Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 63 of 202
Found at i:18700072 original size:44 final size:43
Alignment explanation
Indices: 18699989--18700468 Score: 201
Period size: 44 Copynumber: 10.9 Consensus size: 43
18699979 GAATACTAGT
* * * * *
18699989 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGGCATC
1 TTCAATCTACTCCACTCT-GCCT-AGGGAGATAAGATCTGGCATC
* **
18700034 TTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATC
1 TTCAATCTACTCCACT-CTGCCTAGGGAGATAAGATCTGGCATC
* * *
18700078 TTTAATCTATTCCACTCTTGCCCAGGGAGAT-AGAATTACTGG---C
1 TTCAATCTACTCCACTC-TGCCTAGGGAGATAAG-A-T-CTGGCATC
* * * * * * * *
18700121 TTCAATGTACTTCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
1 TTCAATCTACTCCACTCT-GCCT-AGGGAGATAAGATCTGGCATC
** * **
18700166 TTTGATCTACTCCACTGCTGTCTAGGGAGATAAGATCTGTAATC
1 TTCAATCTACTCCACT-CTGCCTAGGGAGATAAGATCTGGCATC
* * *
18700210 TTTAATCTATTCCACTGCTGCCCAGGGAGAT-AGAATTACTGG---C
1 TTCAATCTACTCCACT-CTGCCTAGGGAGATAAG-A-T-CTGGCATC
* * * * * * *
18700253 TTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTGCCATC
1 TTCAATCTACTCCACTCT-GCCT-AGGGAGATAAGATCTGGCATC
** * **
18700298 TTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATC
1 TTCAATCTACTCCACT-CTGCCTAGGGAGATAAGATCTGGCATC
* * *
18700342 TTCAATCTATTCCACTGCTGCCCAGGGAGAT-AGAATTATTGG---C
1 TTCAATCTACTCCACT-CTGCCTAGGGAGATAAG-A-T-CTGGCATC
* * * * * *
18700385 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATC
1 TTCAATCTACTCCACTCT-GCCT-AGGGAGATAAGATCTGGCATC
** *
18700430 TTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTG
1 TTCAATCTACTCCACT-CTGCCTAGGGAGATAAGATCTG
18700469 TAATCCTCAT
Statistics
Matches: 316, Mismatches: 87, Indels: 65
0.68 0.19 0.14
Matches are distributed among these distances:
42 10 0.03
43 58 0.18
44 166 0.53
45 70 0.22
46 12 0.04
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (43 bp):
TTCAATCTACTCCACTCTGCCTAGGGAGATAAGATCTGGCATC
Found at i:18700141 original size:132 final size:132
Alignment explanation
Indices: 18699989--18701261 Score: 1779
Period size: 132 Copynumber: 9.7 Consensus size: 132
18699979 GAATACTAGT
* *
18699989 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGGCATCTTCGATCTACTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
* *
18700054 CCTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACT-CTTGCCCAGGGAGATAGAATTACT
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC-TGCCCAGGGAGATAGAATTACT
18700118 GGC
130 GGC
* * *
18700121 TTCAATGTACTTCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTACTCCACTGCTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
*
18700186 TCTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
18700251 GC
131 GC
*
18700253 TTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
*
18700318 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTG
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
18700383 GC
131 GC
18700385 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
* * ** * * * *
18700450 TCTAGGGAGATAAGATCTGTAATCCTCATTCTATTCCACTGCAACTTCAAGGATATAAGACTTA-
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC-CCAGGGAGAT-AGAATTAC
*
18700514 TAGC
129 TGGC
* * * * * * * * * *
18700518 TTCAACTTGT--TCCGCTATGA-CTTA--AAGAT-AAATCGGATGCGATC--TGCTTTACTGCA-
1 TTCAA--TGTACTCCACTGTAACCTCAGGGAGGTAAAATC---TGCCATCTTTGATCTACTCCAC
* * ** * * * * ** * ***
18700574 -ACT-T-TAGAGAAATAAGATCTGTGGT-TTTAATCCACTCCATTGCAACTTCAATAAGATAGGA
61 TACTGTCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC-CCAGGGAGATA-GA
18700635 A-TACTGGC
124 ATTACTGGC
*
18700643 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGGCATCTTTGATCTACTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
* * *
18700708 CCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGCAGATAGAATTACTG
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
18700773 GC
131 GC
* *
18700775 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
* *
18700840 TCTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTGCTCAGGGAGATAGAATTACTG
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
18700905 GC
131 GC
* * *
18700907 TTCAAAGTACTCCACTGTAACTTCAGGGAGGTAAAATCCGCCATCTTTGATCTACTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
18700972 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
18701037 GC
131 GC
*
18701039 TTCAATGTACTCTACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
* *
18701104 TCTAGGAAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCTAGGGAGATAGAATTACTG
66 TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
18701169 GC
131 GC
* * * *
18701171 TTCAATGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
1 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
18701236 -CTTAGGGAGATAAGATCTGTAATCTT
66 TC-TAGGGAGATAAGATCTGTAATCTT
18701262 TGATCTACTT
Statistics
Matches: 1017, Mismatches: 99, Indels: 50
0.87 0.08 0.04
Matches are distributed among these distances:
123 3 0.00
124 3 0.00
125 40 0.04
126 25 0.02
127 1 0.00
128 15 0.01
129 10 0.01
130 15 0.01
131 4 0.00
132 855 0.84
133 37 0.04
134 6 0.01
135 3 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTG
TCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTG
GC
Found at i:18700413 original size:88 final size:88
Alignment explanation
Indices: 18700033--18700461 Score: 229
Period size: 88 Copynumber: 4.9 Consensus size: 88
18700023 AATCTGGCAT
* * * *
18700033 CTTCGATCTACTCCACTACTGCCT-AGGGAGATAAGATCTGTAATCTTTAATCTATTCCACT-CT
1 CTTCAATCTACTCCACT-GTACCTCAGGGAGATAAGATCTGTAATCTTTAATCTACTCCACTGC-
18700096 TGCCCAGGGAGATAGAAT-TACTGG
64 TGCCCAGGGAGATAGAATCTACTGG
* * * * * ** *
18700120 CTTCAATGTACTTCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTTGATCTACTCCACTGCT
1 CTTCAATCTACTCCACTGT-ACCTCAGGGAGATAAGATCTGTAATCTTTAATCTACTCCACTGCT
* * *
18700185 GTCTAGGGAGATA-AGATCTGTAAT--
65 GCCCAGGGAGATAGA-ATC--TACTGG
* * * * * * *
18700209 CTTTAATCTATTCCACTGCTGCC-CAGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG-TACCTCAGGGAGATAAGATCTGTAAT--CTTTAATCTACTCCACTG
* * * * * ***
18700270 -TAACCTCAAGGAGGTAAAATCTGCCAT
63 CT-GCC-CAGGGAGATAGAATCTACTGG
** * * *
18700297 CTTTGATCTACTCCAC--TACTGTCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC
1 CTTCAATCTACTCCACTGTAC-CTC-AGGGAGATAAGATCTGTAATCTTTAATCTACTCCACTGC
*
18700360 TGCCCAGGGAGATAGAAT-TATTGG
64 TGCCCAGGGAGATAGAATCTACTGG
* * * ** * *
18700384 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACT
1 CTTCAATCTACTCCACTGT-ACCTCAGGGAGATAAGATCTGTAATCTTTAATCTACTCCACTGCT
* *
18700449 GTCTAGGGAGATA
65 GCCCAGGGAGATA
18700462 AGATCTGTAA
Statistics
Matches: 248, Mismatches: 69, Indels: 49
0.68 0.19 0.13
Matches are distributed among these distances:
85 3 0.01
86 3 0.01
87 51 0.21
88 138 0.56
89 42 0.17
90 5 0.02
91 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (88 bp):
CTTCAATCTACTCCACTGTACCTCAGGGAGATAAGATCTGTAATCTTTAATCTACTCCACTGCTG
CCCAGGGAGATAGAATCTACTGG
Found at i:18701078 original size:654 final size:654
Alignment explanation
Indices: 18699830--18701145 Score: 2434
Period size: 654 Copynumber: 2.0 Consensus size: 654
18699820 TTTAATCTGC
18699830 TCCACTGCAACTTCAAGGAGATAAGACTTATAGCTTCAACTTGTTCCACTATGACTTAAAGATAA
1 TCCACTGCAACTTCAAGGAGATAAGACTTATAGCTTCAACTTGTTCCACTATGACTTAAAGATAA
18699895 ATCGGATGCGATCTGCTTTACTGCAACTTTAGAGAAATAAGATCTGTGGTTTTAATCCACTACAT
66 ATCGGATGCGATCTGCTTTACTGCAACTTTAGAGAAATAAGATCTGTGGTTTTAATCCACTACAT
*
18699960 TGCAACTTCAATAAGATAGGAATACTAGTTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
131 TGCAACTTCAATAAGATAGGAATACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
*
18700025 TCTGGCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTTAATCTATTC
196 TCTGGCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
* *
18700090 CACTCTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTTCACTGTAACCTCAGGGAGGTAA
261 CACTCTTGCCCAGGCAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAA
*
18700155 AATCCGCCATCTTTGATCTACTCCACTGCTGTCTAGGGAGATAAGATCTGTAATCTTTAATCTAT
326 AATCCGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTTAATCTAT
*
18700220 TCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAAGGAGGT
391 TCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAAAGTACTCCACTGTAACCTCAAGGAGGT
*
18700285 AAAATCTGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTCAATCT
456 AAAATCCGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTCAATCT
*
18700350 ATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
521 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
* *
18700415 GTAAAATCTGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCCTCATT
586 GTAAAATCTGCCATCTTTGATCTACTCCACTACTGTCTAGGAAGATAAGATCTGTAATCCTCAAT
18700480 CTAT
651 CTAT
* *
18700484 TCCACTGCAACTTCAAGGATATAAGACTTATAGCTTCAACTTGTTCCGCTATGACTTAAAGATAA
1 TCCACTGCAACTTCAAGGAGATAAGACTTATAGCTTCAACTTGTTCCACTATGACTTAAAGATAA
*
18700549 ATCGGATGCGATCTGCTTTACTGCAACTTTAGAGAAATAAGATCTGTGGTTTTAATCCACTCCAT
66 ATCGGATGCGATCTGCTTTACTGCAACTTTAGAGAAATAAGATCTGTGGTTTTAATCCACTACAT
*
18700614 TGCAACTTCAATAAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
131 TGCAACTTCAATAAGATAGGAATACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
*
18700679 TCTGGCATCTTTGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
196 TCTGGCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
*
18700744 CACTGTTGCCCAGGCAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAA
261 CACTCTTGCCCAGGCAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAA
*
18700809 AATCCGCCATCTTTGATCTGCTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTTAATCTAT
326 AATCCGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTTAATCTAT
* * *
18700874 TCCACTGCTGCTCAGGGAGATAGAATTACTGGCTTCAAAGTACTCCACTGTAACTTCAGGGAGGT
391 TCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAAAGTACTCCACTGTAACCTCAAGGAGGT
18700939 AAAATCCGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTCAATCT
456 AAAATCCGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTCAATCT
*
18701004 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCTCAGGGAG
521 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
*
18701069 GTAAAATCTGCCATCTTTGATCTACTCCACTACTGTCTAGGAAGATAAGATCTGTAATCTTCAAT
586 GTAAAATCTGCCATCTTTGATCTACTCCACTACTGTCTAGGAAGATAAGATCTGTAATCCTCAAT
18701134 CTAT
651 CTAT
18701138 TCCACTGC
1 TCCACTGC
18701146 TGCCTAGGGA
Statistics
Matches: 640, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
654 640 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (654 bp):
TCCACTGCAACTTCAAGGAGATAAGACTTATAGCTTCAACTTGTTCCACTATGACTTAAAGATAA
ATCGGATGCGATCTGCTTTACTGCAACTTTAGAGAAATAAGATCTGTGGTTTTAATCCACTACAT
TGCAACTTCAATAAGATAGGAATACTAGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA
TCTGGCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTC
CACTCTTGCCCAGGCAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAA
AATCCGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTTAATCTAT
TCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAAAGTACTCCACTGTAACCTCAAGGAGGT
AAAATCCGCCATCTTTGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGTAATCTTCAATCT
ATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAG
GTAAAATCTGCCATCTTTGATCTACTCCACTACTGTCTAGGAAGATAAGATCTGTAATCCTCAAT
CTAT
Found at i:18701368 original size:89 final size:89
Alignment explanation
Indices: 18701247--18702980 Score: 1288
Period size: 89 Copynumber: 19.6 Consensus size: 89
18701237 TTAGGGAGAT
* * * * *
18701247 AAGATCTGTAATCTTTGATCTACTTTAAGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
*
18701312 ACTTCACCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * * *
18701336 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGGTCTGTTTTTTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * *
18701401 ACTCCACCACTAGTATGGGGAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
** * *
18701425 AAGATCTGTCGTCTTTGATCTA-TTACACGCCA--A-ATGAAGACAAGATCTATTTT-TTTGATC
1 AAGATCTGTTATCTTTGATCTACTT-CACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATC
** *
18701485 TGTTTCGCCACCAGTACGGGAA-ACC
65 TACTTCGCCACCAGTATGGGAAGA-C
* * *
18701510 AAGATCTGTTATCTTTGATCTACTCCACGCCAGTACACGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * *
18701575 GCTTCACCACCAGTATGGGAAGGC
66 ACTTCGCCACCAGTATGGGAAGAC
* *
18701599 AAGATCTGTTATCTTTGCTCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* *
18701664 ACTTTGCCACCAGTATAGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * *
18701688 AAGACCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * * **
18701753 GCTTCGCCGCTAGTATGAGAAGGT
66 ACTTCGCCACCAGTATGGGAAGAC
* *
18701777 AAGATCTGTTATCTTTGATCTATTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATTT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
*
18701842 ACTTTGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * *
18701866 AAGATCTGGTATCTTTGATCCACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * **
18701931 GCTTCGCCGCCAGTATGGGAAGGT
66 ACTTCGCCACCAGTATGGGAAGAC
18701955 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
18702020 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * *
18702044 AAGATCTGGTATTTTTGATATACTTCACGCCAGTACATGAAGACAAGATCTGTTCTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* *
18702109 ACTCCACCACCAGTAT-GGAGAGAC
66 ACTTCGCCACCAGTATGGGA-AGAC
* * * * * *
18702133 AAGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGACAAGATTTGCTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * * ***
18702198 ACTTC-ACGCCAATACATGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * *** * ** *
18702221 AATG-TCTGTTGT-TTTCGATCTAC-TCTACCACCAGTATGGGGAGACAAGATCTGTCGTCTTTG
1 AA-GATCTGTTATCTTT-GATCTACTTC-A-CGCCAGTACATGAAGACAAGATCTGTTTTCTTCG
* * *
18702283 ATCTA-TTAC-ACGCCA-AAT--GAAGAC
62 ATCTACTT-CGCCACCAGTATGGGAAGAC
* * ** * * ** * *
18702307 AAGATCTATT-TTTTTGATCTGTTTCGCCACCAGTACGGGAA-ACCAAGATCTGTTATCTTTGAT
1 AAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGA-CAAGATCTGTTTTCTTCGAT
* ***
18702370 CTAC-TC-CACGCCAGTACACGAAGAC
64 CTACTTCGC-CACCAGTATGGGAAGAC
* * * * * **
18702395 AAGATCTGCTT-TCTTCGATCTGCTTCACCACCAGT--ATGGAAAGGCAAGATCTGTTATCTTTA
1 AAGATCTG-TTATCTTTGATCTACTTCA-CGCCAGTACAT-G-AAGACAAGATCTGTTTTCTTCG
* * ***
18702457 ATCTACTTC-ACGCCAGTACATGAAGAC
62 ATCTACTTCGCCACCAGTATGGGAAGAC
* * * * * * * * *
18702484 AAGATCTGTTTTCTTCGATCTGCTT--TGCCACTAGTATGGGAAGACAAGATCTGGTATCTTTGA
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTA-CAT--GAAGACAAGATCTGTTTTCTTCGA
* *
18702547 TCTACTTC-ACGCCAGTCCAT--GAAGAC
63 TCTACTTCGCCACCAGT--ATGGGAAGAC
* * * * *** ** * *
18702573 AAGATCTATT-TTTTTCGATCTGCTTCGCCGCCAGTATGGGAAGGTAAGATCTGTTATCTTTGAT
1 AAGATCTGTTATCTTT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGAT
* * ***
18702637 CTACTTC-ACGCCAGTACATGAAGAC
64 CTACTTCGCCACCAGTATGGGAAGAC
* * * *** * * *
18702662 AAGATCTGTTTTCTTCGATCTACTTTGC-CACCAGTATGGGAAGACAAGATCTGGTATCTTTGAT
1 AAGATCTGTTATCTTTGATCTAC-TT-CACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGAT
* * ***
18702726 CTACTTC-ACGCCAGTACATGAAGAC
64 CTACTTCGCCACCAGTATGGGAAGAC
* * * * * * ** * * **
18702751 AAGATCTGTTTTCTTCGATCTGCTTCGCCGCCAGTATAGGAAGGTAAGATATGTTATCTTTAATC
1 AAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATC
** * ***
18702816 TACTT-AACGCCAGTACATGAAGAC
65 TACTTCGCCACCAGTATGGGAAGAC
* * * * *** * * *
18702840 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATC
1 AAGATCTGTTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATC
* * ***
18702905 TACTTC-ACGCCAGTACATGAAGAC
65 TACTTCGCCACCAGTATGGGAAGAC
* * * * ***
18702929 AAGATCTGTTCTCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCT
1 AAGATCTGTTATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCT
18702981 ACTGCTACTC
Statistics
Matches: 1402, Mismatches: 192, Indels: 102
0.83 0.11 0.06
Matches are distributed among these distances:
84 3 0.00
85 95 0.07
86 42 0.03
87 8 0.01
88 72 0.05
89 1164 0.83
90 9 0.01
91 3 0.00
92 6 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (89 bp):
AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGAC
Found at i:18702868 original size:841 final size:842
Alignment explanation
Indices: 18701285--18702980 Score: 3072
Period size: 841 Copynumber: 2.0 Consensus size: 842
18701275 GCCAATACAT
* * **
18701285 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTATCT
* *
18701350 TCGATCTACTTCACGCCAATACATGAAGACAAGGTCTGTTTTTTTCGATCTACTCCACCACTAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGGTCTGTTGTTTTCGATCTACTCCACCACCAGT
18701415 ATGGGGAGACAAGATCTGTCGTCTTTGATCTATTACACGCCAAATGAAGACAAGATCTATTTTTT
131 ATGGGGAGACAAGATCTGTCGTCTTTGATCTATTACACGCCAAATGAAGACAAGATCTATTTTTT
18701480 TGATCTGTTTCGCCACCAGTACGGGAAACCAAGATCTGTTATCTTTGATCTACTCCACGCCAGTA
196 TGATCTGTTTCGCCACCAGTACGGGAAACCAAGATCTGTTATCTTTGATCTACTCCACGCCAGTA
*
18701545 CACGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCTGTTA
261 CACGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCACCAGTATGGAAAGGCAAGATCTGTTA
** *
18701610 TCTTTGCTCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACC
326 TCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACC
18701675 AGTATAGGAAGACAAGACCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTA
391 AGTATAGGAAGACAAGACCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTA
* *
18701740 TTTTCTTCGATCTGCTTCGCCGCTAGTATGAGAAGGTAAGATCTGTTATCTTTGATCTATTTCAC
456 TTTTCTTCGATCTGCTTCGCCGCCAGTATGAGAAGGTAAGATCTGTTATCTTTGATCTACTTCAC
*
18701805 GCCAGTACATGAAGACAAGATCTGTTTTCTTCGATTTACTTTGCCACCAGTATGGGAAGACAAGA
521 GCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGA
18701870 TCTGGTATCTTTGATCCACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTGCTT
586 TCTGGTATCTTTGATCCACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTGCTT
* * * *
18701935 CGCCGCCAGTATGGGAAGGTAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACA
651 CGCCGCCAGTATAGGAAGGTAAGATATGTTATCTTTAATCTACTTAACGCCAGTACATGAAGACA
*
18702000 AGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATTTTTGATAT
716 AGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATAT
18702065 ACTTCACGCCAGTACATGAAGACAAGATCTGTTCTCTTCGATCTACTCCACCACCAGTAT-G
781 ACTTCACGCCAGTACATGAAGACAAGATCTGTTCTCTTCGATCTACTCCACCACCAGTATGG
* * *
18702126 GAGAGACAAGATCTGCTATCTTCGATCTACTTCA-CACCAATACATGAAGACAAGATTTGCTTTC
1 GA-AGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTATC
* *
18702190 TTCGATCTACTTCACGCCAATACATGAAGACAATGTCTGTTGTTTTCGATCTACTCTACCACCAG
65 TTCGATCTACTTCACGCCAATACATGAAGACAAGGTCTGTTGTTTTCGATCTACTCCACCACCAG
18702255 TATGGGGAGACAAGATCTGTCGTCTTTGATCTATTACACGCCAAATGAAGACAAGATCTATTTTT
130 TATGGGGAGACAAGATCTGTCGTCTTTGATCTATTACACGCCAAATGAAGACAAGATCTATTTTT
18702320 TTGATCTGTTTCGCCACCAGTACGGGAAACCAAGATCTGTTATCTTTGATCTACTCCACGCCAGT
195 TTGATCTGTTTCGCCACCAGTACGGGAAACCAAGATCTGTTATCTTTGATCTACTCCACGCCAGT
18702385 ACACGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCACCAGTATGGAAAGGCAAGATCTGTT
260 ACACGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCACCAGTATGGAAAGGCAAGATCTGTT
*
18702450 ATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTTGCCAC
325 ATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCAC
* * * *
18702515 TAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTCCATGAAGACAAGATCT
390 CAGTATAGGAAGACAAGACCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT
* *
18702580 ATTTTTTTCGATCTGCTTCGCCGCCAGTATGGGAAGGTAAGATCTGTTATCTTTGATCTACTTCA
455 ATTTTCTTCGATCTGCTTCGCCGCCAGTATGAGAAGGTAAGATCTGTTATCTTTGATCTACTTCA
18702645 CGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAG
520 CGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAG
* *
18702710 ATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCT
585 ATCTGGTATCTTTGATCCACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTGCT
18702775 TCGCCGCCAGTATAGGAAGGTAAGATATGTTATCTTTAATCTACTTAACGCCAGTACATGAAGAC
650 TCGCCGCCAGTATAGGAAGGTAAGATATGTTATCTTTAATCTACTTAACGCCAGTACATGAAGAC
*
18702840 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATC
715 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATA
18702905 TACTTCACGCCAGTACATGAAGACAAGATCTGTTCTCTTCGATCTACTCCACCACCAGTATGG
780 TACTTCACGCCAGTACATGAAGACAAGATCTGTTCTCTTCGATCTACTCCACCACCAGTATGG
18702968 GAAGACAAGATCT
1 GAAGACAAGATCT
18702981 ACTGCTACTC
Statistics
Matches: 820, Mismatches: 33, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
841 787 0.96
842 33 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (842 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTATCT
TCGATCTACTTCACGCCAATACATGAAGACAAGGTCTGTTGTTTTCGATCTACTCCACCACCAGT
ATGGGGAGACAAGATCTGTCGTCTTTGATCTATTACACGCCAAATGAAGACAAGATCTATTTTTT
TGATCTGTTTCGCCACCAGTACGGGAAACCAAGATCTGTTATCTTTGATCTACTCCACGCCAGTA
CACGAAGACAAGATCTGCTTTCTTCGATCTGCTTCACCACCAGTATGGAAAGGCAAGATCTGTTA
TCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACC
AGTATAGGAAGACAAGACCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTA
TTTTCTTCGATCTGCTTCGCCGCCAGTATGAGAAGGTAAGATCTGTTATCTTTGATCTACTTCAC
GCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGA
TCTGGTATCTTTGATCCACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTGCTT
CGCCGCCAGTATAGGAAGGTAAGATATGTTATCTTTAATCTACTTAACGCCAGTACATGAAGACA
AGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATAT
ACTTCACGCCAGTACATGAAGACAAGATCTGTTCTCTTCGATCTACTCCACCACCAGTATGG
Found at i:18704245 original size:14 final size:14
Alignment explanation
Indices: 18704226--18704274 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
18704216 CCCTAGCCTC
18704226 TCCATTTTACTTTT
1 TCCATTTTACTTTT
*
18704240 TCCATTTT-C-ATT
1 TCCATTTTACTTTT
18704252 TCTCATTTTCACTTTT
1 TC-CATTTT-ACTTTT
18704268 T-CATTTT
1 TCCATTTT
18704275 TTCATTTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 4 0.14
13 7 0.24
14 14 0.48
15 1 0.03
16 3 0.10
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.63
Consensus pattern (14 bp):
TCCATTTTACTTTT
Found at i:18704260 original size:13 final size:13
Alignment explanation
Indices: 18704238--18704290 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
18704228 CATTTTACTT
18704238 TTTC-CATTTTCA
1 TTTCTCATTTTCA
18704250 TTTCTCATTTTCA
1 TTTCTCATTTTCA
*
18704263 CTTTTTCATTTTTTCA
1 -TTTCTCA--TTTTCA
18704279 TTTCATCATTTT
1 TTTC-TCATTTT
18704291 TATGACTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.12
13 8 0.24
14 10 0.29
15 3 0.09
16 9 0.26
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTCTCATTTTCA
Found at i:18704276 original size:16 final size:16
Alignment explanation
Indices: 18704244--18704291 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
18704234 ACTTTTTCCA
18704244 TTTTCATTTC-TCA--
1 TTTTCATTTCATCATT
*
18704257 TTTTCACTTT-TTCATT
1 TTTTCA-TTTCATCATT
18704273 TTTTCATTTCATCATT
1 TTTTCATTTCATCATT
18704289 TTT
1 TTT
18704292 ATGACTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 3 0.10
16 14 0.48
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCATTTCATCATT
Found at i:18705250 original size:23 final size:23
Alignment explanation
Indices: 18705220--18705268 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
18705210 ATAGTTTGGC
18705220 AGAAAAAAACCCAAAAGAATGAA
1 AGAAAAAAACCCAAAAGAATGAA
* **
18705243 AG-AAAAAATCGTAAAGAATGAA
1 AGAAAAAAACCCAAAAGAATGAA
18705265 AGAA
1 AGAA
18705269 CATTTGCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.67, C:0.08, G:0.16, T:0.08
Consensus pattern (23 bp):
AGAAAAAAACCCAAAAGAATGAA
Found at i:18707240 original size:13 final size:13
Alignment explanation
Indices: 18707222--18707246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18707212 ATGTTCAATT
18707222 TTTACTAGAAAAC
1 TTTACTAGAAAAC
18707235 TTTACTAGAAAA
1 TTTACTAGAAAA
18707247 TAAATCTCTT
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:18712204 original size:2 final size:2
Alignment explanation
Indices: 18712197--18712227 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18712187 ATCCATGCAC
18712197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18712228 CTTCTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18712443 original size:22 final size:23
Alignment explanation
Indices: 18712418--18712463 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
18712408 TATATACCTA
18712418 TATACATACATATTT-TAATTTT
1 TATACATACATATTTCTAATTTT
* *
18712440 TATATATACATATTTCTATTTTT
1 TATACATACATATTTCTAATTTT
18712463 T
1 T
18712464 TCATATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (23 bp):
TATACATACATATTTCTAATTTT
Found at i:18715884 original size:13 final size:14
Alignment explanation
Indices: 18715868--18715906 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
18715858 TAACTTTTTC
18715868 TTTTCAAAAA-TAT
1 TTTTCAAAAAGTAT
18715881 TTTTCAAAAAAGTAT
1 TTTTC-AAAAAGTAT
18715896 TTTT-AAAAAGT
1 TTTTCAAAAAGT
18715907 CAAAAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 5 0.21
15 7 0.29
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (14 bp):
TTTTCAAAAAGTAT
Found at i:18715896 original size:15 final size:14
Alignment explanation
Indices: 18715868--18715904 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
18715858 TAACTTTTTC
18715868 TTTTC-AAAAATAT
1 TTTTCAAAAAATAT
18715881 TTTTCAAAAAAGTAT
1 TTTTCAAAAAA-TAT
18715896 TTTT-AAAAA
1 TTTTCAAAAA
18715905 GTCAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 10 0.45
15 7 0.32
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (14 bp):
TTTTCAAAAAATAT
Found at i:18717149 original size:13 final size:13
Alignment explanation
Indices: 18717131--18717159 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18717121 ATGTCGGGTA
18717131 GATTACATATTAG
1 GATTACATATTAG
18717144 GATTACATATTAG
1 GATTACATATTAG
18717157 GAT
1 GAT
18717160 CAAAAGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (13 bp):
GATTACATATTAG
Found at i:18720751 original size:2 final size:2
Alignment explanation
Indices: 18720701--18720731 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18720691 NNNNNNNNNN
18720701 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18720732 TCGGCTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18728203 original size:41 final size:41
Alignment explanation
Indices: 18728144--18728329 Score: 309
Period size: 41 Copynumber: 4.5 Consensus size: 41
18728134 TTTAACATAT
** * *
18728144 TCACCGGCATTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
18728185 TCACCGGCACGTATCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
18728226 TCACCGGCACGTAGCCTGCTAGGTTTATAACTTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
18728267 TCACTGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
18728308 TCACCGGCACGTAGCCTGCTAG
1 TCACCGGCACGTAGCCTGCTAG
18728330 ACTTAAAGTC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (41 bp):
TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:18728353 original size:82 final size:82
Alignment explanation
Indices: 18728144--18728358 Score: 301
Period size: 82 Copynumber: 2.6 Consensus size: 82
18728134 TTTAACATAT
** * * * *
18728144 TCACCGGCATTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACGTATCCTGCTAGGT
1 TCACCGGCACGTAGCCTGCTAGGCTTAAAGTCTGATTCAGATCACTGGCACGTAGCCTGCTAGGT
18728209 TTATAACCTGATTCAGA
66 TTATAACCTGATTCAGA
* *
18728226 TCACCGGCACGTAGCCTGCTAGGTTTATAACT-TGATTCAGATCACTGGCACGTAGCCTGCTAGG
1 TCACCGGCACGTAGCCTGCTAGGCTTA-AAGTCTGATTCAGATCACTGGCACGTAGCCTGCTAGG
18728290 TTTATAACCTGATTCAGA
65 TTTATAACCTGATTCAGA
*
18728308 TCACCGGCACGTAGCCTGCTAGACTTAAAGTCTGAATT-A-ATTCACTGGCAC
1 TCACCGGCACGTAGCCTGCTAGGCTTAAAGTCTG-ATTCAGA-TCACTGGCAC
18728359 TACATCCGCT
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
81 4 0.03
82 110 0.93
83 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (82 bp):
TCACCGGCACGTAGCCTGCTAGGCTTAAAGTCTGATTCAGATCACTGGCACGTAGCCTGCTAGGT
TTATAACCTGATTCAGA
Found at i:18728770 original size:2 final size:2
Alignment explanation
Indices: 18728763--18728815 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
18728753 AAAATTCAAC
** * *
18728763 AT AT AT AT AT AT AT AT AT AT AT AT AT -T CGG CT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
18728805 AT AT AT AT AT A
1 AT AT AT AT AT A
18728816 AATAGAATCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:18729275 original size:41 final size:41
Alignment explanation
Indices: 18729218--18729403 Score: 318
Period size: 41 Copynumber: 4.5 Consensus size: 41
18729208 TTTAACATAT
* * * *
18729218 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
18729259 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
18729300 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
18729341 TCACTGGCACGTAGTCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
18729382 TCACCGGCACGTAGCCTGCTAG
1 TCACCGGCACGTAGCCTGCTAG
18729404 ACTTAAAGTC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 137 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (41 bp):
TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:18729427 original size:82 final size:82
Alignment explanation
Indices: 18729218--18729432 Score: 310
Period size: 82 Copynumber: 2.6 Consensus size: 82
18729208 TTTAACATAT
* * * *
18729218 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACGTAGCCTGCTAGGT
1 TCACCGGCACGTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACTGGCACGTAGCCTGCTAGGT
18729283 TTATAACCTGATTCAGA
66 TTATAACCTGATTCAGA
* *
18729300 TCACCGGCACGTAGCCTGCTAGGTTTATAA-CCTGATTCAGATCACTGGCACGTAGTCTGCTAGG
1 TCACCGGCACGTAGCCTGCTAGGCTTA-AAGCCTGATTCAGATCACTGGCACGTAGCCTGCTAGG
18729364 TTTATAACCTGATTCAGA
65 TTTATAACCTGATTCAGA
* *
18729382 TCACCGGCACGTAGCCTGCTAGACTTAAAGTCTGAATT-A-ATTCACTGGCAC
1 TCACCGGCACGTAGCCTGCTAGGCTTAAAGCCTG-ATTCAGA-TCACTGGCAC
18729433 TACATCCGCT
Statistics
Matches: 120, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
81 3 0.03
82 113 0.94
83 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (82 bp):
TCACCGGCACGTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACTGGCACGTAGCCTGCTAGGT
TTATAACCTGATTCAGA
Found at i:18734740 original size:2 final size:2
Alignment explanation
Indices: 18734735--18734759 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18734725 ACACACACAC
18734735 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
18734760 CATAATTTTC
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:18738530 original size:40 final size:39
Alignment explanation
Indices: 18738471--18738581 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 39
18738461 GTTTGGATAA
18738471 AAAAAGCCACTAAAGATCGAGCATTAGCGGCGCTTCT-TGG
1 AAAAAGCCACTAAA-ATCGAGCATTAGCGGCGCTT-TATGG
* * *
18738511 AAAATGCCGCTAAATATCGAGTATTAGCGGCGCTTTATGG
1 AAAAAGCCACTAAA-ATCGAGCATTAGCGGCGCTTTATGG
* * * *
18738551 AAAACGCCTCTAAAAACAAGCATTAGCGGCG
1 AAAAAGCCACTAAAATCGAGCATTAGCGGCG
18738582 TTTCCCAGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 15 0.25
40 46 0.75
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (39 bp):
AAAAAGCCACTAAAATCGAGCATTAGCGGCGCTTTATGG
Found at i:18738707 original size:41 final size:41
Alignment explanation
Indices: 18738646--18739071 Score: 593
Period size: 41 Copynumber: 10.3 Consensus size: 41
18738636 TTCAAGGATA
* *
18738646 TAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
* *
18738687 TAGTGGCATTTTTGGGAAAGCGCCGCTTTAATGCTCAGGGCTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGC--TAATGCTCAGGGCTT
* * * *
18738730 TAGCGGTGTTTTTGGAAAAGCGCCGCTAATACTTAGGGCTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
* * *
18738771 TAGCGGCGTTTTTGGGAAAGCACAGCTAATGCTTAGGGCTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
* *
18738812 TAGCGGCGTTTTTTGGAAAGCGCCGCTAATGCTCAGGGATT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
* * * *
18738853 TAACGGTGTTTTTGGGAAAGCACCGTTAATGCTCAGGGCTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
*
18738894 TAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCAGGGCTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
*
18738935 TAGCGGCGATTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
* * * *
18738976 TAGCGGCG-TTTTGGGAAGGCACTGCTAATGCTCAGGGTTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
* *
18739016 TAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTTAGGGCTTT
1 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGC-TT
18739058 TAGCGGCGTTTTTG
1 TAGCGGCGTTTTTG
18739072 ATAAAACGCT
Statistics
Matches: 339, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
40 36 0.11
41 251 0.74
42 15 0.04
43 37 0.11
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGGCTT
Found at i:18739107 original size:82 final size:81
Alignment explanation
Indices: 18738646--18739140 Score: 523
Period size: 82 Copynumber: 6.0 Consensus size: 81
18738636 TTCAAGGATA
* * * * * *
18738646 TAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGTGGCATTTTTGGGAAAGCGCC
1 TAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTCA-GGTTTTAGCGGCGTTTTTGGGAAAGCGCC
18738711 GCTTTAATGCTCAGGGCTT
65 GC--TAATGCTCAGGGCTT
* * * * * * * *
18738730 TAGCGGTGTTTTTGGAAAAGCGCCGCTAATACTTAGGGCTTTAGCGGCGTTTTTGGGAAAGCACA
1 TAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTCA-GGTTTTAGCGGCGTTTTTGGGAAAGCGCC
*
18738795 GCTAATGCTTAGGGCTT
65 GCTAATGCTCAGGGCTT
* * * * * *
18738812 TAGCGGCGTTTTTTGGAAAGCGCCGCTAATGCTCAGGGATTTAACGGTGTTTTTGGGAAAGCACC
1 TAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTCA-GGTTTTAGCGGCGTTTTTGGGAAAGCGCC
*
18738877 GTTAATGCTCAGGGCTT
65 GCTAATGCTCAGGGCTT
* *
18738894 TAGCGGCGTTTTTGGGAAAGCG-TCGCTAATGCTCAGGGCTTTAGCGGCGATTTTGGGAAAGCGC
1 TAGCGGCGTTTTTGGGAAAGCGCT-GCTAATGCTCA-GGTTTTAGCGGCGTTTTTGGGAAAGCGC
18738958 CGCTAATGCTCAGGGCTT
64 CGCTAATGCTCAGGGCTT
* * *
18738976 TAGCGGCG-TTTTGGGAAGGCACTGCTAATGCTCAGGGTTTTAGCGGCGTTTTTAGGAAAGCGCC
1 TAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTCA-GGTTTTAGCGGCGTTTTTGGGAAAGCGCC
*
18739040 GCTAATGCTTAGGGCTTT
65 GCTAATGCTCAGGGC-TT
** * * **
18739058 TAGCGGCGTTTTTGATAAAACGCTG-TGAATGCTCTA-TTTTTAGCGGCGTTTTCT-AAAAAGCG
1 TAGCGGCGTTTTTGGGAAAGCGCTGCT-AATGCTC-AGGTTTTAGCGGCGTTTT-TGGGAAAGCG
* *
18739120 CCGCTAATGCCCAGGGATT
63 CCGCTAATGCTCAGGGCTT
18739139 TA
1 TA
18739141 AAATAATTTA
Statistics
Matches: 357, Mismatches: 47, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
81 67 0.19
82 213 0.60
83 19 0.05
84 58 0.16
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (81 bp):
TAGCGGCGTTTTTGGGAAAGCGCTGCTAATGCTCAGGTTTTAGCGGCGTTTTTGGGAAAGCGCCG
CTAATGCTCAGGGCTT
Found at i:18739129 original size:40 final size:40
Alignment explanation
Indices: 18738646--18739129 Score: 247
Period size: 41 Copynumber: 11.8 Consensus size: 40
18738636 TTCAAGGATA
* *
18738646 TAGCGGCATTTTT-GAGAAAGCGCCGCTAATGCTCAGGGC-TT
1 TAGCGGCGTTTTTAGA-AAAGCGCCGCTAATGCTTA--GCTTT
* * * * *
18738687 TAGTGGCATTTTTGGGAAAGCGCCGCTTTAATGCTCAGGGC-TT
1 TAGCGGCGTTTTTAGAAAAGCGCCGC--TAATGCTTA--GCTTT
* * *
18738730 TAGCGGTGTTTTTGGAAAAGCGCCGCTAATACTTAGGGC-TT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA--GCTTT
* * * *
18738771 TAGCGGCGTTTTTGGGAAAGCACAGCTAATGCTTAGGGC-TT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA--GCTTT
* * * **
18738812 TAGCGGCGTTTTTTGGAAAGCGCCGCTAATGCTCAGGGATT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA-GCTTT
* * * * * * *
18738853 TAACGGTGTTTTTGGGAAAGCACCGTTAATGCTCAGGGC-TT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA--GCTTT
* * * *
18738894 TAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCAGGGC-TT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA--GCTTT
* * * *
18738935 TAGCGGCGATTTTGGGAAAGCGCCGCTAATGCTCAGGGC-TT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA--GCTTT
* * * * * * *
18738976 TAGCGGCG-TTTTGGGAAGGCACTGCTAATGCTCAGGGTTT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA-GCTTT
*
18739016 TAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTTAGGGCTTT
1 TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTA--GCTTT
* * *
18739058 TAGCGGCGTTTTT-GATAAAACGCTG-TGAATGCTCTA-TTTT
1 TAGCGGCGTTTTTAGA-AAAGCGCCGCT-AATGCT-TAGCTTT
18739098 TAGCGGCGTTTTCTA-AAAAGCGCCGCTAATGC
1 TAGCGGCGTTTT-TAGAAAAGCGCCGCTAATGC
18739130 CCAGGGATTT
Statistics
Matches: 382, Mismatches: 47, Indels: 29
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 62 0.16
41 245 0.64
42 34 0.09
43 39 0.10
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (40 bp):
TAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTAGCTTT
Found at i:18739332 original size:14 final size:14
Alignment explanation
Indices: 18739313--18739488 Score: 142
Period size: 14 Copynumber: 12.4 Consensus size: 14
18739303 TATCACTAGA
*
18739313 GTTTAGGGTTTTTG
1 GTTTAGGGTTTATG
* *
18739327 GTTTAGGATATATG
1 GTTTAGGGTTTATG
*
18739341 GTTTAGAGTTTATG
1 GTTTAGGGTTTATG
* *
18739355 GTTTATGGATTATGG
1 GTTTAGGGTTTAT-G
*
18739370 GTTTAGGGGTTATG
1 GTTTAGGGTTTATG
*
18739384 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
* *
18739398 GTTTATGGTTTAAAG
1 GTTTAGGGTTT-ATG
* * *
18739413 G-CTGGGGTTTAAG
1 GTTTAGGGTTTATG
18739426 GTTTAGAGG-TTATG
1 GTTTAG-GGTTTATG
*
18739440 TGTTAAGGGTTTATG
1 -GTTTAGGGTTTATG
*
18739455 GTTTTAGGGTTTA-A
1 G-TTTAGGGTTTATG
*
18739469 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
18739483 GTTTAG
1 GTTTAG
18739489 ATTAACTAGT
Statistics
Matches: 128, Mismatches: 26, Indels: 16
0.75 0.15 0.09
Matches are distributed among these distances:
13 14 0.11
14 77 0.60
15 37 0.29
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.48
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:18739358 original size:7 final size:7
Alignment explanation
Indices: 18739313--18739487 Score: 108
Period size: 7 Copynumber: 24.7 Consensus size: 7
18739303 TATCACTAGA
*
18739313 GTTTAGG
1 GTTTATG
*
18739320 GTTTTTG
1 GTTTATG
18739327 GTTTA-G
1 GTTTATG
*
18739333 GATATATG
1 G-TTTATG
18739341 GTTTA-G
1 GTTTATG
18739347 AGTTTATG
1 -GTTTATG
18739355 GTTTATG
1 GTTTATG
*
18739362 GATTATGG
1 GTTTAT-G
*
18739370 GTTTAGG
1 GTTTATG
*
18739377 GGTTATG
1 GTTTATG
18739384 GTTTATG
1 GTTTATG
18739391 GTTTATG
1 GTTTATG
18739398 GTTTATG
1 GTTTATG
*
18739405 GTTTAAAG
1 GTTT-ATG
* **
18739413 G-CTGGG
1 GTTTATG
*
18739419 GTTTAAG
1 GTTTATG
18739426 GTTTA-G
1 GTTTATG
*
18739432 AGGTTATG
1 -GTTTATG
* *
18739440 TGTTAAGG
1 -GTTTATG
18739448 GTTTATG
1 GTTTATG
*
18739455 GTTTTAGG
1 G-TTTATG
*
18739463 GTTTA-A
1 GTTTATG
18739469 GTTTATG
1 GTTTATG
18739476 GTTTATG
1 GTTTATG
18739483 GTTTA
1 GTTTA
18739488 GATTAACTAG
Statistics
Matches: 129, Mismatches: 28, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
6 11 0.09
7 96 0.74
8 22 0.17
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.48
Consensus pattern (7 bp):
GTTTATG
Found at i:18739453 original size:15 final size:15
Alignment explanation
Indices: 18739417--18739487 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
18739407 TTAAAGGCTG
*
18739417 GGGTTTAAGGTTT-A
1 GGGTTTATGGTTTAA
18739431 GAGG-TTAT-GTGTTAA
1 G-GGTTTATGGT-TTAA
*
18739446 GGGTTTATGGTTTTA
1 GGGTTTATGGTTTAA
*
18739461 GGGTTTA-AGTTT-A
1 GGGTTTATGGTTTAA
*
18739474 TGGTTTATGGTTTA
1 GGGTTTATGGTTTA
18739488 GATTAACTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
13 9 0.20
14 16 0.36
15 18 0.40
16 2 0.04
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (15 bp):
GGGTTTATGGTTTAA
Found at i:18739760 original size:14 final size:15
Alignment explanation
Indices: 18739734--18739771 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
18739724 AATAATTATA
18739734 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
18739749 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
18739763 TATGG-TTTA
1 TATGGATTTA
18739772 AGGGTTGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:18743915 original size:27 final size:26
Alignment explanation
Indices: 18743885--18743941 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
18743875 AATTTTGAGG
*
18743885 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAACTTTTATTAATT
* *
18743911 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACATTTTCTAACTTTTATTAATT
18743938 TTTA
1 TTTA
18743942 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAACTTTTATTAATT
Found at i:18744200 original size:43 final size:42
Alignment explanation
Indices: 18744152--18744311 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 42
18744142 TGTGAGAAGT
* * * * * *
18744152 CGCTAAAGGTTTGTTCTATAGTGGCGTTCGTGATAAAAAGCGC
1 CGCTAAAGGTTTGGTCTTTAGCGGCGTTTGCGA-CAAAAGCGC
* *
18744195 CGCTAAAGGTCATGGTCTTTAGCGGCATTTGCGACAAAAGCGC
1 CGCTAAAGGT-TTGGTCTTTAGCGGCGTTTGCGACAAAAGCGC
18744238 CGCTAAAGGTTATGGTCTTTAGCGGCGTTTGCGACAAAAGCGC
1 CGCTAAAGGTT-TGGTCTTTAGCGGCGTTTGCGACAAAAGCGC
* * *
18744281 AGCTAAAGGTCGTAGTCTTTAGCGGCGTTTG
1 CGCTAAAGGT-TTGGTCTTTAGCGGCGTTTG
18744312 TGGGAAAAGT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 85 0.84
44 16 0.16
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (42 bp):
CGCTAAAGGTTTGGTCTTTAGCGGCGTTTGCGACAAAAGCGC
Found at i:18744320 original size:43 final size:43
Alignment explanation
Indices: 18744187--18744311 Score: 205
Period size: 43 Copynumber: 2.9 Consensus size: 43
18744177 GTTCGTGATA
*
18744187 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTGCGAC
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAC
*
18744230 AAAAGCGCCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGCGAC
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAC
* * *
18744273 AAAAGCGCAGCTAAAGGTCGTAGTCTTTAGCGGCGTTTG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG
18744312 TGGGAAAAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAC
Found at i:18744320 original size:86 final size:86
Alignment explanation
Indices: 18744152--18744311 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 86
18744142 TGTGAGAAGT
* * * * *
18744152 CGCTAAAGGTTTGTTCTATAGTGGCGTTCGTGATAAAAAGCGCCGCTAAAGGTCATGGTCTTTAG
1 CGCTAAAGGTTTGGTCTATAGCGGCGTTCGCGATAAAAAGCGCAGCTAAAGGTCATAGTCTTTAG
18744217 CGGCATTTGCGACAAAAGCGC
66 CGGCATTTGCGACAAAAGCGC
* * * *
18744238 CGCTAAAGGTTATGGTCTTTAGCGGCGTTTGCGA-CAAAAGCGCAGCTAAAGGTCGTAGTCTTTA
1 CGCTAAAGGTT-TGGTCTATAGCGGCGTTCGCGATAAAAAGCGCAGCTAAAGGTCATAGTCTTTA
*
18744302 GCGGCGTTTG
65 GCGGCATTTG
18744312 TGGGAAAAGT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 46 0.73
87 17 0.27
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (86 bp):
CGCTAAAGGTTTGGTCTATAGCGGCGTTCGCGATAAAAAGCGCAGCTAAAGGTCATAGTCTTTAG
CGGCATTTGCGACAAAAGCGC
Found at i:18750898 original size:12 final size:12
Alignment explanation
Indices: 18750881--18750907 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18750871 ATTCTTTTAA
18750881 TATATATATATT
1 TATATATATATT
18750893 TATATATATATT
1 TATATATATATT
18750905 TAT
1 TAT
18750908 CGTGGATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATATATATATT
Found at i:18758106 original size:13 final size:13
Alignment explanation
Indices: 18758088--18758112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18758078 AATTTGATAT
18758088 GTTTATGGTTGAA
1 GTTTATGGTTGAA
18758101 GTTTATGGTTGA
1 GTTTATGGTTGA
18758113 TTTGGTACAC
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:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (13 bp):
GTTTATGGTTGAA
Found at i:18778317 original size:84 final size:84
Alignment explanation
Indices: 18778176--18778352 Score: 354
Period size: 84 Copynumber: 2.1 Consensus size: 84
18778166 CCTTCCTTTG
18778176 ATGGTAATTATGCCACATATTTATGTGATAGACAAATATGGACATGAATTTGGTGTTTTATTTAT
1 ATGGTAATTATGCCACATATTTATGTGATAGACAAATATGGACATGAATTTGGTGTTTTATTTAT
18778241 TTATTTAACCTAGGGCAAA
66 TTATTTAACCTAGGGCAAA
18778260 ATGGTAATTATGCCACATATTTATGTGATAGACAAATATGGACATGAATTTGGTGTTTTATTTAT
1 ATGGTAATTATGCCACATATTTATGTGATAGACAAATATGGACATGAATTTGGTGTTTTATTTAT
18778325 TTATTTAACCTAGGGCAAA
66 TTATTTAACCTAGGGCAAA
18778344 ATGGTAATT
1 ATGGTAATT
18778353 TGATAATTAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 93 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (84 bp):
ATGGTAATTATGCCACATATTTATGTGATAGACAAATATGGACATGAATTTGGTGTTTTATTTAT
TTATTTAACCTAGGGCAAA
Found at i:18778367 original size:5 final size:5
Alignment explanation
Indices: 18778357--18778383 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18778347 GTAATTTGAT
18778357 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
18778384 AGCTATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:18783451 original size:19 final size:19
Alignment explanation
Indices: 18783417--18783505 Score: 60
Period size: 19 Copynumber: 4.7 Consensus size: 19
18783407 TGAAATATAC
18783417 AAAT-TTAAACAT-AATTTA
1 AAATGTTAAA-ATAAATTTA
18783435 AAATGTTAAAATAAATTTA
1 AAATGTTAAAATAAATTTA
** *
18783454 AATAAATTAACAAT--ATTGA
1 AA-ATGTTAA-AATAAATTTA
* * *
18783473 AATAAGTTGAAATAAATTAA
1 AA-ATGTTAAAATAAATTTA
18783493 AAATGTTAAAATA
1 AAATGTTAAAATA
18783506 TTTGAAAGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
18 9 0.16
19 34 0.60
20 11 0.19
21 3 0.05
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (19 bp):
AAATGTTAAAATAAATTTA
Found at i:18783468 original size:11 final size:10
Alignment explanation
Indices: 18783440--18783494 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
18783430 ATTTAAAATG
18783440 TTAAAATAAA
1 TTAAAATAAA
*
18783450 TTTAAATAAA
1 TTAAAATAAA
18783460 TTAACAAT--A
1 TTAA-AATAAA
* *
18783469 TTGAAATAAG
1 TTAAAATAAA
*
18783479 TTGAAATAAA
1 TTAAAATAAA
18783489 TTAAAA
1 TTAAAA
18783495 ATGTTAAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:18783476 original size:29 final size:28
Alignment explanation
Indices: 18783417--18783505 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 28
18783407 TGAAATATAC
* *
18783417 AAATTTAAACATAATTTAAAATGTTAAAAT
1 AAATTT-AA-ATAAATTAAAATATTAAAAT
*
18783447 AAATTTAAATAAATTAACAATATTGAAAT
1 AAATTTAAATAAATTAA-AATATTAAAAT
* * *
18783476 AAGTTGAAATAAATTAAAAATGTTAAAAT
1 AAATTTAAATAAATT-AAAATATTAAAAT
18783505 A
1 A
18783506 TTTGAAAGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 8 0.16
29 34 0.68
30 8 0.16
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (28 bp):
AAATTTAAATAAATTAAAATATTAAAAT
Found at i:18785953 original size:2 final size:2
Alignment explanation
Indices: 18785946--18785989 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
18785936 TCTCAATCCA
18785946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18785988 AT
1 AT
18785990 TTCAATACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18786410 original size:38 final size:37
Alignment explanation
Indices: 18786341--18786413 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
18786331 TTTGCATAAT
* *
18786341 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
18786378 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
18786414 TTTCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:18786419 original size:37 final size:37
Alignment explanation
Indices: 18786338--18786419 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
18786328 ACTTTTGCAT
* *
18786338 AATTTCACTTTTTCACTTTTAATCACTATTCAATTCA
1 AATTTCACTTTTCCACTTTTAATCAATATTCAATTCA
*
18786375 AAATTCACTTTTCCA-TTTTCAAGTCAATATTCAATTC-
1 AATTTCACTTTTCCACTTTT-AA-TCAATATTCAATTCA
18786412 AATTTCAC
1 AATTTCAC
18786420 ACATATATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 4 0.10
37 22 0.56
38 13 0.33
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
AATTTCACTTTTCCACTTTTAATCAATATTCAATTCA
Found at i:18786584 original size:23 final size:23
Alignment explanation
Indices: 18786551--18786602 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
18786541 ATAAGTGTCA
* *
18786551 CACTGATATGTAGTCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
18786574 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
18786597 CACTGA
1 CACTGA
18786603 TCAATAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:18789580 original size:15 final size:15
Alignment explanation
Indices: 18789562--18789594 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18789552 ATTATAGCAA
*
18789562 AAATAGAATAAAAAT
1 AAATAAAATAAAAAT
18789577 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
18789592 AAA
1 AAA
18789595 ATGGAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:18789780 original size:3 final size:3
Alignment explanation
Indices: 18789772--18789809 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18789762 TCCAGGCTTC
18789772 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
18789810 GGTGAGTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:18798926 original size:9 final size:9
Alignment explanation
Indices: 18798912--18798942 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18798902 GTTAAACGAA
18798912 TCGAGTTAT
1 TCGAGTTAT
*
18798921 TCGAGTTAA
1 TCGAGTTAT
18798930 TCGAGTTAT
1 TCGAGTTAT
18798939 TCGA
1 TCGA
18798943 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:18799287 original size:30 final size:30
Alignment explanation
Indices: 18799234--18799292 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18799224 AAACCTTTTA
*
18799234 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
18799263 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
18799293 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:18802685 original size:41 final size:38
Alignment explanation
Indices: 18802612--18802690 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
18802602 GTCAATAATT
*
18802612 TCAATATCCAACAAGTTTAAAAAATAATAATTTCAATA
1 TCAATATCCAACAAGTTTAAAAAAAAATAATTTCAATA
* *
18802650 TCAATATCCAACCAGTATTAAAAAAAATATCAATTTTAATA
1 TCAATATCCAACAAGT-TTAAAAAAAA-AT-AATTTCAATA
18802691 CTAAAACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 15 0.43
39 9 0.26
40 2 0.06
41 9 0.26
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.32
Consensus pattern (38 bp):
TCAATATCCAACAAGTTTAAAAAAAAATAATTTCAATA
Found at i:18802745 original size:13 final size:13
Alignment explanation
Indices: 18802729--18802754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18802719 ACCTTGAGCC
18802729 TTAAACCTACCTA
1 TTAAACCTACCTA
18802742 TTAAACCTACCTA
1 TTAAACCTACCTA
18802755 ATGTTTCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAACCTACCTA
Found at i:18806665 original size:39 final size:39
Alignment explanation
Indices: 18806622--18806700 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 39
18806612 TTTCAAGCGT
**
18806622 AGTTTAATTTATAATTTTGATGAT-TTTTTATTATTTGTA
1 AGTTTAATTTATAATTTT-ATGATACATTTATTATTTGTA
18806661 AGTTTAATTTATAATTTTATGATACATTTATTATTTGTA
1 AGTTTAATTTATAATTTTATGATACATTTATTATTTGTA
18806700 A
1 A
18806701 ATTCTTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 5 0.14
39 32 0.86
ACGTcount: A:0.32, C:0.01, G:0.09, T:0.58
Consensus pattern (39 bp):
AGTTTAATTTATAATTTTATGATACATTTATTATTTGTA
Found at i:18806677 original size:20 final size:20
Alignment explanation
Indices: 18806622--18806678 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
18806612 TTTCAAGCGT
18806622 AGTTTAATTTATAATTTTGA
1 AGTTTAATTTATAATTTTGA
* *
18806642 TGATTT--TTTATTA-TTTGTA
1 AG-TTTAATTTATAATTTTG-A
18806661 AGTTTAATTTATAATTTT
1 AGTTTAATTTATAATTTT
18806679 ATGATACATT
Statistics
Matches: 28, Mismatches: 4, Indels: 9
0.68 0.10 0.22
Matches are distributed among these distances:
18 7 0.25
19 8 0.29
20 7 0.25
21 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (20 bp):
AGTTTAATTTATAATTTTGA
Found at i:18807876 original size:12 final size:13
Alignment explanation
Indices: 18807843--18807880 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
18807833 TATTTAAGGT
18807843 TAATTAAGTTAATA
1 TAATTAA-TTAATA
18807857 TTAATTAATTAATA
1 -TAATTAATTAATA
18807871 -AATTAATTAA
1 TAATTAATTAA
18807881 CTAGTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TAATTAATTAATA
Found at i:18811635 original size:40 final size:36
Alignment explanation
Indices: 18811437--18811651 Score: 151
Period size: 36 Copynumber: 5.8 Consensus size: 36
18811427 TATTTGTAAT
* * * *
18811437 TTTATCCGACTAGTGCTGGGCGCAAAATATTATCGG
1 TTTATCCGACTAGCGCTGGGCACAAAACATTGTCGG
* *
18811473 TTTATCCGACTAGCGCTGGGCACAAAACATTATCGA
1 TTTATCCGACTAGCGCTGGGCACAAAACATTGTCGG
* * * * * *
18811509 TTTATTCAACTAGTGCTGGGCACACATTTGACATGGTCAG
1 TTTATCCGACTAGCGCTGGGCACA-A---AACATTGTCGG
** * * *
18811549 TTTATCTTACTAGCACTGGGCACAAAATATTGTTGG
1 TTTATCCGACTAGCGCTGGGCACAAAACATTGTCGG
* * * *
18811585 TTTATTCGACTAGTGTTGGGCACACATTTGACATTGTCGG
1 TTTATCCGACTAGCGCTGGGCACA-A---AACATTGTCGG
* *
18811625 TTTATCCGACTAGCGCTAGGCGCAAAA
1 TTTATCCGACTAGCGCTGGGCACAAAA
18811652 TTTTGTTACG
Statistics
Matches: 134, Mismatches: 37, Indels: 16
0.72 0.20 0.09
Matches are distributed among these distances:
36 78 0.58
37 2 0.01
39 2 0.01
40 52 0.39
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (36 bp):
TTTATCCGACTAGCGCTGGGCACAAAACATTGTCGG
Found at i:18811651 original size:76 final size:76
Alignment explanation
Indices: 18811469--18811670 Score: 260
Period size: 76 Copynumber: 2.6 Consensus size: 76
18811459 CAAAATATTA
* * * *
18811469 TCGGTTTATCCGACTAGCGCTGGGCACAAAACATTATCGATTTATTCAACTAGTGCTGGGCACAC
1 TCGGTTTATCCGACTAGCGCTGGGCACAAAATATTGTTGGTTTATTCAACTAGTGCTGGGCACAC
18811534 ATTTGACATGG
66 ATTTGACATGG
* ** * * *
18811545 TCAGTTTATCTTACTAGCACTGGGCACAAAATATTGTTGGTTTATTCGACTAGTGTTGGGCACAC
1 TCGGTTTATCCGACTAGCGCTGGGCACAAAATATTGTTGGTTTATTCAACTAGTGCTGGGCACAC
*
18811610 ATTTGACATTG
66 ATTTGACATGG
* * *
18811621 TCGGTTTATCCGACTAGCGCTAGGCGCAAAATTTTGTTACGGTTTATTCA
1 TCGGTTTATCCGACTAGCGCTGGGCACAAAATATTGTT--GGTTTATTCA
18811671 TCAAGCATTG
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
76 96 0.91
78 9 0.09
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
TCGGTTTATCCGACTAGCGCTGGGCACAAAATATTGTTGGTTTATTCAACTAGTGCTGGGCACAC
ATTTGACATGG
Found at i:18813427 original size:19 final size:19
Alignment explanation
Indices: 18813403--18813440 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
18813393 TAAGTAGGGG
18813403 TGGACT-TCTTGATTGGGCT
1 TGGACTATCTT-ATTGGGCT
18813422 TGGACTCATCTTATTGGGC
1 TGGACT-ATCTTATTGGGC
18813441 CTTGCCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.13, C:0.18, G:0.29, T:0.39
Consensus pattern (19 bp):
TGGACTATCTTATTGGGCT
Found at i:18820110 original size:28 final size:28
Alignment explanation
Indices: 18820070--18820124 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
18820060 AAATATTATC
*
18820070 AAAATTTACAAAAAGGAAATTGAATATG
1 AAAACTTACAAAAAGGAAATTGAATATG
* *
18820098 AAAACTTATAAAAAGTAAATTGAATAT
1 AAAACTTACAAAAAGGAAATTGAATAT
18820125 CCGAATAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.11, T:0.27
Consensus pattern (28 bp):
AAAACTTACAAAAAGGAAATTGAATATG
Found at i:18829574 original size:75 final size:75
Alignment explanation
Indices: 18829451--18829602 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
18829441 ATTTTAAGTT
18829451 TCTACATTTGAGGCTCTTGTTGTTATGTGTATAATTTGGAATGGCAGAGTAAAATTCTTCCCATT
1 TCTACATTTGAGGCTCTTGTTGTTATGTGTATAATTTGGAATGGCAGAGTAAAATTCTTCCCATT
18829516 AATCATACCA
66 AATCATACCA
18829526 TCTACATTTGAGGCTCTTGTTGTTATGTGTATAATTTGGAATGGCAGAGTAAAATTCTTCCCATT
1 TCTACATTTGAGGCTCTTGTTGTTATGTGTATAATTTGGAATGGCAGAGTAAAATTCTTCCCATT
18829591 AATCATACCA
66 AATCATACCA
18829601 TC
1 TC
18829603 CTGAAGTTAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (75 bp):
TCTACATTTGAGGCTCTTGTTGTTATGTGTATAATTTGGAATGGCAGAGTAAAATTCTTCCCATT
AATCATACCA
Found at i:18831555 original size:27 final size:27
Alignment explanation
Indices: 18831514--18831565 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18831504 GAAGAATAGC
*
18831514 TGGTAATGAATTTGTGTTATCTGGTCT
1 TGGTAATGAAATTGTGTTATCTGGTCT
*
18831541 TGGTAATGAAATTGTGTTGTCTGGT
1 TGGTAATGAAATTGTGTTATCTGGT
18831566 TTTGATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.46
Consensus pattern (27 bp):
TGGTAATGAAATTGTGTTATCTGGTCT
Found at i:18832925 original size:22 final size:23
Alignment explanation
Indices: 18832884--18832926 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
18832874 ATCACCATTA
18832884 TTAAATATATTTATTTATTTAGT
1 TTAAATATATTTATTTATTTAGT
*
18832907 TTAAATATCTTT-TTTATTTA
1 TTAAATATATTTATTTATTTA
18832927 TCATAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TTAAATATATTTATTTATTTAGT
Found at i:18832933 original size:22 final size:23
Alignment explanation
Indices: 18832885--18832934 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
18832875 TCACCATTAT
*
18832885 TAAATATATTTATTTATTTAGTT
1 TAAATATATTTATTTATTTAGTA
*
18832908 TAAATATCTTT-TTTATTTA-TCA
1 TAAATATATTTATTTATTTAGT-A
18832930 TAAAT
1 TAAAT
18832935 TACTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 13 0.54
23 10 0.42
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TAAATATATTTATTTATTTAGTA
Found at i:18835132 original size:17 final size:17
Alignment explanation
Indices: 18835096--18835133 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18835086 ATAATTCTAA
*
18835096 AAAATTAAATTATTTTT
1 AAAATTAAATAATTTTT
18835113 AAAATTAAA-AATTTTCT
1 AAAATTAAATAATTTT-T
18835130 AAAA
1 AAAA
18835134 ATTCAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTAAATAATTTTT
Found at i:18835134 original size:18 final size:18
Alignment explanation
Indices: 18835090--18835142 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
18835080 TTAACAATAA
*
18835090 TTCTAAAAAATTAAATTATT
1 TTCT-AAAAATTAAA-AATT
18835110 TT-T-AAAATTAAAAATT
1 TTCTAAAAATTAAAAATT
*
18835126 TTCTAAAAATTCAAAAT
1 TTCTAAAAATTAAAAAT
18835143 ATATATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
17 10 0.34
18 11 0.38
19 1 0.03
20 2 0.07
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TTCTAAAAATTAAAAATT
Found at i:18837228 original size:10 final size:10
Alignment explanation
Indices: 18837192--18837240 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
18837182 TGAATAATAT
* *
18837192 ATATATATAT
1 ATATATAAAC
* *
18837202 ATATATATAT
1 ATATATAAAC
18837212 ATATATAAAC
1 ATATATAAAC
*
18837222 ATGTATAAAC
1 ATATATAAAC
18837232 ATATATAAA
1 ATATATAAA
18837241 TTATAAGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (10 bp):
ATATATAAAC
Found at i:18837237 original size:2 final size:2
Alignment explanation
Indices: 18837188--18837218 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18837178 GTTTTGAATA
18837188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18837219 AACATGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18837413 original size:22 final size:22
Alignment explanation
Indices: 18837387--18837431 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
18837377 ATAAATGCGC
*
18837387 ATATAATATATGC-ATAATAATA
1 ATATAATATA-ACAATAATAATA
18837409 ATATAATATAACAATAATAATA
1 ATATAATATAACAATAATAATA
18837431 A
1 A
18837432 ATGCTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAATATAACAATAATAATA
Found at i:18837443 original size:19 final size:19
Alignment explanation
Indices: 18837400--18837446 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
18837390 TAATATATGC
18837400 ATAATAATAATATAATATA
1 ATAATAATAATATAATATA
* *
18837419 ACAATAATAATA-AATGCTA
1 ATAATAATAATATAAT-ATA
18837438 ATAATAATA
1 ATAATAATA
18837447 TAGTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAATAATATAATATA
Found at i:18839005 original size:26 final size:28
Alignment explanation
Indices: 18838972--18839034 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
18838962 TTTAAAGCAC
*
18838972 AAAAGTATATATAAACAT-AAA-TATAA
1 AAAAGTATATATAAAAATAAAATTATAA
*
18838998 AAAAGTATA-ATAAAAATAAAATTATTA
1 AAAAGTATATATAAAAATAAAATTATAA
18839025 AAAA-TATATA
1 AAAAGTATATA
18839035 GATAATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 7 0.22
26 16 0.50
27 9 0.28
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (28 bp):
AAAAGTATATATAAAAATAAAATTATAA
Found at i:18840545 original size:44 final size:44
Alignment explanation
Indices: 18840490--18840878 Score: 580
Period size: 44 Copynumber: 8.8 Consensus size: 44
18840480 AGAAACTAAA
* * * * * * **
18840490 CTTCCACCTATTCAACTGCTGGTTAGGGAGATTGTACTTGTAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* *
18840534 CTTCAACCTATTCCACTACTGGTCAGGGAGATAGGACTTACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
*
18840578 CTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
*
18840622 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
*
18840666 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
18840710 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
18840754 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* * * * **
18840798 CTTCCACCTATTCCACTGCTGGTCAGAGAGATAGAACTTGTAAT
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
* * *
18840842 CTTCGACCTATTCCAATGCTGGTCAGAGAGATAGGAC
1 CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGAC
18840879 TGACAATGTT
Statistics
Matches: 320, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 320 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACATACAAT
Found at i:18841072 original size:43 final size:43
Alignment explanation
Indices: 18840955--18841123 Score: 164
Period size: 43 Copynumber: 3.9 Consensus size: 43
18840945 GCTGCAACCC
* * * * * *
18840955 AGGGAGGCAAGGCTAGTATCTTCGATCTGCTTCGCTGTCAGTAC-
1 AGGGAGACAAGGCTGGTATCTTCGATCTGCTCCACT-ACAAT-CG
* * * *
18840999 AGGAAGGCAAGGTCTGCTATCTT-AAGTCTGCTCCACTACAA-CAG
1 AGGGAGACAAGG-CTGGTATCTTCGA-TCTGCTCCACTACAATC-G
18841043 AGGGAGACAAGGCTGGTATCTTCGATCTGCTCCACTACAATCG
1 AGGGAGACAAGGCTGGTATCTTCGATCTGCTCCACTACAATCG
* *
18841086 AGGGAGGCAAGGCTGGTATCTTCGACCTGCTCCACTAC
1 AGGGAGACAAGGCTGGTATCTTCGATCTGCTCCACTAC
18841124 TGCTTAGGGA
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
42 1 0.01
43 61 0.58
44 26 0.25
45 17 0.16
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (43 bp):
AGGGAGACAAGGCTGGTATCTTCGATCTGCTCCACTACAATCG
Found at i:18842413 original size:7 final size:7
Alignment explanation
Indices: 18842393--18842433 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
18842383 TTAGCCTCTC
18842393 CATTTTT
1 CATTTTT
*
18842400 ACTTTTTT
1 -CATTTTT
18842408 CATTTTT
1 CATTTTT
18842415 CA-TTTT
1 CATTTTT
18842421 CA-TTTT
1 CATTTTT
18842427 CATTTTT
1 CATTTTT
18842434 TTTGACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 12 0.40
7 12 0.40
8 6 0.20
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:18846655 original size:23 final size:23
Alignment explanation
Indices: 18846627--18846702 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
18846617 AGTGTTATTG
18846627 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18846650 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18846673 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18846696 ATCAGTG
1 ATCAGTG
18846703 TTACACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:18854205 original size:23 final size:23
Alignment explanation
Indices: 18854177--18854252 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
18854167 AGTGTTATTG
18854177 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18854200 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
18854223 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
18854246 ATCAGTG
1 ATCAGTG
18854253 TTGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:18858681 original size:28 final size:27
Alignment explanation
Indices: 18858650--18858709 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
18858640 TTTAAAGCAC
18858650 AAAAGTATATATAAACATAAATATT-TAAA
1 AAAAGTATATA-AAA-ATAAA-ATTATAAA
*
18858679 AAAAGTATCATAAAAATAAAATTATTAA
1 AAAAGTAT-ATAAAAATAAAATTATAAA
18858707 AAA
1 AAA
18858710 TATATAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.11
28 11 0.39
29 11 0.39
30 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (27 bp):
AAAAGTATATAAAAATAAAATTATAAA
Found at i:18858700 original size:29 final size:29
Alignment explanation
Indices: 18858650--18858709 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
18858640 TTTAAAGCAC
18858650 AAAAGTATATATAAACATAAA-TATTTAAA
1 AAAAGTATATATAAACATAAATTA-TTAAA
18858679 AAAAGTATCATA-AAA-ATAAAATTATTAAA
1 AAAAGTAT-ATATAAACAT-AAATTATTAAA
18858708 AA
1 AA
18858710 TATATAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 2 0.07
29 21 0.75
30 5 0.18
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAAGTATATATAAACATAAATTATTAAA
Found at i:18861260 original size:16 final size:16
Alignment explanation
Indices: 18861239--18861272 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18861229 ATAAGAAAAT
18861239 AATCACATTTTCCTGC
1 AATCACATTTTCCTGC
18861255 AATCACATTTTCCTGC
1 AATCACATTTTCCTGC
18861271 AA
1 AA
18861273 ACAATCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (16 bp):
AATCACATTTTCCTGC
Found at i:18863229 original size:21 final size:22
Alignment explanation
Indices: 18863196--18863237 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
18863186 CAAACGGTGA
18863196 GTTTTAGTATTAAGTAGTATGC
1 GTTTTAGTATTAAGTAGTATGC
18863218 GTTTTA-TATTAAGTAGTATG
1 GTTTTAGTATTAAGTAGTATG
18863238 AAACCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (22 bp):
GTTTTAGTATTAAGTAGTATGC
Found at i:18866412 original size:23 final size:23
Alignment explanation
Indices: 18866383--18866481 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
18866373 AGTGTTATTG
18866383 ATCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGACTACAT
* * *
18866406 ATTAGTGGTATCTTC-AGCTACAT
1 ATCAGTGGTAGCTACGA-CTACAT
* * *
18866429 TTCAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGACTACAT
* *
18866452 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGACTACAT
18866475 ATCAGTG
1 ATCAGTG
18866482 TGGCACTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
22 1 0.02
23 61 0.98
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGACTACAT
Found at i:18866459 original size:46 final size:46
Alignment explanation
Indices: 18866383--18866481 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 46
18866373 AGTGTTATTG
* *
18866383 ATCAGTGGTAGCTACGACTACATATTAGTGGTATCTTCAGCTACAT
1 ATCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTCAGCTACAT
* * * *
18866429 TTCAGTGGTAGCTACGGCTACGTATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTCAGCTACAT
18866475 ATCAGTG
1 ATCAGTG
18866482 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (46 bp):
ATCAGTGGTAGCTACGACTACATATCAGTGGTAGCTTCAGCTACAT
Found at i:18867728 original size:49 final size:49
Alignment explanation
Indices: 18867662--18867849 Score: 286
Period size: 49 Copynumber: 3.8 Consensus size: 49
18867652 CAATAAGCGA
* * * *
18867662 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGACATTGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGACTATGACATCGGTATATGT
* * *
18867711 TATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCAGTATACGT
1 TATGTGATTACGTGTAAGACCATAGTTGGACTATGACATCGGTATATGT
* * *
18867760 TATGTGATTATGTGTAAGACCATAGTTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGACTATGACATCGGTATATGT
18867809 TATGTGATTACGTGTAAGACCATAGTTGGACTATGACATCG
1 TATGTGATTACGTGTAAGACCATAGTTGGACTATGACATCG
18867850 AGAAAATAAG
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 125 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGTTGGACTATGACATCGGTATATGT
Found at i:18867831 original size:98 final size:98
Alignment explanation
Indices: 18867662--18867848 Score: 320
Period size: 98 Copynumber: 1.9 Consensus size: 98
18867652 CAATAAGCGA
* *
18867662 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGACATTGGTATATGTTATGTGATTACGTGTA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGTTATGTGATTACGTGTA
*
18867727 AGACCATAGTTGGACTATGGCATCAGTATACGT
66 AGACCATAGTTGGACTATGACATCAGTATACGT
* * *
18867760 TATGTGATTATGTGTAAGACCATAGTTGGGCTATGGCATCGGTATATGTTATGTGATTACGTGTA
1 TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGTTATGTGATTACGTGTA
18867825 AGACCATAGTTGGACTATGACATC
66 AGACCATAGTTGGACTATGACATC
18867849 GAGAAAATAA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 83 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (98 bp):
TATGTGATTACGTGTAAGACCATAGCTGGGCTATGACATCGGTATATGTTATGTGATTACGTGTA
AGACCATAGTTGGACTATGACATCAGTATACGT
Found at i:18867874 original size:98 final size:97
Alignment explanation
Indices: 18867674--18867877 Score: 259
Period size: 98 Copynumber: 2.1 Consensus size: 97
18867664 TGTGATTCCG
*
18867674 TGTAAGACCATAGCTGGGCTATGACATTGGTATATGTTATGTGATTACGTGTAAGACCATAGTTG
1 TGTAAGACCATAGCTGGGCTATGACATCGGTATATGTTATGTGATTACGTGTAAGACCATAGTTG
* * * ** * * *
18867739 GACTATGGCATCAGTATACGTTATGTGATTATG
66 GACTATGACATCAGAATAAG-TAACTAAATATC
* *
18867772 TGTAAGACCATAGTTGGGCTATGGCATCGGTATATGTTATGTGATTACGTGTAAGACCATAGTTG
1 TGTAAGACCATAGCTGGGCTATGACATCGGTATATGTTATGTGATTACGTGTAAGACCATAGTTG
18867837 GACTATGACATCGAGAAAATAAG-AACTAAAT-TC
66 GACTATGACATC-AG--AATAAGTAACTAAATATC
18867870 TGTAAGAC
1 TGTAAGAC
18867878 GTTCACTAAT
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
98 82 0.89
99 6 0.07
101 4 0.04
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.32
Consensus pattern (97 bp):
TGTAAGACCATAGCTGGGCTATGACATCGGTATATGTTATGTGATTACGTGTAAGACCATAGTTG
GACTATGACATCAGAATAAGTAACTAAATATC
Found at i:18873406 original size:20 final size:20
Alignment explanation
Indices: 18873368--18873416 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
18873358 TAAACATTTT
* *
18873368 ATATTTAAAAATCACTTTAGA
1 ATATTT-AAAATAACTTTAAA
*
18873389 ATATTTAAAATAATTTTAAA
1 ATATTTAAAATAACTTTAAA
*
18873409 ATGTTTAA
1 ATATTTAA
18873417 TGTAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (20 bp):
ATATTTAAAATAACTTTAAA
Found at i:18883470 original size:3 final size:3
Alignment explanation
Indices: 18883462--18883493 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18883452 TATGAGTAAT
18883462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18883494 CCAATTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18886595 original size:20 final size:21
Alignment explanation
Indices: 18886553--18886595 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18886543 GATTATTTTA
*
18886553 AAAACTCAATTGACTTAATCC
1 AAAACTCAATTGACTTAACCC
18886574 AAAA-TCAACTTGACTT-ACCC
1 AAAACTCAA-TTGACTTAACCC
18886594 AA
1 AA
18886596 TTGATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.44, C:0.26, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAACTCAATTGACTTAACCC
Found at i:18891364 original size:25 final size:25
Alignment explanation
Indices: 18891336--18891385 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
18891326 TACAGAATAT
18891336 TTTAAATTT-TGTAATATT-TTTTAAA
1 TTTAAATTTGTG-AAT-TTATTTTAAA
18891361 TTTAAATTTGTGAATTTATTTTAAA
1 TTTAAATTTGTGAATTTATTTTAAA
18891386 ATTTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 2 0.09
25 19 0.83
26 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (25 bp):
TTTAAATTTGTGAATTTATTTTAAA
Found at i:18893627 original size:20 final size:21
Alignment explanation
Indices: 18893594--18893642 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
18893584 ATTAATTACA
* * *
18893594 TTAAACATTTTAAAATTA-TT
1 TTAAATATTCTAAAATGATTT
*
18893614 TTAAATATTCTAAAGTGATTT
1 TTAAATATTCTAAAATGATTT
18893635 TTAAATAT
1 TTAAATAT
18893643 AAAATGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (21 bp):
TTAAATATTCTAAAATGATTT
Found at i:18897315 original size:25 final size:24
Alignment explanation
Indices: 18897259--18897315 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
18897249 TGTTTCATAT
*
18897259 AACTCACCGTTTAGCTTAATATAA
1 AACTCACCATTTAGCTTAATATAA
*
18897283 AACGCACCATATTA-CTTAATACTAA
1 AACTCACCAT-TTAGCTTAATA-TAA
18897308 AACTCACC
1 AACTCACC
18897316 GTTTGGAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.28
Consensus pattern (24 bp):
AACTCACCATTTAGCTTAATATAA
Found at i:18903437 original size:31 final size:31
Alignment explanation
Indices: 18903399--18903461 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
18903389 TCATATTTAT
18903399 AACCAATCAAAATCAATACATTAATGAGCTA
1 AACCAATCAAAATCAATACATTAATGAGCTA
18903430 AACCAATCAAAATCAATACATTAATGAGCTA
1 AACCAATCAAAATCAATACATTAATGAGCTA
18903461 A
1 A
18903462 CGTTAACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.22
Consensus pattern (31 bp):
AACCAATCAAAATCAATACATTAATGAGCTA
Found at i:18906508 original size:29 final size:29
Alignment explanation
Indices: 18906462--18906518 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
18906452 CGGTGCTTTT
*
18906462 GAACCAATAACTCAGATA-TCACTTGGTTC
1 GAACCAACAACTCAGATACT-ACTTGGTTC
* *
18906491 GAACCAACAGCTCGGATACTACTTGGTT
1 GAACCAACAACTCAGATACTACTTGGTT
18906519 TAAACCTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (29 bp):
GAACCAACAACTCAGATACTACTTGGTTC
Found at i:18908399 original size:53 final size:53
Alignment explanation
Indices: 18908341--18908447 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
18908331 TGTTTCTAGG
18908341 TACTGAAGTTAAATTAATCTCAGAACAGACCAAATTAAGAATTATACCTTTCT
1 TACTGAAGTTAAATTAATCTCAGAACAGACCAAATTAAGAATTATACCTTTCT
18908394 TACTGAAGTTAAATTAATCTCAGAACAGACCAAATTAAGAATTATACCTTTCT
1 TACTGAAGTTAAATTAATCTCAGAACAGACCAAATTAAGAATTATACCTTTCT
18908447 T
1 T
18908448 TGCACGTCAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (53 bp):
TACTGAAGTTAAATTAATCTCAGAACAGACCAAATTAAGAATTATACCTTTCT
Found at i:18910603 original size:5 final size:5
Alignment explanation
Indices: 18910569--18910660 Score: 107
Period size: 5 Copynumber: 18.2 Consensus size: 5
18910559 TCTTAGATTT
* * *
18910569 TTATG TTATA TATATA TTAT- TT-TA TTATA TAATATA ATATA ATATA
1 TTATA TTATA T-TATA TTATA TTATA TTATA T--TATA TTATA TTATA
*
18910615 TTATA TTATA TTATA TTATA TTATA TTATA TTGTA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
18910661 AAGTAAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
3 1 0.01
4 4 0.05
5 63 0.82
6 5 0.06
7 4 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:18911508 original size:3 final size:3
Alignment explanation
Indices: 18911500--18911570 Score: 88
Period size: 3 Copynumber: 23.7 Consensus size: 3
18911490 AATAAGAATT
* * * *
18911500 TTA TTA TTA TTA TTA TTG TTA ATA TAA TTA TTA TTA TTA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
18911548 ATA TAA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
18911571 TTTAATGATT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:18911538 original size:27 final size:27
Alignment explanation
Indices: 18911500--18911576 Score: 145
Period size: 27 Copynumber: 2.9 Consensus size: 27
18911490 AATAAGAATT
18911500 TTATTATTATTATTATTGTTAATATAA
1 TTATTATTATTATTATTGTTAATATAA
18911527 TTATTATTATTATTATTGTTAATATAA
1 TTATTATTATTATTATTGTTAATATAA
*
18911554 TTATTATTATTATTATTTTTAAT
1 TTATTATTATTATTATTGTTAAT
18911577 GATTGTAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
TTATTATTATTATTATTGTTAATATAA
Found at i:18918223 original size:5 final size:5
Alignment explanation
Indices: 18918169--18918238 Score: 74
Period size: 5 Copynumber: 14.2 Consensus size: 5
18918159 TTTTTATGTT
* *
18918169 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA ATATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
*
18918218 TTATA TTGTA TTATA TTATA T
1 TTATA TTATA TTATA TTATA T
18918239 AAGTAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
3 1 0.02
4 8 0.14
5 43 0.77
7 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:18918256 original size:6 final size:6
Alignment explanation
Indices: 18918245--18918272 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18918235 ATATAAGTAA
18918245 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
18918273 GATGACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:18921024 original size:40 final size:40
Alignment explanation
Indices: 18920962--18921098 Score: 95
Period size: 40 Copynumber: 3.3 Consensus size: 40
18920952 GAAGGAGATG
* *
18920962 AAAAATGAAA-GAGAGCACAAATGGATGAACAAAAAAGGAA
1 AAAAATGAAAGGAAAACA-AAATGGATGAACAAAAAAGGAA
18921002 AAAAATGAAAGGAAAACAAAAT-GA-GAACGAAAGAGACAGGAA
1 AAAAATGAAAGGAAAACAAAATGGATGAAC-AAA-A-A-AGGAA
* * *
18921044 ACGAAGAAGGGAAAGGAAAA-AACACATGGATGAACAAAAGAGG-G
1 A--AA-AA-TGAAAGGAAAACAA-A-ATGGATGAACAAAAAAGGAA
18921088 AAAAATGAAAG
1 AAAAATGAAAG
18921099 AAATGGTAGA
Statistics
Matches: 78, Mismatches: 6, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
38 4 0.05
39 5 0.06
40 20 0.26
41 8 0.10
42 8 0.10
44 3 0.04
45 7 0.09
46 11 0.14
47 3 0.04
48 5 0.06
49 4 0.05
ACGTcount: A:0.61, C:0.07, G:0.26, T:0.06
Consensus pattern (40 bp):
AAAAATGAAAGGAAAACAAAATGGATGAACAAAAAAGGAA
Found at i:18930772 original size:5 final size:5
Alignment explanation
Indices: 18930762--18930786 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18930752 TAAAGAAACC
18930762 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
18930787 AGCACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:18936085 original size:43 final size:43
Alignment explanation
Indices: 18936035--18936116 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
18936025 TGTCAACAAG
18936035 AAAGTTTAGTTTAAAACTACTTCTTGTTTAGATTAATCAGAAT
1 AAAGTTTAGTTTAAAACTACTTCTTGTTTAGATTAATCAGAAT
18936078 AAAGTTTAGTTTAAAACTACTTCTTGTTTAGATTAATCA
1 AAAGTTTAGTTTAAAACTACTTCTTGTTTAGATTAATCA
18936117 TAATTCTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (43 bp):
AAAGTTTAGTTTAAAACTACTTCTTGTTTAGATTAATCAGAAT
Found at i:18936123 original size:22 final size:22
Alignment explanation
Indices: 18936055--18936123 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
18936045 TTAAAACTAC
*
18936055 TTCTTGTTTAGATTAATCAGAA
1 TTCTTGTTTAGATTAATCATAA
*** * * *
18936077 -TAAAGTTTAGTTTAA-AACTAC
1 TTCTTGTTTAGATTAATCA-TAA
18936098 TTCTTGTTTAGATTAATCATAA
1 TTCTTGTTTAGATTAATCATAA
18936120 TTCT
1 TTCT
18936124 AGTATACTTA
Statistics
Matches: 31, Mismatches: 13, Indels: 6
0.62 0.26 0.12
Matches are distributed among these distances:
20 1 0.03
21 12 0.39
22 17 0.55
23 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (22 bp):
TTCTTGTTTAGATTAATCATAA
Found at i:18938935 original size:35 final size:34
Alignment explanation
Indices: 18938897--18939046 Score: 131
Period size: 35 Copynumber: 4.3 Consensus size: 34
18938887 ATATGAGAAT
*
18938897 TTTTTTTAAAACACGATAA-TTTTGAAACACAATA
1 TTTTTTTAAAACACGA-AACTTTTGAAACACAAGA
* * * * *
18938931 TTTTTTGAAGACATGGAAATTTTTGAAAACACAGGA
1 TTTTTTTAAAACA-CGAAACTTTTG-AAACACAAGA
* * *
18938967 ATTTTTTGAAACACGAAACTTTTGAAACACGAAAA
1 TTTTTTTAAAACACGAAACTTTTGAAACAC-AAGA
* * * * *
18939002 ATTTTTGAAAACACAAAAATTTTGAAACACGAGA
1 TTTTTTTAAAACACGAAACTTTTGAAACACAAGA
18939036 TTTTTTTAAAA
1 TTTTTTTAAAA
18939047 GGACGTATCG
Statistics
Matches: 91, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
34 30 0.33
35 44 0.48
36 17 0.19
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (34 bp):
TTTTTTTAAAACACGAAACTTTTGAAACACAAGA
Found at i:18938954 original size:19 final size:19
Alignment explanation
Indices: 18938930--18938977 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
18938920 GAAACACAAT
* *
18938930 ATTTTTTGAAGACA-TGGA
1 ATTTTTTGAAAACACAGGA
*
18938948 AATTTTTGAAAACACAGGA
1 ATTTTTTGAAAACACAGGA
18938967 ATTTTTTGAAA
1 ATTTTTTGAAA
18938978 CACGAAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (19 bp):
ATTTTTTGAAAACACAGGA
Found at i:18939040 original size:16 final size:16
Alignment explanation
Indices: 18938899--18939040 Score: 108
Period size: 16 Copynumber: 8.3 Consensus size: 16
18938889 ATGAGAATTT
*
18938899 TTTTTAAAACACGATAA
1 TTTTTGAAACACGA-AA
18938916 -TTTTGAAACAC-AATA
1 TTTTTGAAACACGAA-A
*
18938931 TTTTTTGAAGACATGGAAA
1 -TTTTTGAA-ACA-CGAAA
*
18938950 TTTTTGAAAACACAGGAAT
1 TTTTTG-AAACAC--GAAA
18938969 TTTTTGAAACACGAAA
1 TTTTTGAAACACGAAA
*
18938985 CTTTTGAAACACGAAAAA
1 TTTTTGAAACACG--AAA
*
18939003 TTTTTGAAAACACAAAA
1 TTTTTG-AAACACGAAA
* *
18939020 ATTTTGAAACACGAGA
1 TTTTTGAAACACGAAA
18939036 TTTTT
1 TTTTT
18939041 TTAAAAGGAC
Statistics
Matches: 101, Mismatches: 12, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.01
15 2 0.02
16 37 0.37
17 15 0.15
18 26 0.26
19 18 0.18
20 2 0.02
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (16 bp):
TTTTTGAAACACGAAA
Found at i:18939534 original size:14 final size:14
Alignment explanation
Indices: 18939517--18939558 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
18939507 ATTTTTCCTT
18939517 TTTCTTTTTTTTTC
1 TTTCTTTTTTTTTC
18939531 TTTC-TTTTTTTTC
1 TTTCTTTTTTTTTC
* *
18939544 TTGCTCTTTTTTTC
1 TTTCTTTTTTTTTC
18939558 T
1 T
18939559 GGACTGCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:18939551 original size:15 final size:13
Alignment explanation
Indices: 18939517--18939558 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
18939507 ATTTTTCCTT
18939517 TTTCTTTTTTTTTC
1 TTTC-TTTTTTTTC
18939531 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
*
18939544 TTGCTCTTTTTTTC
1 TTTCT-TTTTTTTC
18939558 T
1 T
18939559 GGACTGCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:18939820 original size:4 final size:4
Alignment explanation
Indices: 18939813--18939894 Score: 65
Period size: 4 Copynumber: 22.0 Consensus size: 4
18939803 TTTTTATTTT
*
18939813 TTTC TTTCC CTTTC -TTC -TTC TTCC T-TC T-TC TT-C TTT- TTTC -TTC
1 TTTC TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
18939856 TTTC TTTC TTTC -TTC TCTT- TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC
18939895 ACGATCAGCG
Statistics
Matches: 66, Mismatches: 2, Indels: 20
0.75 0.02 0.23
Matches are distributed among these distances:
3 25 0.38
4 34 0.52
5 4 0.06
6 3 0.05
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:18939840 original size:13 final size:13
Alignment explanation
Indices: 18939824--18939892 Score: 70
Period size: 13 Copynumber: 5.2 Consensus size: 13
18939814 TTCTTTCCCT
*
18939824 TTCTTCTTCTTCC
1 TTCTTCTTCTTTC
*
18939837 TTCTTCTTCTTTT
1 TTCTTCTTCTTTC
18939850 TTCTTCTTTCTTTC
1 TTCTTC-TTCTTTC
18939864 TTTCTTC-TCTTT-
1 -TTCTTCTTCTTTC
18939876 TTCTTTCTTTCTTTC
1 TTC-TTC-TTCTTTC
18939891 TT
1 TT
18939893 TCACGATCAG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
11 3 0.06
12 3 0.06
13 22 0.47
14 11 0.23
15 8 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCTTCTTCTTTC
Found at i:18939874 original size:27 final size:27
Alignment explanation
Indices: 18939823--18939894 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
18939813 TTTCTTTCCC
*
18939823 TTTCTTC-TTC-TTCCTTCTTCTTCTTT
1 TTTCTTCTTTCTTTCTTTCTTCTTC-TT
18939849 TTTCTTCTTTCTTTCTTTCTTC-TCTT
1 TTTCTTCTTTCTTTCTTTCTTCTTCTT
18939875 TTTCTTTCTTTCTTTCTTTC
1 TTTC-TTCTTTCTTTCTTTC
18939895 ACGATCAGCG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 13 0.31
27 20 0.48
28 9 0.21
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTCTTCTTTCTTTCTTTCTTCTTCTT
Found at i:18940472 original size:30 final size:29
Alignment explanation
Indices: 18940405--18940539 Score: 128
Period size: 30 Copynumber: 4.6 Consensus size: 29
18940395 AAAATTTTTG
* ** * *
18940405 GGGT-AAAGTGTAATTTTGGGAAATTTTA
1 GGGTCAAAATGTAATTTTAAGAAAGTTAA
* *
18940433 GGGTCAAAATGTAATTCTAGGAAAGTTCAA
1 GGGTCAAAATGTAATTTTAAGAAAGTT-AA
* * *
18940463 GGGTTAAAATGCAATTTTAAGAAAGTTGAG
1 GGGTCAAAATGTAATTTTAAGAAAGTT-AA
* * *
18940493 GGGTTAAAATGTAATTTTAAAAAAGTTAG
1 GGGTCAAAATGTAATTTTAAGAAAGTTAA
18940522 GGGTCAAAATGTAATTTT
1 GGGTCAAAATGTAATTTT
18940540 TTTTAAAAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 4 0.04
29 37 0.41
30 50 0.55
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTAAGAAAGTTAA
Found at i:18943058 original size:27 final size:27
Alignment explanation
Indices: 18943028--18943106 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
18943018 TTGCCAATTA
* * *
18943028 GTTTGGCAAGCTGGAGTTCACCAGTTG
1 GTTTGGCGAGCTGGGGTTCACCAGTAG
*
18943055 GTTTGGCGAGTTGGGGTTCACCAGTAG
1 GTTTGGCGAGCTGGGGTTCACCAGTAG
*
18943082 GTTTTGCGAGCTGGGGTTCACCAGT
1 GTTTGGCGAGCTGGGGTTCACCAGT
18943107 CTAAGTCGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.15, C:0.18, G:0.37, T:0.30
Consensus pattern (27 bp):
GTTTGGCGAGCTGGGGTTCACCAGTAG
Found at i:18946751 original size:25 final size:25
Alignment explanation
Indices: 18946703--18946751 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18946693 CATAATTGAA
* * *
18946703 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
18946728 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
18946752 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:18947215 original size:43 final size:43
Alignment explanation
Indices: 18947147--18947232 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
18947137 TACGTGATTG
*
18947147 ATATTGAAATGACAAAGATGGGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
* *
18947190 ATATTGAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
18947233 TGAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:18948162 original size:30 final size:30
Alignment explanation
Indices: 18948117--18948191 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
18948107 CATGGCTTGG
* *
18948117 ACACACGGGCATGTGTCACACACGGGCAAC
1 ACACATGGGCATGTGTCACACACAGGCAAC
*
18948147 ACACATGGGCTTGTGTCACACACAGGCAAC
1 ACACATGGGCATGTGTCACACACAGGCAAC
*
18948177 ACACATAGGCATGTG
1 ACACATGGGCATGTG
18948192 ACCCAAGTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (30 bp):
ACACATGGGCATGTGTCACACACAGGCAAC
Found at i:18963578 original size:44 final size:43
Alignment explanation
Indices: 18963377--18964576 Score: 292
Period size: 44 Copynumber: 27.7 Consensus size: 43
18963367 TCGGTGGGCA
* * * *
18963377 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * * * *
18963420 TTAGATCTTATCTCTCTATGAAGTTGCAG-AGAGCAGATCACA-TC
1 ATA-ATCTTATCT-TC-CTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * *
18963464 -TAGTCTTATCCTCCTGAAGTTGCAGT-GATGCAGACTGAAGATGGC
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCC
18963509 A-AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTAAAGCC
1 ATAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGATTAAAGCC
* * **
18963551 GATAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATC
1 -ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * *
18963595 ACAGATCTTATC-TCTCTGAAGTTGCA---AAG-AGA--AAATCGC
1 ATA-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAGC-C
* * * *
18963634 ATCTAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAG-C
1 A--TAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCC
* * ** *
18963681 A-AGTCTTATCCTCCTGAAGTTATAGT-GAGGCAGACTGAAGATAG-C
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-T-TA-A-AGCC
* * *
18963726 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * *** *
18963768 -TCAAATCTTATC-TCTCTGAAGTTGCAG-AGAGTAGATCGCA-TC
1 AT--AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * * * ** *
18963810 -TAGTCTTATATCCCTGAATTTACAGCAGAGCAGACTAAGTAAG-C
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCC
* * *
18963854 A-AGTCTTATCCTT-TTGAAGTTGCAGT-GAGGCAGACTGAAGATAG-C
1 ATAATCTTAT-CTTCCTGAAGTTGCAGTGGA-GCAGA-T-TA-A-AGCC
* *
18963899 A-AATCTTATC-TCCGTGAAGTTGCAGTGGAG-TGAATTAAAACC
1 ATAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAG-ATTAAAGCC
* ** * *** *
18963941 TTAGATCTTATCTCTTTATGAAGTTGCAG-AGAGCAGATCGCA-TC
1 ATA-ATCTTA--TCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * *
18963985 -TAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAG-C
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCC
* * * * *
18964029 A-AGTCTTATCCTCTTGAAGTTGCAGT-GAGGCAGACTGAAGATGAC
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCC
* * *
18964074 A-AATCTTATCTCCCTGAAGTAGCAGTGGAACAGATTAAAGCC
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * *
18964116 GATAATCCTATC-TCTCTGAAGTTGCAGTAGAGCGGATTAAA---
1 -ATAATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * *** *
18964157 ATTAGATCTTATCTTTCTGAAGTTGCAG-AGAGCAGATCGCA-TC
1 A-TA-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * *
18964200 -TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCC
* * * * *
18964244 A-AGTCTTATCCTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGC
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCC
*
18964289 A-AATC-T-TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * **
18964329 GATAATCCTAT-TTCCCTGAAGTTGCAGTGGAGCGGATTAAAATC
1 -ATAATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCC
* ** * *** *
18964373 ACAGATCTTATC-TCTCTGAAGTTGCA-AAGAGCAAATCGCA-TC
1 ATA-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAGCC
* * * * *
18964415 -TAGTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTAAGTAAG-C
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCC
* * * *
18964459 A-AGTCTTATCCTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATAG-C
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGA-GCAGA-T-TA-A-AGCC
* * * *
18964504 A-AATCTTATCTCCCTGAAGTTGTAGTGGAGCCGATTAAAGCT
1 ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
18964546 ATAAGTCTTATC-TCCTTGAAGTTGCAGTGGA
1 ATAA-TCTTATCTTCC-TGAAGTTGCAGTGGA
18964577 ATATATTGAA
Statistics
Matches: 870, Mismatches: 173, Indels: 227
0.69 0.14 0.18
Matches are distributed among these distances:
38 3 0.00
39 2 0.00
40 103 0.12
41 60 0.07
42 60 0.07
43 80 0.09
44 355 0.41
45 166 0.19
46 35 0.04
47 4 0.00
49 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
ATAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
Found at i:18963744 original size:173 final size:173
Alignment explanation
Indices: 18963379--18964270 Score: 985
Period size: 173 Copynumber: 5.2 Consensus size: 173
18963369 GGTGGGCAAT
*
18963379 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTATGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTC--TGAAGT
* *
18963444 TGCAGAGAGCAGATCACATCTAGTCTTATC-CTCCTGAAGTTGCAG-TGATGCAGACTGAAG-AT
64 TGCAGAGAGCAGATCGCATCTAGTCTTATCTC-CCTGAAGTTGCAGCGGA-GCAGACT-AAGTA-
* * * * **
18963506 GGCAAATCTTAT-CTCCTTGAAGTTGCAGTG-GAGCAGATTAAAG-CCG-A
125 AGCAAGTCTTATCCTCC-TGAAGTTGCAGTGAG-GCAGACTGAAGATAGCA
* * * **
18963553 TAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTT
* * *
18963618 GCAAAGAGAAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCAA
65 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCAA
**
18963683 GTCTTATCCTCCTGAAGTTATAGTGAGGCAGACTGAAGATAGCA
130 GTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCA
* *
18963727 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTG
* * * * *
18963792 CAGAGAGTAGATCGCATCTAGTCTTATATCCCTGAATTTACAGCAGAGCAGACTAAGTAAGCAAG
66 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCAAG
**
18963857 TCTTATCCTTTTGAAGTTGCAGTGAGGCAGACTGAAGATAGCA
131 TCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCA
* * * *
18963900 AATCTTATCTCCGTGAAGTTGCAGTGGAGTGAATTAAAACCTTAGATCTTATCTCTTTATGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTC--TCTGAAGT
* *
18963965 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCA
64 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCA
*
18964030 AGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGAT-GACA
129 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAG-CA
* * * * * *
18964075 AATCTTATCTCCCTGAAGTAGCAGTGGAACAGATTAAAGCCGATA-ATCCTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TTAGATCTTATCTCTCTGAAGTT
* *** ** * * * *
18964139 GCAGTAGAGCGGATTAAAAT-TAGATCTTATCTTTCTGAAGTTGCAG-AGAGCAGA-T-CG-CAT
65 GCAG-AGAGCAGA-TCGCATCTAG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAG
*
18964199 CTAGTCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAGACT-AAG-TAAGCA
127 CAAGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTGAAGAT-AGCA
* *
18964245 AGTCTTATC-CTCCTAAAGTTGCAGTG
1 AATCTTATCTC-CCTGAAGTTGCAGTG
18964271 AGGCAGACTG
Statistics
Matches: 625, Mismatches: 73, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
169 2 0.00
170 29 0.05
171 32 0.05
172 34 0.05
173 279 0.45
174 22 0.04
175 225 0.36
176 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (173 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTG
CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCAAG
TCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATAGCA
Found at i:18963861 original size:217 final size:218
Alignment explanation
Indices: 18963465--18963925 Score: 467
Period size: 217 Copynumber: 2.1 Consensus size: 218
18963455 GATCACATCT
* * * *
18963465 AGTCTTATCCTCCTGAAGTTGCAGTGATGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAGTT
1 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* * * *
18963530 GCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATC
66 GCAGTGGAGCAGATTAAAACCCATAATCCTATCTTCCTGAAGTTGCAGTAGAGCAGATTAAAATC
* * * * * * *
18963595 ACAGATCTTATCTCTCTGAAGTTGCAAAGAGAAAATCGCATCTAGTCTTAT-CTCCCTGAAGTTG
131 ACAGATCTTATATCCCTGAAGTTACAAAGAGAAAATAGAAGCAAGTCTTATCCT-CCTGAAGTTG
18963659 CAGCGGA-GCAGACT-AAG-TAAGCA
195 CAG-GGAGGCAGACTGAAGAT-AGCA
*
18963682 AGTCTTATCCTCCTGAAGTTATAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
* * * ***
18963747 GCAGTGGAGCGGATTAAAACCTCA-AATCTTATC-TCTCTGAAGTTGCAG-AGAGTAGA-TCGCA
66 GCAGTGGAGCAGATTAAAACC-CATAATCCTATCTTC-CTGAAGTTGCAGTAGAGCAGATTAAAA
* * * * * **
18963808 TC-TAG-TCTTATATCCCTGAATTTACAGCAGAGCAGACTAAGTAAGCAAGTCTTATCCTTTTGA
129 TCACAGATCTTATATCCCTGAAGTTACA-AAGAG-AAAAT-AG-AAGCAAGTCTTATCCTCCTGA
*
18963871 AGTTGCAGTGAGGCAGACTGAAGATAGCA
190 AGTTGCAGGGAGGCAGACTGAAGATAGCA
* *
18963900 AATCTTAT-CTCCGTGAAGTTGCAGTG
1 AGTCTTATCCTCC-TGAAGTTACAGTG
18963926 GAGTGAATTA
Statistics
Matches: 200, Mismatches: 33, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
213 17 0.09
214 6 0.03
215 7 0.04
216 10 0.05
217 131 0.65
218 28 0.14
219 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAACCCATAATCCTATCTTCCTGAAGTTGCAGTAGAGCAGATTAAAATC
ACAGATCTTATATCCCTGAAGTTACAAAGAGAAAATAGAAGCAAGTCTTATCCTCCTGAAGTTGC
AGGGAGGCAGACTGAAGATAGCA
Found at i:18964021 original size:348 final size:346
Alignment explanation
Indices: 18963379--18964237 Score: 1014
Period size: 348 Copynumber: 2.5 Consensus size: 346
18963369 GGTGGGCAAT
* * *
18963379 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTATGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTC--TGAAGT
* * *
18963444 TGCAGAGAGCAGATCACATCTAGTCTTATCCTCCTGAAGTTGCAGTGATGCAGACTGAAGATGGC
64 TGCAGAGAGCAGATCACATCTAGTCTTATCCTCCTGAAGTTACAGAGATGCAGACTGAAGATAGC
* *
18963509 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTT
129 AAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGCAGATAATCCTATCTTCCTGAAGTT
* * *
18963574 GCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGAGAAAATCGCATCTA
194 GCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTATGAAGTTGCAAAGAGAAAATCGCATCTA
* *
18963639 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTAT
259 GTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTAC
18963704 AGTGAGGCAGACTGAAGAT-AGCA
324 AGTGAGGCAGACTGAAGATGA-CA
18963727 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTGAAGTTG
* * * *
18963792 CAGAGAGTAGATCGCATCTAGTCTTAT-ATCCCTGAATTTACAGCAGA-GCAGACT-AAG-TAAG
66 CAGAGAGCAGATCACATCTAGTCTTATCCT-CCTGAAGTTACAG-AGATGCAGACTGAAGAT-AG
* * * * *
18963853 CAAGTCTTATC-CTTTTGAAGTTGCAGT-GAGGCAGACTGAAGATAGCA-AATCTTATC-TCCGT
128 CAAATCTTATCTC-CTTGAAGTTGCAGTGGA-GCAGACTAAAG-CAG-ATAATCCTATCTTCC-T
* ** * * *
18963914 GAAGTTGCAGTGGAGTGAATTAAAACCTTAGATCTTATCTCTTTATGAAGTTGCAGAGAGCAGAT
188 GAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTC--TATGAAGTTGCAAAGAGAAAAT
* *
18963979 CGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCTT
251 CGCATCTAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCT
*
18964044 GAAGTTGCAGTGAGGCAGACTGAAGATGACA
316 GAAGTTACAGTGAGGCAGACTGAAGATGACA
* * * * * *
18964075 AATCTTATCTCCCTGAAGTAGCAGTGGAACAGATTAAAGCC-GATAATCCTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCA-AATCTTATCTCTCTGAAGTT
* * * * * * *
18964139 GCAGTAGAGCGGATTAAAAT-TAGATCTTATCTTTCTGAAGTTGCAGAGA-GCAGA-TCG--CAT
65 GCAG-AGAGCAGA-TCACATCTAG-TCTTATCCTCCTGAAGTTACAGAGATGCAGACT-GAAGAT
* * *
18964199 --CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
126 AGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAA
18964238 GTAAGCAAGT
Statistics
Matches: 439, Mismatches: 51, Indels: 44
0.82 0.10 0.08
Matches are distributed among these distances:
344 4 0.01
345 40 0.09
346 127 0.29
347 7 0.02
348 222 0.51
349 19 0.04
350 19 0.04
351 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (346 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAAATCTTATCTCTCTGAAGTTG
CAGAGAGCAGATCACATCTAGTCTTATCCTCCTGAAGTTACAGAGATGCAGACTGAAGATAGCAA
ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGCAGATAATCCTATCTTCCTGAAGTTGC
AGTGGAGCGAATTAAAACCACAGATCTTATCTCTATGAAGTTGCAAAGAGAAAATCGCATCTAGT
CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAG
TGAGGCAGACTGAAGATGACA
Found at i:18964189 original size:215 final size:215
Alignment explanation
Indices: 18963900--18964576 Score: 1013
Period size: 215 Copynumber: 3.1 Consensus size: 215
18963890 GAAGATAGCA
* * * *
18963900 AATCTTATCTCCGTGAAGTTGCAGTGGAGTGAATTAAAACCTTAGATCTTATCTCTTTATGAAGT
1 AATCCTATCTCCGTGAAGTTGCAGTGGAGCGGATTAAAA--TTAGATCTTA--TCTTTCTGAAGT
*
18963965 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCA
62 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
18964030 AGTCTTATCCTCTTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTA
127 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTT
*
18964095 GCAGTGGAACAGATTAAAGCCGAT
192 GCAGTGGAGCAGATTAAAGCCGAT
*
18964119 AATCCTATCTCTC-TGAAGTTGCAGTAGAGCGGATTAAAATTAGATCTTATCTTTCTGAAGTTGC
1 AATCCTATCTC-CGTGAAGTTGCAGTGGAGCGGATTAAAATTAGATCTTATCTTTCTGAAGTTGC
18964183 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
65 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
* *
18964248 CTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATC-T-TCTCCCTGAAGTTGCA
130 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCA
18964311 GTGGAGCAGATTAAAGCCGAT
195 GTGGAGCAGATTAAAGCCGAT
* * * *
18964332 AATCCTATTTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCGTGAAGTTGCAGTGGAGCGGATTAAAAT--TAGATCTTATCTTTCTGAAGTTG
* * * *
18964397 CAAAGAGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTACAGCGGAGCAGACTAAGTAAGCAAG
64 CAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
*
18964462 TCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGAT-AGCAAATCTTATCTCCCTGAAGTTG
129 TCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGA-CAAATCTTATCTCCCTGAAGTTG
* * *
18964526 TAGTGGAGCCGATTAAAG-CTAT
193 CAGTGGAGCAGATTAAAGCCGAT
* *
18964548 AAGTCTTATCTCCTTGAAGTTGCAGTGGA
1 AA-TCCTATCTCCGTGAAGTTGCAGTGGA
18964577 ATATATTGAA
Statistics
Matches: 422, Mismatches: 28, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
212 1 0.00
213 71 0.17
214 1 0.00
215 246 0.58
216 6 0.01
217 63 0.15
219 33 0.08
220 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (215 bp):
AATCCTATCTCCGTGAAGTTGCAGTGGAGCGGATTAAAATTAGATCTTATCTTTCTGAAGTTGCA
GAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
TTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAAGCCGAT
Done.