Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 54
Found at i:6629385 original size:29 final size:29
Alignment explanation
Indices: 6629343--6629408 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
6629333 CCGTTGACTC
* *
6629343 GGGTGTTAGTTTCGTAAATATTTTTAAAA
1 GGGTGTTAATTTCGTAAATATTTTGAAAA
6629372 GGGTGTTAATTTCGTAAATATTTTGAAAA
1 GGGTGTTAATTTCGTAAATATTTTGAAAA
*
6629401 GAGTGTTA
1 GGGTGTTA
6629409 GTTTTATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.23, T:0.42
Consensus pattern (29 bp):
GGGTGTTAATTTCGTAAATATTTTGAAAA
Found at i:6636123 original size:17 final size:17
Alignment explanation
Indices: 6636101--6636139 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6636091 ATACCCGAAT
6636101 CGACCGTTAA-CTCGACC
1 CGACCGTTAACCT-GACC
*
6636118 CGACCGTTGACCTGACC
1 CGACCGTTAACCTGACC
6636135 CGACC
1 CGACC
6636140 CGACCCGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.15
Consensus pattern (17 bp):
CGACCGTTAACCTGACC
Found at i:6636217 original size:29 final size:29
Alignment explanation
Indices: 6636174--6636324 Score: 212
Period size: 29 Copynumber: 5.5 Consensus size: 29
6636164 GTTGACTTGA
*
6636174 GTGTTAGTTTAGTAAATATTTTTAAAAGG
1 GTGTTAGTTTCGTAAATATTTTTAAAAGG
6636203 GTGTTAGTTTCGTAAATATTTTT-AAA--
1 GTGTTAGTTTCGTAAATATTTTTAAAAGG
6636229 -----AGTTTCGTAAATA-TTTTAAAAGG
1 GTGTTAGTTTCGTAAATATTTTTAAAAGG
*
6636252 GTGTTAGTTTCATAAATATTTTTAAAAGG
1 GTGTTAGTTTCGTAAATATTTTTAAAAGG
6636281 GTGTTAGTTTCGTAAATATTTTTAAAAGG
1 GTGTTAGTTTCGTAAATATTTTTAAAAGG
*
6636310 GTGTTAGTTTTGTAA
1 GTGTTAGTTTCGTAA
6636325 TTAATTTATG
Statistics
Matches: 109, Mismatches: 4, Indels: 18
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.04
21 16 0.15
28 15 0.14
29 74 0.68
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (29 bp):
GTGTTAGTTTCGTAAATATTTTTAAAAGG
Found at i:6636247 original size:20 final size:21
Alignment explanation
Indices: 6636208--6636250 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
6636198 AAAGGGTGTT
6636208 AGTTTCGTAAATATTTTTAAA
1 AGTTTCGTAAATATTTTTAAA
6636229 AGTTTCGTAAATA-TTTTAAA
1 AGTTTCGTAAATATTTTTAAA
6636249 AG
1 AG
6636251 GGTGTTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (21 bp):
AGTTTCGTAAATATTTTTAAA
Found at i:6639551 original size:181 final size:183
Alignment explanation
Indices: 6639239--6639585 Score: 504
Period size: 181 Copynumber: 1.9 Consensus size: 183
6639229 AAACTGAAAC
*
6639239 GTGCTATGTTGGGAGCTCCGAGGTCGATTTATCCTGCTACTAGGGCAAATGCAATCGAGGTCAGA
1 GTGCTATGTTGGGAGCTCCGAGGTCGATTTATCCTGCTACTAGGGAAAATG-AATCGAGGTCAGA
* * *
6639304 AGTGGTTTCATTGGACCCTTACTAATGGTTCCACAACCAAATCCTCCTATGGATGTGTTAATTGA
65 AGTGGTTTCATTGGACCCCTACTAATGGTTCCACAACCAAATCCTCCTATGGATATATTAATTGA
*
6639369 GGCACTTCTGGGAGCTTTGCGTCAAGCCATTCCAGTGGATAAAACTGAAACGTT
130 GGCACTTCTGGGAGCTTTGCATCAAGCCATTCCAGTGGATAAAACTGAAACGTT
* * * * *
6639423 GTGCTGTGTTGGGAGCTCCGGGGTTGATTTATCCTGTTACTAGGGAAAAATG-ATCGAGGTCGGA
1 GTGCTATGTTGGGAGCTCCGAGGTCGATTTATCCTGCTACTAGGG-AAAATGAATCGAGGTCAGA
* * * *
6639487 AGTGGTGTT-ATT-G-CCCCTACTAATGGTTCCATAACCAAATCCTCTTGTGGATATATTGATTG
65 AGTGGT-TTCATTGGACCCCTACTAATGGTTCCACAACCAAATCCTCCTATGGATATATTAATTG
*
6639549 AGGCACTTTTGGGAGCTTTGCATCAAGCCATTCCAGT
129 AGGCACTTCTGGGAGCTTTGCATCAAGCCATTCCAGT
6639586 TGAGGTGCTT
Statistics
Matches: 146, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
181 77 0.53
182 1 0.01
183 20 0.14
184 43 0.29
185 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (183 bp):
GTGCTATGTTGGGAGCTCCGAGGTCGATTTATCCTGCTACTAGGGAAAATGAATCGAGGTCAGAA
GTGGTTTCATTGGACCCCTACTAATGGTTCCACAACCAAATCCTCCTATGGATATATTAATTGAG
GCACTTCTGGGAGCTTTGCATCAAGCCATTCCAGTGGATAAAACTGAAACGTT
Found at i:6642722 original size:10 final size:10
Alignment explanation
Indices: 6642707--6642738 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
6642697 TTTTCCTAAA
6642707 ATATACATAT
1 ATATACATAT
6642717 ATATACATAT
1 ATATACATAT
6642727 ATATACATAT
1 ATATACATAT
6642737 AT
1 AT
6642739 GGACTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATACATAT
Found at i:6642750 original size:20 final size:20
Alignment explanation
Indices: 6642702--6642759 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
6642692 GTAATTTTTC
*
6642702 CTAAAATATACATATATATA
1 CTAAAATATACATATATAGA
* *
6642722 C-ATATATATACATATATGGA
1 CTA-AAATATACATATATAGA
*
6642742 CTAAAATATAAATATATA
1 CTAAAATATACATATATA
6642760 AAATACGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (20 bp):
CTAAAATATACATATATAGA
Found at i:6643899 original size:3 final size:3
Alignment explanation
Indices: 6643881--6643975 Score: 101
Period size: 3 Copynumber: 33.0 Consensus size: 3
6643871 TTTGGGCTTG
* * *
6643881 TAA TAA -AA TTA TAA TAA TAA TAG TAA TAA TAAA TAA TAA TAA TAC
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* *
6643926 T-A TAA TAA TAA TAA T-A TAA TTA TAA T-A CAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6643970 TAA TAA
1 TAA TAA
6643976 CGAGAAAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
2 8 0.11
3 65 0.86
4 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:6649579 original size:28 final size:29
Alignment explanation
Indices: 6649420--6649579 Score: 102
Period size: 28 Copynumber: 5.6 Consensus size: 29
6649410 ATTGAGTTTC
* * *
6649420 TATTGTAATTTATAAAAAATTT-AACCTT
1 TATTGTAATTTATAAAAAGTTTGGACTTT
* *
6649448 TATTATAATTTAAAAAAAGTTTAGG--TTT
1 TATTGTAATTTATAAAAAGTTT-GGACTTT
* * * * * *
6649476 TGTTGTAGTGTATGAAAAGTTT-TAGTATT
1 TATTGTAATTTATAAAAAGTTTGGACT-TT
*
6649505 TATTGTAATTTATAAAATGTTTAGGTACTTGT
1 TATTGTAATTTATAAAAAGTTT-GG-ACTT-T
6649537 TA-TG--ATTTATAAAAAGTTTGGA-TTT
1 TATTGTAATTTATAAAAAGTTTGGACTTT
*
6649562 TATTGTAATTTACAAAAA
1 TATTGTAATTTATAAAAA
6649580 AATAGGTTAT
Statistics
Matches: 99, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
25 3 0.03
26 4 0.04
27 1 0.01
28 50 0.51
29 33 0.33
31 3 0.03
32 5 0.05
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.47
Consensus pattern (29 bp):
TATTGTAATTTATAAAAAGTTTGGACTTT
Found at i:6650019 original size:12 final size:12
Alignment explanation
Indices: 6650002--6650064 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
6649992 ACAAAAACAC
6650002 TTTATTATATTA
1 TTTATTATATTA
6650014 TTTATT-TATT-
1 TTTATTATATTA
*
6650024 TTTTTTATTATTA
1 TTTATTA-TATTA
6650037 -TTATTAATATT-
1 TTTATT-ATATTA
6650048 TTTATT-T-TTA
1 TTTATTATATTA
6650058 TTT-TTAT
1 TTTATTAT
6650065 TTTTTATAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
9 4 0.10
10 10 0.24
11 4 0.10
12 23 0.55
13 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTATTATATTA
Found at i:6650066 original size:6 final size:6
Alignment explanation
Indices: 6650018--6650068 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
6650008 ATATTATTTA
* **
6650018 TTTATT TTT-TT TATTATT ATTATT AATATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT
6650066 TTT
1 TTT
6650069 TATAGCCCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 3 0.08
6 34 0.87
7 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:6651385 original size:12 final size:13
Alignment explanation
Indices: 6651365--6651393 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6651355 TTAATTGATT
6651365 TTTTAAATTTTAA
1 TTTTAAATTTTAA
6651378 TTTT-AATTTTAA
1 TTTTAAATTTTAA
6651390 TTTT
1 TTTT
6651394 TCACAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:6654393 original size:19 final size:20
Alignment explanation
Indices: 6654366--6654403 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6654356 GTGGTACGCA
*
6654366 AATCTATGCAAGT-ATACAC
1 AATCGATGCAAGTAATACAC
6654385 AATCGATGCAAGTAATACA
1 AATCGATGCAAGTAATACA
6654404 ATAGTGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (20 bp):
AATCGATGCAAGTAATACAC
Found at i:6654689 original size:42 final size:43
Alignment explanation
Indices: 6654603--6654696 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 43
6654593 TTTTTGTTGT
* *
6654603 GGCAAGAAA-AATATGCAAGAGTAAACAAATAAAAATTACTAA
1 GGCAAAAAATAATATGCAAGAGTAAACAAATAAAAATTACCAA
** *
6654645 GGCAAAAAATAAT-TGCAAGAGTAAGTAAATAAAAGA-TGCCAA
1 GGCAAAAAATAATATGCAAGAGTAAACAAATAAAA-ATTACCAA
*
6654687 GGCTAAAAAT
1 GGCAAAAAAT
6654697 GTTCGAGTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 40 0.91
43 4 0.09
ACGTcount: A:0.56, C:0.10, G:0.17, T:0.17
Consensus pattern (43 bp):
GGCAAAAAATAATATGCAAGAGTAAACAAATAAAAATTACCAA
Found at i:6664762 original size:42 final size:43
Alignment explanation
Indices: 6664716--6664796 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 43
6664706 AAGAAAAATA
*
6664716 TGCAAGAGTAAACAAATAAAAATTGCTAAGGC-AAAAATTAAT
1 TGCAAGAGTAAACAAATAAAAATTGATAAGGCTAAAAATTAAT
** *
6664758 TGCAAGAGTAAGTAAATAAAAGTTGATAAGGCTAAAAAT
1 TGCAAGAGTAAACAAATAAAAATTGATAAGGCTAAAAAT
6664797 GTTCTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.22
Consensus pattern (43 bp):
TGCAAGAGTAAACAAATAAAAATTGATAAGGCTAAAAATTAAT
Found at i:6668871 original size:18 final size:19
Alignment explanation
Indices: 6668844--6668893 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
6668834 AGCCATTTTT
* *
6668844 AGTATAGATACTTATGG-G
1 AGTATCGATACTAATGGAG
*
6668862 AGTATCGATACAAATGGTAG
1 AGTATCGATACTAATGG-AG
6668882 AGTATCGATACT
1 AGTATCGATACT
6668894 CCCCAACAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 14 0.54
20 12 0.46
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (19 bp):
AGTATCGATACTAATGGAG
Found at i:6669123 original size:21 final size:20
Alignment explanation
Indices: 6669068--6669123 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
6669058 GGTACATAGA
6669068 GGTTAGTATCGATACTCAGG
1 GGTTAGTATCGATACTCAGG
* * *
6669088 GGTTAATACCGATACTGAGG
1 GGTTAGTATCGATACTCAGG
6669108 GGATTAGTATCGATAC
1 GG-TTAGTATCGATAC
6669124 CCATGAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (20 bp):
GGTTAGTATCGATACTCAGG
Found at i:6674084 original size:21 final size:22
Alignment explanation
Indices: 6674058--6674099 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
6674048 ATTATCTACA
6674058 AAATAAAATA-TAAATATAAAT
1 AAATAAAATATTAAATATAAAT
*
6674079 AAATAAAATATTAAATTTAAA
1 AAATAAAATATTAAATATAAA
6674100 AAAAATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAAAATATTAAATATAAAT
Found at i:6674093 original size:16 final size:17
Alignment explanation
Indices: 6674058--6674094 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
6674048 ATTATCTACA
6674058 AAATAAAATATAAATAT
1 AAATAAAATATAAATAT
6674075 AAAT-AAATA-AAATATT
1 AAATAAAATATAAATA-T
6674091 AAAT
1 AAAT
6674095 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 10 0.53
17 4 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATAAAATATAAATAT
Found at i:6685021 original size:23 final size:23
Alignment explanation
Indices: 6684995--6685044 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
6684985 CACCACAGCT
6684995 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
6685018 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
6685041 CATA
1 CATA
6685045 GAAGCACCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:6685053 original size:21 final size:22
Alignment explanation
Indices: 6685003--6685059 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
6684993 CTCATATAAT
*
6685003 TGCACCGAAGTGCCACATATAA
1 TGCACCGAAGTGCCACATAGAA
* *
6685025 TTGCACCGGAGTGCCGCATAGAA
1 -TGCACCGAAGTGCCACATAGAA
*
6685048 -GCACCGTAGTGC
1 TGCACCGAAGTGC
6685060 TATAATAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 11 0.37
23 19 0.63
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (22 bp):
TGCACCGAAGTGCCACATAGAA
Found at i:6685243 original size:100 final size:101
Alignment explanation
Indices: 6685067--6685288 Score: 342
Period size: 100 Copynumber: 2.2 Consensus size: 101
6685057 TGCTATAATA
* * *
6685067 ATGT-CCATAAGGACCACATATCATTCTTTAAGAATCATATACATATACTAGGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAA-CATATACATATACCAAGGATCAAGTATGT
6685131 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
64 GTCTCACCAGACTTCACACATGTTCC-AAGAATACATAT
*
6685170 ATGTCCCAAAGGACCACATATCATTCCTTAAG-A-ATATACATATGCCAAGGATCAAGTATGTGT
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAACATATACATATACCAAGGATCAAGTATGTGT
6685233 CTCACCAGACTTCACACATGTTCCAAGAATACATAT
66 CTCACCAGACTTCACACATGTTCCAAGAATACATAT
* *
6685269 ATATCCCGAAGGACCACATA
1 ATGTCCCAAAGGACCACATA
6685289 GACCCTCGCT
Statistics
Matches: 112, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
99 30 0.27
100 51 0.46
102 1 0.01
103 27 0.24
104 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (101 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAACATATACATATACCAAGGATCAAGTATGTGT
CTCACCAGACTTCACACATGTTCCAAGAATACATAT
Found at i:6686106 original size:19 final size:19
Alignment explanation
Indices: 6686082--6686119 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6686072 TATTACTGGG
*
6686082 ATGCATCGATGCACTACTT
1 ATGCATCAATGCACTACTT
6686101 ATGCATCAATGCACTACTT
1 ATGCATCAATGCACTACTT
6686120 GCATTCGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (19 bp):
ATGCATCAATGCACTACTT
Found at i:6690554 original size:14 final size:14
Alignment explanation
Indices: 6690535--6690563 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6690525 ATACTAAGGG
6690535 TAGAGTATCGATAC
1 TAGAGTATCGATAC
6690549 TAGAGTATCGATAC
1 TAGAGTATCGATAC
6690563 T
1 T
6690564 CCCTAATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TAGAGTATCGATAC
Found at i:6697459 original size:18 final size:18
Alignment explanation
Indices: 6697436--6697480 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
6697426 CAGAACGAAG
6697436 GCAAAGGAAAAGCTTCTT
1 GCAAAGGAAAAGCTTCTT
6697454 GCAAAGGAAAAGCTTCTT
1 GCAAAGGAAAAGCTTCTT
6697472 GCAAAGGAA
1 GCAAAGGAA
6697481 GCCGGACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (18 bp):
GCAAAGGAAAAGCTTCTT
Found at i:6698745 original size:402 final size:395
Alignment explanation
Indices: 6697941--6698745 Score: 1436
Period size: 402 Copynumber: 2.0 Consensus size: 395
6697931 TCGATTTAGA
6697941 TTAGATTTATATTTTAAAAATTTGGATCGTAATTAGGTGTGCGGTATTTGGTTTTTGAATTGGGT
1 TTAGATTTATATTTTAAAAATTTGGATCGTAATTAGGTGTGCGGTATTTGGTTTTTGAATTGGGT
6698006 TGGATGAAGAATATATATTTTTTGTGTTGGGTTCAGGTGGAATATTTTTTGATTTGATCGAATTA
66 TGGATGAAGAATATATATTTTTTGTGTTGGGTTCAGGTGGAATATTTTTTGATTTGATCGAATTA
6698071 ATCAAATACTCGATCTAACTTGATATGTTGTCATCCGTGATCATTTACACTCAGATATGTCAGTG
131 ATCAAATACTCGATCTAACTTGATATGTTGTCATCCGTGATCATTTACACTCAGATATGTCAGTG
6698136 GTGTCCGAAATATATTCTTTCGGAAGTTAGAGGATTTTTAGAAGAGTATTCTACCTTCCTCCTTG
196 GTGTCCGAAATATATTCTTTCGGAAGTTAGAGGATTTTTAGAAGAGTATTCTACCTTCCTCCTTG
6698201 GGAAAATGACTAATACTCTGCCTTCTCTCTTGTATGTAAGAATTTTTCAATACTCTTTATATTAT
261 GGAAAATGACTAATACTCTGCCTTCTCTCTTGTATGTAAGAATTTTTCAATACTCTTTATATTAT
6698266 TTTTTTCAATACTTTCAGTAAATTACTACTTAACTATAAACTACTTTTTTAGTAACTAAACTATT
326 TTTTTTCAATACTTTCAGTAAATTACTACTTAACTATAAACTACTTTTTTAGTAACTAAAC----
6698331 ATTATTTTATT
387 -TTA-TTTATT
6698342 TTAGATTTATATTTTAAAAATTTGGATCGTAATTAGGTGTGCGGTATTTGGTTTTTGAATTGGGT
1 TTAGATTTATATTTTAAAAATTTGGATCGTAATTAGGTGTGCGGTATTTGGTTTTTGAATTGGGT
6698407 TGGATGAAGAATATATATTTTTTGTGTTGGGTTCAGGTGGAATATTTTTTTGATTTGATCGAATT
66 TGGATGAAGAATATATATTTTTTGTGTTGGGTTCAGGTGGAATA-TTTTTTGATTTGATCGAATT
6698472 AATCAAATACTCGATCTAACTTGATATGTTGTCATCCGTGATCATTTACACTCAGATATGTCAGT
130 AATCAAATACTCGATCTAACTTGATATGTTGTCATCCGTGATCATTTACACTCAGATATGTCAGT
6698537 GGTGTCCGAAATATATTCTTTCGGAAGTTAGAGGATTTTTAGAAGAGTATTCTACCTT-CTCCGT
195 GGTGTCCGAAATATATTCTTTCGGAAGTTAGAGGATTTTTAGAAGAGTATTCTACCTTCCTCC-T
6698601 TGGGAAAATGAACTAATACTCTGCCTTCTCTCTTGTATGTAAGAATTTTTCAATACTCTTTATAT
259 TGGGAAAATG-ACTAATACTCTGCCTTCTCTCTTGTATGTAAGAATTTTTCAATACTC-TT-TA-
*
6698666 TATTATTTTTTTCAATACTTTCAGTAAATTACTACTTAAACTATTAAACTATTACTTTTTAGTAA
320 TATTATTTTTTTCAATACTTTCAGTAAATTACTACTT-AACTA-TAAACTACT--TTTTTAGTAA
6698731 CTAAAC-TA-TTATT
381 CTAAACTTATTTATT
6698744 TT
1 TT
6698746 TATTTTATTA
Statistics
Matches: 393, Mismatches: 1, Indels: 19
0.95 0.00 0.05
Matches are distributed among these distances:
401 113 0.29
402 161 0.41
403 47 0.12
404 4 0.01
405 2 0.01
406 37 0.09
407 5 0.01
408 8 0.02
410 16 0.04
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (395 bp):
TTAGATTTATATTTTAAAAATTTGGATCGTAATTAGGTGTGCGGTATTTGGTTTTTGAATTGGGT
TGGATGAAGAATATATATTTTTTGTGTTGGGTTCAGGTGGAATATTTTTTGATTTGATCGAATTA
ATCAAATACTCGATCTAACTTGATATGTTGTCATCCGTGATCATTTACACTCAGATATGTCAGTG
GTGTCCGAAATATATTCTTTCGGAAGTTAGAGGATTTTTAGAAGAGTATTCTACCTTCCTCCTTG
GGAAAATGACTAATACTCTGCCTTCTCTCTTGTATGTAAGAATTTTTCAATACTCTTTATATTAT
TTTTTTCAATACTTTCAGTAAATTACTACTTAACTATAAACTACTTTTTTAGTAACTAAACTTAT
TTATT
Found at i:6698783 original size:36 final size:36
Alignment explanation
Indices: 6698715--6698792 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
6698705 ACTATTAAAC
*
6698715 TATTACTTTTTAGTAACTAAACTATTATTTTTATTT
1 TATTATTTTTTAGTAACTAAACTATTATTTTTATTT
**
6698751 TATTATTTTGTTAGTATTTAAACTATTA-TTTTATTT
1 TATTATTTT-TTAGTAACTAAACTATTATTTTTATTT
6698787 TATTAT
1 TATTAT
6698793 GATGTCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 22 0.58
37 16 0.42
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (36 bp):
TATTATTTTTTAGTAACTAAACTATTATTTTTATTT
Found at i:6698943 original size:33 final size:33
Alignment explanation
Indices: 6698901--6698967 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
6698891 CGTATTATCA
6698901 TAAGATAATACCATATTAGTAATTTTGTTAATT
1 TAAGATAATACCATATTAGTAATTTTGTTAATT
*
6698934 TAAGATAATATCATATTAGTAATTTTGTTAATT
1 TAAGATAATACCATATTAGTAATTTTGTTAATT
6698967 T
1 T
6698968 TTGAGCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (33 bp):
TAAGATAATACCATATTAGTAATTTTGTTAATT
Found at i:6700926 original size:6 final size:6
Alignment explanation
Indices: 6700915--6701081 Score: 155
Period size: 6 Copynumber: 27.2 Consensus size: 6
6700905 TCATTACATT
6700915 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC
* * * *
6700963 CTCTCT CT-TACAC ACTCTCT CTCTCC CCCTCTC C-CTCC CTC-CC TCCCTCC
1 CTCTCC CTCT-C-C -CTCTCC CTCTCC CTCTC-C CTCTCC CTCTCC -CTCTCC
* *
6701013 CTCCCCC TCTCTCC CTCTCTC CATCCCC CTCTCC CTCTCC CTCTCC CT-T-C
1 CT-CTCC -CTCTCC CTCTC-C C-TCTCC CTCTCC CTCTCC CTCTCC CTCTCC
*
6701063 CTCTCC CTCTCC CCCTCC C
1 CTCTCC CTCTCC CTCTCC C
6701082 CCGCTCCTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
4 3 0.02
5 7 0.05
6 102 0.76
7 14 0.10
8 8 0.06
9 1 0.01
ACGTcount: A:0.02, C:0.66, G:0.00, T:0.32
Consensus pattern (6 bp):
CTCTCC
Found at i:6701020 original size:22 final size:22
Alignment explanation
Indices: 6700989--6701083 Score: 83
Period size: 22 Copynumber: 4.4 Consensus size: 22
6700979 CTCTCTCTCC
*
6700989 CCCTCTCCCTCCCTCCCTCCCT
1 CCCTCCCCCTCCCTCCCTCCCT
* *
6701011 CCCTCCCCCTCTCTCCCTCTCT
1 CCCTCCCCCTCCCTCCCTCCCT
*
6701033 CCATCCCCCT--CTCCCT--CT
1 CCCTCCCCCTCCCTCCCTCCCT
*
6701051 CCCTCTCCCTTCCTCTCCCTCTCC-
1 CCCTC-CCCCTCC-CTCCCTC-CCT
6701075 CCCTCCCCC
1 CCCTCCCCC
6701084 GCTCCTTTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
18 6 0.10
19 4 0.07
20 6 0.10
22 34 0.58
23 3 0.05
24 5 0.08
25 1 0.02
ACGTcount: A:0.01, C:0.71, G:0.00, T:0.28
Consensus pattern (22 bp):
CCCTCCCCCTCCCTCCCTCCCT
Found at i:6701549 original size:29 final size:29
Alignment explanation
Indices: 6701495--6701554 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
6701485 TAATACTTAC
** * *
6701495 TTGTATCATTATTATCTTTCAAAAAAGAT
1 TTGTATCATTATTATAATTAAAAAAAAAT
6701524 TTGTATCATTATTA-AATTAAAGAAAAAAT
1 TTGTATCATTATTATAATTAAA-AAAAAAT
6701553 TT
1 TT
6701555 TCATTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (29 bp):
TTGTATCATTATTATAATTAAAAAAAAAT
Found at i:6701665 original size:10 final size:10
Alignment explanation
Indices: 6701650--6701678 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6701640 TAATAAAATG
6701650 AAAATATTTT
1 AAAATATTTT
6701660 AAAATATTTT
1 AAAATATTTT
6701670 AAAATATTT
1 AAAATATTT
6701679 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAAATATTTT
Found at i:6701687 original size:18 final size:20
Alignment explanation
Indices: 6701664--6701708 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
6701654 TATTTTAAAA
6701664 TATTTTAAAAT-AT-TTATT
1 TATTTTAAAATCATATTATT
6701682 TATTTTTTAAAATCATATTATT
1 TA--TTTTAAAATCATATTATT
6701704 TATTT
1 TATTT
6701709 ATTTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 2 0.09
20 12 0.52
21 2 0.09
22 7 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTAAAATCATATTATT
Found at i:6701699 original size:23 final size:23
Alignment explanation
Indices: 6701667--6701727 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
6701657 TTTAAAATAT
6701667 TTTAAAAT-AT-TTATTTATTT-
1 TTTAAAATAATATTATTTATTTA
*
6701687 TTTAAAATCATATTATTTATTTA
1 TTTAAAATAATATTATTTATTTA
*
6701710 TTTGAAATAATATTATTT
1 TTTAAAATAATATTATTT
6701728 TTAAATTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 8 0.22
21 2 0.06
22 10 0.28
23 16 0.44
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTAAAATAATATTATTTATTTA
Found at i:6714362 original size:2 final size:2
Alignment explanation
Indices: 6714355--6714379 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6714345 CAAAGATACC
6714355 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6714380 ATAAAATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6715632 original size:22 final size:22
Alignment explanation
Indices: 6715607--6715663 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
6715597 AACTCATATA
6715607 TATATATTATAATTTATAGCAT-
1 TATATATTATAATTTATA-CATG
*
6715629 TATATA--AT-ATTATATATATG
1 TATATATTATAATT-TATACATG
6715649 TATATATTATAATTT
1 TATATATTATAATTT
6715664 GTAATTCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
19 5 0.17
20 12 0.41
22 9 0.31
23 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (22 bp):
TATATATTATAATTTATACATG
Found at i:6715727 original size:2 final size:2
Alignment explanation
Indices: 6715720--6715751 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6715710 ACGAAAATGT
6715720 TA TA TA TA 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
6715752 ATTTAAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6718838 original size:26 final size:26
Alignment explanation
Indices: 6718801--6718854 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
6718791 TAAACTGAGT
6718801 TATAAAAATATAAA-TAAGTATATAAA
1 TATAAAAATATAAATTAAG-ATATAAA
* *
6718827 TATAAAATTATAAATTAAGATTTAAA
1 TATAAAAATATAAATTAAGATATAAA
6718853 TA
1 TA
6718855 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
TATAAAAATATAAATTAAGATATAAA
Found at i:6719349 original size:38 final size:38
Alignment explanation
Indices: 6719272--6719376 Score: 122
Period size: 38 Copynumber: 2.7 Consensus size: 38
6719262 TTGGAAAAAT
*
6719272 ATAATATATAAGTTTTTAGAAAACAGTTTTAAAAAATATAC
1 ATAATATAT-AGTTTTT-GAAAACA-TTTCAAAAAATATAC
* * *
6719313 ATATTATATAG-TTTTGAAAACATTTCAAATATATATAT
1 ATAATATATAGTTTTTGAAAACATTTCAAA-AAATATAC
*
6719351 ATAATATATAGTTTTTGAAAATATTT
1 ATAATATATAGTTTTTGAAAACATTT
6719377 TTGAAAACTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
37 6 0.11
38 23 0.41
39 17 0.30
40 2 0.04
41 8 0.14
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (38 bp):
ATAATATATAGTTTTTGAAAACATTTCAAAAAATATAC
Found at i:6719431 original size:24 final size:23
Alignment explanation
Indices: 6719363--6719433 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
6719353 AATATATAGT
*
6719363 TTTTGAAAATATTTTTGAAAACT-
1 TTTT-AAAATATTTTTGAAAAATA
* *
6719386 TTTTAAAATATATAT-AATAAATAA
1 TTTTAAAATATTTTTGAA-AAAT-A
6719410 TTTTAAAATATTTTTGAAAAATA
1 TTTTAAAATATTTTTGAAAAATA
6719433 T
1 T
6719434 ATAATATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.05
22 12 0.31
23 6 0.15
24 17 0.44
25 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (23 bp):
TTTTAAAATATTTTTGAAAAATA
Found at i:6719448 original size:3 final size:3
Alignment explanation
Indices: 6719440--6719483 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
6719430 ATATATAATA
* *
6719440 TAT TAT TAT TAT TAT TAT TAT CAT TATT TAT TTT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT TAT
6719484 ATGCTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6720631 original size:10 final size:10
Alignment explanation
Indices: 6720616--6720645 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
6720606 AGCCCATCAA
6720616 TTTCAATTTG
1 TTTCAATTTG
6720626 TTTCAATTTG
1 TTTCAATTTG
6720636 TTTCAATTTG
1 TTTCAATTTG
6720646 ATCCTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (10 bp):
TTTCAATTTG
Found at i:6722183 original size:51 final size:51
Alignment explanation
Indices: 6722084--6722184 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
6722074 CCTTTTCATT
* *
6722084 TGAAATCCCTAAATTCCTCGTGTTTCCCCTTTCTTCCTCATTAGCTTCCAG
1 TGAAATCCCTAAATTCCTCATGTTTCCCCTTTCTTCCTCATTAACTTCCAG
* * *
6722135 TGAAATCCCTAGATTCAC-CATGTTTCCCTTTTC-TCCTTCCTTAACTTCCA
1 TGAAATCCCTAAATTC-CTCATGTTTCCCCTTTCTTCC-TCATTAACTTCCA
6722185 ATTTCGCTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
50 3 0.07
51 39 0.91
52 1 0.02
ACGTcount: A:0.19, C:0.34, G:0.08, T:0.40
Consensus pattern (51 bp):
TGAAATCCCTAAATTCCTCATGTTTCCCCTTTCTTCCTCATTAACTTCCAG
Found at i:6734485 original size:21 final size:21
Alignment explanation
Indices: 6734459--6734498 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6734449 CCCCCTTTGA
*
6734459 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
6734480 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
6734499 TAGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:6740386 original size:26 final size:26
Alignment explanation
Indices: 6740357--6740412 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
6740347 TCAAATTGCT
6740357 TTTTAAAAAGGTGAGTGGTTTACTTA
1 TTTTAAAAAGGTGAGTGGTTTACTTA
**
6740383 TTTTTTAAAGGTGAGTGGTTTACTTA
1 TTTTAAAAAGGTGAGTGGTTTACTTA
6740409 TTTT
1 TTTT
6740413 TTAAAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (26 bp):
TTTTAAAAAGGTGAGTGGTTTACTTA
Found at i:6740413 original size:26 final size:26
Alignment explanation
Indices: 6740363--6740418 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
6740353 TGCTTTTTAA
6740363 AAAGGTGAGTGGTTTACTTATTTTTT
1 AAAGGTGAGTGGTTTACTTATTTTTT
6740389 AAAGGTGAGTGGTTTACTTATTTTTT
1 AAAGGTGAGTGGTTTACTTATTTTTT
6740415 AAAG
1 AAAG
6740419 AAAAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (26 bp):
AAAGGTGAGTGGTTTACTTATTTTTT
Found at i:6740501 original size:21 final size:21
Alignment explanation
Indices: 6740422--6740499 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
6740412 TTTAAAGAAA
* *
6740422 AAAATATATTAAATTTTAAATAT
1 AAAA-ATATTAAA-ATTAAACAT
* *
6740445 ACAAATAAATAAAATTAAACAT
1 AAAAAT-ATTAAAATTAAACAT
6740467 AAAAATATTAAAATTAAA-ACT
1 AAAAATATTAAAATTAAACA-T
6740488 -AAAATATTAAAA
1 AAAAATATTAAAA
6740500 ATAATATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 13 0.28
21 12 0.26
22 14 0.30
23 8 0.17
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAATATTAAAATTAAACAT
Found at i:6741129 original size:13 final size:13
Alignment explanation
Indices: 6741111--6741157 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 13
6741101 AAAATTATTT
6741111 TAAATTATAAATA
1 TAAATTATAAATA
6741124 TAAATTTATCAAATA
1 TAAA-TTAT-AAATA
6741139 TTAAAATTATAAAT-
1 -T-AAATTATAAATA
6741153 TAAAT
1 TAAAT
6741158 CACTAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 4 0.13
15 9 0.30
16 5 0.17
17 3 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATTATAAATA
Found at i:6745636 original size:18 final size:18
Alignment explanation
Indices: 6745590--6745637 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
6745580 AGTTAATACT
6745590 CAAATCCAATATAAAACA
1 CAAATCCAATATAAAACA
**
6745608 CAAATTTAATATAAAATC-
1 CAAATCCAATATAAAA-CA
*
6745626 CATATCCAATAT
1 CAAATCCAATAT
6745638 TCTTAATCCC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (18 bp):
CAAATCCAATATAAAACA
Found at i:6746092 original size:21 final size:21
Alignment explanation
Indices: 6746063--6746110 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
6746053 TATTATATTT
* *
6746063 AAATTAATTAATATATACCAA
1 AAATAAATTAATAAATACCAA
* * *
6746084 ACATAAATTTATAAATATCAA
1 AAATAAATTAATAAATACCAA
6746105 AAATAA
1 AAATAA
6746111 TATATATATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAATTAATAAATACCAA
Found at i:6759720 original size:83 final size:82
Alignment explanation
Indices: 6759620--6759779 Score: 248
Period size: 83 Copynumber: 1.9 Consensus size: 82
6759610 TTCGAGAAAG
* *
6759620 TTTTACTCTAACGAAAACTCTTTTAATATCTAAATTTAAACAGATAATAATATATTTAAAATTTA
1 TTTTACTCAAACCAAAACTCTTTTAATATCTAAATTTAAACAGATAATAATATATTTAAAATTT-
6759685 AAATATTAAACATGAGAA
65 AAATATTAAACATGAGAA
* ** * *
6759703 TTTTACTCAAACCAAAACTCTTTTGATATCTAAATTTAAATGGATAATAATATCTTTTAAATTTA
1 TTTTACTCAAACCAAAACTCTTTTAATATCTAAATTTAAACAGATAATAATATATTTAAAATTTA
6759768 AATATTAAACAT
66 AATATTAAACAT
6759780 TTATTTCCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 13 0.19
83 57 0.81
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (82 bp):
TTTTACTCAAACCAAAACTCTTTTAATATCTAAATTTAAACAGATAATAATATATTTAAAATTTA
AATATTAAACATGAGAA
Found at i:6760452 original size:31 final size:31
Alignment explanation
Indices: 6760415--6760486 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
6760405 AATGAAAGGG
6760415 TAAAATTATATTTTAACTCATAAACTTTATA
1 TAAAATTATATTTTAACTCATAAACTTTATA
6760446 TAAAATTATATTTTAACTCATAAACTTTATA
1 TAAAATTATATTTTAACTCATAAACTTTATA
6760477 TAAAATTATA
1 TAAAATTATA
6760487 ATTATAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAAATTATATTTTAACTCATAAACTTTATA
Found at i:6761535 original size:21 final size:21
Alignment explanation
Indices: 6761511--6761594 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
6761501 GTTCAAACAA
6761511 TGAACCGGTCTGACCCTAAAC
1 TGAACCGGTCTGACCCTAAAC
** * * *
6761532 TGAATGGGCCTAACCCTAAGC
1 TGAACCGGTCTGACCCTAAAC
* * *
6761553 TAAACCGGTTTGACCTTAAAC
1 TGAACCGGTCTGACCCTAAAC
*
6761574 TGAACCAGTCTGACCCTAAAC
1 TGAACCGGTCTGACCCTAAAC
6761595 CATTAACCAT
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (21 bp):
TGAACCGGTCTGACCCTAAAC
Found at i:6762386 original size:439 final size:446
Alignment explanation
Indices: 6761878--6762776 Score: 1030
Period size: 460 Copynumber: 2.0 Consensus size: 446
6761868 TTCATCGCGA
*
6761878 GATACATGTAAGTGTTGTTTAGTGACTTAATGGTCCATTTTTGTTTAGATATGTGATTCAAACAG
1 GATACATGTAAGTATTGTTTAGTGACTTAATGGTCCATTTTTGTTTAGATATGTGATTCAAACAG
* * * * *
6761943 TGAACTGGCCTGACCTTGAATTGAACT-GCTCTAACACTAAATCAAACTAGTCTAACCCTAAACT
66 TGAACCGACCTAACCCTAAATTGAACTAG-TCTAACACTAAATCAAACTAGTCTAACCCTAAACT
* * * * *
6762007 -AATTGGTTTGACCCTAAAATAAATCAGTCTGGCCCTAAATCAGTGATGC-TAACTATTG-C-T-
130 AAACTGGATTGACCCTAAAATAAATCAGTCTGACCCTAAACCAGTGA-CCATAACT-TTGACTTA
* *
6762067 C-ATTGAC-TTTGACCATTGAATTTTT-TTG-TTGACCTTTACATTCATGTTTTTCAATGTCCTA
193 CTATTGACTTTTGACCATTGAATTTTTATTGTTTGACCTTTACATTCATGCTTTTCAACGTCCTA
* **
6762128 AGTTTGTTTTGCCAAATGCTGACCCGAAAGCCATGTTTTATGCCATTTATTGTTTAAATTCATAA
258 AGTTTGTTTTGCCAAATGCTAACCCGAAAGCCATGTTTTATGCCATTTATCCTTTAAATTCATAA
*
6762193 TTATGTTGAGTTAATTATGTGATTCTAGACTATAATTTTGGTGTTATGTTCTGAAGGTGATCTCA
323 TTATGTTGAGTTAATTATGTGATTCTAGACTATAATTTTGGTGTTATGTTCTGAAGGTGATCCCA
* * *
6762258 AGTATCCATAACACTCTCCAATAGATCCCGACCACCATCGCTTAGCT-TAGTTTGATTCT
388 AATATCCATAACACTCTCCAATAGATCCCGACCACCATCGCTCAACTAT-GTTTGATTCT
* * ***
6762317 GATACATGTAAGTATTGTTTAGTGACTTAATGGTCTA-TTTTGATTTAGATATGTGGTTCATGTA
1 GATACATGTAAGTATTGTTTAGTGACTTAATGGTCCATTTTTG-TTTAGATATGTGATTCAAACA
* * * * * **
6762381 GTGAACCGATCTAACCCTAAATTGAACTAGTTTGACCCTAAATCGAACTAGTCTGGCCCTAAACT
65 GTGAACCGACCTAACCCTAAATTGAACTAGTCTAACACTAAATCAAACTAGTCTAACCCTAAACT
* * ** * *
6762446 AAACTGGATTGACCTTAAACTAAATTGGTTTGACCCTAAACCATTGACCATTAACTTTGACTATT
130 AAACTGGATTGACCCTAAAATAAATCAGTCTGACCCTAAACCAGTGACCA-TAACTTTGAC--TT
* *
6762511 AACTTTTGACTTTTGACTATTGAATTTTTCATTGAATTTATCTATTGACCTTTACATTCATGCTT
192 -ACTATTGACTTTTGACCATTGAATTTTT-ATTG--------T-TTGACCTTTACATTCATGCTT
* * * * * * * *
6762576 TTCGACGTCTTGAGTTTGTTTTGTCAAATTCTAAGCCGAAAGCCATGTTTTGTGTCATTTATCCT
246 TTCAACGTCCTAAGTTTGTTTTGCCAAATGCTAACCCGAAAGCCATGTTTTATGCCATTTATCCT
* **
6762641 TTAAATTCATAATTATGTTGAGTTAATTATGTGATTTTAGACTATGTTTTTGGTGTTATGTTCTG
311 TTAAATTCATAATTATGTTGAGTTAATTATGTGATTCTAGACTATAATTTTGGTGTTATGTTCTG
* * * * * *
6762706 AAGGTGATCCCAAATCTCCATATCACTCTCTAATAGTTCCCGACTACCCTCGCTCAACTATGTTT
376 AAGGTGATCCCAAATATCCATAACACTCTCCAATAGATCCCGACCACCATCGCTCAACTATGTTT
6762771 GATTCT
441 GATTCT
6762777 ACATGTTCAT
Statistics
Matches: 377, Mismatches: 57, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
438 5 0.01
439 104 0.28
440 40 0.11
441 6 0.02
444 1 0.00
446 1 0.00
447 5 0.01
448 17 0.05
450 3 0.01
460 194 0.51
461 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (446 bp):
GATACATGTAAGTATTGTTTAGTGACTTAATGGTCCATTTTTGTTTAGATATGTGATTCAAACAG
TGAACCGACCTAACCCTAAATTGAACTAGTCTAACACTAAATCAAACTAGTCTAACCCTAAACTA
AACTGGATTGACCCTAAAATAAATCAGTCTGACCCTAAACCAGTGACCATAACTTTGACTTACTA
TTGACTTTTGACCATTGAATTTTTATTGTTTGACCTTTACATTCATGCTTTTCAACGTCCTAAGT
TTGTTTTGCCAAATGCTAACCCGAAAGCCATGTTTTATGCCATTTATCCTTTAAATTCATAATTA
TGTTGAGTTAATTATGTGATTCTAGACTATAATTTTGGTGTTATGTTCTGAAGGTGATCCCAAAT
ATCCATAACACTCTCCAATAGATCCCGACCACCATCGCTCAACTATGTTTGATTCT
Found at i:6762418 original size:21 final size:21
Alignment explanation
Indices: 6762394--6762486 Score: 80
Period size: 21 Copynumber: 4.4 Consensus size: 21
6762384 AACCGATCTA
* *
6762394 ACCCTAAATTGAACTAGTTTG
1 ACCCTAAACTAAACTAGTTTG
* *
6762415 ACCCTAAA-TCGAACTAGTCTG
1 ACCCTAAACT-AAACTAGTTTG
* * *
6762436 GCCCTAAACTAAACTGGATTG
1 ACCCTAAACTAAACTAGTTTG
* * *
6762457 ACCTTAAACTAAATTGGTTTG
1 ACCCTAAACTAAACTAGTTTG
6762478 ACCCTAAAC
1 ACCCTAAAC
6762487 CATTGACCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 1 0.02
21 57 0.97
22 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (21 bp):
ACCCTAAACTAAACTAGTTTG
Found at i:6762533 original size:14 final size:14
Alignment explanation
Indices: 6762489--6762521 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6762479 CCCTAAACCA
*
6762489 TTGACCATTAAC-T
1 TTGACTATTAACTT
6762502 TTGACTATTAACTT
1 TTGACTATTAACTT
6762516 TTGACT
1 TTGACT
6762522 TTTGACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (14 bp):
TTGACTATTAACTT
Found at i:6766957 original size:53 final size:53
Alignment explanation
Indices: 6766858--6767175 Score: 325
Period size: 53 Copynumber: 5.9 Consensus size: 53
6766848 TCTTCAAATA
* * **
6766858 ACGGG-TCTGCTCCCTCTT-CTTCAGGGATTAAGGAACTCAAACAATCTTCTAAAA
1 ACGGGTTC-GCTCCCTCTTGCTTCAGGGAGT-A-GAACTCAAACAATCTTCTGATT
* * * *
6766912 ATGGGTTTGCTCCCTATTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGTTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGATT
* * * *
6766965 ACGGGTTCACTCCCTCTTGCTTCAGGGAGTATAACTCAAACGATCTTCTGCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGATT
* * * * * * * *
6767018 ACGGGTTTGCTCCCACTTGCTTAATAGAGCGTAGAACTCGAAGAATCTTCTGTTT
1 ACGGGTTCGCTCCCTCTTGCTT--CAGGGAGTAGAACTCAAACAATCTTCTGATT
* * * **
6767073 ACGGGTTCGCTCCATCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGATT
* * *
6767126 ACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTG
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTG
6767176 GTGTGATTCT
Statistics
Matches: 220, Mismatches: 40, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
53 153 0.70
54 14 0.06
55 53 0.24
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGATT
Found at i:6767076 original size:108 final size:106
Alignment explanation
Indices: 6766928--6767175 Score: 325
Period size: 108 Copynumber: 2.3 Consensus size: 106
6766918 TTGCTCCCTA
* * * *
6766928 TTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGTTTACGGGTTCACTCCCTCTTGCTTCAGGGA
1 TTGCTTCAGAGAGTAGAACTCGAACAATCTTCTGTTTACGGGTTCACTCCATCTTGCTTCAAGGA
* * * **
6766993 GTATAACTCAAACGATCTTCTGCTTACGGGTTTGCTCCCAC
66 GTAGAACTCAAACAATCTTCTGCCTACGGGTTCACTCCCAC
* * * *
6767034 TTGCTTAATAGAGCGTAGAACTCGAAGAATCTTCTGTTTACGGGTTCGCTCCATCTTGCTTCAAG
1 TTGCTT--CAGAGAGTAGAACTCGAACAATCTTCTGTTTACGGGTTCACTCCATCTTGCTTCAAG
* *
6767099 GAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACTCCCTC
64 GAGTAGAACTCAAACAATCTTCTGCCTACGGGTTCACTCCCAC
* *
6767142 TTGCTTCAGGGAGTAGAACTCGAATAATCTTCTG
1 TTGCTTCAGAGAGTAGAACTCGAACAATCTTCTG
6767176 GTGTGATTCT
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 30 0.25
108 91 0.75
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (106 bp):
TTGCTTCAGAGAGTAGAACTCGAACAATCTTCTGTTTACGGGTTCACTCCATCTTGCTTCAAGGA
GTAGAACTCAAACAATCTTCTGCCTACGGGTTCACTCCCAC
Found at i:6767701 original size:42 final size:41
Alignment explanation
Indices: 6767596--6767871 Score: 275
Period size: 42 Copynumber: 6.6 Consensus size: 41
6767586 ACATCCTACC
* * * * *
6767596 CGAAGGACTTA-TGGATGACCCGAAGGATTTATTATCTTGCT
1 CGAAAGACTTACT-GATGGCCCGAAGGATTAATCATCATGCT
* * *** * *
6767637 CGAAAAACTCAAAAATGACCCGAATGATTAAATCATCATGCT
1 CGAAAGACTTACTGATGGCCCGAAGGATT-AATCATCATGCT
*
6767679 CGAAAGACTTACTGATGGCCCGAATGATTTAATCATCATGCT
1 CGAAAGACTTACTGATGGCCCGAAGGA-TTAATCATCATGCT
* * * *
6767721 TGAAAGACTTACTGATGGCCTGAAGGGCTTCATCATCATGCT
1 CGAAAGACTTACTGATGGCCCGAA-GGATTAATCATCATGCT
* *
6767763 CAAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCT
1 CGAAAGACTTACTGATGGCCCGAAGGA-TTAATCATCATGCT
* * *
6767805 CGAAAGACTTACTGATGACCCAAAGGATTTAAGCATCATGCT
1 CGAAAGACTTACTGATGGCCCGAAGGA-TTAATCATCATGCT
* *
6767847 TGAAAGACTTATTGATGGCCCGAAG
1 CGAAAGACTTACTGATGGCCCGAAG
6767872 AACTTACTAA
Statistics
Matches: 196, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
41 24 0.12
42 169 0.86
43 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (41 bp):
CGAAAGACTTACTGATGGCCCGAAGGATTAATCATCATGCT
Found at i:6774012 original size:154 final size:155
Alignment explanation
Indices: 6773720--6774030 Score: 590
Period size: 154 Copynumber: 2.0 Consensus size: 155
6773710 CTTGCTTATC
6773720 TGACACCTCGAGATTGTTTTCATTGAGTTATCTCTCTTCCTTTGGACAAAACATCTATTCTATCC
1 TGACACCTCGAGATTGTTTTCATTGAGTTATCTCTCTTCCTTTGGACAAAACATCTATTCTATCC
6773785 ATCATCTTGGACATTTTTTCTTTTATCTCTCTTATCTCATTATGCTCTTCGTCAACATATGATCT
66 ATCATCTTGGACATTTTTTCTTTTATCTCTCTTATCTCATTATGCTCTTCGTCAACATATGATCT
6773850 TAT-GTGTGTAACTCTCCACTATTT
131 TATAGTGTGTAACTCTCCACTATTT
6773874 TGACACCTCGAGATTGTTTTCATTGAGTTATCTCTCTTCCTTTGGACAAAACATCTATTCTATCC
1 TGACACCTCGAGATTGTTTTCATTGAGTTATCTCTCTTCCTTTGGACAAAACATCTATTCTATCC
6773939 ATCATCTTGGACATTTTTTCTTTTATCTCTCTTATCTCATTATGCTCTTCGTCAAACATATGATC
66 ATCATCTTGGACATTTTTTCTTTTATCTCTCTTATCTCATTATGCTCTTCGTC-AACATATGATC
6774004 TT-TATGTGTGTAACTCTCCACTATTT
130 TTATA-GTGTGTAACTCTCCACTATTT
6774030 T
1 T
6774031 CGAAGCTTTC
Statistics
Matches: 154, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
154 119 0.77
155 13 0.08
156 22 0.14
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (155 bp):
TGACACCTCGAGATTGTTTTCATTGAGTTATCTCTCTTCCTTTGGACAAAACATCTATTCTATCC
ATCATCTTGGACATTTTTTCTTTTATCTCTCTTATCTCATTATGCTCTTCGTCAACATATGATCT
TATAGTGTGTAACTCTCCACTATTT
Found at i:6780457 original size:42 final size:42
Alignment explanation
Indices: 6780402--6780485 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
6780392 ACTGGATTGT
*
6780402 TGATACATGTCAACATTTTAGCTATTAATCTTATAAATGTTG
1 TGATACATATCAACATTTTAGCTATTAATCTTATAAATGTTG
*
6780444 TGATATATATCAACATTTTAGCTATTAATCTTATAAATGTTG
1 TGATACATATCAACATTTTAGCTATTAATCTTATAAATGTTG
6780486 AGAACCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (42 bp):
TGATACATATCAACATTTTAGCTATTAATCTTATAAATGTTG
Found at i:6780572 original size:28 final size:28
Alignment explanation
Indices: 6780539--6780594 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
6780529 AAATATCTTG
*
6780539 ATTATTTTATGAATATT-TTTAGATATAT
1 ATTATTTTA-GAATATTCTTAAGATATAT
6780567 ATTATTTTAGAATATTCTTAAGATATAT
1 ATTATTTTAGAATATTCTTAAGATATAT
6780595 CCGATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (28 bp):
ATTATTTTAGAATATTCTTAAGATATAT
Found at i:6783698 original size:23 final size:23
Alignment explanation
Indices: 6783641--6783877 Score: 68
Period size: 23 Copynumber: 10.0 Consensus size: 23
6783631 GAATATTCTA
* * * *
6783641 AATACAAGAGTACACAATAGTAGT
1 AATACAGGAGTGCACAA-AGCACT
6783665 AATAC-GAGAGTGCACAAAGCACT
1 AATACAG-GAGTGCACAAAGCACT
* ****
6783688 AATGCAGGAGTGTTGGAAGCACT
1 AATACAGGAGTGCACAAAGCACT
* *
6783711 AATACAGGAGTACACAAATGTACT
1 AATACAGGAGTGCACAAA-GCACT
* * **
6783735 AGA-ATCATGAGCGCACGAATTCACT
1 A-ATA-CAGGAGTGCAC-AAAGCACT
* **
6783760 AATTA-AGGAGTACA-AAATTGTGCT
1 AA-TACAGGAGTGCACAAA--GCACT
* * * *
6783784 AATATAGAAGTGCACGGATGCACT
1 AATACAGGAGTGCAC-AAAGCACT
* * * *
6783808 AATATATGCGTTCACAAAGCACT
1 AATACAGGAGTGCACAAAGCACT
* *
6783831 AATACAGGAGTGCGCAAAGCATT
1 AATACAGGAGTGCACAAAGCACT
* * *
6783854 GATACAAGAGTGCACGAATGCACT
1 AATACAGGAGTGCAC-AAAGCACT
6783878 GGTCAAGATC
Statistics
Matches: 147, Mismatches: 52, Indels: 28
0.65 0.23 0.12
Matches are distributed among these distances:
22 2 0.01
23 69 0.47
24 59 0.40
25 13 0.09
26 4 0.03
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (23 bp):
AATACAGGAGTGCACAAAGCACT
Found at i:6788476 original size:57 final size:57
Alignment explanation
Indices: 6788414--6788797 Score: 542
Period size: 57 Copynumber: 6.7 Consensus size: 57
6788404 ATGACACATA
6788414 GTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
1 GTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
* *
6788471 GTGTGCAAAAAGTTAAGAAATTCATACCAAGTGTATGAATTT-TCGTATTTGGCACTTT
1 GTGTGC-AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGCACTTT
*
6788529 GTGTGCAAAATTTAAGAAATTCATACTAAGTGTATGAATTT-TCGTATTGGGCACTTT
1 GTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGCACTTT
* * *
6788586 GTGTGCAAAAGTTAAGAAATTCATACTAATTGTATGAATTTCCGTATTAGGCACTTT
1 GTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
* * *
6788643 GTGTGCAAAAGTTAAGAAATTCATACTAATTGTATGAATTTCCGTATTGGGCATTTT
1 GTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
* *
6788700 ATGTGAAAAAAGTTAAGAAATTCATACTAAGTGTATG-ATTTCCT-TATTGGGCACTTT
1 GTGTG-CAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT-CTGTATTGGGCACTTT
* * ** *
6788757 GCGTGCAAAAAGTCAAGAGGTTCATACTAAGTGTATAAATT
1 GTGTGC-AAAAGTTAAGAAATTCATACTAAGTGTATGAATT
6788798 ATCGTACGAG
Statistics
Matches: 297, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
57 211 0.71
58 86 0.29
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (57 bp):
GTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
Found at i:6794510 original size:19 final size:19
Alignment explanation
Indices: 6794486--6794575 Score: 135
Period size: 19 Copynumber: 4.7 Consensus size: 19
6794476 TGATTCAATC
*
6794486 AGTATCGATACCAAATGGG
1 AGTATCGATACCAAAGGGG
*
6794505 AGTATCGATACCGAAGGGG
1 AGTATCGATACCAAAGGGG
*
6794524 AGTATCGATACCGAAGGGG
1 AGTATCGATACCAAAGGGG
*
6794543 AGTATCGATACCAAAGGGA
1 AGTATCGATACCAAAGGGG
6794562 AGGTATCGATACCA
1 A-GTATCGATACCA
6794576 TTCTGAGACG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
19 54 0.82
20 12 0.18
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.18
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGG
Found at i:6794622 original size:19 final size:20
Alignment explanation
Indices: 6794598--6794665 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 20
6794588 ATGCAAAAAT
6794598 GGTATCGATACCATAGTA-G
1 GGTATCGATACCATAGTAGG
* *
6794617 GGTATCGGTTCCATAGTATGG
1 GGTATCGATACCATAGTA-GG
* *
6794638 TAGTATCGATACCATGGTAGG
1 -GGTATCGATACCATAGTAGG
6794659 GGTATCG
1 GGTATCG
6794666 CTACTGAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 16 0.41
20 6 0.15
21 3 0.08
22 14 0.36
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:6795061 original size:57 final size:58
Alignment explanation
Indices: 6794992--6795334 Score: 534
Period size: 58 Copynumber: 6.0 Consensus size: 58
6794982 ATTACCAAAT
* *
6794992 GGCACTTAGTGTGC-AAAAGTTAAGAAATTCATTCTAAGTGTATGAATTTTCGTATTG
1 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* *
6795049 GACACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
*
6795107 GGCACTTTGTGTGC-AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
* *
6795164 GGCACTTTGTGTGC-AAAACTTAAGAAATTCATAGTAAGTGTATGAA-TTTCTGTATTG
1 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATTG
6795221 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAA-TTTCTGTATTG
1 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATTG
* * * *
6795279 GGCACTTTGCGTGCAAAAAGTCAAGAGATTCATACTAAGTGTATGAATTGTCGTAT
1 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
6795335 GGGAAATATA
Statistics
Matches: 268, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
56 3 0.01
57 119 0.44
58 143 0.53
59 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (58 bp):
GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTG
Found at i:6795175 original size:115 final size:115
Alignment explanation
Indices: 6794992--6795327 Score: 557
Period size: 115 Copynumber: 2.9 Consensus size: 115
6794982 ATTACCAAAT
* * * *
6794992 GGCACTTAGTGTGCAAAAGTTAAGAAATTCATTCTAAGTGTATGAATTTTCGTATTGGACACTTT
1 GGCACTTTGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
6795057 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
66 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
6795107 GGCACTTTGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GGCACTTTGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
6795172 GTGTGC-AAAACTTAAGAAATTCATAGTAAGTGTATGAATTTCTGTATTG
66 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
6795221 GGCACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTT
1 GGCACTTTGTGTGC-AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTT
* * *
6795286 TGCGTGCAAAAAGTCAAGAGATTCATACTAAGTGTATGAATT
65 TGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATT
6795328 GTCGTATGGG
Statistics
Matches: 206, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
114 54 0.26
115 122 0.59
116 30 0.15
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (115 bp):
GGCACTTTGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:6797826 original size:165 final size:168
Alignment explanation
Indices: 6797641--6797974 Score: 638
Period size: 165 Copynumber: 2.0 Consensus size: 168
6797631 GTCATTTTTC
6797641 CTCTTATTATTATATTTTAATATTAATATTGTTTTTTATTTTATTTTTAATTTGGTCCTTTTGTG
1 CTCTTATTATTATATTTTAATATTAATATTGTTTTTTATTTTATTTTTAATTTGGTCCTTTTGTG
6797706 ATTTAATTTTCTACTCCATTTATTTGTACAATGCAC-TTCTTAGTATTATTTTAGTCCTTATTTC
66 ATTTAATTTTCTACTCCATTTATTTGTACAATGCACTTTCTTAGTATTATTTTAGTCCTTATTTC
6797770 TGGTTTACTTATTT-A-ATTGTATTTACATTTGAAACA
131 TGGTTTACTTATTTAACATTGTATTTACATTTGAAACA
6797806 CTCTTATTATTATATTTTAATATTAATATTGTTTTTTATTTTATTTTTAATTTGGTCCTTTTGTG
1 CTCTTATTATTATATTTTAATATTAATATTGTTTTTTATTTTATTTTTAATTTGGTCCTTTTGTG
6797871 ATTTAATTTTCTACTCCATTTATTTGTACAATGCACTTTTCTTAGTATTATTTTAGTCCTTATTT
66 ATTTAATTTTCTACTCCATTTATTTGTACAATGCAC-TTTCTTAGTATTATTTTAGTCCTTATTT
6797936 CTGGTTTACTTATTTAACATTGTATTTACATTTGAAACA
130 CTGGTTTACTTATTTAACATTGTATTTACATTTGAAACA
6797975 TTTATTCTCC
Statistics
Matches: 165, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
165 101 0.61
167 42 0.25
168 1 0.01
169 21 0.13
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (168 bp):
CTCTTATTATTATATTTTAATATTAATATTGTTTTTTATTTTATTTTTAATTTGGTCCTTTTGTG
ATTTAATTTTCTACTCCATTTATTTGTACAATGCACTTTCTTAGTATTATTTTAGTCCTTATTTC
TGGTTTACTTATTTAACATTGTATTTACATTTGAAACA
Found at i:6798526 original size:2 final size:2
Alignment explanation
Indices: 6798519--6798557 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
6798509 TTACGTTTGC
6798519 AT AT AT AT A- AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6798558 CATGCTTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6798539 original size:15 final size:14
Alignment explanation
Indices: 6798519--6798557 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
6798509 TTACGTTTGC
6798519 ATATATATA-ATAT
1 ATATATATATATAT
6798532 ATATATATATATA-
1 ATATATATATATAT
6798545 ATATATATATATA
1 ATATATATATATA
6798558 CATGCTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:6798539 original size:17 final size:17
Alignment explanation
Indices: 6798519--6798557 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
6798509 TTACGTTTGC
6798519 ATATATATAATATATAT
1 ATATATATAATATATAT
6798536 ATATATATAATATATAT
1 ATATATATAATATATAT
6798553 ATATA
1 ATATA
6798558 CATGCTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATATAATATATAT
Found at i:6800483 original size:22 final size:22
Alignment explanation
Indices: 6800422--6800478 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
6800412 ATATCAAATG
6800422 AAAGAAACAAAGGTGAAAAGTA
1 AAAGAAACAAAGGTGAAAAGTA
*
6800444 AAAGAAAAAAAGGTGAAAAGTA
1 AAAGAAACAAAGGTGAAAAGTA
6800466 AAAGAAACTAAAG
1 AAAGAAAC-AAAG
6800479 AGAAATTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.67, C:0.04, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAGAAACAAAGGTGAAAAGTA
Found at i:6801882 original size:8 final size:9
Alignment explanation
Indices: 6801860--6801885 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6801850 AAAATAAACA
6801860 TAAAAATAT
1 TAAAAATAT
6801869 TAAAAATAT
1 TAAAAATAT
6801878 TAAAAATA
1 TAAAAATA
6801886 AAACTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATAT
Found at i:6801894 original size:29 final size:31
Alignment explanation
Indices: 6801841--6801903 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
6801831 ATTAAATTTT
*
6801841 AAATATATAAAAATAAACATAAAAATATTAA
1 AAATATATAAAAATAAACATAAAAATACTAA
6801872 AAATAT-TAAAAATAAA-ACT-AAAATACTAA
1 AAATATATAAAAATAAACA-TAAAAATACTAA
6801901 AAA
1 AAA
6801904 AGTAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 13 0.43
30 11 0.37
31 6 0.20
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (31 bp):
AAATATATAAAAATAAACATAAAAATACTAA
Found at i:6801904 original size:30 final size:31
Alignment explanation
Indices: 6801841--6801904 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
6801831 ATTAAATTTT
*
6801841 AAATATATAAAAATAAACATAAAAATATTAA
1 AAATATATAAAAATAAACATAAAAATATAAA
6801872 AAATAT-TAAAAATAAA-ACT-AAAATACTAAA
1 AAATATATAAAAATAAACA-TAAAAATA-TAAA
6801902 AAA
1 AAA
6801905 GTAATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 7 0.23
30 17 0.57
31 6 0.20
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (31 bp):
AAATATATAAAAATAAACATAAAAATATAAA
Found at i:6801913 original size:2 final size:2
Alignment explanation
Indices: 6801908--6801935 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6801898 TAAAAAAGTA
6801908 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
6801936 TAATGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6802571 original size:80 final size:80
Alignment explanation
Indices: 6802465--6802625 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
6802455 ATAATTACAT
6802465 TAATACCCCTTTATATATTATTTTTTTCAATTAAATCACTATTTTTATAGAATAAAAATAATATT
1 TAATACCCCTTTATATATTATTTTTTTCAATTAAATCACTATTTTTATAGAATAAAAATAATATT
6802530 TATTATTATTTCGGG
66 TATTATTATTTCGGG
6802545 TAATACCCCTTTATATATTATTTTTTTCAATTAAATCACTATTTTTATAGAATAAAAATAATATT
1 TAATACCCCTTTATATATTATTTTTTTCAATTAAATCACTATTTTTATAGAATAAAAATAATATT
6802610 TATTATTATTTCGGG
66 TATTATTATTTCGGG
6802625 T
1 T
6802626 CGAATCAGAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (80 bp):
TAATACCCCTTTATATATTATTTTTTTCAATTAAATCACTATTTTTATAGAATAAAAATAATATT
TATTATTATTTCGGG
Found at i:6811731 original size:14 final size:14
Alignment explanation
Indices: 6811714--6811743 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6811704 TTTATCTTTT
6811714 AAGTTTTATTAAGA
1 AAGTTTTATTAAGA
*
6811728 AAGTTTTATTGAGA
1 AAGTTTTATTAAGA
6811742 AA
1 AA
6811744 CTCAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (14 bp):
AAGTTTTATTAAGA
Found at i:6811847 original size:17 final size:18
Alignment explanation
Indices: 6811815--6811851 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6811805 AAGAGAATTC
6811815 TTTATTTGAGATTTGTGT
1 TTTATTTGAGATTTGTGT
*
6811833 TTTATTTTA-ATTTGTGT
1 TTTATTTGAGATTTGTGT
6811850 TT
1 TT
6811852 ATAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (18 bp):
TTTATTTGAGATTTGTGT
Found at i:6812377 original size:16 final size:16
Alignment explanation
Indices: 6812358--6812411 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
6812348 TTTCGAGTCG
6812358 GGTTAAATTTGGTTCA
1 GGTTAAATTTGGTTCA
*** *
6812374 GGTTGCTTTTGGATCA
1 GGTTAAATTTGGTTCA
*
6812390 GGTTAAAATTCGGTTCA
1 GGTT-AAATTTGGTTCA
6812407 GGTTA
1 GGTTA
6812412 GTTTCGATTT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (16 bp):
GGTTAAATTTGGTTCA
Found at i:6812377 original size:32 final size:34
Alignment explanation
Indices: 6812341--6812418 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
6812331 ATTTCTATTT
* *
6812341 AGGTTGCTTTCGAG-TCGGGTT-AAATTTGGTTC
1 AGGTTGCTTTCGAGATCAGGTTAAAATTCGGTTC
*
6812373 AGGTTGCTTTTG-GATCAGGTTAAAATTCGGTTC
1 AGGTTGCTTTCGAGATCAGGTTAAAATTCGGTTC
6812406 AGGTTAG-TTTCGA
1 AGGTT-GCTTTCGA
6812419 TTTGGGTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
31 1 0.03
32 17 0.45
33 19 0.50
34 1 0.03
ACGTcount: A:0.19, C:0.12, G:0.29, T:0.40
Consensus pattern (34 bp):
AGGTTGCTTTCGAGATCAGGTTAAAATTCGGTTC
Found at i:6812454 original size:22 final size:22
Alignment explanation
Indices: 6812429--6812470 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6812419 TTTGGGTTGT
6812429 TTTTGGTTCGGGTTAATTTCAG
1 TTTTGGTTCGGGTTAATTTCAG
6812451 TTTTGGTTCGGGTTAATTTC
1 TTTTGGTTCGGGTTAATTTC
6812471 GGCTCGGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.26, T:0.52
Consensus pattern (22 bp):
TTTTGGTTCGGGTTAATTTCAG
Found at i:6812480 original size:22 final size:22
Alignment explanation
Indices: 6812433--6812480 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
6812423 GGTTGTTTTT
* **
6812433 GGTTCGGGTTAATTTCAGTTTT
1 GGTTCGGGTTAATTTCAGCTCG
*
6812455 GGTTCGGGTTAATTTCGGCTCG
1 GGTTCGGGTTAATTTCAGCTCG
6812477 GGTT
1 GGTT
6812481 GCTTTCAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.10, C:0.12, G:0.33, T:0.44
Consensus pattern (22 bp):
GGTTCGGGTTAATTTCAGCTCG
Found at i:6816344 original size:16 final size:16
Alignment explanation
Indices: 6816311--6816345 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6816301 TCATGCCTTA
*
6816311 TTTATTTTTTTTTATT
1 TTTATTTTTTCTTATT
*
6816327 TTTATTTTTTCTTGTT
1 TTTATTTTTTCTTATT
6816343 TTT
1 TTT
6816346 TGAATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTATTTTTTCTTATT
Found at i:6822811 original size:21 final size:20
Alignment explanation
Indices: 6822768--6822818 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6822758 ACTCAGGGGA
* *
6822768 GTATCGATACCATAGAGAGG
1 GTATCGATACCATAAAAAGG
*
6822788 GTATCGATACCCTAAATAAGG
1 GTATCGATACCATAAA-AAGG
*
6822809 GTATCTATAC
1 GTATCGATAC
6822819 TCACCTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATAAAAAGG
Found at i:6824109 original size:9 final size:9
Alignment explanation
Indices: 6824097--6824130 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
6824087 GAATTCGGTT
6824097 AATTAACCG
1 AATTAACCG
6824106 AATTAACCG
1 AATTAACCG
6824115 AATTAACCG
1 AATTAACCG
6824124 AAATTAA
1 -AATTAA
6824131 ATTTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:6824385 original size:15 final size:15
Alignment explanation
Indices: 6824365--6824398 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6824355 AGCCCAAACC
6824365 ATTTAAAACCCAATA
1 ATTTAAAACCCAATA
* *
6824380 ATTTAAGATCCAATA
1 ATTTAAAACCCAATA
6824395 ATTT
1 ATTT
6824399 TTAAACTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (15 bp):
ATTTAAAACCCAATA
Found at i:6825621 original size:60 final size:59
Alignment explanation
Indices: 6825557--6825679 Score: 133
Period size: 60 Copynumber: 2.1 Consensus size: 59
6825547 ATCCTCCAAT
* * * * *
6825557 TATATGATATTATTTTGTTGAGTCCTCCT-ACTATTAGAAATTATAAAATAGTC-CTCTGAC
1 TATATGATAGTACTTTATTGAGT-C-CCTAACTATTAAAAATTACAAAATAGTCACTC-GAC
* *
6825617 TATATGGTAGTACTTTATTGAGTCCCTAGATTATTAAAAATTACAAAATAGTCACTCGAC
1 TATATGATAGTACTTTATTGAGTCCCTA-ACTATTAAAAATTACAAAATAGTCACTCGAC
6825677 TAT
1 TAT
6825680 TCATATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
58 3 0.06
59 1 0.02
60 46 0.87
61 3 0.06
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (59 bp):
TATATGATAGTACTTTATTGAGTCCCTAACTATTAAAAATTACAAAATAGTCACTCGAC
Found at i:6830082 original size:29 final size:29
Alignment explanation
Indices: 6830050--6830108 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
6830040 AACGAATCCT
6830050 AAGGTTTCAATATACCTTTGACGAGCTGA
1 AAGGTTTCAATATACCTTTGACGAGCTGA
* * *
6830079 AAGGTTTCAGTCTCCCTTTGACGAGCTGA
1 AAGGTTTCAATATACCTTTGACGAGCTGA
6830108 A
1 A
6830109 CTATCAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (29 bp):
AAGGTTTCAATATACCTTTGACGAGCTGA
Found at i:6844334 original size:9 final size:9
Alignment explanation
Indices: 6844319--6844360 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
6844309 ATATGTTTCC
6844319 CATATATCA
1 CATATATCA
*
6844328 TATATATCA
1 CATATATCA
6844337 CATATATCA
1 CATATATCA
*
6844346 CGTA-A-CA
1 CATATATCA
6844353 CATATATC
1 CATATATC
6844361 TCTTATACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
7 5 0.19
8 2 0.07
9 20 0.74
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.33
Consensus pattern (9 bp):
CATATATCA
Found at i:6864982 original size:3 final size:3
Alignment explanation
Indices: 6864976--6865029 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
6864966 CATTATTATT
*
6864976 TAA TAA TAA AAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6865023 TAA TAA T
1 TAA TAA T
6865030 TAGGGAGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6865638 original size:177 final size:177
Alignment explanation
Indices: 6865334--6866103 Score: 1125
Period size: 177 Copynumber: 4.4 Consensus size: 177
6865324 TCAAGTGAGA
* * * * *
6865334 TAAAAT-TTATTTGAAAACATCCTTCACTAAAGGACTTATGGATGGCCCGTAGGACTTACAAATG
1 TAAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
**
6865398 AAGAAACCCCCGAAGGCTTATTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
66 AAGAAACCCCCGAAGGCTTGGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
* *
6865463 TAACAACTCTTTTGAGATAATTAGTACACCCCCGAAGGCTTGGTTTC
131 TAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTC
6865510 TAAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
1 TAAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
* * * *
6865575 AAGAAACCCCCAAAGTCTTGGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAGCTTCCTT
66 AAGAAACCCCCGAAGGCTTGGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
* ** *
6865640 TAAAAACTCTTTAAAGATAATTAGTAAATCCCCGAAGGCTTAGTTTC
131 TAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTC
* * *
6865687 TAAAATCTCATTTGAAAACATCCTGCATTGAAGGTCTTATAGATGGCCCGTAGGACTTACAAATC
1 TAAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
* * *
6865752 AATAAACCCCCGATGGCTTGGTTTCTTAGTTGTCAAGAAACCCCTTT-TTAGGCTTAGTTTCCTT
66 AAGAAACCCCCGAAGGCTTGGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
* *
6865816 TAACAACTCTTTTGAGATAATTAGTAAACCTCCGGAGGCTTAGTTTC
131 TAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTC
* * *
6865863 TAAAATCTCATTTGAAAACATCCTGCAC-GAAAGGTCTTATGGATGGCACGTAGGACTTATAAAT
1 TAAAATCTCATTTGAAAACATCCTACACTG-AAGGTCTTATGGATGGCCCGTAGGACTTACAAAT
* * * * * *
6865927 AAATAAACCCTCGAAGGCTTGGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAACTTTCT
65 CAAGAAACCCCCGAAGGCTTGGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCT
* * * *
6865992 TTAACATCTCTTTTGAGAAAATTAGTAAACCCCCAAAGACTTAGTTTC
130 TTAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTC
* * *
6866040 TAAAATCTCATTTGAAAACATCCTGA-GCTGAAGGTGTTATGGATGGCCCGAAGGACTTACAAAT
1 TAAAATCTCATTTGAAAACATCCT-ACACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAAT
6866104 TCGGGAAATA
Statistics
Matches: 534, Mismatches: 55, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
175 1 0.00
176 165 0.31
177 367 0.69
178 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (177 bp):
TAAAATCTCATTTGAAAACATCCTACACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
AAGAAACCCCCGAAGGCTTGGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
TAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTC
Found at i:6866017 original size:353 final size:354
Alignment explanation
Indices: 6865334--6866103 Score: 1161
Period size: 353 Copynumber: 2.2 Consensus size: 354
6865324 TCAAGTGAGA
* * * * *
6865334 TAAAAT-TTATTTGAAAACATCCTTCACTAAAGGACTTATGGATGGCCCGTAGGACTTACAAATG
1 TAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
*
6865398 AAGAAACCCCCGAAGGCTTATTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
66 AAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
* *
6865463 TAACAACTCTTTTGAGATAATTAGTACACCCCCGAAGGCTTGGTTTCTAAAATCTCATTTGAAAA
131 TAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAA
* * *
6865528 CATCCTACACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATCAAGAAACCCCCAAAGTCT
196 CATCCTACACTGAAGGTCTTATGGATGGCACGTAGGACTTACAAATAAAGAAACCCCCAAAGGCT
* *
6865593 TGGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAGCTTCCTTTAAAAACTCTTTAAAGAT
261 TGGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAACTTCCTTTAAAAACTCTTTAAAGAA
* * *
6865658 AATTAGTAAATCCCCGAAGGCTTAGTTTC
326 AATTAGTAAACCCCCAAAGACTTAGTTTC
* *
6865687 TAAAATCTCATTTGAAAACATCCTGCATTGAAGGTCTTATAGATGGCCCGTAGGACTTACAAATC
1 TAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
* * * *
6865752 AATAAACCCCCGATGGCTTGGTTTCTTAGTTGTCAAGAAACCCCTTT-TTAGGCTTAGTTTCCTT
66 AAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
* *
6865816 TAACAACTCTTTTGAGATAATTAGTAAACCTCCGGAGGCTTAGTTTCTAAAATCTCATTTGAAAA
131 TAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAA
* * * * *
6865881 CATCCTGCAC-GAAAGGTCTTATGGATGGCACGTAGGACTTATAAATAAATAAACCCTCGAAGGC
196 CATCCTACACTG-AAGGTCTTATGGATGGCACGTAGGACTTACAAATAAAGAAACCCCCAAAGGC
* * * * **
6865945 TTGGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAACTTTCTTTAACATCTCTTTTGAGA
260 TTGGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAACTTCCTTTAAAAACTCTTTAAAGA
6866010 AAATTAGTAAACCCCCAAAGACTTAGTTTC
325 AAATTAGTAAACCCCCAAAGACTTAGTTTC
* *
6866040 TAAAATCTCATTTGAAAACATCCTG-AGCTGAAGGTGTTATGGATGGCCCGAAGGACTTACAAAT
1 TAAAATCTCATTTGAAAACATCCTGCA-CTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAAT
6866104 TCGGGAAATA
Statistics
Matches: 375, Mismatches: 39, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
352 2 0.01
353 279 0.74
354 94 0.25
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (354 bp):
TAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGTAGGACTTACAAATC
AAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGAAACCCCTTTGTTAGGCTTAGCTTCCTT
TAACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAA
CATCCTACACTGAAGGTCTTATGGATGGCACGTAGGACTTACAAATAAAGAAACCCCCAAAGGCT
TGGTTTCTTAGTTGTCAAGGAACCCCTTTATTAGGCTTAACTTCCTTTAAAAACTCTTTAAAGAA
AATTAGTAAACCCCCAAAGACTTAGTTTC
Found at i:6868076 original size:52 final size:52
Alignment explanation
Indices: 6867946--6868141 Score: 299
Period size: 52 Copynumber: 3.8 Consensus size: 52
6867936 ATACCCTAAC
* *
6867946 CTTTTT-ATGCTGGTGTGAGCCTTCAAGATGCCCCACATGGATTACTTTTGT
1 CTTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTGT
*
6867997 C-TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCAGATGGATTACTTCTGT
1 CTTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTGT
* * *
6868048 CTTTTTCATGCTGATGTGAGCCTTCAAGATACCCCTCATGGATTACTTCTAT
1 CTTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTGT
* *
6868100 CTTTTTCATGCTGATGTGAGCCTTCAAAAT-ACCCACATGGAT
1 CTTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGAT
6868142 AATATGGACC
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
50 4 0.03
51 54 0.41
52 75 0.56
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (52 bp):
CTTTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTGT
Found at i:6868140 original size:103 final size:102
Alignment explanation
Indices: 6867946--6868141 Score: 295
Period size: 103 Copynumber: 1.9 Consensus size: 102
6867936 ATACCCTAAC
* * * *
6867946 CTTTTTATGCTGGTGTGAGCCTTCAAGATGCCCCACATGGATTACTTTTGTCTTTTCATGCTGAT
1 CTTTTTATGCTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTATCTTTTCATGCTGAT
* * *
6868011 GTGAGCCTTCAAGATGCCCCAGATGGATTACTTCTGT
66 GTGAGCCTTCAAAATGACCCACATGGATTACTTCTGT
*
6868048 CTTTTTCATGCTGATGTGAGCCTTCAAGATACCCCTCATGGATTACTTCTATCTTTTTCATGCTG
1 CTTTTT-ATGCTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTATC-TTTTCATGCTG
6868113 ATGTGAGCCTTCAAAAT-ACCCACATGGAT
64 ATGTGAGCCTTCAAAATGACCCACATGGAT
6868142 AATATGGACC
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
102 6 0.07
103 51 0.61
104 27 0.32
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (102 bp):
CTTTTTATGCTGATGTGAGCCTTCAAGATACCCCACATGGATTACTTCTATCTTTTCATGCTGAT
GTGAGCCTTCAAAATGACCCACATGGATTACTTCTGT
Found at i:6869578 original size:16 final size:17
Alignment explanation
Indices: 6869559--6869600 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
6869549 TCTTATTTTA
6869559 TTTTCTCTTTTCTCTTTT
1 TTTTCTCTTTTCTC-TTT
*
6869577 TTTTTTCTTTTCT-TTT
1 TTTTCTCTTTTCTCTTT
6869593 TTTTCTCT
1 TTTTCTCT
6869601 GATGGATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
18 12 0.55
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTCTTTTCTCTTT
Found at i:6873226 original size:14 final size:14
Alignment explanation
Indices: 6873194--6873220 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6873184 ACAAACGTAA
6873194 AAATGCAAAGATGC
1 AAATGCAAAGATGC
6873208 AAATGCAAAGATG
1 AAATGCAAAGATG
6873221 TGAATGTAAA
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:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (14 bp):
AAATGCAAAGATGC
Found at i:6873257 original size:17 final size:17
Alignment explanation
Indices: 6873235--6873281 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
6873225 TGTAAAATGA
6873235 AAATGTAAAAAATGCAT
1 AAATGTAAAAAATGCAT
6873252 AAATGTAAAAAATGCAT
1 AAATGTAAAAAATGCAT
*
6873269 AAATGCAAAAAAT
1 AAATGTAAAAAAT
6873282 AAGAATGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.62, C:0.06, G:0.11, T:0.21
Consensus pattern (17 bp):
AAATGTAAAAAATGCAT
Found at i:6876407 original size:22 final size:21
Alignment explanation
Indices: 6876379--6876424 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
6876369 ATAATCCTTT
6876379 AATTAATT-TATAAAATCAGTTA
1 AATTAATTATATAAAA-CA-TTA
6876401 AATTAATTAGTATAAAACATTA
1 AATTAATTA-TATAAAACATTA
6876423 AA
1 AA
6876425 AAGAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 13 0.59
23 2 0.09
24 7 0.32
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
AATTAATTATATAAAACATTA
Found at i:6879013 original size:17 final size:18
Alignment explanation
Indices: 6878991--6879025 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6878981 ATATTTTTTT
6878991 ATTTAA-TAAAAATAATG
1 ATTTAATTAAAAATAATG
6879008 ATTTAATTTAAAAATAAT
1 ATTTAA-TTAAAAATAAT
6879026 ATATAGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTTAATTAAAAATAATG
Found at i:6879016 original size:22 final size:22
Alignment explanation
Indices: 6878973--6879026 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
6878963 TGATCCGAAA
** *
6878973 TAATAAAAAT-ATTTTTTTATT
1 TAATAAAAATAATGATTTAATT
6878994 TAATAAAAATAATGATTTAATT
1 TAATAAAAATAATGATTTAATT
6879016 TAA-AAATAATA
1 TAATAAA-AATA
6879027 TATAGATGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATAAAAATAATGATTTAATT
Found at i:6884593 original size:17 final size:17
Alignment explanation
Indices: 6884545--6884594 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
6884535 TGAAAAAAAT
6884545 TATAATATATATATATATA
1 TATAATATAT-T-TATATA
6884564 TATAATA-AGTTTATATA
1 TATAATATA-TTTATATA
6884581 TA-AACTATATTTAT
1 TATAA-TATATTTAT
6884595 TTTTTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.07
17 15 0.54
18 3 0.11
19 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TATAATATATTTATATA
Found at i:6884621 original size:18 final size:18
Alignment explanation
Indices: 6884574--6884629 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
6884564 TATAATAAGT
*
6884574 TTATATATAAACTATATTTAT
1 TTAT-TATAAACTATA--TAA
*
6884595 TTTTTATAAACTATATAA
1 TTATTATAAACTATATAA
*
6884613 TTATTATAAGCTATATA
1 TTATTATAAACTATATA
6884630 TATAAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 17 0.55
20 11 0.35
21 3 0.10
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATTATAAACTATATAA
Found at i:6884663 original size:28 final size:26
Alignment explanation
Indices: 6884617--6884695 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 26
6884607 ATATAATTAT
* *
6884617 TATAAGCTATATATATAAATTATGTTTA
1 TATAAACTATATATATAAACTATG--TA
*
6884645 TATGAACTATATATATAAACTATGTA
1 TATAAACTATATATATAAACTATGTA
6884671 TATAAACTATATAGGTATAAACTAT
1 TATAAACTATATA--TATAAACTAT
6884696 AAAAGGTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.31
28 31 0.69
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (26 bp):
TATAAACTATATATATAAACTATGTA
Found at i:6884689 original size:15 final size:13
Alignment explanation
Indices: 6884617--6884696 Score: 79
Period size: 13 Copynumber: 5.8 Consensus size: 13
6884607 ATATAATTAT
*
6884617 TATAAGCTATATA
1 TATAAACTATATA
* *
6884630 TATAAATTATGTTTA
1 TATAAACTA--TATA
*
6884645 TATGAACTATATA
1 TATAAACTATATA
*
6884658 TATAAACTATGTA
1 TATAAACTATATA
6884671 TATAAACTATATA
1 TATAAACTATATA
6884684 GGTATAAACTATA
1 --TATAAACTATA
6884697 AAAGGTATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
13 33 0.61
15 21 0.39
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:6884767 original size:85 final size:86
Alignment explanation
Indices: 6884652--6884831 Score: 274
Period size: 85 Copynumber: 2.1 Consensus size: 86
6884642 TTATATGAAC
* * *
6884652 TATATATATAAACTATGTATATAAACTATATAGGTATAAACTATA-AAAGGTATATAGTTTATAA
1 TATATATATAAACTAAGTACATAAACTATATAGGTATAAACTATATAAA-ATATATAGTTTATAA
*
6884716 ACTATAATTTATATTAATATAG
65 ACTATAACTTATATTAATATAG
* * *
6884738 TATATATATATA-TAAGTACATAAATTATATATGTATAAACTATATAAAATATATAGTTTATAAA
1 TATATATATAAACTAAGTACATAAACTATATAGGTATAAACTATATAAAATATATAGTTTATAAA
6884802 CTATAACTTATATTAATATAG
66 CTATAACTTATATTAATATAG
6884823 TATATATAT
1 TATATATAT
6884832 GTATGTATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
85 72 0.84
86 14 0.16
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.41
Consensus pattern (86 bp):
TATATATATAAACTAAGTACATAAACTATATAGGTATAAACTATATAAAATATATAGTTTATAAA
CTATAACTTATATTAATATAG
Found at i:6884774 original size:25 final size:25
Alignment explanation
Indices: 6884738--6884800 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
6884728 ATTAATATAG
* * *
6884738 TATATATATATATAAGTACATAAAT
1 TATATATGTATATAACTACATAAAA
*
6884763 TATATATGTATA-AACTATATAAAA
1 TATATATGTATATAACTACATAAAA
*
6884787 TATATA-GTTTATAA
1 TATATATGTATATAA
6884801 ACTATAACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 4 0.12
24 17 0.53
25 11 0.34
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (25 bp):
TATATATGTATATAACTACATAAAA
Found at i:6884801 original size:25 final size:24
Alignment explanation
Indices: 6884738--6884806 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
6884728 ATTAATATAG
* * * *
6884738 TATATATATATATAAGTACATAAAT
1 TATATATGTATA-AACTATATAAAA
6884763 TATATATGTATAAACTATATAAAA
1 TATATATGTATAAACTATATAAAA
*
6884787 TATATAGTTTATAAACTATA
1 TATATA-TGTATAAACTATA
6884807 ACTTATATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 15 0.39
25 23 0.61
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
TATATATGTATAAACTATATAAAA
Found at i:6885163 original size:19 final size:18
Alignment explanation
Indices: 6885139--6885175 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
6885129 ATGTATTTAT
6885139 AAACTATGTATAGTATATA
1 AAACTATGTATA-TATATA
*
6885158 AAACTATTTATATATATA
1 AAACTATGTATATATATA
6885176 TATATAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
AAACTATGTATATATATA
Found at i:6885303 original size:16 final size:17
Alignment explanation
Indices: 6885282--6885317 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
6885272 AAACAATAGT
6885282 TAATATATGTA-ACATA
1 TAATATATGTATACATA
6885298 TAATATATGTATACATA
1 TAATATATGTATACATA
6885315 TAA
1 TAA
6885318 ACTATATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
TAATATATGTATACATA
Found at i:6885366 original size:20 final size:20
Alignment explanation
Indices: 6885343--6885448 Score: 97
Period size: 20 Copynumber: 5.0 Consensus size: 20
6885333 TATAGTGCAT
* *
6885343 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
6885363 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
*
6885383 TATATATATATAACCTATAGTATA
1 -GTATATATA-AA-CTATA-TATA
*
6885407 TGTATATATATAACCTATTTATA
1 -GTATATATA-AA-CTATATATA
6885430 TGT-TATATAAACTATATAT
1 -GTATATATAAACTATATAT
6885449 GTAACCTATA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.33
21 10 0.13
22 8 0.11
23 12 0.16
24 21 0.28
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:6885371 original size:2 final size:2
Alignment explanation
Indices: 6885359--6885418 Score: 50
Period size: 2 Copynumber: 29.0 Consensus size: 2
6885349 ATAAACTATG
* **
6885359 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA -A CC TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6885402 GTA TA TG TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA
6885419 ACCTATTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
1 1 0.02
2 41 0.87
3 5 0.11
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:6885406 original size:24 final size:23
Alignment explanation
Indices: 6885359--6885448 Score: 105
Period size: 24 Copynumber: 4.0 Consensus size: 23
6885349 ATAAACTATG
*
6885359 TATAGTATATATAAACTATATATA
1 TATA-TATATATAACCTATATATA
6885383 TATATATATATAACCTATAGTATA
1 TATATATATATAACCTATA-TATA
*
6885407 TGTATATATATAACCTAT-T-TA
1 TATATATATATAACCTATATATA
* *
6885428 TATGT-TATATAAACTATATAT
1 TATATATATATAACCTATATAT
6885449 GTAACCTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.19
21 6 0.10
22 2 0.03
23 14 0.24
24 25 0.43
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (23 bp):
TATATATATATAACCTATATATA
Found at i:6885437 original size:67 final size:65
Alignment explanation
Indices: 6885320--6885448 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 65
6885310 ACATATAAAC
* * * *
6885320 TATATATGTAACTTATAGTGCATGTATGTATAAACTATGTATAGTATATATAAACTATATATATA
1 TATATATATAACCTATAGTACATGTATATATAAACTATGTATAGTATATATAAACTATATATATA
* *
6885385 TATATATATAACCTATAGTATATGTATATATATAACCTATTTATATGT-TATATAAACTATATAT
1 TATATATATAACCTATAGTACATGTATATATA-AA-CTATGTATA-GTATATATAAACTATATAT
6885449 GTAACCTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 27 0.49
66 2 0.04
67 24 0.44
68 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (65 bp):
TATATATATAACCTATAGTACATGTATATATAAACTATGTATAGTATATATAAACTATATATATA
Found at i:6885479 original size:21 final size:21
Alignment explanation
Indices: 6885455--6885545 Score: 82
Period size: 21 Copynumber: 4.3 Consensus size: 21
6885445 ATATGTAACC
6885455 TATAGTTTATAAACA-ATAGTT
1 TATA-TTTATAAACATATAGTT
**
6885476 TATA-TTAGTGTACTATATAGTT
1 TATATTTA-TAAAC-ATATAGTT
*
6885498 TATACTTTAT-AACATATAGTA
1 TATA-TTTATAAACATATAGTT
6885519 TATAATTTATAAAC-TATAGTT
1 TAT-ATTTATAAACATATAGTT
6885540 TATATT
1 TATATT
6885546 AATGTTAATT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
19 3 0.05
20 6 0.10
21 29 0.50
22 16 0.28
23 1 0.02
24 3 0.05
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (21 bp):
TATATTTATAAACATATAGTT
Found at i:6885572 original size:78 final size:78
Alignment explanation
Indices: 6885490--6885633 Score: 220
Period size: 78 Copynumber: 1.8 Consensus size: 78
6885480 TTAGTGTACT
* * *
6885490 ATATAGTTTATACTTTAT-AACATATAGTATATAATTTATAA-ACTATAGTTTATATTAATGTTA
1 ATATAGTATATACTTTATAAAC-TATACTATATAATTTATAACA-TATAGTTTATATTAATATTA
6885553 ATTATCTTAACTATA
64 ATTATCTTAACTATA
*
6885568 ATATAGTATATAGTTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAAT
1 ATATAGTATATACTTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAAT
6885633 T
66 T
6885634 TTATAGACTG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
78 56 0.93
79 4 0.07
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (78 bp):
ATATAGTATATACTTTATAAACTATACTATATAATTTATAACATATAGTTTATATTAATATTAAT
TATCTTAACTATA
Found at i:6885621 original size:21 final size:22
Alignment explanation
Indices: 6885568--6885621 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
6885558 CTTAACTATA
*
6885568 ATATAGTATATAGTTTATAAAC
1 ATATAGTATATAATTTATAAAC
*
6885590 -TATACTATATAATTTAT-AAC
1 ATATAGTATATAATTTATAAAC
*
6885610 ATATAGTTTATA
1 ATATAGTATATA
6885622 TTAATATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (22 bp):
ATATAGTATATAATTTATAAAC
Found at i:6885705 original size:21 final size:20
Alignment explanation
Indices: 6885679--6885730 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
6885669 ATTATAAACT
6885679 ATATTATATTAA-TATAAGTTA
1 ATATTATATTAATTAT-A-TTA
6885700 ATATTAATATTAATTATATTA
1 ATATT-ATATTAATTATATTA
6885721 ATATTA-ATTA
1 ATATTATATTA
6885731 TAATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
21 13 0.45
22 8 0.28
23 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTATATTAATTATATTA
Found at i:6885706 original size:6 final size:6
Alignment explanation
Indices: 6885679--6885756 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
6885669 ATTATAAACT
*
6885679 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
6885721 ATATTA AT-TATA ATATATA ATTATTTTA ATATTA AT
1 ATATTA ATAT-TA ATAT-TA A-TA--TTA ATATTA AT
6885757 TATAAATAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
4 4 0.07
5 16 0.26
6 28 0.46
7 5 0.08
8 4 0.07
9 3 0.05
10 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (6 bp):
ATATTA
Done.