAGTGCAGAATTTTCTTTGGGGTTTTCTCCAAGAATTCTCTC
TTGAGTTTTCTTTAGAAGTTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAACCTTCTTC
TTGCCATCGATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAATCTTTCGGG
ATTTCAAGGATCTTTAGGACTTATCCTTTAATTCTTGCTGTTTTCGATTTCTTTCTTTACTTTTC
TTTGCTTATACTTGTGCAGATTTCTCATCTAATATTTTGCTGTTCTTGTTTGTTTTCCAGCATTG
ATTCAATGATACGAGTCACAAA
Found at i:19872430 original size:50 final size:50
Alignment explanation
Indices: 19872307--19872432 Score: 130
Period size: 50 Copynumber: 2.5 Consensus size: 50
19872297 ATATAAACGT
* * **
19872307 CACTGATTTGTAGATAAACAACCACTGATAACACTGATGTGACAAGCCAC
1 CACTAATTTGTAGATATACTGCCACTGATAACACTGATGTGACAAGCCAC
* ** * * *
19872357 CACTAATATACAGATTTATTGCCACTGATTAA-A-TTATGTGGACAAGCCAC
1 CACTAATTTGTAGATATACTGCCACTGA-TAACACTGATGT-GACAAGCCAC
19872407 CACTAATTTGTAGATATACTGCCACT
1 CACTAATTTGTAGATATACTGCCACT
19872433 ACTTCCACCT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
49 5 0.08
50 51 0.86
51 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (50 bp):
CACTAATTTGTAGATATACTGCCACTGATAACACTGATGTGACAAGCCAC
Found at i:19878882 original size:40 final size:40
Alignment explanation
Indices: 19878838--19879340 Score: 790
Period size: 40 Copynumber: 12.6 Consensus size: 40
19878828 TTATACCTAA
* * * *
19878838 ATTGCACATATGTGCCCCTGTTTGTACTTTGGTAACCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
* * * **
19878878 ATTGCACATACGTACCCCTATTTGTACTTCAATACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
* * * *
19878918 ATTGCACAAACGTGCCCCTATTTGTACTTCGGTACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
**
19878958 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCATTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
* *
19878998 ATTGCACATATGTGCCCCTGTTTGTACCTCGGTACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
* * * **
19879038 ATTGCACATATGTGGCCCTATTTGTACCTCGACACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
*
19879078 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
19879118 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
19879158 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
*
19879198 ATTGCACATACCTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
19879238 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
19879278 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
19879318 ATTGCACATACGTGCCCCTGTTT
1 ATTGCACATACGTGCCCCTGTTT
19879341 ACACTTCAGT
Statistics
Matches: 431, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 431 1.00
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.32
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTGTTTGTACCTCGGTACCCCTG
Found at i:19883213 original size:27 final size:26
Alignment explanation
Indices: 19883183--19883249 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
19883173 CGTTCTGACC
*
19883183 CACAGCTCGTGTGACCAGGCCCATTTT
1 CACAGCTCGTGTGACCAGACCC-TTTT
* * * * *
19883210 CACAGCTCATGTAAGCATACTCTTTT
1 CACAGCTCGTGTGACCAGACCCTTTT
19883236 CACAGCTCGTGTGA
1 CACAGCTCGTGTGA
19883250 GCATATATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (26 bp):
CACAGCTCGTGTGACCAGACCCTTTT
Found at i:19887354 original size:25 final size:25
Alignment explanation
Indices: 19887326--19887395 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
19887316 TCCTGTACAT
*
19887326 GTATGCTCATACAAGCTGTGAATCG
1 GTATGCTCATACAAGCTGTAAATCG
*
19887351 GTATGCTC-TCACGAA-CTATAAATCG
1 GTATGCTCAT-AC-AAGCTGTAAATCG
* *
19887376 GTAAGCTCATACTAGCTGTA
1 GTATGCTCATACAAGCTGTA
19887396 GGGTTGTACA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
24 2 0.06
25 31 0.86
26 3 0.08
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (25 bp):
GTATGCTCATACAAGCTGTAAATCG
Found at i:19895539 original size:50 final size:49
Alignment explanation
Indices: 19895430--19895602 Score: 152
Period size: 50 Copynumber: 3.5 Consensus size: 49
19895420 CAAGTCCTAC
* * * ** **
19895430 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGC-ATGGCACCAACATGAGAACTCCCAT
* *
19895480 GTAAGACCATGCCTGGGACATGGCATGGCCACCAATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGG-CACCAACATGAGAACTCCCAT
* * * ** *
19895530 GTAATACCATATCTGGGATATGGCATTGGCA-GTACA-GAAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCA-TGGCACCAACATGAGAAC-TCCCAT
*
19895579 GTAAAACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
19895603 TTTGGCATGT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
48 5 0.05
49 32 0.32
50 61 0.60
51 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGCACCAACATGAGAACTCCCAT
Found at i:19920735 original size:26 final size:27
Alignment explanation
Indices: 19920671--19921030 Score: 93
Period size: 29 Copynumber: 12.7 Consensus size: 27
19920661 ATTTCTGTAT
**
19920671 AAGAAAGCCTTTGTATCTATCTCTGAA
1 AAGAAAGCCTTTGTGGCTATCTCTGAA
* *
19920698 TAG-ACGCCTTTGTGGCTATCTCT-AA
1 AAGAAAGCCTTTGTGGCTATCTCTGAA
* * * *
19920723 AAGAAAGCATTTGTGGCGATCTTTGTTAT
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * *
19920752 AAGGAAGCC-ATGTGGCTATCTTTGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * * * **
19920780 AAGAATGTCTATATTTCTATCT-TAGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCT-G--AA
* * * *
19920809 AAGAATGCCTTTGTGGCAATCTTTGTTAT
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * * * *
19920838 AAGGAAGCCTTTGTAGCGATCTACGTTAT
1 AAGAAAGCCTTTGTGGCTATCT-C-TGAA
* * * *
19920867 AAGAAAGCATTTGTCGCGATCTCTGTTAT
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* *
19920896 AAGGATGCCTTTGTGGCTATCTCTGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* *
19920925 ATGAATA-CCTTTGTGGATATCTCTGTTAA
1 AAGAA-AGCCTTTGTGGCTATCTCTG--AA
* * *
19920954 ATGAATGCCTTTATGGCTATCTCTGTTAA
1 AAGAAAGCCTTTGTGGCTATCTCTG--AA
* * * * *
19920983 AAGGACGCTTTTGTCGCGAGTCTCTG-A
1 AAGAAAGCCTTTGTGGCTA-TCTCTGAA
*
19921010 AAGTAAAGCCTCTGTGGCTAT
1 AAG-AAAGCCTTTGTGGCTAT
19921031 TTTCGGGAAG
Statistics
Matches: 254, Mismatches: 64, Indels: 30
0.73 0.18 0.09
Matches are distributed among these distances:
25 4 0.02
26 33 0.13
27 8 0.03
28 34 0.13
29 167 0.66
30 7 0.03
31 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (27 bp):
AAGAAAGCCTTTGTGGCTATCTCTGAA
Found at i:19920830 original size:29 final size:28
Alignment explanation
Indices: 19920703--19920985 Score: 180
Period size: 29 Copynumber: 9.9 Consensus size: 28
19920693 CTGAATAGAC
* *
19920703 GCCTTTGTGGCTATC-T-CTAAAAGAAA
1 GCCTTTGTGGCTATCTTGTTAAAAGAAT
* * *
19920729 GCATTTGTGGCGATCTTTGTTATAAGGAA-
1 GCCTTTGTGGCTATC-TTGTTA-AAAGAAT
*
19920758 GCC-ATGTGGCTATCTTTGTTAAAAGAAT
1 GCCTTTGTGGCTATC-TTGTTAAAAGAAT
* * * **
19920786 GTCTATATTTCTATCTTAGTTAAAAGAAT
1 GCCTTTGTGGCTATCTT-GTTAAAAGAAT
* *
19920815 GCCTTTGTGGCAATCTTTGTTATAAGGAA-
1 GCCTTTGTGGCTATC-TTGTTA-AAAGAAT
* * * * *
19920844 GCCTTTGTAGCGATCTACGTTATAAGAAA
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
* * * * *
19920873 GCATTTGTCGCGATCTCTGTTATAAGGAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
*
19920902 GCCTTTGTGGCTATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
* * *
19920931 ACCTTTGTGGATATCTCTGTTAAATGAAT
1 GCCTTTGTGGCTATCT-TGTTAAAAGAAT
*
19920960 GCCTTTATGGCTATCTCTGTTAAAAG
1 GCCTTTGTGGCTATCT-TGTTAAAAG
19920986 GACGCTTTTG
Statistics
Matches: 204, Mismatches: 42, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
26 13 0.06
27 5 0.02
28 26 0.13
29 148 0.73
30 12 0.06
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (28 bp):
GCCTTTGTGGCTATCTTGTTAAAAGAAT
Found at i:19922756 original size:12 final size:12
Alignment explanation
Indices: 19922739--19922768 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19922729 CCTCACTCGC
19922739 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
19922751 CCGTGTGCTAGG
1 CCGTGTGCCAGG
19922763 CCGTGT
1 CCGTGT
19922769 AATAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:19923827 original size:19 final size:19
Alignment explanation
Indices: 19923727--19923827 Score: 53
Period size: 19 Copynumber: 5.2 Consensus size: 19
19923717 AAGAGTACTG
*
19923727 AAGTACACCAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* * * *
19923746 AAGTGCAATTAGGGGTA-TT
1 AAGTACAA-CAGGGGCACGT
* **
19923765 GAAGTACAACAGGAGCACAC
1 -AAGTACAACAGGGGCACGT
* * *
19923785 AAGTGCGACCAGGGGTACCG-
1 AAGTAC-AACAGGGGCA-CGT
19923805 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
19923824 AAGT
1 AAGT
19923828 GCGATCAGGG
Statistics
Matches: 57, Mismatches: 19, Indels: 12
0.65 0.22 0.14
Matches are distributed among these distances:
18 2 0.04
19 29 0.51
20 25 0.44
21 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.32, T:0.14
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:19923830 original size:39 final size:39
Alignment explanation
Indices: 19923721--19923837 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 39
19923711 GATATCAAGA
* * *
19923721 GTACTGAAGTACACCAGGGGCACGTAAGTGCAATTAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
* * ** *
19923760 GTATTGAAGTACAACAGGAGCACACAAGTGCGACCAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
*
19923799 GTACCGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
1 GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
19923838 ATATAATTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.33, T:0.15
Consensus pattern (39 bp):
GTACTGAAGTACAACAGGGGCACGTAAGTGCGATCAGGG
Found at i:19931069 original size:10 final size:11
Alignment explanation
Indices: 19931051--19931083 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
19931041 TCTCCTTCCT
19931051 TTCTTTCTTTC
1 TTCTTTCTTTC
19931062 TT-TTTCTTTC
1 TTCTTTCTTTC
*
19931072 TTCTTTTTTTC
1 TTCTTTCTTTC
19931083 T
1 T
19931084 ATTAATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTCTTTC
Found at i:19931080 original size:14 final size:14
Alignment explanation
Indices: 19931050--19931079 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
19931040 TTCTCCTTCC
19931050 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
19931064 TTTCTTTC-TTCTT
1 TTTCTTTCTTTCTT
19931077 TTT
1 TTT
19931080 TTCTATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:19932091 original size:26 final size:26
Alignment explanation
Indices: 19932057--19932109 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
19932047 TGAAAAGTAG
*
19932057 TTTTAAAATT-TTTTCTCTTAGAAATA
1 TTTTAAAATTATTATCTCTTA-AAATA
*
19932083 TTTTGAAATTAATTATCTCTTAAAATA
1 TTTTAAAATT-ATTATCTCTTAAAATA
19932110 AACATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 5 0.22
28 9 0.39
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTTAAAATTATTATCTCTTAAAATA
Found at i:19932462 original size:3 final size:3
Alignment explanation
Indices: 19932454--19932498 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
19932444 TAATTTACCT
*
19932454 TAA TAA TAA TAA TAA TAA TAA TAA TAA TCAA AAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
19932499 ATTCTAATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:19936367 original size:15 final size:17
Alignment explanation
Indices: 19936329--19936361 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19936319 TGTTTACTCG
19936329 TATTAATATATACTTTC
1 TATTAATATATACTTTC
*
19936346 TAGTAATATATACTTT
1 TATTAATATATACTTT
19936362 TTTAATGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTAATATATACTTTC
Found at i:19949029 original size:23 final size:22
Alignment explanation
Indices: 19949003--19949075 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
19948993 ACAGGGCTTA
19949003 CAGAATATGCCACTAAGACTTTG
1 CAGAATATGCCAC-AAGACTTTG
* * *
19949026 CAG-ATCATGCCACACAGGCCTTA
1 CAGAAT-ATGCCACA-AGACTTTG
* *
19949049 TAGAATACGCCACCAAGACTTTG
1 CAGAATATGCCA-CAAGACTTTG
19949072 CAGA
1 CAGA
19949076 TCACGCCACA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
22 3 0.08
23 30 0.81
24 4 0.11
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (22 bp):
CAGAATATGCCACAAGACTTTG
Found at i:19949038 original size:46 final size:46
Alignment explanation
Indices: 19948986--19949096 Score: 159
Period size: 46 Copynumber: 2.4 Consensus size: 46
19948976 ATCATTGAAT
* * *
19948986 ACGCCACACAGGGCTTACAGAATATGCCACTAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
19949032 ATGCCACACAGGCCTTATAGAATACGCCACCAAGACTTTGCAGATC
1 ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
* *
19949078 ACGCCACATAGGCATTACA
1 ACGCCACACAGGCCTTACA
19949097 AAGAGTTACG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (46 bp):
ACGCCACACAGGCCTTACAGAATACGCCACCAAGACTTTGCAGATC
Found at i:19949081 original size:23 final size:23
Alignment explanation
Indices: 19949011--19949084 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
19949001 TACAGAATAT
* *
19949011 GCCACTAAGACTTTGCAGATCAT
1 GCCACCAAGACTTTGCAGATCAC
* *
19949034 GCCACACAGGCCTTAT--AGAAT-AC
1 GCCAC-CAAGACTT-TGCAG-ATCAC
19949057 GCCACCAAGACTTTGCAGATCAC
1 GCCACCAAGACTTTGCAGATCAC
19949080 GCCAC
1 GCCAC
19949085 ATAGGCATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
21 1 0.03
22 8 0.21
23 22 0.56
24 7 0.18
25 1 0.03
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (23 bp):
GCCACCAAGACTTTGCAGATCAC
Found at i:19953950 original size:9 final size:9
Alignment explanation
Indices: 19953872--19953957 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
19953862 TTTTGGGTAC
*
19953872 AATTTTTTT
1 AATTTTTAT
*
19953881 AATTTTAAT
1 AATTTTTAT
*
19953890 -TTTTTTAT
1 AATTTTTAT
*
19953898 AATTTATAT
1 AATTTTTAT
*
19953907 ACTTTTTA-
1 AATTTTTAT
19953915 AAGTTTTTA-
1 AA-TTTTTAT
*
19953924 AGTATTTTAAAT
1 A--ATTTT-TAT
*
19953936 ATTTTTTAT
1 AATTTTTAT
19953945 AATTTTTAT
1 AATTTTTAT
19953954 AATT
1 AATT
19953958 AGGACTAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
8 7 0.12
9 40 0.69
10 8 0.14
11 2 0.03
12 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:19956204 original size:1 final size:1
Alignment explanation
Indices: 19956198--19956305 Score: 216
Period size: 1 Copynumber: 108.0 Consensus size: 1
19956188 TGCAACCAAT
19956198 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19956263 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19956306 CAGGCTTTGC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 107 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19962305 original size:79 final size:81
Alignment explanation
Indices: 19962169--19962351 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
19962159 TCGAATGATG
* *
19962169 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19962233 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
19962248 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
19962310 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
19962328 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19962352 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:19962367 original size:40 final size:40
Alignment explanation
Indices: 19962170--19962353 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
19962160 CGAATGATGT
* * * *
19962170 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
19962210 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
19962250 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19962288 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19962329 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
19962354 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19962375 original size:79 final size:79
Alignment explanation
Indices: 19962222--19962386 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
19962212 GGACTAAGAT
* **
19962222 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
19962287 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
19962301 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
19962364 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
19962380 CCGAAGG
1 CCGAAGG
19962387 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Done.