Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000603.1 Hibiscus syriacus cultivar Beakdansim tig00001172_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: 162520
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1086 original size:89 final size:90
Alignment explanation
Indices: 932--1129 Score: 310
Period size: 89 Copynumber: 2.2 Consensus size: 90
922 TAAACAAACA
932 TAAACAAACGAACATAAAATGCAACTTTATTTTAAATCAAGTAAAAATTCTTAAAAGAATAAAAT
1 TAAACAAACGAACATAAAATGCAACTTTATTTTAAATCAAGTAAAAATTCTTAAAAGAATAAAAT
*
997 AAACGAATATAAATATAAA-TTAAT
66 AAACGAAGATAAATATAAATTTAAT
* * * * *
1021 TAAACAAACTAACATAAAATGTAACTTTATTTTAAATCAAGT-AAATTTTTTAAGAGAATATAAA
1 TAAACAAACGAACATAAAATGCAACTTTATTTTAAATCAAGTAAAAATTCTTAAAAGAATA-AAA
1085 TAAACGAAGATAAATATAAATTTAAT
65 TAAACGAAGATAAATATAAATTTAAT
*
1111 TAAATAAACGAACATAAAA
1 TAAACAAACGAACATAAAA
1130 GGAATGCATT
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 15 0.15
89 62 0.63
90 22 0.22
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (90 bp):
TAAACAAACGAACATAAAATGCAACTTTATTTTAAATCAAGTAAAAATTCTTAAAAGAATAAAAT
AAACGAAGATAAATATAAATTTAAT
Found at i:1159 original size:22 final size:23
Alignment explanation
Indices: 1119--1162 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1109 ATTAAATAAA
*
1119 CGAACATAAAAGGAATGCATTAC
1 CGAACATAAAACGAATGCATTAC
1142 CGAACAT-AAACGAATGCATTA
1 CGAACATAAAACGAATGCATTA
1163 TTAAATGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
CGAACATAAAACGAATGCATTAC
Found at i:3576 original size:16 final size:15
Alignment explanation
Indices: 3555--3584 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3545 ATATGTTGAC
3555 TTTAAATTTAATTTAA
1 TTTAAATTT-ATTTAA
3571 TTTAAATTTATTTA
1 TTTAAATTTATTTA
3585 GGTCAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAAATTTATTTAA
Found at i:4669 original size:19 final size:20
Alignment explanation
Indices: 4647--4696 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4637 ACTTTGAAAT
*
4647 ATATATTATTTAAT-ATAAA
1 ATATATTATTGAATAATAAA
*
4666 ATATAATATTGAATAAATAAA
1 ATATATTATTGAAT-AATAAA
4687 ATTATATTAT
1 A-TATATTAT
4697 AATTAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 12 0.48
21 6 0.24
22 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATATTATTGAATAATAAA
Found at i:7820 original size:14 final size:13
Alignment explanation
Indices: 7801--7911 Score: 62
Period size: 14 Copynumber: 8.0 Consensus size: 13
7791 GTGTATAAAT
* *
7801 TAAACCATAAATCA
1 TAAATCATAAA-CC
*
7815 TAAACCATAAACCC
1 TAAATCATAAA-CC
*
7829 TAAATCATGAATCC
1 TAAATCAT-AAACC
* *
7843 TAAACCATGAATCC
1 TAAATCAT-AAACC
7857 TAAAGT-ATAAACCC
1 TAAA-TCATAAA-CC
* *
7871 TAACTCCTAAACC
1 TAAATCATAAACC
*
7884 ATAAATCCTAAAACC
1 -TAAATCAT-AAACC
7899 TAAATCATAAACC
1 TAAATCATAAACC
7912 CTGTCACATA
Statistics
Matches: 80, Mismatches: 11, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
13 10 0.12
14 63 0.79
15 7 0.09
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.22
Consensus pattern (13 bp):
TAAATCATAAACC
Found at i:7826 original size:21 final size:21
Alignment explanation
Indices: 7801--7911 Score: 91
Period size: 21 Copynumber: 5.3 Consensus size: 21
7791 GTGTATAAAT
*
7801 TAAACCATAAATCATAAACCA
1 TAAACCATAAATCCTAAACCA
* * *
7822 TAAACCCTAAATCATGAATCC-
1 TAAACCATAAATCCT-AAACCA
* **
7843 TAAACCATGAATCCTAAAGTA
1 TAAACCATAAATCCTAAACCA
* *
7864 TAAACCCTAACTCCTAAACCA
1 TAAACCATAAATCCTAAACCA
* *
7885 TAAATCC-TAAAACCTAAATCA
1 TAAA-CCATAAATCCTAAACCA
7906 TAAACC
1 TAAACC
7912 CTGTCACATA
Statistics
Matches: 71, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
20 4 0.06
21 61 0.86
22 6 0.08
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.22
Consensus pattern (21 bp):
TAAACCATAAATCCTAAACCA
Found at i:7872 original size:28 final size:28
Alignment explanation
Indices: 7801--7913 Score: 86
Period size: 28 Copynumber: 4.0 Consensus size: 28
7791 GTGTATAAAT
* * *
7801 TAAACCATAAATCATAAACCATAAACCC
1 TAAATCATAAACCCTAAACCATAAACCC
* * * *
7829 TAAATCATGAATCCTAAACCATGAATCC
1 TAAATCATAAACCCTAAACCATAAACCC
* *
7857 TAAAGT-ATAAACCCT-AACTCCTAAACCA
1 TAAA-TCATAAACCCTAAAC-CATAAACCC
* * *
7885 TAAATCCTAAAACCTAAATCATAAACCC
1 TAAATCATAAACCCTAAACCATAAACCC
7913 T
1 T
7914 GTCACATAAT
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
27 4 0.06
28 58 0.89
29 3 0.05
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.22
Consensus pattern (28 bp):
TAAATCATAAACCCTAAACCATAAACCC
Found at i:8011 original size:14 final size:14
Alignment explanation
Indices: 7992--8021 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7982 TATAATTATC
*
7992 AATAATGTATTTTT
1 AATAATGTAATTTT
8006 AATAATGTAATTTT
1 AATAATGTAATTTT
8020 AA
1 AA
8022 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:8522 original size:41 final size:41
Alignment explanation
Indices: 8477--8563 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
8467 GATAAACATA
*
8477 AATAAAATTTTAAAGTTAATATAATTAATGAAATAAAT-GAT
1 AATAAAATTTTAAAGTTAATAT-ATTAATGAAATAAATAAAT
8518 AATAAAATTTTAAAGTTAATATATTAATGAAATAAATAAAT
1 AATAAAATTTTAAAGTTAATATATTAATGAAATAAATAAAT
8559 AATAA
1 AATAA
8564 TAAAATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 15 0.34
41 29 0.66
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.36
Consensus pattern (41 bp):
AATAAAATTTTAAAGTTAATATATTAATGAAATAAATAAAT
Found at i:10303 original size:24 final size:24
Alignment explanation
Indices: 10254--10304 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
10244 ATATTTTTTA
*
10254 AAATTTTATATATGATCATTGAAT
1 AAATTTTATATATGATCATTCAAT
* *
10278 AAATTTTATA-ATTATTATTCATAT
1 AAATTTTATATATGATCATTCA-AT
10302 AAA
1 AAA
10305 ATATTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATTTTATATATGATCATTCAAT
Found at i:18200 original size:14 final size:15
Alignment explanation
Indices: 18172--18200 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18162 TATTTAAATA
18172 AAAATTAATATCTTT
1 AAAATTAATATCTTT
18187 AAAATTAA-ATCTTT
1 AAAATTAATATCTTT
18201 GCTTATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAATTAATATCTTT
Found at i:19593 original size:31 final size:31
Alignment explanation
Indices: 19555--19636 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
19545 ACAATTTTTT
19555 TTTGTTCATGTTCGTTCATTAAGGAATATAG
1 TTTGTTCATGTTCGTTCATTAAGGAATATAG
*
19586 TTTGTTCATGTTCGTACATTAAGGAATATAG
1 TTTGTTCATGTTCGTTCATTAAGGAATATAG
* * *
19617 CTTGTTCATATTTGTTCATT
1 TTTGTTCATGTTCGTTCATT
19637 TAATAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (31 bp):
TTTGTTCATGTTCGTTCATTAAGGAATATAG
Found at i:19670 original size:16 final size:16
Alignment explanation
Indices: 19649--19727 Score: 131
Period size: 16 Copynumber: 4.9 Consensus size: 16
19639 ATAAATAAAA
19649 GAACATAAAAGAACAC
1 GAACATAAAAGAACAC
19665 GAACATAAAAGAACAC
1 GAACATAAAAGAACAC
*
19681 GAACATAAACGAACAC
1 GAACATAAAAGAACAC
*
19697 GAACATAAATGAACAC
1 GAACATAAAAGAACAC
*
19713 GAACATAAACGAACA
1 GAACATAAAAGAACA
19728 TAAACGTTGG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 60 1.00
ACGTcount: A:0.59, C:0.20, G:0.13, T:0.08
Consensus pattern (16 bp):
GAACATAAAAGAACAC
Found at i:20846 original size:24 final size:24
Alignment explanation
Indices: 20814--20880 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
20804 AAACATAAAT
20814 GAACGAACATAAACGAACGTTCAC
1 GAACGAACATAAACGAACGTTCAC
20838 GAACGAACATAAACGAACGTTCAC
1 GAACGAACATAAACGAACGTTCAC
*
20862 GAACGTAA-ATGAACGAACG
1 GAACG-AACATAAACGAACG
20881 AGACCTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
24 39 0.95
25 2 0.05
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.12
Consensus pattern (24 bp):
GAACGAACATAAACGAACGTTCAC
Found at i:30432 original size:11 final size:12
Alignment explanation
Indices: 30416--30446 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30406 GATTAACATA
30416 AATAAAATT-TT
1 AATAAAATTATT
30427 AATAAAATTATT
1 AATAAAATTATT
30439 AATAAAAT
1 AATAAAAT
30447 AAATAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATAAAATTATT
Found at i:31603 original size:31 final size:31
Alignment explanation
Indices: 31565--31720 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
31555 CCCGAAGGAC
* * *
31565 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
31596 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
31627 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
31658 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
31689 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
31720 C
1 C
31721 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:31924 original size:23 final size:24
Alignment explanation
Indices: 31898--31944 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
31888 ATATACTTGT
*
31898 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
31921 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
31945 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:32606 original size:21 final size:21
Alignment explanation
Indices: 32576--32620 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
32566 ATTCTGTCGT
* *
32576 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
32597 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
32618 TTG
1 TTG
32621 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:35470 original size:31 final size:31
Alignment explanation
Indices: 35432--35587 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
35422 CCCGAAGGAC
* * *
35432 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
35463 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
35494 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
35525 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
35556 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
35587 C
1 C
35588 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:35791 original size:23 final size:24
Alignment explanation
Indices: 35765--35811 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
35755 ATATACTTGT
*
35765 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
35788 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
35812 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:36471 original size:21 final size:21
Alignment explanation
Indices: 36441--36485 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36431 ATTCTGTCGT
* *
36441 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
36462 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
36483 TTG
1 TTG
36486 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:39335 original size:31 final size:31
Alignment explanation
Indices: 39297--39452 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
39287 CCCGAAGGAC
* * *
39297 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
39328 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * *
39359 CAGTCCGTATGTTCCGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
39390 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
39421 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
39452 C
1 C
39453 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:39654 original size:23 final size:24
Alignment explanation
Indices: 39628--39674 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
39618 ATATACTTGT
*
39628 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
39651 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
39675 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:40334 original size:21 final size:21
Alignment explanation
Indices: 40304--40348 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
40294 ATTCTGTCGT
* *
40304 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
40325 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
40346 TTG
1 TTG
40349 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:44160 original size:27 final size:27
Alignment explanation
Indices: 44122--44175 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
44112 AAAGTTATCC
44122 AAAGAAAAGAACAATATTTCTACTATT
1 AAAGAAAAGAACAATATTTCTACTATT
44149 AAAGAAAAGAACAATATTTCTACTATT
1 AAAGAAAAGAACAATATTTCTACTATT
44176 CATAGGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAGAAAAGAACAATATTTCTACTATT
Found at i:62202 original size:6 final size:6
Alignment explanation
Indices: 62186--62217 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
62176 ACACGTATTG
*
62186 CCACGA TCACGA CCACGA CCACGA CCACGA CC
1 CCACGA CCACGA CCACGA CCACGA CCACGA CC
62218 CGAGACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.50, G:0.16, T:0.03
Consensus pattern (6 bp):
CCACGA
Found at i:66011 original size:2 final size:2
Alignment explanation
Indices: 66004--66037 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
65994 AGCATATGAC
66004 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
66038 CTCAAATTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70837 original size:17 final size:17
Alignment explanation
Indices: 70815--70849 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
70805 CATTTTTCTC
70815 ACTTGTGTTGCATATTA
1 ACTTGTGTTGCATATTA
*
70832 ACTTGTGTTGCATGTTA
1 ACTTGTGTTGCATATTA
70849 A
1 A
70850 ACTAAAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (17 bp):
ACTTGTGTTGCATATTA
Found at i:72416 original size:23 final size:23
Alignment explanation
Indices: 72390--72434 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
72380 CACCACAGCT
*
72390 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
72413 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
72435 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:72672 original size:149 final size:149
Alignment explanation
Indices: 72413--72716 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
72403 CGAAGTGCCC
72413 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
72478 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
72543 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
*
72562 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
72627 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
72692 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
72711 CGTAGA
1 CGTAGA
72717 CCCTCGACTC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:73622 original size:18 final size:18
Alignment explanation
Indices: 73601--73635 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
73591 TCCCATCTAG
73601 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
73619 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
73636 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:74248 original size:21 final size:21
Alignment explanation
Indices: 74218--74262 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
74208 TCTTATTCGT
* *
74218 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
74239 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
74260 TTG
1 TTG
74263 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:88960 original size:9 final size:8
Alignment explanation
Indices: 88946--89108 Score: 83
Period size: 8 Copynumber: 20.5 Consensus size: 8
88936 TCTCTTGAAG
88946 AAGAAATAA
1 AAGAAA-AA
88955 AAGAAAAA
1 AAGAAAAA
88963 AA-AATAAA
1 AAGAA-AAA
88971 AA-AAAACA
1 AAGAAAA-A
88979 AA-AAAAA
1 AAGAAAAA
*
88986 ACG-AAAA
1 AAGAAAAA
*
88993 ATGAAAAA
1 AAGAAAAA
*
89001 CAA-AATAAT
1 -AAGAA-AAA
*
89010 AA-TAAAA
1 AAGAAAAA
* *
89017 ATGAGAAA
1 AAGAAAAA
89025 AAG--AAA
1 AAGAAAAA
*
89031 AAGAAGAA
1 AAGAAAAA
89039 AAGAAAAA
1 AAGAAAAA
*
89047 ATGAGAAAA
1 AAGA-AAAA
*
89056 AATAAAAA
1 AAGAAAAA
*
89064 ATGAAAAA
1 AAGAAAAA
89072 AAGAAAGAA
1 AAGAAA-AA
*
89081 AA-ATAAA
1 AAGAAAAA
89088 AAGAGAAAA
1 AAGA-AAAA
*
89097 ATGAAAAA
1 AAGAAAAA
89105 AAGA
1 AAGA
89109 GAAATAAAAG
Statistics
Matches: 119, Mismatches: 22, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
6 6 0.05
7 19 0.16
8 69 0.58
9 25 0.21
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (8 bp):
AAGAAAAA
Found at i:88971 original size:10 final size:10
Alignment explanation
Indices: 88953--88993 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
88943 AAGAAGAAAT
*
88953 AAAAGAAAAA
1 AAAACAAAAA
*
88963 AAAATAAAAA
1 AAAACAAAAA
88973 AAAACAAAAA
1 AAAACAAAAA
88983 AAAACGAAAAA
1 AAAAC-AAAAA
88994 TGAAAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 23 0.82
11 5 0.18
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.02
Consensus pattern (10 bp):
AAAACAAAAA
Found at i:88992 original size:20 final size:20
Alignment explanation
Indices: 88948--88993 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
88938 TCTTGAAGAA
* * *
88948 GAAATAAAAGAAAAAAAAAT
1 GAAAAAAAACAAAAAAAAAC
*
88968 AAAAAAAAACAAAAAAAAAC
1 GAAAAAAAACAAAAAAAAAC
88988 GAAAAA
1 GAAAAA
88994 TGAAAAACAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.85, C:0.04, G:0.07, T:0.04
Consensus pattern (20 bp):
GAAAAAAAACAAAAAAAAAC
Found at i:88999 original size:15 final size:14
Alignment explanation
Indices: 88943--89105 Score: 61
Period size: 14 Copynumber: 12.1 Consensus size: 14
88933 ATTTCTCTTG
*
88943 AAGAAGAAATAAAAGA
1 AAGAA-AAATGAAA-A
*
88959 AAAAAAAAT-AAAA
1 AAGAAAAATGAAAA
*
88972 AA-AAACAA-AAAAA
1 AAGAAA-AATGAAAA
88985 AACGAAAAATG-AAA
1 AA-GAAAAATGAAAA
* *
88999 AA-CAAAAT--AAT
1 AAGAAAAATGAAAA
*
89010 AATAAAAATGAGAAA
1 AAGAAAAATGA-AAA
89025 AAGAAAAA-GAAGAA
1 AAGAAAAATGAA-AA
89039 AAGAAAAAATG---A
1 AAG-AAAAATGAAAA
*
89051 GA-AAAAAT-AAAA
1 AAGAAAAATGAAAA
*
89063 AATGAAAAA--AAGA
1 AA-GAAAAATGAAAA
89076 AAGAAAAAT-AAAA
1 AAGAAAAATGAAAA
89089 AGAGAAAAATGAAAA
1 A-AGAAAAATGAAAA
89104 AA
1 AA
89106 AGAGAAATAA
Statistics
Matches: 116, Mismatches: 11, Indels: 42
0.69 0.07 0.25
Matches are distributed among these distances:
10 6 0.05
11 4 0.03
12 23 0.20
13 21 0.18
14 31 0.27
15 26 0.22
16 5 0.04
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (14 bp):
AAGAAAAATGAAAA
Found at i:89055 original size:10 final size:9
Alignment explanation
Indices: 89042--89106 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
89032 AGAAGAAAAG
89042 AAAAAATGA
1 AAAAAATGA
89051 GAAAAAAT--
1 -AAAAAATGA
89059 AAAAAATGA
1 AAAAAATGA
89068 AAAAAA-GA
1 AAAAAATGA
89076 AAGAAAA--A
1 AA-AAAATGA
*
89084 TAAAAA-GA
1 AAAAAATGA
*
89092 GAAAAATGA
1 AAAAAATGA
89101 AAAAAA
1 AAAAAA
89107 GAGAAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 11 0.23
8 12 0.26
9 17 0.36
10 7 0.15
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
AAAAAATGA
Found at i:89073 original size:41 final size:41
Alignment explanation
Indices: 89013--89105 Score: 108
Period size: 41 Copynumber: 2.3 Consensus size: 41
89003 AAATAATAAT
89013 AAAAATGAGAAAAA-G--AAAAAG-AAGAAAAGA-AAAAATGAG
1 AAAAATGA-AAAAATGAAAAAAAGAAAGAAAA-ATAAAAA-GAG
89052 AAAAAAT-AAAAAATGAAAAAAAGAAAGAAAAATAAAAAGAG
1 -AAAAATGAAAAAATGAAAAAAAGAAAGAAAAATAAAAAGAG
89093 AAAAATGAAAAAA
1 AAAAATGAAAAAA
89106 AGAGAAATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
38 5 0.11
39 2 0.04
40 12 0.26
41 16 0.34
42 12 0.26
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (41 bp):
AAAAATGAAAAAATGAAAAAAAGAAAGAAAAATAAAAAGAG
Found at i:89113 original size:15 final size:15
Alignment explanation
Indices: 89015--89117 Score: 52
Period size: 17 Copynumber: 6.6 Consensus size: 15
89005 ATAATAATAA
*
89015 AAATGAGAAAAAGA-
1 AAATGAAAAAAAGAG
* * *
89029 AAAAGAAGAAAAGAAA
1 AAATGAAAAAAAG-AG
* *
89045 AAATGAGAAAAAATAAA
1 AAATGA-AAAAAA-GAG
89062 AAATGAAAAAAAGAAAG
1 AAATGAAAAAAAG--AG
89079 AAA--AATAAAAAGAG
1 AAATGAA-AAAAAGAG
89093 AAAAATGAAAAAAAGAG
1 --AAATGAAAAAAAGAG
89110 AAAT-AAAA
1 AAATGAAAA
89118 GGAGGGTTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
14 16 0.23
15 7 0.10
16 20 0.29
17 25 0.36
18 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (15 bp):
AAATGAAAAAAAGAG
Found at i:90636 original size:55 final size:51
Alignment explanation
Indices: 90435--90636 Score: 332
Period size: 51 Copynumber: 3.9 Consensus size: 51
90425 AAATTCATTT
* *
90435 GTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAGCGGACAAGTTT
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
90486 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
90537 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
1 GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
* *
90588 GTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGAC
1 GTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
90637 CCGTTTTATG
Statistics
Matches: 143, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
51 108 0.76
54 2 0.01
55 33 0.23
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (51 bp):
GTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTC
Found at i:91167 original size:573 final size:573
Alignment explanation
Indices: 90076--91220 Score: 2236
Period size: 573 Copynumber: 2.0 Consensus size: 573
90066 ATACATTTTA
90076 GGCATGAGTAGGATCATGGCATTCATAATCGCATGATGGCTTAAATATCTACAGGTTTCCCAGGG
1 GGCATGAGTAGGATCATGGCATTCATAATCGCATGATGGCTTAAATATCTACAGGTTTCCCAGGG
*
90141 ATAGTTGAAGATTGAAGATATGAAAGCATCGAGATGAAGATAACTGGTCTTGAGATTTTGACAAG
66 ATAGTTGAAGATTGAAGATATGAAAGCATCGAGATGAAGATAACTGGTCTTAAGATTTTGACAAG
90206 AATGATGTTTATACGAAAATTGAGTCAAAGCAGATTTAAATATCCAATGGCTCCAGACAAGTTTT
131 AATGATGTTTATACGAAAATTGAGTCAAAGCAGATTTAAATATCCAATGGCTCCAGACAAGTTTT
90271 CACGATGGAGATGGATTTTCAAAAAAAATTCTCAACTTCTAAATTTTTTAGTATAATATTTTTCA
196 CACGATGGAGATGGATTTTCAAAAAAAATTCTCAACTTCTAAATTTTTTAGTATAATATTTTTCA
90336 AATATACATTCATGATGAATAATGTTTGATTTTCAGGTTTGACCTTTGAAGCAAATCATCTATAA
261 AATATACATTCATGATGAATAATGTTTGATTTTCAGGTTTGACCTTTGAAGCAAATCATCTATAA
*
90401 GCCTTCACGAAAGAGTAGTGAAGCAAATTCATTTGTTGAAGATTGAGTCCTATACTCTCTGAAAG
326 GCCTTCACGAAAGAGTAGTGAAGCAAATTCATTTGTTGAAGATTGAGTCATATACTCTCTGAAAG
90466 AATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
391 AATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
90531 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA
456 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA
90596 TTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAT
521 TTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAT
90649 GGCATGAGTAGGATCATGGCATTCATAATCGCATGATGGCTTAAATATCTACAGGTTTCCCAGGG
1 GGCATGAGTAGGATCATGGCATTCATAATCGCATGATGGCTTAAATATCTACAGGTTTCCCAGGG
90714 ATAGTTGAAGATTGAAGATATGAAAGCATCGAGATGAAGATAACTGGTCTTAAGATTTTGACAAG
66 ATAGTTGAAGATTGAAGATATGAAAGCATCGAGATGAAGATAACTGGTCTTAAGATTTTGACAAG
*
90779 AATGATGTTTATACGAAAATTGAGTCAAAGCAGATTTAAATATCCAATGGCTCCATACAAGTTTT
131 AATGATGTTTATACGAAAATTGAGTCAAAGCAGATTTAAATATCCAATGGCTCCAGACAAGTTTT
*
90844 CACGATGGAGATGGATTTTCAAAAAAATTTCTCAACTTCTAAATTTTTTAGTATAATATTTTTCA
196 CACGATGGAGATGGATTTTCAAAAAAAATTCTCAACTTCTAAATTTTTTAGTATAATATTTTTCA
90909 AATATACATTCATGATGAATAATGTTTGATTTTCAGGTTTGACCTTTGAAGCAAATCATCTATAA
261 AATATACATTCATGATGAATAATGTTTGATTTTCAGGTTTGACCTTTGAAGCAAATCATCTATAA
*
90974 GCCTTCACGAAAGAGTAGTGAAGCAAATTCGTTTGTTGAAGATTGAGTCATATACTCTCTGAAAG
326 GCCTTCACGAAAGAGTAGTGAAGCAAATTCATTTGTTGAAGATTGAGTCATATACTCTCTGAAAG
91039 AATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
391 AATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
*
91104 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGA
456 AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA
91169 TTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGA
521 TTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGA
91221 AGATTGCTCG
Statistics
Matches: 566, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
573 566 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (573 bp):
GGCATGAGTAGGATCATGGCATTCATAATCGCATGATGGCTTAAATATCTACAGGTTTCCCAGGG
ATAGTTGAAGATTGAAGATATGAAAGCATCGAGATGAAGATAACTGGTCTTAAGATTTTGACAAG
AATGATGTTTATACGAAAATTGAGTCAAAGCAGATTTAAATATCCAATGGCTCCAGACAAGTTTT
CACGATGGAGATGGATTTTCAAAAAAAATTCTCAACTTCTAAATTTTTTAGTATAATATTTTTCA
AATATACATTCATGATGAATAATGTTTGATTTTCAGGTTTGACCTTTGAAGCAAATCATCTATAA
GCCTTCACGAAAGAGTAGTGAAGCAAATTCATTTGTTGAAGATTGAGTCATATACTCTCTGAAAG
AATAGGGAGCGGACAAGTTTGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGAC
AAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA
TTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAT
Found at i:91209 original size:55 final size:55
Alignment explanation
Indices: 91024--91472 Score: 432
Period size: 55 Copynumber: 8.4 Consensus size: 55
91014 GATTGAGTCA
* * *
91024 TATACTCTCTGAAAGAATAGGGAGCGGACAAGTTTGTTGAAGA---TT-GAGTCC
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTTGTTGAAGATTGTTCGAGTTC
* * *
91075 TATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGA---TT-GAGTCC
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTTGTTGAAGATTGTTCGAGTTC
*
91126 TATACTCTCTGAAGGAATAGGGAGCGGACAAGTTTGTTGAAGATTGTTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTTGTTGAAGATTGTTCGAGTTC
** *
91181 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGCTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTTGT-TGAAGATTGTTCGAGTTC
* * * ** *
91236 TATACTCTCTGAAGGAATAGGGAGCGAACACGTTTGTT-AA-A-AATT-GAGTCC
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTTGTTGAAGATTGTTCGAGTTC
* * ** *
91287 TATACTCTCTGAAAGAATAGAGAGCGGGCCTGTTTATTGAAGATT-TTCCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTTGTTGAAGATTGTT-CGAGTTC
* ** * *
91342 TATACTCTCTGAAGGAGTAGAGAGCGGACCTGTTTTATTGAAGATTGTTCAAG-TC
1 TATACTCTCTGAAGGAATAGAGAGCGGACAAG-TTTGTTGAAGATTGTTCGAGTTC
** *
91397 TTATACTCTCTGAATAAATAGAGAGCAGACACA-TTT-TATGAAGATTGTTCGAG-TC
1 -TATACTCTCTGAAGGAATAGAGAGCGGACA-AGTTTGT-TGAAGATTGTTCGAGTTC
91452 TTATACT-TCCTGAAGGAATAG
1 -TATACTCT-CTGAAGGAATAG
91473 GGAACAGACT
Statistics
Matches: 344, Mismatches: 37, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
51 127 0.37
52 3 0.01
53 4 0.01
54 7 0.02
55 159 0.46
56 42 0.12
57 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (55 bp):
TATACTCTCTGAAGGAATAGAGAGCGGACAAGTTTGTTGAAGATTGTTCGAGTTC
Found at i:91286 original size:161 final size:160
Alignment explanation
Indices: 91024--91410 Score: 507
Period size: 161 Copynumber: 2.4 Consensus size: 160
91014 GATTGAGTCA
* * * *
91024 TATACTCTCTGAAAGAATAGGGAGCGGACAAGTTTGT-TGAAGA-T-T-GAGTCCTATACTCTCT
1 TATACTCTCTGAAGGAATAGAGAGCGGACCAGTTT-TATGAAGATTGTCGAGTTCTATACTCTCT
* * * * *
91085 GAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGAGTCCTATACTCTCTGAAGGAATAGGGAG
65 GAAGGAATAGGGAGCGAACAAGTTCGTTAAAAATTGAGTCCTATACTCTCTGAAAGAATAGAGAG
*
91150 CGGACAAGTTTGTTGAAGATTGTT-CGAGTTC
130 CGGACAAGTTTATTGAAGATT-TTCCGAGTTC
*
91181 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGCTCGAGTTCTATACTCTCT
1 TATACTCTCTGAAGGAATAGAGAGCGGACCAGTTTTATGAAGATTG-TCGAGTTCTATACTCTCT
* *
91246 GAAGGAATAGGGAGCGAACACGTTTGTTAAAAATTGAGTCCTATACTCTCTGAAAGAATAGAGAG
65 GAAGGAATAGGGAGCGAACAAGTTCGTTAAAAATTGAGTCCTATACTCTCTGAAAGAATAGAGAG
* **
91311 CGGGCCTGTTTATTGAAGATTTTCCGAGTTC
130 CGGACAAGTTTATTGAAGATTTTCCGAGTTC
* * *
91342 TATACTCTCTGAAGGAGTAGAGAGCGGACCTGTTTTATTGAAGATTGTTCAAG-TCTTATACTCT
1 TATACTCTCTGAAGGAATAGAGAGCGGACCAGTTTTA-TGAAGATTG-TCGAGTTC-TATACTCT
91406 CTGAA
63 CTGAA
91411 TAAATAGAGA
Statistics
Matches: 202, Mismatches: 20, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
156 1 0.00
157 37 0.18
158 1 0.00
160 3 0.01
161 134 0.66
162 26 0.13
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (160 bp):
TATACTCTCTGAAGGAATAGAGAGCGGACCAGTTTTATGAAGATTGTCGAGTTCTATACTCTCTG
AAGGAATAGGGAGCGAACAAGTTCGTTAAAAATTGAGTCCTATACTCTCTGAAAGAATAGAGAGC
GGACAAGTTTATTGAAGATTTTCCGAGTTC
Found at i:91494 original size:55 final size:54
Alignment explanation
Indices: 91379--91507 Score: 143
Period size: 55 Copynumber: 2.4 Consensus size: 54
91369 ACCTGTTTTA
* * *
91379 TTGAAGATTGTTCAAGTCTTATACTCTCTGAATAAATAGAGAGCAGACACATTT
1 TTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGAGAACAGACACATAT
* * * * *
91433 TATGAAGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGAACAGACTCGTCAT
1 T-TGAAGATTGTTCAAGTCTTATACTCT-CTGAAGAAATAGAGAACAGACACAT-AT
*
91489 TTGAAGATTTTTCAAGTCT
1 TTGAAGATTGTTCAAGTCT
91508 CACTTATCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
54 2 0.03
55 58 0.94
56 2 0.03
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (54 bp):
TTGAAGATTGTTCAAGTCTTATACTCTCTGAAGAAATAGAGAACAGACACATAT
Found at i:103554 original size:2 final size:2
Alignment explanation
Indices: 103547--103578 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
103537 AAACCAACTA
103547 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
103579 GACAAATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110845 original size:136 final size:136
Alignment explanation
Indices: 110659--110926 Score: 466
Period size: 136 Copynumber: 2.0 Consensus size: 136
110649 TCAGCTTCTT
*
110659 GGTTATACCATTAAGAGATTCATAAGTGGATGATTTCATTCACTGCTGCCATCTTATTCA-TAGC
1 GGTTATACCATTAAGAGATTCATAAGTGGATAATTTCATTCACTGCTGCCATCTTATTCATTA-C
* *
110723 GCTTCACCTCTAAGTTAGTTAAACGTGCAGTGAAGACATAGAAAGAAATCCTCCATATGTACCTC
65 GCTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGACAGAGAAAGAAATCCTCCATATGTACCTC
110788 TCTATTC
130 TCTATTC
* *
110795 GGTTATACCATTAAGAGATTCATAAGTGGGTAATTTCATTCACTGCTGCCATCTTATTCATTATG
1 GGTTATACCATTAAGAGATTCATAAGTGGATAATTTCATTCACTGCTGCCATCTTATTCATTACG
*
110860 CTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGACAGAGAAAGAAATTCTCCATATGTACCTCT
66 CTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGACAGAGAAAGAAATCCTCCATATGTACCTCT
110925 CT
131 CT
110927 CTTTGTCGGG
Statistics
Matches: 125, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
136 123 0.98
137 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (136 bp):
GGTTATACCATTAAGAGATTCATAAGTGGATAATTTCATTCACTGCTGCCATCTTATTCATTACG
CTTCACCTCTAAGTTAGTTAAAAGTGCAGTGAAGACAGAGAAAGAAATCCTCCATATGTACCTCT
CTATTC
Found at i:119848 original size:19 final size:17
Alignment explanation
Indices: 119826--119860 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
119816 TTAAAGTTAG
119826 TTTAAATATATCATTATTC
1 TTTAAAT-TAT-ATTATTC
119845 TTTAAATTATATTATT
1 TTTAAATTATATTATT
119861 TATACTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAAATTATATTATTC
Found at i:121646 original size:21 final size:20
Alignment explanation
Indices: 121603--121656 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
121593 ATCATAATTA
**
121603 AATTTAAA-AAAATCTAAAT
1 AATTTAAATAAAAAATAAAT
* *
121622 AATTTGATTAAAAAATAAAT
1 AATTTAAATAAAAAATAAAT
121642 AAATTTAAATAAAAA
1 -AATTTAAATAAAAA
121657 GTATGACTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 6 0.22
20 9 0.33
21 12 0.44
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AATTTAAATAAAAAATAAAT
Found at i:121655 original size:20 final size:20
Alignment explanation
Indices: 121596--121656 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
121586 ATAAATAATC
*
121596 ATAATTAAATTTAAA-AAAA
1 ATAAATAAATTTAAATAAAA
* * *
121615 TCTAAAT-AATTTGATTAAAAA
1 -ATAAATAAATTTAAAT-AAAA
121636 ATAAATAAATTTAAATAAAA
1 ATAAATAAATTTAAATAAAA
121656 A
1 A
121657 GTATGACTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 6 0.19
20 14 0.45
21 11 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAATAAATTTAAATAAAA
Found at i:123391 original size:9 final size:9
Alignment explanation
Indices: 123377--123404 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
123367 TTTAACATAA
123377 TATATATAT
1 TATATATAT
123386 TATATATAT
1 TATATATAT
123395 TATATATAT
1 TATATATAT
123404 T
1 T
123405 TAAAACTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATATATAT
Found at i:123899 original size:39 final size:39
Alignment explanation
Indices: 123830--123909 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
123820 ATAGTTAAAG
* *
123830 AATTATTATTATTCATTGAAGTCATAAGTTCAAACACCA
1 AATTATTATTATTCATAGAAATCATAAGTTCAAACACCA
* * *
123869 AATTATTGTTATTTATAGAAATCATGAGTTCAAACACCA
1 AATTATTATTATTCATAGAAATCATAAGTTCAAACACCA
123908 AA
1 AA
123910 GACTACAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (39 bp):
AATTATTATTATTCATAGAAATCATAAGTTCAAACACCA
Found at i:128302 original size:32 final size:31
Alignment explanation
Indices: 128216--128337 Score: 95
Period size: 31 Copynumber: 3.9 Consensus size: 31
128206 ACCCTAAGGG
* *
128216 AACATCTTAGGGCCTG-AGAGCCTACCCAAGA
1 AACATCTCAGGGCC-GCAGAGCCTACCTAAGA
* * * * *
128247 TAGATTTCGGGGCCG-TGAGGCCTACCTAAGA
1 AACATCTCAGGGCCGCAGA-GCCTACCTAAGA
* **
128278 ACACATCTTAGGGCCGCAGAGCCTACCCGAGA
1 A-ACATCTCAGGGCCGCAGAGCCTACCTAAGA
**
128310 ATGATCTCAGGGCCGCAGAGCCTACCTA
1 AACATCTCAGGGCCGCAGAGCCTACCTA
128338 GGAGTCACAT
Statistics
Matches: 68, Mismatches: 20, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
30 3 0.04
31 42 0.62
32 21 0.31
33 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (31 bp):
AACATCTCAGGGCCGCAGAGCCTACCTAAGA
Found at i:128323 original size:63 final size:63
Alignment explanation
Indices: 128217--128337 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
128207 CCCTAAGGGA
* * *
128217 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAGAAC
*
128280 ACATCTTAGGGCC-GCAGAGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTA
128338 GGAGTCACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
62 2 0.04
63 47 0.92
64 2 0.04
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:129244 original size:17 final size:17
Alignment explanation
Indices: 129222--129279 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
129212 AACGGTCAAC
*
129222 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
*
129239 GGTCAACAATCGGGTCG
1 GGTCAACAGTCGGGTCG
129256 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
129273 GGTCAAC
1 GGTCAAC
129280 CCGGTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.40, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:129302 original size:19 final size:19
Alignment explanation
Indices: 129274--129323 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
129264 GTCGGGTCGG
*
129274 GTCAACCCGGTTCAGACCC
1 GTCAAACCGGTTCAGACCC
*
129293 GTCAAACCGGTTCAGACCG
1 GTCAAACCGGTTCAGACCC
129312 GTCAAACCGGTT
1 GTCAAACCGGTT
129324 TTCCAGCAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.24, C:0.34, G:0.24, T:0.18
Consensus pattern (19 bp):
GTCAAACCGGTTCAGACCC
Found at i:135607 original size:32 final size:31
Alignment explanation
Indices: 135571--135646 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
135561 GGGGCCGTGA
*
135571 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
** **
135603 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
135634 AGCCTACCTAAGA
1 GGCCTACCTAAGA
135647 GTCACATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:135629 original size:63 final size:63
Alignment explanation
Indices: 135523--135646 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
135513 CCCTAAGGGA
* * *
135523 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAGAAC
* *
135586 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
135647 GTCACATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 49 0.92
64 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:136541 original size:17 final size:17
Alignment explanation
Indices: 136521--136578 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
136511 GGAAGTCAAC
*
136521 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
*
136538 GGTCAACAATCGGGTCG
1 GGTCAACAGTCGGGTCG
136555 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
136572 GGTCAAC
1 GGTCAAC
136579 CCGGTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.19, C:0.24, G:0.40, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:148677 original size:180 final size:182
Alignment explanation
Indices: 148266--148728 Score: 687
Period size: 180 Copynumber: 2.6 Consensus size: 182
148256 TAAAAATGTG
* * * * **
148266 TCGATCCAAAATGATATAACAGGTAAAACTATGACAAAACCGATATTGAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGATATCAAAATGATAAAACCGGTA
* * * * *
148331 AAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCGTGAATTTA
66 AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
* *
148396 AAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAATATA
131 AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAAAATA
*
148448 TCGATCCAAAACGATATACCAGGTAAAAATATGATAAAATCGATATCAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGATATCAAAATGATAAAACCGGTA
* *
148513 AAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTTA
66 AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
** * ** *
148577 AAAGAGAATTATTTTTAGCGCCTATAATGTGTCGATAC-TTTAAAAAAAATA
131 AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAAAATA
* * *
148628 TCGATCCACAACGATATAACATGTAAAAATATGATAAAATCGGTATCAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGATATCAAAATGATAAAACCGGTA
148693 AAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACGATACCGGATATATTGAAAGTGTCGATACTTT
148729 CGTAAGTACG
Statistics
Matches: 255, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 108 0.42
181 58 0.23
182 89 0.35
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGATATCAAAATGATAAAACCGGTA
AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTA
AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAAAATA
Found at i:149183 original size:19 final size:19
Alignment explanation
Indices: 149159--149207 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
149149 AATGTAGGGT
149159 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
149178 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
149197 TAATTTTGTAT
1 TAATTTTGTAT
149208 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:149218 original size:18 final size:19
Alignment explanation
Indices: 149159--149219 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
149149 AATGTAGGGT
* *
149159 TAATTTTGTATAAGATTTA
1 TAATTTTGTATATGATATA
*
149178 TAATTTTGTATATGATTTA
1 TAATTTTGTATATGATATA
*
149197 TAATTTTGTATGTGA-ATA
1 TAATTTTGTATATGATATA
149215 TAATT
1 TAATT
149220 ATGAATGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 7 0.18
19 32 0.82
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATATGATATA
Found at i:150085 original size:183 final size:183
Alignment explanation
Indices: 149743--150331 Score: 986
Period size: 183 Copynumber: 3.2 Consensus size: 183
149733 ACAAGTTTTC
*
149743 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACATT-T
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * * *
149807 TCAAAAAGTGTCG--ATTGAAAAAATATCGGAACCCATAATTATAATGTAATAGATAATTTTGTA
66 T-AAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
* *
149870 ATATAATCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
127 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
149927 ACACTTTTTAATATTGTGTCGGTACTTTATGTTCATAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
149992 TAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGGTAATTTTGTAATAT
66 TAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
150057 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAATCAATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
150110 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
150175 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 TAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
150240 AACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
150293 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
150332 TATAATGTAC
Statistics
Matches: 382, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
183 306 0.80
184 71 0.19
185 2 0.01
186 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
TAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:150418 original size:120 final size:120
Alignment explanation
Indices: 150205--150451 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
150195 ACATCGGAAC
*
150205 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
150270 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
150325 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACTGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
150390 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
150445 CCAGAAT
1 CCAGAAT
150452 GGAAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:150569 original size:303 final size:303
Alignment explanation
Indices: 150022--150616 Score: 1073
Period size: 303 Copynumber: 2.0 Consensus size: 303
150012 ACATCGGAAC
*
150022 CCAGAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
150087 GAATAGGTCTACAATCAATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCAATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
150152 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAA
* *
150217 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTAC
196 TGCAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
150282 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
150325 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACTGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
150390 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCAATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
150455 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAA
*
150520 TGCAATAGATAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGCAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
150585 AACCTATATCGACACTTTTTAATATTGTGTCG
261 AACCTATATCGACACTTTTTAATATTGTGTCG
150617 CTAATTTTAA
Statistics
Matches: 279, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 279 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCAATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAA
TGCAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:152206 original size:23 final size:23
Alignment explanation
Indices: 152156--152200 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
152146 TGTCTATTTT
* *
152156 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
152179 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
152201 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:153401 original size:29 final size:28
Alignment explanation
Indices: 153346--153401 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
153336 ATAAATAAAA
* * *
153346 TTAAAATTTAATAATTATATTATAAATT
1 TTAAAATTTAATAATTAAAATACAAATT
*
153374 TTAAAATTTTAGTAATTAAAATACAAAT
1 TTAAAA-TTTAATAATTAAAATACAAAT
153402 GGCTTAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TTAAAATTTAATAATTAAAATACAAATT
Found at i:158758 original size:77 final size:76
Alignment explanation
Indices: 158624--158765 Score: 266
Period size: 77 Copynumber: 1.9 Consensus size: 76
158614 CCGGCAAGGG
*
158624 GCCTTTCCTGCTTATTTTAGCTGCTGGGTCTGCAACACTTGGTGTCTCGGTGGTCCTTCTCCCCT
1 GCCTTTCCTGCTTATTTTAGCTGCTGGGTCTGCAACACTTGGTGTCTCAGTGGTCCTTCTCCCCT
158689 GCAACAAAGTC
66 GCAACAAAGTC
158700 GCCTTTCCTGCTTATTTTAGCTGCTGGGTTCTGCAACACTTGGTGTCTCAGTGGTCCTTCTCCCC
1 GCCTTTCCTGCTTATTTTAGCTGCTGGG-TCTGCAACACTTGGTGTCTCAGTGGTCCTTCTCCCC
158765 T
65 T
158766 CTGCAAGAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
76 28 0.44
77 36 0.56
ACGTcount: A:0.11, C:0.30, G:0.22, T:0.37
Consensus pattern (76 bp):
GCCTTTCCTGCTTATTTTAGCTGCTGGGTCTGCAACACTTGGTGTCTCAGTGGTCCTTCTCCCCT
GCAACAAAGTC
Done.