Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004169.1 Hibiscus syriacus cultivar Beakdansim tig00009117_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: 295911
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:7284 original size:19 final size:19
Alignment explanation
Indices: 7257--7302 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
7247 AAAAATGAAA
* *
7257 TATTCTTTTATTCT-TTCTT
1 TATTTTTTTATTCTATT-TC
7276 TATTTTTTTATTCTATTTC
1 TATTTTTTTATTCTATTTC
7295 TATTTTTT
1 TATTTTTT
7303 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTTTATTCTATTTC
Found at i:9727 original size:18 final size:18
Alignment explanation
Indices: 9701--9748 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
9691 TACACATATA
9701 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
*
9719 TCCCAAAGGACCACTATG
1 TCCCGAAGGACCACTATG
9737 TCCCGAAGGACC
1 TCCCGAAGGACC
9749 GCGTAGACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:10579 original size:24 final size:20
Alignment explanation
Indices: 10522--10559 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10512 TTTCCCTTGA
10522 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
10542 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
10560 TTAACCTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:19316 original size:54 final size:54
Alignment explanation
Indices: 19265--19564 Score: 438
Period size: 54 Copynumber: 5.6 Consensus size: 54
19255 TAAACATATT
*** *
19265 ATGAATTCCGTGTTTTGCACACTCAGTGCCGAAACGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
19319 ATGAATACTGTGAAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * *
19373 ATGAGTTCCGTGAAATGCACACTTAGTACCGAAACGATTATTCATCCACATAAG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
19427 ATGAATTCCGTGGAATGGACACTTAGTACCGAAACGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * *
19481 ATGAATTCTGTGAAATGCACACTTAGTGTCGAAACAGTTATTCATCCACACAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
19535 ATGAATTCCGTGAAATGCACACTTAGTGCC
1 ATGAATTCCGTGAAATGCACACTTAGTGCC
19565 TATTTGGTAA
Statistics
Matches: 220, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 220 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (54 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
Found at i:19538 original size:162 final size:162
Alignment explanation
Indices: 19265--19561 Score: 488
Period size: 162 Copynumber: 1.8 Consensus size: 162
19255 TAAACATATT
*** *
19265 ATGAATTCCGTGTTTTGCACACTCAGTGCCGAAACGGTTATTCATCCACATAGGATGAATACTGT
1 ATGAATTCCGTGGAATGCACACTCAGTACCGAAACGGTTATTCATCCACATAGGATGAATACTGT
* *
19330 GAAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGGATGAGTTCCGTGAAATGCACAC
66 GAAATGCACACTTAGTGCCGAAACGATTATTCATCCACACAGGATGAATTCCGTGAAATGCACAC
19395 TTAGTACCGAAACGATTATTCATCCACATAAG
131 TTAGTACCGAAACGATTATTCATCCACATAAG
* * *
19427 ATGAATTCCGTGGAATGGACACTTAGTACCGAAACGGTTATTCATCCACATAGGATGAATTCTGT
1 ATGAATTCCGTGGAATGCACACTCAGTACCGAAACGGTTATTCATCCACATAGGATGAATACTGT
*
19492 GAAATGCACACTTAGTGTCGAAAC-AGTTATTCATCCACACAGGATGAATTCCGTGAAATGCACA
66 GAAATGCACACTTAGTGCCGAAACGA-TTATTCATCCACACAGGATGAATTCCGTGAAATGCACA
19556 CTTAGT
130 CTTAGT
19562 GCCTATTTGG
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
161 1 0.01
162 123 0.99
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (162 bp):
ATGAATTCCGTGGAATGCACACTCAGTACCGAAACGGTTATTCATCCACATAGGATGAATACTGT
GAAATGCACACTTAGTGCCGAAACGATTATTCATCCACACAGGATGAATTCCGTGAAATGCACAC
TTAGTACCGAAACGATTATTCATCCACATAAG
Found at i:20028 original size:22 final size:23
Alignment explanation
Indices: 19976--20053 Score: 75
Period size: 19 Copynumber: 3.8 Consensus size: 23
19966 AGGTTTGATG
19976 TTACC-TGGTATCG--A-TACCC
1 TTACCATGGTATCGATACTACCC
19995 TTACCATGGTATCGATACTACCC
1 TTACCATGGTATCGATACTACCC
*
20018 TT-CTATGGTATCGATAC--CCC
1 TTACCATGGTATCGATACTACCC
*
20038 CTACC--GGTATCGATAC
1 TTACCATGGTATCGATAC
20054 CAAAATTAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
19 16 0.31
20 12 0.24
21 1 0.02
22 15 0.29
23 7 0.14
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (23 bp):
TTACCATGGTATCGATACTACCC
Found at i:20055 original size:95 final size:96
Alignment explanation
Indices: 19925--20116 Score: 260
Period size: 95 Copynumber: 2.0 Consensus size: 96
19915 TACTTCTATA
* * * * * *
19925 CTATGGTACCAATACCCCTTTCGGGTATTGATACCAAAAATAGGTTTGATGTTACCTGGTATCGA
1 CTATGGTACCAATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGTTACCTGGTATCGA
*
19990 TACCCTTACCATGGTATCGATACTACC-CTT
66 TACCCTTACCATGGAATCGATACTACCTCTT
* * * * *
20020 CTATGGTATCGATACCCCCTACCGGTATCGATACCAAAATTAGATTCGATGTTTCTTGGTATCGA
1 CTATGGTACCAATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGTTACCTGGTATCGA
*
20085 TACCCTTATCATGGAATCGATACTACCTCTT
66 TACCCTTACCATGGAATCGATACTACCTCTT
20116 C
1 C
20117 GGTAACGATA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
95 79 0.95
96 4 0.05
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (96 bp):
CTATGGTACCAATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGTTACCTGGTATCGA
TACCCTTACCATGGAATCGATACTACCTCTT
Found at i:26269 original size:54 final size:54
Alignment explanation
Indices: 26184--26467 Score: 326
Period size: 54 Copynumber: 5.3 Consensus size: 54
26174 ATCCGTGTTT
* * * *
26184 TGCACACTCA-TGCCGTAATGGTTATTCATCCACATAAGATGAATTCCATGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAA
* **
26237 TGCACACTTAGTGCCGAAAAGGTTATTCATCCACATAGGATGAA-TCTTGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTC-CATGAAA
* * * * *
26291 TGCGCACTTATTGCTGAAACGATTATTCATCCACATAGGATGAATTCTC-TGGAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTC-CATGAAA
* * *
26345 TTCACACTTAGTGTCGAAACGGTTTTTCATCCACATAGGATGAA-T-CATGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCA--TGAAA
* * * *
26399 TGCATACTTAGTACCGAAACTGTTATTCATCCACATAGGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAA
26453 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
26468 TATTTGGTAA
Statistics
Matches: 193, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
53 12 0.06
54 175 0.91
55 4 0.02
56 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAA
Found at i:26333 original size:108 final size:107
Alignment explanation
Indices: 26204--26467 Score: 377
Period size: 108 Copynumber: 2.4 Consensus size: 107
26194 TGCCGTAATG
*
26204 GTTATTCATCCACATAAGATGAATTCCATGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCC
1 GTTATTCATCCACATAGGATGAATTCC-TGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCC
* * * * *
26269 ACATAGGATGAATCTTGTGAAATGCGCACTTATTGCTGAAAC-
65 ACATAGGATGAATCATGTGAAATGCACACTTAGTACCGAAACT
* * * * *
26311 GATTATTCATCCACATAGGATGAATTCTCTGGAATTCACACTTAGTGTCGAAACGGTTTTTCATC
1 G-TTATTCATCCACATAGGATGAATTC-CTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATC
*
26376 CACATAGGATGAATCATGTGAAATGCATACTTAGTACCGAAACT
64 CACATAGGATGAATCATGTGAAATGCACACTTAGTACCGAAACT
26420 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
1 GTTATTCATCCACATAGGATGAATTCC-TGAAATGCACACTTAGTGCC
26468 TATTTGGTAA
Statistics
Matches: 138, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
107 2 0.01
108 134 0.97
109 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (107 bp):
GTTATTCATCCACATAGGATGAATTCCTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCCA
CATAGGATGAATCATGTGAAATGCACACTTAGTACCGAAACT
Found at i:28115 original size:17 final size:17
Alignment explanation
Indices: 28090--28131 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
28080 CCTCTATGTC
28090 CATGCGAATAATGAATT
1 CATGCGAATAATGAATT
*
28107 CATGTGAATAATGAATT
1 CATGCGAATAATGAATT
*
28124 CATACGAA
1 CATGCGAA
28132 GACATAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (17 bp):
CATGCGAATAATGAATT
Found at i:29647 original size:60 final size:58
Alignment explanation
Indices: 29573--29735 Score: 179
Period size: 60 Copynumber: 2.8 Consensus size: 58
29563 TCTTGGTATA
* * * *
29573 TAGGGTAAGACCTTATGGACCCTAAGGTAATCCCTTAGGTTGGCTCATTTGCTTTGTGC
1 TAGGGTAAGTCCTTATGGACCCTAAGGTACTCCCTTAGGTTGGCTCATATGCTTCG-GC
* * * *
29632 TTAGGGTAAGTCCTTATGGA-CCTGAGGGCACTCCCCTCAGG-TGGCTCCTATGCTTCGGC
1 -TAGGGTAAGTCCTTATGGACCCT-AAGGTACT-CCCTTAGGTTGGCTCATATGCTTCGGC
* *
29691 TAGGGTAAGTCCTTATGGACCC-AAGGTGCTTCCTTAGGTTGGCTC
1 TAGGGTAAGTCCTTATGGACCCTAAGGTACTCCCTTAGGTTGGCTC
29736 CTACGCCCGA
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
56 6 0.07
57 11 0.13
58 19 0.22
59 7 0.08
60 36 0.42
61 7 0.08
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.31
Consensus pattern (58 bp):
TAGGGTAAGTCCTTATGGACCCTAAGGTACTCCCTTAGGTTGGCTCATATGCTTCGGC
Found at i:32098 original size:66 final size:66
Alignment explanation
Indices: 32024--32187 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 66
32014 GTACACTTGG
* * * *
32024 TGTGCATCGGTACACTAATTA-TATTCGATGTTTCAAAAAAAGCC-AAGAGTGCATCGATGCATG
1 TGTGCATCGGTACACTAATAAGCATTCGATGTTCCAAAAAAA-CCTAAG-GTGCATCAATGCATG
32087 GTA
64 GTA
* *
32090 TGTGCATCGGTACA-TAA-AAGGCATTCGATGTTCCAATAAAACCTAAGGTGTATCAATGCATGG
1 TGTGCATCGGTACACTAATAA-GCATTCGATGTTCCAAAAAAACCTAAGGTGCATCAATGCATGG
32153 TA
65 TA
32155 TGTGCATCGGTACAC--ATAATGCATTCGATGTTC
1 TGTGCATCGGTACACTAATAA-GCATTCGATGTTC
32188 AATTAAATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
64 2 0.02
65 50 0.58
66 34 0.40
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (66 bp):
TGTGCATCGGTACACTAATAAGCATTCGATGTTCCAAAAAAACCTAAGGTGCATCAATGCATGGT
A
Found at i:32168 original size:65 final size:66
Alignment explanation
Indices: 32046--32187 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 66
32036 CACTAATTAT
* * *
32046 ATTCGATGTTTCAAAAAAAGCCAAGAGTGCATCGATGCATGGTATGTGCATCGGTACATAAAAGG
1 ATTCGATGTTCCAAAAAAAGCCAAGAGTGCATCAATGCATGGTATGTGCATCGGTACACAAAAGG
32111 C
66 C
* * * *
32112 ATTCGATGTTCCAATAAAA-CCTAAG-GTGTATCAATGCATGGTATGTGCATCGGTACACATAAT
1 ATTCGATGTTCCAAAAAAAGCC-AAGAGTGCATCAATGCATGGTATGTGCATCGGTACACAAAAG
32175 GC
65 GC
32177 ATTCGATGTTC
1 ATTCGATGTTC
32188 AATTAAATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
65 48 0.71
66 20 0.29
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (66 bp):
ATTCGATGTTCCAAAAAAAGCCAAGAGTGCATCAATGCATGGTATGTGCATCGGTACACAAAAGG
C
Found at i:32225 original size:65 final size:65
Alignment explanation
Indices: 32046--32233 Score: 166
Period size: 65 Copynumber: 2.9 Consensus size: 65
32036 CACTAATTAT
* * * * ** *
32046 ATTCGATGTTTCAAAAAAAGCC-AAGAGTGCATCGATGCATGGTATGTGCATCGGTACATAAAAG
1 ATTCGATGTTCCAATAAAA-CCTAAG-GTGTATCAATGCATGCAATGTGCATCGGTACACAAAAG
32110 GC
64 GC
** * *
32112 ATTCGATGTTCCAATAAAACCTAAGGTGTATCAATGCATGGTATGTGCATCGGTACACATAATGC
1 ATTCGATGTTCCAATAAAACCTAAGGTGTATCAATGCATGCAATGTGCATCGGTACACAAAAGGC
* * * * * *
32177 ATTCGATGTT-CAATTAAA-TTAGGTGTGTATCGATGCATTCAATAGTGCATCAGTACA
1 ATTCGATGTTCCAATAAAACCTAAG-GTGTATCAATGCATGCAAT-GTGCATCGGTACA
32234 TCCCTTTGAA
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
63 3 0.03
64 22 0.21
65 59 0.57
66 20 0.19
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (65 bp):
ATTCGATGTTCCAATAAAACCTAAGGTGTATCAATGCATGCAATGTGCATCGGTACACAAAAGGC
Found at i:32845 original size:2 final size:2
Alignment explanation
Indices: 32838--32864 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32828 AACCAAAACC
32838 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 A
32865 AAAGCATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34344 original size:13 final size:12
Alignment explanation
Indices: 34315--34348 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34305 AATGGGCAGT
*
34315 TTTTGAAAACTA
1 TTTTGAAAACAA
34327 TTTTGAAAACAA
1 TTTTGAAAACAA
34339 TGTTTGAAAA
1 T-TTTGAAAA
34349 ATTGTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (12 bp):
TTTTGAAAACAA
Found at i:34875 original size:44 final size:43
Alignment explanation
Indices: 34826--34928 Score: 143
Period size: 44 Copynumber: 2.4 Consensus size: 43
34816 GTACACTACA
* * * * *
34826 TAGTGTATTGATGCACATTCAAGGCATGCATTGGTGCACTTTTG
1 TAGTGTATCGATGCACATTCAAGGAATGCATCGGTACAC-TTTC
*
34870 TAGTGTATCGATGCATATTCAAGGAATGCATCGGTACACTTTC
1 TAGTGTATCGATGCACATTCAAGGAATGCATCGGTACACTTTC
34913 TAGTGTATCGATGCAC
1 TAGTGTATCGATGCAC
34929 TTTGCACAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 18 0.35
44 34 0.65
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (43 bp):
TAGTGTATCGATGCACATTCAAGGAATGCATCGGTACACTTTC
Found at i:36940 original size:12 final size:12
Alignment explanation
Indices: 36923--36947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36913 ATGATGATTC
36923 TCCAACGTCATG
1 TCCAACGTCATG
36935 TCCAACGTCATG
1 TCCAACGTCATG
36947 T
1 T
36948 GCGTTTACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:38631 original size:20 final size:21
Alignment explanation
Indices: 38593--38631 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
38583 AAGCTTTAAG
* *
38593 ATCATCAATTTTCTTTTGATA
1 ATCATCAATTTACTCTTGATA
38614 ATCATC-ATTTACTCTTGA
1 ATCATCAATTTACTCTTGA
38632 AAGTAAGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (21 bp):
ATCATCAATTTACTCTTGATA
Found at i:40795 original size:69 final size:65
Alignment explanation
Indices: 40722--40887 Score: 192
Period size: 65 Copynumber: 2.5 Consensus size: 65
40712 GTACACTTGG
*
40722 TGTGCATCGGTACACTAATTACATTCGATGTTTCAAAAAAAAAAGCCAAGAGTGCATCGATGCAT
1 TGTGCATCGGTACACTAA-TGCATTCGATGTTTC--AAAAAAAA-CCAAGAGTGCATCGATGCAT
40787 GGTC
62 GGTC
* * ** * *
40791 TGTGCATCGGTACA-TAAAATGCATTCGATG-TTCCAATAAAACCTGGGGTGTATCGATGCATGG
1 TGTGCATCGGTACACT--AATGCATTCGATGTTTCAAAAAAAACCAAGAGTGCATCGATGCATGG
40854 TC
64 TC
40856 TGTGCATCGGTACACATAATGCATTCGATGTT
1 TGTGCATCGGTACAC-TAATGCATTCGATGTT
40888 CAATTAAATT
Statistics
Matches: 85, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
65 47 0.55
66 7 0.08
67 1 0.01
68 4 0.05
69 24 0.28
70 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (65 bp):
TGTGCATCGGTACACTAATGCATTCGATGTTTCAAAAAAAACCAAGAGTGCATCGATGCATGGTC
Found at i:40866 original size:65 final size:64
Alignment explanation
Indices: 40777--40915 Score: 208
Period size: 65 Copynumber: 2.2 Consensus size: 64
40767 CCAAGAGTGC
*
40777 ATCGATGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTCCAATAAAACCT-GGGGTG
1 ATCGATGCATGGTCTGTGCATCGGTACACAAAATGCATTCGATGTT-CAATAAAA-CTAGGGGTG
40841 T
64 T
* * * *
40842 ATCGATGCATGGTCTGTGCATCGGTACACATAATGCATTCGATGTTCAATTAAATTAGGTGTGT
1 ATCGATGCATGGTCTGTGCATCGGTACACAAAATGCATTCGATGTTCAATAAAACTAGGGGTGT
40906 ATCGATGCAT
1 ATCGATGCAT
40916 TCAATAGTGC
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
63 1 0.01
64 23 0.34
65 44 0.65
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (64 bp):
ATCGATGCATGGTCTGTGCATCGGTACACAAAATGCATTCGATGTTCAATAAAACTAGGGGTGT
Found at i:40926 original size:65 final size:64
Alignment explanation
Indices: 40777--40934 Score: 196
Period size: 65 Copynumber: 2.4 Consensus size: 64
40767 CCAAGAGTGC
*
40777 ATCGATGCATGGTCTGTGCATCGGTACATAAAATGCATTCGATGTTCCAATAAAACCTGGGGTGT
1 ATCGATGCAT-GTCTGTGCATCGGTACACAAAATGCATTCGATGTTCCAATAAAACCTGGGGTGT
* * * *
40842 ATCGATGCATGGTCTGTGCATCGGTACACATAATGCATTCGATGTT-CAATTAAA-TTAGGTGTG
1 ATCGATGCAT-GTCTGTGCATCGGTACACAAAATGCATTCGATGTTCCAATAAAACCT-GGGGTG
40905 T
64 T
40906 ATCGATGCAT-TCAATAGTGCATCGGTACA
1 ATCGATGCATGTC--T-GTGCATCGGTACA
40935 TTCCTTTGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 24 0.29
65 57 0.68
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
ATCGATGCATGTCTGTGCATCGGTACACAAAATGCATTCGATGTTCCAATAAAACCTGGGGTGT
Found at i:41826 original size:41 final size:41
Alignment explanation
Indices: 41781--41927 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
41771 TAACTTTAGC
*
41781 GGCATTTTTATACAAACGCCACAATAGGGTTCATCTATAGT
1 GGCATTTTTATACAAACGCCGCAATAGGGTTCATCTATAGT
* * *
41822 GGCATTTTT-T-CAACATCCGCCGCAATAGAG-T-AGTACTTTAGC
1 GGCATTTTTATACAA-A--CGCCGCAATAGGGTTCA-T-CTATAGT
* * *
41864 GACGTTTTTATACAAACACCGCAATAGGGTTCATCTATAGT
1 GGCATTTTTATACAAACGCCGCAATAGGGTTCATCTATAGT
*
41905 -GCATTTTTCA-AAAAACGCCGCAA
1 GGCATTTTT-ATACAAACGCCGCAA
41928 CAGAGTACTA
Statistics
Matches: 82, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
39 3 0.04
40 20 0.24
41 28 0.34
42 25 0.30
43 3 0.04
44 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (41 bp):
GGCATTTTTATACAAACGCCGCAATAGGGTTCATCTATAGT
Found at i:41872 original size:83 final size:81
Alignment explanation
Indices: 41773--41934 Score: 234
Period size: 83 Copynumber: 2.0 Consensus size: 81
41763 AAAAATGGTA
* * * *
41773 ACTTTAGCGGCATTTTTATACAAACGCCACAATAGGGTTCATCTATAGTGGCATTTTTTCAACAT
1 ACTTTAGCGACATTTTTATACAAACACCACAATAGGGTTCATCTATAGT-GCA-TTTTTCAAAAA
* *
41838 CCGCCGCAATAGAGTAGT
64 ACGCCGCAACAGAGTAGT
* *
41856 ACTTTAGCGACGTTTTTATACAAACACCGCAATAGGGTTCATCTATAGTGCATTTTTCAAAAAAC
1 ACTTTAGCGACATTTTTATACAAACACCACAATAGGGTTCATCTATAGTGCATTTTTCAAAAAAC
41921 GCCGCAACAGAGTA
66 GCCGCAACAGAGTA
41935 CTAATAGATC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 23 0.32
82 3 0.04
83 45 0.63
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (81 bp):
ACTTTAGCGACATTTTTATACAAACACCACAATAGGGTTCATCTATAGTGCATTTTTCAAAAAAC
GCCGCAACAGAGTAGT
Found at i:43493 original size:21 final size:23
Alignment explanation
Indices: 43449--43496 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
43439 TGATTTTTTA
43449 TTATTTTCAAATAATATCTATTT
1 TTATTTTCAAATAATATCTATTT
* *
43472 TTATTTTTAAAT-TTAT-TATTT
1 TTATTTTCAAATAATATCTATTT
43493 TTAT
1 TTAT
43497 AGTCAATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 3 0.13
23 11 0.48
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTTTCAAATAATATCTATTT
Found at i:43640 original size:24 final size:24
Alignment explanation
Indices: 43594--43640 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
43584 ATAAAAAATT
* * * *
43594 AAAATTAATATTTACAATTAATAA
1 AAAATTAAAAATTAAAATAAATAA
43618 AAAATTAAAAATTAAAATAAATA
1 AAAATTAAAAATTAAAATAAATA
43641 TGAATAAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATTAAAAATTAAAATAAATAA
Found at i:43647 original size:30 final size:28
Alignment explanation
Indices: 43584--43665 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 28
43574 TATTTTTTAC
*
43584 ATAAAAAATTAAAATTAATATTTACAATTA
1 ATAAAAAATTAAAATTAA-A-ATACAATTA
43614 ATAAAAAATTAAAAATTAAAATA-AATATGA
1 ATAAAAAATT-AAAATTAAAATACAAT-T-A
**
43644 ATAAACTATTAAAATTGAAAAT
1 ATAAAAAATTAAAATT-AAAAT
43666 TTTATAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
28 3 0.07
29 9 0.20
30 25 0.56
31 8 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAAAAAATTAAAATTAAAATACAATTA
Found at i:45955 original size:87 final size:87
Alignment explanation
Indices: 45809--45971 Score: 283
Period size: 87 Copynumber: 1.9 Consensus size: 87
45799 TATGTTATAT
45809 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTTACGCTTATATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTTACGCTTATATAATGTAATAGAT
*
45874 AGCGTTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
45896 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGG-TAGCGCTTATATAATGTAATAGG
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTTA-CGCTTATATAATGTAATAGA
45960 TAGCGCTTATAT
65 TAGCGCTTATAT
45972 TGACCTATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
86 2 0.03
87 70 0.97
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.34
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTTACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:46435 original size:260 final size:246
Alignment explanation
Indices: 46084--46601 Score: 813
Period size: 260 Copynumber: 2.0 Consensus size: 246
46074 CTTTTTATAA
46084 AAGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTAATATTTCATTCTGGACAAAAATATCG
1 AAGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTAATATTTCATTCTGGACAAAAATATCG
46149 ACACAAACTAAAAAAGTGTCGATACATGATTTAGACATATTCTCTCATAAAACCGATATAATTAT
66 ACACAAACTAAAAAAGTGTCGATACATGATTTAGACATATTCTCTCATAAAACCGATATAATTAT
46214 ACCGGTTTCATTGACCATTTACCTATTACATTATACTTATGGGTTTCGATGTTTTAGGGATCGAT
131 ACCGGTTTCATTG-----------A--ACATTATACTTATGGGTTTCGATGTTTTAGGGATCGAT
* * *
46279 ATTTTTTTAATAAATGTATCGACACTTTTTTAGGGTACACCTTTTTTGGCATTCTTTCTAGACCG
183 ACTTTTTTAATAAATGTATCGACAC--TTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCG
46344 T
246 T
** *
46345 AAGTATCGACACTTTATGCTTGCACCTCGTT-GGTTTTAATATTTCATTTTGGACAAAAATATCG
1 AAGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTAATATTTCATTCTGGACAAAAATATCG
* *
46409 ACACAAACTAAAAAAGTGTCGATACATGATTTAGACCTATTCTCTCATAAAACCGGTATAATTAT
66 ACACAAACTAAAAAAGTGTCGATACATGATTTAGACATATTCTCTCATAAAACCGATATAATTAT
*
46474 ATCGGTTTCATTGAACATTATACTTATGGGTTTCGATGTTTTAGGGATCGATACTTTTTTAATAA
131 ACCGGTTTCATTGAACATTATACTTATGGGTTTCGATGTTTTAGGGATCGATACTTTTTTAATAA
46539 ATGTATCGACACTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCGT
196 ATGTATCGACACTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCGT
46590 AAGTATCGACAC
1 AAGTATCGACAC
46602 AAATTTAACA
Statistics
Matches: 248, Mismatches: 9, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
245 49 0.20
247 62 0.25
249 1 0.00
260 105 0.42
261 31 0.12
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (246 bp):
AAGTATCGACACTTTATGCTTGCACCTCGTTGGGCATTAATATTTCATTCTGGACAAAAATATCG
ACACAAACTAAAAAAGTGTCGATACATGATTTAGACATATTCTCTCATAAAACCGATATAATTAT
ACCGGTTTCATTGAACATTATACTTATGGGTTTCGATGTTTTAGGGATCGATACTTTTTTAATAA
ATGTATCGACACTTTAAGGGTACACCTTTTTTGGCATTCATTCTAGACCGT
Found at i:49628 original size:183 final size:183
Alignment explanation
Indices: 49320--49890 Score: 1002
Period size: 183 Copynumber: 3.1 Consensus size: 183
49310 TTAAAATTAG
* * *
49320 CGACACAATATTAAAAAGTGTCGATATAGGTTATAGACCTATTCACTCATAAAACCAGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
49385 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
49450 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
*
49503 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
49568 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
49633 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
49686 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * *
49751 ATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAA--T
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG---TGTAAATGT
* *
49814 CGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTAC
128 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
49870 CGACACAATATTAAAAAGTGT
1 CGACACAATATTAAAAAGTGT
49891 GAAAACTTTG
Statistics
Matches: 373, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 293 0.79
184 76 0.20
186 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
Found at i:51108 original size:3 final size:3
Alignment explanation
Indices: 51100--51144 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
51090 ACTTGTTTGG
* * *
51100 ATC ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
51145 GTCAGCTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.02, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:51145 original size:12 final size:12
Alignment explanation
Indices: 51104--51161 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
51094 GTTTGGATCA
*
51104 TCATCATCATCA
1 TCATCATCATCT
51116 TCATCATCATCT
1 TCATCATCATCT
*
51128 TCATCGTCATCT
1 TCATCATCATCT
* *
51140 TCATCGTCAGCT
1 TCATCATCATCT
*
51152 TCATCTTCAT
1 TCATCATCAT
51162 TGACTGCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:51159 original size:6 final size:6
Alignment explanation
Indices: 51104--51161 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
51094 GTTTGGATCA
* * * * * *
51104 TCATCA TCATCA TCATCA TCATCT TCATCG TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
51152 TCATCT TCAT
1 TCATCT TCAT
51162 TGACTGCTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:52979 original size:200 final size:200
Alignment explanation
Indices: 52655--54209 Score: 2789
Period size: 200 Copynumber: 7.8 Consensus size: 200
52645 AACATTAAAC
* * * *
52655 AGTGTCGATACA-TATTATATACCAATTCTCCCATAAAACCGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* * *
52719 AAAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATAT
* *
52784 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
52849 TACAAA
195 TACAAA
*
52855 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
52920 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
52985 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACC-AAAATATCGACAC-AACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
53048 AC-AA
196 ACAAA
*
53052 AGTGTCGATACATTATTTAGACCTATTCTCTTATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
53117 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGAATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
53182 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
53247 ACAAA
196 ACAAA
* * *
53252 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACATGTACCGATTAGATTAA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
53317 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATCGGATCGACAC-TTTT-TATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
53380 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACTAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
53445 ACAAA
196 ACAAA
53450 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
53515 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
53580 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
53645 ACAAA
196 ACAAA
*
53650 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
53715 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
* *
53780 GATCGAAACTTTATTGTTGCACCCTGTTTGCCATCCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
53845 ACAAA
196 ACAAA
*
53850 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
53915 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
53980 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
54045 ACAAA
196 ACAAA
*
54050 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * *
54115 AAAATTACCTGTTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
54180 GATCGACACTTTATGGTTGCACCCTGTTTG
131 GATCGACACTTTATTGTTGCACCCTGTTTG
54210 TCATATTGTA
Statistics
Matches: 1309, Mismatches: 40, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
197 174 0.13
198 207 0.16
199 27 0.02
200 897 0.69
201 4 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:54458 original size:18 final size:18
Alignment explanation
Indices: 54435--54495 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
54425 TCTCATTCAT
*
54435 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
54453 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
54472 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
54491 AATTA
1 AATTA
54496 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:54471 original size:19 final size:19
Alignment explanation
Indices: 54447--54495 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
54437 TTATATTCAC
54447 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
54466 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
54485 ATACAAAATTA
1 ATACAAAATTA
54496 ACCCTACATT
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:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:56326 original size:33 final size:33
Alignment explanation
Indices: 56289--56354 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
56279 CATCTTAATA
*
56289 TCACCCCTTAACACCCCAACTTCGTTCACCACT
1 TCACCCCTCAACACCCCAACTTCGTTCACCACT
* * *
56322 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCGTTCACCACT
56355 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.48, G:0.02, T:0.27
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCGTTCACCACT
Found at i:56413 original size:21 final size:21
Alignment explanation
Indices: 56388--56452 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
56378 CCCCTTATGC
* *
56388 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
56409 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
56430 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
56451 CT
1 CT
56453 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:58732 original size:20 final size:19
Alignment explanation
Indices: 58677--58723 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
58667 TCCGGTATCG
58677 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
58696 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
58717 TTTTACC
1 TTTTACC
58724 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:58904 original size:20 final size:19
Alignment explanation
Indices: 58858--58904 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
58848 TCCGGTAACG
58858 TTTTACCGATTTTATCATT
1 TTTTACCGATTTTATCATT
* *
58877 TTGATACCGGTTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
58898 TTTTACC
1 TTTTACC
58905 TGGTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:58948 original size:181 final size:182
Alignment explanation
Indices: 58644--59116 Score: 689
Period size: 181 Copynumber: 2.6 Consensus size: 182
58634 CGTACTTACG
*
58644 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
58709 TATCATATTTTTACCTGTTATATCGTTGTAGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
58774 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGAAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
58825 AAAGTATCAACACTTTCAATATATCCGGTAACGTTTTACCGATTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
58890 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
58955 AGAATTTAAAACTGATTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGAAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * **
59007 AAAGTACCGACACTTTAAATGTATCCGGTAGA-GCTTTACCGGTTTTATCATTTCAATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTA-ACGTTTTACCGGTTTTATCATTTTGATACCGGTT
* * * * *
59071 TTGTCATAGTTTTACTTGTTATATCATTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
59117 AATTTGGATC
Statistics
Matches: 261, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 165 0.63
182 95 0.36
183 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGAAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:59286 original size:11 final size:11
Alignment explanation
Indices: 59270--59302 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
59260 ATCCGGTAAC
59270 GCCGTATATTA
1 GCCGTATATTA
59281 GCCGTATATTA
1 GCCGTATATTA
59292 GCCGTATATTA
1 GCCGTATATTA
59303 ACCCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (11 bp):
GCCGTATATTA
Found at i:60986 original size:20 final size:20
Alignment explanation
Indices: 60961--61053 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
60951 TTTTCCCAAT
60961 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
60981 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
61001 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
61022 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
61043 TCGCAATGCGA
1 TCGCAATGCGA
61054 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:61003 original size:41 final size:41
Alignment explanation
Indices: 60958--61053 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
60948 CGATTTTCCC
60958 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
60999 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
61040 AAATCGCAATGCGA
1 AATTCGCAATGCGA
61054 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:61007 original size:21 final size:20
Alignment explanation
Indices: 60961--61053 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
60951 TTTTCCCAAT
*
60961 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
60981 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
61001 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
61022 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
61043 TCGCAATGCGA
1 TCGCAATGCGA
61054 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:61066 original size:41 final size:41
Alignment explanation
Indices: 60980--61114 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
60970 GAATAAGTAA
* * *
60980 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
61021 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
61062 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
61103 TTCGCAACGCGA
1 ATCGCAACGCGA
61115 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:61067 original size:20 final size:20
Alignment explanation
Indices: 61042--61136 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
61032 AATTGGGAAA
*
61042 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
61062 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
61083 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
61103 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
61123 TTCGCAACGCGATA
1 ATCGCAACGCGATA
61137 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:61365 original size:20 final size:21
Alignment explanation
Indices: 61324--61365 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
61314 CACTCTCTCA
61324 CCCATCTCCGACGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
*
61345 CCCATCTCCGA-GAAATTCGT
1 CCCATCTCCGACGAAATCCGT
61365 C
1 C
61366 TATCTAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.24, C:0.40, G:0.14, T:0.21
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCCGT
Found at i:61634 original size:20 final size:20
Alignment explanation
Indices: 61605--61648 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
61595 CGCGATTTAG
61605 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
61625 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
61645 TTTC
1 TTTC
61649 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:62988 original size:18 final size:18
Alignment explanation
Indices: 62967--63011 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
62957 TCCACTTCGG
*
62967 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
62985 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
63003 GAGCCATCA
1 GAGCCATCA
63012 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:63539 original size:19 final size:20
Alignment explanation
Indices: 63485--63540 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
63475 TAGTTTACTT
* *
63485 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
63505 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
63525 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
63541 AAATCGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:63559 original size:14 final size:14
Alignment explanation
Indices: 63540--63597 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
63530 ATGCGAAATG
*
63540 AAAATCGCAATGAC
1 AAAATCGCAACGAC
*
63554 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
63570 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
63586 AAAATCGCAACG
1 AAAATCGCAACG
63598 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 21 0.57
16 7 0.19
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:63569 original size:33 final size:33
Alignment explanation
Indices: 63524--63616 Score: 152
Period size: 32 Copynumber: 2.8 Consensus size: 33
63514 GGAAATGGCT
*
63524 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAATGACAAA
*
63557 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAATGACAAA
*
63589 ATCGCAACGCGAAATGAAAATCACAATG
1 ATCGCAACGCGAAATGAAAATCGCAATG
63617 TGATTTGTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAATGACAAA
Found at i:63660 original size:19 final size:19
Alignment explanation
Indices: 63645--63749 Score: 81
Period size: 19 Copynumber: 5.5 Consensus size: 19
63635 GCGATTTTGT
63645 CGTTGC-AATTTCATTTCG
1 CGTTGCGAATTTCATTTCG
*
63663 CGTTGCGATTTTCATTTCG
1 CGTTGCGAATTTCATTTCG
* **
63682 CATTGCG-ATAGCCATTTCCG
1 CGTTGCGAAT-TTCATTT-CG
*
63702 CGTTGCG-ATAGTCATTTCG
1 CGTTGCGAAT-TTCATTTCG
* *
63721 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGAATTTCA-TTTCG
*
63741 TGTTGCGAA
1 CGTTGCGAA
63750 AGTAAACTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
18 7 0.10
19 33 0.47
20 30 0.43
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (19 bp):
CGTTGCGAATTTCATTTCG
Found at i:63709 original size:39 final size:38
Alignment explanation
Indices: 63656--63729 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
63646 GTTGCAATTT
**
63656 CATTTCGCGTTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
*
63694 CATTTCCGCGTTGCGATAGTCATTTCGCGTTGCGAT
1 CATTT-CGCGTTGCGATAGTCATTTCGCATTGCGAT
63730 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:65606 original size:14 final size:14
Alignment explanation
Indices: 65587--65622 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
65577 ATTGTTTAAT
65587 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
65601 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
65615 TGATTTGT
1 TGATTTGT
65623 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:65830 original size:20 final size:20
Alignment explanation
Indices: 65780--65830 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
65770 GCGATATTCT
* *
65780 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
65800 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
65820 CGTTGCGATAG
1 CGTTGCGATAG
65831 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:66215 original size:14 final size:14
Alignment explanation
Indices: 66196--66231 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
66186 ATTGTTTAAT
66196 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
66210 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
66224 TGATTTGT
1 TGATTTGT
66232 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:66376 original size:18 final size:18
Alignment explanation
Indices: 66349--66387 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
66339 CGCAACGAGA
* *
66349 AAATCGCAATGCGAAATG
1 AAATCACAATGCAAAATG
66367 AAATCACAATGCAAAATG
1 AAATCACAATGCAAAATG
66385 AAA
1 AAA
66388 ATCGCAACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (18 bp):
AAATCACAATGCAAAATG
Found at i:66489 original size:20 final size:20
Alignment explanation
Indices: 66439--66489 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
66429 GCGATATTCT
* *
66439 CGTTGCGATAACCATTTTCG
1 CGTTGCGATAGCCATTTTCA
66459 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAGCCATTTTCA
66479 CGTTGCGATAG
1 CGTTGCGATAG
66490 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCA
Found at i:67780 original size:19 final size:19
Alignment explanation
Indices: 67758--67855 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
67748 GGAAATTACT
67758 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
67777 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
67791 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
67810 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
67824 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
67843 ATCGCAACGCGAA
1 ATCGCAATGCGAA
67856 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:67800 original size:33 final size:33
Alignment explanation
Indices: 67758--67851 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
67748 GGAAATTACT
67758 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
67791 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
67824 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
67852 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:67873 original size:19 final size:20
Alignment explanation
Indices: 67851--67893 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
67841 AAATCGCAAC
67851 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
67870 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
67890 GCGA
1 GCGA
67894 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:68053 original size:14 final size:14
Alignment explanation
Indices: 68034--68070 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
68024 CATCAATTAA
68034 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
68048 ACAAATCACCTTTT
1 ACAAATCAACTTTT
68062 ACAAATCAA
1 ACAAATCAA
68071 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:69494 original size:21 final size:21
Alignment explanation
Indices: 69428--69494 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
69418 GTGAATCGGG
*
69428 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
69448 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
69470 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
69491 CTCT
1 CTCT
69495 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:69513 original size:42 final size:41
Alignment explanation
Indices: 69428--69550 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
69418 GTGAATCGGG
* * * * *
69428 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
69470 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
69512 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
69551 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:71594 original size:20 final size:19
Alignment explanation
Indices: 71549--71728 Score: 119
Period size: 19 Copynumber: 9.8 Consensus size: 19
71539 TCTTTTGGTT
71549 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
71568 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
71589 GAAATGACTATTGCAACGA
1 GAAATGAAAATCGCAACGA
*
71608 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
71622 GAAATGACTAT--C-ACGA
1 GAAATGAAAATCGCAACGA
** * *
71638 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
71655 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* *
71675 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
71694 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
71713 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
71729 TGCGATTTTG
Statistics
Matches: 128, Mismatches: 20, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
14 14 0.11
15 1 0.01
16 6 0.05
17 6 0.05
18 1 0.01
19 52 0.41
20 46 0.36
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:71668 original size:19 final size:19
Alignment explanation
Indices: 71644--71733 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
71634 ACGACCAGAC
71644 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
71663 AATCGCAACCGCGAAATTAA
1 AATCGCAA-CGCGAAATGAA
71683 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
71702 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
71721 AATCGCAATGCGA
1 AATCGCAACGCGA
71734 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:71698 original size:39 final size:38
Alignment explanation
Indices: 71549--71733 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 38
71539 TCTTTTGGTT
* *
71549 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** * *
71588 GGAAATGACTATTGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * * *
71622 GAAATGACTATCACGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
71655 GAAATGAAAATCGCAACCGCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
71694 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
71732 GA
1 GA
71734 TTTTGGTTTC
Statistics
Matches: 122, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
33 39 0.32
34 16 0.13
35 2 0.02
38 24 0.20
39 28 0.23
40 13 0.11
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:71762 original size:19 final size:19
Alignment explanation
Indices: 71729--71773 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
71719 AAAATCGCAA
*
71729 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
71748 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
71767 TGCGATT
1 TGCGATT
71774 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:72412 original size:20 final size:20
Alignment explanation
Indices: 72327--72420 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
72317 CGCTAAGTAA
*
72327 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
72347 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
72367 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
72388 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
72408 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
72421 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:72439 original size:41 final size:41
Alignment explanation
Indices: 72409--72504 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
72399 ATAGTCAGTA
* * *
72409 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
72450 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
72491 TCGCATTGCGAATT
1 TCGCATTGCGAATT
72505 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:72453 original size:20 final size:20
Alignment explanation
Indices: 72409--72501 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
72399 ATAGTCAGTA
* **
72409 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
72430 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
72450 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
72471 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
72491 TCGCATTGCGA
1 TCGCATTGCGA
72502 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:74496 original size:35 final size:35
Alignment explanation
Indices: 74413--74555 Score: 196
Period size: 35 Copynumber: 4.0 Consensus size: 35
74403 GTACACACGA
*
74413 AAGACGCATTGCACTCCATGCGTCTCTCCCCTTCCCTCG
1 AAGACGCATTGCACTCCATACGTCTCTCCCC-T--C-CG
* *
74452 AAGACGCATTGTACTCCATACGTCTCTCTCCTCCG
1 AAGACGCATTGCACTCCATACGTCTCTCCCCTCCG
* *
74487 AAGACGCATTGTACTCCATACGTCTCTCTCCTCCG
1 AAGACGCATTGCACTCCATACGTCTCTCCCCTCCG
*
74522 AAGACGCATAGCACTCCATACGTCTCTCCCCTCC
1 AAGACGCATTGCACTCCATACGTCTCTCCCCTCC
74556 CTGATGCCAG
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
35 68 0.69
36 1 0.01
38 1 0.01
39 28 0.29
ACGTcount: A:0.20, C:0.41, G:0.14, T:0.26
Consensus pattern (35 bp):
AAGACGCATTGCACTCCATACGTCTCTCCCCTCCG
Found at i:74675 original size:25 final size:20
Alignment explanation
Indices: 74624--74671 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
74614 ACGGGTTTGG
74624 TGGGTTGGTTGGGTAATAAT
1 TGGGTTGGTTGGGTAATAAT
74644 TGGGTTGGTTGGGTAATAAT
1 TGGGTTGGTTGGGTAATAAT
*
74664 GGGGTTGG
1 TGGGTTGG
74672 GTTGTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.38
Consensus pattern (20 bp):
TGGGTTGGTTGGGTAATAAT
Found at i:74810 original size:20 final size:20
Alignment explanation
Indices: 74750--74830 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
74740 GAAAGGAATG
*
74750 AAGAAGAA-GAAGAAGA-AG
1 AAGAAGAAGGAAGAAGAGAA
** *
74768 AAGAAGAAAAAAGAA-ATAA
1 AAGAAGAAGGAAGAAGAGAA
*
74787 AAGAATAAGGAAGAAGAGAA
1 AAGAAGAAGGAAGAAGAGAA
*
74807 AAGAGGAAGGAAGAAGAGAA
1 AAGAAGAAGGAAGAAGAGAA
74827 AAGA
1 AAGA
74831 GAAAGAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
18 9 0.17
19 18 0.35
20 25 0.48
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (20 bp):
AAGAAGAAGGAAGAAGAGAA
Found at i:74843 original size:20 final size:20
Alignment explanation
Indices: 74756--74857 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
74746 AATGAAGAAG
74756 AAGAAGAAGAAGAAGAAGAAA-A
1 AAGAAG-AGAA-AAG-AGAAAGA
* *
74778 AAGAA-ATAAAAGA-ATAAGG
1 AAGAAGAGAAAAGAGA-AAGA
* *
74797 AAGAAGAGAAAAGAGGAAGG
1 AAGAAGAGAAAAGAGAAAGA
74817 AAGAAGAGAAAAGAGAAAGA
1 AAGAAGAGAAAAGAGAAAGA
* *
74837 AATAAGAAGAATAGAAGAAAG
1 AAGAAG-AGAAAAG-AGAAAG
74858 TTAAAGTCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.02
18 3 0.05
19 8 0.12
20 37 0.56
21 6 0.09
22 11 0.17
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (20 bp):
AAGAAGAGAAAAGAGAAAGA
Found at i:74855 original size:3 final size:3
Alignment explanation
Indices: 74749--74823 Score: 61
Period size: 3 Copynumber: 25.7 Consensus size: 3
74739 AGAAAGGAAT
*
74749 GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA -AA GAA -ATA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA
* *
74792 TAA GGAA GAA G-A GAA -AA GAG GAA GGAA GAA GA
1 GAA -GAA GAA GAA GAA GAA GAA GAA -GAA GAA GA
74824 GAAAAGAGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
2 9 0.15
3 45 0.75
4 6 0.10
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:77727 original size:91 final size:92
Alignment explanation
Indices: 77446--77752 Score: 532
Period size: 93 Copynumber: 3.4 Consensus size: 92
77436 ATTATCCAAA
* *
77446 AAATGATTAAATTATAAAAGAAGAAGAC--GTGTATTTGATAT-AAAAATAAAAAGATGGGGGCG
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGATGGGGGCG
77508 TATATTATTGCAATGAAGAGTGTAATG
66 TATATTATTGCAATGAAGAGTGTAATG
* *
77535 AAATGATAAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAAAATAAAAGATGGGGGC
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATAT-AAAAAATTAAAAGATGGGGGC
77600 GTATATTATTGCAATGAAGAGTGTAATG
65 GTATATTATTGCAATGAAGAGTGTAATG
77628 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGAT-GGGGCG
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGATGGGGGCG
77692 TATATTATTGCAATGAAGAGTGTAATG
66 TATATTATTGCAATGAAGAGTGTAATG
*
77719 AAATGATTAAACTATAAAAGAAGAAGACATGTGT
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGT
77753 AACACGTGGA
Statistics
Matches: 207, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
89 27 0.13
91 78 0.38
92 14 0.07
93 88 0.43
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (92 bp):
AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGATGGGGGCG
TATATTATTGCAATGAAGAGTGTAATG
Found at i:90387 original size:153 final size:153
Alignment explanation
Indices: 90109--90415 Score: 589
Period size: 153 Copynumber: 2.0 Consensus size: 153
90099 TAATATTCTC
*
90109 ACATTTAATAAACGGGGGACTGAAATGAACTTTCTCAAACTATTAGGTATGGCCAGATATTAAAC
1 ACATTTAATAAACGGGGGACTGAAATGAACTTTCTCAAACTATTAGGTATGGCCAGAGATTAAAC
90174 TAAACCATAAATATAAACGAACAGTAACTGAAATATAAGCATAACAAAATTTAAATCCCAAAACA
66 TAAACCATAAATATAAACGAACAGTAACTGAAATATAAGCATAACAAAATTTAAATCCCAAAACA
90239 TAATAAACGAAAGCTTTGCATTT
131 TAATAAACGAAAGCTTTGCATTT
90262 ACATTTAATAAACGGGGGACTGAAATGAACTTTCTCAAACTATTAGGCT-TGGCCAGAGATTAAA
1 ACATTTAATAAACGGGGGACTGAAATGAACTTTCTCAAACTATTAGG-TATGGCCAGAGATTAAA
90326 CTAAACCATAAATATAAACGAACAGTAACTGAAATATAAGCATAACAAAATTTAAATCCCAAAAC
65 CTAAACCATAAATATAAACGAACAGTAACTGAAATATAAGCATAACAAAATTTAAATCCCAAAAC
90391 ATAATAAACGAAAGCTTTGCATTT
130 ATAATAAACGAAAGCTTTGCATTT
90415 A
1 A
90416 GTGACTAAAT
Statistics
Matches: 152, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
153 151 0.99
154 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (153 bp):
ACATTTAATAAACGGGGGACTGAAATGAACTTTCTCAAACTATTAGGTATGGCCAGAGATTAAAC
TAAACCATAAATATAAACGAACAGTAACTGAAATATAAGCATAACAAAATTTAAATCCCAAAACA
TAATAAACGAAAGCTTTGCATTT
Found at i:91344 original size:26 final size:27
Alignment explanation
Indices: 91315--91371 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
91305 ATCGGAAGAG
91315 TTAGGGTAAAACCCTATTTT-ATGGGC
1 TTAGGGTAAAACCCTATTTTCATGGGC
*
91341 TTAGGTTAAAACCCTATTTTCATGGGC
1 TTAGGGTAAAACCCTATTTTCATGGGC
91368 TTAG
1 TTAG
91372 AGTGCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (27 bp):
TTAGGGTAAAACCCTATTTTCATGGGC
Found at i:91487 original size:21 final size:22
Alignment explanation
Indices: 91453--91505 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
91443 ATATGAATAA
91453 AATTATTT-ATATATA-TATAT
1 AATTATTTAATATATACTATAT
*
91473 AATTATTTAATATATACTTTAT
1 AATTATTTAATATATACTATAT
91495 -ATTATATTAAT
1 AATTAT-TTAAT
91506 TCTACCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 12 0.41
22 9 0.31
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTATTTAATATATACTATAT
Found at i:91882 original size:80 final size:80
Alignment explanation
Indices: 91749--91899 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 80
91739 ACTCTTAATT
*** *
91749 TGGTGACGATCTCACTCTTTCCTCTAAAAGACTTTGAGTCATGGAACAATCTTACTCATTCCTCT
1 TGGTGACGATCTCACTCTTTCCTCTAAAAGACGCCGAGTCATGGAACAATCTTACTCATTCCTAT
91814 GAAGGATGCTGAATC
66 GAAGGATGCTGAATC
* * * * * * *
91829 TGGTGACGATTTCACTCTTTTCTCTGAAAGACGCCGAGTCGTGGAACGATCTTACTCCTTCTTAT
1 TGGTGACGATCTCACTCTTTCCTCTAAAAGACGCCGAGTCATGGAACAATCTTACTCATTCCTAT
91894 GAAGGA
66 GAAGGA
91900 CGCTAAGTCG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 60 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (80 bp):
TGGTGACGATCTCACTCTTTCCTCTAAAAGACGCCGAGTCATGGAACAATCTTACTCATTCCTAT
GAAGGATGCTGAATC
Found at i:95553 original size:64 final size:63
Alignment explanation
Indices: 95471--95628 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 63
95461 TTTAAGGTGA
* * * * *
95471 ATCGATGCACATGTAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCAAATAGGATTTATGC
* * *
95535 ATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCAAATAGGATTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCAAATAGGATTTATGC
*
95599 ATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 ATCGATGCATAAG-G-AGTGCATCGATGCAT
95629 ACCTCCATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 58 0.72
65 21 0.26
66 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.27
Consensus pattern (63 bp):
ATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCAAATAGGATTTATGC
Found at i:96314 original size:103 final size:103
Alignment explanation
Indices: 96089--96306 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
96079 GTAGAGGGTC
96089 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAGGTCTGGTGAGACACATAC
96154 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
96192 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAGGTCTGGTGAGACACATAC
*
96257 TTGATCCTTGGCATATGTTTATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
96295 TATGTGGTCCTT
1 TATGTGGTCCTT
96307 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTAGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:96357 original size:23 final size:23
Alignment explanation
Indices: 96331--96384 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
96321 TGGCACTACA
96331 GTGCAATTCTACGCGGCACTCT-G
1 GTGCAATTCTACGCGGCACT-TAG
* *
96354 GTGCAATTCTACGTGGTACTTAG
1 GTGCAATTCTACGCGGCACTTAG
96377 GTGCAATT
1 GTGCAATT
96385 ATATGAGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (23 bp):
GTGCAATTCTACGCGGCACTTAG
Found at i:98158 original size:15 final size:15
Alignment explanation
Indices: 98138--98170 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
98128 TGAGACATTA
*
98138 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
98153 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
98168 CCC
1 CCC
98171 ACCCAGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.70, G:0.15, T:0.06
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:102049 original size:11 final size:11
Alignment explanation
Indices: 102030--102059 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
102020 ACTAACATTG
*
102030 TTTCCTCATAT
1 TTTCTTCATAT
102041 TTTCTTCATAT
1 TTTCTTCATAT
102052 TTTCTTCA
1 TTTCTTCA
102060 ACCTTTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTCTTCATAT
Found at i:105777 original size:13 final size:13
Alignment explanation
Indices: 105749--105789 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
105739 TAGTTCATGA
*
105749 TAAATAAATTAAT
1 TAAATAAATAAAT
* *
105762 TAATTACATAAAT
1 TAAATAAATAAAT
105775 TAAATAAATAAAT
1 TAAATAAATAAAT
105788 TA
1 TA
105790 CTCCTATCCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATAAATAAAT
Found at i:106989 original size:259 final size:259
Alignment explanation
Indices: 106530--107048 Score: 1020
Period size: 259 Copynumber: 2.0 Consensus size: 259
106520 ATTAGATAAA
106530 AAAGAATCATAAACTAATTAAGGACTCGAATTTATATTTTCCACTACTATGAAAATGTATAAGCG
1 AAAGAATCATAAACTAATTAAGGACTCGAATTTATATTTTCCACTACTATGAAAATGTATAAGCG
*
106595 ATTAACGACCTAACTCTATAAAATATCCTCGGCGAAGTCGCCAAGCTTTCATAGCCATTTTTAAC
66 ATTAACGACCTAACTCTATAAAATATCCTCGGCGAAGTCGCCAAGCTGTCATAGCCATTTTTAAC
106660 GAATTAATCAAATTAAAAATAATTATAATTTTATTTTGGAAAATTGGATTTTTGATAAAACTTAA
131 GAATTAATCAAATTAAAAATAATTATAATTTTATTTTGGAAAATTGGATTTTTGATAAAACTTAA
106725 TTAAATTTGAATTTAGAGTCGCCATCCACATTTGAGTTAAGTAGGTCAAATACCTAAAAATGCT
196 TTAAATTTGAATTTAGAGTCGCCATCCACATTTGAGTTAAGTAGGTCAAATACCTAAAAATGCT
106789 AAAGAATCATAAACTAATTAAGGACTCGAATTTATATTTTCCACTACTATGAAAATGTATAAGCG
1 AAAGAATCATAAACTAATTAAGGACTCGAATTTATATTTTCCACTACTATGAAAATGTATAAGCG
106854 ATTAACGACCTAACTCTATAAAATATCCTCGGCGAAGTCGCCAAGCTGTCATAGCCATTTTTAAC
66 ATTAACGACCTAACTCTATAAAATATCCTCGGCGAAGTCGCCAAGCTGTCATAGCCATTTTTAAC
*
106919 GAATTAATCAAATTAAAAATAATTATTATTTTATTTTGGAAAATTGGATTTTTGATAAAACTTAA
131 GAATTAATCAAATTAAAAATAATTATAATTTTATTTTGGAAAATTGGATTTTTGATAAAACTTAA
106984 TTAAATTTGAATTTAGAGTCGCCATCCACATTTGAGTTAAGTAGGTCAAATACCTAAAAATGCT
196 TTAAATTTGAATTTAGAGTCGCCATCCACATTTGAGTTAAGTAGGTCAAATACCTAAAAATGCT
107048 A
1 A
107049 TTTAAAACAA
Statistics
Matches: 258, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
259 258 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (259 bp):
AAAGAATCATAAACTAATTAAGGACTCGAATTTATATTTTCCACTACTATGAAAATGTATAAGCG
ATTAACGACCTAACTCTATAAAATATCCTCGGCGAAGTCGCCAAGCTGTCATAGCCATTTTTAAC
GAATTAATCAAATTAAAAATAATTATAATTTTATTTTGGAAAATTGGATTTTTGATAAAACTTAA
TTAAATTTGAATTTAGAGTCGCCATCCACATTTGAGTTAAGTAGGTCAAATACCTAAAAATGCT
Found at i:113506 original size:61 final size:59
Alignment explanation
Indices: 113368--113523 Score: 154
Period size: 59 Copynumber: 2.6 Consensus size: 59
113358 ACTCTCATTT
* **
113368 TAAATTAGTCCCTAAACTTTTAAACATTTCAATTTATCCTTAAACTATGAATATTATTC
1 TAAATTAGTCCCTAAACTTTTGAACATTTCAATTTATCCCCAAACTATGAATATTATTC
* * * *
113427 TAAATTAAT-CCTCAAACTTTTGAACATTTCATTTTCATCCCCCAAACTATG-ATCTTCTTCC
1 TAAATTAGTCCCT-AAACTTTTGAACATTTCAATTT-AT-CCCCAAACTATGAATATTATT-C
* * * *
113488 TAAATTGGTCCCTTAACTTTTTGAATATTTTAATTT
1 TAAATTAGTCCCTAAAC-TTTTGAACATTTCAATTT
113524 TATTCTAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
58 3 0.04
59 28 0.36
60 8 0.10
61 21 0.27
62 18 0.23
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (59 bp):
TAAATTAGTCCCTAAACTTTTGAACATTTCAATTTATCCCCAAACTATGAATATTATTC
Found at i:114934 original size:27 final size:27
Alignment explanation
Indices: 114895--114958 Score: 119
Period size: 27 Copynumber: 2.3 Consensus size: 27
114885 CAGGTGAGAT
114895 AAAATTTTGTTTTGACGAAAACAATTTC
1 AAAA-TTTGTTTTGACGAAAACAATTTC
114923 AAAATTTGTTTTGACGAAAACAATTTC
1 AAAATTTGTTTTGACGAAAACAATTTC
114950 AAAATTTGT
1 AAAATTTGT
114959 GTTTCAAGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (27 bp):
AAAATTTGTTTTGACGAAAACAATTTC
Found at i:114974 original size:27 final size:27
Alignment explanation
Indices: 114895--114966 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
114885 CAGGTGAGAT
* *
114895 AAAATTTTGTTTTGACGAAAACAATTTC
1 AAAA-TTTGTTTTCAAGAAAACAATTTC
* *
114923 AAAATTTGTTTTGACGAAAACAATTTC
1 AAAATTTGTTTTCAAGAAAACAATTTC
114950 AAAATTTGTGTTTCAAG
1 AAAATTTGT-TTTCAAG
114967 GGAAAATTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 32 0.78
28 9 0.22
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (27 bp):
AAAATTTGTTTTCAAGAAAACAATTTC
Found at i:117442 original size:19 final size:19
Alignment explanation
Indices: 117418--117475 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
117408 ACTTTATCCA
117418 TTTTCTTTCTTTTCCTTTT
1 TTTTCTTTCTTTTCCTTTT
* *
117437 TTTTCTTTTTTTTTCTTTT
1 TTTTCTTTCTTTTCCTTTT
117456 TTTT-TTCTCTTTTCTCTTTT
1 TTTTCTT-TCTTTTC-CTTTT
117476 CTTTGTGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 2 0.06
19 26 0.79
20 5 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTCTTTCTTTTCCTTTT
Found at i:117460 original size:10 final size:10
Alignment explanation
Indices: 117418--117460 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
117408 ACTTTATCCA
*
117418 TTTTC-TTTC
1 TTTTCTTTTT
*
117427 TTTTCCTTTT
1 TTTTCTTTTT
117437 TTTTCTTTTT
1 TTTTCTTTTT
117447 TTTTCTTTTT
1 TTTTCTTTTT
117457 TTTT
1 TTTT
117461 TCTCTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 5 0.16
10 26 0.84
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:121137 original size:28 final size:27
Alignment explanation
Indices: 121085--121137 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
121075 GAGTGAGTCA
** *
121085 CATTTAACAAATTATTAAATAAATAAG
1 CATTTAACAAAAAATTAAAAAAATAAG
121112 CATTTAACAAAAAAATTAAAAAAATA
1 CATTTAAC-AAAAAATTAAAAAAATA
121138 TACATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (27 bp):
CATTTAACAAAAAATTAAAAAAATAAG
Found at i:123270 original size:18 final size:18
Alignment explanation
Indices: 123245--123288 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
123235 AAAATGTTTA
123245 AAAATAAATAATAATA-T
1 AAAATAAATAATAATAGT
*
123262 AATAATAAATAATAGTAGT
1 AA-AATAAATAATAATAGT
123281 AAAATAAA
1 AAAATAAA
123289 AAGGGGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 19 0.79
19 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATAAATAATAATAGT
Found at i:123336 original size:18 final size:19
Alignment explanation
Indices: 123315--123358 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
123305 GTTATTTTTA
*
123315 AAATAAAAG-ATAAGAATT
1 AAATAAAAGAAAAAGAATT
*
123333 AAATAAAAGAAAAATAATT
1 AAATAAAAGAAAAAGAATT
123352 AAATAAA
1 AAATAAA
123359 CAAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AAATAAAAGAAAAAGAATT
Found at i:124049 original size:19 final size:19
Alignment explanation
Indices: 124021--124133 Score: 56
Period size: 19 Copynumber: 5.8 Consensus size: 19
124011 AAATAATATT
*
124021 CTAAATCCTAATTAAAATA
1 CTAAAACCTAATTAAAATA
*
124040 CTAAAACCTATTTAAACTAAAATA
1 CTAAAACC----T-AATTAAAATA
*
124064 CCTAAAA-CAAATATAAAATA
1 -CTAAAACCTAAT-TAAAATA
* * *
124084 -TAAAA-AT-A-TAATATC
1 CTAAAACCTAATTAAAATA
*
124099 CTAAAACTTAATTAAAATA
1 CTAAAACCTAATTAAAATA
*
124118 CTAAAACCTATTTAAA
1 CTAAAACCTAATTAAA
124134 CTAAAATACA
Statistics
Matches: 70, Mismatches: 13, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
15 5 0.07
16 5 0.07
17 2 0.03
18 6 0.09
19 28 0.40
20 7 0.10
23 1 0.01
24 10 0.14
25 6 0.09
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (19 bp):
CTAAAACCTAATTAAAATA
Found at i:124060 original size:24 final size:24
Alignment explanation
Indices: 124033--124142 Score: 71
Period size: 24 Copynumber: 4.3 Consensus size: 24
124023 AAATCCTAAT
124033 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
** * *
124057 TAAAATACCTAAAACAAATATAAAATA
1 TAAAATA-CTAAAACCTAT-TTAAA-C
* * *
124084 TAAAAATA-TAATATCCTAAAACTT-AAT
1 T-AAAATACTAA-AACCT---ATTTAAAC
124111 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
124135 TAAAATAC
1 TAAAATAC
124143 AAAGATAAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 20
0.66 0.14 0.21
Matches are distributed among these distances:
23 3 0.05
24 17 0.27
25 9 0.14
26 17 0.27
27 7 0.11
28 8 0.13
29 1 0.02
30 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAATACTAAAACCTATTTAAAC
Found at i:124080 original size:25 final size:24
Alignment explanation
Indices: 124033--124080 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
124023 AAATCCTAAT
** *
124033 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
124057 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
124081 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:124166 original size:78 final size:76
Alignment explanation
Indices: 123956--124178 Score: 248
Period size: 78 Copynumber: 3.0 Consensus size: 76
123946 CATCTTAGAT
* * *
123956 CTTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAC---CTAAAAAATAATATTT-AAA-AT
1 CTTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAATAAAATATAATATTTAAAATAT
* *
124015 AATATTCTAAAT
65 AATATCCTAAAA
* * * *
124027 CCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAA-CAAATATAAAATATAAAAAT
1 CTTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAAATAAAATATAATAT-TTAAAAT
124091 ATAATATCCTAAAA
63 ATAATATCCTAAAA
*
124105 CTTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAAATAT
1 CTTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAA-ATAAAATATAATATTTAAAATAT
124170 --TATCCTAAA
65 AATATCCTAAA
124179 CTTGAGTTTC
Statistics
Matches: 127, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
70 5 0.04
71 29 0.23
72 1 0.01
75 18 0.14
76 4 0.03
77 13 0.10
78 57 0.45
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (76 bp):
CTTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAATAAAATATAATATTTAAAATATA
ATATCCTAAAA
Found at i:125885 original size:16 final size:16
Alignment explanation
Indices: 125866--125910 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
125856 CTAAAAAATA
125866 AAATAAAAATAAAACG
1 AAATAAAAATAAAACG
* *
125882 AAATAAAAAGAAAATG
1 AAATAAAAATAAAACG
*
125898 AAAT-GAAATAAAA
1 AAATAAAAATAAAA
125911 ACAAAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (16 bp):
AAATAAAAATAAAACG
Found at i:125887 original size:21 final size:20
Alignment explanation
Indices: 125861--125928 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
125851 GTTTGCTAAA
125861 AAATAAAATAAAAATAAAACG
1 AAATAAAA-AAAAATAAAACG
* *
125882 AAATAAAAAGAAAATGAAATG
1 AAATAAAAA-AAAATAAAACG
*
125903 AAATAAAAACAAAAATATAACG
1 AAAT-AAAA-AAAAATAAAACG
125925 AAAT
1 AAAT
125929 GGGTTGCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 21 0.54
22 16 0.41
23 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (20 bp):
AAATAAAAAAAAATAAAACG
Found at i:130855 original size:76 final size:73
Alignment explanation
Indices: 130649--130867 Score: 266
Period size: 76 Copynumber: 3.0 Consensus size: 73
130639 GCTCTTGTTC
*
130649 CTAATTAAAATACTTAAAA-CTATTTAAACTAAAATAC---CTAAAAATAATATTTAAAATAATA
1 CTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAATAAAAATAATATTTAAAATAATA
* **
130710 TTCTAAATC
65 TCCTAAAAA
* * *
130719 CTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAATATAAAAATAA
1 CTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAAATAAAAATAATAT-TTAAAATAA
130784 TATCCTAAAAA
63 TATCCTAAAAA
* * *
130795 TTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAAATATT
1 CTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAA-ATAAAA-ATAATATTTAAAATAAT
130860 ATCCTAAA
64 ATCCTAAA
130868 CTTGAGTTTA
Statistics
Matches: 127, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
69 5 0.04
70 30 0.24
71 1 0.01
74 3 0.02
75 32 0.25
76 56 0.44
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.31
Consensus pattern (73 bp):
CTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAATAAAAATAATATTTAAAATAATAT
CCTAAAAA
Found at i:131483 original size:18 final size:18
Alignment explanation
Indices: 131460--131498 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
131450 GTGTTAAACG
131460 ACAGAGAAAAACCCTAAC
1 ACAGAGAAAAACCCTAAC
* *
131478 ACAGAGAGAACCCCTAAC
1 ACAGAGAAAAACCCTAAC
131496 ACA
1 ACA
131499 TAGGCTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.31, G:0.13, T:0.05
Consensus pattern (18 bp):
ACAGAGAAAAACCCTAAC
Found at i:144369 original size:23 final size:23
Alignment explanation
Indices: 144339--144383 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
144329 ACCGGCAAAC
144339 ATCAATGTACCAATTCATCAAGT
1 ATCAATGTACCAATTCATCAAGT
*
144362 ATCAATGTACTAATTCATCAAG
1 ATCAATGTACCAATTCATCAAG
144384 CATTATTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (23 bp):
ATCAATGTACCAATTCATCAAGT
Found at i:144528 original size:20 final size:20
Alignment explanation
Indices: 144503--144547 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
144493 AACCCTTACA
**
144503 AATATCAAGTAGAAGCAAAC
1 AATATCAAACAGAAGCAAAC
144523 AATATCAAACAGAAGCAAAC
1 AATATCAAACAGAAGCAAAC
144543 AATAT
1 AATAT
144548 AAAATAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.16
Consensus pattern (20 bp):
AATATCAAACAGAAGCAAAC
Found at i:144556 original size:20 final size:20
Alignment explanation
Indices: 144512--144556 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
144502 AAATATCAAG
*
144512 TAGAAGCAAACAATATCAAA
1 TAGAAGCAAACAATATAAAA
*
144532 CAGAAGCAAACAATATAAAA
1 TAGAAGCAAACAATATAAAA
144552 TAGAA
1 TAGAA
144557 TAATGCAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.13
Consensus pattern (20 bp):
TAGAAGCAAACAATATAAAA
Found at i:146858 original size:34 final size:28
Alignment explanation
Indices: 146816--146936 Score: 206
Period size: 28 Copynumber: 4.2 Consensus size: 28
146806 ATAAACTATT
146816 TATAATTAATATTAAAATAATTATATAA
1 TATAATTAATATTAAAATAATTATATAA
146844 TATAATTAATATTAAAATAATTATATAA
1 TATAATTAATATTAAAATAATTATATAA
146872 TATAATTAATATTAAAATAATTATATAA
1 TATAATTAATATTAAAATAATTATATAA
*
146900 TATAATTAATATTAATATTAACTTATATTAA
1 TATAATTAATATTAA-AATAA-TTATA-TAA
146931 TATAAT
1 TATAAT
146937 ATAGTTTATA
Statistics
Matches: 89, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
28 71 0.80
29 4 0.04
30 5 0.06
31 9 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
TATAATTAATATTAAAATAATTATATAA
Found at i:146929 original size:16 final size:14
Alignment explanation
Indices: 146816--147000 Score: 144
Period size: 15 Copynumber: 12.4 Consensus size: 14
146806 ATAAACTATT
146816 TATAATTAATATTAA
1 TATAATT-ATATTAA
*
146831 AATAATTATA-TAA
1 TATAATTATATTAA
146844 TATAATTAATATTAA
1 TATAATT-ATATTAA
*
146859 AATAATTATA-TAA
1 TATAATTATATTAA
146872 TATAATTAATATTAA
1 TATAATT-ATATTAA
*
146887 AATAATTATA-TAA
1 TATAATTATATTAA
146900 TATAATTAATATTAA
1 TATAATT-ATATTAA
146915 TATTAACTTATATTAA
1 TA-TAA-TTATATTAA
*
146931 TATAATATAGTTTATAA
1 TATAAT-TA-TAT-TAA
146948 TTTATAATTAATATTAA
1 --TATAATT-ATATTAA
*
146965 TATAAAATATAGTCT-A
1 TAT-AATTATA-T-TAA
*
146981 TAAAATTAATATTAA
1 TATAATT-ATATTAA
146996 TATAA
1 TATAA
147001 ACTATATGTT
Statistics
Matches: 139, Mismatches: 12, Indels: 38
0.74 0.06 0.20
Matches are distributed among these distances:
13 27 0.19
14 20 0.14
15 49 0.35
16 24 0.17
17 9 0.06
18 3 0.02
19 7 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (14 bp):
TATAATTATATTAA
Found at i:146930 original size:50 final size:51
Alignment explanation
Indices: 146815--146967 Score: 188
Period size: 56 Copynumber: 2.9 Consensus size: 51
146805 AATAAACTAT
146815 TTATAATTAATATTAAAATAATTATATAATATAATTAATATTAAAATAATTATA
1 TTATAATTAATATTAAAATAATTATATAATATAATTAATATT--AAT-ATTATA
146869 TAATATAATTAATATTAAAATAATTATATAATATAATTAATATTAATATTA-A
1 T--TATAATTAATATTAAAATAATTATATAATATAATTAATATTAATATTATA
* *
146921 CTTAT-ATTAATA-TAATATAGTT-TATAATTTATAATTAATATTAATAT
1 -TTATAATTAATATTAAAATAATTATATAA--TATAATTAATATTAATAT
146968 AAAATATAGT
Statistics
Matches: 92, Mismatches: 2, Indels: 14
0.85 0.02 0.13
Matches are distributed among these distances:
48 5 0.05
49 8 0.09
50 25 0.27
51 3 0.03
52 1 0.01
53 5 0.05
54 4 0.04
56 41 0.45
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (51 bp):
TTATAATTAATATTAAAATAATTATATAATATAATTAATATTAATATTATA
Found at i:146991 original size:31 final size:31
Alignment explanation
Indices: 146953--147015 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
146943 TATAATTTAT
146953 AATTAATATTAATATAAAATATA-GTCTATAA
1 AATTAATATTAATATAAAATATATGT-TATAA
*
146984 AATTAATATTAATATAAACTATATGTTATAA
1 AATTAATATTAATATAAAATATATGTTATAA
147015 A
1 A
147016 TGATATAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
AATTAATATTAATATAAAATATATGTTATAA
Found at i:147005 original size:24 final size:25
Alignment explanation
Indices: 146960--147006 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
146950 TATAATTAAT
**
146960 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
146985 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
147007 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:147047 original size:79 final size:81
Alignment explanation
Indices: 146852--147087 Score: 221
Period size: 79 Copynumber: 3.0 Consensus size: 81
146842 AATATAATTA
* * * *
146852 ATATTAAAATAAT-TA--TATAA--TATAATTAATATTAAAAT-AATTAT-A-TAATATAATTAA
1 ATATTAAAATAATATAGTTATAATTTATAACTAATATTAATATAAAATATAATTAAGATAATTAA
*
146909 TATTAATATTAACT-T
66 TATTAATATAAACTAT
* * *
146924 ATATTAATATAATATAGTTTATAATTTATAATTAATATTAATATAAAATATAGTCTATA-A-AAT
1 ATATTAAAATAATATAG-TTATAATTTATAACTAATATTAATATAAAATATAAT-TA-AGATAAT
146987 TAATATTAATATAAACTAT
63 TAATATTAATATAAACTAT
* * * *
147006 ATGTTATAAATGATATAG-TATAGTTTAT-ACT-ATATTAATATAAATTATAATTAAGATAATTA
1 ATATTA-AAATAATATAGTTATAATTTATAACTAATATTAATATAAAATATAATTAAGATAATTA
*
147068 ACATTAATATAAACTAT
65 ATATTAATATAAACTAT
147085 ATA
1 ATA
147088 GTACATTAAT
Statistics
Matches: 135, Mismatches: 14, Indels: 23
0.78 0.08 0.13
Matches are distributed among these distances:
72 12 0.09
73 2 0.01
76 5 0.04
77 1 0.01
78 20 0.15
79 46 0.34
80 2 0.01
81 28 0.21
82 9 0.07
83 10 0.07
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (81 bp):
ATATTAAAATAATATAGTTATAATTTATAACTAATATTAATATAAAATATAATTAAGATAATTAA
TATTAATATAAACTAT
Found at i:147109 original size:20 final size:21
Alignment explanation
Indices: 147068--147109 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
147058 AAGATAATTA
147068 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
147090 ACATTAATATAAAC-TATAGT
1 ACATTAATATAAACATATAGT
147110 TTATATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:147129 original size:13 final size:13
Alignment explanation
Indices: 147111--147155 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
147101 AACTATAGTT
147111 TATATAGTTTATA
1 TATATAGTTTATA
*
147124 TATATAGTTCATA
1 TATATAGTTTATA
*
147137 TATATAGTATATA
1 TATATAGTTTATA
*
147150 AATATA
1 TATATA
147156 AACTATAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:147149 original size:33 final size:33
Alignment explanation
Indices: 147126--147197 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
147116 AGTTTATATA
*
147126 TATAGTTCATATATATAGTATATAAATATAAAC
1 TATAGTTCATATAAATAGTATATAAATATAAAC
* *
147159 TATAGTTTATATAAATAGTATATAAATATAAAT
1 TATAGTTCATATAAATAGTATATAAATATAAAC
147192 TATAGT
1 TATAGT
147198 ATGTAGATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (33 bp):
TATAGTTCATATAAATAGTATATAAATATAAAC
Found at i:147214 original size:29 final size:31
Alignment explanation
Indices: 147126--147250 Score: 116
Period size: 33 Copynumber: 4.0 Consensus size: 31
147116 AGTTTATATA
* *
147126 TATAGTTCATATATATAGTATATAAATATAAAC
1 TATAGTT-ATATAAATA-TATATAAATATAAAT
147159 TATAGTTTATATAAATAGTATATAAATATAAAT
1 TATAG-TTATATAAATA-TATATAAATATAAAT
* *
147192 TATAG-TATGTAGAT-TATATAAATATAAA-
1 TATAGTTATATAAATATATATAAATATAAAT
*
147220 TATA--AATATAAATATAAATATAAATATAAAT
1 TATAGTTATATAAATAT--ATATAAATATAAAT
147251 ATAAATTGCA
Statistics
Matches: 80, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
27 6 0.08
28 5 0.06
29 14 0.17
30 13 0.16
31 7 0.09
33 33 0.41
34 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.39
Consensus pattern (31 bp):
TATAGTTATATAAATATATATAAATATAAAT
Found at i:147218 original size:6 final size:6
Alignment explanation
Indices: 147207--147256 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
147197 TATGTAGATT
147207 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
147255 AT
1 AT
147257 TGCATAGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Done.