Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008140.1 Hibiscus syriacus cultivar Beakdansim tig00110698_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: 511555
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1698 original size:19 final size:18
Alignment explanation
Indices: 1647--1698 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
1637 TGGCAATCAT
1647 TTTATATATTTTTACATTC
1 TTTAT-TATTTTTACATTC
*
1666 TTTATCATTCTTTACATT-
1 TTTATTATT-TTTACATTC
1684 TATTATTATTATTTA
1 T-TTATTATT-TTTA
1699 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATTATTTTTACATTC
Found at i:3293 original size:370 final size:370
Alignment explanation
Indices: 2612--3337 Score: 1112
Period size: 370 Copynumber: 2.0 Consensus size: 370
2602 CATATCTTCT
* * *
2612 TTCAATTCGTGCATCATACGATAACGAGTCATTGAACTTTAGTTTTTCCAGATGAGTATTTAATG
1 TTCAATTCATGCATCAGACGATAACGAGTCATTGAACTTTAGTTTTTCCAGATGAGGATTTAATG
*
2677 TGTCTCAATCAAAGAGGTTATTGCTTCAAAAGATGAATCATGGAAGTTATCTCAATAGAGCATCT
66 TGTCTCAATCAAAGAGGATATTGCTTCAAAAGATGAATCATGGAAGTTATCTCAATAGAGCATCT
* *
2742 AATGCTTTGGGATAAGAATTTGGGGTAATGATGATTACTTCAGAAGATGTTTGTTACCATTTCAC
131 AATGCTTTGAGATAAGAATTTGGGGTAATGATGATTACTTCAGAAGATGTATGTTACCATTTCAC
* *
2807 AAGCAGACCATAGTTATTTTTCACTGACAACAAGGCAGAATTTGAGGCTTGCATTTTGGGGATAA
196 AAGAAGACCATAGTTATTTTTCACTGACAACAAGGCAGAATTTGAGGCTTGCACTTTGGGGATAA
* * *
2872 GAGTAGTTATGGAAAGAAGATTTCAGTGCTGAAAGCATGTGGAAGTTCCTCGTTAGTAGTCTCTC
261 GAGCAATTATGGAAAGAAGATTTCAATGCTGAAAGCATGTGGAAGTTCCTCGTTAGTAGTCTCTC
*
2937 AACCACGAGGATAATGAGAATTTAATGTGTCGTAGAAGATCGACA
326 AACCAAGAGGATAATGAGAATTTAATGTGTCGTAGAAGATCGACA
2982 TTCAATTCATGCATCAGACGATAACGAGTCATTGAACTTTAGTTTTTCCAGATGAGGATTTAATG
1 TTCAATTCATGCATCAGACGATAACGAGTCATTGAACTTTAGTTTTTCCAGATGAGGATTTAATG
* * * * *
3047 TGTCTCAATTAAAGAGGATATTTCTTCAAAAGATTAATCATGGAATTTATCTCGATAGAGCATCT
66 TGTCTCAATCAAAGAGGATATTGCTTCAAAAGATGAATCATGGAAGTTATCTCAATAGAGCATCT
* * * * * *
3112 AATTCTTTGAGATAAGAATTTGGGGTAGTGGTGATTGCTTTAGAAGATGTATGTTACCCTTTCAC
131 AATGCTTTGAGATAAGAATTTGGGGTAATGATGATTACTTCAGAAGATGTATGTTACCATTTCAC
* * * * * *
3177 AAGAAGACCATAGTTCTTTTTCACTGACAGCATGGCATAATTTTAGGCTTGCGCTTTGGGGATAA
196 AAGAAGACCATAGTTATTTTTCACTGACAACAAGGCAGAATTTGAGGCTTGCACTTTGGGGATAA
* *
3242 GTGCAATCT-TGGAAAGAAGATTTCAATGCTGAAAGCATGTGGAAGTTCCTCGTTAGTAGTCTGT
261 GAGCAAT-TATGGAAAGAAGATTTCAATGCTGAAAGCATGTGGAAGTTCCTCGTTAGTAGTCTCT
* * ** *
3306 TAACTAAGAGGATGTTGTGAATTTAATGTGTC
325 CAACCAAGAGGATAATGAGAATTTAATGTGTC
3338 ATAAACCTTA
Statistics
Matches: 319, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
370 318 1.00
371 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (370 bp):
TTCAATTCATGCATCAGACGATAACGAGTCATTGAACTTTAGTTTTTCCAGATGAGGATTTAATG
TGTCTCAATCAAAGAGGATATTGCTTCAAAAGATGAATCATGGAAGTTATCTCAATAGAGCATCT
AATGCTTTGAGATAAGAATTTGGGGTAATGATGATTACTTCAGAAGATGTATGTTACCATTTCAC
AAGAAGACCATAGTTATTTTTCACTGACAACAAGGCAGAATTTGAGGCTTGCACTTTGGGGATAA
GAGCAATTATGGAAAGAAGATTTCAATGCTGAAAGCATGTGGAAGTTCCTCGTTAGTAGTCTCTC
AACCAAGAGGATAATGAGAATTTAATGTGTCGTAGAAGATCGACA
Found at i:6641 original size:15 final size:16
Alignment explanation
Indices: 6609--6641 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6599 GCAAAATTTG
6609 AAAACTAATTTTGAAA
1 AAAACTAATTTTGAAA
6625 AAAAC-AATGTTTGAAA
1 AAAACTAAT-TTTGAAA
6641 A
1 A
6642 TCAATATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (16 bp):
AAAACTAATTTTGAAA
Found at i:7182 original size:21 final size:21
Alignment explanation
Indices: 7153--7226 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
7143 CAAGGACTGC
*
7153 ATCGGTGCACTTTCATAGTGT
1 ATCGATGCACTTTCATAGTGT
* *
7174 ATCGATGCACATTCA-AGGGATGC
1 ATCGATGCACTTTCATA--G-TGT
* * *
7197 ATCGGTACACTATCATAGTGT
1 ATCGATGCACTTTCATAGTGT
7218 ATCGATGCA
1 ATCGATGCA
7227 TTACGCATAA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
20 1 0.03
21 22 0.56
22 2 0.05
23 13 0.33
24 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
ATCGATGCACTTTCATAGTGT
Found at i:7224 original size:44 final size:44
Alignment explanation
Indices: 7110--7226 Score: 166
Period size: 44 Copynumber: 2.7 Consensus size: 44
7100 CGAGGAGTGT
* * *
7110 ATCGGTACACTGT-AGAGTGTATCGATACACATTCAAGGACTGC
1 ATCGGTACACTATCATAGTGTATCGATGCACATTCAAGGACTGC
* *
7153 ATCGGTGCACTTTCATAGTGTATCGATGCACATTCAAGGGA-TGC
1 ATCGGTACACTATCATAGTGTATCGATGCACATTCAA-GGACTGC
7197 ATCGGTACACTATCATAGTGTATCGATGCA
1 ATCGGTACACTATCATAGTGTATCGATGCA
7227 TTACGCATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 11 0.17
44 52 0.79
45 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
ATCGGTACACTATCATAGTGTATCGATGCACATTCAAGGACTGC
Found at i:19093 original size:21 final size:21
Alignment explanation
Indices: 19064--19146 Score: 130
Period size: 21 Copynumber: 4.0 Consensus size: 21
19054 ACATTTATGA
* *
19064 ACAGTAACCTACTACAGTGCT
1 ACAGCAACCTGCTACAGTGCT
*
19085 ATAGCAACCTGCTACAGTGCT
1 ACAGCAACCTGCTACAGTGCT
19106 ACAGCAACCTGCTACAGTGCT
1 ACAGCAACCTGCTACAGTGCT
*
19127 ACAACAACCTGCTACAGTGC
1 ACAGCAACCTGCTACAGTGC
19147 ATCGATGCAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (21 bp):
ACAGCAACCTGCTACAGTGCT
Found at i:19160 original size:21 final size:21
Alignment explanation
Indices: 19136--19177 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19126 TACAACAACC
*
19136 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCACCGATGCAT
19157 TGCTACAGTGCACCGATGCAT
1 TGCTACAGTGCACCGATGCAT
19178 AAAACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (21 bp):
TGCTACAGTGCACCGATGCAT
Found at i:19811 original size:24 final size:24
Alignment explanation
Indices: 19776--19850 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
19766 AGCTTGTATA
*
19776 AATTTGTACCGAAGTGCCACGTAG
1 AATTTGTCCCGAAGTGCCACGTAG
*
19800 AATTTGTCCCGAAG-GACCGCGTAG
1 AATTTGTCCCGAAGTG-CCACGTAG
*
19824 AA-ATG-CACCGAAGTGCCACGTAG
1 AATTTGTC-CCGAAGTGCCACGTAG
19847 AATT
1 AATT
19851 GCACCGTAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 18 0.43
24 23 0.55
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (24 bp):
AATTTGTCCCGAAGTGCCACGTAG
Found at i:19845 original size:23 final size:23
Alignment explanation
Indices: 19783--19864 Score: 96
Period size: 23 Copynumber: 3.5 Consensus size: 23
19773 ATAAATTTGT
19783 ACCGAAGTGCCACGTAGAATTTGTC
1 ACCGAAGTGCCACGTAGAA-TTG-C
* *
19808 -CCGAAG-GACCGCGTAGAAATGC
1 ACCGAAGTG-CCACGTAGAATTGC
19830 ACCGAAGTGCCACGTAGAATTGC
1 ACCGAAGTGCCACGTAGAATTGC
*
19853 ACCGTAGTGCCA
1 ACCGAAGTGCCA
19865 TATAATATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
22 1 0.02
23 32 0.65
24 16 0.33
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (23 bp):
ACCGAAGTGCCACGTAGAATTGC
Found at i:20142 original size:30 final size:30
Alignment explanation
Indices: 20106--20168 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
20096 TCATATCGTG
* *
20106 TAGACATATTATTTCCATACCTTTATCACA
1 TAGACATATCATTTACATACCTTTATCACA
20136 TAGACATATCATTTACATACCTTTATCACA
1 TAGACATATCATTTACATACCTTTATCACA
20166 TAG
1 TAG
20169 CTCATATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (30 bp):
TAGACATATCATTTACATACCTTTATCACA
Found at i:21801 original size:138 final size:138
Alignment explanation
Indices: 21389--21815 Score: 527
Period size: 138 Copynumber: 3.1 Consensus size: 138
21379 ATGTTACATC
* *
21389 CTCCATTTTATGCTTAATTTCAAACTTAGTCCTTAAATTTATGGA-AATTTTTAATTTGGCCCTC
1 CTCCATTTTAAGCTTAATTTCAAACTTAGTCCTTAAATTTA-GGAGAATTTTTAATTTGGTCCTC
* *
21453 GTTTTTGCTCGAGGTTTCATTTTAATTATTCGAATCAAATAATTGATTAAAATTGACTAGGTTGA
65 GTTTTTGCTCGAGGTTACATTTTAATTATTCGAATC-AATAATTGATTAAAATTGACTAGGTTAA
21518 TAATTAGAG-
129 TAATTAGAGT
* * * *
21527 CATCCATTTTAGGCTTAATTTCAAATTTAATCCTTAAATTTAGGAGAATTTTTAATTTGGTCGTC
1 C-TCCATTTTAAGCTTAATTTCAAACTTAGTCCTTAAATTTAGGAGAATTTTTAATTTGGTCCTC
* * * *
21592 GCTTTTGCTCGAGGTTACATTTTAATTATTCGAATCAATAATTGATTGAAATTGAATAGGTAAAT
65 GTTTTTGCTCGAGGTTACATTTTAATTATTCGAATCAATAATTGATTAAAATTGACTAGGTTAAT
**
21657 GTTTAGAGT
130 AATTAGAGT
* * * * * *
21666 CTCCACTTTAAGCTTAATTTCACACTTAGTCCTTTAATTTAGGAGAATTATTGATTTGGTCCTCT
1 CTCCATTTTAAGCTTAATTTCAAACTTAGTCCTTAAATTTAGGAGAATTTTTAATTTGGTCCTCG
* * * * * * * *
21731 TTTTTGCTCGAGATTCCATTTTTATTATTTGAATCAATATTTTATTAAAAATGACTTGGATTAAT
66 TTTTTGCTCGAGGTTACATTTTAATTATTCGAATCAATAATTGATTAAAATTGACTAGG-TTAAT
21796 -ATTAGAGT
130 AATTAGAGT
* *
21804 CTACATTCTAAG
1 CTCCATTTTAAG
21816 TTTACTCTTT
Statistics
Matches: 246, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
138 153 0.62
139 93 0.38
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.44
Consensus pattern (138 bp):
CTCCATTTTAAGCTTAATTTCAAACTTAGTCCTTAAATTTAGGAGAATTTTTAATTTGGTCCTCG
TTTTTGCTCGAGGTTACATTTTAATTATTCGAATCAATAATTGATTAAAATTGACTAGGTTAATA
ATTAGAGT
Found at i:23596 original size:22 final size:22
Alignment explanation
Indices: 23570--23631 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
23560 CAAACAACCG
*
23570 AAAATGTGTCA-AAGAGGTAGAA
1 AAAATGTGTCATAA-AGGAAGAA
23592 AAAATGTGTCATAAAGGAAGAA
1 AAAATGTGTCATAAAGGAAGAA
* *
23614 AAAACGTGCCATAAAGGA
1 AAAATGTGTCATAAAGGA
23632 GGAAGAATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (22 bp):
AAAATGTGTCATAAAGGAAGAA
Found at i:23647 original size:23 final size:22
Alignment explanation
Indices: 23589--23658 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
23579 CAAAGAGGTA
* * *
23589 GAAAAAATGTGTCATAAAGGAA
1 GAAAAAACGTGCCATAAAGGAG
23611 GAAAAAACGTGCCATAAAGGAG
1 GAAAAAACGTGCCATAAAGGAG
* *
23633 GAAGAATACGTGCCAAAAAGGCAG
1 GAA-AAAACGTGCCATAAAGG-AG
23657 GA
1 GA
23659 TTATTAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
22 22 0.54
23 15 0.37
24 4 0.10
ACGTcount: A:0.50, C:0.11, G:0.27, T:0.11
Consensus pattern (22 bp):
GAAAAAACGTGCCATAAAGGAG
Found at i:24090 original size:4 final size:4
Alignment explanation
Indices: 24081--24449 Score: 399
Period size: 4 Copynumber: 93.2 Consensus size: 4
24071 TTAATGTATA
24081 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24129 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24177 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
24225 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATTT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
24273 AT-A AT-T AAT-T AATGT AT-A ATGT ATGT ATG- ATAT AT-T ATGA ATTGAT
1 ATGT ATGT -ATGT -ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-TG-T
* * * *
24319 ATG- ATAT AT-T ATGA ATTGAT ATGT ATGT AT-A ATGT AT-A ATGAT ATGT
1 ATGT ATGT ATGT ATGT A-TG-T ATGT ATGT ATGT ATGT ATGT ATG-T ATGT
* * * * *
24366 ATGA AT-T A-AT ATGT ATGT A-G- AGTAT ATGG ATGT ATGT AT-A ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT A-TGT ATGT ATGT ATGT ATGT ATGT
*
24410 ATGT ATGT ATGT ATGT ATGAT AATGAT ATGC ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATG-T -ATG-T ATGT ATGT ATGT A
24450 CATATGATAG
Statistics
Matches: 317, Mismatches: 26, Indels: 44
0.82 0.07 0.11
Matches are distributed among these distances:
2 1 0.00
3 24 0.08
4 268 0.85
5 17 0.05
6 7 0.02
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:24416 original size:23 final size:23
Alignment explanation
Indices: 24389--24449 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
24379 TATGTAGAGT
* *
24389 ATATGGATGTATGTATAATGTATG
1 ATATGCATGTATGTATAAT-AATG
* *
24413 -TATGTATGTATGTATGATAATG
1 ATATGCATGTATGTATAATAATG
24435 ATATGCATGTATGTA
1 ATATGCATGTATGTA
24450 CATATGATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.43
Consensus pattern (23 bp):
ATATGCATGTATGTATAATAATG
Found at i:25359 original size:287 final size:285
Alignment explanation
Indices: 24775--25413 Score: 712
Period size: 287 Copynumber: 2.2 Consensus size: 285
24765 TCCCTGTGTA
* * *
24775 TTGTTTAATTTATTTAAATTCCAATTTGAAACTTCT-TGTTTGTTCAATTTAGTTCTTAAAATTA
1 TTGTTTAATTTATTTAAATT-TAATTTGTAACTT-TATGTTTGTTCAATTTAGTACTTAAAATTA
* * * * *
24839 TATTTTTATCCAAAATTGACTCATGTTGATTTATATTTTTGTAATTTACTTCAAACCTTATAAAT
64 CATTTTTAACCAAAATTGACTCATGTTGA-TTATATTTTTGTAATTTACTCCAAACCCTATAAAC
* *
24904 CACATCATAAACTTCATTTCAAATCCTATAAATTATATAATAATCTTTGATACCTTATAAACTGT
128 CACATCATAAACTTCATTTCAAATCCTATAAATTATATAATAA-CTTTGAAACCCTATAAACTGT
* *
24969 TGTTCACCAACTTCTTAAATGAACGCAATTTAGTCCACTTTTATATTAATTTCAGTTTCACATTT
192 TGTTCACCAACTTCTTAAATGAACGCAATATAGTCCACTTTTATATTAATTTCAGCTTCACATTT
* *
25034 TACAATTATTTGGATTTAATCCCTGTGTG
257 TACAATTATTTGGATTTAATCCATGCGTG
* * *
25063 TTATTTAATTTATTTAAATTTAATTTTTTAA-TTTATGTTTGTTCAATTTAGTCCTTAAAATTAC
1 TTGTTTAATTTATTTAAATTTAA-TTTGTAACTTTATGTTTGTTCAATTTAGTACTTAAAATTAC
*
25127 ATTTTTAACCAAAATTG-GTCCATAGTT-A-TAT-TTTTT-TAATTTACTCCAAACCCTATAAAC
65 ATTTTTAACCAAAATTGACT-CAT-GTTGATTATATTTTTGTAATTTACTCCAAACCCTATAAAC
* * *
25187 CACATCATAAACTTCATTTCAAACTCACTA-AATTTATATCATAA-TTT-AAACCCTATAAACTT
128 CACATCATAAACTTCATTTCAAA-TC-CTATAAATTATATAATAACTTTGAAACCCTATAAACTG
* * * *
25249 TTG-TCTACCAACCTT-TTAAATG-ATGCAATATAGT-TATTTTTTATATTAATTTTAGCTTCAC
191 TTGTTC-ACCAA-CTTCTTAAATGAACGCAATATAGTCCA-CTTTTATATTAATTTCAGCTTCAC
* *
25310 ATTTTACAATTGTTTCGATTTGATTTCTCATCCATGCGTG
253 ATTTTACAATTATTT-G----GA-TT-TAATCCATGCGTG
* * * * *
25350 TTGTTTAATTTATTTAAATTTCAGTTTGTAATTTTACGTTTATTCAATTTAGTATTTAAAATTA
1 TTGTTTAATTTATTTAAATTT-AATTTGTAACTTTATGTTTGTTCAATTTAGTACTTAAAATTA
25414 TATGTTTATC
Statistics
Matches: 300, Mismatches: 33, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
279 1 0.00
280 47 0.16
281 28 0.09
282 6 0.02
283 44 0.15
284 19 0.06
285 8 0.03
286 4 0.01
287 87 0.29
288 56 0.19
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (285 bp):
TTGTTTAATTTATTTAAATTTAATTTGTAACTTTATGTTTGTTCAATTTAGTACTTAAAATTACA
TTTTTAACCAAAATTGACTCATGTTGATTATATTTTTGTAATTTACTCCAAACCCTATAAACCAC
ATCATAAACTTCATTTCAAATCCTATAAATTATATAATAACTTTGAAACCCTATAAACTGTTGTT
CACCAACTTCTTAAATGAACGCAATATAGTCCACTTTTATATTAATTTCAGCTTCACATTTTACA
ATTATTTGGATTTAATCCATGCGTG
Found at i:25981 original size:25 final size:25
Alignment explanation
Indices: 25947--25998 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
25937 CTATGACACT
25947 AGTACACGTTGAAATGTTTGAAATG
1 AGTACACGTTGAAATGTTTGAAATG
*
25972 AGTACACGTTGGAATGTTTGAAATG
1 AGTACACGTTGAAATGTTTGAAATG
25997 AG
1 AG
25999 GCCATTACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (25 bp):
AGTACACGTTGAAATGTTTGAAATG
Found at i:27668 original size:13 final size:13
Alignment explanation
Indices: 27650--27680 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
27640 TACCAATAAG
27650 TCAACAGAAACAA
1 TCAACAGAAACAA
27663 TCAACAGAAACAA
1 TCAACAGAAACAA
27676 TCAAC
1 TCAAC
27681 TCCATCTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.26, G:0.06, T:0.10
Consensus pattern (13 bp):
TCAACAGAAACAA
Found at i:27888 original size:2 final size:2
Alignment explanation
Indices: 27881--27928 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
27871 GGCATTCATG
*
27881 TA TA TA TA TA TA TA TA -A T- TA TA TA TA TA T- TGA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
27921 TA TA TA TA
1 TA TA TA TA
27929 GGAAACAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:27904 original size:14 final size:16
Alignment explanation
Indices: 27882--27929 Score: 64
Period size: 14 Copynumber: 3.0 Consensus size: 16
27872 GCATTCATGT
27882 ATATATATATATATA-
1 ATATATATATATATAG
27897 AT-TATATATATATTGAG
1 ATATATATATATA-T-AG
27914 ATATATATATATATAG
1 ATATATATATATATAG
27930 GAAACAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.34
15 3 0.10
16 3 0.10
17 3 0.10
18 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (16 bp):
ATATATATATATATAG
Found at i:32019 original size:2 final size:2
Alignment explanation
Indices: 32014--32040 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32004 ATATATATAT
32014 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
32041 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32045 original size:2 final size:2
Alignment explanation
Indices: 32040--32138 Score: 198
Period size: 2 Copynumber: 49.5 Consensus size: 2
32030 ACACACACAC
32040 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
32082 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
32124 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
32139 AGTTTTTGTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34310 original size:36 final size:36
Alignment explanation
Indices: 34270--34371 Score: 168
Period size: 36 Copynumber: 2.8 Consensus size: 36
34260 CTTTGGTATT
* *
34270 GGGTGTCTATGTGTGACAAAGGAGAATTGTTTACCA
1 GGGTGTCTATGTGTGACAAAGGAAAATTATTTACCA
34306 GGGTGTCTATGTGTGACAAAGGAAAATTATTTACCA
1 GGGTGTCTATGTGTGACAAAGGAAAATTATTTACCA
* *
34342 GGGTGTCTATGTGTGGCAAAGAAAAATTAT
1 GGGTGTCTATGTGTGACAAAGGAAAATTAT
34372 CTTTCGGGTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.30
Consensus pattern (36 bp):
GGGTGTCTATGTGTGACAAAGGAAAATTATTTACCA
Found at i:38754 original size:21 final size:21
Alignment explanation
Indices: 38727--38804 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
38717 TAGGGGCATA
38727 GTCCCGAAGGACCACATATAT
1 GTCCCGAAGGACCACATATAT
* *
38748 GTTCCGAAGGACCACATAGAT
1 GTCCCGAAGGACCACATATAT
*
38769 GTCCCGAATGACCACATATAT
1 GTCCCGAAGGACCACATATAT
*
38790 ATCCCGAAGGACCAC
1 GTCCCGAAGGACCAC
38805 TCCTTAAGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.18
Consensus pattern (21 bp):
GTCCCGAAGGACCACATATAT
Found at i:40406 original size:15 final size:14
Alignment explanation
Indices: 40381--40410 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
40371 AGTCTCCAGA
40381 CTTTTCTTTCCTTT
1 CTTTTCTTTCCTTT
40395 CTTTTCCTTTCCTTT
1 CTTTT-CTTTCCTTT
40410 C
1 C
40411 ATCCCCATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTTCTTTCCTTT
Found at i:42823 original size:2 final size:2
Alignment explanation
Indices: 42754--42807 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
42744 ATGTCTTATC
42754 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
42796 AT AT AT AT AT AT
1 AT AT AT AT AT AT
42808 TCACATGTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42875 original size:2 final size:2
Alignment explanation
Indices: 42868--42900 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
42858 TTCATCTTCC
42868 TA 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 TA T
42901 CATTTTTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43119 original size:21 final size:21
Alignment explanation
Indices: 43094--43140 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
43084 CTATTATTTC
43094 ATTTATATATTAATCTAATCT
1 ATTTATATATTAATCTAATCT
43115 ATTTATATATTAATCTAATCT
1 ATTTATATATTAATCTAATCT
43136 ATTTA
1 ATTTA
43141 CCTAATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTATATATTAATCTAATCT
Found at i:44115 original size:63 final size:63
Alignment explanation
Indices: 44039--44198 Score: 180
Period size: 63 Copynumber: 2.5 Consensus size: 63
44029 TTCCCTTGAA
* * *
44039 GTGCATC-ATGCACTACCCATGCATCGATACACAAATCACCTTCGATATTTTCA-TTTTAAGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTCGATATTTCCATTTTTAAGGG
* ** ** * *
44101 GTGCATCGATGCACTCCTTATGCATCGATGCATTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTCGATATTTCCATTTTTAAGGG
*
44165 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
44199 CTGAACAATT
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
62 9 0.11
63 34 0.43
64 34 0.43
65 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTCGATATTTCCATTTTTAAGGG
Found at i:47629 original size:21 final size:23
Alignment explanation
Indices: 47580--47646 Score: 93
Period size: 21 Copynumber: 3.0 Consensus size: 23
47570 CACCACAGCT
*
47580 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
47603 CGTAGAATTGCACCGTAGT-CC-
1 CGTAGAAATGCACCGAAGTGCCA
47624 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
47647 TATAAGGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 17 0.46
22 4 0.11
23 16 0.43
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:47927 original size:2 final size:2
Alignment explanation
Indices: 47922--47961 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
47912 ATGTCTTATC
47922 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
47962 CACATGTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58863 original size:23 final size:23
Alignment explanation
Indices: 58837--58882 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
58827 GGAATTGAAG
58837 TAGGTACCATTCCTATCAAGTGT
1 TAGGTACCATTCCTATCAAGTGT
58860 TAGGTACCATTCCTATCAAGTGT
1 TAGGTACCATTCCTATCAAGTGT
58883 GACAATACTA
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:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGGTACCATTCCTATCAAGTGT
Found at i:59416 original size:22 final size:22
Alignment explanation
Indices: 59372--59431 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
59362 TTGGTGCAGA
*
59372 GGGAATCGA-TCCCCCCTTGA-
1 GGGAACCGATTCCCCCCTTGAG
* *
59392 GGGAACCGATTTCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTG-AG
59415 GGGAACCGATTCCCCCC
1 GGGAACCGATTCCCCCC
59432 ACAGGGGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 8 0.25
21 8 0.25
22 1 0.03
23 15 0.47
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCTTGAG
Found at i:63349 original size:110 final size:110
Alignment explanation
Indices: 63135--63352 Score: 255
Period size: 110 Copynumber: 2.0 Consensus size: 110
63125 CCTAAATAAC
* * ** *
63135 GGGGACTAAACAACAAATAACCCAAAAATACACAACATGCATAAGAAACGGGTAAATAACATATT
1 GGGGACTAAACAACAAATAACCAAAAAATACACAACATGCACAAGAAACGGACAAATAACATAGT
* *
63200 TCAGTCCCTACAAGCGACCAACATGCAATAACATACTAAACTATA
66 TCAGTCCCTACAAGCGACCAACATGCAAAAACAGACTAAACTATA
* * *
63245 GGGGACTAAACAACAAATAATCCAAAAAATATA-AAGCATGCACAA-AAATGGACAAATAGCA-A
1 GGGGACTAAACAACAAATAA-CCAAAAAATACACAA-CATGCACAAGAAACGGACAAATAACATA
* * *
63307 GTTCAGTCCCTAC-AGATGACTAACATGCAAAAACACGGCTAAACTA
64 GTTCAGTCCCTACAAG-CGACCAACATGCAAAAACA-GACTAAACTA
63353 GGAGGACCTA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
108 2 0.02
109 29 0.32
110 42 0.46
111 18 0.20
ACGTcount: A:0.49, C:0.22, G:0.13, T:0.17
Consensus pattern (110 bp):
GGGGACTAAACAACAAATAACCAAAAAATACACAACATGCACAAGAAACGGACAAATAACATAGT
TCAGTCCCTACAAGCGACCAACATGCAAAAACAGACTAAACTATA
Found at i:64380 original size:3 final size:3
Alignment explanation
Indices: 64372--64404 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
64362 GCCTGAAATA
64372 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
64405 GTCGGGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:67923 original size:114 final size:115
Alignment explanation
Indices: 67723--67948 Score: 328
Period size: 114 Copynumber: 2.0 Consensus size: 115
67713 ATTTTGAAAC
* * *
67723 AGTTGGATTCACTCACCTTCCTTCTTGGAGTAATAGCCATGCCTCGTCTGTTTCAATACAATTAA
1 AGTTGGATTCACACACCTTCCTTCTTGGAGTAACAACCATGCCTCGTCTGTTTCAATACAATTAA
* * *
67788 TCATGATGATTAATGCAATTCCTTAATCCTT-GGTAATTGATATCAAAAT
66 TAATGATGATTAACGCAATTCCTTAATCCTTCGGTAATCGATATCAAAAT
* ** *
67837 AGTTGGATTCACACATCTTCCTTCTTGGAGTAACAATTATGCCTCGTCTGTTTCAATGCAATTAA
1 AGTTGGATTCACACACCTTCCTTCTTGGAGTAACAACCATGCCTCGTCTGTTTCAATACAATTAA
** *
67902 TAATGATGATTAACGTTATTCCTTAATCCTTCTGTAATCGATATCAA
66 TAATGATGATTAACGCAATTCCTTAATCCTTCGGTAATCGATATCAA
67949 TTTGTTTCTA
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
114 85 0.87
115 13 0.13
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (115 bp):
AGTTGGATTCACACACCTTCCTTCTTGGAGTAACAACCATGCCTCGTCTGTTTCAATACAATTAA
TAATGATGATTAACGCAATTCCTTAATCCTTCGGTAATCGATATCAAAAT
Found at i:68657 original size:59 final size:59
Alignment explanation
Indices: 68565--68684 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
68555 CAGTGCACAC
** *
68565 ACAAGCATCATGTTATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCATCTAT
1 ACAAGCATCATGACATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCAACTAT
*
68624 ACAAGCATCATGACATATCTCTTCTTTAATCCACAACATATTTGTATTAGCTCAACTAT
1 ACAAGCATCATGACATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCAACTAT
68683 AC
1 AC
68685 GTTCATAACA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (59 bp):
ACAAGCATCATGACATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCAACTAT
Found at i:73506 original size:24 final size:24
Alignment explanation
Indices: 73470--73533 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 24
73460 AGAGTCCATG
* * *
73470 TCAAGTATAATATAAAAATTCAGA
1 TCAAATATCATATAAAAATCCAGA
* * *
73494 TCAAATATCATATCAGAATCCAGG
1 TCAAATATCATATAAAAATCCAGA
* *
73518 TCAAAAATCAGATAAA
1 TCAAATATCATATAAA
73534 CTATTTATAT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (24 bp):
TCAAATATCATATAAAAATCCAGA
Found at i:74264 original size:29 final size:29
Alignment explanation
Indices: 74222--74296 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
74212 GTTGAACATT
*
74222 TTACACAAATAGCACCATTTTTA-AAATAA
1 TTAC-CAAATAGCACCACTTTTAGAAATAA
*
74251 TTACCAATATAGCACC-CTTTTAGAATTAA
1 TTACCAA-ATAGCACCACTTTTAGAAATAA
*
74280 TTCCCAAAATAGCACCA
1 TTACC-AAATAGCACCA
74297 AAATCGAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 8 0.21
29 29 0.74
30 2 0.05
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (29 bp):
TTACCAAATAGCACCACTTTTAGAAATAA
Found at i:74343 original size:13 final size:13
Alignment explanation
Indices: 74325--74354 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
74315 GAATAGCACC
74325 GGTCAACAGGTCG
1 GGTCAACAGGTCG
*
74338 GGTCAACGGGTCG
1 GGTCAACAGGTCG
74351 GGTC
1 GGTC
74355 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:74368 original size:17 final size:17
Alignment explanation
Indices: 74333--74393 Score: 95
Period size: 17 Copynumber: 3.5 Consensus size: 17
74323 CCGGTCAACA
74333 GGTCGGGTCAACGGGTCG
1 GGTCGGGTCAAC-GGTCG
74351 GGTCGGGTCAACGGTCG
1 GGTCGGGTCAACGGTCG
* *
74368 GGTCGAGTCAACAGTCG
1 GGTCGGGTCAACGGTCG
74385 GGTCGGGTC
1 GGTCGGGTC
74394 GTGACCGGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
17 28 0.70
18 12 0.30
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCAACGGTCG
Found at i:74417 original size:10 final size:10
Alignment explanation
Indices: 74397--74440 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
74387 TCGGGTCGTG
74397 ACCGGTC-AA
1 ACCGGTCAAA
74406 ACCGGTCAAA
1 ACCGGTCAAA
* *
74416 ACTGGT-TAA
1 ACCGGTCAAA
74425 ACCGGTCAAA
1 ACCGGTCAAA
74435 ACCGGT
1 ACCGGT
74441 TTCCAGCGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.48
10 15 0.52
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:74426 original size:19 final size:19
Alignment explanation
Indices: 74397--74441 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
74387 TCGGGTCGTG
*
74397 ACCGGTCAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
*
74416 ACTGGTTAAACCGGTCAAA
1 ACCGGTTAAACCGGTCAAA
74435 ACCGGTT
1 ACCGGTT
74442 TCCAGCGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (19 bp):
ACCGGTTAAACCGGTCAAA
Found at i:81251 original size:160 final size:160
Alignment explanation
Indices: 81064--81383 Score: 624
Period size: 160 Copynumber: 2.0 Consensus size: 160
81054 GGTAAATTAC
81064 ATATTTAATCACTGAACTTTACTCTCTCCTATTTCACTTATTATACTTTTATTTTTTTTT-AATT
1 ATATTTAATCACTGAACTTTACTCTCT-CTATTTCACTTATTATACTTTTATTTTTTTTTCAATT
81128 TAATAGCTAAACTTTATACATCAAACTTTTTTAGTCACCCCGCCTTTAGTTTTCTAATGGCATTA
65 TAATAGCTAAACTTTATACATCAAACTTTTTTAGTCACCCCGCCTTTAGTTTTCTAATGGCATTA
81193 TGACATGATCTAATAAAATAATTTGTTTAAA
130 TGACATGATCTAATAAAATAATTTGTTTAAA
81224 ATATTTAATCACTGAACTTTACTCTCTCTATTTCACTTATTATACTTTTATTTTTTTTTCAATTT
1 ATATTTAATCACTGAACTTTACTCTCTCTATTTCACTTATTATACTTTTATTTTTTTTTCAATTT
81289 AATAGCTAAACTTTATACATCAAACTTTTTTAGTCACCCCGCCTTTAGTTTTCTAATGGCATTAT
66 AATAGCTAAACTTTATACATCAAACTTTTTTAGTCACCCCGCCTTTAGTTTTCTAATGGCATTAT
81354 GACATGATCTAATAAAATAATTTGTTTAAA
131 GACATGATCTAATAAAATAATTTGTTTAAA
81384 TATAATAATA
Statistics
Matches: 159, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
159 32 0.20
160 127 0.80
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (160 bp):
ATATTTAATCACTGAACTTTACTCTCTCTATTTCACTTATTATACTTTTATTTTTTTTTCAATTT
AATAGCTAAACTTTATACATCAAACTTTTTTAGTCACCCCGCCTTTAGTTTTCTAATGGCATTAT
GACATGATCTAATAAAATAATTTGTTTAAA
Found at i:87272 original size:43 final size:43
Alignment explanation
Indices: 87223--87364 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
87213 ATAACATGGT
*
87223 TCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTGACACGAC
1 TCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTGACACGGC
* * * *
87266 TCCTACGTGATGAAGA-GATCTGG---TC--GGTGGATGACATGGT
1 TCCTACGTGATGAGGACG-CCTGGTTATCTAGG-GG-TGACACGGC
** *
87306 TCCTACGTGATGAGGACGGTTGGTTATCTAGGGGTAACACGGC
1 TCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTGACACGGC
*
87349 TCCTAAGTGATGAGGA
1 TCCTACGTGATGAGGA
87365 AGTCTGGTCG
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
38 2 0.03
39 2 0.03
40 26 0.33
41 1 0.01
42 1 0.01
43 42 0.54
44 2 0.03
45 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (43 bp):
TCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTGACACGGC
Found at i:87359 original size:83 final size:83
Alignment explanation
Indices: 87216--87401 Score: 266
Period size: 83 Copynumber: 2.2 Consensus size: 83
87206 GAGGGTGATA
* *
87216 ACATGGTTCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTGACACGACTCCTACGTGATGAAG
1 ACATGGTTCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTAACACGACTCCTAAGTGATGAAG
*
87281 -AGATCTGGTCGGTGGATG
66 AAG-TCTGGTCGGGGGATG
** * *
87299 ACATGGTTCCTACGTGATGAGGACGGTTGGTTATCTAGGGGTAACACGGCTCCTAAGTGATGAGG
1 ACATGGTTCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTAACACGACTCCTAAGTGATGAAG
87364 AAGTCTGGTCGGGGGATG
66 AAGTCTGGTCGGGGGATG
* * *
87382 ACACGGTTTCTACGCGATGA
1 ACATGGTTCCTACGTGATGA
87402 CGATGATATG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 90 0.98
84 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.25
Consensus pattern (83 bp):
ACATGGTTCCTACGTGATGAGGACGCCTGGTTATCTAGGGGTAACACGACTCCTAAGTGATGAAG
AAGTCTGGTCGGGGGATG
Found at i:87690 original size:67 final size:65
Alignment explanation
Indices: 87457--87692 Score: 242
Period size: 66 Copynumber: 3.6 Consensus size: 65
87447 AAGATGATGC
* * ** * * *
87457 TTCAAGATAAACTATCTCAA--GAGACAAAATTCATTTTAATGGAAATAGACTCAAAGATGGGTG
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-GGAAACAGACTCAAAGATTGGTG
87520 T
65 T
* ** *
87521 TTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTCAAGTGAAACATTCTCAAAGGTTGGTG
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAG-GAAACAGACTCAAAGATTGGTG
87586 T
65 T
* * *
87587 TTCATGAGAAACTGTCTCAAGGGAGATAAAATTTTGTTTCAAAGGAAACAGACTCAAAGATTTGT
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTC-AAGGAAACAGACTCAAAGATTGGT
87652 GT
64 GT
* * ** *
87654 TTCAAAGAAAAAATGTCTCAAGTAAGACGAAATTTGTTT
1 TTC-AAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTT
87693 TGATAGAAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
64 18 0.13
65 1 0.01
66 62 0.44
67 36 0.26
68 24 0.17
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (65 bp):
TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGAAACAGACTCAAAGATTGGTGT
Found at i:87738 original size:37 final size:36
Alignment explanation
Indices: 87667--87738 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
87657 AAAGAAAAAA
* * *
87667 TGTCTCAAGTAAGACGAAATTTGTTTTGATAGAAAT
1 TGTCTCAAGCAAGACAAAATTTGTTTTCATAGAAAT
*
87703 TGTCTCAAGCGAGACAAAATTTTGTTTTTCA-AGAAA
1 TGTCTCAAGCAAGACAAAA-TTTG-TTTTCATAGAAA
87739 AGTTGTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
36 16 0.53
37 9 0.30
38 5 0.17
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (36 bp):
TGTCTCAAGCAAGACAAAATTTGTTTTCATAGAAAT
Found at i:93613 original size:23 final size:23
Alignment explanation
Indices: 93587--93657 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
93577 CACTATGAAA
93587 CGATGCATTCCTTGAATATGCAT
1 CGATGCATTCCTTGAATATGCAT
* * *
93610 CGATACA---CTATGAAGATGCAC
1 CGATGCATTCCT-TGAATATGCAT
*
93631 CGATGCATTCCTTGAATGTGCAT
1 CGATGCATTCCTTGAATATGCAT
93654 CGAT
1 CGAT
93658 ACACTATGCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
20 2 0.05
21 15 0.41
23 18 0.49
24 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
CGATGCATTCCTTGAATATGCAT
Found at i:93616 original size:38 final size:42
Alignment explanation
Indices: 93565--93665 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 42
93555 TTTTGTGTAT
93565 TATGCATCGATACACTATG-A-A-A-CGATGCATTCCTTGAA
1 TATGCATCGATACACTATGAAGACACCGATGCATTCCTTGAA
93603 TATGCATCGATACACTATGAAGATGCACCGATGCATTCCTTGAA
1 TATGCATCGATACACTATGAAGA--CACCGATGCATTCCTTGAA
*
93647 TGTGCATCGATACACTATG
1 TATGCATCGATACACTATG
93666 CAGTGTACCA
Statistics
Matches: 56, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
38 19 0.34
39 1 0.02
40 1 0.02
43 1 0.02
44 34 0.61
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
TATGCATCGATACACTATGAAGACACCGATGCATTCCTTGAA
Found at i:95998 original size:13 final size:14
Alignment explanation
Indices: 95978--96012 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
95968 AGGGGGAGTA
95978 ATTTTCAAAAATTG
1 ATTTTCAAAAATTG
95992 A-TTTC-AAAATTG
1 ATTTTCAAAAATTG
96004 ATTTTCAAA
1 ATTTTCAAA
96013 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.42
13 8 0.42
14 3 0.16
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (14 bp):
ATTTTCAAAAATTG
Found at i:96002 original size:12 final size:13
Alignment explanation
Indices: 95978--96012 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
95968 AGGGGGAGTA
95978 ATTTTCAAAAATTG
1 ATTTTC-AAAATTG
95992 A-TTTCAAAATTG
1 ATTTTCAAAATTG
96004 ATTTTCAAA
1 ATTTTCAAA
96013 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.40
13 11 0.55
14 1 0.05
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (13 bp):
ATTTTCAAAATTG
Found at i:96501 original size:65 final size:65
Alignment explanation
Indices: 96357--96509 Score: 170
Period size: 65 Copynumber: 2.4 Consensus size: 65
96347 CCCTAATTCG
* * * * * * *
96357 AATGCAT-TTCGTGTACTGATCCACAGCCATACATCGATGCACTCTTGATTTTATTGAAACATCG
1 AATGCATATTAGTGTACCGATGCACAGCCATACATCGATGCACCCTGGATCTTATTGAAACATCA
* *
96421 AATGCATTTTA-TGTACCGATGCACAGACCATGCATCGATGCACACCTGGATCTT-TTGAAACAT
1 AATGCATATTAGTGTACCGATGCACAG-CCATACATCGATGCAC-CCTGGATCTTATTGAAACAT
96484 CA
64 CA
*
96486 AATGTA-ATTAGTGTACCGATGCAC
1 AATGCATATTAGTGTACCGATGCAC
96510 CCCAAGTGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
64 23 0.31
65 45 0.60
66 7 0.09
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (65 bp):
AATGCATATTAGTGTACCGATGCACAGCCATACATCGATGCACCCTGGATCTTATTGAAACATCA
Found at i:98292 original size:33 final size:31
Alignment explanation
Indices: 98255--98334 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 31
98245 GTGCTTCTTA
*
98255 TCTTTTTCTCTTTGCTTTTTCTTTTTCTTTTTT
1 TCTTTTTCTCTTTGCTTTTT-TGTTT-TTTTTT
*
98288 TCTTTGTT-TCTTTGC-TCTTTGTTTTTTTTT
1 TCTTT-TTCTCTTTGCTTTTTTGTTTTTTTTT
98318 T-TTTTTCTCTTTG-TTTT
1 TCTTTTTCTCTTTGCTTTT
98335 GATTGAATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
28 2 0.05
29 11 0.27
30 7 0.17
31 4 0.10
32 3 0.07
33 12 0.29
34 2 0.05
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (31 bp):
TCTTTTTCTCTTTGCTTTTTTGTTTTTTTTT
Found at i:98328 original size:22 final size:22
Alignment explanation
Indices: 98270--98334 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
98260 TTCTCTTTGC
*
98270 TTTTTCTTTTTCT-TTT-TTTCT
1 TTTTTTTTTTTCTCTTTGTTT-T
* * *
98291 TTGTTTCTTTGCTCTTTGTTTT
1 TTTTTTTTTTTCTCTTTGTTTT
98313 TTTTTTTTTTTCTCTTTGTTTT
1 TTTTTTTTTTTCTCTTTGTTTT
98335 GATTGAATCT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 9 0.26
22 23 0.66
23 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (22 bp):
TTTTTTTTTTTCTCTTTGTTTT
Found at i:103732 original size:11 final size:11
Alignment explanation
Indices: 103716--103753 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
103706 CCTTGCCTTA
103716 GCGCCTCAGCT
1 GCGCCTCAGCT
*
103727 GCGCCTAAGC-
1 GCGCCTCAGCT
*
103737 ACGCCTCAGCT
1 GCGCCTCAGCT
103748 GCGCCT
1 GCGCCT
103754 TTTTAAACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.13, C:0.45, G:0.26, T:0.16
Consensus pattern (11 bp):
GCGCCTCAGCT
Found at i:104033 original size:59 final size:59
Alignment explanation
Indices: 103941--104063 Score: 228
Period size: 59 Copynumber: 2.1 Consensus size: 59
103931 TGCAATGCAC
*
103941 ATACAAGCATCATGTCATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCATCT
1 ATACAAGCATCATGACATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCATCT
*
104000 ATACAAGCATCATGACATATCTCTTCTTTAATCCACAACTTAGTTGTATTAGCTCATCT
1 ATACAAGCATCATGACATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCATCT
104059 ATACA
1 ATACA
104064 TTCATAACAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.37
Consensus pattern (59 bp):
ATACAAGCATCATGACATATCTCTTCTTTAATCCACAACATAGTTGTATTAGCTCATCT
Found at i:104746 original size:113 final size:112
Alignment explanation
Indices: 104546--104764 Score: 330
Period size: 113 Copynumber: 1.9 Consensus size: 112
104536 AAAAAACAAA
* * *
104546 TTGATATCAATTGCACAAGGATTAAGGAATAGTATTAATCATCATGATTAATTGCATTGAATCAG
1 TTGATATCAATTACACAAGGATTAAGGAATAGCATTAATCATCATGATTAATTGCATTGAAACAG
* * ** *
104611 ACGAGGCATAGTTGTTACTCCAAGAAGGAAGATGTGAATCCAGCTGTT
66 ACAAGGAATAACTGTTACTCCAAGAAAGAAG-TGTGAATCCAGCTGTT
*
104659 TTGATATCAATTACACAAGGATTAAGGAATAGCATTGATCATCATGATTAATTGCATTGAAACAG
1 TTGATATCAATTACACAAGGATTAAGGAATAGCATTAATCATCATGATTAATTGCATTGAAACAG
* *
104724 ACAAGGAATAACTGTTATTCCAAGAAAGATGTGTGAATCCA
66 ACAAGGAATAACTGTTACTCCAAGAAAGAAGTGTGAATCCA
104765 ACTATTTCAA
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
112 10 0.11
113 85 0.89
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (112 bp):
TTGATATCAATTACACAAGGATTAAGGAATAGCATTAATCATCATGATTAATTGCATTGAAACAG
ACAAGGAATAACTGTTACTCCAAGAAAGAAGTGTGAATCCAGCTGTT
Found at i:104954 original size:30 final size:30
Alignment explanation
Indices: 104918--104985 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 30
104908 TTGTGCCTTG
104918 CGCCTTA-CACATTGACTACAAAACCCCTAT
1 CGCCTTAGCACATTGACTACAAAACCCC-AT
**
104948 CGCCTTAGTGCATTGACTACAAAACCCCAT
1 CGCCTTAGCACATTGACTACAAAACCCCAT
104978 CGCCTTAG
1 CGCCTTAG
104986 TGCTTCTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (30 bp):
CGCCTTAGCACATTGACTACAAAACCCCAT
Found at i:104986 original size:30 final size:31
Alignment explanation
Indices: 104927--104988 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
104917 GCGCCTTACA
104927 CATTGACTACAAAACCCCTATCGCCTTAGTG
1 CATTGACTACAAAACCCCTATCGCCTTAGTG
104958 CATTGACTACAAAACCCC-ATCGCCTTAGTG
1 CATTGACTACAAAACCCCTATCGCCTTAGTG
104988 C
1 C
104989 TTCTTGCGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.24
Consensus pattern (31 bp):
CATTGACTACAAAACCCCTATCGCCTTAGTG
Found at i:105290 original size:16 final size:16
Alignment explanation
Indices: 105269--105305 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
105259 TAACTAAAGT
105269 TCTAACAAGATGAAGC
1 TCTAACAAGATGAAGC
* *
105285 TCTAACAAGTTGAATC
1 TCTAACAAGATGAAGC
105301 TCTAA
1 TCTAA
105306 TGGTGAACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (16 bp):
TCTAACAAGATGAAGC
Found at i:110033 original size:30 final size:30
Alignment explanation
Indices: 109997--110066 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
109987 ATCATAACTT
109997 CACACGGGCTTAATCAGGCCAATAACAACA
1 CACACGGGCTTAATCAGGCCAATAACAACA
*
110027 CACACGGGCTTAATCAGGCCGATAACAACA
1 CACACGGGCTTAATCAGGCCAATAACAACA
110057 CACACGGGCT
1 CACACGGGCT
110067 CCATTCTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.13
Consensus pattern (30 bp):
CACACGGGCTTAATCAGGCCAATAACAACA
Found at i:111274 original size:38 final size:37
Alignment explanation
Indices: 111232--111497 Score: 121
Period size: 38 Copynumber: 7.1 Consensus size: 37
111222 CTTTTTTTTT
* * *
111232 AATATTTTTTATATAGGTTTTAAAAATGGTTTTTGGAA
1 AATATTTTTTATATAGGTTTTGAAAACGG-TTTTCGAA
111270 AATATTTATATTATATA-GTTTTGAAAACGGTTTTCGAA
1 AATATTT-T-TTATATAGGTTTTGAAAACGGTTTTCGAA
* * *
111308 AATATATATATTATATAGTTTTTGAAAAC-ATTTT-GAA
1 AATAT-T-TTTTATATAGGTTTTGAAAACGGTTTTCGAA
** *
111345 AATATATATAATATATA-GTTTTGAAAAC-ATTTT-GATA
1 AATAT-T-TTTTATATAGGTTTTGAAAACGGTTTTCGA-A
** *
111382 ATATATATATAATATATA-GTTTTGAAAAC-ATTTT-GAA
1 A-ATAT-T-TTTTATATAGGTTTTGAAAACGGTTTTCGAA
* * *
111419 AATATATATATAATATATA-GTTTTCAAAAC-ATTTT-GAA
1 AATAT-T-T-T-TTATATAGGTTTTGAAAACGGTTTTCGAA
* *
111457 AATATATATATTATATA-GTTTTGAAAAC-ATTTT-GAA
1 AATAT-T-TTTTATATAGGTTTTGAAAACGGTTTTCGAA
111493 AATAT
1 AATAT
111498 AAATAATATA
Statistics
Matches: 206, Mismatches: 13, Indels: 20
0.86 0.05 0.08
Matches are distributed among these distances:
36 54 0.26
37 23 0.11
38 98 0.48
39 23 0.11
40 8 0.04
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (37 bp):
AATATTTTTTATATAGGTTTTGAAAACGGTTTTCGAA
Found at i:111359 original size:73 final size:72
Alignment explanation
Indices: 111262--111636 Score: 495
Period size: 74 Copynumber: 5.1 Consensus size: 72
111252 TAAAAATGGT
* * *
111262 TTTTGGAAAATATTTATATTATATAGTTTTGAAAACGGTTTTCGAAAATATATATATTATATAGT
1 TTTT-GAAAATATATATAATATATAGTTTTGAAAAC-ATTTT-GAAAATATATATATTATATAG-
111327 TTTTGAAAACA
62 TTTTGAAAACA
*
111338 TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGATAATATATATATAATATATAGTT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGA-AA-ATATATATATTATATAGTT
111403 TTGAAAACA
64 TTGAAAACA
*
111412 TTTTGAAAATATATATATAATATATAGTTTTCAAAACATTTTGAAAATATATATATTATATAGTT
1 TTTTG-AAA-ATATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATATTATATAGTT
111477 TTGAAAACA
64 TTGAAAACA
* *
111486 TTTTGAAAATATAAATAATATATAGTTTTGAAAACATTTTG-AAATATATATGATACATATAGTT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAATATATAT-AT-TATATAGTT
111550 TTGAAAACA
64 TTGAAAACA
* * *
111559 TTTTGAAAATATATATAATATATAATTTT-AAAACGTTTTTGAAAA-ATATATCATATGTATAGA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAAC-ATTTTGAAAATATATAT-AT-TATATAG-
* *
111622 TTTCGAAAACG
62 TTTTGAAAACA
111633 TTTT
1 TTTT
111637 TCGAAATATA
Statistics
Matches: 273, Mismatches: 17, Indels: 20
0.88 0.05 0.06
Matches are distributed among these distances:
71 10 0.04
72 38 0.14
73 68 0.25
74 70 0.26
75 50 0.18
76 37 0.14
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (72 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATATTATATAGTTTT
GAAAACA
Found at i:111374 original size:36 final size:36
Alignment explanation
Indices: 111262--111614 Score: 487
Period size: 38 Copynumber: 9.6 Consensus size: 36
111252 TAAAAATGGT
* * *
111262 TTTTGGAAAATATTTATATTATATAGTTTTGAAAACGG
1 TTTT-GAAAATATATATAATATATAGTTTTGAAAAC-A
*
111300 TTTTCGAAAATATATATATTATATAGTTTTTGAAAACA
1 TTTT-GAAAATATATATAATATATAG-TTTTGAAAACA
111338 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
111374 TTTTGATAATATATATATAATATATAGTTTTGAAAACA
1 TTTTGA-AA-ATATATATAATATATAGTTTTGAAAACA
*
111412 TTTTGAAAATATATATATAATATATAGTTTTCAAAACA
1 TTTTG-AAA-ATATATATAATATATAGTTTTGAAAACA
*
111450 TTTTGAAAATATATATATTATATAGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
111486 TTTTGAAAATATAAATAATATATAGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
*
111522 TTTTG-AAATATATATGATACATATAGTTTTGAAAACA
1 TTTTGAAAATATATAT-A-ATATATAGTTTTGAAAACA
* *
111559 TTTTGAAAATATATATAATATATAATTTT-AAAACGT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAAC-A
*
111595 TTTTGAAAA-ATATATCATAT
1 TTTTGAAAATATATATAATAT
111615 GTATAGATTT
Statistics
Matches: 292, Mismatches: 15, Indels: 19
0.90 0.05 0.06
Matches are distributed among these distances:
35 24 0.08
36 102 0.35
37 49 0.17
38 106 0.36
39 11 0.04
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACA
Found at i:111655 original size:73 final size:73
Alignment explanation
Indices: 111262--111636 Score: 393
Period size: 73 Copynumber: 5.1 Consensus size: 73
111252 TAAAAATGGT
* * * * *
111262 TTTTGGAAAATATTTATATTATATAGTTTTGAAAACGGTTTTCG-AAAATATAT-ATATTATATA
1 TTTT-GAAAATATATATAATATATAATTTTGAAAAC-ATTTT-GAAAAATATATCATA-CATATA
*
111325 GTTTTTGAAAACA
62 G-TTTCGAAAACA
* * *
111338 TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGATAATATATAT-ATAATATATAGT
1 TTTTGAAAATATATATAATATATAATTTTGAAAACATTTTGA-AAAATATATCAT-ACATATAGT
*
111402 TTTGAAAACA
64 TTCGAAAACA
* * *
111412 TTTTGAAAATATATATATAATATATAGTTTTCAAAACATTTTG-AAAATATAT-ATATTATATAG
1 TTTTG-AAA-ATATATATAATATATAATTTTGAAAACATTTTGAAAAATATATCATA-CATATAG
*
111475 TTTTGAAAACA
63 TTTCGAAAACA
* * * *
111486 TTTTGAAAATATAAATAATATATAGTTTTGAAAACATTTTGAAATATATATGATACATATAGTTT
1 TTTTGAAAATATATATAATATATAATTTTGAAAACATTTTGAAAAATATATCATACATATAGTTT
*
111551 TGAAAACA
66 CGAAAACA
* **
111559 TTTTGAAAATATATATAATATATAATTTT-AAAACGTTTTTGAAAAATATATCATATGTATAGAT
1 TTTTGAAAATATATATAATATATAATTTTGAAAAC-ATTTTGAAAAATATATCATACATATAG-T
*
111623 TTCGAAAACG
64 TTCGAAAACA
111633 TTTT
1 TTTT
111637 TCGAAATATA
Statistics
Matches: 270, Mismatches: 19, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
72 36 0.13
73 79 0.29
74 69 0.26
75 49 0.18
76 37 0.14
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (73 bp):
TTTTGAAAATATATATAATATATAATTTTGAAAACATTTTGAAAAATATATCATACATATAGTTT
CGAAAACA
Found at i:111708 original size:16 final size:15
Alignment explanation
Indices: 111683--111715 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
111673 TATTTATTTG
111683 TTTTTTTTTTTTTAT
1 TTTTTTTTTTTTTAT
111698 TTTTTTCTTTTTTTAT
1 TTTTTT-TTTTTTTAT
111714 TT
1 TT
111716 AGGTCCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.06, C:0.03, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTTTTTTTTAT
Found at i:112569 original size:16 final size:17
Alignment explanation
Indices: 112538--112574 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
112528 AGAGGTGAGA
112538 GGTTTTTTTAGAGGTTT
1 GGTTTTTTTAGAGGTTT
*
112555 GGTTTTTTTTG-GGTTT
1 GGTTTTTTTAGAGGTTT
112571 GGTT
1 GGTT
112575 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.05, C:0.00, G:0.32, T:0.62
Consensus pattern (17 bp):
GGTTTTTTTAGAGGTTT
Found at i:113024 original size:21 final size:20
Alignment explanation
Indices: 112982--113018 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
112972 ATTAACATTT
112982 TTTCATTTTTTATATTTTTA
1 TTTCATTTTTTATATTTTTA
113002 TTTCATTTTTT-TATTTT
1 TTTCATTTTTTATATTTT
113019 AATATTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTCATTTTTTATATTTTTA
Found at i:113102 original size:31 final size:36
Alignment explanation
Indices: 113032--113095 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
113022 ATTCTTCTCA
113032 ATTTTATTTATCTTTATTTACTTATTTATTTTAATT
1 ATTTTATTTATCTTTATTTACTTATTTATTTTAATT
*
113068 ATTTTCTTT-TCTTT-TTT-CTT-TTT-TTTTA
1 ATTTTATTTATCTTTATTTACTTATTTATTTTA
113096 TATATTTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 5 0.19
32 3 0.11
33 3 0.11
34 3 0.11
35 5 0.19
36 8 0.30
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (36 bp):
ATTTTATTTATCTTTATTTACTTATTTATTTTAATT
Found at i:119371 original size:86 final size:85
Alignment explanation
Indices: 119032--119617 Score: 687
Period size: 85 Copynumber: 6.9 Consensus size: 85
119022 TCCCAACCTA
* * * *
119032 TTACAGAATAGCTCAAGGTGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT-TCATT
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAACCTTCGAGTTCGATTCT-ATT
*
119096 CAGCTCAAGGGAATATCAAAT
65 CAGCTCAAGGGCATATCAAAT
* * * *
119117 TTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTTAGCAAAAACCTTCGAGTTCGATT-TCATT
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAACCTTCGAGTTCGATTCT-ATT
119181 CAGCTCAAGGGCATATCAAAT
65 CAGCTCAAGGGCATATCAAAT
* * * * *
119202 TTACA-CATAGCTCAAGGCGAGAAGGGTTATCCATCAATAAAAACCTTCGATTTTGATTCCATTC
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAACCTTCGAGTTCGATTCTATTC
*
119266 AGCTCAAGGGCATGTCAAAT
66 AGCTCAAGGGCATATCAAAT
*
119286 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACC-TCTGTGTTCGATTCTAT
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAAC-AAAAACCTTC-GAGTTCGATTCTAT
119350 TCAGCTCAAGGGCATATCAAAT
64 TCAGCTCAAGGGCATATCAAAT
* * ** * * * ** * * * *
119372 TTACAACATAGCTTAAAACAAGAAGGGCTATCTGTCAATGAAGACTTTTCGA-TTTGATTCCATT
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAC-CTTCGAGTTCGATTCTATT
*
119436 CAGCTCAAGGGCATGTCAAAT
65 CAGCTCAAGGGCATATCAAAT
* *
119457 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACCTCCAAGTTCGATTCTATT
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAAC-AAAAACCTTCGAGTTCGATTCTATT
119522 CAGCTCAAGGGCATATCAAAT
65 CAGCTCAAGGGCATATCAAAT
* ** * * * ** * * *
119543 TTACAGCATAGCTTAAAACAAGAAGGGCTATCTGTCAATGAAGACTTTCGAGTTCGATTCCATTC
1 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAACCTTCGAGTTCGATTCTATTC
*
119608 AGCTCGAGGG
66 AGCTCAAGGG
119618 TGTATCAACC
Statistics
Matches: 425, Mismatches: 68, Indels: 16
0.83 0.13 0.03
Matches are distributed among these distances:
84 74 0.17
85 213 0.50
86 136 0.32
87 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (85 bp):
TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAACCTTCGAGTTCGATTCTATTC
AGCTCAAGGGCATATCAAAT
Found at i:119453 original size:171 final size:171
Alignment explanation
Indices: 119052--119617 Score: 809
Period size: 171 Copynumber: 3.3 Consensus size: 171
119042 GCTCAAGGTG
* * * *
119052 AGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTTCATTCAGCTCAAGGGAATATCAAAT
1 AGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAAT
* * * *
119117 TTACAACATAGCTCAAGGCGAGAAGGGTTATCTGTTAGC-AAAAACCT-TCGAGTTCGATT-TCA
66 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACCTCT-GAGTTCGATTCT-A
* ** *
119179 TTCAGCTCAAGGGCATATCAAATTTAC-ACATAGCTCAAGGCG
129 TTCAGCTCAAGGGCATATCAAATTTACAACATAGCTTAAAACA
* ** * *
119221 AGAAGGGTTATCCATCAATAAAAACCTTCGATTTTGATTCCATTCAGCTCAAGGGCATGTCAAAT
1 AGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAAT
*
119286 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACCTCTGTGTTCGATTCTATT
66 TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACCTCTGAGTTCGATTCTATT
119351 CAGCTCAAGGGCATATCAAATTTACAACATAGCTTAAAACA
131 CAGCTCAAGGGCATATCAAATTTACAACATAGCTTAAAACA
* * * *
119392 AGAAGGGCTATCTGTCAATGAAGACTTTTCGA-TTTGATTCCATTCAGCTCAAGGGCATGTCAAA
1 AGAAGGGCTATCTGTCAATAAAAAC-CTTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAA
**
119456 TTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACCTCCAAGTTCGATTCTAT
65 TTTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACCTCTGAGTTCGATTCTAT
*
119521 TCAGCTCAAGGGCATATCAAATTTACAGCATAGCTTAAAACA
130 TCAGCTCAAGGGCATATCAAATTTACAACATAGCTTAAAACA
* * * *
119563 AGAAGGGCTATCTGTCAATGAAGACTTTCGAGTTCGATTCCATTCAGCTCGAGGG
1 AGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGG
119618 TGTATCAACC
Statistics
Matches: 361, Mismatches: 30, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
169 91 0.25
170 51 0.14
171 214 0.59
172 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (171 bp):
AGAAGGGCTATCTGTCAATAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAAT
TTACAGCATAGCTCAAGGCGAGAAGGGTTATCTATCAACAAAAAACCTCTGAGTTCGATTCTATT
CAGCTCAAGGGCATATCAAATTTACAACATAGCTTAAAACA
Found at i:120186 original size:36 final size:36
Alignment explanation
Indices: 120058--120442 Score: 476
Period size: 36 Copynumber: 10.4 Consensus size: 36
120048 AGAAAACGGT
*
120058 TTTTGGAAAATATATATATTATATAGTTTTGAAAA-A
1 TTTT-GAAAATATATATAATATATAGTTTTGAAAACA
*
120094 TGTTTTCGAAAAATATATATATTATATAGTTTTAGAAAACA
1 --TTTT-G-AAAATATATATAATATATAGTTTT-GAAAACA
*
120135 TTTTGAAAATGTATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACA
*
120172 -TTTGAAAATATATATAATATATAGTTTTAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
* * *
120207 TCTTGAAAAAATATATATAGTATATAGTTTTGAACACA
1 TTTTG--AAAATATATATAATATATAGTTTTGAAAACA
120245 TTTTGAAAAATATATATATATAATATATAGTTTTGAAAACA
1 TTTTG---AA-A-ATATATATAATATATAGTTTTGAAAACA
120286 -TTTG-AAATATATATAATATATAGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
* *
120320 TTCTAAAAATATATATAATATATAGTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACA
120356 TTTTG-AAATATATATAATACATATAGTTTTGAAAACA
1 TTTTGAAAATATATATAAT--ATATAGTTTTGAAAACA
* *
120393 TTTTGAAAATATATATAATATATAATTTT-AAAACGT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAAC-A
120429 TTTTGAAAATATAT
1 TTTTGAAAATATAT
120443 CGTATGTATA
Statistics
Matches: 313, Mismatches: 18, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
34 28 0.09
35 31 0.10
36 83 0.27
37 47 0.15
38 55 0.18
39 32 0.10
40 10 0.03
41 27 0.09
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (36 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACA
Found at i:120199 original size:73 final size:72
Alignment explanation
Indices: 120058--120442 Score: 476
Period size: 73 Copynumber: 5.2 Consensus size: 72
120048 AGAAAACGGT
* *
120058 TTTTGGAAAATATATATATTATATAGTTTTGAAAA-ATGTTTTCGAAAAATATATATATTATATA
1 TTTT-GAAAATATATATAATATATAGTTTTGAAAACA--TTTT-G-AAAATATATATAATATATA
120122 GTTTTAGAAAACA
61 GTTTT-GAAAACA
*
120135 TTTTGAAAATGTATATAATATATAGTTTTTGAAAACA-TTTGAAAATATATATAATATATAGTTT
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACATTTTGAAAATATATATAATATATAGTTT
*
120199 TAAAAACA
65 TGAAAACA
* * *
120207 TCTTGAAAAAATATATATAGTATATAGTTTTGAACACATTTTGAAAAATATATATATATAATATA
1 TTTTG--AAAATATATATAATATATAGTTTTGAAAACATTTTG---AA-A-ATATATATAATATA
120272 TAGTTTTGAAAACA
59 TAGTTTTGAAAACA
* *
120286 -TTTG-AAATATATATAATATATAGTTTTGAAAACATTCTAAAAATATATATAATATATAGTTTT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTT
120349 GAAAACA
66 GAAAACA
*
120356 TTTTG-AAATATATATAATACATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAATT
1 TTTTGAAAATATATATAAT--ATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTT
*
120420 TT-AAAACGT
64 TTGAAAAC-A
120429 TTTTGAAAATATAT
1 TTTTGAAAATATAT
120443 CGTATGTATA
Statistics
Matches: 275, Mismatches: 18, Indels: 33
0.84 0.06 0.10
Matches are distributed among these distances:
70 28 0.10
71 18 0.07
72 17 0.06
73 81 0.29
74 31 0.11
75 34 0.12
76 19 0.07
77 15 0.05
78 5 0.02
79 27 0.10
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (72 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTT
GAAAACA
Found at i:120232 original size:111 final size:109
Alignment explanation
Indices: 120063--120425 Score: 486
Period size: 111 Copynumber: 3.3 Consensus size: 109
120053 ACGGTTTTTG
* ** *
120063 GAAAATATATATATTATATAGTTTTGAAAAATGTTTTCGAAAAATATATATATTATATAGTTTTA
1 GAAAATATATATAATATATAGTTTT-AAAAA-CATTT-GAAAAATATATATAATATATAGTTTT-
*
120128 GAAAACATTTTGAAAATGTATATAAT-ATATAGTTTTTGAAAACATTT
62 GAAAACATTTTGAAAATATATATAATAATATAGTTTTTGAAAACATTT
*
120175 GAAAATATATATAATATATAGTTTTAAAAACATCTTGAAAAAATATATATAGTATATAGTTTTGA
1 GAAAATATATATAATATATAGTTTTAAAAACAT-TTG-AAAAATATATATAATATATAGTTTTGA
*
120240 ACACATTTTGAAAAATATATATATATAATATA-TAGTTTTGAAAACATTT
64 AAACATTTTG-AAAATATATATA-ATAATATAGT--TTTTGAAAACATTT
*
120289 G-AAATATATATAATATATAGTTTTGAAAACATTCT-AAAAATATATATAATATATAGTTTTGAA
1 GAAAATATATATAATATATAGTTTTAAAAACATT-TGAAAAATATATATAATATATAGTTTTGAA
120352 AACATTTTG-AAATATATATAATACATATAG-TTTTGAAAACATTTT
65 AACATTTTGAAAATATATATAATA-ATATAGTTTTTGAAAACA-TTT
*
120397 GAAAATATATATAATATATAATTTTAAAA
1 GAAAATATATATAATATATAGTTTTAAAA
120426 CGTTTTTGAA
Statistics
Matches: 228, Mismatches: 11, Indels: 27
0.86 0.04 0.10
Matches are distributed among these distances:
107 11 0.05
108 7 0.03
109 41 0.18
110 13 0.06
111 77 0.34
112 28 0.12
113 36 0.16
114 15 0.07
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.41
Consensus pattern (109 bp):
GAAAATATATATAATATATAGTTTTAAAAACATTTGAAAAATATATATAATATATAGTTTTGAAA
ACATTTTGAAAATATATATAATAATATAGTTTTTGAAAACATTT
Found at i:120464 original size:38 final size:37
Alignment explanation
Indices: 120050--120489 Score: 204
Period size: 36 Copynumber: 11.8 Consensus size: 37
120040 TAGGTTTTAG
* * *
120050 AAAACGGTTTTTGGAAAATATATATATTATATAGTTTT
1 AAAAC-GTTTTTTGAAAATATATATAATATATAATTTT
* * * *
120088 GAAAA-ATGTTTTCGAAAAATATATATATTATATAGTTTT
1 -AAAACGT-TTTTTG-AAAATATATATAATATATAATTTT
* * *
120127 AGAAAAC--ATTTTGAAAATGTATATAATATATAGTTTTT
1 --AAAACGTTTTTTGAAAATATATATAATATATA-ATTTT
* *
120165 GAAAAC---ATTTGAAAATATATATAATATATAGTTTT
1 -AAAACGTTTTTTGAAAATATATATAATATATAATTTT
* * *** * *
120200 AAAAACATCTTGAAAAAATATATATAGTATATAGTTTT
1 -AAAACGTTTTTTGAAAATATATATAATATATAATTTT
* *
120238 GAACAC--ATTTTGAAAAATATATATATATAATATATAGTTTT
1 -AAAACGTTTTTTG-AAAATATATATA-AT-ATATA-A-TTTT
* *
120279 GAAAAC---ATTTG-AAATATATATAATATATAGTTTT
1 -AAAACGTTTTTTGAAAATATATATAATATATAATTTT
* * * *
120313 GAAAAC--ATTCTAAAAATATATATAATATATAGTTTT
1 -AAAACGTTTTTTGAAAATATATATAATATATAATTTT
* *
120349 GAAAAC--ATTTTG-AAATATATATAATACATATAGTTTT
1 -AAAACGTTTTTTGAAAATATATATAAT--ATATAATTTT
*
120386 GAAAAC--ATTTTGAAAATATATATAATATATAATTTT
1 -AAAACGTTTTTTGAAAATATATATAATATATAATTTT
* *
120422 AAAACG-TTTTTGAAAATATATCGT-ATGTATAGATTTCT
1 AAAACGTTTTTTGAAAATATAT-ATAATATATA-ATTT-T
* *
120460 AAAACGTTTTTTG-AAATATATTTTATATAT
1 AAAACGTTTTTTGAAAATATATATAATATAT
120490 TTTTTATTAT
Statistics
Matches: 339, Mismatches: 38, Indels: 49
0.80 0.09 0.12
Matches are distributed among these distances:
34 10 0.03
35 29 0.09
36 91 0.27
37 66 0.19
38 86 0.25
39 39 0.12
40 9 0.03
41 9 0.03
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (37 bp):
AAAACGTTTTTTGAAAATATATATAATATATAATTTT
Found at i:120505 original size:4 final size:4
Alignment explanation
Indices: 120481--120534 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
120471 TGAAATATAT
* *
120481 TTTA TATA TTT- TTTA -TTA TTTA TTTA TTTA TTTA CTTA -TT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
120525 TTT- TTTA TTT
1 TTTA TTTA TTT
120535 TTATTTAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
3 13 0.31
4 29 0.69
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:120506 original size:22 final size:21
Alignment explanation
Indices: 120481--120540 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
120471 TGAAATATAT
*
120481 TTTATATATTTTTTATTATTTA
1 TTTATTTATTTTTTATT-TTTA
*
120503 TTTATTTATTTACTTATTTTTA
1 TTTATTTATTT-TTTATTTTTA
120525 TTT-TTTA-TTTTTATTT
1 TTTATTTATTTTTTATTT
120541 AGGTCCAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 4 0.12
22 17 0.50
23 5 0.15
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTATTTATTTTTTATTTTTA
Found at i:120509 original size:8 final size:8
Alignment explanation
Indices: 120481--120534 Score: 55
Period size: 7 Copynumber: 7.4 Consensus size: 8
120471 TGAAATATAT
*
120481 TTTATATA
1 TTTATTTA
120489 TTT-TTTA
1 TTTATTTA
120496 -TTATTTA
1 TTTATTTA
120503 TTTATTTA
1 TTTATTTA
*
120511 TTTACTTA
1 TTTATTTA
120519 -TT-TTTA
1 TTTATTTA
120525 TTT-TTTA
1 TTTATTTA
120532 TTT
1 TTT
120535 TTATTTAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 5 0.12
7 18 0.45
8 17 0.43
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTATTTA
Found at i:122312 original size:14 final size:13
Alignment explanation
Indices: 122293--122333 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
122283 TCTTCTCAAA
122293 TTTATTTATTTAT
1 TTTATTTATTTAT
122306 CTTTATTTATTTAT
1 -TTTATTTATTTAT
*
122320 TTTTTTTATTTAT
1 TTTATTTATTTAT
122333 T
1 T
122334 ATTTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:122329 original size:13 final size:13
Alignment explanation
Indices: 122297--122338 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
122287 CTCAAATTTA
*
122297 TTTATTTATCTTTA
1 TTTATTTAT-TTTT
122311 TTTATTTATTTTT
1 TTTATTTATTTTT
122324 TTTATTTATTATTT
1 TTTATTTATT-TTT
122338 T
1 T
122339 CTTTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTTT
Found at i:122329 original size:17 final size:17
Alignment explanation
Indices: 122292--122353 Score: 83
Period size: 16 Copynumber: 3.7 Consensus size: 17
122282 ATCTTCTCAA
122292 ATTTATTTATTTATCTTT
1 ATTTATTTATTT-TCTTT
*
122310 ATTTATTTATTTTTTTT
1 ATTTATTTATTTTCTTT
122327 ATTTA-TTATTTTCTTT
1 ATTTATTTATTTTCTTT
*
122343 -TTTATATATTT
1 ATTTATTTATTT
122354 CACCATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
15 4 0.10
16 15 0.38
17 9 0.22
18 12 0.30
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTATTTATTTTCTTT
Found at i:122338 original size:14 final size:15
Alignment explanation
Indices: 122292--122353 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 15
122282 ATCTTCTCAA
*
122292 ATTTATTTATTTATCT
1 ATTT-TTTATTTATAT
*
122308 -TTATTTATTTAT-T
1 ATTTTTTATTTATAT
122321 -TTTTTTATTTAT-T
1 ATTTTTTATTTATAT
*
122334 ATTTTCTTTTTTATAT
1 ATTTT-TTATTTATAT
122350 ATTT
1 ATTT
122354 CACCATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 13 0.32
14 13 0.32
15 9 0.22
16 5 0.12
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTATTTATAT
Found at i:127049 original size:8 final size:7
Alignment explanation
Indices: 127032--127087 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
127022 AAATCAGAAC
127032 AAAAAGA
1 AAAAAGA
127039 AAAAGAGA
1 AAAA-AGA
127047 AAAAA-A
1 AAAAAGA
**
127053 ACGAAGA
1 AAAAAGA
127060 AAAAAGA
1 AAAAAGA
*
127067 AAAGAGA
1 AAAAAGA
*
127074 AAATAAAA
1 AAA-AAGA
127082 AAAAAG
1 AAAAAG
127088 TGAAACAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
6 4 0.11
7 22 0.58
8 12 0.32
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:127066 original size:22 final size:23
Alignment explanation
Indices: 127034--127110 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 23
127024 ATCAGAACAA
127034 AAAG-AAAAAGAGAAA-AAAAAC
1 AAAGAAAAAAGAGAAACAAAAAC
* * *
127055 GAAGAAAAAAGA-AAAGAGAAAAT
1 AAAGAAAAAAGAGAAACA-AAAAC
*
127078 AAA-AAAAAAGTGAAACAAAAAC
1 AAAGAAAAAAGAGAAACAAAAAC
*
127100 AAAGGAAAAAG
1 AAAGAAAAAAG
127111 TGAAGAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
21 6 0.14
22 22 0.50
23 16 0.36
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.03
Consensus pattern (23 bp):
AAAGAAAAAAGAGAAACAAAAAC
Found at i:127119 original size:22 final size:22
Alignment explanation
Indices: 127034--127120 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 22
127024 ATCAGAACAA
*
127034 AAAG-AAAAAGAGAAAAAAAAC
1 AAAGAAAAAAGAGAAGAAAAAC
* * *
127055 GAAGAAAAAAGAAAAGAGAAAAT
1 AAAGAAAAAAGAGAAGA-AAAAC
* *
127078 AAA-AAAAAAGTGAAACAAAAAC
1 AAAGAAAAAAGAG-AAGAAAAAC
* *
127100 AAAGGAAAAAGTGAAGAAAAA
1 AAAGAAAAAAGAGAAGAAAAA
127121 AGACAAGACG
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
21 3 0.06
22 31 0.61
23 17 0.33
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (22 bp):
AAAGAAAAAAGAGAAGAAAAAC
Found at i:133908 original size:55 final size:55
Alignment explanation
Indices: 133815--133996 Score: 244
Period size: 54 Copynumber: 3.3 Consensus size: 55
133805 CTATGTGTAC
133815 TATAGGCACTAAGTGTGC-AACCCACGAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAAACCCACGAAATTCATCATATGTTGATGAACAACCG
*
133869 TATAGGCACTAAGTGTGCAAACCCACGGAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAAACCCACGAAATTCATCATATGTTGATGAACAACCG
* * * * * * **
133924 TATATGCACTATA-TGTACGAA-CCACGAAATTCATAATATATTTATGAATGACCG
1 TATAGGCACTA-AGTGTGCAAACCCACGAAATTCATCATATGTTGATGAACAACCG
*
133978 TATAGGCACTACGTGTGCA
1 TATAGGCACTAAGTGTGCA
133997 TGTCAATGAA
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
54 59 0.53
55 51 0.46
56 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (55 bp):
TATAGGCACTAAGTGTGCAAACCCACGAAATTCATCATATGTTGATGAACAACCG
Found at i:138953 original size:21 final size:21
Alignment explanation
Indices: 138927--138966 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
138917 AATTCCAGAA
138927 TGCTACAGGGGTATCGATACC
1 TGCTACAGGGGTATCGATACC
138948 TGCTACAGGGGTATCGATA
1 TGCTACAGGGGTATCGATA
138967 TCGTTACTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (21 bp):
TGCTACAGGGGTATCGATACC
Found at i:139373 original size:34 final size:33
Alignment explanation
Indices: 139334--139404 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
139324 TTTTGTAAAG
*
139334 GGGAAAGGTTATAGTTTAACCCCTGTAAAAGCTA
1 GGGAAAGGTTATAGTTTAACCCCTG-AAAAACTA
* * *
139368 GGGAAATGTTATAGTTTATCCCGTGAAAAACTA
1 GGGAAAGGTTATAGTTTAACCCCTGAAAAACTA
139401 GGGA
1 GGGA
139405 GTTGTAAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 11 0.33
34 22 0.67
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (33 bp):
GGGAAAGGTTATAGTTTAACCCCTGAAAAACTA
Found at i:142754 original size:21 final size:21
Alignment explanation
Indices: 142728--142931 Score: 151
Period size: 21 Copynumber: 9.6 Consensus size: 21
142718 ATATGTTTCG
*
142728 AAAGGACCACGTATATATCCC
1 AAAGGACCACATATATATCCC
* *
142749 AAAGGACCTCATATATATTCC
1 AAAGGACCACATATATATCCC
*
142770 AAAGGACCACATGTATATCCC
1 AAAGGACCACATATATATCCC
*
142791 GAAA-GACCTCATATAATTATCCC
1 -AAAGGACCACATAT-A-TATCCC
* *
142814 TAAA-GACCACATATATGTTCC
1 -AAAGGACCACATATATATCCC
* * * *
142835 AAAAGACCAAATATATGTCCT
1 AAAGGACCACATATATATCCC
* * * *
142856 GAAGGACCTCATATATGTTCC
1 AAAGGACCACATATATATCCC
* * *
142877 AAAGGATCACATATATGTCCT
1 AAAGGACCACATATATATCCC
* * * *
142898 GAAGGATCACATATATCTCCT
1 AAAGGACCACATATATATCCC
*
142919 GAAGGACCACATA
1 AAAGGACCACATA
142932 GAACTCTCGA
Statistics
Matches: 150, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
20 3 0.02
21 124 0.83
22 5 0.03
23 18 0.12
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (21 bp):
AAAGGACCACATATATATCCC
Found at i:142811 original size:23 final size:22
Alignment explanation
Indices: 142700--142931 Score: 142
Period size: 21 Copynumber: 10.9 Consensus size: 22
142690 CATATAAAAT
* *
142700 TATCCCG-AATGACCTCATATA
1 TATCCCGAAAGGACCACATATA
* ** *
142721 TGTTTCGAAAGGACCACGTATA
1 TATCCCGAAAGGACCACATATA
*
142743 TATCCC-AAAGGACCTCATATA
1 TATCCCGAAAGGACCACATATA
* *
142764 TATTCC-AAAGGACCACATGTA
1 TATCCCGAAAGGACCACATATA
*
142785 TATCCCGAAA-GACCTCATATAA
1 TATCCCGAAAGGACCACATAT-A
*
142807 TTATCCCTAAA-GACCACATATA
1 -TATCCCGAAAGGACCACATATA
* * * *
142829 TGTTCC-AAAAGACCAAATATA
1 TATCCCGAAAGGACCACATATA
* * *
142850 TGTCCTG-AAGGACCTCATATA
1 TATCCCGAAAGGACCACATATA
* * *
142871 TGTTCC-AAAGGATCACATATA
1 TATCCCGAAAGGACCACATATA
* * *
142892 TGTCCTG-AAGGATCACATATA
1 TATCCCGAAAGGACCACATATA
* *
142913 TCTCCTG-AAGGACCACATA
1 TATCCCGAAAGGACCACATA
142932 GAACTCTCGA
Statistics
Matches: 168, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
20 3 0.02
21 128 0.76
22 19 0.11
23 18 0.11
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (22 bp):
TATCCCGAAAGGACCACATATA
Found at i:142813 original size:65 final size:65
Alignment explanation
Indices: 142743--142870 Score: 168
Period size: 65 Copynumber: 2.0 Consensus size: 65
142733 ACCACGTATA
* * * *
142743 TATCCC-AAAGGACCTCATATATATTCCAAAGGACCACATGTATATCCCGAAAGACCTCATATAA
1 TATCCCTAAA-GACCACATATATATTCCAAAAGACCAAATATATATCCCGAAAGACCTCATATAA
142807 T
65 T
* * * *
142808 TATCCCTAAAGACCACATATATGTTCCAAAAGACCAAATATATGTCCTGAAGGACCTCATATA
1 TATCCCTAAAGACCACATATATATTCCAAAAGACCAAATATATATCCCGAAAGACCTCATATA
142871 TGTTCCAAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
65 51 0.94
66 3 0.06
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (65 bp):
TATCCCTAAAGACCACATATATATTCCAAAAGACCAAATATATATCCCGAAAGACCTCATATAAT
Found at i:142911 original size:107 final size:108
Alignment explanation
Indices: 142697--142912 Score: 263
Period size: 107 Copynumber: 2.0 Consensus size: 108
142687 TGCCATATAA
* * * * **
142697 AATTATCCCGAATGACCTCATATATGTTTCGAAAGGACCACGTATATATCCCAAAGGACCTCATA
1 AATTATCCCGAAAGACCACATATATGTTTCCAAAAGACCAAATATATATCCCAAAGGACCTCATA
* *
142762 TATATTCCAAAGGACCACATGTATATCCCGAAAGACCTCATAT
66 TATATTCCAAAGGACCACATATATATCCCGAAAGACCACATAT
* * **
142805 AATTATCCCTAAAGACCACATATATG-TTCCAAAAGACCAAATATATGTCCTGAAGGACCTCATA
1 AATTATCCCGAAAGACCACATATATGTTTCCAAAAGACCAAATATATATCCCAAAGGACCTCATA
* * * * * *
142869 TATGTTCCAAAGGATCACATATATGTCCTGAAGGATCACATAT
66 TATATTCCAAAGGACCACATATATATCCCGAAAGACCACATAT
142912 A
1 A
142913 TCTCCTGAAG
Statistics
Matches: 90, Mismatches: 18, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
107 67 0.74
108 23 0.26
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (108 bp):
AATTATCCCGAAAGACCACATATATGTTTCCAAAAGACCAAATATATATCCCAAAGGACCTCATA
TATATTCCAAAGGACCACATATATATCCCGAAAGACCACATAT
Found at i:149385 original size:21 final size:21
Alignment explanation
Indices: 149359--149504 Score: 113
Period size: 21 Copynumber: 7.0 Consensus size: 21
149349 TAAAATTGTC
*
149359 CCAAATGACCTCATATATGTT
1 CCAAAGGACCTCATATATGTT
* * *
149380 CCAAATGACCACATATATGTC
1 CCAAAGGACCTCATATATGTT
149401 CCGAAA-GACCTCATA-AT-TAT
1 CC-AAAGGACCTCATATATGT-T
* *
149421 CCCTAAGGACCACATATATGTT
1 -CCAAAGGACCTCATATATGTT
* * *
149443 TCAAACGA-CTAAATATATG-T
1 CCAAAGGACCT-CATATATGTT
149463 CCTAAAGGACCTCATATATGTT
1 CC-AAAGGACCTCATATATGTT
* *
149485 CCAAAGGATCACATATATGT
1 CCAAAGGACCTCATATATGT
149505 CTTTAAGGAC
Statistics
Matches: 99, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
19 1 0.01
20 7 0.07
21 79 0.80
22 11 0.11
23 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (21 bp):
CCAAAGGACCTCATATATGTT
Found at i:149471 original size:42 final size:42
Alignment explanation
Indices: 149371--149520 Score: 123
Period size: 42 Copynumber: 3.6 Consensus size: 42
149361 AAATGACCTC
* *
149371 ATATATGTTCC-AAATGACCACATATATGTCCCGAAA-GACCTCATA
1 ATATATG-TCCTAAAGGACCACATATATGTTCC-AAACGA--TCA-A
* *
149416 AT-TAT-CCCT-AAGGACCACATATATGTTTCAAACGA-CTAA
1 ATATATGTCCTAAAGGACCACATATATGTTCCAAACGATC-AA
* * *
149455 ATATATGTCCTAAAGGACCTCATATATGTTCCAAAGGATCAC
1 ATATATGTCCTAAAGGACCACATATATGTTCCAAACGATCAA
* *
149497 ATATATGTCTTTAAGGACCACATA
1 ATATATGTCCTAAAGGACCACATA
149521 GAACCCTCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
39 4 0.05
40 4 0.05
41 6 0.07
42 66 0.77
43 1 0.01
44 3 0.03
45 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (42 bp):
ATATATGTCCTAAAGGACCACATATATGTTCCAAACGATCAA
Found at i:149474 original size:63 final size:63
Alignment explanation
Indices: 149359--149504 Score: 163
Period size: 63 Copynumber: 2.3 Consensus size: 63
149349 TAAAATTGTC
* * * *
149359 CCAAATGACCTCATATATGTTCCAAATGACCACATATATGTCCCGAAAGACCTCATA-AT-TAT
1 CCAAAGGACCACATATATGTTCCAAACGACCAAATATATGTCCCGAAAGACCTCATATATGT-T
* * * *
149421 CCCTAAGGACCACATATATGTTTCAAACGACTAAATATATGT-CCTAAAGGACCTCATATATGTT
1 -CCAAAGGACCACATATATGTTCCAAACGACCAAATATATGTCCCGAAA-GACCTCATATATGTT
*
149485 CCAAAGGATCACATATATGT
1 CCAAAGGACCACATATATGT
149505 CTTTAAGGAC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
62 5 0.07
63 61 0.87
64 3 0.04
65 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (63 bp):
CCAAAGGACCACATATATGTTCCAAACGACCAAATATATGTCCCGAAAGACCTCATATATGTT
Found at i:153984 original size:44 final size:44
Alignment explanation
Indices: 153935--154033 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
153925 ATGTGTACCG
* *
153935 TGTTGTTTGACGTGTACCATATTGTTTTGTTATAGATTCTAACA
1 TGTTGTTTGACGTGTACCATACTATTTTGTTATAGATTCTAACA
* *
153979 TGTTGTTTGACGTGTACCATGCTATTTTGTTCTAGATTCTAACA
1 TGTTGTTTGACGTGTACCATACTATTTTGTTATAGATTCTAACA
154023 TGTTGTTTGAC
1 TGTTGTTTGAC
154034 CATGCTGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.47
Consensus pattern (44 bp):
TGTTGTTTGACGTGTACCATACTATTTTGTTATAGATTCTAACA
Found at i:157674 original size:15 final size:15
Alignment explanation
Indices: 157654--157683 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
157644 CCTATGTTGA
157654 ATCCCTCCATGAATC
1 ATCCCTCCATGAATC
157669 ATCCCTCCATGAATC
1 ATCCCTCCATGAATC
157684 CACATTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.07, T:0.27
Consensus pattern (15 bp):
ATCCCTCCATGAATC
Found at i:164335 original size:15 final size:15
Alignment explanation
Indices: 164315--164358 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 15
164305 ACAATCCAAT
164315 AATATTCATTTTTAG
1 AATATTCATTTTTAG
*
164330 AATATTTAAATTTTTAG
1 AATA-TT-CATTTTTAG
164347 AATATTCATTTT
1 AATATTCATTTT
164359 GTTTCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 9 0.36
16 4 0.16
17 12 0.48
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (15 bp):
AATATTCATTTTTAG
Found at i:165327 original size:93 final size:95
Alignment explanation
Indices: 165165--165352 Score: 335
Period size: 93 Copynumber: 2.0 Consensus size: 95
165155 AACCAAAACT
* *
165165 TTTCTAAGCTTCACTCTTTTCTCTTGTATTTTATCTAGCTCACTCACACTTTTTATTAAATCACG
1 TTTCTAAGCTTCACTCTTTCCTCTTGTATTTTATCTAGCTCACTCACACTTTTCATTAAATCACG
165230 TAAAGCT-AA-ACACACATATATAGAAGTG
66 TAAAGCTAAACACACACATATATAGAAGTG
*
165258 TTTCTAAGCTTCACTCTTTCCTCTTGTATTTTATCTAGCTCACTCACACTTTTCATTAAATCACT
1 TTTCTAAGCTTCACTCTTTCCTCTTGTATTTTATCTAGCTCACTCACACTTTTCATTAAATCACG
165323 TAAAGCTAAACACACACATATATAGAAGTG
66 TAAAGCTAAACACACACATATATAGAAGTG
165353 ATTAATCGAC
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 69 0.77
94 2 0.02
95 19 0.21
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (95 bp):
TTTCTAAGCTTCACTCTTTCCTCTTGTATTTTATCTAGCTCACTCACACTTTTCATTAAATCACG
TAAAGCTAAACACACACATATATAGAAGTG
Found at i:169221 original size:58 final size:59
Alignment explanation
Indices: 169148--169259 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
169138 GTCAGGTGAC
* * * *
169148 CATTTTGTAACTTTTAATAGTCTG-TGACTCGACAAAATAGCATCTTATAATCGGAGAT
1 CATTTTATAACTTTTAATAGTCAGATGACTCAACAAAATAACATCTTATAATCGGAGAT
* * * *
169206 CATTTTATAATTTTTAATAGTCAGATGACTCAATAAAGTAACGTCTTATAATCG
1 CATTTTATAACTTTTAATAGTCAGATGACTCAACAAAATAACATCTTATAATCG
169260 AATGACTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
58 21 0.47
59 24 0.53
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (59 bp):
CATTTTATAACTTTTAATAGTCAGATGACTCAACAAAATAACATCTTATAATCGGAGAT
Found at i:170381 original size:123 final size:123
Alignment explanation
Indices: 170232--170457 Score: 344
Period size: 123 Copynumber: 1.8 Consensus size: 123
170222 ATACTATAAT
* * *
170232 TTAGTGGCGTTTTCATATAAATGCCGCTAATTACTATACTTTAGCGGCATTTTTGTACAAACGCC
1 TTAGTAGCGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCATTTTTGTACAAACGCC
*
170297 GCTAAAAACTCGTACTCTAGCAGCGTTTTAAGCACAAACGCCGCTAAAGGCCCCTACA
66 ACTAAAAACTCGTACTCTAGCAGCGTTTTAAGCACAAACGCCGCTAAAGGCCCCTACA
* *
170355 TTAGTAGCGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCGTTTTTGTGCAAACGCC
1 TTAGTAGCGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCATTTTTGTACAAACGCC
* * * * * *
170420 ACTAAAAGCTCTTATTTTAGCGGCGTTTTAAGTACAAA
66 ACTAAAAACTCGTACTCTAGCAGCGTTTTAAGCACAAA
170458 ACCTACCCAT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
123 91 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (123 bp):
TTAGTAGCGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCATTTTTGTACAAACGCC
ACTAAAAACTCGTACTCTAGCAGCGTTTTAAGCACAAACGCCGCTAAAGGCCCCTACA
Found at i:170417 original size:40 final size:40
Alignment explanation
Indices: 170167--170425 Score: 194
Period size: 40 Copynumber: 6.4 Consensus size: 40
170157 CGTTTTTTGA
* * **
170167 ACAAACGCCGGTAAATACTCATACATTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAATACT-ATACTTTAGCAGCGTTTTTAT
* * ** *
170208 ATAAACGCCGCTAAATACTATAATTTAGTGGCGTTTTCAT
1 ACAAACGCCGCTAAATACTATACTTTAGCAGCGTTTTTAT
* * * * * *
170248 ATAAATGCCGCTAATTACTATACTTTAGCGGCATTTTTGT
1 ACAAACGCCGCTAAATACTATACTTTAGCAGCGTTTTTAT
* * * * *
170288 ACAAACGCCGCTAAAAACTCGTACTCTAGCAGCGTTTTAAGC
1 ACAAACGCCGCTAAATACT-ATACTTTAGCAGCGTTTTTA-T
** ** * * *
170330 ACAAACGCCGCTAAAGGCCCCTACATTAGTAGCGTTTTCAT
1 ACAAACGCCGCTAAA-TACTATACTTTAGCAGCGTTTTTAT
* * *
170371 ATAAACGCCGCTAATTACTATACTTTAGCAGCGTTTTTGT
1 ACAAACGCCGCTAAATACTATACTTTAGCAGCGTTTTTAT
* *
170411 GCAAACGCCACTAAA
1 ACAAACGCCGCTAAA
170426 AGCTCTTATT
Statistics
Matches: 169, Mismatches: 46, Indels: 7
0.76 0.21 0.03
Matches are distributed among these distances:
40 94 0.56
41 44 0.26
42 30 0.18
43 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (40 bp):
ACAAACGCCGCTAAATACTATACTTTAGCAGCGTTTTTAT
Found at i:173512 original size:53 final size:54
Alignment explanation
Indices: 173412--173522 Score: 161
Period size: 53 Copynumber: 2.1 Consensus size: 54
173402 AATGACATTA
* * * *
173412 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAATATCATTCAATACACAA-C
1 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAATC
* *
173465 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATACACAATC
1 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAATC
173519 AATA
1 AATA
173523 GCGGCGTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 46 0.90
54 5 0.10
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (54 bp):
AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAATC
Found at i:173526 original size:43 final size:43
Alignment explanation
Indices: 173465--173726 Score: 382
Period size: 43 Copynumber: 6.1 Consensus size: 43
173455 AATACACAAC
* *
173465 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
* * * *
173508 AATACACAATCAATAGCGGCGTTTATAAATACAAATGCCACTA
1 AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
* * *
173551 AATACACAATCAATAGCGGCGTTTGTAAAGACAAATGCCGCT-
1 AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
* *
173593 AATACATAGTAAATAGCGGCGTTTATAAAGACAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
*
173636 AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCACTA
1 AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
* * *
173679 AATACACAGTCAATAGTGGCATTTGTAAAGACAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
173722 AATAC
1 AATAC
173727 CAATACCTAT
Statistics
Matches: 197, Mismatches: 21, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
42 37 0.19
43 160 0.81
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (43 bp):
AATACACAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
Found at i:173693 original size:128 final size:128
Alignment explanation
Indices: 173465--173722 Score: 417
Period size: 128 Copynumber: 2.0 Consensus size: 128
173455 AATACACAAC
* *
173465 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATACACAATCAATAGCGGCGT
1 AATACACAGTAAATAGCGGCGTTTATAAAGAAAAACGCCGCTAAATACACAATCAATAGCGGCGT
* * * *
173530 TTATAAATACAAATGCCACTAAATACACAATCAATAGCGGCGTTTGTAAAGACAAATGCCGCT
66 TTATAAAGACAAACGCCACTAAATACACAATCAATAGCGGCATTTGTAAAGACAAACGCCGCT
* * *
173593 AATACATAGTAAATAGCGGCGTTTATAAAGACAAACGCCGCTAAATACACAGTCAATAGCGGCGT
1 AATACACAGTAAATAGCGGCGTTTATAAAGAAAAACGCCGCTAAATACACAATCAATAGCGGCGT
* *
173658 TTATAAAGACAAACGCCACTAAATACACAGTCAATAGTGGCATTTGTAAAGACAAACGCCGCT
66 TTATAAAGACAAACGCCACTAAATACACAATCAATAGCGGCATTTGTAAAGACAAACGCCGCT
173721 AA
1 AA
173723 ATACCAATAC
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 119 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (128 bp):
AATACACAGTAAATAGCGGCGTTTATAAAGAAAAACGCCGCTAAATACACAATCAATAGCGGCGT
TTATAAAGACAAACGCCACTAAATACACAATCAATAGCGGCATTTGTAAAGACAAACGCCGCT
Found at i:177348 original size:96 final size:96
Alignment explanation
Indices: 177180--177370 Score: 265
Period size: 96 Copynumber: 2.0 Consensus size: 96
177170 TTCAATTAGT
*
177180 AACCAGCAGATTTCATGATCTATAAATCAGGAACAATTATACTTTCCAATGAAAACAAAAAACCA
1 AACCAGCAGATTCCATGATCTATAAATCAGGAACAATTATACTTTCCAATGAAAACAAAAAACCA
* * *
177245 TATAACACATTTCAGGCAACCATAGTTCATA
66 GAGAACACATATCAGGCAACCATAGTTCATA
* * * ** *
177276 AACCAGTAGATTCCATGATCTATAAATCAGGAACAATTATATTTTCCAATGAAAATAGGAAATCA
1 AACCAGCAGATTCCATGATCTATAAATCAGGAACAATTATACTTTCCAATGAAAACAAAAAACCA
* * *
177341 GAGAACACATATCATGTATCCATAGTTCAT
66 GAGAACACATATCAGGCAACCATAGTTCAT
177371 TAACAATCGA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (96 bp):
AACCAGCAGATTCCATGATCTATAAATCAGGAACAATTATACTTTCCAATGAAAACAAAAAACCA
GAGAACACATATCAGGCAACCATAGTTCATA
Found at i:178668 original size:23 final size:23
Alignment explanation
Indices: 178641--178699 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
178631 ACCTAGGCTT
*
178641 GGTATCGATACCACAGCTAGGGA
1 GGTATCGATACCACAACTAGGGA
178664 GGTATCGATACCACAACTAGGGA
1 GGTATCGATACCACAACTAGGGA
*
178687 AGTATCGATACCA
1 GGTATCGATACCA
178700 TATATGGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (23 bp):
GGTATCGATACCACAACTAGGGA
Found at i:178773 original size:20 final size:20
Alignment explanation
Indices: 178748--178785 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
178738 TTACGTATTA
178748 AATGTATCATTGTGTTTAAG
1 AATGTATCATTGTGTTTAAG
178768 AATGTATCATTGTGTTTA
1 AATGTATCATTGTGTTTA
178786 TAATCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (20 bp):
AATGTATCATTGTGTTTAAG
Found at i:181113 original size:32 final size:34
Alignment explanation
Indices: 181077--181146 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
181067 CCTTACAAAC
*
181077 TCCCTAG-TTTTTC-CGGGCTAAACTAAAACCTT
1 TCCCTAGCTTTTACACGGGCTAAACTAAAACCTT
* *
181109 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGCTAAACTAAAACCTT
181143 TCCC
1 TCCC
181147 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGCTAAACTAAAACCTT
Found at i:181457 original size:21 final size:21
Alignment explanation
Indices: 181431--181470 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
181421 AGAATGGAGA
*
181431 GAATCGGTACCCCTTCATAGG
1 GAATCGATACCCCTTCATAGG
181452 GAATCGATACCCCTTCATA
1 GAATCGATACCCCTTCATA
181471 ATATTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (21 bp):
GAATCGATACCCCTTCATAGG
Found at i:181642 original size:19 final size:19
Alignment explanation
Indices: 181582--181655 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
181572 AAACCATGCA
181582 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
*
181601 GGGGGGAATCTGT--TCCC-
1 -GGGGGAATCTGTACCCCCT
181618 -GGGGAATC-GATACCCCCT
1 GGGGGAATCTG-TACCCCCT
181636 GGGGGAATCTGTACCCCCT
1 GGGGGAATCTGTACCCCCT
181655 G
1 G
181656 ACAATCTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
14 1 0.02
15 9 0.20
17 3 0.07
18 3 0.07
19 17 0.37
20 13 0.28
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (19 bp):
GGGGGAATCTGTACCCCCT
Found at i:183119 original size:19 final size:20
Alignment explanation
Indices: 183076--183123 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
183066 TCTAAATATT
*
183076 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
183096 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
183115 TTTTCAAAA
1 TTTTCAAAA
183124 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:184036 original size:34 final size:32
Alignment explanation
Indices: 183983--184052 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
183973 CCTTACAAAC
*
183983 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
184015 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
184049 TCCC
1 TCCC
184053 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:184361 original size:21 final size:21
Alignment explanation
Indices: 184335--184376 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
184325 CCAGAATAGG
*
184335 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
184356 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
184377 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:184517 original size:21 final size:21
Alignment explanation
Indices: 184488--184564 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 21
184478 AAACCATGCA
184488 GGGGG-ATCTATACCCCCTGG
1 GGGGGAATCTATACCCCCTGG
* *
184508 GGGGGAATCTGT--TCCC---
1 GGGGGAATCTATACCCCCTGG
*
184524 -GGGGAATCGATACCCCCTGG
1 GGGGGAATCTATACCCCCTGG
* *
184544 GGAGGAATCTGTACCCCCTGG
1 GGGGGAATCTATACCCCCTGG
184565 ACAATCTGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 13
0.67 0.13 0.21
Matches are distributed among these distances:
15 9 0.21
17 3 0.07
19 3 0.07
20 5 0.12
21 22 0.52
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (21 bp):
GGGGGAATCTATACCCCCTGG
Found at i:189165 original size:24 final size:24
Alignment explanation
Indices: 189133--189189 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
189123 GACTAAAGGT
189133 AAGTTGGTTAATTCTTTCATTTTA
1 AAGTTGGTTAATTCTTTCATTTTA
*
189157 AAGTTGGTTAATTCTTTCGTTTTA
1 AAGTTGGTTAATTCTTTCATTTTA
189181 AAGTTGGTT
1 AAGTTGGTT
189190 TTGATTCTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.53
Consensus pattern (24 bp):
AAGTTGGTTAATTCTTTCATTTTA
Found at i:190723 original size:22 final size:22
Alignment explanation
Indices: 190674--190731 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
190664 AGGAGTGGTC
190674 CTTCGGGACATAGTACACAGGT
1 CTTCGGGACATAGTACACAGGT
* *
190696 CATTCGGGACATA-TGCATAGGTT
1 C-TTCGGGACATAGTACACAGG-T
190719 CTTCGGGACATAG
1 CTTCGGGACATAG
190732 ATTTCACATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (22 bp):
CTTCGGGACATAGTACACAGGT
Found at i:192246 original size:26 final size:27
Alignment explanation
Indices: 192194--192249 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
192184 ATATAATGTA
* *
192194 GTCATTTTATACTTCAAGGGTATTTTG
1 GTCATTTTACACTTCAAGGGCATTTTG
192221 GTCATTTTACACTTC-AGGGCATTTTG
1 GTCATTTTACACTTCAAGGGCATTTTG
192247 GTC
1 GTC
192250 GTTGAGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACACTTCAAGGGCATTTTG
Found at i:193319 original size:436 final size:436
Alignment explanation
Indices: 192507--193811 Score: 2553
Period size: 436 Copynumber: 3.0 Consensus size: 436
192497 AACCATGCAT
192507 TTAATAATAACAACATGTTCCATACAACATGCATAAGGTAGTAATGTAATACCTCGATTTATGAG
1 TTAATAATAACAACATGTTCCATACAACATGCATAAGGTAGTAATGTAATACCTCGATTTATGAG
192572 CCATATCGATCGACCATTTAAACTCTATTTGATCACTCTCGAACTTTAATTCCATGTCCCATAAT
66 CCATATCGATCGACCATTTAAACTCTATTTGATCACTCTCGAACTTTAATTCCATGTCCCATAAT
192637 ATCTCGGATACATTTTAAAATCAATTACATTAGAAACAGAACATAAACGTAAATATTCGTATTGA
131 ATCTCGGATACATTTTAAAATCAATTACATTAGAAACAGAACATAAACGTAAATATTCGTATTGA
192702 ATAGGGAGATAGAATGCCGAAAAATAGCTTACCCGGATTGAATTTAGAAAAATGGACTTTGAATT
196 ATAGGGAGATAGAATGCCGAAAAATAGCTTACCCGGATTGAATTTAGAAAAATGGACTTTGAATT
192767 CGGACTAAGGACTTAAAAAAACATGGATGAGGACAAGACCCACGTGCAACGGTGGCATATTTTGT
261 CGGACTAAGGACTTAAAAAAACATGGATGAGGACAAGACCCACGTGCAACGGTGGCATATTTTGT
192832 CAAGTACAATGGGAAAAGGGGACATGAATGATGGTAGATCACTAATTTATCCTTCAATCACTAAA
326 CAAGTACAATGGGAAAAGGGGACATGAATGATGGTAGATCACTAATTTATCCTTCAATCACTAAA
192897 ACAAACTAATTCCAAGCCAGTCATCCAACTACAATAACATGAATCA
391 ACAAACTAATTCCAAGCCAGTCATCCAACTACAATAACATGAATCA
192943 TTAATAATAACAACATGTTCCATACAACATGCATAAGGTAGTAATGTAATACCTCGATTTATGAG
1 TTAATAATAACAACATGTTCCATACAACATGCATAAGGTAGTAATGTAATACCTCGATTTATGAG
* *
193008 CCATATCGATCGACCATTTAAACCCTATTTGATCACTCTCAAACTTTAATTCCATGTCCCATAAT
66 CCATATCGATCGACCATTTAAACTCTATTTGATCACTCTCGAACTTTAATTCCATGTCCCATAAT
193073 ATCTCGGATACATTTTAAAATCAATTACATTAGAAACAGAACATAAACGTAAATATTCGTATTGA
131 ATCTCGGATACATTTTAAAATCAATTACATTAGAAACAGAACATAAACGTAAATATTCGTATTGA
193138 ATAGGGAGATAGAATGCCGAAAAATAGCTTACCCGGATTGAATTTAGAAAAATGGACTTTGAATT
196 ATAGGGAGATAGAATGCCGAAAAATAGCTTACCCGGATTGAATTTAGAAAAATGGACTTTGAATT
193203 CGGACTAAGGACTTAAAAAAACATGGATGAGGACAAGACCCACGTGCAACGGTGGCATATTTTGT
261 CGGACTAAGGACTTAAAAAAACATGGATGAGGACAAGACCCACGTGCAACGGTGGCATATTTTGT
193268 CAAGTACAATGGGAAAAGGGGACATGAATGATGGTAGATCACTAATTTATCCTTCAATCACTAAA
326 CAAGTACAATGGGAAAAGGGGACATGAATGATGGTAGATCACTAATTTATCCTTCAATCACTAAA
*
193333 ACAAACTAATTCCAAGCCAATCATCCAACTACAATAACATGAATCA
391 ACAAACTAATTCCAAGCCAGTCATCCAACTACAATAACATGAATCA
193379 TTAATAAT---AACATGTTCCATACAACATGCATAAGGTAGTAATGTAATACCTCGATTTATGAG
1 TTAATAATAACAACATGTTCCATACAACATGCATAAGGTAGTAATGTAATACCTCGATTTATGAG
193441 CCATATCGATCGACCATTTAAACTCTATTTGATCACTCTCGAACTTTAATTCCATGTCCCATAAT
66 CCATATCGATCGACCATTTAAACTCTATTTGATCACTCTCGAACTTTAATTCCATGTCCCATAAT
*
193506 ATCTCGGATACATTTTAAAATCAATTACATTAGAAACAGAACATAAACGTAAATATTCATATTGA
131 ATCTCGGATACATTTTAAAATCAATTACATTAGAAACAGAACATAAACGTAAATATTCGTATTGA
193571 ATAGGGAGATAGAATGCCGAAAAATAGCTTACCCGGATTGAATTTAGAAAAATGGACTTTGAATT
196 ATAGGGAGATAGAATGCCGAAAAATAGCTTACCCGGATTGAATTTAGAAAAATGGACTTTGAATT
193636 CGGACTAAGGACTTAAAAAAACATGGATGAGGACAAGACCCACGTGCAACGGTGGCATATTTTGT
261 CGGACTAAGGACTTAAAAAAACATGGATGAGGACAAGACCCACGTGCAACGGTGGCATATTTTGT
193701 CAAGTACAATGGGAAAAGGGGACATGAATGATGGTAGATCACTAATTTATCCTTCAATCACTAAA
326 CAAGTACAATGGGAAAAGGGGACATGAATGATGGTAGATCACTAATTTATCCTTCAATCACTAAA
193766 ACAAACTAATTCCAAGCCAGTCATCCAACTACAATAACATGAATCA
391 ACAAACTAATTCCAAGCCAGTCATCCAACTACAATAACATGAATCA
193812 AACTGAGAAG
Statistics
Matches: 862, Mismatches: 7, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
433 421 0.49
436 441 0.51
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (436 bp):
TTAATAATAACAACATGTTCCATACAACATGCATAAGGTAGTAATGTAATACCTCGATTTATGAG
CCATATCGATCGACCATTTAAACTCTATTTGATCACTCTCGAACTTTAATTCCATGTCCCATAAT
ATCTCGGATACATTTTAAAATCAATTACATTAGAAACAGAACATAAACGTAAATATTCGTATTGA
ATAGGGAGATAGAATGCCGAAAAATAGCTTACCCGGATTGAATTTAGAAAAATGGACTTTGAATT
CGGACTAAGGACTTAAAAAAACATGGATGAGGACAAGACCCACGTGCAACGGTGGCATATTTTGT
CAAGTACAATGGGAAAAGGGGACATGAATGATGGTAGATCACTAATTTATCCTTCAATCACTAAA
ACAAACTAATTCCAAGCCAGTCATCCAACTACAATAACATGAATCA
Done.