Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006334.1 Hibiscus syriacus cultivar Beakdansim tig00015139_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 159903
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6606 original size:18 final size:19
Alignment explanation
Indices: 6580--6626 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
6570 CTAAAGCACT
* *
6580 AAGAGTCAAAGG-GAAAAA
1 AAGAATCAAAGGAAAAAAA
6598 AAGAATCAAAGGAAAAAAA
1 AAGAATCAAAGGAAAAAAA
6617 AAGAATCAAA
1 AAGAATCAAA
6627 TCAGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.68, C:0.06, G:0.19, T:0.06
Consensus pattern (19 bp):
AAGAATCAAAGGAAAAAAA
Found at i:7149 original size:17 final size:17
Alignment explanation
Indices: 7110--7149 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
7100 AATTTTTTAA
* *
7110 TTTTTGTATTTTTTGGC
1 TTTTTTTATTTTTCGGC
7127 TTTTTTTATTTTTCGGC
1 TTTTTTTATTTTTCGGC
7144 TTTTTT
1 TTTTTT
7150 AAACAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.07, G:0.12, T:0.75
Consensus pattern (17 bp):
TTTTTTTATTTTTCGGC
Found at i:9299 original size:3 final size:3
Alignment explanation
Indices: 9280--9327 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
9270 TTCATTTGAA
*
9280 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT TA- TAA TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9323 TAT TA
1 TAT TA
9328 AATAATTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
2 5 0.12
3 34 0.85
4 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9805 original size:29 final size:28
Alignment explanation
Indices: 9764--9821 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
9754 GACAAAAAAA
*
9764 AGAGAAAACAAAGACAA-CCAACAACCAC
1 AGAGAAAAAAAAG-CAATCCAACAACCAC
9792 AGAGAAGAAAAAAGCAATCCAACAACCAC
1 AGAGAA-AAAAAAGCAATCCAACAACCAC
9821 A
1 A
9822 AATCACCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.60, C:0.26, G:0.12, T:0.02
Consensus pattern (28 bp):
AGAGAAAAAAAAGCAATCCAACAACCAC
Found at i:11520 original size:28 final size:26
Alignment explanation
Indices: 11475--11541 Score: 64
Period size: 28 Copynumber: 2.5 Consensus size: 26
11465 TAATTCTTTC
* * *
11475 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCATAATATTGATATATA--TATTA
*
11503 TTTTCATAATATTGATATGTATATTA
1 TTTTCATAATATTGATATATATATTA
11529 TTTT-ATTAATATT
1 TTTTCA-TAATATT
11542 TCATTTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 16 0.47
28 17 0.50
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTTCATAATATTGATATATATATTA
Found at i:14860 original size:15 final size:15
Alignment explanation
Indices: 14840--14871 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14830 GATCAATACC
14840 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
14855 TTTTGCATACATTCA
1 TTTTGCATACATGCA
14870 TT
1 TT
14872 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:22632 original size:18 final size:18
Alignment explanation
Indices: 22609--22643 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22599 CAAGTTTATC
22609 TTTTTGAAATTCAATTTA
1 TTTTTGAAATTCAATTTA
22627 TTTTTGAAATTCAATTT
1 TTTTTGAAATTCAATTT
22644 GTTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTTTGAAATTCAATTTA
Found at i:24000 original size:113 final size:113
Alignment explanation
Indices: 23802--24360 Score: 1023
Period size: 113 Copynumber: 5.0 Consensus size: 113
23792 CAAATATTCA
*
23802 AATTCATCATTCGATGGATCAACTTTTCTAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
*
23867 GGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
66 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
*
23915 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATCAGAAGAACTCATCTGAAGAA
1 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
23980 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
66 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
* *
24028 AATTCATCATTTGATGGATCAACTTTTCCAGAGAAGTTTATAATGAGAAGAACTCATCTGAAGAA
1 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
24093 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
66 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
24141 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
24206 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
66 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
*
24254 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAG-A
1 AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
* **
24318 GGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC-AACCTTTTG
66 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTG
24361 CATGACTCTA
Statistics
Matches: 434, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
111 9 0.02
112 32 0.07
113 393 0.91
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (113 bp):
AATTCATCATTCGATGGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAAACCTTTTGTTTG
Found at i:24692 original size:3 final size:3
Alignment explanation
Indices: 24686--24740 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
24676 TTCATTTGAA
* * * *
24686 TAT TAT T-T ATAT T-T TAT TAT TAT TAT AAT AAT TAT AAT TTT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24730 TAT TAT TAT TA
1 TAT TAT TAT TA
24741 AATAATTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 39 0.91
4 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:26961 original size:13 final size:14
Alignment explanation
Indices: 26943--26972 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26933 TGTTGTTTTT
26943 TTTAAAT-AGATAA
1 TTTAAATGAGATAA
26956 TTTAAATGAGATAA
1 TTTAAATGAGATAA
26970 TTT
1 TTT
26973 TAAAACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (14 bp):
TTTAAATGAGATAA
Found at i:30616 original size:28 final size:27
Alignment explanation
Indices: 30577--30632 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
30567 GAGAAAGTCA
*
30577 AAAAATTGAACAAATCCTTGTCATAAT
1 AAAAATTGAACAAATCCTTGCCATAAT
30604 AAAAATTGAAACAAATCCTTGCCATAAT
1 AAAAATTG-AACAAATCCTTGCCATAAT
30632 A
1 A
30633 CTATAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAAATTGAACAAATCCTTGCCATAAT
Found at i:31101 original size:39 final size:39
Alignment explanation
Indices: 31057--31133 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
31047 CTCTATTCTC
31057 ACACATAAAATCTTATATCCGTCATGATATAACTTTGAA
1 ACACATAAAATCTTATATCCGTCATGATATAACTTTGAA
* *
31096 ACACATAAAATCTTATGTCCGTCATGATGTAACTTTGA
1 ACACATAAAATCTTATATCCGTCATGATATAACTTTGA
31134 CTGCGTGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (39 bp):
ACACATAAAATCTTATATCCGTCATGATATAACTTTGAA
Found at i:34094 original size:143 final size:140
Alignment explanation
Indices: 33877--34179 Score: 408
Period size: 143 Copynumber: 2.1 Consensus size: 140
33867 TATGAAAAGT
* *
33877 TTGGGCACTAAAAAGTTTCTACCATAGTGAATATTTTGTCTATGAGAAATGCACCTTTTCTGATA
1 TTGGGCACT-AAAAGTTTCTACCATAGTGAATATTTTGCCTATGAGAAATACACCTTTTCTGATA
* * * *
33942 TGGAGTGATATATCACCACTAAAAAGTTTTTTGAAATGAGTTCATATATCACTGAAAAGTTGCTA
65 TGAAGTGATATATCACCACTAAAAAGCTTTCTAAAATGAGTTCATATATCACTGAAAAGTTGCTA
34007 AAGAGGATTAA
130 AAGAGGATTAA
* * * * *
34018 TTGGGCACTAAAAGGTTTCTGCCATGGTGCATTATTTTGCCTATGAGAAATATACATTTTTCTGA
1 TTGGGCACTAAAA-GTTTCTACCATAGTG-AATATTTTGCCTATGAGAAATACAC-CTTTTCTGA
* * * *
34083 TATGAAGTGATATATCACCACTGAAAAGCTTTCTAAAATGAGTTGATGTATCACTGAAAAGTTTC
63 TATGAAGTGATATATCACCACTAAAAAGCTTTCTAAAATGAGTTCATATATCACTGAAAAGTTGC
* *
34148 TGAAGATGATTAA
128 TAAAGAGGATTAA
34161 TTGGGCACTGAAAAGTTTC
1 TTGGGCACT-AAAAGTTTC
34180 AATAATAGTG
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
140 4 0.03
141 22 0.16
142 21 0.15
143 90 0.64
144 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (140 bp):
TTGGGCACTAAAAGTTTCTACCATAGTGAATATTTTGCCTATGAGAAATACACCTTTTCTGATAT
GAAGTGATATATCACCACTAAAAAGCTTTCTAAAATGAGTTCATATATCACTGAAAAGTTGCTAA
AGAGGATTAA
Found at i:35889 original size:21 final size:20
Alignment explanation
Indices: 35841--35900 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 20
35831 GGGCACTGTA
*
35841 TATTTGTCTCGAAGGACCAC
1 TATTTGTCCCGAAGGACCAC
35861 TA--TGTCCCGAAGGACCAC
1 TATTTGTCCCGAAGGACCAC
35879 TGATTTGTCCCGAAGGACCAC
1 T-ATTTGTCCCGAAGGACCAC
35900 T
1 T
35901 CCTTAAGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 16 0.44
19 1 0.03
20 2 0.06
21 17 0.47
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (20 bp):
TATTTGTCCCGAAGGACCAC
Found at i:38185 original size:4 final size:4
Alignment explanation
Indices: 38176--39181 Score: 1621
Period size: 4 Copynumber: 254.5 Consensus size: 4
38166 AATCCTTATC
38176 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38224 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38272 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38320 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38368 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38416 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38464 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38512 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38560 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38608 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38656 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38704 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38752 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
38800 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
* * * *
38848 TCAT TCAT TCAT T-ATT TCTT TCTT TCTT TCTT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCA-T TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
*
38896 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCTT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
* * * * * * * * * * *
38944 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC-T TCTT TCTT TCTT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
* * * *
38991 TCTT TC-T TCTT TCTT TC-T TCTT TCAT TCAT TCAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
*
39037 TCAT TCAT TCAT TCAT TCAT TCAT TC-T TC-T TCTT TC-T TC-T TC-T
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
* * * *
39080 TC-T TC-T TC-T T-AC TC-T T-AT ACCCAC TC-T TGTAT TCAT TCAT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT --TCAT TCAT T-CAT TCAT TCAT TCAT
*
39124 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCTT TCAT
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT
*
39172 TCTT TCAT TC
1 TCAT TCAT TC
39182 TTTCTTTCTT
Statistics
Matches: 972, Mismatches: 16, Indels: 28
0.96 0.02 0.03
Matches are distributed among these distances:
3 37 0.04
4 932 0.96
5 2 0.00
6 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (4 bp):
TCAT
Found at i:39068 original size:3 final size:3
Alignment explanation
Indices: 39060--39089 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
39050 CATTCATTCA
39060 TTC TTC TTC TTTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TT
39090 ACTCTTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:39188 original size:4 final size:4
Alignment explanation
Indices: 39163--39346 Score: 201
Period size: 4 Copynumber: 47.2 Consensus size: 4
39153 CATTCATTCA
* *
39163 TTCT TTCA TTCT TTCA TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
*
39211 TTCT TTCT TTCT TTCT TTCT TTCA TTCT TTCT TTCT TTCT TTCT TCATCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T--TCT
39261 TTC- TT-T TTCT TTC- TTC- TTCT TTCT TTC- TTCT TTCT CATTCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT --TTCT TTCT
*
39306 TT-T CTTC- TTC- TTC- TTCA TTCT TTCT TT-T CTTC- TTCT TTCT T
1 TTCT -TTCT TTCT TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT T
39347 CTTCTTCTTC
Statistics
Matches: 159, Mismatches: 7, Indels: 28
0.82 0.04 0.14
Matches are distributed among these distances:
3 27 0.17
4 124 0.78
6 8 0.05
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (4 bp):
TTCT
Found at i:39279 original size:3 final size:3
Alignment explanation
Indices: 39251--39356 Score: 83
Period size: 3 Copynumber: 33.0 Consensus size: 3
39241 CTTTCTTTCT
* *
39251 TTC TTC ATC TTTC TTT TTC TTTC TTC TTC TTTC TTTC TTC TT- TCTC
1 TTC TTC TTC -TTC TTC TTC -TTC TTC TTC -TTC -TTC TTC TTC T-TC
39297 ATTC TTTC TT- TTC TTC TTC TTC TTC ATTC TTTC TT- TTC TTC TTC TTTC
1 -TTC -TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC -TTC
39345 TTC TTC TTC TTC
1 TTC TTC TTC TTC
39357 CATCTTGTCT
Statistics
Matches: 87, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
2 5 0.06
3 55 0.63
4 26 0.30
5 1 0.01
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:39354 original size:28 final size:29
Alignment explanation
Indices: 38855--39356 Score: 231
Period size: 32 Copynumber: 17.0 Consensus size: 29
38845 CATTCATTCA
*
38855 TTCATTATTTCTTTCTTTCTTTCTTTCATTC
1 TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
* * * *
38886 ATTCATTCATTCATTCATTCATTCATTCATTC
1 -TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
* * *
38918 ATTCATTCATTCATTCATTCATTCTTTCTTTC
1 -TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
*
38950 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTC
1 -TTCATTCTTTCTTTC-TTCTTTCTTTCTTC
*
38981 TTTCTTTCTTTCTTTCTTCTTTCTTTCTTC
1 -TTCATTCTTTCTTTCTTCTTTCTTTCTTC
* * * *
39011 TTTCATTCATTCATTCATTCATTCATTCATTC
1 -TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
* *
39043 ATTCATTCATTCATTCATTC-TTC-TTCTTTC
1 -TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
* * *
39073 TTC-TTC-TTC-TTCTTCTTACTCTTATAC
1 TTCATTCTTTCTTTCTTCTTTCT-TTCTTC
* * * * *
39100 -CCACTCTTGT-ATTCATTCATTCATTCATTC
1 TTCATTCTT-TCTTTC-TTCTTTCTTTC-TTC
* * * *
39130 ATTCATTCATTCATTCATTCATTCATTCATTC
1 -TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
* *
39162 ATTCTTTCATTCTTTCATTCTTTCTTTC-T-
1 -TTCATTCTTTCTTTC-TTCTTTCTTTCTTC
*
39191 TTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC
1 TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
* *
39222 TTTCTTTCTTTCATTCTTTCTTTCTTTCTTTC
1 -TTCATTCTTTCTTTC-TTCTTTCTTTC-TTC
39254 TTCA-TCTTTCTTT-TTCTTTC-TTCTTC
1 TTCATTCTTTCTTTCTTCTTTCTTTCTTC
* *
39280 TTTCTTTC-TTCTTTC-TCATTCTTTCTT-
1 -TTCATTCTTTCTTTCTTCTTTCTTTCTTC
*
39307 TTC-TTC-TTC-TTCTTCATTCTTTCTT-
1 TTCATTCTTTCTTTCTTCTTTCTTTCTTC
39332 TTC-TTC-TTCTTTCTTC-TTC-TTCTTC
1 TTCATTCTTTCTTTCTTCTTTCTTTCTTC
39357 CATCTTGTCT
Statistics
Matches: 400, Mismatches: 45, Indels: 57
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.02
25 33 0.08
26 18 0.05
27 24 0.06
28 45 0.11
29 9 0.02
30 50 0.12
31 35 0.09
32 178 0.44
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (29 bp):
TTCATTCTTTCTTTCTTCTTTCTTTCTTC
Found at i:40900 original size:16 final size:16
Alignment explanation
Indices: 40876--40917 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
40866 TTCGCGTATT
* *
40876 CTCCACCTCTCTTTTC
1 CTCCTCCTCTCCTTTC
40892 CTCCTCCTCTCCTTTC
1 CTCCTCCTCTCCTTTC
*
40908 CTCTTCCTCT
1 CTCCTCCTCT
40918 TCTCTTCGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.02, C:0.52, G:0.00, T:0.45
Consensus pattern (16 bp):
CTCCTCCTCTCCTTTC
Found at i:42307 original size:29 final size:29
Alignment explanation
Indices: 42264--42346 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
42254 CTCACCTAAC
42264 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
42294 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
42323 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
42347 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:45730 original size:15 final size:15
Alignment explanation
Indices: 45710--45739 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45700 CTTTCTCATA
45710 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
45725 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
45740 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:46933 original size:29 final size:29
Alignment explanation
Indices: 46890--46972 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
46880 CTCACCTAAC
46890 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
* *
46920 TAAATGATGCAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
46949 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
46973 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:50769 original size:19 final size:20
Alignment explanation
Indices: 50722--50760 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
50712 AATTAATATA
50722 TTGAATT-TATTATTTGAAT
1 TTGAATTATATTATTTGAAT
50741 TTGAATTATATTA-TTGAAT
1 TTGAATTATATTATTTGAAT
50760 T
1 T
50761 GTTAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TTGAATTATATTATTTGAAT
Found at i:50975 original size:15 final size:15
Alignment explanation
Indices: 50941--50978 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
50931 AAAGTTATTG
50941 ATTTTAAAAAAAATA
1 ATTTTAAAAAAAATA
**
50956 A-TTTAAATGAAATA
1 ATTTTAAAAAAAATA
50970 ATTTTAAAA
1 ATTTTAAAA
50979 CACAAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (15 bp):
ATTTTAAAAAAAATA
Found at i:54633 original size:10 final size:10
Alignment explanation
Indices: 54618--54642 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
54608 ACATCATATT
54618 CTCTCAAATA
1 CTCTCAAATA
54628 CTCTCAAATA
1 CTCTCAAATA
54638 CTCTC
1 CTCTC
54643 TCTATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (10 bp):
CTCTCAAATA
Found at i:54712 original size:17 final size:17
Alignment explanation
Indices: 54671--54716 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
54661 TTATAATATT
*
54671 ATATATTTAATTTATTTA
1 ATAT-TTTACTTTATTTA
*
54689 AGCATTTTACTTTATTTA
1 A-TATTTTACTTTATTTA
54707 ATATTTTACT
1 ATATTTTACT
54717 AATATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.33
18 14 0.58
19 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (17 bp):
ATATTTTACTTTATTTA
Found at i:56726 original size:41 final size:40
Alignment explanation
Indices: 56659--56735 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
56649 ATACCCAGAA
*
56659 ATAGCGCTGAGCAGGGGCAGCACTATACCCCTACGTGACGT
1 ATAGCGCGGAGCAGGGGCAGCACTATACCCC-ACGTGACGT
* *
56700 ATAGCGCGGATCAGTGGGC-GCGCTATACCCCACGTG
1 ATAGCGCGGAGCAG-GGGCAGCACTATACCCCACGTG
56736 GCGTCAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 5 0.16
41 23 0.72
42 4 0.12
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.17
Consensus pattern (40 bp):
ATAGCGCGGAGCAGGGGCAGCACTATACCCCACGTGACGT
Found at i:57870 original size:22 final size:22
Alignment explanation
Indices: 57842--57885 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
57832 TTTGAATACC
57842 AAAACAATCATGTCAAAACGAT
1 AAAACAATCATGTCAAAACGAT
57864 AAAACAATCATGTCAAAACGAT
1 AAAACAATCATGTCAAAACGAT
57886 GTAGTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (22 bp):
AAAACAATCATGTCAAAACGAT
Found at i:58530 original size:5 final size:5
Alignment explanation
Indices: 58520--58603 Score: 161
Period size: 5 Copynumber: 17.0 Consensus size: 5
58510 ATGTAGATAT
58520 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT- TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
58569 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
58604 AAAAAATATC
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
4 4 0.05
5 74 0.95
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:58831 original size:23 final size:21
Alignment explanation
Indices: 58805--58850 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
58795 ATTTATAATT
58805 TTTATATAAAATATTCTTGAAAA
1 TTTA-ATAAAA-ATTCTTGAAAA
* *
58828 TTTAATTAAAATTGTTGAAAA
1 TTTAATAAAAATTCTTGAAAA
58849 TT
1 TT
58851 AAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTAATAAAAATTCTTGAAAA
Found at i:63118 original size:39 final size:39
Alignment explanation
Indices: 63027--63135 Score: 146
Period size: 39 Copynumber: 2.8 Consensus size: 39
63017 TCTTACTAAA
*
63027 CCACCAACTTATGCTCCTCCACCCAAAGCACCACCCAAG
1 CCACCAACTTATCCTCCTCCACCCAAAGCACCACCCAAG
* * * *
63066 CAACTAACATATCCTTCTCCACCCAAAGCACCACCCAAG
1 CCACCAACTTATCCTCCTCCACCCAAAGCACCACCCAAG
* * *
63105 CCACCAGCTTATCCTCCTCCACTCAAGGCAC
1 CCACCAACTTATCCTCCTCCACCCAAAGCAC
63136 TCAAACATAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.30, C:0.47, G:0.07, T:0.16
Consensus pattern (39 bp):
CCACCAACTTATCCTCCTCCACCCAAAGCACCACCCAAG
Found at i:63385 original size:165 final size:165
Alignment explanation
Indices: 63099--63413 Score: 540
Period size: 165 Copynumber: 1.9 Consensus size: 165
63089 CAAAGCACCA
*
63099 CCCAAGCCACCAGCTTATCCTCCTCCACTCAAGGCACTCAAACATATAGCGAGAAAGCTTAGTCT
1 CCCAAGCCACCAACTTATCCTCCTCCACTCAAGGCACTCAAACATATAGCGAGAAAGCTTAGTCT
* * * *
63164 CTCACAACATAAAATGCTGGTCCGAAAAGCTGCGAAACGCCGACACCTCGGCGATGTACATTTTG
66 CTCAAAACACAAAATGCTGGTCCGAAAAGCGGCGAAACGCCGACACCTCGGCGATGTACATTTCG
63229 ATTCATCCATTATCGGTGTCTTCTTCTTCTTCTTC
131 ATTCATCCATTATCGGTGTCTTCTTCTTCTTCTTC
*
63264 CCCAAGCCACTAACTTATCCTCCTCCACTCAAGGCACTCAAACATATAGCGAGAAAGCTTAGTCT
1 CCCAAGCCACCAACTTATCCTCCTCCACTCAAGGCACTCAAACATATAGCGAGAAAGCTTAGTCT
* * * *
63329 CTCAAAACACAAAATGCTGGTCCGAAAAGCGGCGAAACTCCGGCACCTCTGCGATGTGCATTTCG
66 CTCAAAACACAAAATGCTGGTCCGAAAAGCGGCGAAACGCCGACACCTCGGCGATGTACATTTCG
63394 ATTCATCCATTATCGGTGTC
131 ATTCATCCATTATCGGTGTC
63414 GTAAGTGCTT
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
165 140 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (165 bp):
CCCAAGCCACCAACTTATCCTCCTCCACTCAAGGCACTCAAACATATAGCGAGAAAGCTTAGTCT
CTCAAAACACAAAATGCTGGTCCGAAAAGCGGCGAAACGCCGACACCTCGGCGATGTACATTTCG
ATTCATCCATTATCGGTGTCTTCTTCTTCTTCTTC
Found at i:65517 original size:2 final size:2
Alignment explanation
Indices: 65512--65544 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
65502 TTAAAAAATA
65512 AT 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 AT A
65545 ATAAGTGTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66426 original size:18 final size:19
Alignment explanation
Indices: 66390--66428 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66380 ATGTTGTCAA
*
66390 TTATAATTAGTTTTGAATT
1 TTATAATTAGTTTTCAATT
*
66409 TTATAA-TATTTTTCAATT
1 TTATAATTAGTTTTCAATT
66427 TT
1 TT
66429 CTGTTATTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATAATTAGTTTTCAATT
Found at i:68799 original size:20 final size:20
Alignment explanation
Indices: 68776--68881 Score: 128
Period size: 20 Copynumber: 5.3 Consensus size: 20
68766 AATTTGTTAA
68776 TCGCAACACATAAGTCAAAT
1 TCGCAACACATAAGTCAAAT
*
68796 TCGCAACACGAT-ATTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
68816 TCGCAACAC-TGAAGTCAAAT
1 TCGCAACACAT-AAGTCAAAT
* *
68836 TCGCAACACAAAAGTTAAAT
1 TCGCAACACATAAGTCAAAT
*
68856 TCGCAACGCGA-AAGTCAAAT
1 TCGCAACAC-ATAAGTCAAAT
68876 TCGCAA
1 TCGCAA
68882 AGCGCATTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.01
20 71 0.95
21 3 0.04
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.20
Consensus pattern (20 bp):
TCGCAACACATAAGTCAAAT
Found at i:68820 original size:60 final size:62
Alignment explanation
Indices: 68752--68890 Score: 146
Period size: 60 Copynumber: 2.3 Consensus size: 62
68742 TGCGATTTTC
* * * *
68752 CAAA-TCGCAACGCGAATTTGT-TAA-TCGCAACACATAAGTCAAATTCGCAACACGATATT
1 CAAATTCGCAACGCGAATTTGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACGAAAGT
* * *
68811 CAAATTCGCAACACTGAA---GTCAAATTCGCAACACAAAAGTTAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGC-GAATTTGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACGAAAGT
* *
68871 CAAATTCGCAAAGCGCATTT
1 CAAATTCGCAACGCGAATTT
68891 ATTTTCGCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
58 2 0.03
59 8 0.13
60 50 0.79
61 3 0.05
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (62 bp):
CAAATTCGCAACGCGAATTTGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACGAAAGT
Found at i:68899 original size:19 final size:20
Alignment explanation
Indices: 68875--68915 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
68865 GAAAGTCAAA
*
68875 TTCGCAAAGCGCA-TTTATT
1 TTCGCAAAGCGAATTTTATT
*
68894 TTCGCAATGCGAATTTTATT
1 TTCGCAAAGCGAATTTTATT
68914 TT
1 TT
68916 ATTTTCGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (20 bp):
TTCGCAAAGCGAATTTTATT
Found at i:69085 original size:22 final size:22
Alignment explanation
Indices: 69034--69091 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
69024 TCACTCTCTA
*
69034 CGGTGACATCCGTCCCCATCTC
1 CGGTGAAATCCGTCCCCATCTC
* ** *
69056 TGACGAAATTCGTCCCCATCTC
1 CGGTGAAATCCGTCCCCATCTC
69078 CGGTGAAATCCGTC
1 CGGTGAAATCCGTC
69092 TATCTCCATC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.24
Consensus pattern (22 bp):
CGGTGAAATCCGTCCCCATCTC
Found at i:69458 original size:20 final size:20
Alignment explanation
Indices: 69435--69495 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
69425 AAACTTAAAT
69435 TCGCAACACGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
*
69455 TCGCAACAC------CAAAA
1 TCGCAACACGAAAATGAAAA
*
69469 TCGCAACGCGAAAATGAAAA
1 TCGCAACACGAAAATGAAAA
69489 TCGCAAC
1 TCGCAAC
69496 GCGATTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
14 12 0.38
20 20 0.62
ACGTcount: A:0.49, C:0.26, G:0.15, T:0.10
Consensus pattern (20 bp):
TCGCAACACGAAAATGAAAA
Found at i:69482 original size:14 final size:14
Alignment explanation
Indices: 69450--69483 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
69440 ACACGAAAAT
69450 GAAAATCGCAACAC
1 GAAAATCGCAACAC
* *
69464 CAAAATCGCAACGC
1 GAAAATCGCAACAC
69478 GAAAAT
1 GAAAAT
69484 GAAAATCGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.26, G:0.15, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACAC
Found at i:71681 original size:21 final size:20
Alignment explanation
Indices: 71657--71749 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 20
71647 TTCACCTGTC
*
71657 ATCGTTCAAGAGGCGCCTCAT
1 ATCGTTCAAGAGGCCCCTC-T
* *
71678 ATCGTTCAAGAGGCTCATCT
1 ATCGTTCAAGAGGCCCCTCT
*
71698 CATCGTTCAAGAGGCCCCTCCC
1 -ATCGTTCAAGAGGCCCCT-CT
* * *
71720 AGCGTTCAAGAGGCCACTGT
1 ATCGTTCAAGAGGCCCCTCT
71740 CATCGTTCAA
1 -ATCGTTCAA
71750 TGGGTCTCTC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.02
21 57 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (20 bp):
ATCGTTCAAGAGGCCCCTCT
Found at i:71761 original size:42 final size:42
Alignment explanation
Indices: 71655--71773 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
71645 GATTCACCTG
* ** *
71655 TCATCGTTCAAGAGGCGCCTCATATCGTTCAAGAGGCTCATC
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCTCATC
* *
71697 TCATCGTTCAAGAGGCCCCTCCCAGCGTTCAAGAGGC-CACTG
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCTCA-TC
* *
71739 TCATCGTTCAATG-GGTCTCTCCCACCGTTCAAGAG
1 TCATCGTTCAA-GAGGCCCCTCCCACCGTTCAAGAG
71774 CCCGAATCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.03
42 64 0.96
43 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCTCATC
Found at i:73217 original size:42 final size:42
Alignment explanation
Indices: 73134--73218 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
73124 TTACATTGAA
* *
73134 AGTTGATTTGTTTAATTGATGAGGAAAGAATAATTATTTTTT
1 AGTTGATTTATTTAATTGATGAGGAAAGAAGAATTATTTTTT
* * *
73176 AGTTGATTTATTTAATTTGATGTGTAAATAAGAATTATTTTTT
1 AGTTGATTTATTTAA-TTGATGAGGAAAGAAGAATTATTTTTT
73219 TGCTTGTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 14 0.38
43 23 0.62
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (42 bp):
AGTTGATTTATTTAATTGATGAGGAAAGAAGAATTATTTTTT
Found at i:73367 original size:20 final size:19
Alignment explanation
Indices: 73294--73370 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
73284 TTGAAGATAC
*
73294 AAATTCGCAACGCAAAAGAT
1 AAATTCGCAACGCGAAAG-T
*
73314 AAATTCGCAATGAC-AAAGGT
1 AAATTCGCAACG-CGAAA-GT
*
73334 AAATTCACAACGCGAAAGT
1 AAATTCGCAACGCGAAAGT
73353 CAAATTCGCAACGCGAAA
1 -AAATTCGCAACGCGAAA
73371 TAAGCGTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.06
20 44 0.90
21 2 0.04
ACGTcount: A:0.47, C:0.21, G:0.17, T:0.16
Consensus pattern (19 bp):
AAATTCGCAACGCGAAAGT
Found at i:75958 original size:24 final size:24
Alignment explanation
Indices: 75924--75977 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
75914 CTGAAACACC
*
75924 ATCAAAATCCGAGTATTGACTAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
75948 ATCAAAGTCCGTGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
75972 ATCAAA
1 ATCAAA
75978 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:76740 original size:16 final size:15
Alignment explanation
Indices: 76718--76756 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
76708 GAAATCATTG
76718 AAAAATTATATATAAA
1 AAAAATTATATA-AAA
* *
76734 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
76749 AAAAATTA
1 AAAAATTA
76757 AAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:76752 original size:14 final size:15
Alignment explanation
Indices: 76718--76756 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
76708 GAAATCATTG
76718 AAAAATTATATATAA
1 AAAAATTATATATAA
* *
76733 ATAAAATTATGTAAAA
1 A-AAAATTATATATAA
76749 AAAAATTA
1 AAAAATTA
76757 AAGATGGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAAATTATATATAA
Found at i:77084 original size:20 final size:19
Alignment explanation
Indices: 76912--77086 Score: 158
Period size: 20 Copynumber: 8.9 Consensus size: 19
76902 AACTAAAACC
* * *
76912 TGTTGCGAAATTAAATTCG
1 TGTTGCGAATTTGACTTCG
* *
76931 TGTTGCAAATTTGAAATTC-
1 TGTTGCGAATTTG-ACTTCG
* *
76950 AGTTGCGAATTTAACTTCTG
1 TGTTGCGAATTTGACTTC-G
76970 TGTTGCGAATTTGACTTCTG
1 TGTTGCGAATTTGACTTC-G
76990 TGTTGCG-ATTT-ACATATTCG
1 TGTTGCGAATTTGAC---TTCG
*
77010 CGTTGCGAATTTGACTATCG
1 TGTTGCGAATTTGACT-TCG
* *
77030 CGTTGCGAATTTGACTTTTG
1 TGTTGCGAATTTGAC-TTCG
77050 TGTTGCGAATTTGACTTCAG
1 TGTTGCGAATTTGACTTC-G
77070 TGTTGCGAATTTGACTT
1 TGTTGCGAATTTGACTT
77087 TTTGTGTTGT
Statistics
Matches: 132, Mismatches: 13, Indels: 21
0.80 0.08 0.13
Matches are distributed among these distances:
18 6 0.05
19 27 0.20
20 89 0.67
21 8 0.06
22 2 0.02
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (19 bp):
TGTTGCGAATTTGACTTCG
Found at i:77088 original size:40 final size:41
Alignment explanation
Indices: 76930--77095 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 41
76920 AATTAAATTC
* * * *
76930 GTGTTGCAAATTTGAAATTCA--GTTGCGAATTTAAC-TTCT
1 GTGTTGCGAATTTG-ACTTCAGTGTTGCGAATTTGACATTTT
* *
76969 GTGTTGCGAATTTGACTTCTGTGTTGCG-ATTT-ACATATTC
1 GTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACAT-TTT
* *
77009 GCGTTGCGAATTTGACTATC-GCGTTGCGAATTTGAC-TTTT
1 GTGTTGCGAATTTGACT-TCAGTGTTGCGAATTTGACATTTT
*
77049 GTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACTTTTT
1 GTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACATTTT
77090 GTGTTG
1 GTGTTG
77096 TGATTTACAG
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
38 6 0.06
39 20 0.19
40 63 0.58
41 17 0.16
42 2 0.02
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.43
Consensus pattern (41 bp):
GTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACATTTT
Found at i:77101 original size:20 final size:20
Alignment explanation
Indices: 76951--77095 Score: 159
Period size: 20 Copynumber: 7.2 Consensus size: 20
76941 TTGAAATTCA
* *
76951 GTTGCGAATTTAACTTCTGT
1 GTTGCGAATTTGACTTTTGT
*
76971 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGT
* *
76991 GTTGCG-ATTT-ACATATTCGC
1 GTTGCGAATTTGAC-T-TTTGT
* * *
77011 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTTTTGT
77031 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTTTGT
**
77051 GTTGCGAATTTGACTTCAGT
1 GTTGCGAATTTGACTTTTGT
77071 GTTGCGAATTTGACTTTTTGT
1 GTTGCGAATTTGAC-TTTTGT
77092 GTTG
1 GTTG
77096 TGATTTACAG
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
18 2 0.02
19 5 0.05
20 86 0.80
21 13 0.12
22 2 0.02
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTGCGAATTTGACTTTTGT
Found at i:77116 original size:41 final size:39
Alignment explanation
Indices: 76951--77123 Score: 174
Period size: 40 Copynumber: 4.3 Consensus size: 39
76941 TTGAAATTCA
* * *
76951 GTTGCGAATTTAACTTCTGTGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTC-GC
* *
76991 GTTGCG-ATTT-ACATATTCGCGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGAC-T-TTTGTGTTGCGAATTTGACT-TCGC
*
77031 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCAGT
1 GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTC-GC
*
77071 GTTGCGAATTTGACTTTTTGTGTTGTG-ATTT-ACAGATTCGC
1 GTTGCGAATTTGAC-TTTTGTGTTGCGAATTTGAC---TTCGC
77112 GTTGCGAATTTG
1 GTTGCGAATTTG
77124 GAAAATCGCA
Statistics
Matches: 114, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
38 2 0.02
39 9 0.08
40 67 0.59
41 31 0.27
42 5 0.04
ACGTcount: A:0.18, C:0.14, G:0.24, T:0.43
Consensus pattern (39 bp):
GTTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTCGC
Found at i:78632 original size:18 final size:18
Alignment explanation
Indices: 78584--78634 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
78574 TAAACTAATT
*
78584 TTTTATTATATTATAATTA
1 TTTTATTATATT-TTATTA
*
78603 -TTTA--ATAGTTTATTA
1 TTTTATTATATTTTATTA
78618 TTTTATTATATTTTATT
1 TTTTATTATATTTTATT
78635 GTACTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
15 5 0.19
16 8 0.31
18 13 0.50
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATATTTTATTA
Found at i:80384 original size:21 final size:21
Alignment explanation
Indices: 80360--80399 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
80350 ACATCATCAA
* *
80360 TTCAGATGGCACCGCAACCAT
1 TTCAGATGACACCACAACCAT
80381 TTCAGATGACACCACAACC
1 TTCAGATGACACCACAACC
80400 GGTTCAGACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.17
Consensus pattern (21 bp):
TTCAGATGACACCACAACCAT
Found at i:80405 original size:21 final size:21
Alignment explanation
Indices: 80360--80407 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
80350 ACATCATCAA
* * *
80360 TTCAGATGGCACCGCAACCAT
1 TTCAGATGACACCACAACCAG
*
80381 TTCAGATGACACCACAACCGG
1 TTCAGATGACACCACAACCAG
80402 TTCAGA
1 TTCAGA
80408 CGCCACTGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (21 bp):
TTCAGATGACACCACAACCAG
Found at i:80935 original size:13 final size:13
Alignment explanation
Indices: 80917--80945 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
80907 TTTATTAGAA
80917 AATGTTTGTATTT
1 AATGTTTGTATTT
80930 AATGTTTGTATTT
1 AATGTTTGTATTT
80943 AAT
1 AAT
80946 TGCTTTAATT
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:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (13 bp):
AATGTTTGTATTT
Found at i:80963 original size:22 final size:20
Alignment explanation
Indices: 80927--80991 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
80917 AATGTTTGTA
*
80927 TTTAATGTTTGTATTTAATT
1 TTTAATGTTTTTATTTAATT
* *
80947 GCTTTAATTTTTTTATTTAGTT
1 --TTTAATGTTTTTATTTAATT
*
80969 TGTAATGTTTTTATTTAATT
1 TTTAATGTTTTTATTTAATT
80989 TTT
1 TTT
80992 TACTTGAGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 19 0.53
22 17 0.47
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.68
Consensus pattern (20 bp):
TTTAATGTTTTTATTTAATT
Found at i:83546 original size:123 final size:123
Alignment explanation
Indices: 83291--83536 Score: 388
Period size: 123 Copynumber: 2.0 Consensus size: 123
83281 ACCTCACAAG
* *
83291 TAATATTTTATTATTATGGTAATTTTTAAATATAAATGCCTGAAAATTAACATATATAAATAATA
1 TAATATTTTATTATTATGGTAATTTTTAAATAAAAATGCCTGAAAACTAACATATATAAATAATA
*
83356 TGGATTAATATATATGTCTATTACCGTTGTTGCTTGTTCCAGTTTGTGCTTGGGTAAT
66 TGGATTAATATATATGTCTATTACCGTTGTTGCTTGTTCCAGGTTGTGCTTGGGTAAT
** *
83414 TAATATTTTATTATTATGGTAATTTTTTGATAAAAATGCCTGAAAACTAACATATCTAAATAATA
1 TAATATTTTATTATTATGGTAATTTTTAAATAAAAATGCCTGAAAACTAACATATATAAATAATA
* * **
83479 TGGGTT-A-ATATATGTGTATTGTCGTTGTTGCTTGTTCCAGGTTGTGCTTGGGTAAT
66 TGGATTAATATATATGTCTATTACCGTTGTTGCTTGTTCCAGGTTGTGCTTGGGTAAT
83535 TA
1 TA
83537 CGTGTTTTTA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
121 47 0.42
122 1 0.01
123 65 0.58
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (123 bp):
TAATATTTTATTATTATGGTAATTTTTAAATAAAAATGCCTGAAAACTAACATATATAAATAATA
TGGATTAATATATATGTCTATTACCGTTGTTGCTTGTTCCAGGTTGTGCTTGGGTAAT
Found at i:83720 original size:53 final size:54
Alignment explanation
Indices: 83642--83750 Score: 157
Period size: 53 Copynumber: 2.0 Consensus size: 54
83632 GTGCATACAT
*
83642 TTATTTATTTTTAGATAAAATTCATATAATTTTCTTTCATA-TTTTGACCCCTA
1 TTATTTATTTTTAGATAAAAATCATATAATTTTCTTTCATATTTTTGACCCCTA
*** * *
83695 TTATTTATTTTTTTTTAAAAATCATATAATTTTCTTTTATATTTTTTACCCCTA
1 TTATTTATTTTTAGATAAAAATCATATAATTTTCTTTCATATTTTTGACCCCTA
83749 TT
1 TT
83751 TTTTTGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 36 0.73
54 13 0.27
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (54 bp):
TTATTTATTTTTAGATAAAAATCATATAATTTTCTTTCATATTTTTGACCCCTA
Found at i:83833 original size:18 final size:18
Alignment explanation
Indices: 83810--83868 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
83800 CGAGGCCGGT
83810 AAAAAGATATTTTTCTGC
1 AAAAAGATATTTTTCTGC
* * * *
83828 AAAAAGCACA-TTCTATGT
1 AAAAAG-ATATTTTTCTGC
*
83846 AAAAAGATCTTTTTCTGC
1 AAAAAGATATTTTTCTGC
83864 AAAAA
1 AAAAA
83869 AGCACATTCT
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
17 1 0.03
18 27 0.90
19 2 0.07
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (18 bp):
AAAAAGATATTTTTCTGC
Found at i:83859 original size:36 final size:37
Alignment explanation
Indices: 83808--83880 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
83798 ATCGAGGCCG
83808 GTAAAAAGATATTTTTCTGC-AAAAAGCACATTCTAT
1 GTAAAAAGATATTTTTCTGCAAAAAAGCACATTCTAT
*
83844 GTAAAAAGATCTTTTTCTGCAAAAAAGCACATTCTAT
1 GTAAAAAGATATTTTTCTGCAAAAAAGCACATTCTAT
83881 CACGTCAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 19 0.54
37 16 0.46
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (37 bp):
GTAAAAAGATATTTTTCTGCAAAAAAGCACATTCTAT
Found at i:87356 original size:5 final size:5
Alignment explanation
Indices: 87346--87380 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
87336 AAGTGGGTGT
87346 GTTGA GTTGA GTTGGA GTTGA GTTG- GTTGA GTTGA
1 GTTGA GTTGA GTT-GA GTTGA GTTGA GTTGA GTTGA
87381 TATCCAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (5 bp):
GTTGA
Found at i:88052 original size:34 final size:34
Alignment explanation
Indices: 87987--88055 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
87977 TTAGTCATGC
*
87987 GATATAAAAAATAAAAAGAAAAAACCTAAATATAT
1 GATATAAAAAATAAAAAGAAAAAA-CAAAATATAT
88022 GATATAAAAAAT-AAAAGAACAATAA-AAAATATAT
1 GATATAAAAAATAAAAAGAA-AA-AACAAAATATAT
88056 ATTAGTAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
34 15 0.48
35 14 0.45
36 2 0.06
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (34 bp):
GATATAAAAAATAAAAAGAAAAAACAAAATATAT
Found at i:89005 original size:54 final size:54
Alignment explanation
Indices: 88760--89001 Score: 394
Period size: 54 Copynumber: 4.5 Consensus size: 54
88750 ATTGTACCTA
* * * * *
88760 AGTGCCGATATGGAAATTCACAAATTCATTATGAATTACGTGAGTTGCACACAT
1 AGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACAT
*
88814 AGTGTTGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACAT
1 AGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACAT
*
88868 AGTGTTGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACAT
1 AGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACAT
* *
88922 AGTGCCGATACGGTAATTCACAAACTAATTATGAATTACGTGGGTTGCACACAT
1 AGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACAT
*
88976 AGTGTCAATACGGTAATTCACAAACT
1 AGTGTCGATACGGTAATTCACAAACT
89002 AATTTAAATC
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 177 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (54 bp):
AGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACAT
Found at i:96401 original size:23 final size:21
Alignment explanation
Indices: 96337--96562 Score: 104
Period size: 23 Copynumber: 11.4 Consensus size: 21
96327 CAGAGGGGAG
96337 GGGAGGAGATTTCATTAACCA
1 GGGAGGAGATTTCATTAACCA
*
96358 -GG-GGAG----CAGTAACCATA
1 GGGAGGAGATTTCATTAACC--A
96375 GGGAGGAGATTTCATTAACCA
1 GGGAGGAGATTTCATTAACCA
*
96396 GGG-GGAG----CAGTAACCATA
1 GGGAGGAGATTTCATTAACC--A
96414 GGGAGGAGATTTCATTAACCA
1 GGGAGGAGATTTCATTAACCA
*
96435 GGG-GGAG----CAGTAACCATA
1 GGGAGGAGATTTCATTAACC--A
96453 GGGAGGAGATTTCATTAACCA
1 GGGAGGAGATTTCATTAACCA
** ***
96474 GGG-GGAGCAGTAACCA-TAGGGA
1 GGGAGGAG-A-T-TTCATTAACCA
96496 GGGAGGAGATTTCATTAACCA
1 GGGAGGAGATTTCATTAACCA
*
96517 GGG-GGAG----CAGTAACCATA
1 GGGAGGAGATTTCATTAACC--A
96535 GGGAGGAGATTTCATTAACCA
1 GGGAGGAGATTTCATTAACCA
96556 GGG-GGAG
1 GGGAGGAG
96563 CAGTAACCAT
Statistics
Matches: 153, Mismatches: 18, Indels: 69
0.64 0.08 0.29
Matches are distributed among these distances:
15 7 0.05
16 21 0.14
17 1 0.01
18 14 0.09
19 20 0.13
20 24 0.16
21 24 0.16
22 8 0.05
23 34 0.22
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.18
Consensus pattern (21 bp):
GGGAGGAGATTTCATTAACCA
Found at i:96411 original size:16 final size:16
Alignment explanation
Indices: 96390--96489 Score: 56
Period size: 16 Copynumber: 5.4 Consensus size: 16
96380 GAGATTTCAT
96390 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
*
96406 TAACCATAGGGAGGAGATTTCAT
1 TAACC--AGGG-GGAG----CAG
96429 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
*
96445 TAACCATAGGGAGGAGATTTCAT
1 TAACC--AGGG-GGAG----CAG
96468 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
96484 TAACCA
1 TAACCA
96490 TAGGGAGGGA
Statistics
Matches: 66, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
16 20 0.30
18 8 0.12
19 8 0.12
20 8 0.12
21 8 0.12
23 14 0.21
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (16 bp):
TAACCAGGGGGAGCAG
Found at i:96412 original size:39 final size:39
Alignment explanation
Indices: 96337--96586 Score: 439
Period size: 39 Copynumber: 6.3 Consensus size: 39
96327 CAGAGGGGAG
96337 GGGAGGAGATTTCATTAACCA-GGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
96375 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
96414 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
96453 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCAT----A
96496 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
96535 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
* *
96574 GGGGGGAGGTTTC
1 GGGAGGAGATTTC
96587 TTTTCATCAG
Statistics
Matches: 205, Mismatches: 2, Indels: 9
0.95 0.01 0.04
Matches are distributed among these distances:
38 21 0.10
39 145 0.71
43 39 0.19
ACGTcount: A:0.32, C:0.15, G:0.35, T:0.18
Consensus pattern (39 bp):
GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
Found at i:96532 original size:16 final size:16
Alignment explanation
Indices: 96511--96571 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
96501 GAGATTTCAT
96511 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
*
96527 TAACCATAGGGAGGAGATTTCAT
1 TAACC--AGGG-GGAG----CAG
96550 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
96566 TAACCA
1 TAACCA
96572 TAGGGGGGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 13 0.36
18 4 0.11
19 4 0.11
20 4 0.11
21 4 0.11
23 7 0.19
ACGTcount: A:0.34, C:0.18, G:0.33, T:0.15
Consensus pattern (16 bp):
TAACCAGGGGGAGCAG
Found at i:96546 original size:121 final size:116
Alignment explanation
Indices: 96337--96586 Score: 437
Period size: 121 Copynumber: 2.1 Consensus size: 116
96327 CAGAGGGGAG
96337 GGGAGGAGATTTCATTAACCAGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGA
1 GGGAGGAGATTTCATTAACCAGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGA
96402 GCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
66 GCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
96453 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGGAGGAGATTTCATTAACCAG
1 GGGAGGAGATTTCATTAACCA-GGGGAGCAGTAACCAT----AGGGAGGAGATTTCATTAACCAG
96518 GGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
61 GGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
* *
96574 GGGGGGAGGTTTC
1 GGGAGGAGATTTC
96587 TTTTCATCAG
Statistics
Matches: 127, Mismatches: 2, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
116 21 0.17
117 16 0.13
121 90 0.71
ACGTcount: A:0.32, C:0.15, G:0.35, T:0.18
Consensus pattern (116 bp):
GGGAGGAGATTTCATTAACCAGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGA
GCAGTAACCATAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
Found at i:96550 original size:82 final size:82
Alignment explanation
Indices: 96332--96582 Score: 451
Period size: 82 Copynumber: 3.1 Consensus size: 82
96322 CGAAACAGAG
96332 GGGAGGGGAGGAGATTTCATTAACCA-GGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
1 GGGA-GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
96396 GGGGGAGCAGTAACCAT-
65 GGGGGAGCAGTAACCATA
96413 ---AGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAG
1 GGGAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAG
96475 GGGGAGCAGTAACCATA
66 GGGGAGCAGTAACCATA
96492 GGGAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAG
1 GGGAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAG
96557 GGGGAGCAGTAACCATA
66 GGGGAGCAGTAACCATA
96574 GGG-GGGAGG
1 GGGAGGGAGG
96583 TTTCTTTTCA
Statistics
Matches: 165, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
77 21 0.13
78 56 0.34
81 6 0.04
82 82 0.50
ACGTcount: A:0.32, C:0.14, G:0.37, T:0.17
Consensus pattern (82 bp):
GGGAGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCAG
GGGGAGCAGTAACCATA
Found at i:105092 original size:36 final size:36
Alignment explanation
Indices: 104900--105125 Score: 292
Period size: 36 Copynumber: 6.2 Consensus size: 36
104890 AAGTCAATCC
104900 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
104936 GAAGCCTTCACCGGAGAATAGTGAAGCAATCAATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* *
104972 GAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* *
105008 TAAGTCTTCACCGGAGAATAGTGAAGCAAACCATCA
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * *
105044 TAAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCT
1 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
* * * * *
105080 TAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCCATTT
1 TAAGCCTTCACCGGAGAA-TAGTGAAGCA-AACCATCT
105117 TAAGCCTTC
1 TAAGCCTTC
105126 TCAGAAGAGT
Statistics
Matches: 171, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
35 2 0.01
36 155 0.91
37 14 0.08
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (36 bp):
TAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCT
Found at i:105629 original size:53 final size:51
Alignment explanation
Indices: 105506--105812 Score: 312
Period size: 53 Copynumber: 5.8 Consensus size: 51
105496 GAAGATATAC
* *
105506 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTT-AA-AGATGTT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGAT-TT
* * *
105556 CGAGTTCCATACGCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCT
1 -GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGAT-T-T
* *
105610 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATTATTT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGA-GATTT
* * * *
105662 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTTTAAAAGATTTT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTTGAAGAGA-TTT
* * * * *
105715 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTC
1 -GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT--GAAGA-GATTT
* * *
105771 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTT
1 GAGTTCCATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTT
105813 CCAAAAGATT
Statistics
Matches: 218, Mismatches: 27, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
51 38 0.17
52 39 0.18
53 58 0.27
54 40 0.18
55 18 0.08
56 24 0.11
57 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (51 bp):
GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATTT
Found at i:105731 original size:54 final size:53
Alignment explanation
Indices: 105505--105849 Score: 342
Period size: 56 Copynumber: 6.4 Consensus size: 53
105495 TGAAGATATA
* *
105505 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCG-TTT-AAAGATGTT
1 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTAAAAGATTTT
* * * * * * *
105556 CGAGTTCCATACGCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGA-TGT
1 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTAAAAGATTTT
* * *
105608 CTGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCC-ATTT-GAAGATTATT
1 C-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTAAAAGATT-TT
* * * *
105661 TGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTTTAAAAGATTTT
1 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTTTAAAAGATTTT
* * * *
105715 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATT
1 CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT-AAAAGAT-TTT
* * *
105770 CGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATT
1 CGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTT-TAAAAGATT-TT
*
105826 CGAG-TCTCATACTCTCTGAAAGAA
1 CGAGTTCT-ATACTCCCT-AAAGAA
105850 TAGGGAGTAG
Statistics
Matches: 243, Mismatches: 37, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
51 39 0.16
52 42 0.17
53 43 0.18
54 44 0.18
55 27 0.11
56 48 0.20
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (53 bp):
CGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTAAAAGATTTT
Found at i:105812 original size:56 final size:53
Alignment explanation
Indices: 105496--105849 Score: 353
Period size: 51 Copynumber: 6.6 Consensus size: 53
105486 TGAAGCAAAT
* *
105496 GAAGATATACGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCG-TTTA
1 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTA
* * * * *
105548 -AAGATGTTCGAGTTCCATACGCCTTAAAGAAAGAAGGAGCGAACCCG-TTT-
1 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTA
* * *
105598 GAAGAGATGTCTGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCC-ATTT-
1 GAAGATAT-TC-GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTA
* * * *
105651 GAAGATTATTTGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTTTA
1 GAAGA-TATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTTTA
* * * *
105706 AAAGATTTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCA
1 GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTT-A
* * *
105760 GAAGATCATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCA
1 GAAGAT-ATTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCGTTT-TA
* *
105816 AAAGATTATTCGAG-TCTCATACTCTCTGAAAGAA
1 GAAGA-TATTCGAGTTCT-ATACTCCCT-AAAGAA
105850 TAGGGAGTAG
Statistics
Matches: 255, Mismatches: 33, Indels: 24
0.82 0.11 0.08
Matches are distributed among these distances:
51 50 0.20
52 37 0.15
53 47 0.18
54 47 0.18
55 25 0.10
56 48 0.19
57 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (53 bp):
GAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTTA
Found at i:105883 original size:55 final size:55
Alignment explanation
Indices: 105817--106182 Score: 456
Period size: 55 Copynumber: 6.7 Consensus size: 55
105807 CCGTTTCCAA
* * * * * * *
105817 AAGATTATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTA
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGGGCAGACACAATCGTTG
* *
105872 AAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGGGCATACACAATCGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTG
* *
105927 AAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTG
* * * *
105982 AAGATTGTTCG-GATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATG
1 AAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTG
* * *
106037 AAGATTGTT-G-GCCTTATACTCTCTGAAAAAATAGGGGGCAGACGCAATCGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTG
* *
106090 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACA-AGTTTGTTG
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACA-ATCGTTG
* *
106145 AAGA-TGATTCAAGTCTTATACCCTCTGAAGAAATAGGG
1 AAGATTG-TTCGAGTCTTATACTCTCTGAAGAAATAGGG
106183 AGCGAACCCA
Statistics
Matches: 278, Mismatches: 27, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
53 46 0.17
54 7 0.03
55 224 0.81
56 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (55 bp):
AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACAATCGTTG
Found at i:105885 original size:111 final size:110
Alignment explanation
Indices: 105505--105845 Score: 283
Period size: 104 Copynumber: 3.2 Consensus size: 110
105495 TGAAGATATA
* * * * * * *
105505 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCG-TTT-A-AAGA-TGTTCGAGTTCCAT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATTATTCGAGTTCTAT
* * * * * * *
105566 AC-GCCTTAAAGAAAGAAGGAGCGAACCCGTTT-GAAGAGA-TGT
66 ACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTTT
* * * * ** * *
105608 CTGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAAC-CCATTT--GAAGATTATTTGAGTTCCA
1 C-GAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATTATTCGAGTTCTA
* * * * **
105670 TACTCCCT-AGAGAGAGAGGGAGCGAACCCGTTTTTAAAAGATTTT
65 TACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTTT
* * *
105715 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTCGAGTTCTAT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATTATTCGAGTTCTAT
105780 ACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATT
66 ACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATT-TT
*
105826 CGAG-TCTCATACTCTCTGAA
1 CGAGTTCT-ATACTCCCTGAA
105846 AGAATAGGGA
Statistics
Matches: 198, Mismatches: 27, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
103 2 0.01
104 40 0.20
105 36 0.18
106 40 0.20
107 7 0.04
109 23 0.12
110 33 0.17
111 17 0.09
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (110 bp):
CGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATTATTCGAGTTCTAT
ACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTTT
Found at i:105893 original size:111 final size:109
Alignment explanation
Indices: 105505--105909 Score: 261
Period size: 111 Copynumber: 3.8 Consensus size: 109
105495 TGAAGATATA
* * * * * * *
105505 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCG-TTT-A-AAGAT-GTTCGAGTTCCAT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATCATTCGAGTTCTAT
* * * * * * *
105566 ACGC-CTTAAAGAAAGAAGGAGCGAACCCGTTT-GAAGAGA-TGT
66 ACTCTC-TGAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTTT
* * * * ** * * *
105608 CTGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAAC-CCATTT--GAAGATTATTTGAGTTCCA
1 C-GAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATCATTCGAGTTCTA
* * * **
105670 TACTCCCT-AGAGAGAGAGGGAGCGAACCCGTTTTTAAAAGATTTT
65 TACTCTCTGA-AGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTTT
* *
105715 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTCGAGTTCTAT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATCATTCGAGTTCTAT
105780 ACT-TCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATT
66 ACTCT-CTG-AAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATT-TT
* * **
105826 CGAG-TCTCATACTCTCTGAA-AGAATAGGGAGTAGA-CACGATTGTT-A-AAGATTGTTCGAG-
1 CGAGTTCT-ATACTCCCTGAAGA-AAGAGGGAG-AGAGCACG-TT-TTCAGAAGATCATTCGAGT
*
105885 TCTCATACTCTCTGAAGAAATAGGG
61 TCT-ATACTCTCTGAAGAAAGAGGG
105910 GGCATACACA
Statistics
Matches: 249, Mismatches: 31, Indels: 37
0.79 0.10 0.12
Matches are distributed among these distances:
103 2 0.01
104 42 0.17
105 36 0.14
106 38 0.15
107 7 0.03
109 22 0.09
110 46 0.18
111 48 0.19
112 6 0.02
113 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (109 bp):
CGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAGCACGTTTTCAGAAGATCATTCGAGTTCTAT
ACTCTCTGAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTTT
Found at i:106096 original size:108 final size:110
Alignment explanation
Indices: 105834--106135 Score: 439
Period size: 108 Copynumber: 2.8 Consensus size: 110
105824 TTCGAGTCTC
* * * * * * * *
105834 ATACTCTCTGAAAGAATAGGGAGTAGACACGATTGTTAAAGATTGTTCGAGTCTCATACTCTCTG
1 ATACTCTCTGAAAAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* * *
105899 AAGAAATAGGGGGCATACACAATCGTTGAAGATTGTTTGAGTCTT
66 AAGAAATAGGGGGCAGACACAATCGATGAAGATTGTTTGAGCCTT
*
105944 ATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCG-GATCTTATACTCTCT
1 ATACTCTCTGAAAAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAG-TCTTATACTCTCT
* * *
106008 GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTG-TTG-GCCTT
65 GAAGAAATAGGGGGCAGACACAATCGATGAAGATTGTTTGAGCCTT
106052 ATACTCTCTGAAAAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG
1 ATACTCTCTGAAAAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG
106117 AAGAAATAGGGGGCAGACA
66 AAGAAATAGGGGGCAGACA
106136 AGTTTGTTGA
Statistics
Matches: 173, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
108 84 0.49
109 5 0.03
110 84 0.49
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (110 bp):
ATACTCTCTGAAAAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG
AAGAAATAGGGGGCAGACACAATCGATGAAGATTGTTTGAGCCTT
Found at i:106106 original size:163 final size:164
Alignment explanation
Indices: 105817--106185 Score: 498
Period size: 163 Copynumber: 2.2 Consensus size: 164
105807 CCGTTTCCAA
* * * *
105817 AAGATTATTCGAGTCTCATACTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTAAAGATTGTT
1 AAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACACGATTGATAAAGATTGTT
* * * *
105881 CGAGTCTCATACTCTCTGAAGAAATAGGGGGCATACACAATCGTTGAAGATTGTTTGAGTCTTAT
65 CGAGCCTCATACTCTCTGAAAAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTAT
105946 ACTCTCTGAAGAAATAGGGGGCAGACGCAA-TCGTTG
130 ACTCTCTGAAGAAATAGGGGGCAGA--CAAGTCGTTG
* * *
105982 AAGATTGTTCG-GATCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTT
1 AAGATTGTTCGAG-TCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATAAAGATTGTT
* *
106046 -G-GCCTTATACTCTCTGAAAAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTAT
65 CGAGCCTCATACTCTCTGAAAAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTAT
*
106109 ACTCTCTGAAGAAATAGGGGGCAGACAAGTTTGTTG
130 ACTCTCTGAAGAAATAGGGGGCAGACAAG-TCGTTG
* *
106145 AAGA-TGATTCAAGTCTTATACCCTCTGAAGAAATAGGGAGC
1 AAGATTG-TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGC
106186 GAACCCATTT
Statistics
Matches: 181, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
161 3 0.02
162 2 0.01
163 119 0.66
164 3 0.02
165 53 0.29
166 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (164 bp):
AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGATAAAGATTGTTC
GAGCCTCATACTCTCTGAAAAAATAGGGGGCAGACACAATCGTTGAAGATTGTTCGAGTCTTATA
CTCTCTGAAGAAATAGGGGGCAGACAAGTCGTTG
Found at i:107475 original size:16 final size:16
Alignment explanation
Indices: 107454--107592 Score: 62
Period size: 16 Copynumber: 7.4 Consensus size: 16
107444 GAGATTTCAT
107454 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
*
107470 TAACCATAGGGAGGAGATTTCAT
1 TAACC--AGGG-GGAG----CAG
107493 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
*
107509 TAACCATAGGGAGGAGATTTCAT
1 TAACC--AGGG-GGAG----CAG
107532 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
*
107548 TAACCATAGGGAGGAGATTTCAT
1 TAACC--AGGG-GGAG----CAG
107571 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
107587 TAACCA
1 TAACCA
107593 TAGGGAGGGG
Statistics
Matches: 96, Mismatches: 6, Indels: 42
0.67 0.04 0.29
Matches are distributed among these distances:
16 27 0.28
18 12 0.12
19 12 0.12
20 12 0.12
21 12 0.12
23 21 0.22
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.17
Consensus pattern (16 bp):
TAACCAGGGGGAGCAG
Found at i:107493 original size:39 final size:39
Alignment explanation
Indices: 107439--107680 Score: 439
Period size: 39 Copynumber: 6.1 Consensus size: 39
107429 AGAGGGGGAG
107439 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
107478 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
107517 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
107556 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCAT----A
107599 GGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 -GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
107639 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
1 GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
107678 GGG
1 GGG
107681 GGGGAGGTTT
Statistics
Matches: 198, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
39 158 0.80
40 1 0.01
43 1 0.01
44 38 0.19
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.17
Consensus pattern (39 bp):
GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATA
Found at i:107636 original size:16 final size:16
Alignment explanation
Indices: 107615--107675 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
107605 GAGATTTCAT
107615 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
*
107631 TAACCATAGGGAGGAGATTTCAT
1 TAACC--AGGG-GGAG----CAG
107654 TAACCAGGGGGAGCAG
1 TAACCAGGGGGAGCAG
107670 TAACCA
1 TAACCA
107676 TAGGGGGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 13 0.36
18 4 0.11
19 4 0.11
20 4 0.11
21 4 0.11
23 7 0.19
ACGTcount: A:0.34, C:0.18, G:0.33, T:0.15
Consensus pattern (16 bp):
TAACCAGGGGGAGCAG
Found at i:107656 original size:83 final size:83
Alignment explanation
Indices: 107434--107687 Score: 466
Period size: 83 Copynumber: 3.1 Consensus size: 83
107424 GAAACAGAGG
107434 GGGAGGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
1 GGGAGGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
107499 GGGGGAGCAGTAACCAT-
66 GGGGGAGCAGTAACCATA
107516 ---A-GGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
1 GGGAGGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
107577 GGGGGAGCAGTAACCATA
66 GGGGGAGCAGTAACCATA
107595 GGGAGGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
1 GGGAGGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
107660 GGGGGAGCAGTAACCATA
66 GGGGGAGCAGTAACCATA
107678 GGG-GGGGAGG
1 GGGAGGGGAGG
107688 TTTCTTTTCA
Statistics
Matches: 167, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
78 77 0.46
79 1 0.01
82 8 0.05
83 81 0.49
ACGTcount: A:0.32, C:0.14, G:0.37, T:0.17
Consensus pattern (83 bp):
GGGAGGGGAGGAGATTTCATTAACCAGGGGGAGCAGTAACCATAGGGAGGAGATTTCATTAACCA
GGGGGAGCAGTAACCATA
Found at i:112195 original size:2 final size:2
Alignment explanation
Indices: 112188--112222 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
112178 ATTCTGAATA
112188 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112223 TGAATTGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:114109 original size:51 final size:52
Alignment explanation
Indices: 114050--114157 Score: 166
Period size: 51 Copynumber: 2.1 Consensus size: 52
114040 ATATATTGTC
* *
114050 ATTTATCACTTGCACAT-GAAAGTGTCATTTATCACTTGCACTCGAA-GTGCT
1 ATTTATCACTCGCAC-TCGAAAGTGTCATTTATCACTCGCACTCGAACGTGCT
*
114101 ATTTATCACTCGCACTCGAAAGTGTTATTTATCACTCGCACTCGAACGTGCT
1 ATTTATCACTCGCACTCGAAAGTGTCATTTATCACTCGCACTCGAACGTGCT
114153 ATTTA
1 ATTTA
114158 AACCAAGACT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
50 1 0.02
51 41 0.79
52 10 0.19
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
ATTTATCACTCGCACTCGAAAGTGTCATTTATCACTCGCACTCGAACGTGCT
Found at i:114155 original size:26 final size:26
Alignment explanation
Indices: 114050--114157 Score: 141
Period size: 26 Copynumber: 4.2 Consensus size: 26
114040 ATATATTGTC
*
114050 ATTTATCACTTGCACAT-GAAAGTG-T
1 ATTTATCACTCGCAC-TCGAAAGTGCT
*
114075 CATTTATCACTTGCACTCG-AAGTGCT
1 -ATTTATCACTCGCACTCGAAAGTGCT
*
114101 ATTTATCACTCGCACTCGAAAGTGTT
1 ATTTATCACTCGCACTCGAAAGTGCT
*
114127 ATTTATCACTCGCACTCGAACGTGCT
1 ATTTATCACTCGCACTCGAAAGTGCT
114153 ATTTA
1 ATTTA
114158 AACCAAGACT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (26 bp):
ATTTATCACTCGCACTCGAAAGTGCT
Found at i:116663 original size:73 final size:72
Alignment explanation
Indices: 116547--116756 Score: 262
Period size: 73 Copynumber: 2.9 Consensus size: 72
116537 CTTTTAACAT
* * * * *
116547 AAATTCCAGATAAAAAAATATAATTCTCACCAAAACGTTATTATTGGGGGTAAACTATTCATTTA
1 AAATTCCAGATAAAAAAATTTGATTCCCACCAAAGCGTCATTATTGGGGGTAAACTATTCATTTA
116612 TGGGGAC
66 TGGGGAC
* * * * *
116619 ATAAATTCCGGAT-CAAAATTTTGATTCCCACCAAAGTGTCATTATTGAGGGTAAACTATTCATT
1 --AAATTCCAGATAAAAAAATTTGATTCCCACCAAAGCGTCATTATTGGGGGTAAACTATTCATT
116683 TATGGGGAC
64 TATGGGGAC
* * * *
116692 AAATTCCAGATAAAAAAATTTGATTCCGATCAAAGCGTCATTATT-GGGGTGAACTATTTATTTA
1 AAATTCCAGATAAAAAAATTTGATTCCCACCAAAGCGTCATTATTGGGGGTAAACTATTCATTTA
116756 T
66 T
116757 AAGGTCAAAA
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
71 27 0.23
72 28 0.24
73 51 0.44
74 10 0.09
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (72 bp):
AAATTCCAGATAAAAAAATTTGATTCCCACCAAAGCGTCATTATTGGGGGTAAACTATTCATTTA
TGGGGAC
Found at i:116813 original size:29 final size:29
Alignment explanation
Indices: 116771--116831 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
116761 TCAAAACACC
* *
116771 TAATTTTTAAAAATTACACTTTTGGTCCT
1 TAATGTTTAAAAATTACACTTTTAGTCCT
* *
116800 TAATGTTTGAAAATTACCCTTTTAGTCCT
1 TAATGTTTAAAAATTACACTTTTAGTCCT
116829 TAA
1 TAA
116832 ACTTTTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (29 bp):
TAATGTTTAAAAATTACACTTTTAGTCCT
Found at i:121001 original size:18 final size:18
Alignment explanation
Indices: 120978--121022 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
120968 AACCCCATCT
120978 GGAGTAATCGCTAGGTCG
1 GGAGTAATCGCTAGGTCG
*
120996 GGAGTAGTCGCTAGGTCG
1 GGAGTAATCGCTAGGTCG
121014 GGAGTAATC
1 GGAGTAATC
121023 ACTCGGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.22
Consensus pattern (18 bp):
GGAGTAATCGCTAGGTCG
Found at i:121073 original size:39 final size:39
Alignment explanation
Indices: 121021--121265 Score: 391
Period size: 39 Copynumber: 6.3 Consensus size: 39
121011 TCGGGAGTAA
121021 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
1 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
* * *
121060 TCACTTGGTCTATTACCCCATCTATGGCTGGTGTCGTAG
1 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
* * *
121099 TCACTTGGCCTATTACCCCATCTATGGCAGGAGTCGTAA
1 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
* *
121138 TCACTCGGCCTATTATCCCATCTATGGCAGGAGTCGTAG
1 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
121177 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
1 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
** *
121216 TCACTCGGCCTATTACCCCATCTATAACTCGAGTCGTAG
1 TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
121255 TCACTCGGCCT
1 TCACTCGGCCT
121266 GTGACCAAAT
Statistics
Matches: 191, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 191 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.29
Consensus pattern (39 bp):
TCACTCGGCCTATTACCCCATCTATGGCTGGAGTCGTAG
Found at i:127732 original size:2 final size:2
Alignment explanation
Indices: 127725--127764 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
127715 TAAAATATGC
127725 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
127765 GAGAATGATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129633 original size:21 final size:21
Alignment explanation
Indices: 129603--129650 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
129593 CCCTACATCT
*
129603 AACTTAAAACCCTAAATTATA
1 AACTTAAAACCCTAAATCATA
*
129624 AACTTTAAACCCTAAATCATA
1 AACTTAAAACCCTAAATCATA
*
129645 ATCTTA
1 AACTTA
129651 TTACCTCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTTAAAACCCTAAATCATA
Found at i:131290 original size:15 final size:15
Alignment explanation
Indices: 131270--131300 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
131260 CTTCTACAGT
*
131270 ATTATATATAGATTA
1 ATTATATATAAATTA
131285 ATTATATATAAATTA
1 ATTATATATAAATTA
131300 A
1 A
131301 ATGTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTATATATAAATTA
Found at i:134497 original size:3 final size:3
Alignment explanation
Indices: 134491--134532 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
134481 ATTACTAATA
* * *
134491 ATT ATT ATC ACT A-T ATT ATT ATT ATT ATT ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
134533 AAAAAATCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:143027 original size:21 final size:21
Alignment explanation
Indices: 143003--143045 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
142993 AGTTTTAAAT
*
143003 AATTGAAAGTTTAGATACTAA
1 AATTGAAAGTTTAGATAATAA
*
143024 AATTGATAGTTTAGATAATAA
1 AATTGAAAGTTTAGATAATAA
143045 A
1 A
143046 TGCGTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (21 bp):
AATTGAAAGTTTAGATAATAA
Found at i:153832 original size:19 final size:20
Alignment explanation
Indices: 153790--153832 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
153780 TTTACTTGCC
*
153790 CTTTTGCTTAAAGTTAATGT
1 CTTTTGCTTAAAGTTAATCT
*
153810 -TTTTGCTTAAAGTT-CTCT
1 CTTTTGCTTAAAGTTAATCT
153828 CTTTT
1 CTTTT
153833 TCTTCAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.19, C:0.14, G:0.12, T:0.56
Consensus pattern (20 bp):
CTTTTGCTTAAAGTTAATCT
Done.