Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009607.1 Hibiscus syriacus cultivar Beakdansim tig00116991_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: 270985
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:389 original size:95 final size:93
Alignment explanation
Indices: 197--389 Score: 246
Period size: 95 Copynumber: 2.1 Consensus size: 93
187 TACATGGTTT
* **
197 GATACTTCTACACTGTGGTATTGATATTCCTTGCAGTATCGATACAATTTCTACATTCTGGATCC
1 GATACTTCTACACTATGGTACCGATATTCCTTGCAGTATCGATACAATTTCTACATTCTGGATCC
*
262 ATGGTATCGATACTTTCCTCCTAGTATT
66 ATGGTATCGATACTTTCCTCCTAGTATC
* * *
290 GATACTTCTATACTATGGTACCGATATTCCCATT-CAGTATCGATACCATTT-TGGCATTCTGGA
1 GATACTTCTACACTATGGTACCGATATT-CC-TTGCAGTATCGATACAATTTCT-ACATTCTGG-
** *
353 ATCCATGGTATCGATACTTTCCTTTTGGTATC
62 ATCCATGGTATCGATACTTTCCTCCTAGTATC
385 GATAC
1 GATAC
390 CCTATAAGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
93 25 0.29
94 26 0.30
95 35 0.41
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (93 bp):
GATACTTCTACACTATGGTACCGATATTCCTTGCAGTATCGATACAATTTCTACATTCTGGATCC
ATGGTATCGATACTTTCCTCCTAGTATC
Found at i:402 original size:17 final size:17
Alignment explanation
Indices: 380--423 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
370 TTTCCTTTTG
380 GTATCGATACCCTATAA
1 GTATCGATACCCTATAA
*
397 GTATCGATACCCTGTAA
1 GTATCGATACCCTATAA
414 GTATCGATAC
1 GTATCGATAC
424 TAATGCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (17 bp):
GTATCGATACCCTATAA
Found at i:1169 original size:9 final size:9
Alignment explanation
Indices: 1155--1216 Score: 124
Period size: 9 Copynumber: 6.9 Consensus size: 9
1145 ATCCTTTATC
1155 ATTTAATCA
1 ATTTAATCA
1164 ATTTAATCA
1 ATTTAATCA
1173 ATTTAATCA
1 ATTTAATCA
1182 ATTTAATCA
1 ATTTAATCA
1191 ATTTAATCA
1 ATTTAATCA
1200 ATTTAATCA
1 ATTTAATCA
1209 ATTTAATC
1 ATTTAATC
1217 CTCCAATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTTAATCA
Found at i:5232 original size:46 final size:45
Alignment explanation
Indices: 5179--5307 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 45
5169 ACCATTATAT
** *
5179 ATTTTCATTGGTGGCATTCTTTCATGCCAATTATGCATTGTCATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCAA-TATGCATTGTCATGC
* * * * * *
5225 ATTTTCATTTATGACATCCTTTTATGCCTATAATGTATCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCAAT-ATGCATTGTCATGC
*
5271 ATTTTTATTTATGGCATCCTTTCATGCCAA-ATGCATT
1 ATTTTCATTTATGGCATCCTTTCATGCCAATATGCATT
5308 TAACCTTCAT
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 5 0.07
45 1 0.01
46 61 0.91
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (45 bp):
ATTTTCATTTATGGCATCCTTTCATGCCAATATGCATTGTCATGC
Found at i:5433 original size:81 final size:81
Alignment explanation
Indices: 5305--5997 Score: 965
Period size: 81 Copynumber: 8.6 Consensus size: 81
5295 TGCCAAATGC
* * * * * * * *
5305 ATTTAACC-TTCATCTAACTTGCATTATTGGCACATTTCTGCCTAATGCAGAGTTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
5369 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * *
5385 ATTTAACCTTTCATCTAATTGGCATGATTGACACCTTTTTGTCAAATGCATAGCTAGGCAATTAG
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
5450 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * *
5466 ATTTAACCTTTCATCTAATTGGCATGATTGATACCTTTTTGTCAAATGCATAGCTAGGCAATTAG
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
5531 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * *
5547 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTTTGTCAAATACATAGCTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
5612 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * * *
5628 ATTTAACATTTCATCTAACTAGCAAGATTGACACATTTCTGTAAAATGCACAGCTAGGCAATTAG
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
5693 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * *
5709 ATTTAACCTTTCATCTAATTGGCATGATTAACACATTCCTGTCAAATGCACAACTAGGCAATTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
*
5774 TATTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * * * * *
5790 ATTTAACCATTCATCTAACTGGTATGATTGATACATTTATATCAAATGCACAACTAGACAATTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
5855 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * *
5871 ATTTAACATTTCATCTAACTGACATGATCGACACCTTTCTGTCAAATGCACAGCTAGGTAATTAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
5936 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* *
5952 ATTTAACCTTTTATCTAACTAGCATGATTGACACCTTTCTGTCAAA
1 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAA
5998 GGTATTTAAC
Statistics
Matches: 550, Mismatches: 62, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
80 8 0.01
81 542 0.99
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAGCTAGGCAATTAA
TCTTTTACTCAAAGGT
Found at i:5987 original size:27 final size:27
Alignment explanation
Indices: 5957--6038 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
5947 AAGGTATTTA
5957 ACCTTTTATCTAACTAGCATGATTGAC
1 ACCTTTTATCTAACTAGCATGATTGAC
* * *
5984 ACCTTTCTGTC-AA--AG-GT-ATTTA-
1 ACCTTT-TATCTAACTAGCATGATTGAC
* *
6006 ACCTTTCATCTAACTGGCATGATTGAC
1 ACCTTTTATCTAACTAGCATGATTGAC
6033 ACCTTT
1 ACCTTT
6039 CTGTCAAATG
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 4 0.10
24 2 0.05
25 3 0.08
26 4 0.10
27 14 0.35
28 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (27 bp):
ACCTTTTATCTAACTAGCATGATTGAC
Found at i:6000 original size:49 final size:49
Alignment explanation
Indices: 5944--6046 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 49
5934 AATCTTTTAC
*
5944 TCAAAGGTATTTAACCTTTTATCTAACTAGCATGATTGACACCTTTCTG
1 TCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTG
*
5993 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTG
1 TCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTG
6042 TCAAA
1 TCAAA
6047 TGCACAACTA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (49 bp):
TCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTCTG
Found at i:6034 original size:130 final size:130
Alignment explanation
Indices: 5863--6127 Score: 467
Period size: 130 Copynumber: 2.0 Consensus size: 130
5853 AATCTTTTAC
*
5863 TCAAAGGTATTTAACATTTCATCTAACTGACATGATCGACACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACATTTCATCTAACTGACATGATCGACACCTTTCTGTCAAATGCACAACTAG
* * *
5928 GTAATTAATCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTAGCATGATTGACACCTTTCTG
66 GCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTCTG
* * *
5993 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACATTTCATCTAACTGACATGATCGACACCTTTCTGTCAAATGCACAACTAG
6058 GCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTCTG
66 GCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTCTG
6123 TCAAA
1 TCAAA
6128 TGCACTGCTA
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 128 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (130 bp):
TCAAAGGTATTTAACATTTCATCTAACTGACATGATCGACACCTTTCTGTCAAATGCACAACTAG
GCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTCTG
Found at i:6128 original size:81 final size:81
Alignment explanation
Indices: 5993--6226 Score: 405
Period size: 81 Copynumber: 2.9 Consensus size: 81
5983 CACCTTTCTG
5993 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
*
6058 GCAATTAATCTTTTAC
66 GCAATTAATCATTTAC
* * **
6074 TCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGCACTGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
6139 GCAATTAATCATTTAC
66 GCAATTAATCATTTAC
* *
6155 TCAAAGGTATTTAACTTTTCATCTAACTGGCATGATTAACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
6220 GCAATTA
66 GCAATTA
6227 GTGTTTTATT
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 142 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (81 bp):
TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
GCAATTAATCATTTAC
Found at i:6147 original size:211 final size:211
Alignment explanation
Indices: 5782--6208 Score: 687
Period size: 211 Copynumber: 2.0 Consensus size: 211
5772 AATATTTTAC
* *
5782 TCAAAGGTATTTAACCATTCATCTAACTGGTATGATTGATACATTTATATCAAATGCACAACTAG
1 TCAAAGGTATTTAACCATTCATCTAACTGGCATGATTGACACATTTATATCAAATGCACAACTAG
*
5847 ACAATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGACATGATCGACACCTTTCTG
66 ACAATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGACATGATCGACACATTTCTG
* *
5912 TCAAATGCACAGCTAGGTAATTAATCTTTTACTCAAAGGTATTTAACCTTTT-ATCTAACTAGCA
131 TCAAATGCACAGCTAGGCAATTAATCATTTACTCAAAGGTATTTAA-CTTTTCATCTAACTAGCA
*
5976 TGATTGACACCTTTCTG
195 TGATTAACACCTTTCTG
* * * *
5993 TCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCATTCATCTAACTGGCATGATTGACACATTTATATCAAATGCACAACTAG
* * *
6058 GCAATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT-AGCATGATTGACACATTTCT
66 ACAATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGA-CATGATCGACACATTTCT
* *
6122 GTCAAATGCACTGCTAGGCAATTAATCATTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCA
130 GTCAAATGCACAGCTAGGCAATTAATCATTTACTCAAAGGTATTTAACTTTTCATCTAACTAGCA
6187 TGATTAACACCTTTCTG
195 TGATTAACACCTTTCTG
6204 TCAAA
1 TCAAA
6209 TGCACAACTA
Statistics
Matches: 199, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
210 6 0.03
211 193 0.97
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (211 bp):
TCAAAGGTATTTAACCATTCATCTAACTGGCATGATTGACACATTTATATCAAATGCACAACTAG
ACAATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGACATGATCGACACATTTCTG
TCAAATGCACAGCTAGGCAATTAATCATTTACTCAAAGGTATTTAACTTTTCATCTAACTAGCAT
GATTAACACCTTTCTG
Found at i:6997 original size:23 final size:23
Alignment explanation
Indices: 6967--7012 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6957 ACCCAAATTT
6967 GGTCAAATTTCCTTATGTTTACC
1 GGTCAAATTTCCTTATGTTTACC
6990 GGTCAAATTTCCTTATGTTTACC
1 GGTCAAATTTCCTTATGTTTACC
7013 CTTAACAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (23 bp):
GGTCAAATTTCCTTATGTTTACC
Found at i:8751 original size:48 final size:48
Alignment explanation
Indices: 8680--8779 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
8670 TATAGTACTG
* *
8680 ATACGAAAATGCAACATATGCATTAAACAAAATTGATTAATAACCATC
1 ATACGAAAATGCAACATATGCATTAAACAAAATCGATCAATAACCATC
* * * *
8728 ATACGAAAATGCAACTTATGCATTAAATAAAATCGATCGATAATCATC
1 ATACGAAAATGCAACATATGCATTAAACAAAATCGATCAATAACCATC
8776 ATAC
1 ATAC
8780 ACAAAGTATG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (48 bp):
ATACGAAAATGCAACATATGCATTAAACAAAATCGATCAATAACCATC
Found at i:9460 original size:19 final size:19
Alignment explanation
Indices: 9422--9480 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
9412 CTTCCTCATG
*
9422 GTATCGATACTTCTTTCATCA
1 GTATCGATA-TT-GTTCATCA
*
9443 GTGTCGATATTGTTCATCA
1 GTATCGATATTGTTCATCA
9462 GTATCGATATTGTTCATCA
1 GTATCGATATTGTTCATCA
9481 TGTTCGTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 25 0.71
20 2 0.06
21 8 0.23
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (19 bp):
GTATCGATATTGTTCATCA
Found at i:13953 original size:2 final size:2
Alignment explanation
Indices: 13946--13972 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13936 CATAAACAAG
13946 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13973 GAAAACCTGC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15463 original size:75 final size:74
Alignment explanation
Indices: 15384--15760 Score: 419
Period size: 75 Copynumber: 5.1 Consensus size: 74
15374 TGCAAACGGT
*
15384 TTTTGAAAATGTATATAATATATA-TTTTTAAAACATTTTAGAAAAAATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTT-GAAAAAATATATATAATATATAGT
15448 TTTTAAAATCA
65 TTTTAAAA-CA
* * * *
15459 TTTTG-AAATTTATATAATATATAATTTTGAAAACATTTTTG--AAAATTTATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA-TTTTGAAAAAATATATATAATATATAGT
*
15521 TTTGAAAACA
65 TTTTAAAACA
* * * * *
15531 TTTTTGAAAATTTATATAATATATAGTTTTGAAAACATTTTGAAAACATTTATATATTATATAGT
1 -TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTGAAAAAATATATATAATATATAGT
*
15596 TTTTAAAAACG
65 TTTT-AAAACA
* * *
15607 TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAATATATATATTATATA-ATT
1 TTTTGAAAATATATATAATATATAGTTTTTAAAACA-TTTTGAAAAAATATATATAATATATAGT
15671 TTTTAAAACA
65 TTTTAAAACA
* * *
15681 TTTTTGAAAATACATATAATATATAATTTTTTTAAAAACATTTTG--GAAATATATATAATATAT
1 -TTTTGAAAATATATATAATATAT-A-GTTTTT-AAAACATTTTGAAAAAATATATATAATATAT
* *
15744 -TTTTTTGAAAATA
62 AGTTTTT-AAAACA
15757 TTTT
1 TTTT
15761 TATTATTATT
Statistics
Matches: 265, Mismatches: 23, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
72 2 0.01
73 37 0.14
74 51 0.19
75 124 0.47
76 35 0.13
77 10 0.04
78 6 0.02
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (74 bp):
TTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTGAAAAAATATATATAATATATAGTT
TTTAAAACA
Found at i:15514 original size:37 final size:37
Alignment explanation
Indices: 15355--15761 Score: 443
Period size: 37 Copynumber: 10.9 Consensus size: 37
15345 CATTTTATAT
* ** *
15355 ATATATATATTATATAG-TTTGCAAACGGTTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAAC-ATTTTTGAAA
* *
15392 ATGTATATAATATATA-TTTTTAAAACATTTTAGAAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTG--AAA
15430 ATATATATAATATATAGTTTTTAAAATCA-TTTTG-AA
1 ATATATATAATATATAGTTTTTAAAA-CATTTTTGAAA
* * *
15466 ATTTATATAATATATAATTTTGAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* *
15503 ATTTATATAATATATAGTTTTGAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* *
15540 ATTTATATAATATATAGTTTTGAAAACA-TTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTG-AAA
* * *
15577 CATTTATATATTATATAGTTTTTAAAA-ACGTTTTGAAA
1 -ATATATATAATATATAGTTTTTAAAACA-TTTTTGAAA
15615 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* *
15652 ATATATATATTATATAATTTTTTAAAACATTTTTGAAA
1 ATATATATAATATAT-AGTTTTTAAAACATTTTTGAAA
* * *
15690 ATACATATAATATATAATTTTTTTAAAAACA-TTTTGGAA
1 ATATATATAATATAT-A-GTTTTT-AAAACATTTTTGAAA
* *
15729 ATATATATAATATAT-TTTTTTGAAAATATTTTT
1 ATATATATAATATATAGTTTTT-AAAACATTTTT
15762 ATTATTATTT
Statistics
Matches: 329, Mismatches: 25, Indels: 32
0.85 0.06 0.08
Matches are distributed among these distances:
35 2 0.01
36 51 0.16
37 141 0.43
38 82 0.25
39 45 0.14
40 8 0.02
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.46
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
Found at i:15573 original size:11 final size:11
Alignment explanation
Indices: 15557--15581 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15547 TAATATATAG
15557 TTTTGAAAACA
1 TTTTGAAAACA
15568 TTTTGAAAACA
1 TTTTGAAAACA
15579 TTT
1 TTT
15582 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:15585 original size:112 final size:110
Alignment explanation
Indices: 15383--15761 Score: 460
Period size: 112 Copynumber: 3.4 Consensus size: 110
15373 TTGCAAACGG
* * *
15383 TTTTTGAAAATGTATATAATATATA-TTTTTAAAACATTTTAGAAAAAATATATATAATATATAG
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTTG--AAAATATATATAATATATAG
*
15447 TTTTTAAAATCATTTTG-AAATTTATATAATATATAATTTTGAAAACA
64 TTTTTAAAA-CATTTTGAAAATTTATATAATATATAATTTTAAAAACA
* *
15494 TTTTTGAAAATTTATATAATATATAGTTTTGAAAACATTTTTGAAAATTTATATAATATATAGTT
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTT
* * *
15559 TTGAAAACATTTTGAAAACATTTATATATTATATAGTTTTTAAAAAC-
66 TTTAAAACATTTTG-AAA-ATTTATATAATATATA-ATTTTAAAAACA
* * * *
15606 GTTTTGAAAATATATATAATATATAGTTTTTAAAACATTTTTGAAAATATATATATTATATAATT
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATAT-AGT
**
15671 TTTTAAAACATTTTTGAAAATACATATAATATATAATTTTTTTAAAAACA
65 TTTTAAAACA-TTTTGAAAATTTATATAATATATAA---TTTTAAAAACA
* ** *
15721 -TTTTGGAAATATATATAATATATTTTTTTGAAAATATTTTT
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTT
15762 ATTATTATTT
Statistics
Matches: 233, Mismatches: 24, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
109 7 0.03
110 27 0.12
111 26 0.11
112 99 0.42
113 23 0.10
114 51 0.22
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (110 bp):
TTTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTT
TTTAAAACATTTTGAAAATTTATATAATATATAATTTTAAAAACA
Found at i:15776 original size:112 final size:111
Alignment explanation
Indices: 15384--15761 Score: 446
Period size: 114 Copynumber: 3.4 Consensus size: 111
15374 TGCAAACGGT
* * * *
15384 TTTTGAAAATGTATATAATATATATTTTT-AAAACATTTTAGAAAAAATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATATTTTTGAAAACATTTTTG-AAAATTATATATTATATATAGT
** *
15448 TTTTAAAATCATTTTGAAATTTATATAATATATAA--TTTTGAAAACA
65 TTTTAAAA-CATTTTGAAATACATATAATATATAATTTTTTAAAAACA
* * *
15494 TTTTTGAAAATTTATATAATATATAGTTTTGAAAACATTTTTGAAAATT-TATATAATATATAGT
1 -TTTTGAAAATATATATAATATATATTTTTGAAAACATTTTTGAAAATTATATATTATATATAGT
* * * *
15558 TTTGAAAACATTTTGAAA-ACATTTATATATTATATAGTTTTTAAAAACG
65 TTTTAAAACATTTTGAAATACATATA-ATA-TATA-ATTTTTTAAAAACA
*
15607 TTTTGAAAATATATATAATATATAGTTTTT-AAAACATTTTTGAAAATATATATATTATATA-AT
1 TTTTGAAAATATATATAATATATA-TTTTTGAAAACATTTTTGAAAAT-TATATATTATATATAG
15670 TTTTTAAAACATTTTTGAAAATACATATAATATATAATTTTTTTAAAAACA
64 TTTTTAAAACA-TTTTG-AAATACATATAATATATAA-TTTTTTAAAAACA
* * *
15721 TTTTGGAAATATATATAATATATTTTTTTGAAAATATTTTT
1 TTTTGAAAATATATATAATATATATTTTTGAAAACATTTTT
15762 ATTATTATTT
Statistics
Matches: 232, Mismatches: 21, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
108 4 0.02
109 13 0.06
110 26 0.11
111 33 0.14
112 51 0.22
113 31 0.13
114 62 0.27
115 6 0.03
116 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (111 bp):
TTTTGAAAATATATATAATATATATTTTTGAAAACATTTTTGAAAATTATATATTATATATAGTT
TTTAAAACATTTTGAAATACATATAATATATAATTTTTTAAAAACA
Found at i:15804 original size:22 final size:20
Alignment explanation
Indices: 15755--15808 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
15745 TTTTTGAAAA
15755 TATTT-TTATTATTATTTAT
1 TATTTCTTATTATTATTTAT
*
15774 TATTATTCTTCTTATTATTTTATT
1 TA-T-TTCTTATTATTA-TTTA-T
15798 TATTTCTTATT
1 TATTTCTTATT
15809 TCTTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 2 0.07
20 1 0.04
21 2 0.07
22 15 0.54
23 5 0.18
24 3 0.11
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTCTTATTATTATTTAT
Found at i:17063 original size:18 final size:20
Alignment explanation
Indices: 17042--17090 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
17032 CCTTATTTCC
17042 TTTAAAATTATTATT-A-TT
1 TTTAAAATTATTATTCATTT
*
17060 TTT-ATATT-TTATTCATTT
1 TTTAAAATTATTATTCATTT
17078 TTTATAAATTATT
1 TTTA-AAATTATT
17091 TTAAGTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.21
17 5 0.21
18 8 0.33
20 4 0.17
21 2 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTAAAATTATTATTCATTT
Found at i:21097 original size:95 final size:95
Alignment explanation
Indices: 20978--21240 Score: 395
Period size: 95 Copynumber: 2.7 Consensus size: 95
20968 AAATTATAAT
* *
20978 ATTATATATATACAATAAATCTTGAGTTGTCCTTCTAAAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATATATATACAATAAA-CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
*
21043 TGGATAAGATTGAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
21074 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
1 ATTATATATATACAATAAA-CTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTA
*
21138 TGGATAATATTCAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * *
21169 ATTATAATATTTATACAATGATA-TTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCT
1 ATTAT-ATA--TATACAAT-AAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
21233 TTATGGAT
62 TTATGGAT
21241 TCAGCTAGCC
Statistics
Matches: 154, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
95 89 0.58
96 7 0.05
97 1 0.01
98 47 0.31
99 8 0.05
100 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (95 bp):
ATTATATATATACAATAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:22547 original size:83 final size:83
Alignment explanation
Indices: 22131--23288 Score: 1305
Period size: 83 Copynumber: 13.9 Consensus size: 83
22121 ACTATTGGCG
* * * * * *
22131 GCATAACTCAAGGCTAGAAGGGTTATTTTCCAACAAAAGACCTTTGAGTTCAACTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCT
* *
22196 TAACGGCACATCATTTGCA
65 CAAAGGCACATCATTTGCA
* * * * * * * *
22215 ACATACCTTAAGTCGAGAAGGGCTATCAGCCAACCAAAGACCCTCGAGTTCGATTACACTCAGCG
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCAGC-
* * *
22280 TCGAGGGTACATCATTTGCA
64 TCAAAGGCACATCATTTGCA
* * * * *
22300 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTTGACTACGCTCAGTT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCT
* * *
22365 CAACGACACATCATTTGTA
65 CAAAGGCACATCATTTGCA
* * * * * *
22384 GCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
22449 CCAAGGCACATCATTTGTA
65 CAAAGGCACATCATTTGCA
* * * *
22468 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCAAGTTCGATTACACTCAACTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
22533 AAAGGCACAACATTTGCA
66 AAAGGCACATCATTTGCA
* * * * * ** *
22551 GCATAGCTTAAGTCGAGAAGGGCTATCTATCATCCAAAGACCTTCGAGTTCGATTACACTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
22616 CCAAGGCACATCATTTCCA
65 CAAAGGCACATCATTTGCA
* * *
22635 GCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTTGATTACACTTAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
22700 AAAGGCACATCATTTGCA
66 AAAGGCACATCATTTGCA
* * * * ** *
22718 GCATAGAAT-AAGTCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAAC
1 GCATA-ACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCAGC
*
22782 TCCAAGGCACATCATTTGCA
64 TCAAAGGCACATCATTTGCA
* *
22802 GCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
22867 AAAGGCACAACATTTGCA
66 AAAGGCACATCATTTGCA
* * * * * * * *
22885 GCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTTGAGTTTGATTACACTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
22950 CCAAGGCACATCATTTACA
65 CAAAGGCACATCATTTGCA
* * *
22969 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCAATTACACTCAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
23034 AAAGGCACATCATTTGCA
66 AAAGGCACATCATTTGCA
* * * * * * *
23052 GCATAGCTTAAGTCGAGAAGGGTTATCTGTCATCCAAGACCTTCGAGTTCGATTACACTCAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
* ** *
23117 CAAGATACATCATTTACA
66 AAAGGCACATCATTTGCA
* * *
23135 GCATAACTCAAGGCTAGAAGGGTTATCTTCCAACAAAGACCTTCTAGTTCGATTACACTCAACTC
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
* *
23200 AAAGGCTCAACATTTGCA
66 AAAGGCACATCATTTGCA
* * * * * *
23218 GAATAGCTTAA-G-TCGAAGGGTTATCTGCCATCCAAAGACCTTCGAGTTCGATTACATTCAGCT
1 GCATAACTCAAGGCTAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGATTACACTCAGCT
*
23281 CAGAGGCA
65 CAAAGGCA
23289 AATAAAACTT
Statistics
Matches: 896, Mismatches: 168, Indels: 22
0.83 0.15 0.02
Matches are distributed among these distances:
81 16 0.02
82 35 0.04
83 402 0.45
84 376 0.42
85 67 0.07
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (83 bp):
GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
AAAGGCACATCATTTGCA
Found at i:22595 original size:167 final size:167
Alignment explanation
Indices: 22131--23281 Score: 1610
Period size: 167 Copynumber: 6.9 Consensus size: 167
22121 ACTATTGGCG
* * * *
22131 GCATAACTCAAGGCTAGAAGGGTTATTT-TCCAACAAAAGACCTTTGAGTTCAACTACGCTCAGC
1 GCATAACTCAAGGCTAGAAGGGTTATTTGT-CAAC-AAAGACCTTCGAGTTCGATTACACTCAGC
* * * * * * *
22195 TTAACGGCACATCATTTGCAACATACCTTAAGTCGAGAAGGGCTATCAGCCAACCAAAGACCCTC
64 TCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTC
* * *
22260 GAGTTCGATTACACTCAGCGTCGAGGGTACATCATTTGCA
129 GAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTGCA
* * * * * * *
22300 GCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTTGACTACGCTCAGTT
1 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCT
* * * * *
22365 CAACGACACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCG
65 CAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTCG
* * *
22430 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTA
130 AGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCA
* *
22468 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCAAGTTCGATTACACTCAACTC
1 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
* **
22533 AAAGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTATCATCCAAAGACCTTCGA
66 AAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTCGA
*
22598 GTTCGATTACACTCAGCTCCAAGGCACATCATTTCCA
131 GTTCGATTACACTCAGCTCCAAGGCACATCATTTGCA
* ** * *
22635 GCATAACTCAAGGCTAGAAGGGTTATCTACCAACAAAGACCTTCGAGTTTGATTACACTTAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
** * *
22700 AAAGGCACATCATTTGCAGCATAGAATAAGTCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGA
66 AAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTCGA
* ** *
22765 GTTCGACTATGCTCAACTCCAAGGCACATCATTTGCA
131 GTTCGATTACACTCAGCTCCAAGGCACATCATTTGCA
* *
22802 GCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
* *
22867 AAAGGCACAACATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTTGA
66 AAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTCGA
* *
22932 GTTTGATTACACTCAGCTCCAAGGCACATCATTTACA
131 GTTCGATTACACTCAGCTCCAAGGCACATCATTTGCA
*
22969 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCAATTACACTCAGCTC
1 GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
* *
23034 AAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGTCATCC-AAGACCTTCGA
66 AAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTCGA
** *
23098 GTTCGATTACACTCAGCTCCAAGATACATCATTTACA
131 GTTCGATTACACTCAGCTCCAAGGCACATCATTTGCA
* * *
23135 GCATAACTCAAGGCTAGAAGGGTTATCTT-CCAACAAAGACCTTCTAGTTCGATTACACTCAACT
1 GCATAACTCAAGGCTAGAAGGGTTAT-TTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * *
23199 CAAAGGCTCAACATTTGCAGAATAGCTTAAGTC--GAAGGGTTATCTGCCATCCAAAGACCTTCG
65 CAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTCG
*
23262 AGTTCGATTACATTCAGCTC
130 AGTTCGATTACACTCAGCTC
23282 AGAGGCAAAT
Statistics
Matches: 886, Mismatches: 93, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
164 18 0.02
165 29 0.03
166 131 0.15
167 528 0.60
168 48 0.05
169 132 0.15
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (167 bp):
GCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTC
AAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCATCCAAAGACCTTCGA
GTTCGATTACACTCAGCTCCAAGGCACATCATTTGCA
Found at i:23998 original size:75 final size:71
Alignment explanation
Indices: 23918--24168 Score: 248
Period size: 64 Copynumber: 3.5 Consensus size: 71
23908 TGTAAACGGT
*
23918 TTTTGAAAATGTATATAATATATAGTTTTAAAAAAACACTTTTGAAAACTATCTAATATATAGTT
1 TTTTGAAAATATATATAATATATAGTTTT-AAAAAACA-TTTTGAAAA-TAT-TAATATATAGTT
23983 TTTAAAATCA
62 TTTAAAATCA
* *
23993 TTTTGAAAACT-TATATAATATATAGTTTT-GAAAACA-TTT----ATA-TATTATATAGTTTTT
1 TTTTGAAAA-TATATATAATATATAGTTTTAAAAAACATTTTGAAAATATTAATATATAGTTTTT
* *
24050 AAAAACG
65 AAAATCA
** *
24057 TTTTGAAAATATATATAATATATAGTTTTTTAAAACATTTTTGAAAATATATATATTATATAATT
1 TTTTGAAAATATATATAATATATAGTTTTAAAAAACA-TTTTGAAAATAT-TA-A-TATATAGTT
*
24122 TTTTAAATCA
62 TTTAAAATCA
* *
24132 TTTTTGAAAATACATATAATATATAATTTTTAAAAAA
1 -TTTTGAAAATATATATAATATAT-AGTTTTAAAAAA
24169 AAATTAGAAA
Statistics
Matches: 147, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
63 1 0.01
64 46 0.31
65 6 0.04
66 2 0.01
67 4 0.03
71 6 0.04
73 8 0.05
75 42 0.29
76 23 0.16
77 9 0.06
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (71 bp):
TTTTGAAAATATATATAATATATAGTTTTAAAAAACATTTTGAAAATATTAATATATAGTTTTTA
AAATCA
Found at i:24021 original size:25 final size:26
Alignment explanation
Indices: 23993--24053 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
23983 TTTAAAATCA
23993 TTTTGAAAAC-TTATATAATATATAG
1 TTTTGAAAACATTATATAATATATAG
*
24018 TTTTGAAAACATTTATATATTATATAG
1 TTTTGAAAACA-TTATATAATATATAG
*
24045 TTTTTAAAA
1 TTTTGAAAA
24054 ACGTTTTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 10 0.31
27 22 0.69
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (26 bp):
TTTTGAAAACATTATATAATATATAG
Found at i:24061 original size:139 final size:140
Alignment explanation
Indices: 23887--24166 Score: 365
Period size: 139 Copynumber: 2.0 Consensus size: 140
23877 ATATATACAT
*
23887 ACATATATATATTATATAGTTTGTAAACGGTTTTTGAAAATGTATATAATATATAGTTTTAAAAA
1 ACATATATATATTATATAGTTTGTAAACGGTTTTTGAAAATATATATAATATATAGTTTT-AAAA
* * *
23952 AACACTTTTGAAAACTATCTA-A-TATATAGTTTTTAAAATCA-TTTTGAAAACT-TATATAATA
65 AACACTTTTGAAAA-TATATATATTATATAATTTTTAAAATCATTTTTGAAAA-TACATATAATA
*
24013 TATAGTTTTGAAA
128 TATAATTTTGAAA
* * **
24026 ACATTTATATATTATATAGTTTTTAAAAAC-G-TTTTGAAAATATATATAATATATAGTTTTTTA
1 ACATATATATATTATATAGTTTGT--AAACGGTTTTTGAAAATATATATAATATATAGTTTTAAA
* *
24089 AAACATTTTTGAAAATATATATATTATATAATTTTTTAAATCATTTTTGAAAATACATATAATAT
64 AAACACTTTTGAAAATATATATATTATATAATTTTTAAAATCATTTTTGAAAATACATATAATAT
*
24154 ATAATTTTTAAA
129 ATAATTTTGAAA
24166 A
1 A
24167 AAAAATTAGA
Statistics
Matches: 123, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
137 5 0.04
138 16 0.13
139 68 0.55
140 30 0.24
141 4 0.03
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (140 bp):
ACATATATATATTATATAGTTTGTAAACGGTTTTTGAAAATATATATAATATATAGTTTTAAAAA
ACACTTTTGAAAATATATATATTATATAATTTTTAAAATCATTTTTGAAAATACATATAATATAT
AATTTTGAAA
Found at i:24099 original size:38 final size:38
Alignment explanation
Indices: 24031--24167 Score: 186
Period size: 38 Copynumber: 3.6 Consensus size: 38
24021 TGAAAACATT
* * *
24031 TATATATTATATAGTTTTTAAAAAC-GTTTTGAAAATA
1 TATATAATATATAATTTTTAAAAACATTTTTGAAAATA
* *
24068 TATATAATATATAGTTTTTTAAAACATTTTTGAAAATA
1 TATATAATATATAATTTTTAAAAACATTTTTGAAAATA
* * *
24106 TATATATTATATAATTTTTTAAATCATTTTTGAAAATA
1 TATATAATATATAATTTTTAAAAACATTTTTGAAAATA
*
24144 CATATAATATATAATTTTTAAAAA
1 TATATAATATATAATTTTTAAAAA
24168 AAAATTAGAA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
37 23 0.26
38 66 0.74
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (38 bp):
TATATAATATATAATTTTTAAAAACATTTTTGAAAATA
Found at i:24214 original size:3 final size:3
Alignment explanation
Indices: 24204--24241 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
24194 TTTTTGAAAA
24204 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24242 TCTTATTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:28910 original size:72 final size:72
Alignment explanation
Indices: 28788--28927 Score: 271
Period size: 72 Copynumber: 1.9 Consensus size: 72
28778 ATCATAAATC
*
28788 AGATCCTGGTATGGGGATTTGTTGAACATCTCGTCTGAAACAGGGGGTGCCGTAGTTAAGCAGAG
1 AGATACTGGTATGGGGATTTGTTGAACATCTCGTCTGAAACAGGGGGTGCCGTAGTTAAGCAGAG
28853 GGAAAGA
66 GGAAAGA
28860 AGATACTGGTATGGGGATTTGTTGAACATCTCGTCTGAAACAGGGGGTGCCGTAGTTAAGCAGAG
1 AGATACTGGTATGGGGATTTGTTGAACATCTCGTCTGAAACAGGGGGTGCCGTAGTTAAGCAGAG
28925 GGA
66 GGA
28928 GCTAGATGTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (72 bp):
AGATACTGGTATGGGGATTTGTTGAACATCTCGTCTGAAACAGGGGGTGCCGTAGTTAAGCAGAG
GGAAAGA
Found at i:34644 original size:18 final size:18
Alignment explanation
Indices: 34621--34668 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
34611 AAATTGTCCT
*
34621 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
*
34639 TATTATA-AATTGTAAAA
1 TATTATATATTTGTAAAA
34656 TATTTATATATTT
1 TA-TTATATATTT
34669 TTTTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:35866 original size:61 final size:61
Alignment explanation
Indices: 35792--35913 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
35782 TGCAGTATGT
* *
35792 CTCAATAGTGCAAAATGTGACTGCACTAGGGAATGCTTAACCCTGGGCAGCATATGTGCAA
1 CTCAATAGTGCAAAATGTGACTGCACTAGGAAATGCTTAACCCTGGGCAGCAGATGTGCAA
* *
35853 CTCAATAGTGCAAAATGTGGCTGCACTAGGAAATGCTTACCCCTGGGCAGCAGATGTGCAA
1 CTCAATAGTGCAAAATGTGACTGCACTAGGAAATGCTTAACCCTGGGCAGCAGATGTGCAA
35914 TGTAAACGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (61 bp):
CTCAATAGTGCAAAATGTGACTGCACTAGGAAATGCTTAACCCTGGGCAGCAGATGTGCAA
Found at i:38912 original size:31 final size:31
Alignment explanation
Indices: 38869--39016 Score: 84
Period size: 31 Copynumber: 4.6 Consensus size: 31
38859 ATTTTGATCA
38869 ATTTTTTT-AAAAAAATTAGGATCGGGTCGG
1 ATTTTTTTAAAAAAAATTAGGATCGGGTCGG
* * *
38899 ATTTTTTTAAAAAATATTCGGGTCAGTCGGGTTGG
1 ATTTTTTTAAAAAAAATT-AGG--A-TCGGGTCGG
* *** * * * * *
38934 GTTTTTTTAAGTTTGATATTCGGGTCTGGTCAG
1 ATTTTTTTAA--AAAAAATTAGGATCGGGTCGG
* *
38967 ATTTTTTTTAAAAAAA-TCGAGATCGGGTCGG
1 ATTTTTTTAAAAAAAATTAG-GATCGGGTCGG
*
38998 ATTTTTTTTAAAAAAATTA
1 ATTTTTTTAAAAAAAATTA
39017 TTTGTTTCGG
Statistics
Matches: 87, Mismatches: 22, Indels: 16
0.70 0.18 0.13
Matches are distributed among these distances:
30 11 0.13
31 34 0.39
32 3 0.03
33 14 0.16
34 1 0.01
35 17 0.20
36 2 0.02
37 5 0.06
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (31 bp):
ATTTTTTTAAAAAAAATTAGGATCGGGTCGG
Found at i:40892 original size:21 final size:22
Alignment explanation
Indices: 40840--40899 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
40830 CGTTATAGTG
* *
40840 TTGACGTGACAGTTCAC-AGTA
1 TTGACATGACGGTTCACGAGTA
*
40861 TTGACAAGACGGTTCACGA-TA
1 TTGACATGACGGTTCACGAGTA
* *
40882 TTGATATGACGTTTCACG
1 TTGACATGACGGTTCACG
40900 GTGCTGACGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 31 0.97
22 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (22 bp):
TTGACATGACGGTTCACGAGTA
Found at i:44419 original size:15 final size:16
Alignment explanation
Indices: 44394--44428 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
44384 TCATCATAAA
44394 ATATAATTGAAATATT
1 ATATAATTGAAATATT
44410 ATAT-ATTGAAATATT
1 ATATAATTGAAATATT
44425 ATAT
1 ATAT
44429 CAGGAGCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (16 bp):
ATATAATTGAAATATT
Found at i:45295 original size:40 final size:39
Alignment explanation
Indices: 45212--45298 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
45202 CAACCTTAGG
* * * *
45212 GGTTTCAAAACCTTACCAATTTATTACATTCTGACCAAG
1 GGTTTCGAAACCTTACAAATTTATTACATTCTGACAAAA
* *
45251 GGTTTCGAAACCTCTGCAAATTT-TTACCTTCTCGACAAAA
1 GGTTTCGAAACCT-TACAAATTTATTACATTCT-GACAAAA
45291 GGTTTCGA
1 GGTTTCGA
45299 TTCTGAAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (39 bp):
GGTTTCGAAACCTTACAAATTTATTACATTCTGACAAAA
Found at i:51527 original size:21 final size:21
Alignment explanation
Indices: 51460--51532 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
51450 TATCGATACT
* *
51460 GTATCGATACAC-ATTCAAGGA
1 GTATCGATAC-CTATTAAAGCA
* * *
51481 GTATCGATA-GTGTTAAGAACA
1 GTATCGATACCTATTAA-AGCA
*
51502 ATATCGATACCTATTAAAGCA
1 GTATCGATACCTATTAAAGCA
51523 GTATCGATAC
1 GTATCGATAC
51533 TATGATAATA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.08
21 31 0.79
22 5 0.13
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (21 bp):
GTATCGATACCTATTAAAGCA
Found at i:51592 original size:20 final size:20
Alignment explanation
Indices: 51563--51609 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
51553 CTAGAAGAGT
51563 AGTATCGGTACTGGGTGACC
1 AGTATCGGTACTGGGTGACC
*
51583 AGTATTGGTACTGGGTGACC
1 AGTATCGGTACTGGGTGACC
*
51603 AATATCG
1 AGTATCG
51610 ATACCAAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (20 bp):
AGTATCGGTACTGGGTGACC
Found at i:59944 original size:117 final size:117
Alignment explanation
Indices: 59584--60084 Score: 586
Period size: 117 Copynumber: 4.3 Consensus size: 117
59574 GATCGGACGT
* * ** * * *
59584 GTTCTTCTCATTATGAACTCTTCGCTGGTGATG-TCAGTCCACTTCATTCTGTGATGGAATC--A
1 GTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGA-TCCACCTCATTCTTTGATGGAATCAAA
* * * *
59646 CCAAGGTTGAACAAGTTCTTCTCACTATGAACTTCTTCTCCCTCT-TCGAATGA
65 CAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCT-TGTCGGATGA
* * **
59699 GTTCTTCTCATTATGAGCTCTCCACTGGAAATGTTGATCCACCTCATT-TTGTGATGGTATTGAA
1 GTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTT-TGATGGAATCAAA
*
59763 CAAAGGTTGAAACAAG---TTCTCATTATGAACTTATTCTCCCTCGTCGGATGA
65 CAAAGGTTG-AACAAGTTCTTCTCATTATGAACTTATTCTCCCTTGTCGGATGA
* * * *
59814 GTTCTTCTCATTATGAACTCTCTATTGGAAATGTTGATCCACCTCCTTCTTTGATGAAATCAAAC
1 GTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTTTGATGGAATCAAAC
* * *
59879 AAAGGTTGAACAAGTTATTCTCATTATGAACTTTTTCTCCCTTATCGGATGA
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTTGTCGGATGA
* *
59931 GTTCTTCTCATTATGAACTCTCTACTAGAAATGTTGATCCACCTCATTCTTTGATGGAATCAAAC
1 GTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTTTGATGGAATCAAAC
* * * * * ** **
59996 CAATGTTGAATAAGTTCTTATCAATATGAACTTATTCTCTATTGTTTGATGA
66 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTTGTCGGATGA
* *
60048 GTTCTTCTCATTATAAACTCTCCACTGGAAATATTGA
1 GTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGA
60085 GTCAATATTG
Statistics
Matches: 330, Mismatches: 46, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
114 7 0.02
115 138 0.42
116 4 0.01
117 175 0.53
118 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (117 bp):
GTTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACCTCATTCTTTGATGGAATCAAAC
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTTGTCGGATGA
Found at i:60158 original size:91 final size:91
Alignment explanation
Indices: 59995--60354 Score: 481
Period size: 91 Copynumber: 4.0 Consensus size: 91
59985 TGGAATCAAA
* * * * ** * *
59995 CCAATGTTGAATAAGTTCTTATCAATATGAACTTATTCTCTATTGTTTGATGAGTTCTTCTCATT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATT
* *
60060 ATAAACTCTCCACTGGAAATATTGAG
66 ATGAACTCTCCACTGGAAATGTTGAG
* ** * *
60086 TCAATATTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATT
*
60151 ATGAACTCTCTACTGGAAATGTTGAG
66 ATGAACTCTCCACTGGAAATGTTGAG
* * * *
60177 CCAAGGTTGAACAAGTTCTTCACATTATGAACTTATCCTCCCTCGTTGGATGACTTTTTCTCATT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATT
* *
60242 ATGAACTCTCGATTGGAAATGTTGAG
66 ATGAACTCTCCACTGGAAATGTTGAG
*
60268 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTT-TATCTCAT
1 CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCT-TCTCAT
60332 TATGAACTCTCCA-TCGGAAATGT
65 TATGAACTCTCCACT-GGAAATGT
60355 CAATCCCTCA
Statistics
Matches: 237, Mismatches: 30, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
90 2 0.01
91 235 0.99
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (91 bp):
CCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCCTCGTTGGATGAGTTCTTCTCATT
ATGAACTCTCCACTGGAAATGTTGAG
Found at i:61612 original size:42 final size:40
Alignment explanation
Indices: 61505--61612 Score: 90
Period size: 42 Copynumber: 2.6 Consensus size: 40
61495 AGGTCTTATG
** *
61505 GATGGTCCGAAGGACTTATCATCTTGCTCGAAAGACTTAAA
1 GATGG-CCGAAGGACTTATCATCACGCTCAAAAGACTTAAA
* * * * **
61546 AATGACCCGAAGGATTTAAGCATCACGCTCAAAAGACTTACT
1 GATG-GCCGAAGGACTT-ATCATCACGCTCAAAAGACTTAAA
61588 GATGGCCAGAAGGACTTACTCATCA
1 GATGGCC-GAAGGACTTA-TCATCA
61613 AGAAACCCGT
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
GATGGCCGAAGGACTTATCATCACGCTCAAAAGACTTAAA
Found at i:61928 original size:193 final size:192
Alignment explanation
Indices: 61589--61996 Score: 574
Period size: 193 Copynumber: 2.1 Consensus size: 192
61579 AGACTTACTG
* * *
61589 ATGGCCAGAAGGACTTACTCATCAAGAAACCCGTGAAAATCAAGCTTAGTTTCTTAGTTGTCAAT
1 ATGGCCCGAAGGACTTACTCATCAAGAAACCAGTGAAAATCAAGCCTAGTTTCTTAGTTGTCAAT
* *
61654 AAGCCCCTAAAAATTAGGCTTAGTTTCCTTTTAAAAAACTATTTCGAGATAATCATCAAGAAACC
66 AAGCCCCTAAAAATTAGGCTTAGCTTCCTTTTAAAAAAC-ATTTCGAAATAATCATCAAGAAACC
* * * * * * *
61719 CCTAAAACTTAGGCTTAGTTTCTTAAAACTCATTTGAGAACATCCTACCCGAAGGTTTTATGA
130 CCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATCCTACCCAAAGGTCTTATGA
* *
61782 ATGGCTCGAAGGACTTACTCATCAAGAAACCATTGAAAATCAAGCCTAGTTTCTTAGTTGTC-AT
1 ATGGCCCGAAGGACTTACTCATCAAGAAACCAGTGAAAATCAAGCCTAGTTTCTTAGTTGTCAAT
*
61846 CAAGGAACCCCTAAAAATTAGGCTTAGCTTCCTTTT-AAAAAC-TTT-GAAAATAATCTTCAAGA
66 -AA-G--CCCCTAAAAATTAGGCTTAGCTTCCTTTTAAAAAACATTTCG-AAATAATCATCAAGA
*
61908 AACCCCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATCCTGCCCAAAGGTCTTAT
126 AACCCCTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATCCTACCCAAAGGTCTTAT
*
61973 GG
191 GA
61975 ATGGCCCGAAGGACTTA-TCATC
1 ATGGCCCGAAGGACTTACTCATC
61997 TTGCTTGAAA
Statistics
Matches: 192, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
192 8 0.04
193 149 0.78
194 1 0.01
195 6 0.03
196 28 0.15
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (192 bp):
ATGGCCCGAAGGACTTACTCATCAAGAAACCAGTGAAAATCAAGCCTAGTTTCTTAGTTGTCAAT
AAGCCCCTAAAAATTAGGCTTAGCTTCCTTTTAAAAAACATTTCGAAATAATCATCAAGAAACCC
CTAAAAATCAGGCTTAATTTCTAAAAACTCATTTGAAAACATCCTACCCAAAGGTCTTATGA
Found at i:64260 original size:17 final size:16
Alignment explanation
Indices: 64238--64316 Score: 104
Period size: 17 Copynumber: 4.8 Consensus size: 16
64228 ATTTGATCAG
* *
64238 TTTTCTTTCTTTTATAT
1 TTTTCTTT-TTTTCTTT
64255 TTTTCTTTTTCTTCTTT
1 TTTTCTTTTT-TTCTTT
64272 TTTTCTTTTTTTCTTT
1 TTTTCTTTTTTTCTTT
*
64288 TTTCTTTTTTTTTCTTT
1 TTT-TCTTTTTTTCTTT
64305 TTTTCTTTTTTT
1 TTTTCTTTTTTT
64317 ATTCTTCCTC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
16 19 0.34
17 37 0.66
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTTTTCTTT
Found at i:64264 original size:1 final size:1
Alignment explanation
Indices: 64254--64316 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
64244 TTCTTTTATA
* * * * * * * *
64254 TTTTTCTTTTTCTTCTTTTTTTCTTTTTTTCTTTTTTCTTTTTTTTTCTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
64317 ATTCTTCCTC
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:64315 original size:25 final size:26
Alignment explanation
Indices: 64240--64315 Score: 111
Period size: 25 Copynumber: 3.0 Consensus size: 26
64230 TTGATCAGTT
* *
64240 TTCTTTCTTTTATATTTTTC-TTTTTC
1 TTCTTT-TTTTCTTTTTTTCTTTTTTC
64266 TTCTTTTTTTCTTTTTTTCTTTTTTC
1 TTCTTTTTTTCTTTTTTTCTTTTTTC
64292 TT-TTTTTTTCTTTTTTTCTTTTTT
1 TTCTTTTTTTCTTTTTTTCTTTTTT
64316 TATTCTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 33 0.70
26 14 0.30
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (26 bp):
TTCTTTTTTTCTTTTTTTCTTTTTTC
Found at i:68082 original size:9 final size:9
Alignment explanation
Indices: 68070--68094 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
68060 AAAAACAATA
68070 AAAAATAGG
1 AAAAATAGG
68079 AAAAATAGG
1 AAAAATAGG
68088 AAAAATA
1 AAAAATA
68095 ACATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (9 bp):
AAAAATAGG
Found at i:75701 original size:28 final size:23
Alignment explanation
Indices: 75642--75704 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
75632 CATGTCGATT
*
75642 TTTATATTGTATTATATCTCATC
1 TTTATATTATATTATATCTCATC
75665 TTTATATTATATTATATCTCATC
1 TTTATATTATATTATATCTCATC
75688 TTTATATTATATTATAT
1 TTTATATTATATTATAT
75705 GCTGTAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTATATTATATTATATCTCATC
Found at i:80735 original size:50 final size:49
Alignment explanation
Indices: 80666--80792 Score: 123
Period size: 50 Copynumber: 2.6 Consensus size: 49
80656 TTAGCAGAAA
* * * *
80666 AACGCGCCTCCTGCA-CCGCGCTATATGCTAATTTGGTGTCACGTGGGTAT
1 AACGCGCC-CCTG-ATCCGCGCTATACGCTAATCTGGCGCCACGTGGGTAT
** * * *
80716 AGTGCGCCCCCT-ATCCCGCGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AACGCG-CCCCTGAT-CCGCGCTATACGCTAATCTGGCGCCACGTGGGTAT
80766 AACGCGCCCCTGATCCGCGCTATACGC
1 AACGCGCCCCTGATCCGCGCTATACGC
80793 CACGTAGGGG
Statistics
Matches: 60, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
48 1 0.02
49 16 0.27
50 41 0.68
51 2 0.03
ACGTcount: A:0.17, C:0.33, G:0.27, T:0.23
Consensus pattern (49 bp):
AACGCGCCCCTGATCCGCGCTATACGCTAATCTGGCGCCACGTGGGTAT
Found at i:83127 original size:21 final size:18
Alignment explanation
Indices: 83087--83121 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
83077 AGGCGATGGC
83087 GGCATCATATATGGTTGT
1 GGCATCATATATGGTTGT
83105 GGCATCATATATGGTTG
1 GGCATCATATATGGTTG
83122 CGGTGGCTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (18 bp):
GGCATCATATATGGTTGT
Found at i:84770 original size:111 final size:111
Alignment explanation
Indices: 84632--84853 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
84622 ATTACAAAAA
* *
84632 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
84697 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
84743 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
84808 AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
84854 ATGATTTCCA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:84991 original size:12 final size:10
Alignment explanation
Indices: 84977--85017 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
84967 ACCTTAAAAA
*
84977 GAGAGTATTT
1 GAGAGAATTT
84987 GAGAGAAATTT
1 GAGAG-AATTT
84998 -AGAGAATTT
1 GAGAGAATTT
85007 GAGAGAATTT
1 GAGAGAATTT
85017 G
1 G
85018 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:88992 original size:21 final size:21
Alignment explanation
Indices: 88968--89024 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
88958 AAGGGTTAAG
88968 ACCTTTCGATAAAATGACTTA
1 ACCTTTCGATAAAATGACTTA
* *
88989 ACCTTTCGATTAAAGGACTTA
1 ACCTTTCGATAAAATGACTTA
* * *
89010 TCCTTTTGATGAAAT
1 ACCTTTCGATAAAAT
89025 AATCTAATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (21 bp):
ACCTTTCGATAAAATGACTTA
Found at i:93506 original size:136 final size:136
Alignment explanation
Indices: 93365--93625 Score: 395
Period size: 136 Copynumber: 1.9 Consensus size: 136
93355 ATTTTCTAAT
*
93365 TTATATA-AAAAT-TA-AATATTTTTTAATTCAAAAAAACAGTTT-CTAATTAATTTAAATAATA
1 TTATATATAAAATATATAATATTTTTTAATT-AAAAAAAAAGTTTAC-AATTAATTTAAATAATA
* ** *
93426 TATAATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAA
64 TATAACTATAAAATAAAAAAATTATATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAA
93491 GTCATATG
129 GTCATATG
* *
93499 TTATATATAATATATATAATATTTTTTTATTAAAAAAAAAGTTTACAATTAATTTAAATAATATA
1 TTATATATAAAATATATAATATTTTTTAATTAAAAAAAAAGTTTACAATTAATTTAAATAATATA
* *
93564 TAGCTATAAAATAAAAAAATTATATAAATTTTTTAATTAATTAGTATTGATTTAAGTTTAAA
66 TAACTATAAAATAAAAAAATTATATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAA
93626 TTTATTGTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
134 7 0.06
135 4 0.04
136 89 0.78
137 14 0.12
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (136 bp):
TTATATATAAAATATATAATATTTTTTAATTAAAAAAAAAGTTTACAATTAATTTAAATAATATA
TAACTATAAAATAAAAAAATTATATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGT
CATATG
Found at i:102948 original size:2 final size:2
Alignment explanation
Indices: 102941--102965 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102931 TTTATGCTTT
102941 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
102966 TGTAGACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:104764 original size:20 final size:20
Alignment explanation
Indices: 104746--104782 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
104736 ATGTTTTATT
104746 TTCATT-TTATT-CTTTTTA
1 TTCATTATTATTACTTTTTA
104764 TTCATTATTATTACTTTTT
1 TTCATTATTATTACTTTTT
104783 CATCATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCATTATTATTACTTTTTA
Found at i:104788 original size:20 final size:18
Alignment explanation
Indices: 104746--104791 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
104736 ATGTTTTATT
104746 TTCATTTTATTCTTTTTA
1 TTCATTTTATTCTTTTTA
104764 TTCATTATTATTACTTTTTCA
1 TTCATT-TTATT-CTTTTT-A
104785 -TCATTTT
1 TTCATTTT
104792 TAATCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.24
19 7 0.28
20 11 0.44
21 1 0.04
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCATTTTATTCTTTTTA
Found at i:104816 original size:14 final size:15
Alignment explanation
Indices: 104797--104826 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
104787 ATTTTTAATC
104797 TATATA-TTTGTATA
1 TATATATTTTGTATA
104811 TATATATTTTGTATA
1 TATATATTTTGTATA
104826 T
1 T
104827 CTACTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TATATATTTTGTATA
Found at i:104836 original size:18 final size:16
Alignment explanation
Indices: 104796--104838 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
104786 CATTTTTAAT
104796 CTATATATTTGTATATA
1 CTATAT-TTTGTATATA
104813 -TATATTTTGTATATCTA
1 CTATATTTTGTATA--TA
104830 CTATATTTT
1 CTATATTTT
104839 ATTATTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.35
16 5 0.22
17 2 0.09
18 8 0.35
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (16 bp):
CTATATTTTGTATATA
Found at i:104977 original size:13 final size:13
Alignment explanation
Indices: 104961--104993 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
104951 TTTCTTTTAC
*
104961 TTTTTTCTTT-AT
1 TTTTTTATTTCAT
104973 TTTTTTATTTCAT
1 TTTTTTATTTCAT
104986 TTTTTTAT
1 TTTTTTAT
104994 ATTCTTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTATTTCAT
Found at i:107383 original size:21 final size:21
Alignment explanation
Indices: 107359--107412 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
107349 ATTCGGATGA
107359 GGAGGA-CAAATCAAAGAAGAT
1 GGAGGACCAAAT-AAAGAAGAT
** * *
107380 GGAGGAGAAAATAAAGCAGTT
1 GGAGGACCAAATAAAGAAGAT
107401 GGAGGACCAAAT
1 GGAGGACCAAAT
107413 GAAGGTAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.11
Consensus pattern (21 bp):
GGAGGACCAAATAAAGAAGAT
Found at i:110452 original size:34 final size:35
Alignment explanation
Indices: 110395--110471 Score: 129
Period size: 34 Copynumber: 2.2 Consensus size: 35
110385 GTTTTTCTTA
110395 AAACAAATTTTGTCTCTCTTGAGACAGTTCCCCTTG
1 AAACAAATTTTG-CTCTCTTGAGACAGTTCCCCTTG
*
110431 AAACAAATTTTG-TCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGCTCTCTTGAGACAGTTCCCCTTG
110465 AAACAAA
1 AAACAAA
110472 ATCTTTGAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 28 0.70
36 12 0.30
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (35 bp):
AAACAAATTTTGCTCTCTTGAGACAGTTCCCCTTG
Found at i:110677 original size:37 final size:36
Alignment explanation
Indices: 110608--110677 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
110598 ATTGAAAACA
** *
110608 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAAAAAATTTTGTCTCTCCTGAGATAG
110644 TTTCCCTTGAAACAAAATTTTGTCT-TCCCTGAGA
1 TTTCCCTTGAAA-AAAATTTTGTCTCT-CCTGAGA
110678 CAACTTCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 13 0.45
37 16 0.55
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAAAAAATTTTGTCTCTCCTGAGATAG
Found at i:110677 original size:102 final size:102
Alignment explanation
Indices: 110552--111043 Score: 850
Period size: 102 Copynumber: 4.9 Consensus size: 102
110542 GCCTCTCTTT
*
110552 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
1 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
110616 GAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
66 GAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
** * * *
110653 AAACAAAATTTTGTCTTCCCT-GAGACAACTTCTCTTAAAATATAAACATTGAAAACATTTACCT
1 AAACAAAATTTTGTC-TCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCT
110717 TGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
65 TGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
110755 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
1 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
*
110820 GAAATGAATTTAGTCTCTCTTGAGATAGTTTCCCTTG
66 GAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
*
110857 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACAAAAACATTGAAAACATTTCCCTT
1 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
*
110922 AAAATGAATTTTGTCTCTCTTGAG--A-TTTCCCTTG
66 GAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
110956 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
1 AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
*
111021 AAAATGAATTTTGTCTCTCTTGA
66 GAAATGAATTTTGTCTCTCTTGA
111044 AACGAATTTT
Statistics
Matches: 373, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
99 96 0.26
100 1 0.00
101 9 0.02
102 262 0.70
103 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (102 bp):
AAACAAAATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT
GAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
Found at i:110768 original size:37 final size:37
Alignment explanation
Indices: 110724--110796 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
110714 CCTTGAAATG
* * *
110724 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTAGAGACAGTTTCCCTTGAAACAA
*
110761 AATTTTGTCTCCCTAGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTAGAGACAGTTTCCCTTGAAACA
110797 TAAACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
AATTTTGTCTCCCTAGAGACAGTTTCCCTTGAAACAA
Found at i:110887 original size:37 final size:37
Alignment explanation
Indices: 110812--110901 Score: 110
Period size: 37 Copynumber: 2.5 Consensus size: 37
110802 ATTGAAAACA
** * * *
110812 TTTCCCTTGAAA-TGAATTTAGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTAGTCTCCCTAGAGACAG
*
110848 TTTCCCTTGAAACAAAATTTTGTCTCCCTAGAGACAG
1 TTTCCCTTGAAACAAAATTTAGTCTCCCTAGAGACAG
*
110885 TTTCTCTTGAAACAAAA
1 TTTCCCTTGAAACAAAA
110902 ACATTGAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 12 0.26
37 34 0.74
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTAGTCTCCCTAGAGACAG
Found at i:111603 original size:18 final size:20
Alignment explanation
Indices: 111567--111634 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
111557 TCAGATGCTA
111567 TTATATTATATAATATATAT
1 TTATATTATATAATATATAT
*
111587 TTATGTTATA-AAT-TATAT
1 TTATATTATATAATATATAT
*
111605 TATATATTCAT-TTATATATAGT
1 T-TATATT-ATATAATATATA-T
111627 TTAT-TTAT
1 TTATATTAT
111635 TTACATTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
18 6 0.15
19 10 0.25
20 15 0.38
21 7 0.17
22 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (20 bp):
TTATATTATATAATATATAT
Found at i:111619 original size:12 final size:12
Alignment explanation
Indices: 111565--111623 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
111555 CTTCAGATGC
111565 TATTATATTATA
1 TATTATATTATA
111577 TA--ATA-TATA
1 TATTATATTATA
*
111586 T-TTATGTTATA
1 TATTATATTATA
*
111597 AATTATATTATA
1 TATTATATTATA
111609 TATTCAT-TTATA
1 TATT-ATATTATA
111621 TAT
1 TAT
111624 AGTTTATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
9 5 0.13
10 5 0.13
11 4 0.11
12 22 0.58
13 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (12 bp):
TATTATATTATA
Found at i:112691 original size:13 final size:13
Alignment explanation
Indices: 112673--112700 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
112663 TTACATCTTA
112673 TTTTATTTTATTT
1 TTTTATTTTATTT
112686 TTTTATTTTATTT
1 TTTTATTTTATTT
112699 TT
1 TT
112701 AAATAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:112829 original size:16 final size:15
Alignment explanation
Indices: 112778--112829 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
112768 TTTTCATCAT
112778 TTTTA-ATCTATATA
1 TTTTATATCTATATA
* *
112792 TTTGTATATATATATT
1 TTT-TATATCTATATA
112808 TTTTATATCTACTATA
1 TTTTATATCTA-TATA
112824 TTTTAT
1 TTTTAT
112830 TATTATGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.10
15 9 0.29
16 19 0.61
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (15 bp):
TTTTATATCTATATA
Found at i:113022 original size:19 final size:19
Alignment explanation
Indices: 112998--113034 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
112988 ATGACCAATA
*
112998 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
113017 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
113035 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:113125 original size:21 final size:21
Alignment explanation
Indices: 113085--113125 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
113075 GACTATCGTA
* *
113085 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTTACAAAATCGCG
*
113106 TTGCGATTTTAGAAAATCGC
1 TTGCGATTTTACAAAATCGC
113126 AATGCGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (21 bp):
TTGCGATTTTACAAAATCGCG
Found at i:113164 original size:20 final size:20
Alignment explanation
Indices: 113141--113206 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
113131 GAATATGTAA
*
113141 ATCGCAACGTGATTCTGATT
1 ATCGCAACGCGATTCTGATT
** * *
113161 ATCGCAACGCGATAATACATA
1 ATCGCAACGCGATTCT-GATT
*
113182 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGATT
113202 ATCGC
1 ATCGC
113207 GTTGCGATAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGATT
Found at i:113187 original size:41 final size:41
Alignment explanation
Indices: 113139--113236 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
113129 GCGAATATGT
* *
113139 AAATCGCAACGTGATTCTGATTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
* ***
113180 TAATCGCAACGCGATTCTGACTATCGCGTTGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
*
113221 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
113237 TTCAAAGCGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
Found at i:113439 original size:22 final size:22
Alignment explanation
Indices: 113380--113439 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
113370 CTACGGCGAC
*
113380 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCTGACGAA
**
113402 ATCCGTCCCCATCTCTGGTGAA
1 ATCCGTCCCCATCTCTGACGAA
*
113424 ATCCGTCTCCATCTCT
1 ATCCGTCCCCATCTCT
113440 CAGATACACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.18, C:0.42, G:0.13, T:0.27
Consensus pattern (22 bp):
ATCCGTCCCCATCTCTGACGAA
Found at i:113826 original size:20 final size:20
Alignment explanation
Indices: 113801--113902 Score: 65
Period size: 20 Copynumber: 5.5 Consensus size: 20
113791 AAAATCGCAA
113801 CGATAGTCAAATTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
** * *
113821 CGATAGTCATTTTCGTGTTA
1 CGATAGTCAAATTCGCGTTG
** *
113841 CGATTTTC-ATTTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
*
113860 CGAT--T---A-TCTCGTTG
1 CGATAGTCAAATTCGCGTTG
* *
113874 CGATAGTTAAATTCTCGTTG
1 CGATAGTCAAATTCGCGTTG
113894 CGATAGTCA
1 CGATAGTCA
113903 TTTTTGTGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 1 0.02
19 13 0.20
20 38 0.59
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (20 bp):
CGATAGTCAAATTCGCGTTG
Found at i:113932 original size:21 final size:20
Alignment explanation
Indices: 113890--113941 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
113880 TTAAATTCTC
**
113890 GTTGCGATAGTCATTTTTGT
1 GTTGCGATTTTCATTTTTGT
113910 GTTGCGATTTTCATTTTTCGT
1 GTTGCGATTTTCATTTTT-GT
*
113931 GTTGAGATTTT
1 GTTGCGATTTT
113942 AAGTTTCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.13, C:0.10, G:0.23, T:0.54
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTTGT
Found at i:116014 original size:14 final size:14
Alignment explanation
Indices: 115995--116031 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
115985 TCTCGTGGTA
115995 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
116009 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
116023 TTCTTCTTC
1 TT-TTCTTC
116032 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:116255 original size:24 final size:24
Alignment explanation
Indices: 116221--116274 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
116211 CTGAAACATC
116221 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
116245 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
116269 ATCAAA
1 ATCAAA
116275 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:116288 original size:24 final size:24
Alignment explanation
Indices: 116221--116288 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
116211 CTGAAACATC
* * *
116221 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
116245 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
116269 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
116289 TAGTAGTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:117117 original size:20 final size:20
Alignment explanation
Indices: 117092--117182 Score: 112
Period size: 20 Copynumber: 4.5 Consensus size: 20
117082 TTGAAATTCA
*
117092 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
117112 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
**
117132 GCGTTGCGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
*
117153 GCATTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
117173 ACGTTGCGAT
1 GCGTTGCGAT
117183 TTACATATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.03
20 42 0.70
21 14 0.23
22 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:117169 original size:61 final size:61
Alignment explanation
Indices: 117095--117242 Score: 163
Period size: 61 Copynumber: 2.4 Consensus size: 61
117085 AAATTCAGCG
* * * * **
117095 TTGCGACAGTCAGAATCGCGTTGCGATAGT-CAGAATCGCGTTGCGATTATGTATTATCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGAT-GTACAGAATCGCATTGCAATTATCTAAAATCGCA
* * * * *
117156 TTGCGATAGTCAGAATCACGTTGCGATTTACATATTCGCATTGCAATTTTCTAAAATCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATGTACAGAATCGCATTGCAATTATCTAAAATCGCA
* *
117217 ATGCGATAGTCAAAATCGCGTTGCGA
1 TTGCGATAGTCAGAATCGCGTTGCGA
117243 ATATAAAAAC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
60 1 0.01
61 71 0.99
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (61 bp):
TTGCGATAGTCAGAATCGCGTTGCGATGTACAGAATCGCATTGCAATTATCTAAAATCGCA
Found at i:117280 original size:20 final size:19
Alignment explanation
Indices: 117257--117302 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
117247 AAAAACTGAT
* *
117257 TTGCGATACTGGAGATCGCG
1 TTGCGATAC-AGAGATCGCA
*
117277 TTGCGATTCAGAGATCGCA
1 TTGCGATACAGAGATCGCA
117296 TTGCGAT
1 TTGCGAT
117303 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (19 bp):
TTGCGATACAGAGATCGCA
Found at i:117454 original size:13 final size:12
Alignment explanation
Indices: 117424--117452 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
117414 TTTTTTTTCC
117424 TTTTTACTTCAT
1 TTTTTACTTCAT
117436 TTTTTACTTCAT
1 TTTTTACTTCAT
117448 TTTTT
1 TTTTT
117453 TATATTCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTACTTCAT
Found at i:120764 original size:23 final size:23
Alignment explanation
Indices: 120738--120785 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
120728 GCTCAATTTT
120738 TGGATTTTGATCCTTGGGGATTA
1 TGGATTTTGATCCTTGGGGATTA
120761 TGGATTTTGATCCTTGGGGATTA
1 TGGATTTTGATCCTTGGGGATTA
120784 TG
1 TG
120786 ATCAAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.08, G:0.31, T:0.44
Consensus pattern (23 bp):
TGGATTTTGATCCTTGGGGATTA
Found at i:122886 original size:20 final size:19
Alignment explanation
Indices: 122861--122906 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
122851 AGTTCTAATT
122861 TTTATTATTTTAGTCCTTAA
1 TTTATTATTTTA-TCCTTAA
* *
122881 TTTA-T-TTTTATCTTTAG
1 TTTATTATTTTATCCTTAA
122898 TTTATTATT
1 TTTATTATT
122907 CAATTTTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 3 0.14
20 4 0.18
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTATTATTTTATCCTTAA
Found at i:131116 original size:19 final size:19
Alignment explanation
Indices: 131092--131139 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
131082 TAATAATATG
*
131092 AATTGTTAATTTTTAATTT
1 AATTGTTAATTTTTAATTA
*
131111 AATTGTTAAGTTTTAATTA
1 AATTGTTAATTTTTAATTA
*
131130 AATTATTAAT
1 AATTGTTAAT
131140 CTAAATCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
AATTGTTAATTTTTAATTA
Found at i:132110 original size:16 final size:16
Alignment explanation
Indices: 132079--132131 Score: 72
Period size: 16 Copynumber: 3.2 Consensus size: 16
132069 GTCATTATGC
132079 TATAACTGTATA-ATTA
1 TATAA-TGTATATATTA
132095 TATAATGTATATATTA
1 TATAATGTATATATTA
*
132111 TATAATATATATATATA
1 TATAATGTATATAT-TA
132128 TATA
1 TATA
132132 TATTATATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 6 0.18
16 22 0.65
17 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (16 bp):
TATAATGTATATATTA
Found at i:132134 original size:16 final size:16
Alignment explanation
Indices: 132093--132139 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
132083 ACTGTATAAT
*
132093 TATATA-ATGTATATA
1 TATATATATATATATA
132108 T-TATATA-ATATATA
1 TATATATATATATATA
132122 TATATATATATAT-TA
1 TATATATATATATATA
132137 TAT
1 TAT
132140 CATTGCATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 11 0.39
15 13 0.46
16 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATATATATATATA
Found at i:132153 original size:2 final size:2
Alignment explanation
Indices: 132093--132139 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
132083 ACTGTATAAT
*
132093 TA TA TA -A TG TA TA TA T- TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
132132 TA T- TA TA T
1 TA TA TA TA T
132140 CATTGCATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:132564 original size:12 final size:12
Alignment explanation
Indices: 132529--132566 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
132519 GACACACAAT
132529 ATTACACAAGAA
1 ATTACACAAGAA
*
132541 A-TAGACAAGAA
1 ATTACACAAGAA
*
132552 ATTACAGAAGAA
1 ATTACACAAGAA
132564 ATT
1 ATT
132567 TTACGAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (12 bp):
ATTACACAAGAA
Found at i:133602 original size:15 final size:15
Alignment explanation
Indices: 133580--133632 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
133570 TTTAATTTGC
133580 TTTG-TTTTATTTAT
1 TTTGTTTTTATTTAT
* *
133594 CTTGTTTTTTTTTACT
1 TTTGTTTTTATTTA-T
* *
133610 TTTGTTTCTCTTTAT
1 TTTGTTTTTATTTAT
133625 TTTGTTTT
1 TTTGTTTT
133633 GTTTTGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 3 0.10
15 16 0.52
16 12 0.39
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (15 bp):
TTTGTTTTTATTTAT
Found at i:137056 original size:16 final size:14
Alignment explanation
Indices: 137027--137053 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
137017 TCATACTTTG
137027 CATTTTTATTTTTC
1 CATTTTTATTTTTC
137041 CATTTTTATTTTT
1 CATTTTTATTTTT
137054 TTCTATTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (14 bp):
CATTTTTATTTTTC
Found at i:140561 original size:3 final size:3
Alignment explanation
Indices: 140555--140665 Score: 95
Period size: 3 Copynumber: 37.0 Consensus size: 3
140545 TCATTCGATT
140555 TTA TTA TTA TTA TTA TGTA TTTA TTTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
140602 -TA TTA TAA TT- TTAA TTA -TA ATA TTA TTA ATA ATA ATA ATA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
140645 TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
140666 CATGCCCAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
2 8 0.09
3 75 0.80
4 10 0.11
5 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:140661 original size:18 final size:17
Alignment explanation
Indices: 140555--140665 Score: 86
Period size: 17 Copynumber: 6.4 Consensus size: 17
140545 TCATTCGATT
140555 TTATTATTATTATTATGTA
1 TTATTATTA-TATTAT-TA
140574 TTTATTTATTATTATTATT-
1 -TTA-TTATTA-TATTATTA
*
140593 TTATTATTATATTATAA
1 TTATTATTATATTATTA
*
140610 TT-TTAATTATAATATTA
1 TTATT-ATTATATTATTA
* * *
140627 TTA--ATAATAATAATA
1 TTATTATTATATTATTA
140642 TTATTATTACTATTATTA
1 TTATTATTA-TATTATTA
140660 TTATTA
1 TTATTA
140666 CATGCCCAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
15 13 0.17
16 8 0.11
17 23 0.30
18 15 0.20
20 4 0.05
21 13 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (17 bp):
TTATTATTATATTATTA
Found at i:142129 original size:18 final size:17
Alignment explanation
Indices: 142097--142131 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
142087 ATTTAGTCAT
142097 ATAAATATATATATTTA
1 ATAAATATATATATTTA
*
142114 ATAAATAATATTTATTTA
1 ATAAAT-ATATATATTTA
142132 TATATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAAATATATATATTTA
Found at i:142470 original size:134 final size:134
Alignment explanation
Indices: 142218--142470 Score: 307
Period size: 134 Copynumber: 1.9 Consensus size: 134
142208 CATGTTTTAA
* * * * *
142218 TATTTATTTTTCAATATTAAGAAATGACAGTCTTAAAATAACTGGATGTCCATTTTCTGATATTT
1 TATTTATTTTTCAATATTAAGAAAAGACAGTCTTAAAACAACTAGAAGTCCATTTTATGATATTT
* * * **
142283 TTAAATAAATAAATATCATACTTTTAAATTATATATATTAATCTATTTTTTAAATGTTTTATTAA
66 CTAAATAAATAAATATCATACTTTGAAATTATATAAATTAATAAATTTTTTAAATGTTTTATTAA
142348 TATT
131 TATT
* ** * *
142352 TATTTATTTTTTAATATTAAGAAAAGAGTTGTCTTAAAGCACCTAGAAGTCC-TTTTATGATATT
1 TATTTATTTTTCAATATTAAGAAAAGA-CAGTCTTAAAACAACTAGAAGTCCATTTTATGATATT
142416 TCTAAATAAATAAATAT-ATTA-TTTG-AATATATATAAATTAATAAATTTTCTTAAA
65 TCTAAATAAATAAATATCA-TACTTTGAAAT-TATATAAATTAATAAATTTT-TTAAA
142471 ATTATATTAA
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
132 3 0.03
133 21 0.21
134 59 0.59
135 17 0.17
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (134 bp):
TATTTATTTTTCAATATTAAGAAAAGACAGTCTTAAAACAACTAGAAGTCCATTTTATGATATTT
CTAAATAAATAAATATCATACTTTGAAATTATATAAATTAATAAATTTTTTAAATGTTTTATTAA
TATT
Found at i:145067 original size:20 final size:20
Alignment explanation
Indices: 145026--145068 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
145016 TCTAAGAGCC
*
145026 CATTTAGGATCATTTAGATG
1 CATTTAGGATCATATAGATG
*
145046 CATTTAGGAGT-ATATAGTTG
1 CATTTAGGA-TCATATAGATG
145066 CAT
1 CAT
145069 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (20 bp):
CATTTAGGATCATATAGATG
Found at i:145338 original size:27 final size:27
Alignment explanation
Indices: 145300--145352 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
145290 ATTTTCACGG
145300 GATCTCTGATCATGACCGAGAAATCCA
1 GATCTCTGATCATGACCGAGAAATCCA
145327 GATCTCTGATCATGACCGAGAAATCC
1 GATCTCTGATCATGACCGAGAAATCC
145353 GCCTGGATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (27 bp):
GATCTCTGATCATGACCGAGAAATCCA
Found at i:153414 original size:103 final size:104
Alignment explanation
Indices: 153251--153441 Score: 321
Period size: 103 Copynumber: 1.8 Consensus size: 104
153241 ACGGGATGAC
*
153251 TCTACCTGACTAGCTTGGGGGGTGGAAGGTATGCTCCCTTTCACCTAGAGTATGGGATGGTAGGT
1 TCTACCTGACTAGCTTGGGGGATGGAAGGTATGCTCCCTTTCACCTAGAGTATGGGATGGTAGGT
153316 GTGATGGGATGACTCCCTTCGTAGTAGAATAAAAAAAAA
66 GTGATGGGATGACTCCCTTCGTAGTAGAATAAAAAAAAA
* * *
153355 TCTACCTGACTAGCTT-GGGGATGGAAGGTATGCTCCTTTTCATCTAGAGTGTGGGATGGTAGGT
1 TCTACCTGACTAGCTTGGGGGATGGAAGGTATGCTCCCTTTCACCTAGAGTATGGGATGGTAGGT
**
153419 GTGATGGTCTGACTCCCTTCGTA
66 GTGATGGGATGACTCCCTTCGTA
153442 AAAAAAAACA
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 65 0.80
104 16 0.20
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (104 bp):
TCTACCTGACTAGCTTGGGGGATGGAAGGTATGCTCCCTTTCACCTAGAGTATGGGATGGTAGGT
GTGATGGGATGACTCCCTTCGTAGTAGAATAAAAAAAAA
Found at i:153835 original size:20 final size:20
Alignment explanation
Indices: 153810--153851 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
153800 CTAAGAGCCT
* *
153810 ATTTAGGATCATTTAGATGC
1 ATTTAGGAGCATATAGATGC
*
153830 ATTTAGGAGCATATAGTTGC
1 ATTTAGGAGCATATAGATGC
153850 AT
1 AT
153852 GAGGTGGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTTAGGAGCATATAGATGC
Found at i:165271 original size:22 final size:22
Alignment explanation
Indices: 165241--165294 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
165231 ACATCTACAT
*
165241 TCTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
165263 TCTTCAAAGATGATAGATTCTT
1 TCTTCAAAGATGATAGATTCTC
*
165285 TTTTCAAAGA
1 TCTTCAAAGA
165295 AGAAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:165856 original size:112 final size:112
Alignment explanation
Indices: 165654--165873 Score: 309
Period size: 112 Copynumber: 2.0 Consensus size: 112
165644 GCAAAAATTC
* * * *
165654 GAATCCATCATTCAATGGATTAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATTTGAAGA
1 GAATCCATCACTCAATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTAAAGA
*
165719 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
* * * * *
165766 GAATTCATCACTCGATGGATCAACTTTTCCAGAGAA-AGTTTATAATGAGAAGAACTTATCTAAA
1 GAATCCATCACTCAATGGATCAACATTTCC-G-GAAGAGTTCATAATGAGAAGAACTCATCTAAA
*
165830 G-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
165874 ACTTGATTCT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 66 0.69
113 26 0.27
114 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (112 bp):
GAATCCATCACTCAATGGATCAACATTTCCGGAAGAGTTCATAATGAGAAGAACTCATCTAAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
Found at i:165865 original size:20 final size:20
Alignment explanation
Indices: 165807--165866 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
165797 GAGAAAGTTT
*
165807 ATAATGAGAAGAACTT-ATC
1 ATAATGAGAAGAACTTGTTC
* ***
165826 -TAAAGAGGAAGAAGAAGTTC
1 ATAATGA-GAAGAACTTGTTC
165846 ATAATGAGAAGAACTTGTTC
1 ATAATGAGAAGAACTTGTTC
165866 A
1 A
165867 ACTTTTTACT
Statistics
Matches: 29, Mismatches: 9, Indels: 5
0.67 0.21 0.12
Matches are distributed among these distances:
18 5 0.17
19 6 0.21
20 13 0.45
21 5 0.17
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.23
Consensus pattern (20 bp):
ATAATGAGAAGAACTTGTTC
Found at i:165945 original size:84 final size:82
Alignment explanation
Indices: 165840--166027 Score: 270
Period size: 84 Copynumber: 2.3 Consensus size: 82
165830 GAGGAAGAAG
* * *
165840 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGATTCTATCACAGAAGGAGATAGATCA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGACTCTATCACAGAAGGAGATAGATCA
*
165905 GCATCAAC-TTTTCCAGAGA
66 ACATCAACATTTT-C-G-GA
*
165924 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGATAGATCA
1 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGACTCTATCACAGAAGGAGATAGATCA
*
165989 ACATTAACATTTTCGGA
66 ACATCAACATTTTCGGA
*
166006 AGATTTCATAATGAGAAGAACT
1 A-AGTTCATAATGAGAAGAACT
166028 CATCTAAAGA
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
82 3 0.03
83 20 0.21
84 68 0.72
85 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGACTCTATCACAGAAGGAGATAGATCA
ACATCAACATTTTCGGA
Found at i:166384 original size:3 final size:3
Alignment explanation
Indices: 166378--166479 Score: 95
Period size: 3 Copynumber: 34.0 Consensus size: 3
166368 TCATTCGATT
*
166378 TTA TTA TTA TTA TTA ATA TTA TTA TGTA TTTA TTTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA
* * **
166425 TTA TTA TTA -TA TTA TAA TT- TTAA TTA -TA ATA TTA TTA AGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
166468 TTA TTA TTA TTA
1 TTA TTA TTA TTA
166480 CAGGCCCAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 14
0.78 0.08 0.13
Matches are distributed among these distances:
2 8 0.10
3 64 0.77
4 10 0.12
5 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:167838 original size:15 final size:14
Alignment explanation
Indices: 167800--167850 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
167790 CACTGTTTAG
167800 TTATAT-TTTAATT
1 TTATATATTTAATT
* *
167813 TTATATGTTTATTT
1 TTATATATTTAATT
167827 TTAATATATTTAATT
1 TT-ATATATTTAATT
167842 ATTAT-TATT
1 -TTATATATT
167851 GTTTAGTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 6 0.19
14 12 0.38
15 12 0.38
16 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:167892 original size:4 final size:4
Alignment explanation
Indices: 167885--167910 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
167875 GTAATAAATA
167885 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
167911 TTTTCTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:172411 original size:6 final size:6
Alignment explanation
Indices: 172400--172520 Score: 172
Period size: 6 Copynumber: 19.7 Consensus size: 6
172390 CTTAAATTGA
172400 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
* * *
172448 AAAAAG AAAAGG AAAAGG AAAAAG AAAAAG AAAAATTG AAAAATTA AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA--G AAAAA--G AAAAAG
172500 AAAAAG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAA
172521 TAAGGTGAGT
Statistics
Matches: 108, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.05
6 90 0.83
8 13 0.12
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:174059 original size:16 final size:16
Alignment explanation
Indices: 174036--174124 Score: 96
Period size: 16 Copynumber: 5.6 Consensus size: 16
174026 GCTATAATTG
* *
174036 TATA-ATTATCTAATG
1 TATATATTATATAATA
*
174051 TATATATTATATAATG
1 TATATATTATATAATA
174067 TATATA-TATAT-ATA
1 TATATATTATATAATA
174081 TATATA-TATATATATA
1 TATATATTATATA-ATA
174097 TATATATATATATATATA
1 TATATAT-TATATA-ATA
174115 TATATATTAT
1 TATATATTAT
174125 CATTACACAT
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.19
15 9 0.13
16 25 0.37
17 3 0.04
18 17 0.25
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATATTATATAATA
Found at i:174063 original size:2 final size:2
Alignment explanation
Indices: 174051--174121 Score: 119
Period size: 2 Copynumber: 36.5 Consensus size: 2
174041 TTATCTAATG
*
174051 TA TA TA T- TA TA TA -A TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
174091 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
174122 TATCATTACA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 63 0.97
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:175645 original size:17 final size:18
Alignment explanation
Indices: 175605--175646 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
175595 CTTTTTTACT
*
175605 TTTTTTTTCTATTTATTG
1 TTTTTTTTCTATTTATTA
* *
175623 TGTTTTTT-TATTTTTTA
1 TTTTTTTTCTATTTATTA
175640 TTTTTTT
1 TTTTTTT
175647 AGATTAGTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.10, C:0.02, G:0.05, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTATTTATTA
Found at i:177756 original size:17 final size:17
Alignment explanation
Indices: 177726--177778 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
177716 AATTAAGAGT
* * *
177726 TAGTCTAATAAATGAAT
1 TAGTTTAATGAATGAAC
*
177743 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
177760 TAGTTTAATTAATGAAC
1 TAGTTTAATGAATGAAC
177777 TA
1 TA
177779 ACTTTATCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:180279 original size:16 final size:16
Alignment explanation
Indices: 180255--180286 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
180245 CTCTTTAAAA
180255 TTTTATTTTTTCTTTT
1 TTTTATTTTTTCTTTT
*
180271 TTTTCTTTTTTCTTTT
1 TTTTATTTTTTCTTTT
180287 GAATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTATTTTTTCTTTT
Found at i:180684 original size:17 final size:17
Alignment explanation
Indices: 180662--180700 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
180652 TGAAGGTCAA
* *
180662 AGATGTTATGGCGTGGG
1 AGATGTTATGGCATGAG
180679 AGATGTTATGGCATGAG
1 AGATGTTATGGCATGAG
180696 AGATG
1 AGATG
180701 AATGATGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.41, T:0.28
Consensus pattern (17 bp):
AGATGTTATGGCATGAG
Found at i:181896 original size:17 final size:17
Alignment explanation
Indices: 181866--181915 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
181856 AATTAAGAGT
* *
181866 TAGTCTAATAAATGAAC
1 TAGTTTAATGAATGAAC
*
181883 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
181900 TAGTTTAATTAATGAA
1 TAGTTTAATGAATGAA
181916 TTAACTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:184844 original size:81 final size:81
Alignment explanation
Indices: 184723--185186 Score: 658
Period size: 81 Copynumber: 5.7 Consensus size: 81
184713 GCATTGTTAA
* * * * * * * *
184723 GCATTTAGTCTTTAACCCAAAGGCATTTAACCTTTCATCTAACTGACATAAATGGCACATTTCTG
1 GCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTG
* *
184788 CCAAATGCAGAGCTAG
66 TCAAATGCACAGCTAG
* * *
184804 GCATTTAATCTTTTAATCAAAGGTATTTAAGCTTTCATCTAACTGGCATGATTGACACCTTTCTG
1 GCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTG
184869 TCAAATGCACAGCTAG
66 TCAAATGCACAGCTAG
* * *
184885 ACATTTAATCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCATGATTGACACATTTCTA
1 GCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTG
*
184950 TGAAATGCACAGGCTAG
66 TCAAATGCACA-GCTAG
* * *
184967 GCATTTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGATACCTTTCTG
1 GCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTG
* *
185032 TCAAATACACACCTAG
66 TCAAATGCACAGCTAG
* * * *
185048 ACATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTAACACATTTATG
1 GCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTG
*
185113 TCAAATGCACAACTAG
66 TCAAATGCACAGCTAG
* *
185129 GCATTTAATCTTTTACTCAAAGGTATTTATCCTTTCATCTAACTTGCATGATTGACAC
1 GCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACAC
185187 TGATGTGATC
Statistics
Matches: 340, Mismatches: 42, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
81 267 0.79
82 73 0.21
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (81 bp):
GCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTG
TCAAATGCACAGCTAG
Found at i:185005 original size:163 final size:162
Alignment explanation
Indices: 184724--185186 Score: 692
Period size: 163 Copynumber: 2.9 Consensus size: 162
184714 CATTGTTAAG
* * * * * * * * *
184724 CATTTAGTCTTTAACCCAAAGGCATTTAACCTTTCATCTAACTGACATAAATGGCACATTTCTGC
1 CATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGT
* * *
184789 CAAATGCAGAGCTAGGCATTTAATCTTTTAATCAAAGGTATTTAAGCTTTCATCTAACTGGCATG
66 CAAATGCACAGCTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATG
* *
184854 ATTGACACCTTTCTGTCAAATGCACAGCTAGA
131 ATTGACACCTTTCTGTCAAATACACACCTAGA
* *
184886 CATTTAATCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCATGATTGACACATTTCTAT
1 CATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGT
* *
184951 GAAATGCACAGGCTAGGCATTTAATATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCAT
66 CAAATGCACA-GCTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCAT
*
185016 GATTGATACCTTTCTGTCAAATACACACCTAGA
130 GATTGACACCTTTCTGTCAAATACACACCTAGA
* * *
185049 CATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTAACACATTTATGT
1 CATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGT
* * *
185114 CAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTATCCTTTCATCTAACTTGCATG
66 CAAATGCACAGCTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATG
185179 ATTGACAC
131 ATTGACAC
185187 TGATGTGATC
Statistics
Matches: 270, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
162 120 0.44
163 150 0.56
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (162 bp):
CATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGT
CAAATGCACAGCTAGGCATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATG
ATTGACACCTTTCTGTCAAATACACACCTAGA
Found at i:185152 original size:244 final size:244
Alignment explanation
Indices: 184740--185186 Score: 687
Period size: 244 Copynumber: 1.8 Consensus size: 244
184730 GTCTTTAACC
* * * * *
184740 CAAAGGCATTTAACCTTTCATCTAACTGACATAAATGGCACATTTCTGCCAAATGCAGAGCTAGG
1 CAAAGGCATTTAACCTTTCATCTAACTGACATAAATGACACATTTCTGCCAAATACACACCTAGA
* * * * *
184805 CATTTAATCTTTTAATCAAAGGTATTTAAGCTTTCATCTAACTGGCATGATTGACACCTTTCTGT
66 CATTTAATCTTTTAATCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTAACACATTTATGT
* *
184870 CAAATGCACAGCTAGACATTTAATCTTTTACTCAAAGGTATTTAACCTTTTATCTAACTGGCATG
131 CAAATGCACAACTAGACATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATG
184935 ATTGACACATTTCTATGAAATGCACAGGCTAGGCATTTAATATTTTACT
196 ATTGACACATTTCTATGAAATGCACAGGCTAGGCATTTAATATTTTACT
* * * * * * *
184984 CAAAGGTATTTAACCTTTCATCTAACTGGCATGATTGATACCTTTCTGTCAAATACACACCTAGA
1 CAAAGGCATTTAACCTTTCATCTAACTGACATAAATGACACATTTCTGCCAAATACACACCTAGA
*
185049 CATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTAACACATTTATGT
66 CATTTAATCTTTTAATCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTAACACATTTATGT
* * *
185114 CAAATGCACAACTAGGCATTTAATCTTTTACTCAAAGGTATTTATCCTTTCATCTAACTTGCATG
131 CAAATGCACAACTAGACATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATG
185179 ATTGACAC
196 ATTGACAC
185187 TGATGTGATC
Statistics
Matches: 180, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
244 180 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (244 bp):
CAAAGGCATTTAACCTTTCATCTAACTGACATAAATGACACATTTCTGCCAAATACACACCTAGA
CATTTAATCTTTTAATCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTAACACATTTATGT
CAAATGCACAACTAGACATTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATG
ATTGACACATTTCTATGAAATGCACAGGCTAGGCATTTAATATTTTACT
Found at i:185304 original size:24 final size:25
Alignment explanation
Indices: 185273--185364 Score: 102
Period size: 24 Copynumber: 3.8 Consensus size: 25
185263 CATAAAAATG
*
185273 TTTATTTCATATGT-TATA-ATATA
1 TTTATTTCATATATATATATATATA
185296 TTTATTTTCATATATATATATATATA
1 TTTA-TTTCATATATATATATATATA
* *
185322 TATATAT-ATATATATATATATATA
1 TTTATTTCATATATATATATATATA
* *
185346 TATATAT-ATATATATATAT
1 TTTATTTCATATATATATAT
185365 GTATCTTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.06
24 45 0.71
25 6 0.10
26 8 0.13
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (25 bp):
TTTATTTCATATATATATATATATA
Found at i:185310 original size:2 final size:2
Alignment explanation
Indices: 185305--185364 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
185295 ATTTATTTTC
185305 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
185347 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
185365 GTATCTTATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.