Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 88 of 125
Found at i:17254760 original size:3 final size:3
Alignment explanation
Indices: 17254742--17254823 Score: 103
Period size: 3 Copynumber: 27.3 Consensus size: 3
17254732 AAATAAAATA
* * * * *
17254742 ATT ATT -TT ACT ATT ATT ATT ATT ATT GTT GTT GTT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17254789 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
17254824 AATGTGTGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 68 0.93
4 3 0.04
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:17261823 original size:15 final size:16
Alignment explanation
Indices: 17261799--17261828 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17261789 ATTAAAATTG
17261799 TAATTATTTTATATTA
1 TAATTATTTTATATTA
17261815 TAATT-TTTTATATT
1 TAATTATTTTATATT
17261829 TTTAAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTATTTTATATTA
Found at i:17262784 original size:18 final size:18
Alignment explanation
Indices: 17262739--17262786 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
17262729 TGTCAAAATT
17262739 ATTAAATTTAAAAATATC
1 ATTAAATTTAAAAATATC
**
17262757 ATTTTGATTTAAAAA-AGTC
1 A-TTAAATTTAAAAATA-TC
17262776 ATTAAATTTAA
1 ATTAAATTTAA
17262787 TTTTGATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
ATTAAATTTAAAAATATC
Found at i:17268634 original size:34 final size:34
Alignment explanation
Indices: 17268557--17268634 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
17268547 TTTAGTAAGT
*
17268557 TATCAAAAATAAATTTTTAAAAACTTCTTCAATA
1 TATCAAAAATAAATTTTCAAAAACTTCTTCAATA
** ** *
17268591 TATTGAAAATGTATTTTCGAAAACTTCTT-AACTA
1 TATCAAAAATAAATTTTCAAAAACTTCTTCAA-TA
17268625 TATCAAAAAT
1 TATCAAAAAT
17268635 TCATTTTTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
33 2 0.06
34 33 0.94
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (34 bp):
TATCAAAAATAAATTTTCAAAAACTTCTTCAATA
Found at i:17270264 original size:18 final size:18
Alignment explanation
Indices: 17270241--17270275 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17270231 TAGTCTATAG
17270241 AAATCCATCCATTTGAAC
1 AAATCCATCCATTTGAAC
17270259 AAATCCATCCATTTGAA
1 AAATCCATCCATTTGAA
17270276 GAATAGACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATCCATCCATTTGAAC
Found at i:17271549 original size:4 final size:4
Alignment explanation
Indices: 17271536--17271583 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
17271526 AGTATATTAA
* *
17271536 AAAT -AAT AAAT AAAT GAAT AAAT AAGT ACAAT AAAT AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT -AAAT AAA
17271584 CATAAAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 3 0.08
4 27 0.73
5 7 0.19
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:17271568 original size:13 final size:13
Alignment explanation
Indices: 17271540--17271583 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
17271530 TATTAAAAAT
*
17271540 AATAAATAAAT-G
1 AATAAATAAATAA
* *
17271552 AATAAATAAGTAC
1 AATAAATAAATAA
17271565 AATAAATAAATAA
1 AATAAATAAATAA
17271578 AATAAA
1 AATAAA
17271584 CATAAAAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:17272957 original size:44 final size:44
Alignment explanation
Indices: 17272901--17273087 Score: 193
Period size: 44 Copynumber: 4.3 Consensus size: 44
17272891 ATACTGAGGC
* * *
17272901 AAACAAATTTAAATTAAGAAATGGGCTCTTTTATGTAAAGGCAA
1 AAACAACTTTAAATTAAGAAATGGGCTCTTCTATATAAAGGCAA
* *
17272945 AAACAACTTTAAATTAAGAAATAGGCTCTTCTATATAAAGGCTA
1 AAACAACTTTAAATTAAGAAATGGGCTCTTCTATATAAAGGCAA
* ** * * *
17272989 AAACAACTATAAATTAAGAAATGAACTAC-TCTATACATAGGC-T
1 AAACAACTTTAAATTAAGAAATGGGCT-CTTCTATATAAAGGCAA
** * *
17273032 AAACAACTTTAAATTAAGAAATGCTCTCCTT-TATATAGAGG-AT
1 AAACAACTTTAAATTAAGAAATGGGCT-CTTCTATATAAAGGCAA
17273075 AAACAACTTTAAA
1 AAACAACTTTAAA
17273088 AACTTTAATT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
43 47 0.39
44 74 0.61
45 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (44 bp):
AAACAACTTTAAATTAAGAAATGGGCTCTTCTATATAAAGGCAA
Found at i:17273820 original size:24 final size:24
Alignment explanation
Indices: 17273788--17273870 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
17273778 AATTTCAAAT
* **
17273788 ATTCTTATCCAAAAAATTTTAGGC
1 ATTCATATCCAAAAAATTTTAGAA
* *
17273812 TTTCATATCC--AAAATTTTAAAA
1 ATTCATATCCAAAAAATTTTAGAA
* *
17273834 ATTCATATTCAAAAAATTTTAGAG
1 ATTCATATCCAAAAAATTTTAGAA
*
17273858 ATTCACATCCAAA
1 ATTCATATCCAAA
17273871 GTTTCAAAGG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 17 0.37
24 29 0.63
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (24 bp):
ATTCATATCCAAAAAATTTTAGAA
Found at i:17273870 original size:92 final size:90
Alignment explanation
Indices: 17273732--17273951 Score: 227
Period size: 92 Copynumber: 2.4 Consensus size: 90
17273722 ATTCACATTG
* * * *
17273732 AAATTTTCAAAAATTCACATTAAAAGA-TTTA-ACATTTCACAACCAAAATTTCAAATATT-CTT
1 AAATTTT-AAAAATTCATATTAAAAAATTTTAGAGA-TTCACAACCAAAATTTCAAAGATTCCTT
* *
17273794 ATCCAAAAAATTT-TAGGCTTTCATATCCA
64 -TCCAAAAACTTTAT-GGCTTT-ACATCCA
* * *
17273823 AAATTTTAAAAATTCATATTCAAAAAATTTTAGAGATTCACATCCAAAGTTTCAAAGGTTCCTTT
1 AAATTTTAAAAATTCATATT-AAAAAATTTTAGAGATTCACAACCAAAATTTCAAAGATTCCTTT
*
17273888 TCAAAAACTTTATGGCTTTACATCCA
65 CCAAAAACTTTATGGCTTTACATCCA
17273914 AAATTTTAAAAATTTTCAT-TTGAAAAAATTTTAG-GATT
1 AAATTTTAAAAA--TTCATATT-AAAAAATTTTAGAGATT
17273952 TCAAAGATTC
Statistics
Matches: 111, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
90 12 0.11
91 34 0.31
92 54 0.49
93 11 0.10
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (90 bp):
AAATTTTAAAAATTCATATTAAAAAATTTTAGAGATTCACAACCAAAATTTCAAAGATTCCTTTC
CAAAAACTTTATGGCTTTACATCCA
Found at i:17273891 original size:46 final size:46
Alignment explanation
Indices: 17273722--17273948 Score: 162
Period size: 46 Copynumber: 5.0 Consensus size: 46
17273712 AAACTTAAAG
** * * * *
17273722 ATTCACATTGAAATTTTCAAAAATTCACATT-AAAAGA-TTTA-AC
1 ATTCACATCCAAAATTTCAAAAATTCATATTCAAAAAATTTTAGGC
* * * *
17273765 ATTTCACAACCAAAATTTCAAATATTCTTATCCAAAAAATTTTAGGC
1 A-TTCACATCCAAAATTTCAAAAATTCATATTCAAAAAATTTTAGGC
* * *
17273812 TTTCATATCCAAAATTTTAAAAATTCATATTCAAAAAATTTTAGAG-
1 ATTCACATCCAAAATTTCAAAAATTCATATTCAAAAAATTTTAG-GC
* ** * * *
17273858 ATTCACATCCAAAGTTTCAAAGGTTCCTTTTC-AAAAACTTTATGGC
1 ATTCACATCCAAAATTTCAAAAATTCATATTCAAAAAATTTTA-GGC
* * *
17273904 -TTTACATCCAAAATTTTAAAAATTTTCAT-TTGAAAAAATTTTAGG
1 ATTCACATCCAAAATTTCAAAAA--TTCATATTCAAAAAATTTTAGG
17273949 ATTTCAAAGA
Statistics
Matches: 140, Mismatches: 34, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
43 1 0.01
44 22 0.16
45 32 0.23
46 70 0.50
47 15 0.11
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (46 bp):
ATTCACATCCAAAATTTCAAAAATTCATATTCAAAAAATTTTAGGC
Found at i:17275310 original size:16 final size:17
Alignment explanation
Indices: 17275283--17275315 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
17275273 GCTTCTTAAA
17275283 CTTTGCCCCTAGTGTGG
1 CTTTGCCCCTAGTGTGG
17275300 CTTTG-CCCTAGTGTGG
1 CTTTGCCCCTAGTGTGG
17275316 GAGTGATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.06, C:0.27, G:0.30, T:0.36
Consensus pattern (17 bp):
CTTTGCCCCTAGTGTGG
Found at i:17279405 original size:14 final size:14
Alignment explanation
Indices: 17279386--17279412 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17279376 GTAAGGATTT
17279386 TTTATTTATTTTTA
1 TTTATTTATTTTTA
17279400 TTTATTTATTTTT
1 TTTATTTATTTTT
17279413 TAAAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTATTTTTA
Found at i:17281825 original size:31 final size:31
Alignment explanation
Indices: 17281761--17281825 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
17281751 AGTATAAAAA
**
17281761 TTTTAAAAATTCTTTTCATTTTTTTCCATCT
1 TTTTAAAAATTCTTTTCATTTTTTTAAATCT
* * *
17281792 TTTTAAAATTTCTTTT-TTTTTTTTAAATCC
1 TTTTAAAAATTCTTTTCATTTTTTTAAATCT
17281822 TTTT
1 TTTT
17281826 CTAGTTTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTAAAAATTCTTTTCATTTTTTTAAATCT
Found at i:17292687 original size:17 final size:17
Alignment explanation
Indices: 17292634--17292699 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 17
17292624 GATTATAACT
*
17292634 AATAAAATATATTAAAA
1 AATAAAATATATAAAAA
* *
17292651 AGTAAAA-A-ATAAAAT
1 AATAAAATATATAAAAA
*
17292666 TATAAAATATATAAAAA
1 AATAAAATATATAAAAA
*
17292683 AATAAAATGTA-AAAAA
1 AATAAAATATATAAAAA
17292699 A
1 A
17292700 TAGCCCCACC
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 10 0.26
16 8 0.21
17 21 0.54
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AATAAAATATATAAAAA
Found at i:17292978 original size:17 final size:17
Alignment explanation
Indices: 17292958--17292994 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17292948 CAAATTGGAT
17292958 AATATT-AAATTTATTCA
1 AATATTCAAA-TTATTCA
17292975 AATATTCAAATTATTCA
1 AATATTCAAATTATTCA
17292992 AAT
1 AAT
17292995 TATAATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATTCAAATTATTCA
Found at i:17292989 original size:9 final size:9
Alignment explanation
Indices: 17292968--17292997 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17292958 AATATTAAAT
17292968 TTATTCAAA
1 TTATTCAAA
17292977 -TATTCAAA
1 TTATTCAAA
17292985 TTATTCAAA
1 TTATTCAAA
17292994 TTAT
1 TTAT
17292998 AATTGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (9 bp):
TTATTCAAA
Found at i:17293165 original size:277 final size:275
Alignment explanation
Indices: 17292820--17293359 Score: 691
Period size: 275 Copynumber: 2.0 Consensus size: 275
17292810 TTTATGTCAT
* * * * *
17292820 ATATATATTATATATATTATAACATATATAGATATTTAATAAAGTTTGCTACATGCACGACCATG
1 ATATATATTATATATATTACAACATAAATAAATACTTAATAAAATTTGCTACATGCACGACCATG
17292885 TAGACAA-CTTTCTTAGATGATACATAGAATAGATTTTTAAAAAGTATAGT-TTTTTTGTAATTA
66 TAGACAACCTTT-TT--ATGATACATAGAATAGATTTTTAAAAAGTATA-TCTTTTTT-TAATTA
* *
17292948 CAAATTGGAT-AATATTAAATTTATTCAAATATTC-AAATTATTCAAATTATAATTGTAAATTAA
126 CAAATTGGATGAA-ATTAAATTTATTCAAATA-TCAAAATTATTCAAATTATAATAGTAAATCAA
17293011 ATCAATCCAGAGATATGTTTTTTAAAATTAAAAATCTAAAGAATATATAACAAAAATTAATTTTC
189 ATCAATCCAGAGATATGTTTTTTAAAATTAAAAATCTAAA-AATATATAACAAAAATTAATTTTC
17293076 TAATAATTCAGATTTATATAATC
253 TAATAATTCAGATTTATATAATC
* * *
17293099 ATATATA-TAT-TATATTACAACATAAATAAATACTTGATAAAATTTGCTACATAG-A-TACTTA
1 ATATATATTATATATATTACAACATAAATAAATACTTAATAAAATTTGCTACAT-GCACGAC-CA
* ** * *
17293160 TGTAGACAACGCTTTTTATGATACGTAGGCTAGATTTTTAAAGAGTATATCTTTTTTTAATTATA
64 TGTAGACAAC-CTTTTTATGATACATAGAATAGATTTTTAAAAAGTATATCTTTTTTTAATTACA
* * * *
17293225 AATTGGATGAACTTGAATTTATTCAAATATCAAAATTATTCAAATTATAATAGTAAATCGAATTA
128 AATTGGATGAAATTAAATTTATTCAAATATCAAAATTATTCAAATTATAATAGTAAATCAAATCA
* * * * * * *
17293290 ATCTAGAGATATGTTTTTTTAAATTAAAAATTTTAAAATATATGACTAAAATTAGTTTTCTAATA
193 ATCCAGAGATATGTTTTTTAAAATTAAAAATCTAAAAATATATAACAAAAATTAATTTTCTAATA
17293355 ATTCA
258 ATTCA
17293360 TATATATGTG
Statistics
Matches: 228, Mismatches: 26, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
274 33 0.14
275 93 0.41
276 38 0.17
277 47 0.21
278 6 0.03
279 11 0.05
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (275 bp):
ATATATATTATATATATTACAACATAAATAAATACTTAATAAAATTTGCTACATGCACGACCATG
TAGACAACCTTTTTATGATACATAGAATAGATTTTTAAAAAGTATATCTTTTTTTAATTACAAAT
TGGATGAAATTAAATTTATTCAAATATCAAAATTATTCAAATTATAATAGTAAATCAAATCAATC
CAGAGATATGTTTTTTAAAATTAAAAATCTAAAAATATATAACAAAAATTAATTTTCTAATAATT
CAGATTTATATAATC
Found at i:17295038 original size:9 final size:9
Alignment explanation
Indices: 17295020--17295054 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
17295010 ACCAATTACT
*
17295020 AAGAAGAAG
1 AAGAAAAAG
17295029 AAGAAAAAG
1 AAGAAAAAG
17295038 AAGAAAAAG
1 AAGAAAAAG
17295047 AA-AAAAAG
1 AAGAAAAAG
17295055 TTTTCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 6 0.24
9 19 0.76
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:17295040 original size:15 final size:15
Alignment explanation
Indices: 17295020--17295051 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17295010 ACCAATTACT
*
17295020 AAGAAGAAGAAGAAA
1 AAGAAGAAAAAGAAA
17295035 AAGAAGAAAAAGAAA
1 AAGAAGAAAAAGAAA
17295050 AA
1 AA
17295052 AAGTTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAAAGAAA
Found at i:17298071 original size:550 final size:550
Alignment explanation
Indices: 17297031--17298137 Score: 1666
Period size: 550 Copynumber: 2.0 Consensus size: 550
17297021 TTACTTTTTT
* *
17297031 AATAAATTTTAATTAATTTTAAAATTTTATTAAAAATAGCAAGTTTTAATAGATGACCAATCACA
1 AATAAATTTTAATTAATTTTAAAATTTTATTAAAAAGAGCAAATTTTAATAGATGACCAATCACA
* * * * *
17297096 CCTAGCCACAAAAGATTGGTGGTGACTCCATTTATTTGTTTTTAAATTCATCTAGCAATCTCCAA
66 CCTAACCAAAAAAGATTAGTGGTGACTCCATTCATTTGTTTTCAAATTCATCTAGCAATCTCCAA
** * *
17297161 AATTGTTACGATAGCTTGGTGACTCAATTAGGGACCATTTTAAATTTTTAAAGTAACAAGCTATC
131 AACCGTTACGATAGCTTGGTGACTCAATTAGGGACCATTTTAAAATTTTAAAATAACAAGCTATC
*
17297226 ATAACGATTTTGGGGACTGCTAGATGAATTTAAAAACAAATGAACAGAGTCACCACCAATCTTTT
196 ATAACGATTTTGGGGACCGCTAGATGAATTTAAAAACAAATGAACAGAGTCACCACCAATCTTTT
* *
17297291 TTAGTTAGGTATGATTGGCCACTTATTAAAACTTACCTTTTCAATAAAATTTTAAAATTAATGAA
261 TTAGTTAGGTATAATTGGCCACCTATTAAAACTTACCTTTTCAATAAAATTTTAAAATTAATGAA
* * * * *
17297356 AATTTATTAAAAAGGTAATTTTTAGGTTTGTAAAAAACAGTTTGGGTTCATAAGTCAGTTACCCG
326 AATTTATTAAAAAGGTAATTTTTAGGTATCTAAAAAACAATTTGAGTTCATAAGTCAGTTACCCA
* * * *
17297421 TAGGAAGGAATTAGCATCTCCACAATGCCCATTTAATATGGTACCAATTAATTATATGTTGTCTT
391 TAGGAAGGAATTAGCATCTCCACAACGCCCATTTAAAATGGTACCAATTAACTATATATTGTCTT
*
17297486 TTAATATTGACTAAAATGGTATGAATTTTAGTATTTAAAATTTACTTCCTTAATTTTCTTTGAAA
456 TTAATATTGACTAAAATGATATGAATTTTAGTATTTAAAATTTACTTCCTTAATTTTCTTTGAAA
* * ** *
17297551 ACTTATTTTTGTTTTTAAGTAGGCTTGAAA
521 ACCTATTTTTATTTTTAACCAAGCTTGAAA
* *
17297581 AATAAATTTTAATTAATTTTAAAATTTTATTAAAAAGGGTAAATTTTAATAGAT-AGCCAATCAC
1 AATAAATTTTAATTAATTTTAAAATTTTATTAAAAAGAGCAAATTTTAATAGATGA-CCAATCAC
* *
17297645 ACCTAACCAAAAAAGATTAGTGGTGACTCCATTCATTTGTTTTCAAATTCATTTAGCAGTCTCCA
65 ACCTAACCAAAAAAGATTAGTGGTGACTCCATTCATTTGTTTTCAAATTCATCTAGCAATCTCCA
* * * ** * *
17297710 AAACCGTTATGATAGCTTGGTGACTCCATTGGGGACCATTTTAAAATTTTAAAATGCCAAGTTGT
130 AAACCGTTACGATAGCTTGGTGACTCAATTAGGGACCATTTTAAAATTTTAAAATAACAAGCTAT
* * * **
17297775 CGTAACGATTTTGTGGACCGCTAGATGAATTTAAAAACAAATGAATAGAGTTGCCACCAATCTTT
195 CATAACGATTTTGGGGACCGCTAGATGAATTTAAAAACAAATGAACAGAGTCACCACCAATCTTT
* * *
17297840 TTTAGTTAGGTATAATTGGCTACCTATTAAAACTTACCTTTTTAATAAAATTTTAAAATTAATTA
260 TTTAGTTAGGTATAATTGGCCACCTATTAAAACTTACCTTTTCAATAAAATTTTAAAATTAATGA
* *
17297905 AAATTTATTAAAAAGGTAATTTTT-GG-ATCTACAAAGAATAATTTGAGTTCATGAGTCAGTTAC
325 AAATTTATTAAAAAGGTAATTTTTAGGTATCTA-AAA-AACAATTTGAGTTCATAAGTCAGTTAC
17297968 CCATAAGGAA-GAATTAGCA-CTCCCACAACGCCCATTTAAAATGGTACCAATTAACTATATATT
388 CCAT-AGGAAGGAATTAGCATCT-CCACAACGCCCATTTAAAATGGTACCAATTAACTATATATT
*
17298031 GTCTTTTAATATTGACTAAAATGATCTGAATTTTAGTATTTAAAATTTACTTCCTTAATTTTCTT
451 GTCTTTTAATATTGACTAAAATGATATGAATTTTAGTATTTAAAATTTACTTCCTTAATTTTCTT
*
17298096 TGAAAACCTATTTTTATTTTTTACCAAGCTTGAAA
516 TGAAAACCTATTTTTATTTTTAACCAAGCTTGAAA
17298131 AATAAAT
1 AATAAAT
17298138 AAGAACCTTA
Statistics
Matches: 500, Mismatches: 52, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
548 3 0.01
549 8 0.02
550 484 0.97
551 5 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (550 bp):
AATAAATTTTAATTAATTTTAAAATTTTATTAAAAAGAGCAAATTTTAATAGATGACCAATCACA
CCTAACCAAAAAAGATTAGTGGTGACTCCATTCATTTGTTTTCAAATTCATCTAGCAATCTCCAA
AACCGTTACGATAGCTTGGTGACTCAATTAGGGACCATTTTAAAATTTTAAAATAACAAGCTATC
ATAACGATTTTGGGGACCGCTAGATGAATTTAAAAACAAATGAACAGAGTCACCACCAATCTTTT
TTAGTTAGGTATAATTGGCCACCTATTAAAACTTACCTTTTCAATAAAATTTTAAAATTAATGAA
AATTTATTAAAAAGGTAATTTTTAGGTATCTAAAAAACAATTTGAGTTCATAAGTCAGTTACCCA
TAGGAAGGAATTAGCATCTCCACAACGCCCATTTAAAATGGTACCAATTAACTATATATTGTCTT
TTAATATTGACTAAAATGATATGAATTTTAGTATTTAAAATTTACTTCCTTAATTTTCTTTGAAA
ACCTATTTTTATTTTTAACCAAGCTTGAAA
Found at i:17300938 original size:117 final size:117
Alignment explanation
Indices: 17300806--17301031 Score: 285
Period size: 117 Copynumber: 1.9 Consensus size: 117
17300796 TTAAAATAAC
* * * **
17300806 AAAAATCATAAAATATTATAAAATTGAGATCT-AAAATGTTTCATGGAAATTTGAGCTCGA-AAA
1 AAAAATCATAAAATATTATAAAATTAAGATATGAAAA-GTTTCATGAAAATCAGAGCT-GAGAAA
* ** * * *
17300869 TGTCAAATTATGAAAATACCTTTATAGGGGTATTTTAGTAATTTCAAATACAAA
64 TATCAAATTACAAAAATACCCTTATAAGGATATTTTAGTAATTTCAAATACAAA
* * *
17300923 AAAAATCATGAAATATTATGAAATTAAGATATGAAAAGTTTCATGAAAATCAGAGCTTAGAAATA
1 AAAAATCATAAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAATCAGAGCTGAGAAATA
*
17300988 TCAAATTACAAAAATACCCTTATAAGGATATTTTGGTAATTTCA
66 TCAAATTACAAAAATACCCTTATAAGGATATTTTAGTAATTTCA
17301032 CACTTATTAG
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
116 1 0.01
117 87 0.95
118 4 0.04
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (117 bp):
AAAAATCATAAAATATTATAAAATTAAGATATGAAAAGTTTCATGAAAATCAGAGCTGAGAAATA
TCAAATTACAAAAATACCCTTATAAGGATATTTTAGTAATTTCAAATACAAA
Found at i:17302098 original size:22 final size:22
Alignment explanation
Indices: 17302073--17302114 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17302063 TAAAATATTT
17302073 TGCCCAAAGGTCTTAGAAATTA
1 TGCCCAAAGGTCTTAGAAATTA
** *
17302095 TGCCTGAAGGTCTTTGAAAT
1 TGCCCAAAGGTCTTAGAAAT
17302115 CTTTGAATGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (22 bp):
TGCCCAAAGGTCTTAGAAATTA
Found at i:17302491 original size:18 final size:18
Alignment explanation
Indices: 17302447--17302491 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
17302437 TCATCAAACG
*
17302447 ATGCTAATGGAAATGTCA
1 ATGCAAATGGAAATGTCA
**
17302465 ATGTGAATGGAAATGTCA
1 ATGCAAATGGAAATGTCA
17302483 ATGCAAATG
1 ATGCAAATG
17302492 TAAGAATGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (18 bp):
ATGCAAATGGAAATGTCA
Found at i:17302716 original size:41 final size:41
Alignment explanation
Indices: 17302666--17302747 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
17302656 AGGGCACATA
17302666 CAAGTGATGTAAATGCAAATGT-TTTTCTTATGATGCAGATG
1 CAAGTGATGTAAATGCAAATGTCTTTT-TTATGATGCAGATG
*
17302707 CAAGTGATGTAAATGCAAATGTCTTTTTTATGATGTAGATG
1 CAAGTGATGTAAATGCAAATGTCTTTTTTATGATGCAGATG
17302748 TGAATGCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (41 bp):
CAAGTGATGTAAATGCAAATGTCTTTTTTATGATGCAGATG
Found at i:17302748 original size:32 final size:32
Alignment explanation
Indices: 17302712--17302773 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
17302702 AGATGCAAGT
* *
17302712 GATGTAAATGCAAATGTCTTTTTTATGATGTA
1 GATGTAAATGCAAATGTCTTTCTCATGATGTA
*
17302744 GATGTGAATGCAAATGTCTTTCTCATGATG
1 GATGTAAATGCAAATGTCTTTCTCATGATG
17302774 CACATGCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (32 bp):
GATGTAAATGCAAATGTCTTTCTCATGATGTA
Found at i:17302862 original size:102 final size:101
Alignment explanation
Indices: 17302748--17303029 Score: 323
Period size: 102 Copynumber: 2.8 Consensus size: 101
17302738 GATGTAGATG
* * * *
17302748 TGAATGCAAATGTCTTTCTCATGATGCACATGCAAGTGCGAATGTAAGTGATGCAAATGCGAATG
1 TGAATGCAAATGTCTTTCTCATGATGCACATACAAGTACGAATGTAAGTGATGCAAATACAAATG
*
17302813 TCTTTTTATGATGAGGTAGATACAAGTGATGCAAATA
66 TCTTTTT-TGATGAGATAGATACAAGTGATGCAAATA
* * * * * * *
17302850 TGAATGTAAATGTCTTTTTCATGATGTATATACAAGTATGAATATGAA-TGATGCAAATAAAAAT
1 TGAATGCAAATGTCTTTCTCATGATGCACATACAAGTACGAATGT-AAGTGATGCAAATACAAAT
* * *
17302914 GTCCTTTTTTTATGATATAGATACAAGTGATGTAAATA
65 GT-CTTTTTTGATGAGATAGATACAAGTGATGCAAATA
* * * * ** *
17302952 TGAATGCAAATATTTTTCTCATGATGCACATATAAGTACAAATGCGAGTGATGCAAACACAAATG
1 TGAATGCAAATGTCTTTCTCATGATGCACATACAAGTACGAATGTAAGTGATGCAAATACAAATG
*
17303017 TCTTTTTTTATGA
66 TCTTTTTTGATGA
17303030 TGCAAATGCA
Statistics
Matches: 148, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
101 13 0.09
102 127 0.86
103 8 0.05
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (101 bp):
TGAATGCAAATGTCTTTCTCATGATGCACATACAAGTACGAATGTAAGTGATGCAAATACAAATG
TCTTTTTTGATGAGATAGATACAAGTGATGCAAATA
Found at i:17303718 original size:82 final size:83
Alignment explanation
Indices: 17303580--17303748 Score: 214
Period size: 82 Copynumber: 2.0 Consensus size: 83
17303570 CTCTTGTAAA
* * * * ** **
17303580 TTGATGATTACTATTTGGAATGCTTATAGATGGCATGATTGGCAATTCAATTTTTTCA-TGGTGG
1 TTGATAATTACTATTTGGAATACTTATAGATGGAATGATTGACAATTCAAAATTTTCACTAATGG
17303644 GCATATTTCAAAAAAGGC
66 GCATATTTCAAAAAAGGC
* * * * *
17303662 TTGATAATTATTATTTGGAATATTTGTGGATGGAATGATTGATAATTCAAAATTTTCACTAATGG
1 TTGATAATTACTATTTGGAATACTTATAGATGGAATGATTGACAATTCAAAATTTTCACTAATGG
17303727 GCATATTTCAAAAAAGGC
66 GCATATTTCAAAAAAGGC
17303745 TTGA
1 TTGA
17303749 CAAGGGTTGC
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
82 47 0.64
83 26 0.36
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (83 bp):
TTGATAATTACTATTTGGAATACTTATAGATGGAATGATTGACAATTCAAAATTTTCACTAATGG
GCATATTTCAAAAAAGGC
Found at i:17304627 original size:26 final size:26
Alignment explanation
Indices: 17304598--17304654 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17304588 CACCTATTCA
* *
17304598 TTTTTCTTTTCCCTTCATTTATTC-TT
1 TTTTTCCTTTCACTTCATTTA-TCATT
*
17304624 TTTTTCCTTTCATTTCATTTATCATT
1 TTTTTCCTTTCACTTCATTTATCATT
17304650 TTTTT
1 TTTTT
17304655 TAGCTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTCCTTTCACTTCATTTATCATT
Found at i:17310414 original size:13 final size:13
Alignment explanation
Indices: 17310398--17310422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17310388 TTTTTGAAAA
17310398 TTTTTTATTGTTT
1 TTTTTTATTGTTT
17310411 TTTTTTATTGTT
1 TTTTTTATTGTT
17310423 GGATAATGCT
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:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTTTTATTGTTT
Found at i:17314569 original size:144 final size:144
Alignment explanation
Indices: 17314260--17314669 Score: 456
Period size: 144 Copynumber: 2.8 Consensus size: 144
17314250 TTATTTTTGG
* * * * *
17314260 GATTTTAAA-ACACTAAAAATCATGAAATTTTATAAAATTGAGATTTGAAAAGTTTGATGAAAAT
1 GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
* * * * * * *
17314324 TTGAGCACAAAAAAGTTAAATAACGAAAATA-CCCCTATAGGAGTATTTTAGTAATTTCACATTT
66 TTGAGCTC-GAAAAGTTAAATTACGAAAATATCTCTTATAGG-GGATTTTGGTAATTTCACATTT
* * *
17314388 TGTAGGGTACTATTAT
129 TGCAAGGTACTACTAT
* *
17314404 GATTTCAAATACACCAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTTTATGAAAAT
1 GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
* * *
17314469 CT-AGCTCTGAAAGGTTAAATTACGAAAATATCTCTTATAGGGGATTTTGGTAATTTCATACTTT
66 TTGAGCTC-GAAAAGTTAAATTACGAAAATATCTCTTATAGGGGATTTTGGTAATTTCACA-TTT
* *
17314533 T-CAAGTTA-TAGCTGT
129 TGCAAGGTACTA-CTAT
* *
17314548 GATTTCAAATGC-CCAAAAAATCATGAAATATTATAAAATTAAAATTTG-AAAGTTTCATGAAAA
1 GATTTCAAATACACC-AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAA
* * *
17314611 TTTGAGCTCGAAAATGTTAAATTACAAAAATATCTTTTATAGGGGTATTTTGATAATTT
65 TTTGAGCTCGAAAA-GTTAAATTACGAAAATATCTCTTATAGGGG-ATTTTGGTAATTT
17314670 TGTATTTCCT
Statistics
Matches: 227, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
143 24 0.11
144 128 0.56
145 75 0.33
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (144 bp):
GATTTCAAATACACCAAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAAT
TTGAGCTCGAAAAGTTAAATTACGAAAATATCTCTTATAGGGGATTTTGGTAATTTCACATTTTG
CAAGGTACTACTAT
Found at i:17314800 original size:21 final size:23
Alignment explanation
Indices: 17314776--17314820 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
17314766 TTAACCCTAG
*
17314776 TTTTAT-TTATTTCAACCA-AGT
1 TTTTATATAATTTCAACCAGAGT
*
17314797 TTTTATATAATTTTAACCAGAGT
1 TTTTATATAATTTCAACCAGAGT
17314820 T
1 T
17314821 GACTTTGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 10 0.50
23 4 0.20
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (23 bp):
TTTTATATAATTTCAACCAGAGT
Found at i:17315210 original size:55 final size:56
Alignment explanation
Indices: 17315151--17315268 Score: 204
Period size: 56 Copynumber: 2.1 Consensus size: 56
17315141 CAAACTACAT
17315151 ATATATAATTTAAATATATAT-TTTTATCTTTTAAAATTAATTTTCTAATAA-TTAG
1 ATATATAATTTAAATATATATCTTTTATCTTTTAAAATTAATTTT-TAATAATTTAG
*
17315206 ATATATAATTTAAATATATATCTTTTATCTTTTAAAATTAATTTTTTATAATTTAG
1 ATATATAATTTAAATATATATCTTTTATCTTTTAAAATTAATTTTTAATAATTTAG
17315262 ATATATA
1 ATATATA
17315269 TCTTTTTAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
55 26 0.43
56 34 0.57
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (56 bp):
ATATATAATTTAAATATATATCTTTTATCTTTTAAAATTAATTTTTAATAATTTAG
Found at i:17315260 original size:21 final size:22
Alignment explanation
Indices: 17315209--17315289 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 22
17315199 TAATTAGATA
*
17315209 TATAATTTAAATATATATCTTT
1 TATAATTTAAATATATATTTTT
**
17315231 TATCTTTTAAA-AT-TAATTTTT
1 TATAATTTAAATATAT-ATTTTT
*
17315252 TATAATTTAGATATATATCTTTT
1 TATAATTTAAATATATAT-TTTT
*
17315275 TA-AATTTAAAAATAT
1 TATAATTTAAATATAT
17315290 CAAATTTAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 24 0.51
23 7 0.15
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (22 bp):
TATAATTTAAATATATATTTTT
Found at i:17316678 original size:3 final size:3
Alignment explanation
Indices: 17316670--17316697 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17316660 ACAATGTCTT
17316670 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17316698 GATATACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17323208 original size:26 final size:26
Alignment explanation
Indices: 17323169--17323220 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
17323159 CCTAAACCAG
17323169 AAAAACCAATAACAAAAAAATGAAAAA
1 AAAAACCAATAACAAAAAAAT-AAAAA
17323196 AAAAACCAA-AACAAAAAAATAAAAA
1 AAAAACCAATAACAAAAAAATAAAAA
17323221 GATCGTAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 5 0.20
26 11 0.44
27 9 0.36
ACGTcount: A:0.81, C:0.12, G:0.02, T:0.06
Consensus pattern (26 bp):
AAAAACCAATAACAAAAAAATAAAAA
Found at i:17324008 original size:15 final size:17
Alignment explanation
Indices: 17323966--17324063 Score: 60
Period size: 18 Copynumber: 5.6 Consensus size: 17
17323956 CTTTTGTTCT
17323966 TGATACATTTGAGGTAGA
1 TGATACATTTGAGG-AGA
* *
17323984 AGATATATTTGA-G-GA
1 TGATACATTTGAGGAGA
*
17323999 TGATACATTTTTAGTGAG-
1 TGATACA-TTTGAG-GAGA
* *
17324017 GGATACATTT-ATGGTAAA
1 TGATACATTTGA-GG-AGA
17324035 TGATACATTTGAGGTAGA
1 TGATACATTTGAGG-AGA
*
17324053 AGATACATTTG
1 TGATACATTTG
17324064 TAGTGGATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
15 7 0.11
16 6 0.10
17 6 0.10
18 41 0.66
19 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (17 bp):
TGATACATTTGAGGAGA
Found at i:17329898 original size:16 final size:16
Alignment explanation
Indices: 17329877--17329911 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
17329867 ATACAAGGTC
*
17329877 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
17329893 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
17329909 ATA
1 ATA
17329912 TGTTATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:17335470 original size:29 final size:28
Alignment explanation
Indices: 17335403--17335482 Score: 67
Period size: 29 Copynumber: 2.9 Consensus size: 28
17335393 TGACAACAAT
* *
17335403 ATAAATACCAAAAT-AATAA-AAAAATTA
1 ATAAATAACAAAATCAA-AATATAAATTA
* **
17335430 TTAAATTTCAAATAT-AAAATTATAAATTA
1 ATAAATAACAAA-ATCAAAA-TATAAATTA
17335459 ATAAATAACAAAATCAAAATATAA
1 ATAAATAACAAAATCAAAATATAA
17335483 TATTTAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
27 11 0.26
28 11 0.26
29 20 0.48
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (28 bp):
ATAAATAACAAAATCAAAATATAAATTA
Found at i:17335942 original size:17 final size:18
Alignment explanation
Indices: 17335917--17335950 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17335907 CTTATTTAAG
17335917 TTTTCTTCTTC-TCTTTT
1 TTTTCTTCTTCATCTTTT
*
17335934 TTTTTTTCTTCATCTTT
1 TTTTCTTCTTCATCTTT
17335951 CTCTCTCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTTCTTCATCTTTT
Found at i:17337930 original size:13 final size:13
Alignment explanation
Indices: 17337912--17338003 Score: 67
Period size: 13 Copynumber: 6.9 Consensus size: 13
17337902 CGTAAATTAA
*
17337912 TGAAACTCTAAAG
1 TGAAACCCTAAAG
*
17337925 TGAAACCCTAAAAAA
1 TGAAACCCT--AAAG
* * *
17337940 TAAAACCCCAAAA
1 TGAAACCCTAAAG
* * *
17337953 TAAAATCCTAAAA
1 TGAAACCCTAAAG
*
17337966 TAAAACCCTAAAG
1 TGAAACCCTAAAG
*
17337979 TGAAACCCTAAAA
1 TGAAACCCTAAAG
*
17337992 TGAAACCTTAAA
1 TGAAACCCTAAA
17338004 TTTTAGGTGA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
13 56 0.85
15 10 0.15
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (13 bp):
TGAAACCCTAAAG
Found at i:17338003 original size:26 final size:26
Alignment explanation
Indices: 17337914--17338003 Score: 99
Period size: 26 Copynumber: 3.4 Consensus size: 26
17337904 TAAATTAATG
*
17337914 AAACTCTAAAGTGAAACCCTAAAAAATA
1 AAACCCTAAAGTGAAACCCT--AAAATA
* * * *
17337942 AAACCCCAAAATAAAATCCTAAAATA
1 AAACCCTAAAGTGAAACCCTAAAATA
*
17337968 AAACCCTAAAGTGAAACCCTAAAATG
1 AAACCCTAAAGTGAAACCCTAAAATA
*
17337994 AAACCTTAAA
1 AAACCCTAAA
17338004 TTTTAGGTGA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 36 0.71
28 15 0.29
ACGTcount: A:0.57, C:0.21, G:0.06, T:0.17
Consensus pattern (26 bp):
AAACCCTAAAGTGAAACCCTAAAATA
Found at i:17338029 original size:19 final size:19
Alignment explanation
Indices: 17337992--17338030 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17337982 AACCCTAAAA
***
17337992 TGAAACCTTAAATTTTAGG
1 TGAAACCTTAAACCCTAGG
17338011 TGAAACCTTAAACCCTAGG
1 TGAAACCTTAAACCCTAGG
17338030 T
1 T
17338031 AAATTCTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (19 bp):
TGAAACCTTAAACCCTAGG
Found at i:17338551 original size:19 final size:18
Alignment explanation
Indices: 17338505--17338552 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
17338495 CATATATATA
*
17338505 TATATATATTTATTTTAAT
1 TATA-ATATTTATGTTAAT
*
17338524 TATTGATATTTAATGTTAAT
1 TA-TAATATTT-ATGTTAAT
17338544 TATAATATT
1 TATAATATT
17338553 CTTCATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
TATAATATTTATGTTAAT
Found at i:17340094 original size:15 final size:14
Alignment explanation
Indices: 17340075--17340109 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
17340065 AGTCCAAATA
17340075 AAAAAAAGGAAAAAG
1 AAAAAAA-GAAAAAG
17340090 TAAAAAAAGAAAAAG
1 -AAAAAAAGAAAAAG
17340105 AAAAA
1 AAAAA
17340110 GAGATTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 7 0.37
16 7 0.37
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:17342545 original size:15 final size:15
Alignment explanation
Indices: 17342512--17342559 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
17342502 TAATAAATTA
* * *
17342512 TTATTATTATTACTG
1 TTATTATTTTTATTT
17342527 TTATTATTTTTATTT
1 TTATTATTTTTATTT
*
17342542 TTATTTTTTTTTATTT
1 TTA-TTATTTTTATTT
17342558 TT
1 TT
17342560 TTGGTTCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (15 bp):
TTATTATTTTTATTT
Found at i:17342571 original size:22 final size:22
Alignment explanation
Indices: 17342546--17342594 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
17342536 TTATTTTTAT
* *
17342546 TTTTTTTTATTTTTTTGGTTCC
1 TTTTTTTTATTTTCTTCGTTCC
* * *
17342568 TTTTCTTTCTTTTCTTCTTTCC
1 TTTTTTTTATTTTCTTCGTTCC
17342590 TTTTT
1 TTTTT
17342595 GTATCCAATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTTTTATTTTCTTCGTTCC
Found at i:17343062 original size:31 final size:30
Alignment explanation
Indices: 17343027--17343098 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
17343017 AGGAAGAATT
*
17343027 TTGAATTTTCTGGTGAAATTTT-TCGGCAAGG
1 TTGAATTTTCT-GTGAAGTTTTCT-GGCAAGG
**
17343058 TTGAATTTTTCTGTGAAGTTTTCTGGTGAGG
1 TTGAA-TTTTCTGTGAAGTTTTCTGGCAAGG
17343089 TTGAATTTTC
1 TTGAATTTTC
17343099 CAGTAGAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 5 0.14
31 24 0.67
32 7 0.19
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.47
Consensus pattern (30 bp):
TTGAATTTTCTGTGAAGTTTTCTGGCAAGG
Found at i:17343186 original size:51 final size:52
Alignment explanation
Indices: 17343114--17343213 Score: 132
Period size: 51 Copynumber: 1.9 Consensus size: 52
17343104 GAGTTCCGAT
* * *
17343114 AAGTTTTCCAAAAATTGGTGGG-TGTTCCAATTTTCAATTGAAATTTTTGACG
1 AAGTTTTCCAAAAACTAGTGGGAT-CTCCAATTTTCAATTGAAATTTTTGACG
* *
17343166 AAGTTTT-CAAAAACTAGTGGGATCTCCAATTTTCGATTGAACTTTTTG
1 AAGTTTTCCAAAAACTAGTGGGATCTCCAATTTTCAATTGAAATTTTTG
17343214 GCATTGTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 34 0.81
52 8 0.19
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (52 bp):
AAGTTTTCCAAAAACTAGTGGGATCTCCAATTTTCAATTGAAATTTTTGACG
Found at i:17343774 original size:214 final size:216
Alignment explanation
Indices: 17343244--17343886 Score: 1200
Period size: 214 Copynumber: 3.0 Consensus size: 216
17343234 GAGAGAAGGT
* *
17343244 AGAGGCTATCTTAGGTTCTAGAGCGAGAGGCTCGAGTGATTTTGAAGAAAACACTGAAGCTTTAG
1 AGAGGCTATCTTAGGTTATAGAGAGAGAGGCTCGAGTGATTTTGAAGAAAACACTGAAGCTTTAG
* *
17343309 CTTTTATACTACTACCGAATGACTTTGTTTTGGACAATCCAGGGTCTGCACGTAAACCCAATGAC
66 CTTTTATACTACTACCGAATGACTTTGTTTTGGACAACCCAGGGTCTGCGCGTAAACCCAATGAC
17343374 CAATATGTTGACCGTGTTTCAACCTGACCCGATCATAGGTTTTTCTTTTTCCATTTTATTTTTAT
131 CAATATGTTGACCGTGTTTCAACCTGACCCGATCATAGGTTTTTCTTTTTCCATTTTATTTTTAT
17343439 TTTTTTAATTTGATTTGAGGC
196 TTTTTTAATTTGATTTGAGGC
*
17343460 AGAGGCTATCTTAGGTTATAGAGAGAGAGGCTCGAGTGATTTTGAGGAAAACACTGAAGCTTTAG
1 AGAGGCTATCTTAGGTTATAGAGAGAGAGGCTCGAGTGATTTTGAAGAAAACACTGAAGCTTTAG
17343525 CTTTTATACTACTACCGAATGACTTTGTTTTGGACAACCCAGGGTCTGCGCGTAAACCCAATGAC
66 CTTTTATACTACTACCGAATGACTTTGTTTTGGACAACCCAGGGTCTGCGCGTAAACCCAATGAC
*
17343590 CAATATGTTGACCGTGTTTCCACCTGACCCGATCATAGGTTTTT-TTTTT-CATTTTATTTTTAT
131 CAATATGTTGACCGTGTTTCAACCTGACCCGATCATAGGTTTTTCTTTTTCCATTTTATTTTTAT
17343653 TTTTTTAATTTGATTTGAGGC
196 TTTTTTAATTTGATTTGAGGC
*
17343674 AGAGGCTATCTTAGGTTATAGAGAGAGAGGCTCGAGTGATTTTGAAGAAAACACTAAAGCTTTAG
1 AGAGGCTATCTTAGGTTATAGAGAGAGAGGCTCGAGTGATTTTGAAGAAAACACTGAAGCTTTAG
*
17343739 CTTTTATACTACTACCGAATGACTTGGTTTTGGACAACCCAGGGTCTGCGCGTAAACCCAATGAC
66 CTTTTATACTACTACCGAATGACTTTGTTTTGGACAACCCAGGGTCTGCGCGTAAACCCAATGAC
17343804 CAATATGTTGACCGTGTTTCAACCTGACCCGATCATAGGTTTTTCTTTTTCCATTTTATTTTTAT
131 CAATATGTTGACCGTGTTTCAACCTGACCCGATCATAGGTTTTTCTTTTTCCATTTTATTTTTAT
17343869 TTTTTTAATTTGATTTGA
196 TTTTTTAATTTGATTTGA
17343887 TTTTATTTTA
Statistics
Matches: 415, Mismatches: 10, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
214 205 0.49
215 10 0.02
216 200 0.48
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (216 bp):
AGAGGCTATCTTAGGTTATAGAGAGAGAGGCTCGAGTGATTTTGAAGAAAACACTGAAGCTTTAG
CTTTTATACTACTACCGAATGACTTTGTTTTGGACAACCCAGGGTCTGCGCGTAAACCCAATGAC
CAATATGTTGACCGTGTTTCAACCTGACCCGATCATAGGTTTTTCTTTTTCCATTTTATTTTTAT
TTTTTTAATTTGATTTGAGGC
Found at i:17344035 original size:19 final size:20
Alignment explanation
Indices: 17344011--17344048 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17344001 AATTTTTTTT
*
17344011 AAAAAAAA-TCTTTTCAAAC
1 AAAAAAAATTCTTTCCAAAC
17344030 AAAAAAAATTCTTTCCAAA
1 AAAAAAAATTCTTTCCAAA
17344049 TAAAGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAAAATTCTTTCCAAAC
Found at i:17344085 original size:12 final size:11
Alignment explanation
Indices: 17344059--17344084 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17344049 TAAAGTTTTC
17344059 AAAATAACAAA
1 AAAATAACAAA
17344070 AAAATAACAAA
1 AAAATAACAAA
17344081 AAAA
1 AAAA
17344085 ACCTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATAACAAA
Found at i:17355404 original size:115 final size:113
Alignment explanation
Indices: 17355169--17355717 Score: 409
Period size: 115 Copynumber: 4.8 Consensus size: 113
17355159 CATCATTCAT
* * * *
17355169 TTAATC-TAGGCTCAATCCAGATCATTTCAT-TTGATTCATGGTTTCATCCCCG-TCACTTTTT-
1 TTAATCTTA-GCTCAGTCCAAATCATTTC-TCATGATTCATGGTTTCAT-CTCGATCA-TTTTTG
** * * * ** *
17355230 ACCTTGACTTG-TCTTAGTTGCTTCATTTTGATTCATGGTTTCATCCCGGTCAC
62 ACCTCAACTCGATCTT-GGT-CTTCATTTTGACTCATGGTTTCATTTCGATCAC
* * * *
17355283 TTGATCTTGGCTCAGTCCAAATCATATCTCATGATTCATGGTTTCATCTCGATCATTTTTAACCT
1 TTAATCTTAGCTCAGTCCAAATCATTTCTCATGATTCATGGTTTCATCTCGATCATTTTTGACCT
* * * * *
17355348 CGACTCGATCTTGGTCAATTCATTTTAAATCATGGTTTCATTTTGATCGC
66 CAACTCGATCTTGGTC--TTCATTTTGACTCATGGTTTCATTTCGATCAC
* * * * * * ** *
17355398 TTGATCTTGGCCCAGTCCAGATCATTTCTCATGATTTATGGTTTTATCTC-AGTCATCCTCGACC
1 TTAATCTTAGCTCAGTCCAAATCATTTCTCATGATTCATGGTTTCATCTCGA-TCATTTTTGACC
* * *
17355462 TCGACTCGATCCTGGTCGCTTTATTTTGACTCATGGTTTCATTTCGATCAC
65 TCAACTCGATCTTGGT--CTTCATTTTGACTCATGGTTTCATTTCGATCAC
* * ** * * *
17355513 TTAATCTTAGCTTAGTCTAGGTCATTTCTCATGATTCGTTGTTTCATCCTCG-TCATTTTTGACA
1 TTAATCTTAGCTCAGTCCAAATCATTTCTCATGATTCATGGTTTCAT-CTCGATCATTTTTGACC
* * * **
17355577 TTAACTCGATCTT--T-GTCATTTTGACTCGTGGTTTCATACCGATCAC
65 TCAACTCGATCTTGGTCTTCATTTTGACTCATGGTTTCATTTCGATCAC
* * * * * *
17355623 TTAATCTTAGCTCAGTTCAAATCA-TTCCCTATGATTCATGATTTCATCTAGTTCATTTTTTACC
1 TTAATCTTAGCTCAGTCCAAATCATTTCTC-ATGATTCATGGTTTCATCTCGATCATTTTTGACC
* *
17355687 TCAACTCGATCTTAGTCGCTTTATTTTGACT
65 TCAACTCGATCTTGGT--CTTCATTTTGACT
17355718 TGTGGTTTTA
Statistics
Matches: 347, Mismatches: 69, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
109 7 0.02
110 82 0.24
112 1 0.00
113 11 0.03
114 52 0.15
115 190 0.55
116 3 0.01
117 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (113 bp):
TTAATCTTAGCTCAGTCCAAATCATTTCTCATGATTCATGGTTTCATCTCGATCATTTTTGACCT
CAACTCGATCTTGGTCTTCATTTTGACTCATGGTTTCATTTCGATCAC
Found at i:17355908 original size:26 final size:25
Alignment explanation
Indices: 17355871--17355945 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
17355861 GCTATAGACA
*
17355871 CCCATTTGTGTCTAGGTCCAATTTGG
1 CCCA-TTGTGTCTAGGCCCAATTTGG
17355897 CCCATTGATGTCTAGGCCCAATTTGG
1 CCCATTG-TGTCTAGGCCCAATTTGG
* * *
17355923 TCCATTTGTGTCCAGGCCTAATT
1 CCCA-TTGTGTCTAGGCCCAATT
17355946 AGGCTCATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.07
26 37 0.86
27 3 0.07
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
CCCATTGTGTCTAGGCCCAATTTGG
Found at i:17356074 original size:10 final size:10
Alignment explanation
Indices: 17356059--17356095 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
17356049 TTATTATATA
17356059 ATTTTTTTTC
1 ATTTTTTTTC
17356069 A-TTTTTTTC
1 ATTTTTTTTC
17356078 ATTTTTTTTC
1 ATTTTTTTTC
17356088 ATTTTTTT
1 ATTTTTTT
17356096 AATCCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (10 bp):
ATTTTTTTTC
Found at i:17356075 original size:9 final size:9
Alignment explanation
Indices: 17356061--17356095 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
17356051 ATTATATAAT
17356061 TTTTTTTCA
1 TTTTTTTCA
17356070 TTTTTTTCA
1 TTTTTTTCA
17356079 TTTTTTTTCA
1 -TTTTTTTCA
17356089 TTTTTTT
1 TTTTTTT
17356096 AATCCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:17356083 original size:19 final size:19
Alignment explanation
Indices: 17356059--17356095 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17356049 TTATTATATA
17356059 ATTTTTTTTCATTTTTTTC
1 ATTTTTTTTCATTTTTTTC
17356078 ATTTTTTTTCATTTTTTT
1 ATTTTTTTTCATTTTTTT
17356096 AATCCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (19 bp):
ATTTTTTTTCATTTTTTTC
Found at i:17356935 original size:19 final size:19
Alignment explanation
Indices: 17356911--17356966 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
17356901 TGATCACAAG
17356911 TTTTTATTTTTTCATTTTA
1 TTTTTATTTTTTCATTTTA
*
17356930 TTTTTATTTTTTGA-TTTA
1 TTTTTATTTTTTCATTTTA
* * *
17356948 ATTTAATTTTTTTATTTTA
1 TTTTTATTTTTTCATTTTA
17356967 ACCCATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTTTCATTTTA
Found at i:17356947 original size:18 final size:18
Alignment explanation
Indices: 17356911--17356964 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
17356901 TGATCACAAG
17356911 TTTTTATTTTTTCATTTTA
1 TTTTTATTTTTTCA-TTTA
*
17356930 TTTTTATTTTTTGATTTA
1 TTTTTATTTTTTCATTTA
* * *
17356948 ATTTAATTTTTTTATTT
1 TTTTTATTTTTTCATTT
17356965 TAACCCATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTCATTTA
Found at i:17357004 original size:24 final size:24
Alignment explanation
Indices: 17356977--17357023 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17356967 ACCCATTTTA
*
17356977 TTTTATATCTTTTTT-AAATTATTT
1 TTTTAGAT-TTTTTTAAAATTATTT
*
17357001 TTTTAGCTTTTTTTAAAATTATT
1 TTTTAGATTTTTTTAAAATTATT
17357024 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTAGATTTTTTTAAAATTATTT
Found at i:17358592 original size:8 final size:8
Alignment explanation
Indices: 17358581--17358615 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
17358571 AAAAGTGAAA
17358581 AAAAAAAG
1 AAAAAAAG
*
17358589 AAAAAAGG
1 AAAAAAAG
17358597 AAAAAAAG
1 AAAAAAAG
*
17358605 AGAAAAAG
1 AAAAAAAG
17358613 AAA
1 AAA
17358616 GTTTTGTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:17359312 original size:10 final size:10
Alignment explanation
Indices: 17359293--17359334 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
17359283 GGCATTTTAG
17359293 GAAAAA-AAA
1 GAAAAATAAA
17359302 GAAAAATAAA
1 GAAAAATAAA
17359312 GAAAAATAAA
1 GAAAAATAAA
*
17359322 -AAAGATAAA
1 GAAAAATAAA
17359331 -AAAA
1 GAAAA
17359335 TGGTTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 17 0.57
10 13 0.43
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (10 bp):
GAAAAATAAA
Found at i:17359827 original size:9 final size:9
Alignment explanation
Indices: 17359813--17359842 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17359803 GTGAAGAGAA
17359813 AAAAAAAAC
1 AAAAAAAAC
17359822 AAAAAAAAC
1 AAAAAAAAC
17359831 AAAAAAAA-
1 AAAAAAAAC
17359839 AAAA
1 AAAA
17359843 CAAAGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:17359827 original size:13 final size:13
Alignment explanation
Indices: 17359811--17359846 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
17359801 AGGTGAAGAG
*
17359811 AAAAAAA-AAACA
1 AAAAAAACAAAAA
17359823 AAAAAAACAAAAA
1 AAAAAAACAAAAA
17359836 AAAAAAACAAA
1 AAAAAAACAAA
17359847 GTGAAAGAAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAA
Found at i:17359870 original size:16 final size:16
Alignment explanation
Indices: 17359849--17359895 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
17359839 AAAACAAAGT
*
17359849 GAAAGAAATAAGAAAA
1 GAAAGAAAAAAGAAAA
*
17359865 GAAAGAAAAAAGGAAA
1 GAAAGAAAAAAGAAAA
*
17359881 -AATGAAAAAAGAAAA
1 GAAAGAAAAAAGAAAA
17359896 TAAGAGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (16 bp):
GAAAGAAAAAAGAAAA
Found at i:17359882 original size:8 final size:7
Alignment explanation
Indices: 17359809--17359900 Score: 55
Period size: 7 Copynumber: 12.4 Consensus size: 7
17359799 AAAGGTGAAG
17359809 AGAAAAA
1 AGAAAAA
17359816 A-AAAACA
1 AGAAAA-A
17359823 A-AAAAA
1 AGAAAAA
*
17359829 ACAAAAA
1 AGAAAAA
17359836 A-AAAAA
1 AGAAAAA
*
17359842 ACAAAGTGAA
1 AGAAA---AA
*
17359852 AGAAATA
1 AGAAAAA
17359859 AGAAAAGAA
1 AG-AAA-AA
17359868 AGAAAAA
1 AGAAAAA
17359875 AGGAAAAA
1 A-GAAAAA
*
17359883 TGAAAAA
1 AGAAAAA
17359890 AGAAAATA
1 AGAAAA-A
17359898 AGA
1 AGA
17359901 GAAATGAATG
Statistics
Matches: 70, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
6 12 0.17
7 33 0.47
8 16 0.23
9 3 0.04
10 6 0.09
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.04
Consensus pattern (7 bp):
AGAAAAA
Found at i:17359894 original size:22 final size:22
Alignment explanation
Indices: 17359866--17359908 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17359856 ATAAGAAAAG
17359866 AAAGAAAA-AAGGAAAAATGAAA
1 AAAGAAAATAA-GAAAAATGAAA
*
17359888 AAAGAAAATAAGAGAAATGAA
1 AAAGAAAATAAGAAAAATGAA
17359909 TGGATGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (22 bp):
AAAGAAAATAAGAAAAATGAAA
Found at i:17360989 original size:23 final size:22
Alignment explanation
Indices: 17360970--17361026 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
17360960 AAATAAAAAT
*
17360970 TAAAATTAAAA-CGAATTAAAAA
1 TAAAA-TAAAATCAAATTAAAAA
*
17360992 TAAAATAAAATCAAATCAAAAAA
1 TAAAATAAAATCAAAT-TAAAAA
17361015 TAAAAATAAAAT
1 T-AAAATAAAAT
17361027 AAAAAGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 9 0.30
23 6 0.20
24 10 0.33
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (22 bp):
TAAAATAAAATCAAATTAAAAA
Found at i:17361030 original size:18 final size:18
Alignment explanation
Indices: 17360993--17361031 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17360983 AATTAAAAAT
*
17360993 AAAATAAAATCAAATCAA
1 AAAATAAAATAAAATCAA
17361011 AAAATAAAAATAAAAT-AA
1 AAAAT-AAAATAAAATCAA
17361029 AAA
1 AAA
17361032 GGAAAACCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATAAAATAAAATCAA
Found at i:17361875 original size:3 final size:3
Alignment explanation
Indices: 17361867--17361896 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17361857 AGGAAAGTAC
17361867 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17361897 GTACTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17362386 original size:119 final size:120
Alignment explanation
Indices: 17362160--17362496 Score: 435
Period size: 119 Copynumber: 2.8 Consensus size: 120
17362150 GAGTTGAAAA
* * * *
17362160 TGAGAATAAATAA-CTAGGATGAAACCACGAGTCATAAGAAGTAATTTAGATTGAGCTAAGATCA
1 TGAGAATAAATAATCGA-GATGAAACCACGAGTCATAAGAAATGATTTAGATTGAGCCAAGATCA
* * * * * *
17362224 GGTGATCGGGATGAAACCATAAGTCAAAACTGAAGCGATTAGGACCAAGTTAAGGT
65 GGTGATCGAGATGAAACCATGAGTCAAAAATGAAACGACTAGGACCAAGTAAAGGT
* * * *
17362280 TGAGAATAAATAATCGAGATGAAACCACAAGTCATAA-AAATGATTTGGACTGAGCCAAGATCAA
1 TGAGAATAAATAATCGAGATGAAACCACGAGTCATAAGAAATGATTTAGATTGAGCCAAGATCAG
* * *
17362344 GTGATCGAGATGAAACCATGTGTCAAAAATGAAATGACTAGGATCAAGTAAAGGT
66 GTGATCGAGATGAAACCATGAGTCAAAAATGAAACGACTAGGACCAAGTAAAGGT
* * * *
17362399 TGAAAATAAATAATCGAGATAAAACCATGAGTCATAAGAAATGATCTAGATTGAGCCAAGATCAG
1 TGAGAATAAATAATCGAGATGAAACCACGAGTCATAAGAAATGATTTAGATTGAGCCAAGATCAG
* * *
17362464 GTGACCAAGATGAAACCATGAGTAAAAAATGAA
66 GTGATCGAGATGAAACCATGAGTCAAAAATGAA
17362497 GTGAGAGTTT
Statistics
Matches: 186, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
119 100 0.54
120 84 0.45
121 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (120 bp):
TGAGAATAAATAATCGAGATGAAACCACGAGTCATAAGAAATGATTTAGATTGAGCCAAGATCAG
GTGATCGAGATGAAACCATGAGTCAAAAATGAAACGACTAGGACCAAGTAAAGGT
Found at i:17362537 original size:112 final size:117
Alignment explanation
Indices: 17362164--17362573 Score: 348
Period size: 119 Copynumber: 3.5 Consensus size: 117
17362154 TGAAAATGAG
* * * * * * * * *
17362164 AATAAATAA-CTAGGATGAAACCACGAGTCATAAGAAGTAATTTAGATTGAGCTAAGATCAGGTG
1 AATAAATAATCGA-GATAAAACCATGAGTCATAAGAAATGATTTGGACTGAGCCAAGATCAAGTG
* ** * * * ** * ** *
17362228 ATCGGGATGAAACCATAAGTCAAAACTGAAGCGATTAGGACCAAGTTAAGGTTGAG
65 ACCAAGATGAAACCATGAGTAAAAAATGAAATGA-TA-GA-CAAGTAAAGGTAAAA
* **
17362284 AATAAATAATCGAGATGAAACCACAAGTCATAA-AAATGATTTGGACTGAGCCAAGATCAAGTGA
1 AATAAATAATCGAGATAAAACCATGAGTCATAAGAAATGATTTGGACTGAGCCAAGATCAAGTGA
* * * * **
17362348 TCGAGATGAAACCATGTGTCAAAAATGAAATGACTAGGATCAAGTAAAGGTTGAA
66 CCAAGATGAAACCATGAGTAAAAAATGAAATGA-TA-GA-CAAGTAAAGGTAAAA
* * * *
17362403 AATAAATAATCGAGATAAAACCATGAGTCATAAGAAATGATCTAGATTGAGCCAAGATCAGGTGA
1 AATAAATAATCGAGATAAAACCATGAGTCATAAGAAATGATTTGGACTGAGCCAAGATCAAGTGA
* **
17362468 CCAAGATGAAACCATGAGTAAAAAATG-AA-G-T-GA-GAGTTTAGGTAAAA
66 CCAAGATGAAACCATGAGTAAAAAATGAAATGATAGACAAGTAAAGGTAAAA
* * *
17362515 AATAAATAATCGGGATAAAACCATGAATCATATGAAATGATTTGGACTGAGCCAAGATC
1 AATAAATAATCGAGATAAAACCATGAGTCATAAGAAATGATTTGGACTGAGCCAAGATC
17362574 GGGTAAGTGA
Statistics
Matches: 248, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
112 62 0.25
114 2 0.01
116 1 0.00
118 1 0.00
119 102 0.41
120 78 0.31
121 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (117 bp):
AATAAATAATCGAGATAAAACCATGAGTCATAAGAAATGATTTGGACTGAGCCAAGATCAAGTGA
CCAAGATGAAACCATGAGTAAAAAATGAAATGATAGACAAGTAAAGGTAAAA
Found at i:17373472 original size:43 final size:44
Alignment explanation
Indices: 17373411--17373506 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 44
17373401 AAGATTTTTA
*
17373411 TTTGAAAAATATTATTGGAA-G-GATTTTT-TTTAGATAAATATTT
1 TTTGAAAAATATTATTGGAACGAGATTTTTATTT-GA-AAAGATTT
*
17373454 TTTGAAAACT-TTATTTGGAACGAGATTTTTATTTGAAAAGATTT
1 TTTGAAAAATATTA-TTGGAACGAGATTTTTATTTGAAAAGATTT
*
17373498 TTTTAAAAA
1 TTTGAAAAA
17373507 AATGATTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
42 3 0.07
43 15 0.33
44 15 0.33
45 9 0.20
46 3 0.07
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.47
Consensus pattern (44 bp):
TTTGAAAAATATTATTGGAACGAGATTTTTATTTGAAAAGATTT
Found at i:17373590 original size:11 final size:11
Alignment explanation
Indices: 17373540--17373609 Score: 54
Period size: 13 Copynumber: 5.9 Consensus size: 11
17373530 TAAAAATTCT
17373540 TAAAAATAAAA
1 TAAAAATAAAA
*
17373551 CAAAAA-AAAA
1 TAAAAATAAAA
17373561 TTTAAAAA-AATGAA
1 --TAAAAATAA--AA
17373575 TTAAAAATAAAA
1 -TAAAAATAAAA
17373587 TAAAATCATAAAA
1 TAAAA--ATAAAA
17373600 TAAAAATAAA
1 TAAAAATAAA
17373610 TTTGAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
10 4 0.08
11 15 0.30
12 9 0.18
13 18 0.36
14 4 0.08
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:17373590 original size:24 final size:24
Alignment explanation
Indices: 17373541--17373609 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
17373531 AAAAATTCTT
*
17373541 AAAAATAAAACAAAAA-AAAATTTAA
1 AAAAATAAAATAAAAATAAAA--TAA
* *
17373566 AAAAATGAATTAAAAATAAAATAA
1 AAAAATAAAATAAAAATAAAATAA
**
17373590 AATCATAAAATAAAAATAAA
1 AAAAATAAAATAAAAATAAA
17373610 TTTGAAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 19 0.53
25 13 0.36
26 4 0.11
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (24 bp):
AAAAATAAAATAAAAATAAAATAA
Found at i:17373948 original size:20 final size:20
Alignment explanation
Indices: 17373923--17373966 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
17373913 CGCTAGAAAT
17373923 TTCAAACCCTCATCAAAAAA
1 TTCAAACCCTCATCAAAAAA
* *
17373943 TTCAAATCTTCATCAAAAAA
1 TTCAAACCCTCATCAAAAAA
17373963 TTCA
1 TTCA
17373967 TCCTAACCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (20 bp):
TTCAAACCCTCATCAAAAAA
Found at i:17375501 original size:33 final size:33
Alignment explanation
Indices: 17375459--17376047 Score: 295
Period size: 33 Copynumber: 18.0 Consensus size: 33
17375449 AATTTAAGTT
* *
17375459 CACCCAATGAAAATTTCAGCCTAGTTTA-CTTGG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGC-TGG
* *
17375492 CGCCTAATGAAAATTTAAGCTTAGTTTAGCTGG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
* * * *
17375525 CATCTAATGAAAATTTAAGCCCAATTTAACTGG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
* * * * * * *
17375558 TATCTCATGAAAAATTTTAAG-CTCAATCTAGGTAG
1 CACCTAATG-AAAA-TTTAAGCCT-AGTTTAGCTGG
* * * *
17375593 TACC-AATGCAAATTTAAGCCCAATTTAGCTGG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
* * * *
17375625 CACTTCATGAAAATTTAAGCCCAGTTTAGCTAG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
* * * *
17375658 TA-TTAATGTAAATTTAAGCCTAATTTAGCTGG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
*
17375690 CATCC-CATGAAAATTTAAG-CTCAGTTTAGTTAGCTGG
1 CA-CCTAATGAAAATTTAAGCCT-AG--T--TTAGCTGG
* * * *
17375727 CACTTCATGAAAATTTAAGCCCAGTTTAGCTAG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
* * * *
17375760 TA-TTAATGTAAATTTAAGCCTAATTTAGCTGG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
* * *
17375792 CATCC-CATGAAAATTTAAG-CTCAGTTTAGTTGA
1 CA-CCTAATGAAAATTTAAGCCT-AGTTTAGCTGG
* * * *
17375825 CA-CTGATGAAAATTTAAACAC-AATTTAGCTGA
1 CACCTAATGAAAATTTAAGC-CTAGTTTAGCTGG
* * * *
17375857 CACCCAATAAAAATTTAAG-CTCA-ATTAACTGG
1 CACCTAATGAAAATTTAAGCCT-AGTTTAGCTGG
* *
17375889 CATCC-AATGAAAATTTAAATCC-AGTTTAGCTTG
1 CA-CCTAATGAAAATTT-AAGCCTAGTTTAGCTGG
** *
17375922 CAATTAATGAAAAATTTAAGCTTAGTTTA----G
1 CACCTAATG-AAAATTTAAGCCTAGTTTAGCTGG
* * * *
17375952 CACC-ATTAAAAATTTACA-CCTAATTTAGATGG
1 CACCTAATGAAAATTTA-AGCCTAGTTTAGCTGG
* * * * *
17375984 CACCCAATGAAATTTTAAACCAAGTTTAGTTGG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
* *
17376017 CA-CAAATAAAAATTTAAGCCTAGTTTAGCTG
1 CACCTAATGAAAATTTAAGCCTAGTTTAGCTG
17376048 CCACATAAGC
Statistics
Matches: 423, Mismatches: 95, Indels: 77
0.71 0.16 0.13
Matches are distributed among these distances:
28 15 0.04
29 3 0.01
30 3 0.01
31 2 0.00
32 143 0.34
33 187 0.44
34 24 0.06
35 18 0.04
36 1 0.00
37 26 0.06
38 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (33 bp):
CACCTAATGAAAATTTAAGCCTAGTTTAGCTGG
Found at i:17375677 original size:65 final size:65
Alignment explanation
Indices: 17375498--17375942 Score: 285
Period size: 65 Copynumber: 6.7 Consensus size: 65
17375488 TTGGCGCCTA
* * * * *
17375498 ATGAAAATTTAAGCTTAGTTTAGCTGGCATCTAATGAAAATTTAAGCCCAATTTAACTGGTATCT
1 ATGAAAATTTAAGCTCAGTTTAGCTAGTAT-TAATGAAAATTTAAGCCCAATTTAGCTGGCATCT
17375563 C
65 C
* * * ** *
17375564 ATGAAAAATTTTAAGCTCAATCTAGGTAGTACCAATGCAAATTTAAGCCCAATTTAGCTGGCA-C
1 ATG-AAAA-TTTAAGCTCAGTTTAGCTAGTATTAATGAAAATTTAAGCCCAATTTAGCTGGCATC
17375628 TTC
64 -TC
* * * *
17375631 ATGAAAATTTAAGCCCAGTTTAGCTAGTATTAATGTAAATTTAAGCCTAATTTAGCTGGCATCCC
1 ATGAAAATTTAAGCTCAGTTTAGCTAGTATTAATGAAAATTTAAGCCCAATTTAGCTGGCATCTC
* * * * *
17375696 ATGAAAATTTAAGCTCAGTTTAGTTAGCTGGCACTTCATGAAAATTTAAGCCCAGTTTAGCTAGT
1 ATGAAAATTTAAGCTCAGTTTAGCTAG-T---A-TTAATGAAAATTTAAGCCCAATTTAGCTGGC
*
17375761 AT-TA
61 ATCTC
* * * * ** * * * *
17375765 ATGTAAATTTAAGC-CTAATTTAGCTGGCATCCCATGAAAATTTAAGCTCAGTTTAGTTGACA-C
1 ATGAAAATTTAAGCTC-AGTTTAGCTAGTAT-TAATGAAAATTTAAGCCCAATTTAGCTGGCATC
*
17375828 TG
64 TC
* * * * ** * * *
17375830 ATGAAAATTTAAACACAATTTAGCT-GACACCCAATAAAAATTTAAGCTCAA-TTAACTGGCATC
1 ATGAAAATTTAAGCTCAGTTTAGCTAG-TA-TTAATGAAAATTTAAGCCCAATTTAGCTGGCATC
17375893 -C
64 TC
* * *
17375894 AATGAAAATTTAA-ATCCAGTTTAGCTTGCAATTAATGAAAAATTTAAGC
1 -ATGAAAATTTAAGCT-CAGTTTAGCTAG-TATTAATG-AAAATTTAAGC
17375943 TTAGTTTAGC
Statistics
Matches: 299, Mismatches: 60, Indels: 40
0.75 0.15 0.10
Matches are distributed among these distances:
64 9 0.03
65 164 0.55
66 24 0.08
67 36 0.12
68 17 0.06
69 22 0.07
70 27 0.09
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (65 bp):
ATGAAAATTTAAGCTCAGTTTAGCTAGTATTAATGAAAATTTAAGCCCAATTTAGCTGGCATCTC
Found at i:17375739 original size:102 final size:102
Alignment explanation
Indices: 17375617--17375822 Score: 412
Period size: 102 Copynumber: 2.0 Consensus size: 102
17375607 TAAGCCCAAT
17375617 TTAGCTGGCACTTCATGAAAATTTAAGCCCAGTTTAGCTAGTATTAATGTAAATTTAAGCCTAAT
1 TTAGCTGGCACTTCATGAAAATTTAAGCCCAGTTTAGCTAGTATTAATGTAAATTTAAGCCTAAT
17375682 TTAGCTGGCATCCCATGAAAATTTAAGCTCAGTTTAG
66 TTAGCTGGCATCCCATGAAAATTTAAGCTCAGTTTAG
17375719 TTAGCTGGCACTTCATGAAAATTTAAGCCCAGTTTAGCTAGTATTAATGTAAATTTAAGCCTAAT
1 TTAGCTGGCACTTCATGAAAATTTAAGCCCAGTTTAGCTAGTATTAATGTAAATTTAAGCCTAAT
17375784 TTAGCTGGCATCCCATGAAAATTTAAGCTCAGTTTAG
66 TTAGCTGGCATCCCATGAAAATTTAAGCTCAGTTTAG
17375821 TT
1 TT
17375823 GACACTGATG
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (102 bp):
TTAGCTGGCACTTCATGAAAATTTAAGCCCAGTTTAGCTAGTATTAATGTAAATTTAAGCCTAAT
TTAGCTGGCATCCCATGAAAATTTAAGCTCAGTTTAG
Found at i:17375987 original size:32 final size:32
Alignment explanation
Indices: 17375951--17376044 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
17375941 GCTTAGTTTA
* *
17375951 GCACCATTAAAAATTTACACCTAA-TTTAGATG
1 GCACCAATAAAAATTTAAACC-AAGTTTAGATG
* * *
17375983 GCACCCAATGAAATTTTAAACCAAGTTTAGTTG
1 GCA-CCAATAAAAATTTAAACCAAGTTTAGATG
* * *
17376016 GCACAAATAAAAATTTAAGCCTAGTTTAG
1 GCACCAATAAAAATTTAAACCAAGTTTAG
17376045 CTGCCACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
32 26 0.52
33 24 0.48
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (32 bp):
GCACCAATAAAAATTTAAACCAAGTTTAGATG
Found at i:17376134 original size:31 final size:31
Alignment explanation
Indices: 17376099--17376158 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
17376089 GTTTAGTCTT
17376099 GGTCACCTCATTCAACCTAAGGTTCAATCCC
1 GGTCACCTCATTCAACCTAAGGTTCAATCCC
* * *
17376130 GGTCACTTCATTCAACTTATGGTTCAATC
1 GGTCACCTCATTCAACCTAAGGTTCAATC
17376159 TTAATCATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (31 bp):
GGTCACCTCATTCAACCTAAGGTTCAATCCC
Found at i:17377133 original size:5 final size:5
Alignment explanation
Indices: 17377123--17377148 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17377113 AAGCAAGTGG
17377123 CAAAA CAAAA CAAAA CAAAA CAAAA C
1 CAAAA CAAAA CAAAA CAAAA CAAAA C
17377149 TTGTAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:17377873 original size:19 final size:19
Alignment explanation
Indices: 17377831--17377867 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17377821 ATCCTTAGAT
*
17377831 GAAAACCCAAAACCCTAAA
1 GAAAACCCAAAACCATAAA
*
17377850 GAAAACCCTAAACCATAA
1 GAAAACCCAAAACCATAA
17377868 GTAAAATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.30, G:0.05, T:0.08
Consensus pattern (19 bp):
GAAAACCCAAAACCATAAA
Found at i:17381248 original size:116 final size:113
Alignment explanation
Indices: 17381148--17381403 Score: 288
Period size: 116 Copynumber: 2.3 Consensus size: 113
17381138 TGTGTTGTCA
*
17381148 ATTACCATAGTTT-TTTTGT-A-TTCT-TTATAATGAATT-CATCTAGTTCTTTATTTTTTTTCA
1 ATTACCAT-GTTTATTTTCTAACTTCTCTTATAATGAATTACATCTAGTTCTTTATTTTTTTTCA
17381208 ATTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTGATTTTTTT
65 ATTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTGATTTTTTT
*** * * * ***
17381257 ATTTTTATTTTTGATTTTCTAACTTTCTCTTTTGATTTTTTGACATCTAGTTCTTTATTTTTTTT
1 ATTACCATGTTT-ATTTTCTAAC-TTCTCTTATAATGAATT-ACATCTAGTTCTTTATTTTTTTT
*
17381322 CAATTTTCTTGATTTCTTTCCTTTTTTTCATATTTCAATTTTGATTTTTTT
63 CAATTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTGATTTTTTT
*** *
17381373 ATTTTGATTTTTGATTTTCTAACTTTCTCTT
1 ATTACCATGTTT-ATTTTCTAAC-TTCTCTT
17381404 TTGATTTTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
108 3 0.02
109 5 0.04
110 5 0.04
111 1 0.01
113 4 0.03
114 7 0.06
116 102 0.80
ACGTcount: A:0.18, C:0.12, G:0.05, T:0.65
Consensus pattern (113 bp):
ATTACCATGTTTATTTTCTAACTTCTCTTATAATGAATTACATCTAGTTCTTTATTTTTTTTCAA
TTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTGATTTTTTT
Found at i:17381404 original size:116 final size:116
Alignment explanation
Indices: 17381184--17381415 Score: 446
Period size: 116 Copynumber: 2.0 Consensus size: 116
17381174 ATAATGAATT
17381184 CATCTAGTTCTTTATTTTTTTTCAATTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTG
1 CATCTAGTTCTTTATTTTTTTTCAATTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTG
*
17381249 ATTTTTTTATTTTTATTTTTGATTTTCTAACTTTCTCTTTTGATTTTTTGA
66 ATTTTTTTATTTTGATTTTTGATTTTCTAACTTTCTCTTTTGATTTTTTGA
*
17381300 CATCTAGTTCTTTATTTTTTTTCAATTTTCTTGATTTCTTTCCTTTTTTTCATATTTCAATTTTG
1 CATCTAGTTCTTTATTTTTTTTCAATTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTG
17381365 ATTTTTTTATTTTGATTTTTGATTTTCTAACTTTCTCTTTTGATTTTTTGA
66 ATTTTTTTATTTTGATTTTTGATTTTCTAACTTTCTCTTTTGATTTTTTGA
17381416 TTTTCCTTTA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.66
Consensus pattern (116 bp):
CATCTAGTTCTTTATTTTTTTTCAATTTTCTTGAATTCTTTCCTTTTTTTCATATTTCAATTTTG
ATTTTTTTATTTTGATTTTTGATTTTCTAACTTTCTCTTTTGATTTTTTGA
Found at i:17381420 original size:21 final size:21
Alignment explanation
Indices: 17381360--17381424 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
17381350 CATATTTCAA
* *
17381360 TTTTGATTTTTTTATTTTGAT-
1 TTTTGATTTTTTAATTTT-CTC
* *
17381381 TTTTGATTTTCTAACTTTCTC
1 TTTTGATTTTTTAATTTTCTC
*
17381402 TTTTGATTTTTTGATTTTC-C
1 TTTTGATTTTTTAATTTTCTC
17381422 TTT
1 TTT
17381425 ATGGAACTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.14
21 31 0.86
ACGTcount: A:0.12, C:0.09, G:0.08, T:0.71
Consensus pattern (21 bp):
TTTTGATTTTTTAATTTTCTC
Found at i:17382468 original size:30 final size:30
Alignment explanation
Indices: 17382434--17382490 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17382424 ATCATTAAAG
* *
17382434 CTTGACATCCTTGACAAGCCTAACAAAGAA
1 CTTGACATCCCTGACAAGCCCAACAAAGAA
*
17382464 CTTGACATCCCTGTCAAGCCCAACAAA
1 CTTGACATCCCTGACAAGCCCAACAAA
17382491 AAACACACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.19
Consensus pattern (30 bp):
CTTGACATCCCTGACAAGCCCAACAAAGAA
Found at i:17386056 original size:57 final size:56
Alignment explanation
Indices: 17385982--17386143 Score: 211
Period size: 56 Copynumber: 2.9 Consensus size: 56
17385972 AAAAACAAAG
*
17385982 AACAATTTC-AAATTTTGAGGAAAAAGTTAAAAAATCAATTTTTCTTTAAAATGAAA
1 AACAATTTCAAAATTTTGAGGAAAAAGTTGAAAAATCAA-TTTTCTTTAAAATGAAA
** * * *
17386038 ATTAATTTCAAAATTTTGAGGAAAAAGTTGAAATATCAAATTTCCTTAAAATGAAA
1 AACAATTTCAAAATTTTGAGGAAAAAGTTGAAAAATCAATTTTCTTTAAAATGAAA
* * *
17386094 AACAATTTTAAAATTTTGAGGCAAAA-TTGAAACATCAAATTTTCTTTAAA
1 AACAATTTCAAAATTTTGAGGAAAAAGTTGAAAAATC-AATTTTCTTTAAA
17386144 GAAATAAAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
55 9 0.10
56 55 0.60
57 27 0.30
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (56 bp):
AACAATTTCAAAATTTTGAGGAAAAAGTTGAAAAATCAATTTTCTTTAAAATGAAA
Found at i:17386323 original size:56 final size:55
Alignment explanation
Indices: 17386185--17386455 Score: 309
Period size: 55 Copynumber: 4.9 Consensus size: 55
17386175 AAATTCAAAT
** * * *
17386185 TTTG-AGAAACAAGTTGAAATATCAAAATTTTCCT-AAATAAAAATAATTTCAAAA
1 TTTGAAGAAA-AAGTTGAAATATCAATTTTTTCTTAAAACAAAAATAATTTTAAAA
* *
17386239 TTTG-AGAAAAAGTTGAAATATCAATTTTTCCTTAAAACCAAAAATAATTTTAAAT
1 TTTGAAGAAAAAGTTGAAATATCAATTTTTTCTTAAAA-CAAAAATAATTTTAAAA
* * *
17386294 TTTGAAGAAAAAGTT-AAAGTATCGATTTTTTCTTAAAATAAAAATAATTTTAAAT
1 TTTGAAGAAAAAGTTGAAA-TATCAATTTTTTCTTAAAACAAAAATAATTTTAAAA
* * * * * *
17386349 TTTGAGAAAAAAAGTTGAAATATCAATCTTTTCTTAAAA-GAAAACAACTTCAAAA
1 TTTGA-AGAAAAAGTTGAAATATCAATTTTTTCTTAAAACAAAAATAATTTTAAAA
*
17386404 TTTGAGGAAAAAGTTGAAATATCAATTTTTTCTTAAAACAAAAATAAGTTTT
1 TTTGAAGAAAAAGTTGAAATATCAATTTTTTCTTAAAACAAAAATAA-TTTT
17386456 TTTTTTTTTT
Statistics
Matches: 184, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
53 20 0.11
54 42 0.23
55 64 0.35
56 55 0.30
57 3 0.02
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (55 bp):
TTTGAAGAAAAAGTTGAAATATCAATTTTTTCTTAAAACAAAAATAATTTTAAAA
Found at i:17386359 original size:110 final size:109
Alignment explanation
Indices: 17386170--17386455 Score: 343
Period size: 110 Copynumber: 2.6 Consensus size: 109
17386160 TCCTTAAGAT
** *
17386170 AAAAAA-AA-TTCAAATTTTG-AGAAACAAGTTGAAATATCAAAATTTTCCT-AAATAAAAATAA
1 AAAAAACAACTTCAAATTTTGAAGAAA-AAGTTGAAATATCAATTTTTTCTTAAAATAAAAATAA
*
17386231 TTTCAAAATTTGAG-AAAAAGTTGAAATATCAAT-TTTTCCTTAAA
65 TTTTAAAATTTGAGAAAAAAGTTGAAATATCAATCTTTT-CTTAAA
* * * *
17386275 ACCAAAAATAATTTTAAATTTTGAAGAAAAAGTT-AAAGTATCGATTTTTTCTTAAAATAAAAAT
1 A--AAAAACAACTTCAAATTTTGAAGAAAAAGTTGAAA-TATCAATTTTTTCTTAAAATAAAAAT
*
17386339 AATTTTAAATTTTGAGAAAAAAAGTTGAAATATCAATCTTTTCTTAAA
63 AATTTTAAAATTTGAG-AAAAAAGTTGAAATATCAATCTTTTCTTAAA
* * * *
17386387 AGAAAACAACTTCAAAATTTGAGGAAAAAGTTGAAATATCAATTTTTTCTTAAAACAAAAATAAG
1 AAAAAACAACTTCAAATTTTGAAGAAAAAGTTGAAATATCAATTTTTTCTTAAAATAAAAATAA-
17386452 TTTT
65 TTTT
17386456 TTTTTTTTTT
Statistics
Matches: 154, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
105 1 0.01
107 5 0.03
108 5 0.03
109 26 0.17
110 80 0.52
111 7 0.05
112 26 0.17
113 4 0.03
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (109 bp):
AAAAAACAACTTCAAATTTTGAAGAAAAAGTTGAAATATCAATTTTTTCTTAAAATAAAAATAAT
TTTAAAATTTGAGAAAAAAGTTGAAATATCAATCTTTTCTTAAA
Found at i:17387659 original size:29 final size:29
Alignment explanation
Indices: 17387592--17387660 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
17387582 CTTTTTTCAT
* *
17387592 TCATTTCATACATTTCATTCATTCATAGA
1 TCATTTCATACATTTAATGCATTCATAGA
* * *
17387621 TCATCATCATTCA-TTAATGCATTCATTATA
1 TCAT-TTCATACATTTAATGCATTCA-TAGA
17387651 TCATTTCATA
1 TCATTTCATA
17387661 ATATAAAAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
29 18 0.58
30 13 0.42
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (29 bp):
TCATTTCATACATTTAATGCATTCATAGA
Found at i:17391442 original size:7 final size:7
Alignment explanation
Indices: 17391430--17391468 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
17391420 TAACTCATGT
17391430 AAGAAAA
1 AAGAAAA
17391437 AAGAAAAGA
1 AAG-AAA-A
17391446 AAGAAAA
1 AAGAAAA
17391453 AAGAAAA
1 AAGAAAA
*
17391460 GAGAAAA
1 AAGAAAA
17391467 AA
1 AA
17391469 AATGAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 18 0.64
8 6 0.21
9 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:17391447 original size:12 final size:12
Alignment explanation
Indices: 17391430--17391470 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
17391420 TAACTCATGT
17391430 AAGAAAAAAGAA
1 AAGAAAAAAGAA
*
17391442 AAGAAAGAA-AA
1 AAGAAAAAAGAA
*
17391453 AAGAAAAGAGAA
1 AAGAAAAAAGAA
17391465 AA-AAAA
1 AAGAAAA
17391471 TGAAAAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 13 0.52
12 12 0.48
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:17391451 original size:16 final size:17
Alignment explanation
Indices: 17391430--17391476 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
17391420 TAACTCATGT
17391430 AAGAAAAAAGAAAAGA-
1 AAGAAAAAAGAAAAGAG
17391446 AAGAAAAAAGAAAAGAG
1 AAGAAAAAAGAAAAGAG
17391463 AA-AAAAAATGAAAA
1 AAGAAAAAA-GAAAA
17391477 AGATGAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 22 0.76
17 7 0.24
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAGAAAAGAG
Found at i:17391456 original size:23 final size:24
Alignment explanation
Indices: 17391430--17391477 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
17391420 TAACTCATGT
*
17391430 AAGAAAAAAGAAAAGAAA-GAAAA
1 AAGAAAAAAGAAAAAAAATGAAAA
*
17391453 AAGAAAAGAGAAAAAAAATGAAAA
1 AAGAAAAAAGAAAAAAAATGAAAA
17391477 A
1 A
17391478 GATGAAAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (24 bp):
AAGAAAAAAGAAAAAAAATGAAAA
Found at i:17391769 original size:17 final size:17
Alignment explanation
Indices: 17391737--17391772 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17391727 AGTCAATGAA
**
17391737 AAAAGAAAAATTAAAAG
1 AAAAGAAAAAAAAAAAG
17391754 AAAAGAAAAAAAAAAAG
1 AAAAGAAAAAAAAAAAG
17391771 AA
1 AA
17391773 TGAAGCTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAAG
Found at i:17393866 original size:16 final size:17
Alignment explanation
Indices: 17393841--17393873 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
17393831 TGAACTTAAT
17393841 GCAATCCAAA-TCAAAA
1 GCAATCCAAACTCAAAA
*
17393857 GCAATTCAAACTCAAAA
1 GCAATCCAAACTCAAAA
17393874 TAATATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.15
Consensus pattern (17 bp):
GCAATCCAAACTCAAAA
Found at i:17394868 original size:66 final size:65
Alignment explanation
Indices: 17394762--17394885 Score: 212
Period size: 66 Copynumber: 1.9 Consensus size: 65
17394752 GTTAGGAAAA
17394762 TGATATGATATCATGATTTTTTTCAAAGCAGTGGCTGTTAAAGCGTGAAAACAATTGGGGAAACT
1 TGATATGATATCATGATTTTTTTCAAAGCAGTGGCTGTTAAAGCGTGAAAACAATTGGGGAAACT
* * *
17394827 TGATATGATATCATGATTTTTTTTTAAAGCAGTGGTTGTTAAAGCGTGAAGACAATTGG
1 TGATATGATATCATGA-TTTTTTTCAAAGCAGTGGCTGTTAAAGCGTGAAAACAATTGG
17394886 AATATTATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
65 16 0.29
66 39 0.71
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.35
Consensus pattern (65 bp):
TGATATGATATCATGATTTTTTTCAAAGCAGTGGCTGTTAAAGCGTGAAAACAATTGGGGAAACT
Found at i:17410659 original size:24 final size:24
Alignment explanation
Indices: 17410628--17410673 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
17410618 TATATCATAT
*
17410628 TCAAAATTTTTTA-AATTTAGATA
1 TCAAAATTTATTATAATTTAGATA
17410651 TCAATAATTTATTATAATTTAGA
1 TCAA-AATTTATTATAATTTAGA
17410674 GATTATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 8 0.40
25 8 0.40
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
TCAAAATTTATTATAATTTAGATA
Found at i:17410774 original size:2 final size:2
Alignment explanation
Indices: 17410767--17410791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17410757 ATACATATGA
17410767 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17410792 GATTATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17412608 original size:20 final size:19
Alignment explanation
Indices: 17412575--17412613 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17412565 ATAAAAATTT
*
17412575 ATTTTAAAAAATTTAAATA
1 ATTTAAAAAAATTTAAATA
*
17412594 ATTTAAAAAATATTTTAATA
1 ATTTAAAAAA-ATTTAAATA
17412614 TTGCAATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTAAAAAAATTTAAATA
Found at i:17414570 original size:125 final size:125
Alignment explanation
Indices: 17414343--17414571 Score: 282
Period size: 125 Copynumber: 1.8 Consensus size: 125
17414333 ATATGGAACG
* * * * *
17414343 GATTCTTGAAGGCGTTTTTGGCTGAAAGCGCCTTCAATAATTCAATCTATAAATTTTTAGGTGAG
1 GATTCTTGAAGGCATTTTTAGCTCAAAACGCCTTCAATAATTCAATCAATAAATTTTTAGGTGAG
* * * * * *
17414408 ATTATTGAAGGCAATTTTTGTCAAAATGCTTTCAATAATCCATACAAAAAAGTTGGAATA
66 ACTATTAAAGGCAATTTTGGTAAAAATCCTCTCAATAATCCATACAAAAAAGTTGGAATA
* * * *
17414468 GATTCTTGAAGGCATTTTTAGCTCAAAACGCCTTTAA-CATTCCATACAATAAATTTTTATGTGA
1 GATTCTTGAAGGCATTTTTAGCTCAAAACGCCTTCAATAATTCAAT-CAATAAATTTTTAGGTGA
*
17414532 GACTATTAAAGGCGATTTTGGTTAAAAATCCTCT-AATAAT
65 GACTATTAAAGGCAATTTTGG-TAAAAATCCTCTCAATAAT
17414572 ATTTTTTAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
124 6 0.07
125 71 0.83
126 9 0.10
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (125 bp):
GATTCTTGAAGGCATTTTTAGCTCAAAACGCCTTCAATAATTCAATCAATAAATTTTTAGGTGAG
ACTATTAAAGGCAATTTTGGTAAAAATCCTCTCAATAATCCATACAAAAAAGTTGGAATA
Found at i:17417713 original size:12 final size:12
Alignment explanation
Indices: 17417696--17417827 Score: 75
Period size: 12 Copynumber: 10.3 Consensus size: 12
17417686 TAATAGAAAC
17417696 ACCATTCAACAA
1 ACCATTCAACAA
**
17417708 ACCATTCAGTAA
1 ACCATTCAACAA
*
17417720 ATCATTCAACAA
1 ACCATTCAACAA
**
17417732 ACCATTCAGTAA
1 ACCATTCAACAA
* * *
17417744 ACCATTTAGCAT
1 ACCATTCAACAA
* * *
17417756 ACTATTCAGCAT
1 ACCATTCAACAA
17417768 ACCAATATCATACAA
1 ACC-AT-TCA-ACAA
17417783 TACCATTCAACAAA
1 -ACCATTCAAC-AA
*
17417797 ACAATATCACACAA
1 ACCAT-TCA-ACAA
*
17417811 TACCATTCAGCAA
1 -ACCATTCAACAA
17417824 ACCA
1 ACCA
17417828 CAATATTTAA
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
12 53 0.57
13 11 0.12
14 16 0.17
15 10 0.11
16 3 0.03
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.23
Consensus pattern (12 bp):
ACCATTCAACAA
Found at i:17417764 original size:24 final size:24
Alignment explanation
Indices: 17417696--17417749 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
17417686 TAATAGAAAC
17417696 ACCATTCAACAAACCATTCAGTAA
1 ACCATTCAACAAACCATTCAGTAA
*
17417720 ATCATTCAACAAACCATTCAGTAA
1 ACCATTCAACAAACCATTCAGTAA
17417744 ACCATT
1 ACCATT
17417750 TAGCATACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.28, G:0.04, T:0.24
Consensus pattern (24 bp):
ACCATTCAACAAACCATTCAGTAA
Found at i:17417801 original size:28 final size:29
Alignment explanation
Indices: 17417770--17417833 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
17417760 TTCAGCATAC
*
17417770 CAATATCATACAATACCATTCAACAAA-A
1 CAATATCACACAATACCATTCAACAAACA
*
17417798 CAATATCACACAATACCATTCAGCAAACCA
1 CAATATCACACAATACCATTCAACAAA-CA
17417828 CAATAT
1 CAATAT
17417834 TTAAAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 25 0.78
30 7 0.22
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (29 bp):
CAATATCACACAATACCATTCAACAAACA
Found at i:17421186 original size:13 final size:13
Alignment explanation
Indices: 17421168--17421197 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17421158 TAATTTTTAA
17421168 AAGGAAATTATCG
1 AAGGAAATTATCG
*
17421181 AAGGAAATTATTG
1 AAGGAAATTATCG
17421194 AAGG
1 AAGG
17421198 TGCATAATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.27, T:0.23
Consensus pattern (13 bp):
AAGGAAATTATCG
Found at i:17421600 original size:236 final size:235
Alignment explanation
Indices: 17421202--17421886 Score: 831
Period size: 235 Copynumber: 2.9 Consensus size: 235
17421192 TGAAGGTGCA
* * * * *
17421202 TAATGCAAAAAATGCCTTCAATAAATTCTTTCAAAAATTAGAACGAATTAATGAAGGCATTTTTC
1 TAATGCGAAAAACGCTTTCAATAAATTCCTTC--AAATTAGAACGAATTAGTGAAGGCATTTTTC
* * * *
17421267 TGGAATAAACGCCTTCAATAACCGTTTTAAAATTTTAATAGTGGAATATTAAAGGCTTTTTCTAC
64 TAGAATAAACGCCTTGACTAATCGTTTTAAAATTTTAATAGTGGAATATTAAAGGCTTTTTC-AC
* *
17421332 TAGAAGACGCCTTTAATAATCCAAAATAATTTTTAAAAGGAAATTATTGAAGAAGT-TTTCTTCT
128 TAGAAGACGCCTTTAATAATCCAAAATAATTTTTAAAAGAAAATTATTGAAG--GTATTTTTTCT
* * **
17421396 TAAGAAACACCTTCAATAATTA--TACAAAAATTATTGAAGGCGTT
191 TAAGAAATACCTTCAATAATTATCTAC-AAAATTATTAAAGAAGTT
** *
17421440 TGTTGC-AAAGAACGCTTTCAATAAATTCCTTCAAATTAGAACGAAGTAGTGAAGGCATTTTTCT
1 TAATGCGAAA-AACGCTTTCAATAAATTCCTTCAAATTAGAACGAATTAGTGAAGGCATTTTTCT
* * * * * *
17421504 AGAATAAATGCCTTGACTAATCATCTTAAAATTTTAGTAGTGGAGTATTAAAGGCGTTTTTCATT
65 AGAATAAACGCCTTGACTAATCGTTTTAAAATTTTAATAGTGGAATATTAAAGGC-TTTTTCACT
* * * *
17421569 AGAAGATGCCTTTAATACTCCCAAATAATTTTTAAAAGAAAATTATTGAAGGTATTTTTTCTCAA
129 AGAAGACGCCTTTAATAATCCAAAATAATTTTTAAAAGAAAATTATTGAAGGTATTTTTTCTTAA
* **
17421634 GAAATA-TTTTTATAATTATCTACAAAATTATTAAAGAAGTT
194 GAAATACCTTCAATAATTATCTACAAAATTATTAAAGAAGTT
* * * *
17421675 TAATGCGAAAAATGCTTTCAAAAAATTTCTTCAAATTAGAATGAATTAGTGAAGGCATTTTTCTA
1 TAATGCGAAAAACGCTTTCAATAAATTCCTTCAAATTAGAACGAATTAGTGAAGGCATTTTTCTA
* * * * * *
17421740 GAATAAACACCTTGACTAATTGTTTTCAAATTTTAATGGTAGAATATTGAAGGCATTTTTCACTA
66 GAATAAACGCCTTGACTAATCGTTTTAAAATTTTAATAGTGGAATATTAAAGGC-TTTTTCACTA
* * * * *
17421805 GAAGACGCCTTCAATAATCCTAAACAATTTTTAATAGAAAATTATTGAAGGTATTTTTTCTTAGG
130 GAAGACGCCTTTAATAATCCAAAATAATTTTTAAAAGAAAATTATTGAAGGTATTTTTTCTTAAG
*
17421870 AAATGCCTTCAATAATT
195 AAATACCTTCAATAATT
17421887 TTGTCTTAGA
Statistics
Matches: 378, Mismatches: 62, Indels: 16
0.83 0.14 0.04
Matches are distributed among these distances:
234 11 0.03
235 196 0.52
236 139 0.37
237 9 0.02
238 23 0.06
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (235 bp):
TAATGCGAAAAACGCTTTCAATAAATTCCTTCAAATTAGAACGAATTAGTGAAGGCATTTTTCTA
GAATAAACGCCTTGACTAATCGTTTTAAAATTTTAATAGTGGAATATTAAAGGCTTTTTCACTAG
AAGACGCCTTTAATAATCCAAAATAATTTTTAAAAGAAAATTATTGAAGGTATTTTTTCTTAAGA
AATACCTTCAATAATTATCTACAAAATTATTAAAGAAGTT
Found at i:17428126 original size:140 final size:140
Alignment explanation
Indices: 17427885--17428143 Score: 317
Period size: 140 Copynumber: 1.9 Consensus size: 140
17427875 CAAATAAACA
* * * *
17427885 ATTATTGTTCTGTTTTAATAGTTTTGAAAGTTTTAATACATGATATTAAACTTATCGAAAGTATT
1 ATTATTGTTCTATTTTAATAGTTTGGAAAGATTCAATACATGATATTAAACTTATCGAAAGTATT
* *
17427950 GAACTTAGTTGACACGGATGATATGTATGAAAAAGTTATTGTTTACGTCTATTTAGGTAAAAATA
66 GAACTTAGTTGACACGGATGATATGGATGAAAAAGTTATCGTTTACGTCTATTTAGGTAAAAATA
17428015 CAAATTTGTT
131 CAAATTTGTT
* * * **
17428025 ATTATTGTTCTATTTTAATAGTTTGGATAGATTCAATACTTGATATTAAACTTGTTCGATTG-AT
1 ATTATTGTTCTATTTTAATAGTTTGGAAAGATTCAATACATGATATTAAACTT-ATCGAAAGTAT
* * * * * *
17428089 TGAACTTGGTT-TCTAC-GATTGATATGGGTGAACAAGTTGTCGTTTATGTCTATTT
65 TGAACTTAGTTGAC-ACGGA-TGATATGGATGAAAAAGTTATCGTTTACGTCTATTT
17428144 GGGATTATTT
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
139 3 0.03
140 91 0.92
141 5 0.05
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (140 bp):
ATTATTGTTCTATTTTAATAGTTTGGAAAGATTCAATACATGATATTAAACTTATCGAAAGTATT
GAACTTAGTTGACACGGATGATATGGATGAAAAAGTTATCGTTTACGTCTATTTAGGTAAAAATA
CAAATTTGTT
Found at i:17429019 original size:21 final size:22
Alignment explanation
Indices: 17428990--17429042 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
17428980 AGAACAGGAG
* *
17428990 CGTGTTAAAATTGG-GTAAGAA
1 CGTGCTAAAATTGGAGCAAGAA
*
17429011 CGTGCTAAAA-TGGAGCAAGAG
1 CGTGCTAAAATTGGAGCAAGAA
17429032 CGTGC-AAAATT
1 CGTGCTAAAATT
17429043 TTAGCAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (22 bp):
CGTGCTAAAATTGGAGCAAGAA
Found at i:17437753 original size:25 final size:25
Alignment explanation
Indices: 17437725--17437773 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
17437715 AGTTGAGTTA
17437725 AAGTCTCTGATTCTCATGGATTAAC
1 AAGTCTCTGATTCTCATGGATTAAC
17437750 AAGTCTCTGATTCTCATGGATTAA
1 AAGTCTCTGATTCTCATGGATTAA
17437774 ATATTTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (25 bp):
AAGTCTCTGATTCTCATGGATTAAC
Found at i:17441525 original size:19 final size:20
Alignment explanation
Indices: 17441488--17441525 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17441478 GCTTAGAAAA
17441488 TAAATATAACACTACTAATT
1 TAAATATAACACTACTAATT
17441508 TAAA-ATAAC-CTACATAAT
1 TAAATATAACACTAC-TAAT
17441526 CTAAGAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAATATAACACTACTAATT
Found at i:17443643 original size:18 final size:18
Alignment explanation
Indices: 17443620--17443658 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
17443610 TGTTCATTTC
**
17443620 TTTTTTTGGTTCTACCTG
1 TTTTTTTGCCTCTACCTG
17443638 -TTTTTTGCCTCTACCTG
1 TTTTTTTGCCTCTACCTG
17443655 TTTT
1 TTTT
17443659 ACTTATCCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.05, C:0.21, G:0.13, T:0.62
Consensus pattern (18 bp):
TTTTTTTGCCTCTACCTG
Found at i:17445905 original size:2 final size:2
Alignment explanation
Indices: 17445898--17445947 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
17445888 GTCTCGTTTC
17445898 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
17445940 TA TG TA TA
1 TA TA TA TA
17445948 AACCTTCTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17448037 original size:3 final size:3
Alignment explanation
Indices: 17448023--17448069 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
17448013 TTTCAAAATA
*
17448023 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17448070 AGATTTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17465127 original size:19 final size:20
Alignment explanation
Indices: 17465099--17465137 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17465089 TTTTTTTGTA
17465099 TTATTATT-AAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
*
17465118 TTATTTTTAAAGTTTATTTT
1 TTATTATTAAAGTTTATTTT
17465138 AAAAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TTATTATTAAAGTTTATTTT
Found at i:17466472 original size:44 final size:43
Alignment explanation
Indices: 17466379--17466719 Score: 164
Period size: 45 Copynumber: 7.4 Consensus size: 43
17466369 CTCCAGAAGT
* * * * *
17466379 TCAACAACATTTTTGAAAATTTAAAAGGCTCCTTTGAGTAGATGC
1 TCAACAAC--TTTTAAAAATTTAAAAGGCTCCTCTAAGCAGAGGC
* *
17466424 TCAACAACTTTTAAAAATTTAAATAGGCTCATCTAAGCAGAGGT
1 TCAACAACTTTTAAAAATTTAAA-AGGCTCCTCTAAGCAGAGGC
* * *
17466468 TCAACAACTATTAAAAAATTTAACAAAGCTCCTCTAAGCAAAGGC
1 TCAACAACT-TTTAAAAATTTAA-AAGGCTCCTCTAAGCAGAGGC
* ** *
17466513 TCAACAACTTTAAAATTCAATATCTTAGAAAAACTCCTCTAAACAGAGGC
1 TCAACAACTTT-TAA---AA-AT-TTA-AAAGGCTCCTCTAAGCAGAGGC
* * * * * *
17466563 TCAACAACTTTAAAAATCCATCTTGAAAAAGATTCTCTTAGTAGAGGC
1 TCAACAACTTTTAAAA---AT-TT-AAAAGGCTCCTCTAAGCAGAGGC
* * * *
17466611 TCAATAAC-TTTAAAACTTCATCTTGAAAAAGCTCTTATAAGCAGAGGC
1 TCAACAACTTTTAAAA----AT-TT-AAAAGGCTCCTCTAAGCAGAGGC
* * * * *
17466659 TCAACAAATTTAAAAAATTTTTAAAAAGCTCCTTCTAGGTAGAGGC
1 TCAACAACTTTTAAAAA--TTTAAAAGGCTCC-TCTAAGCAGAGGC
*
17466705 TCAATAAC-TTTAAAA
1 TCAACAACTTTTAAAA
17466720 TTCATCATCC
Statistics
Matches: 237, Mismatches: 41, Indels: 36
0.75 0.13 0.11
Matches are distributed among these distances:
43 14 0.06
44 25 0.11
45 64 0.27
46 21 0.09
47 7 0.03
48 61 0.26
49 12 0.05
50 32 0.14
51 1 0.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (43 bp):
TCAACAACTTTTAAAAATTTAAAAGGCTCCTCTAAGCAGAGGC
Found at i:17466554 original size:50 final size:49
Alignment explanation
Indices: 17466455--17466769 Score: 219
Period size: 48 Copynumber: 6.6 Consensus size: 49
17466445 AATAGGCTCA
* *
17466455 TCTAAGCAGAGGTTCAACAACTATTAAAA---A-AT-TTA-ACAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACT-TTAAAATTCATATCTTAGA-AAAACTCC
*
17466500 TCTAAGCAAAGGCTCAACAACTTTAAAATTCAATATCTTAGAAAAACTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTC-ATATCTTAGAAAAACTCC
* * * * *
17466550 TCTAAACAGAGGCTCAACAACTTTAAAAATC-CATCTT-GAAAAAGATTC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATATCTTAGAAAAA-CTCC
* * * *
17466598 TCTTAGTAGAGGCTCAATAACTTTAAAACTTC--ATCTT-GAAAAAGCTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAA-TTCATATCTTAGAAAAA-CTCC
* * * * *
17466646 TATAAGCAGAGGCTCAACAAATTTAAAA--AAT-TTTTA-AAAAGCTCC
1 TCTAAGCAGAGGCTCAACAACTTTAAAATTCATATCTTAGAAAAACTCC
* * * * ** *
17466691 TTCTAGGTAGAGGCTCAATAACTTTAAAATTCATCATCCTAGAAAAGTTCT
1 -TCTAAGCAGAGGCTCAACAACTTTAAAATTCAT-ATCTTAGAAAAACTCC
* *
17466742 TTTAGGCAGAGGCTCAACAACTTTAAAA
1 TCTAAGCAGAGGCTCAACAACTTTAAAA
17466770 ATCTCATTTG
Statistics
Matches: 213, Mismatches: 39, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
44 6 0.03
45 23 0.11
46 30 0.14
47 6 0.03
48 70 0.33
49 4 0.02
50 66 0.31
51 8 0.04
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (49 bp):
TCTAAGCAGAGGCTCAACAACTTTAAAATTCATATCTTAGAAAAACTCC
Found at i:17466664 original size:96 final size:95
Alignment explanation
Indices: 17466457--17466772 Score: 285
Period size: 96 Copynumber: 3.3 Consensus size: 95
17466447 TAGGCTCATC
* * * * *
17466457 TAAGCAGAGGTTCAACAACTATTAAAAA--AT-TT-AACAAAGCTCC-TCTAAGCAAAGGCTCAA
1 TAAGCAGAGGCTCAACAACT-TTAAAAATCATCTTGAA-AAAGATCCTTCTAGGTAGAGGCTCAA
* * *
17466517 CAACTTTAAAATTCAATATCTTAGAAAAA-CTCCTC
64 TAACTTTAAAATTC---ATCTT-GAAAAAGCTCTTA
* *
17466552 TAAACAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGATTC-TCTTA-GTAGAGGCTCAA
1 TAAGCAGAGGCTCAACAACTTTAAAAAT-CATCTTGAAAAAGATCCTTC-TAGGTAGAGGCTCAA
17466615 TAACTTTAAAACTTCATCTTGAAAAAGCTCTTA
64 TAACTTTAAAA-TTCATCTTGAAAAAGCTCTTA
* * * *
17466648 TAAGCAGAGGCTCAACAAATTTAAAAA--ATTTTTAAAAAGCTCCTTCTAGGTAGAGGCTCAATA
1 TAAGCAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGATCCTTCTAGGTAGAGGCTCAATA
* *
17466711 ACTTTAAAATTCATCATCCT-AGAAAAGTTCTTT
66 ACTTTAAAATTCATC-T--TGA-AAAAGCTCTTA
*
17466744 TAGGCAGAGGCTCAACAACTTTAAAAATC
1 TAAGCAGAGGCTCAACAACTTTAAAAATC
17466773 TCATTTGTTC
Statistics
Matches: 186, Mismatches: 19, Indels: 29
0.79 0.08 0.12
Matches are distributed among these distances:
93 20 0.11
94 33 0.18
95 25 0.13
96 69 0.37
97 2 0.01
98 30 0.16
99 7 0.04
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (95 bp):
TAAGCAGAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGATCCTTCTAGGTAGAGGCTCAATA
ACTTTAAAATTCATCTTGAAAAAGCTCTTA
Found at i:17466686 original size:45 final size:45
Alignment explanation
Indices: 17466422--17466770 Score: 206
Period size: 50 Copynumber: 7.4 Consensus size: 45
17466412 TTGAGTAGAT
* * *
17466422 GCTCAACAACTTTTAAAAA--TTTAAATAGGCTCATCTAAGCAGAG
1 GCTCAACAACTTTAAAAAATTTTTAAA-AAGCTCTTCTAAGCAGAG
* * *
17466466 GTTCAACAACTATTAAAAAA--TTTAACAAAGCTCCTCTAAGCAAAG
1 GCTCAACAACT-TTAAAAAATTTTTAA-AAAGCTCTTCTAAGCAGAG
* * * *
17466511 GCTCAACAACTTTAAAATTCAATATCTTAGAAAAACTCCTCTAAACAGAG
1 GCTCAACAACTTTAAAA---AAT-TTTTA-AAAAGCTCTTCTAAGCAGAG
* * * * *
17466561 GCTCAACAACTTTAAAAATCCATCTTGAAAAAGAT-TCTCTTAGTAGAG
1 GCTCAACAACTTTAAAAA---ATTTTTAAAAAGCTCT-TCTAAGCAGAG
* * *
17466609 GCTCAATAACTTT-AAAACTTCATCTTGAAAAAGCTCTTATAAGCAGAG
1 GCTCAACAACTTTAAAAAATT--T-TT-AAAAAGCTCTTCTAAGCAGAG
* * *
17466657 GCTCAACAAATTTAAAAAATTTTTAAAAAGCTCCTTCTAGGTAGAG
1 GCTCAACAACTTTAAAAAATTTTTAAAAAGCT-CTTCTAAGCAGAG
* * ** * * *
17466703 GCTCAATAACTTTAAAATTCATCATCCTAGAAAAGTTCTTTTAGGCAGAG
1 GCTCAACAACTTTAAAA--AAT--TTTTA-AAAAGCTCTTCTAAGCAGAG
17466753 GCTCAACAACTTTAAAAA
1 GCTCAACAACTTTAAAAA
17466771 TCTCATTTGT
Statistics
Matches: 237, Mismatches: 43, Indels: 46
0.73 0.13 0.14
Matches are distributed among these distances:
44 17 0.07
45 45 0.19
46 29 0.12
47 9 0.04
48 53 0.22
49 9 0.04
50 68 0.29
51 7 0.03
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (45 bp):
GCTCAACAACTTTAAAAAATTTTTAAAAAGCTCTTCTAAGCAGAG
Found at i:17470790 original size:15 final size:16
Alignment explanation
Indices: 17470772--17470813 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
17470762 TTATATTAAA
17470772 AATTATTTTTTAAT-T
1 AATTATTTTTTAATAT
17470787 AATTA-TTTTT-ATAT
1 AATTATTTTTTAATAT
17470801 AATTATATTTTTA
1 AATTAT-TTTTTA
17470814 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.09
14 11 0.48
15 5 0.22
16 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTATTTTTTAATAT
Done.