Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_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: 4978262
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 24
Found at i:1651 original size:6 final size:6
Alignment explanation
Indices: 1640--1700 Score: 95
Period size: 6 Copynumber: 10.2 Consensus size: 6
1630 ACGGCCCGGC
* * *
1640 TCGTGG TCGTGG TTGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1688 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
1701 AATACGTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.03, C:0.15, G:0.49, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:2689 original size:27 final size:27
Alignment explanation
Indices: 2658--2712 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2648 AATTTAGAAG
2658 TTTATCATTGTACCATAAAATGTGTTC
1 TTTATCATTGTACCATAAAATGTGTTC
2685 TTTATCATTGTACCATAAAATGTGTTC
1 TTTATCATTGTACCATAAAATGTGTTC
2712 T
1 T
2713 ATCCTCTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (27 bp):
TTTATCATTGTACCATAAAATGTGTTC
Found at i:9889 original size:19 final size:18
Alignment explanation
Indices: 9867--9949 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 18
9857 TCCATTCTCG
*
9867 ATTCAGAACTTATTTCCAA
1 ATTCATAACTTATTT-CAA
* * *
9886 ATTCATAGCCTAATTTCAT
1 ATTCATA-ACTTATTTCAA
9905 ATTCATAACTTAATTTCAA
1 ATTCATAACTT-ATTTCAA
*
9924 ATTCATAACTTAATTCCAA
1 ATTCATAACTT-ATTTCAA
9943 ATTCATA
1 ATTCATA
9950 GCCTAATGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
18 2 0.04
19 46 0.85
20 6 0.11
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTCATAACTTATTTCAA
Found at i:9925 original size:38 final size:38
Alignment explanation
Indices: 9867--9949 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
9857 TCCATTCTCG
* * * *
9867 ATTCAGAACTTATTTCCAAATTCATAGCCTAATTTCAT
1 ATTCATAACTTATTTCCAAATTCATAACCTAATTCCAA
*
9905 ATTCATAACTTAATTT-CAAATTCATAACTTAATTCCAA
1 ATTCATAACTT-ATTTCCAAATTCATAACCTAATTCCAA
9943 ATTCATA
1 ATTCATA
9950 GCCTAATGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 35 0.90
39 4 0.10
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (38 bp):
ATTCATAACTTATTTCCAAATTCATAACCTAATTCCAA
Found at i:9956 original size:19 final size:19
Alignment explanation
Indices: 9880--9956 Score: 91
Period size: 19 Copynumber: 4.1 Consensus size: 19
9870 CAGAACTTAT
*
9880 TTCCAAATTCATAGCCTAA
1 TTCCAAATTCATAACCTAA
* * *
9899 TTTCATATTCATAACTTAA
1 TTCCAAATTCATAACCTAA
* *
9918 TTTCAAATTCATAACTTAA
1 TTCCAAATTCATAACCTAA
*
9937 TTCCAAATTCATAGCCTAA
1 TTCCAAATTCATAACCTAA
9956 T
1 T
9957 GCATATTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.39
Consensus pattern (19 bp):
TTCCAAATTCATAACCTAA
Found at i:14691 original size:23 final size:23
Alignment explanation
Indices: 14665--14765 Score: 132
Period size: 23 Copynumber: 4.4 Consensus size: 23
14655 GTCACTTTTC
*
14665 AACCATTAATGGTGCCAACTATG
1 AACCATTAATGTTGCCAACTATG
*
14688 AACCATTATTGTTGCCAACTATG
1 AACCATTAATGTTGCCAACTATG
* * *
14711 AACCATTAGTGTTGCCAACTTTC
1 AACCATTAATGTTGCCAACTATG
*
14734 AACCATTATTGTTGCCAACT-TG
1 AACCATTAATGTTGCCAACTATG
14756 CAACCATTAA
1 -AACCATTAA
14766 AGTTTGGTGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 68 0.99
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (23 bp):
AACCATTAATGTTGCCAACTATG
Found at i:14717 original size:46 final size:46
Alignment explanation
Indices: 14664--14765 Score: 152
Period size: 46 Copynumber: 2.2 Consensus size: 46
14654 TGTCACTTTT
*
14664 CAACCATTAATGGTGCCAACTATGAACCATTATTGTTGCCAACTATG
1 CAACCATTAATGGTGCCAACTATCAACCATTATTGTTGCCAACT-TG
* * *
14711 -AACCATTAGTGTTGCCAACTTTCAACCATTATTGTTGCCAACTTG
1 CAACCATTAATGGTGCCAACTATCAACCATTATTGTTGCCAACTTG
14756 CAACCATTAA
1 CAACCATTAA
14766 AGTTTGGTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (46 bp):
CAACCATTAATGGTGCCAACTATCAACCATTATTGTTGCCAACTTG
Found at i:19387 original size:23 final size:23
Alignment explanation
Indices: 19361--19461 Score: 139
Period size: 23 Copynumber: 4.4 Consensus size: 23
19351 GTCACTTTTC
*
19361 AACCATTAATGGTGCCAACTATG
1 AACCATTAATGTTGCCAACTATG
*
19384 AACCATTATTGTTGCCAACTATG
1 AACCATTAATGTTGCCAACTATG
* * *
19407 AACCATTAGTGTTGCCAACTTTC
1 AACCATTAATGTTGCCAACTATG
* *
19430 AACCATTATTGTTGCCAACTTTG
1 AACCATTAATGTTGCCAACTATG
19453 AACCATTAA
1 AACCATTAA
19462 AGTTTGGTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.33
Consensus pattern (23 bp):
AACCATTAATGTTGCCAACTATG
Found at i:19413 original size:46 final size:46
Alignment explanation
Indices: 19361--19461 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
19351 GTCACTTTTC
*
19361 AACCATTAATGGTGCCAACTATGAACCATTATTGTTGCCAACTATG
1 AACCATTAATGGTGCCAACTATCAACCATTATTGTTGCCAACTATG
* * * *
19407 AACCATTAGTGTTGCCAACTTTCAACCATTATTGTTGCCAACTTTG
1 AACCATTAATGGTGCCAACTATCAACCATTATTGTTGCCAACTATG
19453 AACCATTAA
1 AACCATTAA
19462 AGTTTGGTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.33
Consensus pattern (46 bp):
AACCATTAATGGTGCCAACTATCAACCATTATTGTTGCCAACTATG
Found at i:24045 original size:23 final size:23
Alignment explanation
Indices: 24019--24119 Score: 132
Period size: 23 Copynumber: 4.4 Consensus size: 23
24009 GTCACTTTTC
*
24019 AACCATTAATGGTGCCAACTATG
1 AACCATTAATGTTGCCAACTATG
*
24042 AACCATTATTGTTGCCAACTATG
1 AACCATTAATGTTGCCAACTATG
* *
24065 AACCATTAGTGTTGCCAACTTTCG
1 AACCATTAATGTTGCCAACTAT-G
* *
24089 -ACCATTATTGTTGCCAACTTTG
1 AACCATTAATGTTGCCAACTATG
24111 AACCATTAA
1 AACCATTAA
24120 AGTTTGGTGA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
22 1 0.01
23 68 0.97
24 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (23 bp):
AACCATTAATGTTGCCAACTATG
Found at i:24071 original size:46 final size:46
Alignment explanation
Indices: 24019--24119 Score: 150
Period size: 46 Copynumber: 2.2 Consensus size: 46
24009 GTCACTTTTC
24019 AACCATTAATGGTGCCAACTAT-GAACCATTATTGTTGCCAACTATG
1 AACCATTAATGGTGCCAACTATCG-ACCATTATTGTTGCCAACTATG
* * * *
24065 AACCATTAGTGTTGCCAACTTTCGACCATTATTGTTGCCAACTTTG
1 AACCATTAATGGTGCCAACTATCGACCATTATTGTTGCCAACTATG
24111 AACCATTAA
1 AACCATTAA
24120 AGTTTGGTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 48 0.98
47 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (46 bp):
AACCATTAATGGTGCCAACTATCGACCATTATTGTTGCCAACTATG
Found at i:28354 original size:19 final size:19
Alignment explanation
Indices: 28313--28359 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
28303 TATCTTTGTT
*
28313 TTAGGTATT-TTAGTTTAA
1 TTAGGTTTTATTAGTTTAA
* *
28331 ATAGGTTTTATTATTTTAA
1 TTAGGTTTTATTAGTTTAA
*
28350 TTAGGATTTA
1 TTAGGTTTTA
28360 GAATATTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (19 bp):
TTAGGTTTTATTAGTTTAA
Found at i:28420 original size:70 final size:73
Alignment explanation
Indices: 28241--28429 Score: 233
Period size: 76 Copynumber: 2.6 Consensus size: 73
28231 TTTTATCTTT
* * * *
28241 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTTATATTTTAT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTA-TTTTAAATATTA-
28306 CTTTGTTTTAG
64 -TTTGTTTTAG
* *
28317 GTATTTTAGTTTAAATAGGTTTTATTATTTTAATTAGGATTTAGAATATTA-TTTAAATATTA-T
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTTTAAATATTATT
28380 T-TTTTAG
66 TGTTTTAG
* * *
28387 GTATGTTAGTTTAAATA-GTTTTAAGTGTTTTAATTATGATTTA
1 GTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAAGATTTA
28430 AGATGTTTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
69 5 0.05
70 39 0.38
71 2 0.02
74 9 0.09
76 47 0.46
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.57
Consensus pattern (73 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTTTAAATATTATT
TGTTTTAG
Found at i:29036 original size:12 final size:11
Alignment explanation
Indices: 29010--29046 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
29000 TTTATCTCAA
29010 TTTATTT-A-T
1 TTTATTTAATT
29019 TTTATTTAATT
1 TTTATTTAATT
29030 GTTTATTTAATT
1 -TTTATTTAATT
29042 TTTAT
1 TTTAT
29047 CTCATTATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 6 0.24
12 11 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTTATTTAATT
Found at i:29110 original size:8 final size:8
Alignment explanation
Indices: 29097--29121 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29087 ATTTTACTAC
29097 TATTATTT
1 TATTATTT
29105 TATTATTT
1 TATTATTT
29113 TATTATTT
1 TATTATTT
29121 T
1 T
29122 CACTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTATTT
Found at i:29132 original size:20 final size:20
Alignment explanation
Indices: 29107--29156 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
29097 TATTATTTTA
*
29107 TTATTTTATTATTTTC-ACTT
1 TTATTTTATTATTATCTA-TT
29127 TTA-TTTATTATTATCTATT
1 TTATTTTATTATTATCTATT
29146 TTATTTTATTA
1 TTATTTTATTA
29157 AATATTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTTATTATTATCTATT
Found at i:32807 original size:19 final size:19
Alignment explanation
Indices: 32785--32867 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 19
32775 TCCATTCTCG
*
32785 ATTCAGAACTTAATTCCAA
1 ATTCATAACTTAATTCCAA
* * * *
32804 ATTCATAGCCTAATTTCAT
1 ATTCATAACTTAATTCCAA
* *
32823 ATTCATAGCTTAATTTCAA
1 ATTCATAACTTAATTCCAA
* *
32842 GTTTATAACTTAATTCCAA
1 ATTCATAACTTAATTCCAA
32861 ATTCATA
1 ATTCATA
32868 GCCTAATGCA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (19 bp):
ATTCATAACTTAATTCCAA
Found at i:32874 original size:19 final size:19
Alignment explanation
Indices: 32795--32874 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
32785 ATTCAGAACT
32795 TAATTCCAAATTCATAGCC
1 TAATTCCAAATTCATAGCC
* * *
32814 TAATTTCATATTCATAGCT
1 TAATTCCAAATTCATAGCC
* * * * *
32833 TAATTTCAAGTTTATAACT
1 TAATTCCAAATTCATAGCC
32852 TAATTCCAAATTCATAGCC
1 TAATTCCAAATTCATAGCC
32871 TAAT
1 TAAT
32875 GCATATTTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (19 bp):
TAATTCCAAATTCATAGCC
Found at i:51000 original size:21 final size:21
Alignment explanation
Indices: 50976--51017 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
50966 ATTTATTAAC
*
50976 TATA-ATTTGATA-TTATATA
1 TATATATTTAATAGTTATATA
50995 TATATATTTAATAGTTATATA
1 TATATATTTAATAGTTATATA
51016 TA
1 TA
51018 CAATAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TATATATTTAATAGTTATATA
Found at i:54223 original size:19 final size:18
Alignment explanation
Indices: 54200--54271 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
54190 CTTATTTCCA
54200 AATTCATAGCCTAATTTC
1 AATTCATAGCCTAATTTC
* *
54218 ATATTCGTAGCTTAATTTC
1 A-ATTCATAGCCTAATTTC
* *
54237 AATTTCATA-ACTGAATTCC
1 AA-TTCATAGCCT-AATTTC
54256 AAATTCATAGCCTAAT
1 -AATTCATAGCCTAAT
54272 GCATATTAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 3 0.07
19 35 0.83
20 4 0.10
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (18 bp):
AATTCATAGCCTAATTTC
Found at i:72880 original size:54 final size:54
Alignment explanation
Indices: 72798--72905 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
72788 TTTAAAGCAA
72798 ACATTGATTTGCCTGCTTTAATTTTTCACTTTCGTAAGATGCCATTGTCATCTT
1 ACATTGATTTGCCTGCTTTAATTTTTCACTTTCGTAAGATGCCATTGTCATCTT
72852 ACATTGATTTGCCTGCTTTAATTTTTCACTTTCGTAAGATGCCATTGTCATCTT
1 ACATTGATTTGCCTGCTTTAATTTTTCACTTTCGTAAGATGCCATTGTCATCTT
72906 CTACTGCCGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.46
Consensus pattern (54 bp):
ACATTGATTTGCCTGCTTTAATTTTTCACTTTCGTAAGATGCCATTGTCATCTT
Found at i:73507 original size:29 final size:29
Alignment explanation
Indices: 73462--73520 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
73452 ATTTTCACCT
*
73462 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGAAATGACATCAA
*
73491 AACTAAATTGATTTAAGAAATGACATCAA
1 AACTAAATTGATGTAAGAAATGACATCAA
73520 A
1 A
73521 TTAATTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGAAATGACATCAA
Found at i:78265 original size:142 final size:144
Alignment explanation
Indices: 78009--78294 Score: 549
Period size: 142 Copynumber: 2.0 Consensus size: 144
77999 ATTTTGATTT
78009 TGTTCTTTGCTCTTTGTTTTTTTTAGTGTGCCAAGCATTGTATTGCATGCTAGAATTTTTCATTT
1 TGTTCTTTGCTCTTTGTTTTTTTTAGTGTGCCAAGCATTGTATTGCATGCTAGAATTTTTCATTT
78074 AATACTTTTCGAGGCCACATGAATTTGGATTTAATGTATTTGGATGATAGATGCATTA-GATTAA
66 AATACTTTTCGAGGCCACATGAATTTGGATTTAATGTATTTGGATGATAGATGCATTAGGATTAA
78138 CC-ATTTATTCTCC
131 CCAATTTATTCTCC
78151 TGTTCTTTGCTCTTTGTTTTTTTTAGTGTGCCAAGCATTGTATTGCATGCTAGAATTTTTCATTT
1 TGTTCTTTGCTCTTTGTTTTTTTTAGTGTGCCAAGCATTGTATTGCATGCTAGAATTTTTCATTT
*
78216 AATACTTTTCGAGGCTACATGAATTTGGATTTAATGTATTTGGATGATAGATGCATTAGGATTAA
66 AATACTTTTCGAGGCCACATGAATTTGGATTTAATGTATTTGGATGATAGATGCATTAGGATTAA
78281 CCAATTTATTCTCC
131 CCAATTTATTCTCC
78295 CAAATAAAAA
Statistics
Matches: 141, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
142 122 0.87
143 8 0.06
144 11 0.08
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (144 bp):
TGTTCTTTGCTCTTTGTTTTTTTTAGTGTGCCAAGCATTGTATTGCATGCTAGAATTTTTCATTT
AATACTTTTCGAGGCCACATGAATTTGGATTTAATGTATTTGGATGATAGATGCATTAGGATTAA
CCAATTTATTCTCC
Found at i:78952 original size:56 final size:54
Alignment explanation
Indices: 78886--79002 Score: 207
Period size: 56 Copynumber: 2.1 Consensus size: 54
78876 TGTGCTTTAA
78886 CTTTGCTTTGGCTTGAGCGCTTCTCGTCCTTAAACACTTAGAGTGAATAAGCGAAAC
1 CTTTG-TTTGGCTTGAGCGCTTCTCGTCCTT-AACACTTAGAGTGAAT-AGCGAAAC
78943 CTTTGTTTGGCTTGAGCGCTTCTCGTCCTTAACACTTAGAGTGAATAGCGAAAC
1 CTTTGTTTGGCTTGAGCGCTTCTCGTCCTTAACACTTAGAGTGAATAGCGAAAC
78997 CTTTGT
1 CTTTGT
79003 GAGGCAATCA
Statistics
Matches: 60, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
54 14 0.23
55 16 0.27
56 25 0.42
57 5 0.08
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (54 bp):
CTTTGTTTGGCTTGAGCGCTTCTCGTCCTTAACACTTAGAGTGAATAGCGAAAC
Found at i:80357 original size:17 final size:19
Alignment explanation
Indices: 80334--80376 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
80324 TTAATTTACC
*
80334 TTTCTTTATT-TTCTTTTA
1 TTTCTTTATTCTTCTTTAA
80352 -TTCTTT-TTCTTCTTTAA
1 TTTCTTTATTCTTCTTTAA
80369 TTTCTTTA
1 TTTCTTTA
80377 CAATCATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTTATTCTTCTTTAA
Found at i:82400 original size:20 final size:20
Alignment explanation
Indices: 82372--82420 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
82362 ATATGGCCAT
* * *
82372 GTCTCCATATCTAATGACTG
1 GTCTTCATATCGAAGGACTG
*
82392 GTCTTCATATCGAAGGATTG
1 GTCTTCATATCGAAGGACTG
82412 GTCTTCATA
1 GTCTTCATA
82421 ATGAAAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (20 bp):
GTCTTCATATCGAAGGACTG
Found at i:85168 original size:23 final size:24
Alignment explanation
Indices: 85142--85199 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 24
85132 TTCACCTAAC
85142 CAAATTGATGTAAGCAATGACATCAAAA
1 CAAATTGATGTAAGCAATGACAT----A
85170 CTAAATTGATGTAAGCAATGACAT-
1 C-AAATTGATGTAAGCAATGACATA
85194 CAAATT
1 CAAATT
85200 AATTTAGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 5 0.17
24 1 0.03
28 1 0.03
29 22 0.76
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.26
Consensus pattern (24 bp):
CAAATTGATGTAAGCAATGACATA
Found at i:89098 original size:29 final size:28
Alignment explanation
Indices: 89056--89114 Score: 100
Period size: 29 Copynumber: 2.1 Consensus size: 28
89046 TCACCTAACC
89056 AAATTGATGTAAGCAATGACATCAAAATT
1 AAATTGATGTAAGCAATGACATC-AAATT
*
89085 AAATTGATGTAAGCAATGATATCAAATT
1 AAATTGATGTAAGCAATGACATCAAATT
89113 AA
1 AA
89115 TTTAGGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (28 bp):
AAATTGATGTAAGCAATGACATCAAATT
Found at i:89210 original size:22 final size:22
Alignment explanation
Indices: 89185--89237 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
89175 AATTTAAACA
89185 TATTCATGTGGATAAG-TGTAAT
1 TATTCATGTGGAT-AGTTGTAAT
*
89207 TATTCATATGGATAGTTGTAAT
1 TATTCATGTGGATAGTTGTAAT
*
89229 TGTTCATGT
1 TATTCATGT
89238 TATTATAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (22 bp):
TATTCATGTGGATAGTTGTAAT
Found at i:89271 original size:22 final size:21
Alignment explanation
Indices: 89246--89325 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
89236 GTTATTATAA
89246 GTAATTATTCAAATGAAAGGAT
1 GTAATTATTCAAATGAAA-GAT
* *
89268 GTAATTGTTCATATGAATAGAT
1 GTAATTATTCAAATGAA-AGAT
* ** *
89290 ATAGCTATTCATATGAAATGAT
1 GTAATTATTCAAATGAAA-GAT
*
89312 GTAATCATTCAAAT
1 GTAATTATTCAAAT
89326 AGTCAATTAA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 1 0.02
22 43 0.96
23 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.36
Consensus pattern (21 bp):
GTAATTATTCAAATGAAAGAT
Found at i:91251 original size:29 final size:29
Alignment explanation
Indices: 91194--91261 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
91184 CAAAACATTA
* *
91194 TTATTTT-ATATTATTTAATATTAATATAT
1 TTATTTTAATATCATTTAATA-TAAAATAT
91223 TTATTTTAATATCATTTTAATA-AAAATAT
1 TTATTTTAATATCA-TTTAATATAAAATAT
*
91252 TAATTATTAA
1 TTATT-TTAA
91262 ATTATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 17 0.52
30 9 0.27
31 7 0.21
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (29 bp):
TTATTTTAATATCATTTAATATAAAATAT
Found at i:91251 original size:31 final size:29
Alignment explanation
Indices: 91194--91251 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
91184 CAAAACATTA
* **
91194 TTATTTTATATTATTTAATATTAATATAT
1 TTATTTTATATCATTTAATAAAAATATAT
91223 TTATTTTAATATCATTTTAATAAAAATAT
1 TTATTTT-ATATCA-TTTAATAAAAATAT
91252 TAATTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 5 0.21
31 12 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTATTTTATATCATTTAATAAAAATATAT
Found at i:91268 original size:17 final size:17
Alignment explanation
Indices: 91248--91301 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
91238 TTTAATAAAA
91248 ATATTAATTATTAAATT
1 ATATTAATTATTAAATT
*
91265 ATATTTATTGA-TAAATT
1 ATATTAATT-ATTAAATT
* *
91282 TTA-TAA-TATAAAATT
1 ATATTAATTATTAAATT
91297 ATATT
1 ATATT
91302 TTATTGTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.03
15 8 0.28
16 3 0.10
17 16 0.55
18 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATTAATTATTAAATT
Found at i:91449 original size:25 final size:27
Alignment explanation
Indices: 91387--91455 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 27
91377 ATAATAAATT
*
91387 TATTTTAATAAAATATAATAATCATCA
1 TATTTTAATAAAATATAATAATCATAA
* *
91414 TATTTTTATAAAAT-T-GTAGAT-ATAA
1 TATTTTAATAAAATATAATA-ATCATAA
91439 TATTTTAATAATAATAT
1 TATTTTAATAA-AATAT
91456 TGACATAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 15 0.43
26 6 0.17
27 14 0.40
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (27 bp):
TATTTTAATAAAATATAATAATCATAA
Found at i:97907 original size:11 final size:12
Alignment explanation
Indices: 97884--97912 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
97874 TTTTAGTTTT
97884 ATATTATTAAAA
1 ATATTATTAAAA
97896 ATATTA-TAAAA
1 ATATTATTAAAA
97907 ATATTA
1 ATATTA
97913 ATTTAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATTATTAAAA
Found at i:103691 original size:24 final size:24
Alignment explanation
Indices: 103664--103713 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
103654 TAGTGGTTGA
*
103664 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
103688 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
103712 TT
1 TT
103714 GGTTCTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:111192 original size:24 final size:24
Alignment explanation
Indices: 111165--111214 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
111155 TGGTGATTGA
*
111165 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
111189 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
111213 TT
1 TT
111215 GGTTATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:111709 original size:17 final size:17
Alignment explanation
Indices: 111687--111720 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
111677 CACGTGAGGA
111687 TTATTT-TCTTTTCATTT
1 TTATTTATCTTTT-ATTT
111704 TTATTTATCTTTTATTT
1 TTATTTATCTTTTATTT
111721 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTATCTTTTATTT
Found at i:122841 original size:22 final size:24
Alignment explanation
Indices: 122828--122884 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
122818 ATAATCAAGG
122828 TAATT-CCTAAAAATCATATAAGA
1 TAATTCCCTAAAAATCATATAAGA
* *
122851 TAATTCCCT-AAAATTATAAAAGA
1 TAATTCCCTAAAAATCATATAAGA
*
122874 TAATTCTCTAA
1 TAATTCCCTAA
122885 TTTGTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (24 bp):
TAATTCCCTAAAAATCATATAAGA
Found at i:126676 original size:35 final size:35
Alignment explanation
Indices: 126557--126708 Score: 243
Period size: 36 Copynumber: 4.3 Consensus size: 35
126547 CCCATTACAA
* *
126557 ATTTTC-AACAAACATCTACCAAACTTTGAAAAACC
1 ATTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
*
126592 ATTTTTCAAAGAAATATTTACCAAACTTTGAAAACC
1 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACC
126628 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACC
126664 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
126699 ATTTTCAAAG
1 ATTTTCAAAG
126709 TTGGTTGCCA
Statistics
Matches: 111, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
35 45 0.41
36 47 0.42
37 19 0.17
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (35 bp):
ATTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:126682 original size:71 final size:72
Alignment explanation
Indices: 126557--126708 Score: 247
Period size: 71 Copynumber: 2.1 Consensus size: 72
126547 CCCATTACAA
* *
126557 ATTTTC-AACAAACATCTACCAAACTTTGAAAAACCATTTTTCAAAGAAATATTTACCAAACTTT
1 ATTTTCAAAGAAACATCTACCAAACTTTGAAAAACCATTTTTCAAAGAAACATTTACCAAACTTT
126621 GAAAACC
66 GAAAACC
*
126628 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACCA-TTTTCAAAGAAACATTTACCAAACTT
1 A-TTTTCAAAGAAACATCTACCAAACTTTGAAAAACCATTTTTCAAAGAAACATTTACCAAACTT
126691 TGAAAACC
65 TGAAAACC
126699 ATTTTCAAAG
1 ATTTTCAAAG
126709 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
70 9 0.12
71 35 0.46
72 12 0.16
73 20 0.26
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (72 bp):
ATTTTCAAAGAAACATCTACCAAACTTTGAAAAACCATTTTTCAAAGAAACATTTACCAAACTTT
GAAAACC
Found at i:129989 original size:15 final size:15
Alignment explanation
Indices: 129969--130000 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
129959 AAAATCTTTC
*
129969 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
129984 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
129999 TT
1 TT
130001 GGATCTACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:131258 original size:36 final size:37
Alignment explanation
Indices: 131205--131282 Score: 140
Period size: 36 Copynumber: 2.1 Consensus size: 37
131195 AACAAACATC
131205 TACCAAACTTTGAAAAACCATTTTTCAAAGAAATATT
1 TACCAAACTTTGAAAAACCATTTTTCAAAGAAATATT
*
131242 TACCAAAGTTTG-AAAACCATTTTTCAAAGAAATATT
1 TACCAAACTTTGAAAAACCATTTTTCAAAGAAATATT
131278 TACCA
1 TACCA
131283 TGAAAACCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 29 0.73
37 11 0.28
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (37 bp):
TACCAAACTTTGAAAAACCATTTTTCAAAGAAATATT
Found at i:133379 original size:15 final size:15
Alignment explanation
Indices: 133359--133395 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
133349 ATATTTAGCT
*
133359 GGGCGGGCGGATATG
1 GGGCGGGCGGATACG
*
133374 GGGCGGGCGGATGCG
1 GGGCGGGCGGATACG
133389 GGGCGGG
1 GGGCGGG
133396 TAATGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATACG
Found at i:139395 original size:29 final size:29
Alignment explanation
Indices: 139352--139463 Score: 197
Period size: 29 Copynumber: 3.8 Consensus size: 29
139342 CAAACTAAAT
139352 TGATGTCATTGCTTACATCATTTAAGTAA
1 TGATGTCATTGCTTACATCATTTAAGTAA
*
139381 AGATGTCATTGCTTACATCATTTAAGTAA
1 TGATGTCATTGCTTACATCATTTAAGTAA
*
139410 TGATGCCATTGCTTACATCATTTAAGTAA
1 TGATGTCATTGCTTACATCATTTAAGTAA
139439 TGATGTCATTGCTTACATCAATTTA
1 TGATGTCATTGCTTACATC-ATTTA
139464 GTTAGGTGAG
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
29 73 0.94
30 5 0.06
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (29 bp):
TGATGTCATTGCTTACATCATTTAAGTAA
Found at i:146747 original size:19 final size:20
Alignment explanation
Indices: 146725--146768 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
146715 GAGAAAAGGT
146725 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
146744 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
146764 AAAAG
1 AAAAG
146769 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:153657 original size:24 final size:24
Alignment explanation
Indices: 153613--153662 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
153603 ATAAAGAACC
*
153613 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
153637 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
153661 AA
1 AA
153663 TCAACCACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:155688 original size:29 final size:29
Alignment explanation
Indices: 155646--155712 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
155636 AAACTAAATT
155646 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
155675 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
155704 GATGTCATT
1 GATGTCATT
155713 TGTTGACGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:162137 original size:20 final size:20
Alignment explanation
Indices: 162112--162150 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
162102 TTTTAAATTT
*
162112 TAAATATATTTAAAA-TAAAG
1 TAAATA-ATTAAAAAGTAAAG
162132 TAAATAATTAAAAAGTAAA
1 TAAATAATTAAAAAGTAAA
162151 AAAACGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
TAAATAATTAAAAAGTAAAG
Found at i:168702 original size:27 final size:27
Alignment explanation
Indices: 168664--168726 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
168654 AGCCATAATT
*
168664 GAAGAAGCAACGGAGCCTGAGACGTTC
1 GAAGAAGCAACGGAGCCTGAGAAGTTC
168691 GAAGAAGCAACGGAGCCTGAGAAGTTC
1 GAAGAAGCAACGGAGCCTGAGAAGTTC
168718 GAAGAAGCA
1 GAAGAAGCA
168727 TCAAAGAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.33, T:0.10
Consensus pattern (27 bp):
GAAGAAGCAACGGAGCCTGAGAAGTTC
Found at i:170330 original size:29 final size:29
Alignment explanation
Indices: 170296--170354 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
170286 CCTAAATTAA
*
170296 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTACTTACATCAATTTAGT
170325 TTTGATGTCATTACTTACATCAATTTAGT
1 TTTGATGTCATTACTTACATCAATTTAGT
170354 T
1 T
170355 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTACTTACATCAATTTAGT
Found at i:171663 original size:12 final size:12
Alignment explanation
Indices: 171648--171672 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
171638 TAATAATAAA
171648 TAAATAATATTT
1 TAAATAATATTT
171660 TAAATAATATTT
1 TAAATAATATTT
171672 T
1 T
171673 TTAGACCCAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:171668 original size:3 final size:3
Alignment explanation
Indices: 171621--171656 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
171611 ATATGATTTG
171621 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT A
171657 TTTTAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 25 0.78
4 7 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:172013 original size:30 final size:30
Alignment explanation
Indices: 171934--172013 Score: 72
Period size: 31 Copynumber: 2.6 Consensus size: 30
171924 AATTTAAAAA
*
171934 GTTACATTTTGGTCACTTACATTATCGATTT
1 GTTACATTTT-GTCACTTACATTATCGAATT
* * * **
171965 ATTAAATTTTGGCTACTTATTTTATC-AATT
1 GTTACATTTTGTC-ACTTACATTATCGAATT
171995 GTTACATTTTAGTCACTTA
1 GTTACATTTT-GTCACTTA
172014 GTCATTAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
30 18 0.47
31 20 0.53
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (30 bp):
GTTACATTTTGTCACTTACATTATCGAATT
Found at i:176026 original size:154 final size:154
Alignment explanation
Indices: 175708--176009 Score: 442
Period size: 154 Copynumber: 1.9 Consensus size: 154
175698 ATTCAGAAAT
* * * * * *
175708 CATAGTAATTCCCTCAACCGCACACGTCCATAATGTGAAGGTTCCCCAAAACCATACAACTCCGG
1 CATAGTAAATCCCCCAACTGAACACAT-CATAATGTGAAGGTTCCCCAAAACCATACAACCCCGG
* *
175773 CACAAAAGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTGCATATATTCTTCCTCCAACAATACCC
65 CACAAAAGTAAGGCCCTGAGAACAAAGCCAAGGAGCATGCATATATTCTTCCTCCAACAATACCC
175838 CCCAAATAAAACATTTATCAAAAAC
130 CCCAAATAAAACATTTATCAAAAAC
* * *
175863 CATAGTAAATCCCCCAACTGAACACATCATAATGTGTAGGTTCCCCAGAACCATATAACCCCGGC
1 CATAGTAAATCCCCCAACTGAACACATCATAATGTGAAGGTTCCCCAAAACCATACAACCCCGGC
* * *
175928 ACAACAGTAAGGCCCTTAGAACAAAGCCGAGGAGCATGCATATATTCTTCCTCCAACAATAAACC
66 ACAAAAGTAAGGCCCTGAGAACAAAGCCAAGGAGCATGCATATATTCTTCCTCCAACAAT--ACC
*
175993 CCCCAATTAAAACATTT
129 CCCCAAATAAAACATTT
176010 CTTTTCCATC
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
154 89 0.68
155 22 0.17
156 19 0.15
ACGTcount: A:0.37, C:0.31, G:0.13, T:0.20
Consensus pattern (154 bp):
CATAGTAAATCCCCCAACTGAACACATCATAATGTGAAGGTTCCCCAAAACCATACAACCCCGGC
ACAAAAGTAAGGCCCTGAGAACAAAGCCAAGGAGCATGCATATATTCTTCCTCCAACAATACCCC
CCAAATAAAACATTTATCAAAAAC
Found at i:176135 original size:24 final size:24
Alignment explanation
Indices: 176086--176141 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
176076 TCTAGATCAG
* * *
176086 AAATCAGAACAAAATTTACATCAA
1 AAATCAGAACAAAATTCAAATAAA
*
176110 AAATCAGAACAGAATTCAAATAAA
1 AAATCAGAACAAAATTCAAATAAA
176134 AAATCAGA
1 AAATCAGA
176142 TAAAACATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.61, C:0.14, G:0.07, T:0.18
Consensus pattern (24 bp):
AAATCAGAACAAAATTCAAATAAA
Found at i:178344 original size:16 final size:17
Alignment explanation
Indices: 178307--178346 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
178297 GGTCAATGGT
*
178307 AGTCAACGTCGGTCAAC
1 AGTCAACGTCGATCAAC
178324 AGTCAACG-CGATCAAC
1 AGTCAACGTCGATCAAC
*
178340 GGTCAAC
1 AGTCAAC
178347 ACTGGTCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.15
Consensus pattern (17 bp):
AGTCAACGTCGATCAAC
Found at i:180553 original size:151 final size:155
Alignment explanation
Indices: 180277--180582 Score: 433
Period size: 151 Copynumber: 2.0 Consensus size: 155
180267 TTTAAAATTA
* * * * * *
180277 AAAAATCATAGTAATTCTCTCAACCGTACACATCCATACTGGTAGGTTCCCCATAACCATACAAC
1 AAAAACCATAGTAAATCCCCCAACCGAACACATCCATACTGGTAGGTTCCCCAAAACCATACAAC
* ** *
180342 CCCGGCACAATAGTAAGGTCCTGAGCACAAAGCCAAGGAGCATGCATATGTTCTTCCTCCAACAA
66 CCCGGCACAACAGTAAGACCCTGAGCACAAAGCCAAGGAGCATGCATATATTCTTCCTCCAACAA
180407 T-A-CCCCCAAATAAAACATTTATC
131 TAACCCCCCAAATAAAACATTTATC
180430 AAAAACCATAGTAAATCCCCCAACCGAACACAT-CA-A-TGTGTAGGTTCCCCAAAACCATACAA
1 AAAAACCATAGTAAATCCCCCAACCGAACACATCCATACTG-GTAGGTTCCCCAAAACCATACAA
* * *
180492 CCCCGGCACAACAGTAAGACCCTGAGCACAAAGTCGAGGAGCCTGCATATATTCTTCCTCCAACA
65 CCCCGGCACAACAGTAAGACCCTGAGCACAAAGCCAAGGAGCATGCATATATTCTTCCTCCAACA
*
180557 ATAAACCCCCCAATTAAAACATTTAT
130 AT-AACCCCCCAAATAAAACATTTAT
180583 TTTCCATCAG
Statistics
Matches: 135, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
150 2 0.01
151 83 0.61
152 2 0.01
153 29 0.21
154 19 0.14
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.20
Consensus pattern (155 bp):
AAAAACCATAGTAAATCCCCCAACCGAACACATCCATACTGGTAGGTTCCCCAAAACCATACAAC
CCCGGCACAACAGTAAGACCCTGAGCACAAAGCCAAGGAGCATGCATATATTCTTCCTCCAACAA
TAACCCCCCAAATAAAACATTTATC
Found at i:180701 original size:48 final size:48
Alignment explanation
Indices: 180604--180712 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
180594 AAACGGAGAT
* ** * * *
180604 ATCAGAAATCAAAACTGAATTCAAATAAGATATCATAACAGAATCCAA
1 ATCAGAAATCAGAACAAAATTCAAATAAAAAATCAGAACAGAATCCAA
* * *
180652 ATCAGAAATCAGAACAAAATTCATATAAAAAATCAGAACATAATTCAA
1 ATCAGAAATCAGAACAAAATTCAAATAAAAAATCAGAACAGAATCCAA
*
180700 ATCATAAATCAGA
1 ATCAGAAATCAGA
180713 TAAAATATTC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAAAATTCAAATAAAAAATCAGAACAGAATCCAA
Found at i:180711 original size:24 final size:24
Alignment explanation
Indices: 180604--180712 Score: 103
Period size: 24 Copynumber: 4.5 Consensus size: 24
180594 AAACGGAGAT
*
180604 ATCAGAAATCAAAAC-TGAATTCAA
1 ATCAGAAATCAGAACAT-AATTCAA
* * * * *
180628 ATAAGATATCATAACAGAATCCAA
1 ATCAGAAATCAGAACATAATTCAA
* *
180652 ATCAGAAATCAGAACAAAATTCAT
1 ATCAGAAATCAGAACATAATTCAA
* *
180676 ATAAAAAATCAGAACATAATTCAA
1 ATCAGAAATCAGAACATAATTCAA
*
180700 ATCATAAATCAGA
1 ATCAGAAATCAGA
180713 TAAAATATTC
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACATAATTCAA
Found at i:185276 original size:20 final size:22
Alignment explanation
Indices: 185251--185312 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 22
185241 TAAATTCAAA
185251 TTAGGAATTATATTTT-AT-TT
1 TTAGGAATTATATTTTAATATT
185271 TTAGG-ATT-TACTTTTAATATT
1 TTAGGAATTATA-TTTTAATATT
*
185292 TTCAAGAATTATATTTGTAAT
1 TT-AGGAATTATATTT-TAAT
185313 TCTTCCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 7 0.21
21 4 0.12
22 2 0.06
23 6 0.18
24 6 0.18
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (22 bp):
TTAGGAATTATATTTTAATATT
Found at i:188759 original size:17 final size:15
Alignment explanation
Indices: 188739--188774 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
188729 TTCAAAGATA
188739 TATTTAATTTATAATT
1 TATTTAATTTA-AATT
188755 CTATTTAATTTAAATT
1 -TATTTAATTTAAATT
188771 TATT
1 TATT
188775 ACTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTAATTTAAATT
Found at i:189162 original size:2 final size:2
Alignment explanation
Indices: 189146--189195 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
189136 AAATAAATAA
*
189146 AT AT -T AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
189187 AT AT AT AT A
1 AT AT AT AT A
189196 ATAATAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:189266 original size:15 final size:15
Alignment explanation
Indices: 189237--189295 Score: 63
Period size: 15 Copynumber: 4.0 Consensus size: 15
189227 TTTAAGCATG
189237 TAATAATAA-TAAAA
1 TAATAATAATTAAAA
189251 TAATAATAATTAAAA
1 TAATAATAATTAAAA
189266 TGAA-AGA-AATTAAAA
1 T-AATA-ATAATTAAAA
189281 GTAATAAT-ATTAAAA
1 -TAATAATAATTAAAA
189296 ACTAATGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
14 9 0.23
15 25 0.64
16 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
TAATAATAATTAAAA
Found at i:190593 original size:3 final size:3
Alignment explanation
Indices: 190585--190649 Score: 85
Period size: 3 Copynumber: 21.0 Consensus size: 3
190575 TTGTAATATT
*
190585 TAA TAA TAA TATA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA AAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
190632 TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
190650 AAAAATTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
3 48 0.89
4 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:190817 original size:45 final size:45
Alignment explanation
Indices: 190766--190858 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
190756 GATGGAAATG
*
190766 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
*
190811 TTTGAAAACATCATGCACTGAAGGACTTACAGATGATCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
190856 TTT
1 TTT
190859 TTTTTTTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
Found at i:191412 original size:76 final size:76
Alignment explanation
Indices: 190864--191381 Score: 937
Period size: 76 Copynumber: 6.8 Consensus size: 76
190854 GTTTTTTTTT
* *
190864 TTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
190929 GACCCTAAGGC
66 GACCCTAAGGC
* * *
190940 TTTAAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
191005 GACCCTAAGGC
66 GACCCTAAGGC
* *
191016 TTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
191081 GACCCTAAGGC
66 GACCCTAAGGC
*
191092 TTTGAAAACATCAAAAAGCTCCCGAATGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
*
191157 GACCTTAAGGC
66 GACCCTAAGGC
*
191168 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTATAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
191233 GACCCTAAGGC
66 GACCCTAAGGC
*
191244 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTCTGGAAACATCATGCACTGTAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
191309 GACCCTAAGGC
66 GACCCTAAGGC
191320 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACA
191382 AATGTGGGAA
Statistics
Matches: 426, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 426 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
GACCCTAAGGC
Found at i:192050 original size:215 final size:216
Alignment explanation
Indices: 191679--192110 Score: 857
Period size: 215 Copynumber: 2.0 Consensus size: 216
191669 TTTTTTTTTG
191679 AAATAACATGTTGATTGGGTAACATGACCCAATATGAAGATAATGCTCATTTTTGTGGATTGTGT
1 AAATAACATGTTGATTGGGTAACATGACCCAATATGAAGATAATGCTCATTTTTGTGGATTGTGT
191744 CCATCTCTTCTTCAGATGTTTGCATGATTCCTGTATTGGTGGTTTTGAATACCTTCTTTGTGTAA
66 CCATCTCTTCTTCAGATGTTTGCATGATTCCTGTATTGGTGGTTTTGAATACCTTCTTTGTGTAA
191809 GGTATTTTTTACCATGAATCTTCTTGTTC-TCCGAAGATCTGTAAAACTTCATGTTTGAATGCAC
131 GGTATTTTTTACCATGAATCTTCTTGTTCTTCCGAAGATCTGTAAAACTTCATGTTTGAATGCAC
191873 TCAAATGTATCAATGTAATGC
196 TCAAATGTATCAATGTAATGC
191894 AAATAACATGTTGATTGGGTAACATGACCCAATATGAAGATAATGCTCATTTTTGTGGATTGTGT
1 AAATAACATGTTGATTGGGTAACATGACCCAATATGAAGATAATGCTCATTTTTGTGGATTGTGT
191959 CCATCTCTTCTTCAGATGTTTGCATGATTCCTGTATTGGTGGTTTTGAATACCTTCTTTGTGTAA
66 CCATCTCTTCTTCAGATGTTTGCATGATTCCTGTATTGGTGGTTTTGAATACCTTCTTTGTGTAA
192024 GGTATTTTTTACCATGAATCTTCTTGTTCTTCCGAAGATCTGTAAAACTTCATGTTTGAATGCAC
131 GGTATTTTTTACCATGAATCTTCTTGTTCTTCCGAAGATCTGTAAAACTTCATGTTTGAATGCAC
192089 TCAAATGTATCAATGTAATGC
196 TCAAATGTATCAATGTAATGC
192110 A
1 A
192111 TTGTCTATTG
Statistics
Matches: 216, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
215 159 0.74
216 57 0.26
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (216 bp):
AAATAACATGTTGATTGGGTAACATGACCCAATATGAAGATAATGCTCATTTTTGTGGATTGTGT
CCATCTCTTCTTCAGATGTTTGCATGATTCCTGTATTGGTGGTTTTGAATACCTTCTTTGTGTAA
GGTATTTTTTACCATGAATCTTCTTGTTCTTCCGAAGATCTGTAAAACTTCATGTTTGAATGCAC
TCAAATGTATCAATGTAATGC
Found at i:192476 original size:22 final size:22
Alignment explanation
Indices: 192451--192527 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
192441 CATAAAGCTT
192451 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
192473 TCATCTTTAAAAAGAGAATCTT
1 TCATCTTTGAAAAGAGAATCTA
*
192495 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
192517 TCATCTTTGAA
1 TCATCTTTGAA
192528 GAATGTAGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:192977 original size:50 final size:50
Alignment explanation
Indices: 192885--193018 Score: 124
Period size: 50 Copynumber: 2.6 Consensus size: 50
192875 TCACTGGTTC
* * * * * * *
192885 GTAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTGTTGAGAT
1 GTAAAACATTTGAAAACACATTCATCCTTTCCTGTAGCTTCTGCTCAGAT
* *
192935 GTAAAACATTTGAAAACACATTCTTCCTTTCTTGTAGCTTCTGCTCAGATGTT
1 GTAAAACATTTGAAAACACATTCATCCTTTCCTGTAGCTTCTGCTCAGA---T
* * *
192988 CGTAAAGCATTTGATAACATATTCATCCTTT
1 -GTAAAACATTTGAAAACACATTCATCCTTT
193019 TTTTGTGGCT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 40 0.60
53 1 0.01
54 26 0.39
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (50 bp):
GTAAAACATTTGAAAACACATTCATCCTTTCCTGTAGCTTCTGCTCAGAT
Found at i:195236 original size:113 final size:114
Alignment explanation
Indices: 195066--195291 Score: 305
Period size: 113 Copynumber: 2.0 Consensus size: 114
195056 GATCATGCAG
* * *
195066 TTCATCTTTCAATTCCAATGATTGGTTCCGGGGTTACTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTAGTTCCGGGGTTACTACCAAACCAGATCAGATAACTCAAAGA
* * *
195131 A-AATTCCAGAATATGCTATTGGACC-TCTTTATTTCTATTATGAGCAAA
66 ACAATTCCAGAAGATGATATTGGACCTTC-TTATTTCTACTATGAGCAAA
* ** *
195179 TTCATCTTTCAAATCTAATGATTAGTTTTGAGGTTTA-TACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTAGTTCCG-GGGTTACTACCAAACCAGATCAGATAACTCAAAG
* *
195243 AACACTTCCAGAAGATGATATTGGGCCTTCTTATTTCTACTATGAGCAA
65 AACAATTCCAGAAGATGATATTGGACCTTCTTATTTCTACTATGAGCAA
195292 CATGGCACTT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
113 53 0.54
114 43 0.44
115 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTAGTTCCGGGGTTACTACCAAACCAGATCAGATAACTCAAAGA
ACAATTCCAGAAGATGATATTGGACCTTCTTATTTCTACTATGAGCAAA
Found at i:197490 original size:7 final size:7
Alignment explanation
Indices: 197480--197552 Score: 69
Period size: 7 Copynumber: 10.4 Consensus size: 7
197470 ATTTTCCTTT
197480 TTTTTTC
1 TTTTTTC
197487 TTTTTTCC
1 TTTTTT-C
*
197495 TTTTTCC
1 TTTTTTC
*
197502 TTTTTCC
1 TTTTTTC
197509 TTTTTTTC
1 -TTTTTTC
197517 TTTTTT-
1 TTTTTTC
*
197523 TCTTTT-
1 TTTTTTC
197529 TTTTTTC
1 TTTTTTC
*
197536 TTTTTCC
1 TTTTTTC
*
197543 TTTTTCC
1 TTTTTTC
197550 TTT
1 TTT
197553 ATTTGCTGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
6 10 0.17
7 36 0.62
8 12 0.21
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTC
Found at i:197532 original size:41 final size:40
Alignment explanation
Indices: 197471--197552 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 40
197461 CTTGATTCAA
197471 TTTTCCTTTTTTTTTCTTTTTTCCTTTTTCCTTTTTCCTT
1 TTTTCCTTTTTTTTTCTTTTTTCCTTTTTCCTTTTTCCTT
* * *
197511 TTTTTCTTTTTTTCTTTTTTTTTTCTTTTTCCTTTTTCCTT
1 TTTTCCTTTTTTT-TTCTTTTTTCCTTTTTCCTTTTTCCTT
197552 T
1 T
197553 ATTTGCTGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 12 0.32
41 26 0.68
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (40 bp):
TTTTCCTTTTTTTTTCTTTTTTCCTTTTTCCTTTTTCCTT
Found at i:197566 original size:27 final size:26
Alignment explanation
Indices: 197536--197589 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
197526 TTTTTTTTTC
197536 TTTTTCCTTT-TTCCTTTATTTGCTGGA
1 TTTTT-CTTTCTT-CTTTATTTGCTGGA
*
197563 TTTTTCTTTCTTCTTTCTTTGCTGGA
1 TTTTTCTTTCTTCTTTATTTGCTGGA
197589 T
1 T
197590 GAGTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.06, C:0.19, G:0.11, T:0.65
Consensus pattern (26 bp):
TTTTTCTTTCTTCTTTATTTGCTGGA
Found at i:202560 original size:15 final size:14
Alignment explanation
Indices: 202542--202577 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
202532 AATAAAATAA
202542 AATAAAATAAAAAGT
1 AATAAAAT-AAAAGT
*
202557 AATAATATAAAAGT
1 AATAAAATAAAAGT
202571 AATAAAA
1 AATAAAA
202578 ATTTGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (14 bp):
AATAAAATAAAAGT
Found at i:203047 original size:17 final size:15
Alignment explanation
Indices: 203027--203062 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
203017 TTCAAAGATA
203027 TATTTAATTTATAATT
1 TATTTAATTTA-AATT
203043 CTATTTAATTTAAATT
1 -TATTTAATTTAAATT
203059 TATT
1 TATT
203063 ACTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTAATTTAAATT
Found at i:203440 original size:2 final size:2
Alignment explanation
Indices: 203433--203475 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
203423 AAATAAATAA
203433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
203475 A
1 A
203476 ACTTAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:203555 original size:15 final size:14
Alignment explanation
Indices: 203525--203584 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
203515 TTAAGCATGT
203525 AATAATAAAA-TAA
1 AATAATAAAATTAA
203538 AATAATAATAATTAA
1 AATAATAA-AATTAA
203553 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
203568 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
203583 AA
1 AA
203585 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:204781 original size:14 final size:13
Alignment explanation
Indices: 204762--204829 Score: 79
Period size: 12 Copynumber: 5.4 Consensus size: 13
204752 ATGGGCTTTG
*
204762 TAATATTTAATAAA
1 TAATATATAAT-AA
204776 TAATATATAATAA
1 TAATATATAATAA
204789 TAAT-TATAATAA
1 TAATATATAATAA
204801 TAATA-ATAATAA
1 TAATATATAATAA
**
204813 TTTTA-ATAATAA
1 TAATATATAATAA
204825 TAATA
1 TAATA
204830 AAAAATTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
12 32 0.67
13 6 0.12
14 10 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:204787 original size:21 final size:21
Alignment explanation
Indices: 204762--204830 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 21
204752 ATGGGCTTTG
204762 TAATATTTAATAAATAATATA
1 TAATATTTAATAAATAATATA
*
204783 TAATA-ATAATTATAATAATAATAA
1 TAATATTTAA-TA-AATAAT-AT-A
204807 TAATAATTTTAAT-AATAATA-A
1 TAAT-A-TTTAATAAATAATATA
204828 TAA
1 TAA
204831 AAAATTGATG
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
20 3 0.08
21 11 0.28
22 6 0.15
23 3 0.08
24 11 0.28
25 1 0.03
26 1 0.03
27 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATATTTAATAAATAATATA
Found at i:204788 original size:3 final size:3
Alignment explanation
Indices: 204769--204830 Score: 79
Period size: 3 Copynumber: 20.0 Consensus size: 3
204759 TTGTAATATT
* **
204769 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TTT
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
204816 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
204831 AAAATTGATG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:211477 original size:15 final size:14
Alignment explanation
Indices: 211459--211494 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
211449 AATAAAATAA
211459 AATAAAATAAAAAGT
1 AATAAAAT-AAAAGT
*
211474 AATAATATAAAAGT
1 AATAAAATAAAAGT
211488 AATAAAA
1 AATAAAA
211495 ATTTGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (14 bp):
AATAAAATAAAAGT
Found at i:211987 original size:17 final size:17
Alignment explanation
Indices: 211944--211979 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
211934 TTCAAAGATA
211944 TATTTAATTTATAATTC
1 TATTTAATTTATAATTC
211961 TATTTAATTTA-AATT-
1 TATTTAATTTATAATTC
211976 TATT
1 TATT
211980 ACTAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 4 0.21
17 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTAATTTATAATTC
Found at i:213787 original size:3 final size:3
Alignment explanation
Indices: 213772--213811 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
213762 AAAAATATAT
* * *
213772 ATA ATA ATT ATA ATA ATA ATA ATA ATT TTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
213812 AAAATTGATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:218867 original size:30 final size:31
Alignment explanation
Indices: 218815--218876 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
218805 AATTATGATA
218815 TTTTAGGTCATTTTTAACCGGTTTTGTTATT
1 TTTTAGGTCATTTTTAACCGGTTTTGTTATT
218846 TTTTAGGTCATTTTT-ACCGGTTTTGTTATT
1 TTTTAGGTCATTTTTAACCGGTTTTGTTATT
218876 T
1 T
218877 AAAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.15, C:0.10, G:0.16, T:0.60
Consensus pattern (31 bp):
TTTTAGGTCATTTTTAACCGGTTTTGTTATT
Found at i:225345 original size:46 final size:46
Alignment explanation
Indices: 225304--225789 Score: 462
Period size: 46 Copynumber: 10.5 Consensus size: 46
225294 TTATTGCTAC
* *
225304 AATAAATGACCTCTGAAAAGTAGCTAAAACGGTGCATTATTGTTGT
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGGTGAATTATTGTTGT
* *
225350 AATAAATGGCCTCTGGAAAA-TAGCTGAAATGGTGAATTATTGTTGT
1 AATAAATGACCTCT-GAAAAGTAGCTGAAACGGTGAATTATTGTTGT
* * * * * *
225396 AATAAATGACCTATGAAAAATAGCTGAAATGATGAAGTATTGATGT
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGGTGAATTATTGTTGT
* * * *
225442 AATAAATGACCTCTAAAAAGTAGTTGGAAA-GGTGAATTGTTGTGGT
1 AATAAATGACCTCTGAAAAGTAGCT-GAAACGGTGAATTATTGTTGT
* * * * * *
225488 AATAAATGGCCTCTAAAAAGCAACTGAAACGGTGCATTACTGTTGT
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGGTGAATTATTGTTGT
* * * *
225534 AATAAATGACATCTGAAAAAGTAGTTGAAATGGTAAATTATTGTTGT
1 AATAAATGACCTCTG-AAAAGTAGCTGAAACGGTGAATTATTGTTGT
* ** *
225581 AATAAATGACCTTTGAAAAGTATATGAAACAGTGAATT-TT-TTCCGT
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGGTGAATTATTGTT--GT
* * * * *
225627 AATAAATGGCCTCTTAAAAGTAGTTGAAACAGTGCATTATTGTTGT
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGGTGAATTATTGTTGT
* **
225673 AATAAATGACCTCTGAAAAGTAACTGAAACAATGAATTATTGCTT-T
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGGTGAATTATTG-TTGT
* * * * * * *
225719 AATAAAT-AGCATCTAAAAAGTAGTTGAAGCGGTGCATTATTTTTCT
1 AATAAATGA-CCTCTGAAAAGTAGCTGAAACGGTGAATTATTGTTGT
* *
225765 AATAAATGTCCTTTGAAAAGTAGCT
1 AATAAATGACCTCTGAAAAGTAGCT
225790 TAAAAATAAC
Statistics
Matches: 358, Mismatches: 69, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
44 2 0.01
45 14 0.04
46 290 0.81
47 50 0.14
48 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (46 bp):
AATAAATGACCTCTGAAAAGTAGCTGAAACGGTGAATTATTGTTGT
Found at i:225724 original size:231 final size:230
Alignment explanation
Indices: 225304--225794 Score: 508
Period size: 231 Copynumber: 2.1 Consensus size: 230
225294 TTATTGCTAC
* ** *
225304 AATAAATGACCTCTGAAAAGTAGCTAAAACGGTGCATTATTGTTGTAATAAATGGCCTCTGGAAA
1 AATAAATGACATCTGAAAAGTAGCTAAAACGGTAAATTATTGTTGTAATAAATGACCTCTGGAAA
* ** *
225369 ATAGCTGAAATGGTGAATTATTGTTGTAATAAATGACCTATGAAAAATAGCTGAAATGATGAAGT
66 ATAGATGAAACAGTGAATTATTGTTGTAATAAATGACCTATGAAAAATAGCTGAAAAGATGAAGT
** ** * * *
225434 ATTGATGTAATAAATGACCTCTAAAAAGTAGTTGGAAAGGTGAATTGTTGTGGTAATAAATGGCC
131 ATTGATGTAATAAATGACCTCTAAAAAGTAACTGGAAAAATGAATTATTGTGGTAATAAATAGCA
*
225499 TCTAAAAAGCAACTGAAACGGTGCATTACTGTTGT
196 TCTAAAAAGCAACTGAAACGGTGCATTACTGTTCT
* * * *
225534 AATAAATGACATCTGAAAAAGTAGTTGAAATGGTAAATTATTGTTGTAATAAATGACCT-TTGAA
1 AATAAATGACATCTG-AAAAGTAGCTAAAACGGTAAATTATTGTTGTAATAAATGACCTCTGGAA
* * * * * *
225598 AAGTATATGAAACAGTGAATT-TT-TTCCGTAATAAATGGCCTCTTAAAAGTAGTTGAAACAG-T
65 AA-TAGATGAAACAGTGAATTATTGTT--GTAATAAATGACCTATGAAAAATAGCTGAAA-AGAT
* * * * *
225660 GCATTATTGTTGTAATAAATGACCTCTGAAAAGTAACT-GAAACAATGAATTATTGCT-TTAATA
126 GAAGTATTGATGTAATAAATGACCTCTAAAAAGTAACTGGAAA-AATGAATTATTG-TGGTAATA
* ** * * *
225723 AATAGCATCTAAAAAGTAGTTGAAGCGGTGCATTATTTTTCT
189 AATAGCATCTAAAAAGCAACTGAAACGGTGCATTACTGTTCT
* * *
225765 AATAAATGTCCTTTGAAAAGTAGCTTAAAA
1 AATAAATGACATCTGAAAAGTAGC-TAAAA
225795 ATAACTAAAA
Statistics
Matches: 211, Mismatches: 42, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
229 2 0.01
230 34 0.16
231 173 0.82
232 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (230 bp):
AATAAATGACATCTGAAAAGTAGCTAAAACGGTAAATTATTGTTGTAATAAATGACCTCTGGAAA
ATAGATGAAACAGTGAATTATTGTTGTAATAAATGACCTATGAAAAATAGCTGAAAAGATGAAGT
ATTGATGTAATAAATGACCTCTAAAAAGTAACTGGAAAAATGAATTATTGTGGTAATAAATAGCA
TCTAAAAAGCAACTGAAACGGTGCATTACTGTTCT
Found at i:230523 original size:69 final size:69
Alignment explanation
Indices: 230412--230549 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
230402 CAATTTATGT
*
230412 ATTTATGTGTTTATGTGGTAATGCATTAATTAAAGGTAAAACAAATGCAAACCAGTAGTTGAGTT
1 ATTTATGTGTTTATGTGGTAATGCATTAATTAAAGGTAAAACAAATGCAAACCAGCAGTTGAGTT
230477 TTCA
66 TTCA
230481 ATTTATGTGTTTATGTGGTAATGCATTAATTAAAGGTAAAACAAATGCAAACCAGCAGTTGAGTT
1 ATTTATGTGTTTATGTGGTAATGCATTAATTAAAGGTAAAACAAATGCAAACCAGCAGTTGAGTT
230546 TTCA
66 TTCA
230550 GTTGCCGATA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (69 bp):
ATTTATGTGTTTATGTGGTAATGCATTAATTAAAGGTAAAACAAATGCAAACCAGCAGTTGAGTT
TTCA
Found at i:238209 original size:2 final size:2
Alignment explanation
Indices: 238202--238260 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
238192 AGTGCCAATA
238202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
238244 AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
238261 TCATACATGA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:238402 original size:27 final size:27
Alignment explanation
Indices: 238365--238423 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
238355 TGGTAATAAC
238365 AACAACTTAAAGGGA-TAAAATAGCAAAA
1 AACAACTTAAA-GGACTAAAATAG-AAAA
238393 AACAA-TTAAAGGACTAAAATAGAAAA
1 AACAACTTAAAGGACTAAAATAGAAAA
238419 AACAA
1 AACAA
238424 AATTTGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 12 0.40
27 13 0.43
28 5 0.17
ACGTcount: A:0.64, C:0.10, G:0.12, T:0.14
Consensus pattern (27 bp):
AACAACTTAAAGGACTAAAATAGAAAA
Found at i:238973 original size:46 final size:46
Alignment explanation
Indices: 238906--239005 Score: 182
Period size: 46 Copynumber: 2.2 Consensus size: 46
238896 AAATAAACAA
238906 ACTGAAGGGACCCCTCCCACACAATTAACCCATGCGCGAAAATCAC
1 ACTGAAGGGACCCCTCCCACACAATTAACCCATGCGCGAAAATCAC
* *
238952 ACTGAAGGGACCCCTCCCACACAATTAACCCATGTGTGAAAATCAC
1 ACTGAAGGGACCCCTCCCACACAATTAACCCATGCGCGAAAATCAC
238998 ACTGAAGG
1 ACTGAAGG
239006 CCCCTCTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.15
Consensus pattern (46 bp):
ACTGAAGGGACCCCTCCCACACAATTAACCCATGCGCGAAAATCAC
Found at i:240034 original size:3 final size:3
Alignment explanation
Indices: 240026--240061 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
240016 TAACAACTGT
*
240026 ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
240062 GTATTTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:240968 original size:32 final size:31
Alignment explanation
Indices: 240931--241003 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
240921 CGGGGCCACG
*
240931 GGGCCTACCTAAGAACACATCTTAGGGACGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGACGCA
** * *
240963 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGACGCA
*
240994 GAGCCTACCT
1 GGGCCTACCT
241004 TAGAGTCACA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 20 0.59
32 14 0.41
ACGTcount: A:0.27, C:0.32, G:0.26, T:0.15
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGACGCA
Found at i:265673 original size:38 final size:37
Alignment explanation
Indices: 265583--265683 Score: 114
Period size: 40 Copynumber: 2.6 Consensus size: 37
265573 ATATATCTAT
265583 ATATATATTATATAGTTTTTAAAAAAAATATTTTTAAA
1 ATATATATTATATAGTTTTT-AAAAAAATATTTTTAAA
* * *
265621 ATACGTATAATATATAGTTTTTAAAAATATTTTTTTGAAA
1 ATA--TATATTATATAGTTTTTAAAAAAATATTTTT-AAA
* *
265661 TTATATATTATAT-GGTTTTAAAA
1 ATATATATTATATAGTTTTTAAAA
265684 CATTTATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 9 0.17
38 12 0.22
39 12 0.22
40 21 0.39
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.49
Consensus pattern (37 bp):
ATATATATTATATAGTTTTTAAAAAAATATTTTTAAA
Found at i:265707 original size:17 final size:16
Alignment explanation
Indices: 265686--265734 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
265676 TTTTAAAACA
265686 TTTATT-TATTTATTAT
1 TTTATTATATTT-TTAT
265702 TATTATTAATATTTTTAT
1 T-TTATT-ATATTTTTAT
265720 TTTATTATTATTTTT
1 TTTATTA-TATTTTT
265735 TGTAGGCTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 17 0.59
18 5 0.17
19 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATTATATTTTTAT
Found at i:265714 original size:23 final size:23
Alignment explanation
Indices: 265688--265731 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
265678 TTAAAACATT
265688 TATTTATT-TATTATTATTATTAA
1 TATTT-TTATATTATTATTATTAA
*
265711 TATTTTTATTTTATTATTATT
1 TATTTTTATATTATTATTATT
265732 TTTTGTAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTTTATATTATTATTATTAA
Found at i:269028 original size:21 final size:21
Alignment explanation
Indices: 269004--269061 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
268994 TCTTTAAAAT
269004 ATAATATTATAATTATATTTC
1 ATAATATTATAATTATATTTC
* * *
269025 ATAATTTTAT-ATTGTATTTG
1 ATAATATTATAATTATATTTC
*
269045 AT-ATATTA-AATAATATT
1 ATAATATTATAATTATATT
269062 ATAGCTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 11 0.37
20 10 0.33
21 9 0.30
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (21 bp):
ATAATATTATAATTATATTTC
Found at i:269083 original size:2 final size:2
Alignment explanation
Indices: 269076--269114 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
269066 CTTAAAAATA
269076 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
269115 GTTAGAGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:286853 original size:178 final size:178
Alignment explanation
Indices: 286635--286987 Score: 625
Period size: 178 Copynumber: 2.0 Consensus size: 178
286625 TTGATCGGGG
*
286635 CCTATGGATATTTTACCTACTATGAATTTAAATATTTAAGTGAAGTTTATATTTTTAATATTATG
1 CCTATGGATATTTTACCCACTATGAATTTAAATATTTAAGTGAAGTTTATATTTTTAATATTATG
*
286700 AATTAAAAAGAATAGTATATGATTTCTTTTTAATTCAGAATATTAAATATGATATGACTTGCAAT
66 AATTAAAAAGAATAGTATATGATTTCCTTTTAATTCAGAATATTAAATATGATATGACTTGCAAT
*
286765 TCACGAATATATTCGATATAATACGGTATTAATTGTTTATTTTATGGA
131 TCACGAATATATTCGATATAATACGGTATTAATTGATTATTTTATGGA
*
286813 CCTATGGATATTTTACCCACTATGAATTTAAATATTTAAGTGAAGTTTATATTTTTAATATTCTG
1 CCTATGGATATTTTACCCACTATGAATTTAAATATTTAAGTGAAGTTTATATTTTTAATATTATG
* *
286878 AATTAAAAAGAATATTATATGATTTCCTTTTAATTCATAATATTAAATATGATATGACTTGCAAT
66 AATTAAAAAGAATAGTATATGATTTCCTTTTAATTCAGAATATTAAATATGATATGACTTGCAAT
* * *
286943 TCACGAATATATTTGATATAATATGGTGTTAATTGATTATTTTAT
131 TCACGAATATATTCGATATAATACGGTATTAATTGATTATTTTAT
286988 ATTTTATTTA
Statistics
Matches: 166, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
178 166 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (178 bp):
CCTATGGATATTTTACCCACTATGAATTTAAATATTTAAGTGAAGTTTATATTTTTAATATTATG
AATTAAAAAGAATAGTATATGATTTCCTTTTAATTCAGAATATTAAATATGATATGACTTGCAAT
TCACGAATATATTCGATATAATACGGTATTAATTGATTATTTTATGGA
Found at i:289650 original size:8 final size:8
Alignment explanation
Indices: 289637--289666 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
289627 TAACTTTGTA
289637 ATATTTTT
1 ATATTTTT
289645 ATATTTTT
1 ATATTTTT
*
289653 AAATTTTT
1 ATATTTTT
289661 ATATTT
1 ATATTT
289667 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATATTTTT
Found at i:297460 original size:19 final size:19
Alignment explanation
Indices: 297436--297473 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
297426 AATTTAGTAT
297436 TTAAATTTCTTAACAATAA
1 TTAAATTTCTTAACAATAA
297455 TTAAATTTCTTAACAATAA
1 TTAAATTTCTTAACAATAA
297474 AGCAGTACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAATTTCTTAACAATAA
Found at i:302462 original size:24 final size:25
Alignment explanation
Indices: 302427--302477 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
302417 CCATATCCTT
* * *
302427 TCCAATTTCTCCATCAC-TGAAATA
1 TCCAATTCCTCCAGCACAGGAAATA
302451 TCCAATTCCTCCAGCACAGGAAATA
1 TCCAATTCCTCCAGCACAGGAAATA
302476 TC
1 TC
302478 ACCTATATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.27
Consensus pattern (25 bp):
TCCAATTCCTCCAGCACAGGAAATA
Found at i:304453 original size:29 final size:29
Alignment explanation
Indices: 304419--304477 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
304409 CTTAAATTAA
304419 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
304448 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
304477 T
1 T
304478 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:309142 original size:29 final size:29
Alignment explanation
Indices: 309108--309166 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
309098 CCTAAATTAA
309108 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
309137 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
309166 T
1 T
309167 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:313516 original size:19 final size:17
Alignment explanation
Indices: 313473--313516 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
313463 TTTTATGAAT
*
313473 TATTTTAAATGTTTTAA
1 TATTTTAAATATTTTAA
313490 TATATTTACAATATTTTATA
1 TAT-TTTA-AATATTTTA-A
313510 TATTTTA
1 TATTTTA
313517 TCTCACCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 4 0.17
19 12 0.52
20 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTTTAAATATTTTAA
Found at i:321907 original size:21 final size:20
Alignment explanation
Indices: 321883--321933 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
321873 AAAATGCCTC
321883 AGTATCGATATCA-ACCCTCTG
1 AGTATCGATATCAGACCC-C-G
* *
321904 AGTATCAATATTAGACCCCG
1 AGTATCGATATCAGACCCCG
321924 AGTATCGATA
1 AGTATCGATA
321934 CTTCTTAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 10 0.38
21 12 0.46
22 4 0.15
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (20 bp):
AGTATCGATATCAGACCCCG
Found at i:324845 original size:20 final size:20
Alignment explanation
Indices: 324816--324858 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
324806 ATTCCACCAT
*
324816 ATGCAACTATATGTTCCTAA
1 ATGCAACTATATGATCCTAA
*
324836 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
324856 ATG
1 ATG
324859 GGCTCTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:325343 original size:20 final size:20
Alignment explanation
Indices: 325320--325358 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
325310 CCCTTTACAG
325320 ATATACCGAAACATTTATTC
1 ATATACCGAAACATTTATTC
325340 ATATACCGAAACATTTATT
1 ATATACCGAAACATTTATT
325359 TATAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATACCGAAACATTTATTC
Found at i:343089 original size:252 final size:252
Alignment explanation
Indices: 342642--343148 Score: 915
Period size: 252 Copynumber: 2.0 Consensus size: 252
342632 GCATATAAAG
*
342642 AGTTTAATTTGAAATTCATTTGTGTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGGTA
1 AGTTTAATTTGAAATTAATTTGTGTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGGTA
342707 GCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGGATA
66 GCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGGATA
* * *
342772 AGTGCAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAATTTCAGA
131 AATACAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAGA
* *
342837 TTTCATAATGAATATGTGATCACCCTGGACATGTGAACATCCGCCACTGACTCTCAT
196 TTTCATAATGAACATGTGACCACCCTGGACATGTGAACATCCGCCACTGACTCTCAT
*
342894 AGTTTAATTTGAAATTAATTTGTGTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCTGTA
1 AGTTTAATTTGAAATTAATTTGTGTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGGTA
*
342959 GTAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGGATA
66 GCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGGATA
*
343024 AATATAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAGA
131 AATACAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAGA
* *
343089 TTTCATAATGAACATGTGACCACCCTGGACATGTGTACATCCGCCATTGACTCTCAT
196 TTTCATAATGAACATGTGACCACCCTGGACATGTGAACATCCGCCACTGACTCTCAT
343146 AGT
1 AGT
343149 CTAGGATCAG
Statistics
Matches: 244, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
252 244 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (252 bp):
AGTTTAATTTGAAATTAATTTGTGTTTTTTTTACAAAAACTTTAGGTCAGGTTGTTCTTTCGGTA
GCAGATTTAGAAATATTTTTCATGATAGATGTATATGTATTAATAACAAAAAATCATATAGGATA
AATACAAAAAAATTCTAGGGTGGACAATTTTAATAAAACGGACATATAACATAAAAAAATTCAGA
TTTCATAATGAACATGTGACCACCCTGGACATGTGAACATCCGCCACTGACTCTCAT
Found at i:343846 original size:31 final size:32
Alignment explanation
Indices: 343789--343848 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
343779 TTTTAAAATT
* *
343789 AATTTTTAATTTATTTTGTTATTAATATTCAC
1 AATTTTTAAGTTATTTTGTTAATAATATTCAC
343821 AATTTTT-AGTTATTTT-TTAAATAATATT
1 AATTTTTAAGTTATTTTGTT-AATAATATT
343849 AATTTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 16 0.64
32 7 0.28
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (32 bp):
AATTTTTAAGTTATTTTGTTAATAATATTCAC
Found at i:346358 original size:20 final size:20
Alignment explanation
Indices: 346327--346400 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
346317 GTAGCCTTCG
*
346327 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* * **
346347 TGAATCGATGCACAACCTTGA
1 TGCATCGATGCAC-AGCAGGA
*
346368 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGCAGGA
*
346388 TGCATGGATGCAC
1 TGCATCGATGCAC
346401 TAATTGCATT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:346467 original size:42 final size:42
Alignment explanation
Indices: 346421--346519 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
346411 CGGTGTTTGA
*
346421 GTGCATGGATGCACTGCATGG-TGCATCGATGCACTAGTGC-A-G
1 GTGCATGGATGCACTGCAGGGATGCATCGATGCACTA---CAAGG
* *
346463 GTGCATGGATGCACTGCGGGGATGCATGGATGCACTACAAGG
1 GTGCATGGATGCACTGCAGGGATGCATCGATGCACTACAAGG
346505 GTGCATGGATGCACT
1 GTGCATGGATGCACT
346520 TTGACACCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 1 0.02
41 1 0.02
42 35 0.69
43 14 0.27
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.22
Consensus pattern (42 bp):
GTGCATGGATGCACTGCAGGGATGCATCGATGCACTACAAGG
Found at i:346468 original size:22 final size:23
Alignment explanation
Indices: 346435--346477 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
346425 ATGGATGCAC
346435 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
346458 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
346478 GCGGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:346490 original size:21 final size:20
Alignment explanation
Indices: 346421--346519 Score: 110
Period size: 21 Copynumber: 4.8 Consensus size: 20
346411 CGGTGTTTGA
*
346421 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
*
346441 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
*
346463 GTGCATGGATGCACTGCGGG
1 GTGCATGGATGCACTGCAGG
*
346483 GATGCATGGATGCACTACAAGG
1 G-TGCATGGATGCACTGC-AGG
346505 GTGCATGGATGCACT
1 GTGCATGGATGCACT
346520 TTGACACCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.04
20 15 0.22
21 29 0.43
22 17 0.25
23 4 0.06
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:346651 original size:30 final size:30
Alignment explanation
Indices: 346599--346658 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
346589 CAACTTTGAA
*
346599 TAAATTCGATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
346628 TAAATTCAATTCAAGTCCGAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
346659 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 10 0.37
31 7 0.26
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:346667 original size:34 final size:29
Alignment explanation
Indices: 346599--346658 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
346589 CAACTTTGAA
*
346599 TAAATTCGATTAAGTCCAAAAACATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
*
346628 TAAATTCAATTCAAGTCCGAAAACCATTTTG
1 TAAATTCAATT-AAGTCC-AAAAACATTTTG
346659 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 6 0.22
31 11 0.41
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:349922 original size:20 final size:20
Alignment explanation
Indices: 349893--349986 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
349883 ATAGCCTTCG
*
349893 TGCATGGATGCACA-ACAGGA
1 TGCATCGATGCACAGA-AGGA
****
349913 TGCATCGATGCACATCCTTGA
1 TGCATCGATGCACA-GAAGGA
*
349934 TGCATCGATGCACAGAATGA
1 TGCATCGATGCACAGAAGGA
349954 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
349974 TGCATCGATGCAC
1 TGCATCGATGCAC
349987 TAATTGCATT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 48 0.75
21 16 0.25
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (20 bp):
TGCATCGATGCACAGAAGGA
Found at i:350052 original size:22 final size:23
Alignment explanation
Indices: 350021--350146 Score: 144
Period size: 22 Copynumber: 5.8 Consensus size: 23
350011 ATAGATGTAT
350021 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
350044 TGCA-GGTGCATGGATGCAC---
1 TGCATGGTGCATCGATGCACTAG
350063 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
350086 TGCA-GGTGCATGGATGCAC---
1 TGCATGGTGCATCGATGCACTAG
*
350105 TGCAGGGATGCATCGATGCACTAG
1 TGCATGG-TGCATCGATGCACTAG
*
350129 TGCA-GGTGCATGGATGCA
1 TGCATGGTGCATCGATGCA
350147 TTGCAGGGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
19 8 0.09
20 16 0.18
21 12 0.13
22 39 0.44
23 10 0.11
24 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.34, T:0.23
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:350067 original size:42 final size:42
Alignment explanation
Indices: 350007--350211 Score: 263
Period size: 42 Copynumber: 4.8 Consensus size: 42
349997 CGGTTTTTGA
* * * *
350007 GTGCATAGATGTATTGCATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTGCAGGGTGCATCGATGCACTAGTGCAG
*
350049 GTGCATGGATGCACTGCATGGTGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTGCAGGGTGCATCGATGCACTAGTGCAG
350091 GTGCATGGATGCACTGCAGGGATGCATCGATGCACTAGTGCAG
1 GTGCATGGATGCACTGCAGGG-TGCATCGATGCACTAGTGCAG
* *
350134 GTGCATGGATGCATTGCAGGGATGCATAGATGCAC---TGCAGG
1 GTGCATGGATGCACTGCAGGG-TGCATCGATGCACTAGTGCA-G
* *
350175 GATGCATAGATGCACTGCAGGGGTGCATGGATGCACT
1 G-TGCATGGATGCACTGCA-GGGTGCATCGATGCACT
350212 TTGACACCCT
Statistics
Matches: 149, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
40 4 0.03
41 2 0.01
42 86 0.58
43 57 0.38
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (42 bp):
GTGCATGGATGCACTGCAGGGTGCATCGATGCACTAGTGCAG
Found at i:350122 original size:21 final size:20
Alignment explanation
Indices: 350007--350211 Score: 173
Period size: 21 Copynumber: 9.8 Consensus size: 20
349997 CGGTTTTTGA
* * * *
350007 GTGCATAGATGTATTGCATG
1 GTGCATGGATGCACTGCAGG
*
350027 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
*
350049 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
*
350069 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
350091 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
*
350111 GATGCATCGATGCACTAGTGCA-G
1 G-TGCATGGATGCAC---TGCAGG
*
350134 GTGCATGGATGCATTGCAGG
1 GTGCATGGATGCACTGCAGG
*
350154 GATGCATAGATGCACTGCAGG
1 G-TGCATGGATGCACTGCAGG
*
350175 GATGCATAGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
350197 GTGCATGGATGCACT
1 GTGCATGGATGCACT
350212 TTGACACCCT
Statistics
Matches: 158, Mismatches: 12, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.08
20 29 0.18
21 61 0.39
22 42 0.27
23 10 0.06
24 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Done.