Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 59 of 207
Found at i:17182612 original size:88 final size:89
Alignment explanation
Indices: 17182495--17182928 Score: 284
Period size: 88 Copynumber: 4.9 Consensus size: 89
17182485 AGATTCACCA
* ** * * *
17182495 TCTTCGATCTGCTCCACTACTGC-TTAGGGAGACAAGATTTACAATCTTCAACCTACTCCACTGT
1 TCTTCAATCTGCTCCACTACCACTTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
17182559 TGCTTAGGGAGATAGGATTGGT-T
66 TGCTTAGGGAGATAGGATTGGTGT
* * * *
17182582 TCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATCCATC-AT-TTTAATCC-GCTCCACT
1 TCTTCAATCTGCTCCACTACCACTTTAGGGAGATAAGATCTA-CAATCTTCAA-CCTACTCCACT
*** * *
17182644 GAAACTTAAAGGAGATAGGACTGGTGT
64 GCTGCTT-AGGGAGATAGGATTGGTGT
* * * * ** ** *
17182671 T-TTCAATCTACTTCACTGCCAGTACAGAAAGATAAGATCTACAATCTTCAACCTACTCCACTAC
1 TCTTCAATCTGCTCCACTACCACTTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
* *
17182735 TGCTCT-GGGAGATAAGG-CTAGTGT
66 TGCT-TAGGGAGAT-AGGATTGGTGT
* * * ** ** *
17182759 T-TTCGATCTGCTTCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGC
1 TCTTCAATCTGCTCCACTACCACTTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
17182823 TGCTTAGGGAGATAAGG-TTGGTG-
66 TGCTTAGGGAGAT-AGGATTGGTGT
* * * * * * * *
17182846 GCTTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAAGAT-TCACCATCTTCGATCTGCTCCAC
1 TCTTCAATCTGC-TCCACTACCACTTTAGGG-AGATAAGATCT-ACAATCTTCAACCTACTCCAC
** *
17182908 TATTGCTTAGGGAGACAGGAT
63 TGCTGCTTAGGGAGATAGGAT
17182929 CTACAATCTT
Statistics
Matches: 274, Mismatches: 57, Indels: 31
0.76 0.16 0.09
Matches are distributed among these distances:
87 42 0.15
88 210 0.77
89 21 0.08
90 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (89 bp):
TCTTCAATCTGCTCCACTACCACTTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
TGCTTAGGGAGATAGGATTGGTGT
Found at i:17182727 original size:45 final size:45
Alignment explanation
Indices: 17182672--17182822 Score: 110
Period size: 45 Copynumber: 3.4 Consensus size: 45
17182662 GACTGGTGTT
* *
17182672 TTCAATCTACTTCACTGCCAGTACAGAAAGATAAGATCTACAATC
1 TTCAACCTACTCCACTGCCAGTACAGAAAGATAAGATCTACAATC
* * * ** * *** *
17182717 TTCAACCTACTCCACT-ACTGCT-CTGGGAGATAAG-GCTAGTGTT
1 TTCAACCTACTCCACTGCCAG-TACAGAAAGATAAGATCTACAATC
* * * * * *
17182760 TTCGATCTGCTTCACTACCAGTACAGAAAGACAAGATCTACAATC
1 TTCAACCTACTCCACTGCCAGTACAGAAAGATAAGATCTACAATC
17182805 TTCAACCTACTCCACTGC
1 TTCAACCTACTCCACTGC
17182823 TGCTTAGGGA
Statistics
Matches: 70, Mismatches: 32, Indels: 8
0.64 0.29 0.07
Matches are distributed among these distances:
43 17 0.24
44 21 0.30
45 32 0.46
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (45 bp):
TTCAACCTACTCCACTGCCAGTACAGAAAGATAAGATCTACAATC
Found at i:17182898 original size:396 final size:396
Alignment explanation
Indices: 17182166--17183194 Score: 1458
Period size: 396 Copynumber: 2.6 Consensus size: 396
17182156 TACTACAACT
17182166 TTAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCCATCA
1 TTAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCCATCA
* *
17182231 TTTTAATCCGCTCCACTGAAACTTAAAGGAGATAGGACTGGTGTTTTCGATCTACTTCACTGCTA
66 TTTTAATCCGCTCCACTGAAACTTAAAGGAGATAGGACTGGTGTTTTCAATCTACTTCACTGCCA
* * *
17182296 GTACAGGAAGACAAGATATACAATCTTCAACCTACTCAACTACTGCTCAGGGAAATAAGGCTGGT
131 GTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTGGT
* * *
17182361 GTTTTCGATCTGCTTTACTACCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCTACTA
196 GTTTTCGATCTGCTTCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTA
*
17182426 CTGCTCAGGGAGATAAGGTTGGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAGATAAGATTC
261 CTGCTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTC
*
17182491 ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATTTACAATCTTCAACCTACTCCAC
326 ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCAC
** *
17182556 TGTTGC
391 TACTGA
*
17182562 TTAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATCCATCA
1 TTAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCCATCA
17182627 TTTTAATCCGCTCCACTGAAACTTAAAGGAGATAGGACTGGTGTTTTCAATCTACTTCACTGCCA
66 TTTTAATCCGCTCCACTGAAACTTAAAGGAGATAGGACTGGTGTTTTCAATCTACTTCACTGCCA
* * * *
17182692 GTACAGAAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCTGGGAGATAAGGCTAGT
131 GTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTGGT
*
17182757 GTTTTCGATCTGCTTCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTG
196 GTTTTCGATCTGCTTCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTA
*
17182822 CTGCTTAGGGAGATAAGGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTC
261 CTGCTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTC
* *
17182887 ACCATCTTCGATCTGCTCCACTATTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCAC
326 ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCAC
17182952 TACTGA
391 TACTGA
* * * * * * * * * * *
17182958 TCAGGGAGATAAGG-TTGGTGTTTTTGAA-CTGCTTCACTGCCAGTACAGGAAGACAAGATCTAT
1 TTAGGGAGAT-AGGATTGGT-TTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCCAT
* ** * *** * * * * * *
17183021 AATCTTTAA-CCTATTCCATTGCTGC-TCAGGGAGAGAAGG-CTAGTGCTTTCTATCTACTTCAC
64 CAT-TTTAATCC-GCTCCACTGAAACTTAAAGGAGA-TAGGACTGGTGTTTTCAATCTACTTCAC
* * * *
17183083 TGTCAGTACAGGAAGACAAGATCTACAATCTTCAACTTACTCCACTGCTGATCAGGGAGATAAGG
126 TGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGG
* * * * * *
17183148 CTGGTGCTTTCGATCTACTTCGCTGCCAATACA-AGAAGATAAGATCT
191 CTGGTGTTTTCGATCTGCTTCACTACCAGTACAGA-AAGACAAGATCT
17183195 GCTACTGTCA
Statistics
Matches: 566, Mismatches: 61, Indels: 12
0.89 0.10 0.02
Matches are distributed among these distances:
395 1 0.00
396 541 0.96
397 24 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (396 bp):
TTAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCCATCA
TTTTAATCCGCTCCACTGAAACTTAAAGGAGATAGGACTGGTGTTTTCAATCTACTTCACTGCCA
GTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTGGT
GTTTTCGATCTGCTTCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTA
CTGCTCAGGGAGATAAGGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTC
ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCAC
TACTGA
Found at i:17182920 original size:308 final size:308
Alignment explanation
Indices: 17182582--17183153 Score: 726
Period size: 308 Copynumber: 1.9 Consensus size: 308
17182572 AGGATTGGTT
* * *
17182582 TCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATCCATC-AT-TTTAATCC-GCTCCACT
1 TCTTCAATCTGCTCCACTACAACTTTAGGGAGACAAGATCCA-CAATCTTCAA-CCTACTCCACT
*
17182644 GAAACT-TAAAGGAGAT-AGGACTGGTG-TTTTCAATCTACTTCACTGCCAGTACAGAAAGATAA
64 ---ACTATAAAGGAGATAAGG-CTGGTGTTTTTCAA-CTACTTCACTGCCAGTACAGAAAGACAA
* * * *
17182706 GATCTACAATCTTCAACCTACTCCACTACTGCTCTGGGAGATAAGGCTAGTGTTTTCGATCTGCT
124 GATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGAGAAGGCTAGTGCTTTCGATCTACT
* *
17182771 TCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGAT
189 TCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGATCAGGGAGAT
*
17182836 AAGGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCA
254 AAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCA
* *** * *
17182891 TCTTCGATCTGCTCCACTATTGC-TTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTAC
1 TCTTCAATCTGCTCCACTACAACTTTAGGGAGACAAGATCCACAATCTTCAACCTACTCCACTAC
* * * * * *
17182955 TGATCAGGGAGATAAGGTTGGTGTTTTTGAACTGCTTCACTGCCAGTACAGGAAGACAAGATCTA
66 T-ATAAAGGAGATAAGGCTGGTGTTTTTCAACTACTTCACTGCCAGTACAGAAAGACAAGATCTA
* * * * * * *
17183020 TAATCTTTAACCTATTCCATTGCTGCTCAGGGAGAGAAGGCTAGTGCTTTCTATCTACTTCACTG
130 CAATCTTCAACCTACTCCACTACTGCTCAGGGAGAGAAGGCTAGTGCTTTCGATCTACTTCACTA
* * *
17183085 TCAGTACAGGAAGACAAGATCTACAATCTTCAACTTACTCCACTGCTGATCAGGGAGATAAGGCT
195 CCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGATCAGGGAGATAAGGCT
17183150 GGTG
260 GGTG
17183154 CTTTCGATCT
Statistics
Matches: 223, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
306 3 0.01
307 1 0.00
308 180 0.81
309 39 0.17
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (308 bp):
TCTTCAATCTGCTCCACTACAACTTTAGGGAGACAAGATCCACAATCTTCAACCTACTCCACTAC
TATAAAGGAGATAAGGCTGGTGTTTTTCAACTACTTCACTGCCAGTACAGAAAGACAAGATCTAC
AATCTTCAACCTACTCCACTACTGCTCAGGGAGAGAAGGCTAGTGCTTTCGATCTACTTCACTAC
CAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGATCAGGGAGATAAGGCTG
GTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCA
Found at i:17182992 original size:132 final size:132
Alignment explanation
Indices: 17182392--17182978 Score: 469
Period size: 132 Copynumber: 4.4 Consensus size: 132
17182382 CAGTACAGGA
* * *
17182392 AGACAAGATCTACAATCTTCAACCTACTCTACTACTGCTCAGGGAGATAAGGTTGGTGGCTTAAA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTGGTGTCTTAAA
* *
17182457 TTTGCTTCC-CTACTACCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTA
66 TCTGCTTCCACTACTACCTTGGG-AGATAAGATTCACCATCTTCGATCTGCTCCACTACAGCTTA
17182521 GGG
130 GGG
* * * * *
17182524 AGACAAGATTTACAATCTTCAACCTACTCCACTGTTGCTTAGGGAGAT-AGGATTGGTTTCTTCA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG-TTGGTGTCTTAA
* * * * ** * *
17182588 ATCTGC-TCCACTACAACTTTAGGGAGATAAGATCCATCAT-TTTAATCCGCTCCACTGA-AACT
65 ATCTGCTTCCACTACTACCTT-GGGAGATAAGATTCACCATCTTCGATCTGCTCCACT-ACAGCT
*
17182650 TAAAGG
128 T-AGGG
* * **** * * * * ** * ****
17182656 AGATAGGA-CTGGTGTTTTCAATCTACTTCACTGCCAG-TACAGAAAGATAAGATCTACAATCTT
1 AGACAAGATCTACAATCTTCAACCTACTCCACTG-CTGCT-CAGGGAGATAAGGT-TGGTGTCTT
* * * * ** *** * *
17182719 CAACCTAC-TCCACTACT-GCTCTGGGAGATAAGGCT-AGTGTTTTCGATCTGCTTCACTACCAG
63 AAATCTGCTTCCACTACTACCT-TGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTA-CAG
* **
17182781 -TACAGAA
126 CT-TAGGG
* *
17182788 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGGTTGGTGGCTTAAA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTGGTGTCTTAAA
**
17182853 TCTGCTTCC-CTACTACCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTA
66 TCTGCTTCCACTACTACCTTGGG-AGATAAGATTCACCATCTTCGATCTGCTCCACTACAGCTTA
17182917 GGG
130 GGG
* * *
17182920 AGACAGGATCTACAATCTTCAACCTACTCCACTACTGATCAGGGAGATAAGGTTGGTGT
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTGGTGT
17182979 TTTTGAACTG
Statistics
Matches: 335, Mismatches: 99, Indels: 42
0.70 0.21 0.09
Matches are distributed among these distances:
131 61 0.18
132 210 0.63
133 64 0.19
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTGGTGTCTTAAA
TCTGCTTCCACTACTACCTTGGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACAGCTTAG
GG
Found at i:17183025 original size:88 final size:89
Alignment explanation
Indices: 17182920--17183468 Score: 504
Period size: 88 Copynumber: 6.2 Consensus size: 89
17182910 TTGCTTAGGG
* * *
17182920 AGACAGGATCTACAATCTTCAACCTACTCCACTACTGA-TCAGGGAGATAAGGTTGGTGTTTTTG
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGACTCAGGGAGATAAGGCTGGTGTTTTTG
* * * *
17182984 AACTGCTTCACTGCCAGTACAGGA
66 ATCTACTTCGCTGCCAATACAGGA
* * * * * * *
17183008 AGACAAGATCTATAATCTTTAACCTATTCCATTGCTG-CTCAGGGAGAGAAGGCTAGTGCTTTCT
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGACTCAGGGAGATAAGGCTGGTG-TTTTT
* * *
17183072 -ATCTACTTCACTGTCAGTACAGGA
65 GATCTACTTCGCTGCCAATACAGGA
* * *
17183096 AGACAAGATCTACAATCTTCAACTTACTCCACTGCTGA-TCAGGGAGATAAGGCTGGTGCTTTCG
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGACTCAGGGAGATAAGGCTGGTGTTTTTG
*
17183160 ATCTACTTCGCTGCCAATACAAGA
66 ATCTACTTCGCTGCCAATACAGGA
* * * ** * ** ** ** * * *
17183184 AGATAAGATCTGCTA-CTGTCAGTCTGCTCTGCTGCAAACTCAGGGAGGCAAGGCTAGTATCTTT
1 AGACAAGATCTACAATCT-TCAACCTACTCCACTGCTGACTCAGGGAGATAAGGCTGGTGTTTTT
*
17183248 GATCTATTTCGCTGCCAATACAGGA
65 GATCTACTTCGCTGCCAATACAGGA
* ** * ** ** ** *
17183273 AGACAAGATCTGC--TGCTTTCAGTCTACTCCACTACAAACTCAGGGAGGCAAAACTGGTGTCTT
1 AGACAAGATCTACAAT-C-TTCAACCTACTCCACTGCTGACTCAGGGAGATAAGGCTGGTGTTTT
* *
17183336 CGATCTACTTTGCTGCCAATACAGGA
64 TGATCTACTTCGCTGCCAATACAGGA
* *
17183362 AGACAAGATCTGCAATCTTCAACCTATTCCACTGCT-ACTCAGGGAGATAAGGCTGGTGTTTTTG
1 AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGACTCAGGGAGATAAGGCTGGTGTTTTTG
* * *
17183426 ATTTACTTCG-TGCCAGTACAAGA
66 ATCTACTTCGCTGCCAATACAGGA
17183449 AGACAAGATCTACAATCTTC
1 AGACAAGATCTACAATCTTC
17183469 TTCAATCTAT
Statistics
Matches: 375, Mismatches: 75, Indels: 23
0.79 0.16 0.05
Matches are distributed among these distances:
87 34 0.09
88 193 0.51
89 145 0.39
90 2 0.01
91 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (89 bp):
AGACAAGATCTACAATCTTCAACCTACTCCACTGCTGACTCAGGGAGATAAGGCTGGTGTTTTTG
ATCTACTTCGCTGCCAATACAGGA
Found at i:17183128 original size:220 final size:219
Alignment explanation
Indices: 17182706--17183128 Score: 514
Period size: 220 Copynumber: 1.9 Consensus size: 219
17182696 AGAAAGATAA
* * *
17182706 GATCTACAATCTTCAACCTACTCCACTACTGCTCTGGGAGATAAGGCTAGTGTTTTCGATCTGCT
1 GATCTACAATCTTCAACCTACTCCACTACTGATCAGGGAGATAAGGCTAGTGTTTTCGAACTGCT
* *
17182771 TCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGAT
66 TCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGAG
* * * * * * *
17182836 AAGGTTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTCGATCT
131 AAGGCTAGTGGCTTAAATCTACTTCCCTACTACC-TAGGAAGACAAGATTCACAATCTTCAATCT
*
17182901 GCTCCACTATTGCTTAGGGAGACAG
195 ACTCCACTATTGCTTAGGGAGACAG
* * *
17182926 GATCTACAATCTTCAACCTACTCCACTACTGATCAGGGAGATAAGGTTGGTGTTTTTGAACTGCT
1 GATCTACAATCTTCAACCTACTCCACTACTGATCAGGGAGATAAGGCTAGTGTTTTCGAACTGCT
* * * * * *
17182991 TCACTGCCAGTACAGGAAGACAAGATCTATAATCTTTAACCTATTCCATTGCTGCTCAGGGAGAG
66 TCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGAG
** * *
17183056 AAGGCTAGT-GCTTTCTATCTACTTCACTGTCAGTA-C-AGGAAGACAAGA-TCTACAATCTTCA
131 AAGGCTAGTGGC-TTAAATCTACTTC-C-CT-ACTACCTAGGAAGACAAGATTC-ACAATCTTCA
17183117 A-CTTACTCCACT
191 ATC-TACTCCACT
17183129 GCTGATCAGG
Statistics
Matches: 171, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
219 5 0.03
220 160 0.94
221 1 0.01
222 2 0.01
223 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (219 bp):
GATCTACAATCTTCAACCTACTCCACTACTGATCAGGGAGATAAGGCTAGTGTTTTCGAACTGCT
TCACTACCAGTACAGAAAGACAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGAG
AAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTAGGAAGACAAGATTCACAATCTTCAATCTA
CTCCACTATTGCTTAGGGAGACAG
Found at i:17183259 original size:89 final size:89
Alignment explanation
Indices: 17183154--17183374 Score: 291
Period size: 89 Copynumber: 2.5 Consensus size: 89
17183144 AAGGCTGGTG
* * * * ** *
17183154 CTTTCGATCTACTTCGCTGCCAATACAAGAAGATAAGATCTGCTACTGTCAGTCTGCTCTGCTGC
1 CTTT-GATCTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTACTGTCAGTCTACTCCACTAC
**
17183219 AAACTCAGGGAGGCAAGGCTAGTAT
65 AAACTCAGGGAGGCAAAACTAGTAT
* *
17183244 CTTTGATCTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTGCTTTCAGTCTACTCCACTACA
1 CTTTGATCTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTACTGTCAGTCTACTCCACTACA
* *
17183309 AACTCAGGGAGGCAAAACTGGTGT
66 AACTCAGGGAGGCAAAACTAGTAT
*
17183333 CTTCGATCTACTTT-GCTGCCAATACAGGAAGACAAGATCTGC
1 CTTTGATCTA-TTTCGCTGCCAATACAGGAAGACAAGATCTGC
17183375 AATCTTCAAC
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
89 109 0.94
90 7 0.06
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (89 bp):
CTTTGATCTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTACTGTCAGTCTACTCCACTACA
AACTCAGGGAGGCAAAACTAGTAT
Found at i:17183812 original size:24 final size:24
Alignment explanation
Indices: 17183778--17183824 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
17183768 TTCCCCCCAC
*
17183778 TGTAATCTTCAAGGTTCAATCCAT
1 TGTAATATTCAAGGTTCAATCCAT
17183802 TGTAATATTCAAGGTTCAATCCA
1 TGTAATATTCAAGGTTCAATCCA
17183825 CTGTGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (24 bp):
TGTAATATTCAAGGTTCAATCCAT
Found at i:17195420 original size:3 final size:3
Alignment explanation
Indices: 17195414--17195443 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
17195404 CTGCTATTAC
*
17195414 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17195444 CATTGATGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:17200840 original size:32 final size:31
Alignment explanation
Indices: 17200804--17200886 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
17200794 ACTTCAAATT
*
17200804 TTGAAAAGTA-ATAATAATTAAAATTGATCGAC
1 TTGAAAAGTACAT-A-AACTAAAATTGATCGAC
*
17200836 TTGAAAAGTACATAAACTAAAATTGATCGAA
1 TTGAAAAGTACATAAACTAAAATTGATCGAC
* *
17200867 TT--AAAGTATAAAAACTAAAA
1 TTGAAAAGTACATAAACTAAAA
17200887 CAAAGTACCA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 16 0.35
31 17 0.37
32 11 0.24
33 2 0.04
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (31 bp):
TTGAAAAGTACATAAACTAAAATTGATCGAC
Found at i:17203588 original size:92 final size:89
Alignment explanation
Indices: 17203442--17203648 Score: 276
Period size: 92 Copynumber: 2.3 Consensus size: 89
17203432 CTCAAATTTT
* * * * * *
17203442 TTTTAAAAAAAAGTAATTAAGTCCCTAC-CTTTTTTTGCAATTATTTGGGTACTTGAACTTTCAA
1 TTTTCAAAAAAAGCAATTAAGCCCCTACTCTTTTTTTGCAATCAATTGAGTACTTGAACTTTCAA
*
17203506 AATGCATCAAAAAGGCCCTCAAGCC
66 AATGCATCAAAAAGGCCCTCAA-AC
*
17203531 TTTTCAAAAAAAGCAATTAAGCCCCTACTCTTTTTTTTTGCACTCAATTGAGTACTTGAACTTTC
1 TTTTCAAAAAAAGCAATTAAGCCCCTACTC--TTTTTTTGCAATCAATTGAGTACTTGAACTTTC
* *
17203596 AAAATGCATCAAAAAGTCCCTCAAAT
64 AAAATGCATCAAAAAGGCCCTCAAAC
17203622 TTTTCAAAAAAA-CAATTAA-CCCCTACT
1 TTTTCAAAAAAAGCAATTAAGCCCCTACT
17203649 TTTGTTAAAA
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
89 33 0.31
90 8 0.08
91 12 0.11
92 52 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (89 bp):
TTTTCAAAAAAAGCAATTAAGCCCCTACTCTTTTTTTGCAATCAATTGAGTACTTGAACTTTCAA
AATGCATCAAAAAGGCCCTCAAAC
Found at i:17203815 original size:19 final size:19
Alignment explanation
Indices: 17203760--17203818 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
17203750 AAAATTAGAA
17203760 AAAAATAGTAAAAAA-TAT
1 AAAAATAGTAAAAAATTAT
* * **
17203778 AAAAATTGGAAAATTTTAT
1 AAAAATAGTAAAAAATTAT
*
17203797 AAAAATCGTAAAAAATTAT
1 AAAAATAGTAAAAAATTAT
17203816 AAA
1 AAA
17203819 CTATATAGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAAATAGTAAAAAATTAT
Found at i:17203886 original size:21 final size:21
Alignment explanation
Indices: 17203850--17203915 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 21
17203840 TTATAAAATT
*
17203850 TTATAAAGT-TGT-AAGAAAA
1 TTATAAATTATGTAAAGAAAA
17203869 TTATACAA-TATGTAAAG-AAA
1 TTATA-AATTATGTAAAGAAAA
* *
17203889 -TATAAATTTTGTAAAAAAAA
1 TTATAAATTATGTAAAGAAAA
17203909 TTATAAA
1 TTATAAA
17203916 AATTATCGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 17 0.44
20 11 0.28
21 9 0.23
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (21 bp):
TTATAAATTATGTAAAGAAAA
Found at i:17203904 original size:57 final size:55
Alignment explanation
Indices: 17203762--17203904 Score: 148
Period size: 57 Copynumber: 2.5 Consensus size: 55
17203752 AATTAGAAAA
* *
17203762 AAATAGTAAA-AAATATAAAAATTGGAAAATTTTATAAAAATCGTAAAAAATTAT
1 AAATAGTAAAGAAATATAAAATTTGTAAAATTTTATAAAAATCGTAAAAAATTAT
* * * *
17203816 AAACTA-TATAGAAATATAAAAAATTTATAAAATTTTAT-AAAGTTGTAAGAAAATTAT
1 AAA-TAGTAAAGAAATAT--AAAATTTGTAAAATTTTATAAAAATCGTAA-AAAATTAT
*
17203873 ACAATATGTAAAGAAATATAAATTTTGTAAAA
1 A-AATA-GTAAAGAAATATAAAATTTGTAAAA
17203905 AAAATTATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
54 6 0.08
55 8 0.11
56 8 0.11
57 38 0.53
58 2 0.03
59 10 0.14
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (55 bp):
AAATAGTAAAGAAATATAAAATTTGTAAAATTTTATAAAAATCGTAAAAAATTAT
Found at i:17204128 original size:10 final size:10
Alignment explanation
Indices: 17204113--17204158 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
17204103 TAAAAAATTC
17204113 TAATTTTTAA
1 TAATTTTTAA
17204123 TAATTTTT-A
1 TAATTTTTAA
*
17204132 -AATTTTTAT
1 TAATTTTTAA
**
17204141 TAAAATTTAA
1 TAATTTTTAA
17204151 TAATTTTT
1 TAATTTTT
17204159 CTAAAATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
8 7 0.25
9 1 0.04
10 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:17204371 original size:92 final size:92
Alignment explanation
Indices: 17204222--17204434 Score: 252
Period size: 92 Copynumber: 2.3 Consensus size: 92
17204212 GCTTAATTGC
* * * *
17204222 TTTTTTTGAAAAAATTTTAGGGTCTTTTTGAT--GCTTTTGAAAGTTCAAGTACCCAATTGAGTG
1 TTTTTTTGAAAAAGTTTGAGGG-CTTTTTAATCCACTTTTGAAAGTTCAAGTACCCAATTGAGTG
17204285 AAAAAAAAAACAGAGGCTTAA-TTGTTT
65 AAAAAAAAAACAGAGGCTTAATTTGTTT
* * *
17204312 TTTTTTTGAAGAAGTTTGAGGGCCTTTTTAATCCACTTTTGAAAGTTCAAGTGCTCAATTGAGTG
1 TTTTTTTGAAAAAGTTTGAGGG-CTTTTTAATCCACTTTTGAAAGTTCAAGTACCCAATTGAGTG
* ** ** * *
17204377 CAAAAGGAAGGAGGGGCTTAATTTTTTTT
65 AAAAAAAAAACAGAGGCTTAA-TTTGTTT
17204406 TTTTTTTGAAAAAGTTTGAGGGCTTTTTA
1 TTTTTTTGAAAAAGTTTGAGGGCTTTTTA
17204435 CACCTATAAG
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
90 27 0.26
92 43 0.42
93 7 0.07
94 26 0.25
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (92 bp):
TTTTTTTGAAAAAGTTTGAGGGCTTTTTAATCCACTTTTGAAAGTTCAAGTACCCAATTGAGTGA
AAAAAAAAACAGAGGCTTAATTTGTTT
Found at i:17211531 original size:33 final size:33
Alignment explanation
Indices: 17211462--17211558 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
17211452 CTATACCCAT
* * *
17211462 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
17211499 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
17211532 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
17211559 CATATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:17211956 original size:41 final size:41
Alignment explanation
Indices: 17211772--17211968 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
17211762 ACCGGCTCTT
*
17211772 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17211813 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
17211854 AGCCTGCTAGACTTATAGCCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
17211895 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
17211936 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
17211969 TAACGATAAA
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 136 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:17213522 original size:24 final size:25
Alignment explanation
Indices: 17213475--17213522 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
17213465 CGAGATTTTC
*
17213475 ACACATGTAAATTAATATATAATAA
1 ACACATGTAAATTAATATAAAATAA
17213500 ACACATG-AAA-TAATATTAAAATA
1 ACACATGTAAATTAATA-TAAAATA
17213523 TTTTTTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.29
Consensus pattern (25 bp):
ACACATGTAAATTAATATAAAATAA
Found at i:17219192 original size:33 final size:33
Alignment explanation
Indices: 17219123--17219219 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
17219113 CTATACCCAT
* * *
17219123 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
17219160 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
17219193 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
17219220 CATATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:17219477 original size:41 final size:41
Alignment explanation
Indices: 17219432--17219628 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
17219422 ACCGGCTCTT
*
17219432 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17219473 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17219514 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
17219555 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
17219596 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
17219629 TAACGATAAA
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 138 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:17221192 original size:24 final size:25
Alignment explanation
Indices: 17221145--17221192 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
17221135 CGAGATTTTC
*
17221145 ACACATGTAAATTAATATATAATAA
1 ACACATGTAAATTAATATAAAATAA
17221170 ACACATG-AAA-TAATATTAAAATA
1 ACACATGTAAATTAATA-TAAAATA
17221193 TTTTTTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.29
Consensus pattern (25 bp):
ACACATGTAAATTAATATAAAATAA
Found at i:17226910 original size:30 final size:33
Alignment explanation
Indices: 17226887--17226951 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
17226877 ACACTTATTT
17226887 TTCACCTATGCCGAATGCATACACATAAATATA
1 TTCACCTATGCCGAATGCATACACATAAATATA
* *
17226920 TTCACCTATGCCGAATGCA-ACATATATATATA
1 TTCACCTATGCCGAATGCATACACATAAATATA
17226952 CATATCTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.29
Consensus pattern (33 bp):
TTCACCTATGCCGAATGCATACACATAAATATA
Found at i:17227350 original size:40 final size:41
Alignment explanation
Indices: 17227168--17227362 Score: 265
Period size: 41 Copynumber: 4.8 Consensus size: 41
17227158 ACCGGCTCTT
*
17227168 AGCCTGCTAGAC-TATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17227208 AGCCTGCTAGAAC-TATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAG-ACTTATAGTCTGAAATGTGTCACCGGCATTA
*
17227249 AGCCTGCTAGACTTATAGCCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
17227290 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCA-CGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
17227330 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
17227363 TAATGATAAA
Statistics
Matches: 141, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 42 0.30
41 90 0.64
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:17227907 original size:21 final size:22
Alignment explanation
Indices: 17227848--17227907 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 22
17227838 TAATAATATA
17227848 TATAATTCACTCATACTTTTAAT
1 TATAATTCA-TCATACTTTTAAT
*
17227871 TATTTCATATCTATCATA-TTTTAAT
1 TA--TAAT-TC-ATCATACTTTTAAT
17227896 TATAATTCATCA
1 TATAATTCATCA
17227908 AAAACAGCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
21 4 0.13
22 2 0.06
23 5 0.16
25 12 0.39
26 7 0.23
27 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (22 bp):
TATAATTCATCATACTTTTAAT
Found at i:17234563 original size:33 final size:33
Alignment explanation
Indices: 17234494--17234590 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
17234484 CTATACCCAT
* * *
17234494 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
17234531 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
17234564 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
17234591 CAAATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:17234987 original size:41 final size:41
Alignment explanation
Indices: 17234803--17234999 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
17234793 ACCGGCTCTT
*
17234803 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
17234844 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
17234885 AGCCTGCTAGACTTATAGCCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
17234926 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
17234967 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
17235000 TAATGATAAA
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 136 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:17238374 original size:37 final size:37
Alignment explanation
Indices: 17238302--17238393 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 37
17238292 AGTGCCATGG
* * *
17238302 CATGTTATCGGATGGATTAGCTCTTACGAGCATTTGA
1 CATGTTTTCGGTTGGATTAGCTCTTACAAGCATTTGA
* * *
17238339 CATGTTTTCGGTTGGATTAGCTCTTATAAGGATTTGG
1 CATGTTTTCGGTTGGATTAGCTCTTACAAGCATTTGA
* **
17238376 CGTGTTTTTAGTTGGATT
1 CATGTTTTCGGTTGGATT
17238394 GCTTGTGTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.20, C:0.12, G:0.26, T:0.42
Consensus pattern (37 bp):
CATGTTTTCGGTTGGATTAGCTCTTACAAGCATTTGA
Found at i:17241216 original size:7 final size:7
Alignment explanation
Indices: 17241206--17241233 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17241196 AAGAACTATA
17241206 AAAAATT
1 AAAAATT
17241213 AAAAATT
1 AAAAATT
17241220 AAAAATT
1 AAAAATT
17241227 AAAAATT
1 AAAAATT
17241234 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:17241698 original size:28 final size:26
Alignment explanation
Indices: 17241639--17241698 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
17241629 AAAGTACGTA
*
17241639 AATTTTTAAAAAAATTAAAAAATTCT
1 AATTTTTAAAAAAATTAAAAAATTAT
* * *
17241665 TATTTTAAACAAAAATTTAAAAATTAT
1 AATTTTTAA-AAAAATTAAAAAATTAT
17241692 AATTTTT
1 AATTTTT
17241699 TCAATAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTTTAAAAAAATTAAAAAATTAT
Found at i:17243904 original size:29 final size:29
Alignment explanation
Indices: 17243862--17243919 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
17243852 GATATTTAAC
*
17243862 CACTCAAACCTCGTTTTTAAGCTTAGAGT
1 CACTCAAACCTCGTTTCTAAGCTTAGAGT
17243891 CACTCAAACCTCGTTTCTAAGCTTAGAGT
1 CACTCAAACCTCGTTTCTAAGCTTAGAGT
17243920 TCAATTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (29 bp):
CACTCAAACCTCGTTTCTAAGCTTAGAGT
Found at i:17244732 original size:21 final size:21
Alignment explanation
Indices: 17244708--17244747 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17244698 TCTTAACCCA
17244708 AAAT-TTTAATTCTAATTATTT
1 AAATATTTAATT-TAATTATTT
*
17244729 AAATATTTTATTTAATTAT
1 AAATATTTAATTTAATTAT
17244748 CTAACCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATATTTAATTTAATTATTT
Found at i:17248301 original size:37 final size:37
Alignment explanation
Indices: 17248255--17248329 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
17248245 ATTACCCGAA
*
17248255 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
17248292 TTGAATCACTACATAATTAAAAACATTACGTAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
17248329 T
1 T
17248330 AAAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:17248343 original size:37 final size:37
Alignment explanation
Indices: 17248262--17248346 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
17248252 GAATTGAATC
* ** *
17248262 ACTACATAATTAAAAATATTACATAAGTCTTTGAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTAAAATA
* *
17248299 ACTACATAATTAAAAACATTACGTAATTCTTAAAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTAAAA-TA
17248337 AC-ACATAATT
1 ACTACATAATT
17248347 GAAATGTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 38 0.93
38 3 0.07
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTAAAATA
Found at i:17251388 original size:133 final size:134
Alignment explanation
Indices: 17251217--17251595 Score: 441
Period size: 133 Copynumber: 2.8 Consensus size: 134
17251207 GCGGCAAACA
* ** * * *
17251217 ATTGGAATATAGCGGCGTT-TTCTTAGAAACGTCGGTAAAGATAACGAATTTGAGGAAAAAATCT
1 ATTGGAATATAGCGGTGTTATT-GGAGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTT
17251281 GAGCAAAACAGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGTGCATTGTAAAAAACACCG
65 GAGCAAAACAGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGTGCATTGTAAAAAACACCG
17251346 AAAAAG
130 -AAAAG
17251352 ATT-GAAT-TAGCGGTGTT-TTCAGG-GAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATT
1 ATTGGAATATAGCGGTGTTATT--GGAGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATT
* ** * * * *
17251413 TG-GACAAAACACTATTGTTTTATTGCTTCATTTTATTTCTTTAGTGGCT-CATTGTAAAAGACG
64 TGAG-CAAAACAGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGG-TGCATTGTAAAAAACA
* *
17251476 CCGCAAAT
127 CCGAAAAG
* * * * *
17251484 ATTGGGATATAGTGGTGTTATTGGAGAAACACCGGTAAAGATATCTAATTTGAGGAAAAATTTTG
1 ATTGGAATATAGCGGTGTTATTGGAGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTG
* *
17251549 AGCAAAACAGTACCGTTTTGTTGTTTCCTTTT-TATGCTTTAGTGGTG
66 AGCAAAACAGTACCGTTTTGTTGTTTCATTTTAT-TTCTTTAGTGGTG
17251596 AAATGTTAAA
Statistics
Matches: 206, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
132 7 0.03
133 108 0.52
134 85 0.41
135 6 0.03
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (134 bp):
ATTGGAATATAGCGGTGTTATTGGAGAAACGCCGGTAAAGATAACTAATTTGAGGAAAAAATTTG
AGCAAAACAGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGTGCATTGTAAAAAACACCGA
AAAG
Found at i:17251999 original size:21 final size:20
Alignment explanation
Indices: 17251965--17252016 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
17251955 TTGTGTTCTA
17251965 GGCTTAGAGTTGAGGTTTAG
1 GGCTTAGAGTTGAGGTTTAG
* *
17251985 GGCTTGGAGATTGAGGTTTAA
1 GGCTTAGAG-TTGAGGTTTAG
*
17252006 GGTTTAGAGTT
1 GGCTTAGAGTT
17252017 TACATTTCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.21, C:0.04, G:0.38, T:0.37
Consensus pattern (20 bp):
GGCTTAGAGTTGAGGTTTAG
Found at i:17255511 original size:521 final size:510
Alignment explanation
Indices: 17254541--17255572 Score: 1767
Period size: 521 Copynumber: 2.0 Consensus size: 510
17254531 AACATTTTAA
* *
17254541 GGTTCGAATGTCTGATTCTTCGTATTTATAGATTGGGTTTTGTCGTATTTTTAATTTTGATTTTG
1 GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTTAATTTTGATTTTG
***** * *
17254606 CTTTCTTATTGGTTTAGGGTTTTCTGTGTGTTCTCTGTGTTTATGGTTTTCGGTGTGTTCGACCG
66 CTTTCTTATTGGTTTAGGGTTAAAAATGTATTCTCTGTGTTTAGGGTTTTCGGTGTGTTCGACCG
*
17254671 TTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTACTGTTTTTGTGAATGGTT
131 TTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTAATGTTTTTGTGAATGGTT
17254736 TAATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATT
196 TAATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATT
*
17254801 GCTCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTGCAGAACACATGCTTTGTTACTGTTTATTT
261 GCTCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTT
17254866 GTTGAACTCATTTGGTACTGTTTTTAAAGTATGGAACTTTGATGTCTAGTTTAGGGTTTAATTTA
326 GTTGAACTCATTTGGTACTGTTTTTAAAGTATGGAACTTTGATGTCTAGTTTAGGGTTTAATTTA
* *
17254931 TTAGGTTATAAAACCGTTCTATTAAATGTGGTGCAGCCGATTACATTTCCAGGTAATGAAATGGA
391 TTAGGTTATAAAACCGTTCTATTAAATGTGGTGCAGCCGATAACATTTCCAAGTAATGAAATGGA
*
17254996 TTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTTTAAGTTC
456 TTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTCTAAGTTC
17255051 GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTTAATTTTGATTTTG
1 GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTTAATTTTGATTTTG
* * *
17255116 CTTTCTTATTGGTTGGTGATATTGGGATTAAAAAAATTTATTCTTTGTGTTTAGGGTTTTTGGTG
66 CTTTCTTATTGG-T--T--TA--GGG-TT--AAAAATGTATTCTCTGTGTTTAGGGTTTTCGGTG
*
17255181 TGTTCGACTGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTAATGTTTTT
121 TGTTCGACCGTTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTAATGTTTTT
17255246 GTGAATGGTTTAATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTTCTCCAGTTTTTGGTCAA
186 GTGAATGGTTTAATTTGTTAGGAACTGATTTTAACTTATG-TTTTTTTCTCCAGTTTTTGGTCAA
*
17255311 TCCATTTCATTGCTCGTATTTCAGTTTTCTTCATCGTTTTGAAGGTACAGAACACATGCTTTGTT
250 TCCATTTCATTGCTCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTT
17255376 ACTGTTTATTTGTTGAACTCATTTGGTACTGTTTTTAAAGTATGGAACTTTGATGTCTAGTTTAG
315 ACTGTTTATTTGTTGAACTCATTTGGTACTGTTTTTAAAGTATGGAACTTTGATGTCTAGTTTAG
* * *
17255441 GGTTTAATTTATTAGGTTATAAAACTGTTTTGTTAAATGTGGTGCAGCCGATAACATTTCCAAGT
380 GGTTTAATTTATTAGGTTATAAAACCGTTCTATTAAATGTGGTGCAGCCGATAACATTTCCAAGT
17255506 AATGAAATGGATTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTCTAAGTT
445 AATGAAATGGATTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTCTAAGTT
17255571 C
510 C
17255572 G
1 G
17255573 AAATATATAC
Statistics
Matches: 489, Mismatches: 22, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
510 75 0.15
511 1 0.00
513 1 0.00
515 2 0.00
517 3 0.01
518 2 0.00
520 127 0.26
521 278 0.57
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.48
Consensus pattern (510 bp):
GGTTCGAATGTCCGATTCTTCGTATTTATACATTGGGTTTTGTCGTATTTTTAATTTTGATTTTG
CTTTCTTATTGGTTTAGGGTTAAAAATGTATTCTCTGTGTTTAGGGTTTTCGGTGTGTTCGACCG
TTTTGTTCATCCTCGTGAAGGTAAATTACTGCTTCTATTGTTCATTAATGTTTTTGTGAATGGTT
TAATTTGTTAGGAACTGATTTTAACTTATGTTTTTTTCTCCAGTTTTTGGTCAATCCATTTCATT
GCTCGTATTTCAGTTTTCTTCATCGTTCTGAAGGTACAGAACACATGCTTTGTTACTGTTTATTT
GTTGAACTCATTTGGTACTGTTTTTAAAGTATGGAACTTTGATGTCTAGTTTAGGGTTTAATTTA
TTAGGTTATAAAACCGTTCTATTAAATGTGGTGCAGCCGATAACATTTCCAAGTAATGAAATGGA
TTTTTAAGTTGAATTTTATTAAGCCATGTTGTTTTTTAGTATGATTTCTAAGTTC
Found at i:17256480 original size:21 final size:21
Alignment explanation
Indices: 17256454--17256500 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17256444 CTACAACTTA
* *
17256454 AAGCAGATGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
*
17256475 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
17256496 AAGCA
1 AAGCA
17256501 AAGGTTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:17256943 original size:42 final size:41
Alignment explanation
Indices: 17256884--17257130 Score: 325
Period size: 42 Copynumber: 5.9 Consensus size: 41
17256874 GCGTTTTTGT
* *
17256884 AAAAAAGCGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTA
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
*
17256925 GAAAAAAACACCGCTAAAGAACATGTTCTTTAGCGGCGCTCATA
1 -AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCT--TA
* *
17256969 TAAAAAAATGCCGCTAAAGAACATGTTCTTTAGAGGCGCTT-
1 -AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
* *
17257010 AAAAAAATGCCGCTAAAGAACATGTTCTTTAGTGGCGCTTA
1 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
* * *
17257051 AGGAAAAACGCCGCTAAAGAACATGTTTTTTAGCGACGCTTA
1 A-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
* *
17257093 AGGAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 A-AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
17257131 TTTTTAGTTG
Statistics
Matches: 185, Mismatches: 16, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
40 39 0.21
41 1 0.01
42 107 0.58
44 38 0.21
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA
Found at i:17257795 original size:15 final size:16
Alignment explanation
Indices: 17257767--17257796 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17257757 TAAATTCATA
17257767 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
17257783 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
17257797 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:17257816 original size:18 final size:18
Alignment explanation
Indices: 17257788--17257922 Score: 94
Period size: 18 Copynumber: 8.0 Consensus size: 18
17257778 ATTATTAAGA
17257788 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
17257805 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
*
17257821 A-TTTAA-T-AATAAT-T
1 ATTTTAATTAAATTATAT
* *
17257835 ATTTCAAATTATATTATAT
1 ATTT-TAATTAAATTATAT
* * * *
17257854 AGTATAA-TATATTAT-G
1 ATTTTAATTAAATTATAT
*
17257870 ATTTT-AGTAAATTCATAT
1 ATTTTAATTAAATT-ATAT
17257888 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
*
17257905 ATTTTTATTAAATTATAT
1 ATTTTAATTAAATTATAT
17257923 TTAATAATAA
Statistics
Matches: 94, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
13 2 0.02
14 3 0.03
15 10 0.11
16 15 0.16
17 25 0.27
18 36 0.38
19 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:17257865 original size:61 final size:60
Alignment explanation
Indices: 17257693--17257880 Score: 142
Period size: 57 Copynumber: 3.1 Consensus size: 60
17257683 AAGTAGATTA
*
17257693 TAAAAAATATTTAATAATAATTATTTTAAATTATATTTTATAGTATCATATATTATGATTTTAG
1 TAAAATATATTTAATAATAATTATTTTAAATTATA-TTTATAGTAT-A-ATA-TATGATTTTAG
* * * *
17257757 T-AAAT-TCATATAAGAATATTTATTATTAAGA--AT-TTTAT--TA-AATTATAT-ATTTTAAT
1 TAAAATAT-ATTTAATAATAATTATT-TTAA-ATTATATTTATAGTATAA-TATATGATTTT-AG
*
17257813 TAAAATATATTTAATAATAATTATTTCAAATTATATTATATAGTATAATATATTATGATTTTAG
1 TAAAATATATTTAATAATAATTATTTTAAATTATATT-TATAGTAT-A-ATA-TATGATTTTAG
17257877 TAAA
1 TAAA
17257881 TTCATATATT
Statistics
Matches: 96, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
55 6 0.06
56 9 0.09
57 23 0.24
58 3 0.03
59 5 0.05
61 7 0.07
62 1 0.01
63 22 0.23
64 14 0.15
65 6 0.06
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (60 bp):
TAAAATATATTTAATAATAATTATTTTAAATTATATTTATAGTATAATATATGATTTTAG
Found at i:17258128 original size:39 final size:41
Alignment explanation
Indices: 17258068--17258173 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 41
17258058 TTTCCTTATG
* * * * *
17258068 CTATTACACCTCTATTACATTCAATCAAACACAAGAA-TAT
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
17258108 C-ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTAC
17258153 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
17258174 ACGCATCTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 9 0.17
40 1 0.02
41 8 0.15
42 1 0.02
43 1 0.02
44 21 0.39
45 3 0.06
46 10 0.19
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.31
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:17258148 original size:44 final size:46
Alignment explanation
Indices: 17258085--17258173 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
17258075 ACCTCTATTA
* * *
17258085 CATTCAATCAAACACAAGAA-TATC-ATTACGCCTCTATTCCATTC
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
17258129 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
17258174 ACGCATCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
45 3 0.08
46 19 0.47
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.29
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTC
Found at i:17258176 original size:16 final size:16
Alignment explanation
Indices: 17258155--17258219 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
17258145 AGAATTACCT
*
17258155 ATTACGCCTCTATTCC
1 ATTACGCATCTATTCC
17258171 ATTACGCATCTATTCC
1 ATTACGCATCTATTCC
*
17258187 ATTAAGCATCTATTCC
1 ATTACGCATCTATTCC
* *
17258203 ATTACACCTCTATTCC
1 ATTACGCATCTATTCC
17258219 A
1 A
17258220 ATACAGCGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:17258325 original size:39 final size:39
Alignment explanation
Indices: 17258243--17258351 Score: 184
Period size: 39 Copynumber: 2.8 Consensus size: 39
17258233 AACGTGCTGT
*
17258243 TAGACTTTAGTTTTATTTTTATTGGGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
* *
17258281 TAGACTTTAATTTTAGTTTTATTGAGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
17258320 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGT
17258352 GTAGTAACCA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 25 0.38
39 40 0.62
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:17258684 original size:7 final size:6
Alignment explanation
Indices: 17258654--17258690 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
17258644 TTTATTTAGA
17258654 TTTTTC TTTTTC TTTTTC TTTTTC TCTTTTC TATTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC T-TTTT
17258691 GGCTATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:17259434 original size:19 final size:20
Alignment explanation
Indices: 17259401--17259441 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
17259391 TTAAATTTAA
17259401 TATTAGTTTGCTATTATTAT
1 TATTAGTTTGCTATTATTAT
*
17259421 TATTA-TTTGTTATTATTAT
1 TATTAGTTTGCTATTATTAT
17259440 TA
1 TA
17259442 ATCTTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TATTAGTTTGCTATTATTAT
Found at i:17260765 original size:13 final size:13
Alignment explanation
Indices: 17260762--17260797 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
17260752 GGTAATTGGG
17260762 TTGGGTT-GGTAA
1 TTGGGTTGGGTAA
17260774 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
*
17260787 TTGGATTGGGT
1 TTGGGTTGGGT
17260798 TGGATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.14, C:0.00, G:0.44, T:0.42
Consensus pattern (13 bp):
TTGGGTTGGGTAA
Found at i:17260774 original size:17 final size:17
Alignment explanation
Indices: 17260752--17260784 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17260742 TTCAACATTG
17260752 GGTAATTGGGTTGGGTT
1 GGTAATTGGGTTGGGTT
17260769 GGTAATTGGGTTGGGT
1 GGTAATTGGGTTGGGT
17260785 AATTGGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.39
Consensus pattern (17 bp):
GGTAATTGGGTTGGGTT
Found at i:17260785 original size:30 final size:31
Alignment explanation
Indices: 17260749--17260806 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
17260739 AGTTTCAACA
*
17260749 TTGGGTAATTGGGTTGGGTTGG-TAATTGGG
1 TTGGGTAATTGGATTGGGTTGGATAATTGGG
17260779 TTGGGTAATTGGATTGGGTTGGATAATT
1 TTGGGTAATTGGATTGGGTTGGATAATT
17260807 TTATTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (31 bp):
TTGGGTAATTGGATTGGGTTGGATAATTGGG
Found at i:17262115 original size:27 final size:27
Alignment explanation
Indices: 17262084--17262139 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
17262074 TAAACTCTGC
17262084 CAGTAAATAACTATTCATATTCTGATT
1 CAGTAAATAACTATTCATATTCTGATT
17262111 CAGTAAATAACTATTCATATTCTGATT
1 CAGTAAATAACTATTCATATTCTGATT
17262138 CA
1 CA
17262140 TTTTAGAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (27 bp):
CAGTAAATAACTATTCATATTCTGATT
Found at i:17265534 original size:90 final size:87
Alignment explanation
Indices: 17265380--17265583 Score: 245
Period size: 90 Copynumber: 2.4 Consensus size: 87
17265370 CCTCAAATTT
* * * ** * *
17265380 TTTTAAAAAAAGTAATTAAGCTCCTGC-TTTTTTTTCACTCGTTTGGGTACTTGAACTTTTAAAA
1 TTTTAAAAAAAGTAATTAAACCCCTACTTTTTTTTTCACTCAATTGGGTACTTAAACTTTCAAAA
17265444 TGCATCAAAAAGGCCCTCAAACC
66 TGCATCAAAAAGGCCCTCAAA-C
* * *
17265467 TTTTCAAAAAAAGCAATTAATCCCCTACTTTTTTTTTGCACTTAATTGGGTACTTAAACTTTCAA
1 TTTT-AAAAAAAGTAATTAAACCCCTACTTTTTTTTT-CACTCAATTGGGTACTTAAACTTTCAA
* *
17265532 AATGCCTCAAAAAGACCCTCAAAC
64 AATGCATCAAAAAGGCCCTCAAAC
17265556 -TTT-AAAAAA-TAATTAAACCCCTACTTTT
1 TTTTAAAAAAAGTAATTAAACCCCTACTTTT
17265584 ATTAAAAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
85 17 0.17
86 6 0.06
87 4 0.04
88 22 0.22
89 9 0.09
90 43 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (87 bp):
TTTTAAAAAAAGTAATTAAACCCCTACTTTTTTTTTCACTCAATTGGGTACTTAAACTTTCAAAA
TGCATCAAAAAGGCCCTCAAAC
Found at i:17265724 original size:20 final size:20
Alignment explanation
Indices: 17265701--17265754 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
17265691 AAAAATCATA
* *
17265701 AAAATATATATAAAAATTGT
1 AAAATATTTATAAAAATTGC
17265721 AAAAT-TTTATAAAAATTGC
1 AAAATATTTATAAAAATTGC
*
17265740 AAAAAATTTATAAAA
1 AAAATATTTATAAAA
17265755 TATATAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
AAAATATTTATAAAAATTGC
Found at i:17265755 original size:19 final size:20
Alignment explanation
Indices: 17265659--17265754 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 20
17265649 TTCAAATATT
* *
17265659 AAAAAGTTATTAAAAATTAGAA
1 AAAAATTTA-TAAAAATT-GCA
*
17265681 AAAAAATTATAAAAA-T-CA
1 AAAAATTTATAAAAATTGCA
*
17265699 TAAAAATATATATAAAAATTG-T
1 -AAAAAT-T-TATAAAAATTGCA
*
17265721 AAAATTTTATAAAAATTGCA
1 AAAAATTTATAAAAATTGCA
17265741 AAAAATTTATAAAA
1 AAAAATTTATAAAA
17265755 TATATAGAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
18 1 0.02
19 16 0.26
20 16 0.26
21 19 0.31
22 9 0.15
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAAATTTATAAAAATTGCA
Found at i:17265785 original size:10 final size:10
Alignment explanation
Indices: 17265658--17265789 Score: 71
Period size: 10 Copynumber: 13.4 Consensus size: 10
17265648 ATTCAAATAT
*
17265658 TAAAAAGTTA
1 TAAAAATTTA
*
17265668 TTAAAAATTAGA
1 -TAAAAATT-TA
* *
17265680 AAAAAAATTA
1 TAAAAATTTA
*
17265690 TAAAAA-TCA
1 TAAAAATTTA
17265699 TAAAAATATATA
1 TAAAAAT-T-TA
*
17265711 TAAAAA-TTG
1 TAAAAATTTA
*
17265720 TAAAATTTTA
1 TAAAAATTTA
*
17265730 TAAAAATTGCA
1 TAAAAATT-TA
17265741 -AAAAATTTA
1 TAAAAATTTA
*
17265750 T-AAAATATA
1 TAAAAATTTA
*
17265759 TAGAAA--TA
1 TAAAAATTTA
17265767 -AAAAATTTA
1 TAAAAATTTA
*
17265776 TAAAATTTTA
1 TAAAAATTTA
17265786 TAAA
1 TAAA
17265790 GTCATAAGAA
Statistics
Matches: 92, Mismatches: 18, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
7 4 0.04
8 2 0.02
9 25 0.27
10 38 0.41
11 15 0.16
12 8 0.09
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:17266064 original size:10 final size:10
Alignment explanation
Indices: 17266051--17266128 Score: 55
Period size: 10 Copynumber: 8.4 Consensus size: 10
17266041 ATAAAAAATT
17266051 ATAATTTTTA
1 ATAATTTTTA
17266061 ATAATTTTT-
1 ATAATTTTTA
17266070 AT-ATTTTT-
1 ATAATTTTTA
*
17266078 ATATTTTATTA
1 ATAATTT-TTA
17266089 A-AA--TTTA
1 ATAATTTTTA
17266096 AT-ATTTTT-
1 ATAATTTTTA
*
17266104 ATAATTTTTTT
1 ATAA-TTTTTA
*
17266115 CTAATTTTTA
1 ATAATTTTTA
17266125 ATAA
1 ATAA
17266129 GAGCAGAGGC
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
7 5 0.09
8 11 0.20
9 9 0.17
10 25 0.46
11 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:17266080 original size:37 final size:36
Alignment explanation
Indices: 17265991--17266080 Score: 92
Period size: 37 Copynumber: 2.4 Consensus size: 36
17265981 TCGTTAGGTT
** *
17265991 TTTTTATGATTTTTAT-AAATTTTACAATTTTTAATT
1 TTTTTAT-ATTTTTATAAAAAATTACAATTTTTAATA
* * *
17266027 TTTTTACAATTGTTATAAAAAATTATAATTTTTAATAA
1 TTTTTA-TATTTTTATAAAAAATTACAATTTTTAAT-A
17266065 TTTTTATATTTTTATA
1 TTTTTATATTTTTATA
17266081 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
36 13 0.30
37 24 0.56
38 6 0.14
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (36 bp):
TTTTTATATTTTTATAAAAAATTACAATTTTTAATA
Found at i:17266110 original size:9 final size:9
Alignment explanation
Indices: 17265991--17266112 Score: 72
Period size: 9 Copynumber: 13.6 Consensus size: 9
17265981 TCGTTAGGTT
*
17265991 TTTTTATGA
1 TTTTTATAA
17266000 TTTTTATAA
1 TTTTTATAA
* *
17266009 ATTTTACAA
1 TTTTTATAA
*
17266018 TTTTTA-ATT
1 TTTTTATA-A
*
17266027 TTTTTACAA
1 TTTTTATAA
*
17266036 TTGTTATAAA
1 TTTTTAT-AA
***
17266046 AAATTATAA
1 TTTTTATAA
17266055 TTTTTAATAA
1 TTTTT-ATAA
17266065 TTTTTAT-A
1 TTTTTATAA
*
17266073 TTTTTATAT
1 TTTTTATAA
17266082 TTTATTA-AA
1 TTT-TTATAA
* *
17266091 ATTTAAT-A
1 TTTTTATAA
17266099 TTTTTATAA
1 TTTTTATAA
17266108 TTTTT
1 TTTTT
17266113 TTCTAATTTT
Statistics
Matches: 85, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
8 17 0.20
9 49 0.58
10 19 0.22
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:17266275 original size:89 final size:87
Alignment explanation
Indices: 17266136--17266329 Score: 225
Period size: 89 Copynumber: 2.2 Consensus size: 87
17266126 TAAGAGCAGA
* * *
17266136 GGCTTAATTAC-TTTTTTGAAAAATGTTAAGGGTCTTTCTGATACATTTTGAAAGTTCAAGTACC
1 GGCTTAATTGCTTTTTTTGAAAAATGTTAAGGGCCTTTCTGATACATTTTGAAAATTCAAGT-CC
17266200 T-AATTGAGTGAAAAAAAAAGAAGG
65 TCAATTGAGTGAAAAAAAAAG--GG
* * * *
17266224 GGCTTAATTGCTTTTTTTGAAGAA-GTTTGAGGGCCTTTTTGATGA-ATTTTGAAAATTCAAGTG
1 GGCTTAATTGCTTTTTTTGAAAAATG-TTAAGGGCCTTTCTGAT-ACATTTTGAAAATTCAAGTC
*
17266287 TTCAATTGAGTGAAAAAAAAAGGG
64 CTCAATTGAGTGAAAAAAAAAGGG
*
17266311 GGCTTAATTGTGTTTTTTT
1 GGCTTAATTG-CTTTTTTT
17266330 TTAATTTGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
87 12 0.13
88 19 0.21
89 60 0.65
90 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (87 bp):
GGCTTAATTGCTTTTTTTGAAAAATGTTAAGGGCCTTTCTGATACATTTTGAAAATTCAAGTCCT
CAATTGAGTGAAAAAAAAAGGG
Found at i:17276109 original size:19 final size:19
Alignment explanation
Indices: 17276085--17276147 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
17276075 TCTAATTAAG
*
17276085 TAATAACTCTATTTCACTT
1 TAATAACTCTATTTAACTT
* * * ***
17276104 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTAACTT
*
17276123 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTAACTT
17276142 TAATAA
1 TAATAA
17276148 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.44
Consensus pattern (19 bp):
TAATAACTCTATTTAACTT
Found at i:17276211 original size:18 final size:17
Alignment explanation
Indices: 17276182--17276216 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17276172 GTAATGTTTC
*
17276182 AAAAAATGTTTTTAGGA
1 AAAAAATGTTTTAAGGA
17276199 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
17276217 GAAGGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAAAAATGTTTTAAGGA
Found at i:17277574 original size:27 final size:27
Alignment explanation
Indices: 17277531--17277620 Score: 137
Period size: 27 Copynumber: 3.3 Consensus size: 27
17277521 TTTTAGTCCT
*
17277531 GTGCCGCCAATCTCTTTGACACCTTTG
1 GTGCCGCCAATCTCTTTGGCACCTTTG
*
17277558 GT-CAGGCCAATCTCTTTGGCACCTTTG
1 GTGC-CGCCAATCTCTTTGGCACCTTTG
*
17277585 GTGCCGCCAATCACTTTGGCACCTTTG
1 GTGCCGCCAATCTCTTTGGCACCTTTG
17277612 GTGCCGCCA
1 GTGCCGCCA
17277621 CAGGTTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.14, C:0.33, G:0.22, T:0.30
Consensus pattern (27 bp):
GTGCCGCCAATCTCTTTGGCACCTTTG
Found at i:17277642 original size:16 final size:17
Alignment explanation
Indices: 17277621--17277652 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17277611 GGTGCCGCCA
17277621 CAGGTTTTT-TTTTTTG
1 CAGGTTTTTGTTTTTTG
17277637 CAGGTTTTTGTTTTTT
1 CAGGTTTTTGTTTTTT
17277653 TTTGGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.69
Consensus pattern (17 bp):
CAGGTTTTTGTTTTTTG
Found at i:17280314 original size:16 final size:17
Alignment explanation
Indices: 17280288--17280321 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
17280278 ACATATGACA
17280288 AAAAAATTATAAAAAAT
1 AAAAAATTATAAAAAAT
17280305 AAAAAA-TATAAAAAAT
1 AAAAAATTATAAAAAAT
17280321 A
1 A
17280322 TTAAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATTATAAAAAAT
Found at i:17280337 original size:19 final size:20
Alignment explanation
Indices: 17280315--17280359 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
17280305 AAAAAATATA
17280315 AAAAATATTAAAT-TTTAAT
1 AAAAATATTAAATATTTAAT
*
17280334 AAAAATATTAAATATTTATT
1 AAAAATATTAAATATTTAAT
17280354 AAAAAT
1 AAAAAT
17280360 TAAAAAATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATATTAAATATTTAAT
Found at i:17280451 original size:21 final size:22
Alignment explanation
Indices: 17280427--17280482 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
17280417 ATAAAGTCGT
17280427 AAGAAAATTATAAAAAAT-ATA
1 AAGAAAATTATAAAAAATCATA
*
17280448 AAG-AAA-TAT-AAAATTCATA
1 AAGAAAATTATAAAAAATCATA
*
17280467 AAAAAAATTATAAAAA
1 AAGAAAATTATAAAAA
17280483 TTATCTACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 5 0.17
19 8 0.28
20 6 0.21
21 6 0.21
22 4 0.14
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (22 bp):
AAGAAAATTATAAAAAATCATA
Found at i:17280481 original size:9 final size:9
Alignment explanation
Indices: 17280289--17280486 Score: 52
Period size: 9 Copynumber: 21.0 Consensus size: 9
17280279 CATATGACAA
17280289 AAAAATTAT
1 AAAAATTAT
17280298 AAAAA--AT
1 AAAAATTAT
*
17280305 AAAAAATAT
1 AAAAATTAT
*
17280314 AAAAAATATT
1 AAAAATTA-T
**
17280324 AAATTTTAAT
1 AAAAATT-AT
17280334 AAAAA-TATT
1 AAAAATTA-T
*
17280343 AAATATTTATT
1 AAA-AATTA-T
17280354 AAAAATTA-
1 AAAAATTAT
**
17280362 AAAAATCGT
1 AAAAATTAT
*
17280371 AAAATATTGT
1 AAAA-ATTAT
17280381 -AAAATATAT
1 AAAAAT-TAT
* *
17280390 ACAAATATAG
1 AAAAAT-TAT
*
17280400 AAAAAATAT
1 AAAAATTAT
*
17280409 -AAAATTTT
1 AAAAATTAT
*
17280417 ATAAAGTCGTA-
1 A-AAAAT--TAT
17280428 AGAAAATTAT
1 A-AAAATTAT
*
17280438 AAAAAATAT
1 AAAAATTAT
*
17280447 AAAGAAATAT
1 AAA-AATTAT
17280457 -AAAATTCAT
1 AAAAATT-AT
17280466 AAAAAAAATTAT
1 ---AAAAATTAT
17280478 AAAAATTAT
1 AAAAATTAT
17280487 CTACCAAAAG
Statistics
Matches: 143, Mismatches: 24, Indels: 44
0.68 0.11 0.21
Matches are distributed among these distances:
7 7 0.05
8 18 0.13
9 56 0.39
10 40 0.28
11 13 0.09
12 3 0.02
13 6 0.04
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:17280714 original size:28 final size:29
Alignment explanation
Indices: 17280656--17280820 Score: 148
Period size: 28 Copynumber: 5.9 Consensus size: 29
17280646 TAAATGACAT
* *
17280656 TTTTTAT-GCATTTTATAATTTTTAATAA
1 TTTTTATAGAATTTTATAATTTTTTATAA
*
17280684 TTTTTATAGAATTTTACAATTTTTTAT-A
1 TTTTTATAGAATTTTATAATTTTTTATAA
* *
17280712 TTTTTTTATG-ATTTT-TAATTTTTTTTAA
1 TTTTTATA-GAATTTTATAATTTTTTATAA
* *
17280740 TTTTAATAAAATTTT-T-ATATTTTTAT-A
1 TTTTTATAGAATTTTATAAT-TTTTTATAA
* *
17280767 TTTTTATTAAAATTTAATAATTTTTTATAA
1 TTTTTA-TAGAATTTTATAATTTTTTATAA
* *
17280797 ATTTTATTG-ATTTTATAATTTTTT
1 TTTTTATAGAATTTTATAATTTTTT
17280821 GCCACATGTC
Statistics
Matches: 112, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
27 17 0.15
28 61 0.54
29 26 0.23
30 8 0.07
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTTTATAGAATTTTATAATTTTTTATAA
Found at i:17280755 original size:37 final size:37
Alignment explanation
Indices: 17280714--17280795 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
17280704 TTTTTATATT
* *
17280714 TTTTTATGATTTTTA-ATTTTT-TTTAATTTTAATAAAA
1 TTTTTAT-ATTTTTATATTTTTATTAAAATTTAAT-AAA
*
17280751 TTTTTATATTTTTATATTTTTATTAAAATTTAATAAT
1 TTTTTATATTTTTATATTTTTATTAAAATTTAATAAA
17280788 TTTTTATA
1 TTTTTATA
17280796 AATTTTATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 7 0.17
37 23 0.57
38 10 0.25
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (37 bp):
TTTTTATATTTTTATATTTTTATTAAAATTTAATAAA
Found at i:17280820 original size:10 final size:9
Alignment explanation
Indices: 17280666--17280819 Score: 91
Period size: 10 Copynumber: 16.4 Consensus size: 9
17280656 TTTTTATGCA
17280666 TTTTATAAT
1 TTTTATAAT
17280675 TTTTAATAAT
1 TTTT-ATAAT
*
17280685 TTTTATAGAA
1 TTTTATA-AT
*
17280695 TTTTACAATT
1 TTTTATAA-T
*
17280705 TTTTATATTT
1 TTTTATA-AT
*
17280715 TTTTATGAT
1 TTTTATAAT
*
17280724 TTTTA-ATT
1 TTTTATAAT
*
17280732 TTTTTTAAT
1 TTTTATAAT
*
17280741 TTTAATAAAAT
1 TTT--TATAAT
17280752 TTTTAT-AT
1 TTTTATAAT
17280760 TTTTAT-AT
1 TTTTATAAT
*
17280768 TTTTATTAAAA
1 TTTTA-T-AAT
*
17280779 TTTAATAATT
1 TTTTATAA-T
*
17280789 TTTTATAAA
1 TTTTATAAT
*
17280798 TTTTATTGA-
1 TTTTA-TAAT
17280807 TTTTATAAT
1 TTTTATAAT
17280816 TTTT
1 TTTT
17280820 TGCCACATGT
Statistics
Matches: 111, Mismatches: 21, Indels: 26
0.70 0.13 0.16
Matches are distributed among these distances:
8 22 0.20
9 38 0.34
10 39 0.35
11 12 0.11
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:17281187 original size:89 final size:88
Alignment explanation
Indices: 17280893--17281206 Score: 301
Period size: 89 Copynumber: 3.5 Consensus size: 88
17280883 TCAAAGGGGT
* ** * * * *
17280893 TTTTTTAATGCATTTTGGCAGTTTAAGTATC-CAATTAAGTGTAAAAAAAAGTAGGGGCTTAATT
1 TTTTTT-ATGAATTTTGAAAGTTCAAGTA-CACAATTGAGTGCAAAAAAAAGTAGGGGATTAATT
*
17280957 TCTTTTCTTGAAAAAGTTTGAGGGCA
64 ACTTTT-TTGAAAAAGTTTGAGGGCA
* * * **
17280983 TTTTTTATGTATTTTGAAAGTTCAAGTACACAATTGAGTGTAAAAAAAAG-GGGGGATTAATGGC
1 TTTTTTATGAATTTTGAAAGTTCAAGTACACAATTGAGTGCAAAAAAAAGTAGGGGATTAATTAC
*** *
17281047 TTTTTT-TTTAAGTTTGAGGGCGTT
66 TTTTTTGAAAAAGTTTGAGGGC--A
* * * * * * *
17281071 TTTTTTATGCATTTTGAAATTTTAAGTACACAATTGACTGGAAAAAAAAGTAAGGGTTTAATTAC
1 TTTTTTATGAATTTTGAAAGTTCAAGTACACAATTGAGTGCAAAAAAAAGTAGGGGATTAATTAC
*
17281136 TTTTTATGAAAAAATTTGAGGGCA
66 TTTTT-TGAAAAAGTTTGAGGGCA
* * *
17281160 TTTTTGATAAATTTTGAAAGTTCAAGTACTCAATTGAGTGCAAAAAA
1 TTTTTTATGAATTTTGAAAGTTCAAGTACACAATTGAGTGCAAAAAA
17281207 CAAAAACAAA
Statistics
Matches: 182, Mismatches: 36, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
86 12 0.07
87 2 0.01
88 60 0.33
89 90 0.49
90 7 0.04
91 11 0.06
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.39
Consensus pattern (88 bp):
TTTTTTATGAATTTTGAAAGTTCAAGTACACAATTGAGTGCAAAAAAAAGTAGGGGATTAATTAC
TTTTTTGAAAAAGTTTGAGGGCA
Found at i:17281187 original size:177 final size:176
Alignment explanation
Indices: 17280887--17281206 Score: 455
Period size: 177 Copynumber: 1.8 Consensus size: 176
17280877 GGTAGGTCAA
** * * *
17280887 AGGGGTTTTTTTAATGCATTTTGGCAGTTTAAGTATCCAATTAAGTGTAAAAAAAAGTAGGGGCT
1 AGGGGTTTTTTTAATGCATTTTGAAAGTTTAAGTATCCAATTAACTGGAAAAAAAAGTAAGGGCT
* * * **
17280952 TAATTTCTTTTCTTGAAAAAGTTTGAGGGCATTTTTTATGTATTTTGAAAGTTCAAGTACACAAT
66 TAATTACTTTTCTTGAAAAAATTTGAGGGCATTTTTGATAAATTTTGAAAGTTCAAGTACACAAT
*
17281017 TGAGTGTAAAAAAAAGGGGGGATTAATGGCTTTTTTTTTAAGTTTG
131 TGAGTGCAAAAAAAAGGGGGGATTAATGGCTTTTTTTTTAAGTTTG
* * *
17281063 AGGGCGTTTTTTTTATGCATTTTGAAATTTTAAGTA-CACAATTGACTGGAAAAAAAAGTAAGGG
1 AGGG-GTTTTTTTAATGCATTTTGAAAGTTTAAGTATC-CAATTAACTGGAAAAAAAAGTAAGGG
* *
17281127 TTTAATTACTTTT-TATGAAAAAATTTGAGGGCATTTTTGATAAATTTTGAAAGTTCAAGTACTC
64 CTTAATTACTTTTCT-TGAAAAAATTTGAGGGCATTTTTGATAAATTTTGAAAGTTCAAGTACAC
17281191 AATTGAGTGCAAAAAA
128 AATTGAGTGCAAAAAA
17281207 CAAAAACAAA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
176 6 0.05
177 119 0.95
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.38
Consensus pattern (176 bp):
AGGGGTTTTTTTAATGCATTTTGAAAGTTTAAGTATCCAATTAACTGGAAAAAAAAGTAAGGGCT
TAATTACTTTTCTTGAAAAAATTTGAGGGCATTTTTGATAAATTTTGAAAGTTCAAGTACACAAT
TGAGTGCAAAAAAAAGGGGGGATTAATGGCTTTTTTTTTAAGTTTG
Found at i:17284044 original size:13 final size:13
Alignment explanation
Indices: 17284026--17284050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17284016 AAATTCAATG
17284026 TCAATTTCATATA
1 TCAATTTCATATA
17284039 TCAATTTCATAT
1 TCAATTTCATAT
17284051 CTAAACATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:17284731 original size:7 final size:8
Alignment explanation
Indices: 17284712--17284770 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
17284702 ATTCCTTAAG
17284712 TCATATAA
1 TCATATAA
17284720 TCATAT-A
1 TCATATAA
*
17284727 TCATAAAA
1 TCATATAA
17284735 TCA-ATCCAA
1 TCATAT--AA
17284744 GTCATATAA
1 -TCATATAA
17284753 TCATAT-A
1 TCATATAA
*
17284760 TCATAAAA
1 TCATATAA
17284768 TCA
1 TCA
17284771 ATCCAAGTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 13 0.31
8 20 0.48
9 4 0.10
10 3 0.07
11 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (8 bp):
TCATATAA
Found at i:17284736 original size:15 final size:15
Alignment explanation
Indices: 17284712--17284770 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
17284702 ATTCCTTAAG
*
17284712 TCATATAATCATATA
1 TCATAAAATCATATA
17284727 TCATAAAATCA-ATCCAA
1 TCATAAAATCATAT---A
*
17284744 GTCATATAATCATATA
1 -TCATAAAATCATATA
17284760 TCATAAAATCA
1 TCATAAAATCA
17284771 ATCCAAGTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 2 0.06
15 20 0.56
16 1 0.03
17 1 0.03
18 10 0.28
19 2 0.06
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (15 bp):
TCATAAAATCATATA
Found at i:17284751 original size:33 final size:33
Alignment explanation
Indices: 17284709--17284784 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
17284699 TTCATTCCTT
17284709 AAGTCATATAATCATATATCATAAAATCAATCC
1 AAGTCATATAATCATATATCATAAAATCAATCC
17284742 AAGTCATATAATCATATATCATAAAATCAATCC
1 AAGTCATATAATCATATATCATAAAATCAATCC
17284775 AAGTCATATA
1 AAGTCATATA
17284785 GCTAAATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (33 bp):
AAGTCATATAATCATATATCATAAAATCAATCC
Found at i:17284754 original size:18 final size:18
Alignment explanation
Indices: 17284727--17284782 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
17284717 TAATCATATA
17284727 TCATAAAATCAATCCAAG
1 TCATAAAATCAATCCAAG
*
17284745 TCATATAATC-AT--ATA-
1 TCATAAAATCAATCCA-AG
17284760 TCATAAAATCAATCCAAG
1 TCATAAAATCAATCCAAG
17284778 TCATA
1 TCATA
17284783 TAGCTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 10 0.32
16 3 0.10
17 3 0.10
18 15 0.48
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.29
Consensus pattern (18 bp):
TCATAAAATCAATCCAAG
Found at i:17284943 original size:20 final size:19
Alignment explanation
Indices: 17284920--17284978 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
17284910 CATCAGTAAT
17284920 AACAGAAATTTATCCATATC
1 AACAG-AATTTATCCATATC
* * *
17284940 AACATTAACTTATACATATC
1 AACA-GAATTTATCCATATC
*
17284960 AACAGTATTTCATCCATAT
1 AACAGAATTT-ATCCATAT
17284979 AATTATATAG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.34
Consensus pattern (19 bp):
AACAGAATTTATCCATATC
Found at i:17285167 original size:22 final size:22
Alignment explanation
Indices: 17285141--17285231 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 22
17285131 TTGAGCAGGT
17285141 AAACGGTAAGCTCTATCA-AGCTG
1 AAACGGTAAGCTC-AT-AGAGCTG
*
17285164 -AACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCT-CATAGAGCTG
*
17285186 AAACAGTAAGCTCATAAGAGCTG
1 AAACGGTAAGCTCAT-AGAGCTG
17285209 AAACGGTAAGCTCATACGAGCTG
1 AAACGGTAAGCTCATA-GAGCTG
17285232 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.02
22 20 0.34
23 38 0.64
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (22 bp):
AAACGGTAAGCTCATAGAGCTG
Found at i:17285230 original size:46 final size:45
Alignment explanation
Indices: 17285141--17285231 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
17285131 TTGAGCAGGT
* * *
17285141 AAACGGTAAGCTCTATCAAGCTGAACGGTAAGCTCCGTAGAGCTG
1 AAACAGTAAGCTCTATAAAGCTGAACGGTAAGCTCCATAGAGCTG
17285186 AAACAGTAAGCTC-ATAAGAGCTGAAACGGTAAGCT-CATACGAGCTG
1 AAACAGTAAGCTCTATAA-AGCTG-AACGGTAAGCTCCATA-GAGCTG
17285232 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
44 3 0.08
45 20 0.50
46 17 0.43
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (45 bp):
AAACAGTAAGCTCTATAAAGCTGAACGGTAAGCTCCATAGAGCTG
Found at i:17291411 original size:21 final size:21
Alignment explanation
Indices: 17291385--17291425 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17291375 ATCTGCTCAA
* *
17291385 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
17291406 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
17291426 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:17299031 original size:28 final size:28
Alignment explanation
Indices: 17299002--17299072 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
17298992 TATAAAAAAT
17299002 AAAATTATTAAAAATGAT-ATAAATTCATA
1 AAAATTA-TAAAAAT-ATAATAAATTCATA
*
17299031 AAAATTATAAAAATATAATAAATT-TTA
1 AAAATTATAAAAATATAATAAATTCATA
17299058 ACAAATTATAAAAAT
1 A-AAATTATAAAAAT
17299073 TACAAAAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
28 27 0.69
29 7 0.18
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAATTATAAAAATATAATAAATTCATA
Found at i:17299035 original size:10 final size:9
Alignment explanation
Indices: 17298972--17299079 Score: 84
Period size: 10 Copynumber: 12.0 Consensus size: 9
17298962 TTAATTTAAT
17298972 ATTA-AAAA
1 ATTATAAAA
17298980 ATTA-AAAA
1 ATTATAAAA
17298988 TATTTATAAAA
1 -A-TTATAAAA
17298999 A--AT-AAA
1 ATTATAAAA
17299005 ATTATTAAAA
1 ATTA-TAAAA
* *
17299015 ATGATATAA
1 ATTATAAAA
17299024 ATTCATAAAA
1 ATT-ATAAAA
17299034 ATTATAAAA
1 ATTATAAAA
17299043 A-TATAATAA
1 ATTATAA-AA
*
17299052 ATTTTAACAA
1 ATTATAA-AA
17299062 ATTATAAAA
1 ATTATAAAA
*
17299071 ATTACAAAA
1 ATTATAAAA
17299080 GTAACAAAGC
Statistics
Matches: 82, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
6 4 0.05
7 2 0.02
8 14 0.17
9 28 0.34
10 30 0.37
11 4 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
ATTATAAAA
Found at i:17299044 original size:19 final size:18
Alignment explanation
Indices: 17298972--17299079 Score: 84
Period size: 19 Copynumber: 6.0 Consensus size: 18
17298962 TTAATTTAAT
17298972 ATTA-AAAAATTA-AAAA
1 ATTATAAAAATTATAAAA
17298988 TATTTATAAAAA--AT-AAA
1 -A-TTATAAAAATTATAAAA
* *
17299005 ATTATTAAAAATGATATAA
1 ATTA-TAAAAATTATAAAA
17299024 ATTCATAAAAATTATAAAA
1 ATT-ATAAAAATTATAAAA
*
17299043 A-TATAATAAATTTTAACAA
1 ATTATAA-AAATTATAA-AA
*
17299062 ATTATAAAAATTACAAAA
1 ATTATAAAAATTATAAAA
17299080 GTAACAAAGC
Statistics
Matches: 74, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
15 3 0.04
16 7 0.09
17 9 0.12
18 16 0.22
19 33 0.45
20 6 0.08
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (18 bp):
ATTATAAAAATTATAAAA
Found at i:17299548 original size:10 final size:9
Alignment explanation
Indices: 17299530--17299704 Score: 67
Period size: 10 Copynumber: 18.6 Consensus size: 9
17299520 TTTATGTTTA
17299530 TTTATAATT
1 TTTATAATT
17299539 TTTATAAATT
1 TTTAT-AATT
*
17299549 TATATTAATT
1 TTTA-TAATT
* *
17299559 TTAAT-TTT
1 TTTATAATT
17299567 TTTAATAATTT
1 TTT-ATAA-TT
*
17299578 TTTACAATT
1 TTTATAATT
17299587 TTT-TAAAGTT
1 TTTAT-AA-TT
* * *
17299597 CTAATACGTT
1 TTTATA-ATT
*
17299607 TTT-TTA-T
1 TTTATAATT
17299614 TTTA-AATAT
1 TTTATAAT-T
17299623 TTTATTAA-T
1 TTTA-TAATT
17299632 TTTATAACTT
1 TTTATAA-TT
17299642 TTTATAATT
1 TTTATAATT
* *
17299651 TATTAGATTT
1 T-TTATAATT
17299661 TTTAT-ATT
1 TTTATAATT
17299669 TTTGATAATT
1 TTT-ATAATT
*
17299679 TTTATAGTTTT
1 TTTATA--ATT
17299690 TTTATGAATT
1 TTTAT-AATT
17299700 TTTAT
1 TTTAT
17299705 TTTTAATATT
Statistics
Matches: 122, Mismatches: 22, Indels: 43
0.65 0.12 0.23
Matches are distributed among these distances:
7 5 0.04
8 12 0.10
9 37 0.30
10 51 0.42
11 16 0.13
12 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:17299649 original size:18 final size:17
Alignment explanation
Indices: 17299612--17299689 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 17
17299602 ACGTTTTTTT
17299612 ATTTTA-AATATTTTATTA
1 ATTTTATAAT-TTTTA-TA
17299630 ATTTTATAACTTTTTATA
1 ATTTTATAA-TTTTTATA
17299648 A-TTTATTAGATTTTTTATA
1 ATTTTA-TA-A-TTTTTATA
*
17299667 TTTTTGATAATTTTTATA
1 ATTTT-ATAATTTTTATA
*
17299685 GTTTT
1 ATTTT
17299690 TTTATGAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.08
18 23 0.45
19 17 0.33
20 6 0.12
21 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (17 bp):
ATTTTATAATTTTTATA
Found at i:17299690 original size:29 final size:29
Alignment explanation
Indices: 17299631--17299694 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
17299621 ATTTTATTAA
*
17299631 TTTTATAACTTTTTATAATTTATTAGATT
1 TTTTATAACTTTTGATAATTTATTAGATT
* * *
17299660 TTTTAT-ATTTTTGATAATTTTTATAGTTT
1 TTTTATAACTTTTGATAATTTAT-TAGATT
17299689 TTTTAT
1 TTTTAT
17299695 GAATTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.67
Consensus pattern (29 bp):
TTTTATAACTTTTGATAATTTATTAGATT
Found at i:17299699 original size:21 final size:18
Alignment explanation
Indices: 17299659--17299708 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
17299649 TTTATTAGAT
17299659 TTTTTATATTTTTGATAA
1 TTTTTATATTTTTGATAA
*
17299677 TTTTTATAGTTTTTTTATGAA
1 TTTTTATA--TTTTTGAT-AA
17299698 TTTTTAT-TTTT
1 TTTTTATATTTT
17299709 AATATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 12 0.43
20 7 0.25
21 9 0.32
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (18 bp):
TTTTTATATTTTTGATAA
Found at i:17299763 original size:24 final size:22
Alignment explanation
Indices: 17299718--17299770 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
17299708 TAATATTAAA
17299718 TATAATTTTTCTGATACCTTAT
1 TATAATTTTTCTGATACCTTAT
* *
17299740 TATAATTTTTTTGATATCTT-T
1 TATAATTTTTCTGATACCTTAT
17299761 TATGAATTTT
1 TAT-AATTTT
17299771 ATAATTAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.26, C:0.08, G:0.06, T:0.60
Consensus pattern (22 bp):
TATAATTTTTCTGATACCTTAT
Found at i:17305556 original size:27 final size:27
Alignment explanation
Indices: 17305526--17305581 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
17305516 CTAGGCCAAA
* * *
17305526 AATTTTAATTAATTATGTAAATGACCT
1 AATTTTAATAAAATATGTAAATAACCT
17305553 AATTTTAATAAAATATGTAAATAACCT
1 AATTTTAATAAAATATGTAAATAACCT
17305580 AA
1 AA
17305582 AATCTAGAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (27 bp):
AATTTTAATAAAATATGTAAATAACCT
Found at i:17306711 original size:26 final size:28
Alignment explanation
Indices: 17306682--17306734 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
17306672 AAATCAAAAA
17306682 AATTA-AAAGGACATTTTTAA-AGAAAG
1 AATTATAAAGGACATTTTTAATAGAAAG
*
17306708 AATTATAACGGACATTTTTAATAGAAA
1 AATTATAAAGGACATTTTTAATAGAAA
17306735 TAAAAAAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 14 0.58
28 5 0.21
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (28 bp):
AATTATAAAGGACATTTTTAATAGAAAG
Found at i:17306744 original size:27 final size:27
Alignment explanation
Indices: 17306686--17306746 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
17306676 CAAAAAAATT
*
17306686 AAAA-GGACATTTTTAAAGAAAGAATT
1 AAAACGGACATTTTTAAAGAAAGAATA
* *
17306712 ATAACGGACATTTTTAATAGAAATAA-A
1 AAAACGGACATTTTTAA-AGAAAGAATA
17306739 AAAACGGA
1 AAAACGGA
17306747 TGACTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.10
27 19 0.66
28 7 0.24
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.25
Consensus pattern (27 bp):
AAAACGGACATTTTTAAAGAAAGAATA
Found at i:17307285 original size:7 final size:7
Alignment explanation
Indices: 17307275--17307317 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
17307265 TTTTAAAATA
17307275 CATTTCC
1 CATTTCC
17307282 CATTTCC
1 CATTTCC
17307289 CATTTCC
1 CATTTCC
17307296 CATTTCC
1 CATTTCC
17307303 CATTTCC
1 CATTTCC
17307310 CATTTCC
1 CATTTCC
17307317 C
1 C
17307318 CTCTTCCACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.14, C:0.44, G:0.00, T:0.42
Consensus pattern (7 bp):
CATTTCC
Found at i:17309830 original size:19 final size:19
Alignment explanation
Indices: 17309802--17309848 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
17309792 TCTACAAATT
*
17309802 CACCATAAAAAAGAATGTA
1 CACCAAAAAAAAGAATGTA
17309821 CACCAAAAAAAAGAATGTA
1 CACCAAAAAAAAGAATGTA
17309840 CACCAAAAA
1 CACCAAAAA
17309849 TACCGTGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.62, C:0.19, G:0.09, T:0.11
Consensus pattern (19 bp):
CACCAAAAAAAAGAATGTA
Found at i:17315859 original size:16 final size:16
Alignment explanation
Indices: 17315840--17315870 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17315830 AATTTTCTAA
17315840 AATTTTAAAAAGTTAG
1 AATTTTAAAAAGTTAG
*
17315856 AATTTTCAAAAGTTA
1 AATTTTAAAAAGTTA
17315871 ACTGAAAAAA
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:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (16 bp):
AATTTTAAAAAGTTAG
Found at i:17316056 original size:25 final size:27
Alignment explanation
Indices: 17316017--17316085 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 27
17316007 AAAATTGGAA
* *
17316017 AAAAAAGTATA-AAAATTTAAATT-TT
1 AAAAAACTATATAAAATTTAAATTATC
* *
17316042 AAAAAA-TATTTAAAATATAAATTATC
1 AAAAAACTATATAAAATTTAAATTATC
17316068 AAAAAACTATATAAAATT
1 AAAAAACTATATAAAATT
17316086 ATGAAAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.08
25 17 0.47
26 7 0.19
27 9 0.25
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAAAACTATATAAAATTTAAATTATC
Found at i:17323891 original size:6 final size:6
Alignment explanation
Indices: 17323876--17323908 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
17323866 TATTTAACGT
17323876 AAAAAC AAAAA- AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
17323909 TAAGCAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:17323892 original size:11 final size:12
Alignment explanation
Indices: 17323876--17323908 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
17323866 TATTTAACGT
17323876 AAAAACAAAAA-
1 AAAAACAAAAAC
17323887 AAAAACAAAAAC
1 AAAAACAAAAAC
17323899 AAAAACAAAA
1 AAAAACAAAA
17323909 TAAGCAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:17325051 original size:24 final size:24
Alignment explanation
Indices: 17325024--17325075 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17325014 TTAGTAAGTC
*
17325024 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17325048 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17325072 AAAT
1 AAAT
17325076 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17327017 original size:24 final size:24
Alignment explanation
Indices: 17326990--17327041 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
17326980 TTAGTAAGTC
*
17326990 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
17327014 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
17327038 AAAT
1 AAAT
17327042 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:17329709 original size:18 final size:17
Alignment explanation
Indices: 17329681--17329714 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
17329671 ATTGTGTTGA
17329681 GAAAATAATTTAATTAG
1 GAAAATAATTTAATTAG
17329698 GAAAATTAATTTAATTA
1 GAAAA-TAATTTAATTA
17329715 ATTAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
GAAAATAATTTAATTAG
Found at i:17334649 original size:24 final size:25
Alignment explanation
Indices: 17334602--17334763 Score: 83
Period size: 26 Copynumber: 6.6 Consensus size: 25
17334592 AAGCTCATGC
17334602 GAGCCA-ATAACGGGTAA-CTCCGAA
1 GAGCCATATAACGGG-AAGCTCCGAA
* *
17334626 GAGCTAT-TAACGGGAAGCTTCGAA
1 GAGCCATATAACGGGAAGCTCCGAA
* * *
17334650 TAGCCATATATCGGGAAG-TTC-AA
1 GAGCCATATAACGGGAAGCTCCGAA
17334673 GCGAGCCATAT--CGGGAAGCTCC-ATA
1 --GAGCCATATAACGGGAAGCTCCGA-A
** *
17334698 GAGCCAT-TAATTAGGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTC-CGAA
* * *
17334724 GAGCC-TTTAATCGAGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTC-CGAA
17334750 GAGCCATATAACGG
1 GAGCCATATAACGG
17334764 AACGCTCATA
Statistics
Matches: 110, Mismatches: 14, Indels: 26
0.73 0.09 0.17
Matches are distributed among these distances:
22 1 0.01
23 18 0.16
24 29 0.26
25 27 0.25
26 30 0.27
27 5 0.05
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCCGAA
Found at i:17334733 original size:26 final size:25
Alignment explanation
Indices: 17334686--17334756 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
17334676 AGCCATATCG
*
17334686 GGAAGCTC-CATAGAGCCATTAATTA
1 GGAAGCTCACAAAGAGCCATTAA-TA
* *
17334711 GGAAGCTCACAAAGAGCCTTTAATC
1 GGAAGCTCACAAAGAGCCATTAATA
17334736 GAGAAGCTCACAAAGAGCCAT
1 G-GAAGCTCACAAAGAGCCAT
17334757 ATAACGGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 10 0.25
26 30 0.75
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (25 bp):
GGAAGCTCACAAAGAGCCATTAATA
Found at i:17339327 original size:5 final size:5
Alignment explanation
Indices: 17339298--17339336 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
17339288 TAACTTTAGC
* *
17339298 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
17339337 CGTCCTAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:17341523 original size:6 final size:7
Alignment explanation
Indices: 17341497--17341533 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
17341487 TAAGAATATC
17341497 AAAAAACG
1 AAAAAA-G
17341505 ACAAAAAG
1 A-AAAAAG
17341513 AAAAAAG
1 AAAAAAG
17341520 AAAAAAG
1 AAAAAAG
17341527 AAAAAAG
1 AAAAAAG
17341534 GAAGAGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.71
8 3 0.11
9 5 0.18
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:17343611 original size:22 final size:22
Alignment explanation
Indices: 17343583--17343627 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17343573 TTAACTTGTT
17343583 AACTGAGTTCGAGTAAATGAGA
1 AACTGAGTTCGAGTAAATGAGA
17343605 AACTGAGTTCGAGTAAATGAGA
1 AACTGAGTTCGAGTAAATGAGA
17343627 A
1 A
17343628 TTGTGCTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.22
Consensus pattern (22 bp):
AACTGAGTTCGAGTAAATGAGA
Found at i:17353617 original size:49 final size:48
Alignment explanation
Indices: 17353546--17353653 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 48
17353536 AGACTTATGA
* * * *
17353546 GGGGAGACTTATGGAAGGTAAAATAATAAAATTGCT-TCTAGACGCATG
1 GGGGAGGCTTACGAAAGGTAAAATAATAAAATTGCTCT-TAGACGCACG
* **
17353594 GGAGGAGGCTTACGAAAGGTAAAATACTAACCTTGCTCTTAGACGCACG
1 GG-GGAGGCTTACGAAAGGTAAAATAATAAAATTGCTCTTAGACGCACG
17353643 GGGGAGGCTTA
1 GGGGAGGCTTA
17353654 TGGAAGGCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
48 11 0.22
49 39 0.76
50 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (48 bp):
GGGGAGGCTTACGAAAGGTAAAATAATAAAATTGCTCTTAGACGCACG
Found at i:17354356 original size:23 final size:23
Alignment explanation
Indices: 17354326--17354376 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
17354316 ACTTAATAGC
*
17354326 GATCATATAACC-AGAACGAAATA
1 GATCATAT-ACCTAGAACGAAACA
*
17354349 GATCATATACCTAGAACGATACA
1 GATCATATACCTAGAACGAAACA
17354372 GATCA
1 GATCA
17354377 AAATATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.20
Consensus pattern (23 bp):
GATCATATACCTAGAACGAAACA
Found at i:17356306 original size:25 final size:25
Alignment explanation
Indices: 17356278--17356335 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
17356268 ATAGGAAGTT
*
17356278 CAAATGAGCC-ATATCAGGAAGCTCA
1 CAAA-GAGCCTATATCAAGAAGCTCA
*
17356303 CAAAGAGCCTATATCAAGACGCTCA
1 CAAAGAGCCTATATCAAGAAGCTCA
*
17356328 TAAAGAGC
1 CAAAGAGC
17356336 TGCCGTATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (25 bp):
CAAAGAGCCTATATCAAGAAGCTCA
Found at i:17358233 original size:12 final size:12
Alignment explanation
Indices: 17358216--17358258 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
17358206 TTGAAGAACT
17358216 AATAAATAAATG
1 AATAAATAAATG
*
17358228 AATAAATAAAATA
1 AATAAAT-AAATG
17358241 AATAAACT-AATG
1 AATAAA-TAAATG
17358253 AATAAA
1 AATAAA
17358259 ACAATTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 16 0.59
13 10 0.37
14 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (12 bp):
AATAAATAAATG
Found at i:17358240 original size:21 final size:21
Alignment explanation
Indices: 17358216--17358259 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
17358206 TTGAAGAACT
17358216 AATAAATAAA-TGAATAAATAA
1 AATAAATAAACT-AATAAATAA
*
17358237 AATAAATAAACTAATGAATAA
1 AATAAATAAACTAATAAATAA
17358258 AA
1 AA
17358260 CAATTTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
AATAAATAAACTAATAAATAA
Found at i:17359796 original size:44 final size:44
Alignment explanation
Indices: 17359733--17359939 Score: 116
Period size: 44 Copynumber: 4.5 Consensus size: 44
17359723 TCCGACCCGT
*
17359733 TGCAACTTC-AGAGAGATAAGGCTGGTGGCTTTAATCTGCTCCAC
1 TGCAACTTCAAGA-AGATAAGGCTGGTGGCTTCAATCTGCTCCAC
* * * *
17359777 TGCAACTTCAAGAAGATAAGATCGGCCATAATTTGTAGCTTTAATCTGTTCCAC
1 TGCAACTTCAAGAAGAT-A-A--GG-C-----TGGTGGCTTCAATCTGCTCCAC
** * ** * * *
17359831 TGCAACGCCAGGGAA-ATAAGATTCGCTGTCTTCAGTCTGCT-CAGC
1 TGCAACTTCA-AGAAGATAAGGCT-GGTGGCTTCAATCTGCTCCA-C
* *
17359876 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
1 TGCAACTTCAAGAAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
17359920 TGCAACTTC-AGAGAGATAAG
1 TGCAACTTCAAGA-AGATAAG
17359940 ATTCGCCATA
Statistics
Matches: 121, Mismatches: 25, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
43 1 0.01
44 50 0.41
45 31 0.26
46 1 0.01
48 2 0.02
49 1 0.01
50 1 0.01
52 1 0.01
53 1 0.01
54 29 0.24
55 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
TGCAACTTCAAGAAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
Found at i:17359895 original size:45 final size:45
Alignment explanation
Indices: 17359814--17360514 Score: 256
Period size: 44 Copynumber: 14.9 Consensus size: 45
17359804 ATAATTTGTA
* * ** *
17359814 GCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTG
* * ** *
17359859 TCTTCAGTCTGCT-CAGCTGCAACTTCAGGGAGATAAGGCT-GGTG
1 GCTTCAATCTGCTCCA-CTGCAACTTCAGGGAGATAAGATTCGCTG
*
17359903 GCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATAATTTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-C------TG
* * ** * *
17359955 TAGCTTTAATCTGTTCCACTGCAACGCCATGGAAATAAGATTCGCTG
1 --GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTG
* * * * * ** * *
17360002 TCTTCAGTCTACTTCGCTGCAACTTCTA-GGAGATAAGGCT-GATA
1 GCTTCAATCTGCTCCACTGCAACTTC-AGGGAGATAAGATTCGCTG
* *
17360046 GCTTCAAT-TGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAACTTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG------C-TG
* * * *
17360097 CAGCTTTAATCTTGTTCCACTGCAA-TGCTAGGGAAATAAGATTCGCTG
1 --GCTTCAATC-TGCTCCACTGCAACTTC-AGGGAGATAAGATTCGCTG
* * * * * * * ** * *
17360145 TCTTCAGTCTACTCCGCTGTAAGTTTAGGGAGATAAGGCT-GGTT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTG
* * *
17360189 GCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATCCGCTATAACTTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG------C-TG
* * * *
17360241 TAGTTTTAATCTGTTCCACTGCAACGTT-AGGGAAATAAGATTCGCTG
1 --GCTTCAATCTGCTCCACTGCAAC-TTCAGGGAGATAAGATTCGCTG
* * * * *
17360288 TCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAA-AGTT-GGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTG
* *
17360332 GCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCGTCATAATTTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-C------TG
* * * ** * * *
17360384 TAGCTTTAAT-TCGTTCCACTACAACGCCATGGAAATAAGATTTGCTG
1 --GCTTCAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTCGCTG
* * ** * ** *
17360431 TCTTCAGTCTGCTCGGCTGCAACTTCAGAGAGATAAG-GCCGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTG
* *
17360475 GCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATT
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
17360515 TGCCATAATG
Statistics
Matches: 464, Mismatches: 137, Indels: 110
0.65 0.19 0.15
Matches are distributed among these distances:
42 1 0.00
43 22 0.05
44 149 0.32
45 130 0.28
46 9 0.02
47 6 0.01
48 3 0.01
49 1 0.00
51 1 0.00
52 5 0.01
53 10 0.02
54 100 0.22
55 27 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTG
Found at i:17359991 original size:143 final size:143
Alignment explanation
Indices: 17359733--17360523 Score: 1160
Period size: 143 Copynumber: 5.5 Consensus size: 143
17359723 TCCGACCCGT
* *
17359733 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAAGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
17359798 -TCGGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
66 TTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
*
17359862 TCAGTCTGCTCAGC
130 TCAGTCTGCTCCGC
*
17359876 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA-GAGAGATAAG
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA-AGATAAG
*
17359940 ATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCATGGAAATAAGATTCGCTGTCT
65 ATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
* *
17360005 TCAGTCTACTTCGC
130 TCAGTCTGCTCCGC
* *
17360019 TGCAACTTCTAG-GAGATAAGGCTGATAGCTTCAAT-TGCTCCACTGCAACTTCAGGAAGATAAG
1 TGCAACTTC-AGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * *
17360082 ATCCGCCATAACTTGCAGCTTTAATCTTGTTCCACTGCAATGCTAGGGAAATAAGATTCGCTGTC
65 ATTCGCCATAATTTGTAGCTTTAATC-TGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTC
*
17360147 TTCAGTCTACTCCGC
129 TTCAGTCTGCTCCGC
* * * * * *
17360162 TGTAAGTTTAGGGAGATAAGGCTGGTTGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
* * * * **
17360227 TCCGCTATAACTTGTAGTTTTAATCTGTTCCACTGCAACGTTAGGGAAATAAGATTCGCTGTCTT
66 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTT
17360292 CAGTCTGCTCCGC
131 CAGTCTGCTCCGC
* * *
17360305 TGCAACTTCAGAGAGATAAAGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
* * * *
17360370 TTCGTCATAATTTGTAGCTTTAAT-TCGTTCCACTACAACGCCATGGAAATAAGATTTGCTGTCT
66 TTCGCCATAATTTGTAGCTTTAATCT-GTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
*
17360434 TCAGTCTGCTCGGC
130 TCAGTCTGCTCCGC
* *
17360448 TGCAACTTCAGAGAGATAAGGCCGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
*
17360513 TTTGCCATAAT
66 TTCGCCATAAT
17360524 GACTTCAATC
Statistics
Matches: 586, Mismatches: 54, Indels: 16
0.89 0.08 0.02
Matches are distributed among these distances:
142 53 0.09
143 479 0.82
144 54 0.09
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (143 bp):
TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTT
CAGTCTGCTCCGC
Found at i:17362628 original size:45 final size:45
Alignment explanation
Indices: 17362560--17362652 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
17362550 ACAGATACTT
* * *
17362560 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTCC
*
17362605 GGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTTC
1 GGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTCC
17362650 GGT
1 GGT
17362653 TCACATAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGAAACCACCTTACTAATCAATGATGTCC
Found at i:17362716 original size:51 final size:50
Alignment explanation
Indices: 17362647--17362844 Score: 218
Period size: 51 Copynumber: 3.9 Consensus size: 50
17362637 ATCAATGATG
* * * *
17362647 TTCGGTTCACATAGTAGCCTGCACATATTACTACACATGTGACCATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCA
* * * *
17362698 TTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCA
* * * * * * *
17362749 TCCGGCACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
*
17362798 TTCCGGTACACGTAGTAGCCTGCACATAGTACTATACACGTGACCAT
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
17362845 CACTTTCACT
Statistics
Matches: 118, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 3 0.03
50 37 0.31
51 76 0.64
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
Found at i:17362837 original size:101 final size:101
Alignment explanation
Indices: 17362656--17362840 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
17362646 GTTCGGTTCA
* *
17362656 CATAGTAGCCTGCACATATTACTACACATGTGACCATTACCATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATTCGATACACGTAGTAGCCTGCA
17362721 CATAGTACTACACACGTGATCGAAACTATCCGGCACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGCACG
* *
17362758 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATT-CGATACACGTAGTAGCCTGCA
*
17362822 CATAGTACTATACACGTGA
65 CATAGTACTACACACGTGA
17362841 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 6 0.08
101 38 0.49
102 33 0.43
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATTCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGCACG
Found at i:17365092 original size:16 final size:16
Alignment explanation
Indices: 17365063--17365104 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
17365053 CCCGGTAAAG
*
17365063 GTTTTTGTTATTTTATT
1 GTTTTTGTT-TTTTTTT
17365080 -TTTTTGTTTTTTTTT
1 GTTTTTGTTTTTTTTT
17365095 GTTTTT-TTTT
1 GTTTTTGTTTT
17365105 GCCTCCACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.86
Consensus pattern (16 bp):
GTTTTTGTTTTTTTTT
Done.