Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 9 of 320
Found at i:2415626 original size:23 final size:21
Alignment explanation
Indices: 2415600--2415653 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
2415590 GATAAATCTT
2415600 TATTTTAATTGTAATGCATTTAA
1 TATTTTAATT-TAATGCATTT-A
* *
2415623 TATTATTTATTTAATGTATTTA
1 TATT-TTAATTTAATGCATTTA
2415645 TATGTTTAA
1 TAT-TTTAA
2415654 ATATCGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 7 0.27
23 14 0.54
24 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TATTTTAATTTAATGCATTTA
Found at i:2415982 original size:7 final size:7
Alignment explanation
Indices: 2415970--2416007 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
2415960 TTTTATTATG
2415970 TTTAAAT
1 TTTAAAT
2415977 TTTAAAT
1 TTTAAAT
2415984 TTTAAAT
1 TTTAAAT
2415991 TTTAAAT
1 TTTAAAT
2415998 TTTAAAT
1 TTTAAAT
2416005 TTT
1 TTT
2416008 TATTTTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAAAT
Found at i:2415996 original size:21 final size:21
Alignment explanation
Indices: 2415970--2416016 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
2415960 TTTTATTATG
2415970 TTTAAATTTTAAATTTTAAAT
1 TTTAAATTTTAAATTTTAAAT
* *
2415991 TTTAAATTTTAAATTTTTATT
1 TTTAAATTTTAAATTTTAAAT
2416012 TTTAA
1 TTTAA
2416017 CATAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAAATTTTAAATTTTAAAT
Found at i:2416298 original size:18 final size:17
Alignment explanation
Indices: 2416272--2416308 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2416262 AATTTTAATA
*
2416272 AATATTTTTATAATTTTT
1 AATAATTTTAT-ATTTTT
2416290 AATAATTTTATATTTTT
1 AATAATTTTATATTTTT
2416307 AA
1 AA
2416309 AGATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATAATTTTATATTTTT
Found at i:2418529 original size:14 final size:15
Alignment explanation
Indices: 2418510--2418540 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
2418500 AATATGATAG
2418510 AAATCTTTGTA-TAA
1 AAATCTTTGTATTAA
2418524 AAATCTTTGTATTAA
1 AAATCTTTGTATTAA
2418539 AA
1 AA
2418541 GTTGAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
AAATCTTTGTATTAA
Found at i:2421637 original size:7 final size:7
Alignment explanation
Indices: 2421627--2421684 Score: 116
Period size: 7 Copynumber: 8.3 Consensus size: 7
2421617 TTAATAAATA
2421627 ATATTAT
1 ATATTAT
2421634 ATATTAT
1 ATATTAT
2421641 ATATTAT
1 ATATTAT
2421648 ATATTAT
1 ATATTAT
2421655 ATATTAT
1 ATATTAT
2421662 ATATTAT
1 ATATTAT
2421669 ATATTAT
1 ATATTAT
2421676 ATATTAT
1 ATATTAT
2421683 AT
1 AT
2421685 GTATTAGACT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:2425501 original size:46 final size:45
Alignment explanation
Indices: 2425449--2425771 Score: 459
Period size: 46 Copynumber: 7.0 Consensus size: 45
2425439 GAGTGTGCTC
2425449 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
*
2425494 GTCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGGCA
1 -TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
2425540 GTCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 -TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-A
*
2425587 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-A
*
2425633 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
1 TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
* ***
2425678 ACGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCA
1 TC-TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
* * * * * *
2425724 ACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TC-TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
2425770 TC
1 TC
2425772 ATGTCAAAGA
Statistics
Matches: 259, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 3 0.01
46 255 0.98
47 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (45 bp):
TCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
Found at i:2429178 original size:20 final size:19
Alignment explanation
Indices: 2429131--2429234 Score: 62
Period size: 18 Copynumber: 5.6 Consensus size: 19
2429121 CAAGATAAAC
2429131 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
2429148 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
* *
2429168 ATTAAATTAATAA-ATACT
1 ATTAAATTAATAATTTAAT
*
2429186 ATTAAAATAAGT-A-TTAA-
1 ATTAAATTAA-TAATTTAAT
*
2429203 ATTAAATTTAAT-ATTAAACT
1 ATTAAA-TTAATAATTTAA-T
*
2429223 ATTAAAATAATA
1 ATTAAATTAATA
2429235 TTAATTTTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
17 14 0.21
18 23 0.34
19 8 0.12
20 23 0.34
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:2429208 original size:17 final size:17
Alignment explanation
Indices: 2429143--2429250 Score: 83
Period size: 18 Copynumber: 5.9 Consensus size: 17
2429133 TAAATTAAAT
*
2429143 TTAATATTAAGATAATAA
1 TTAATATTAAAATAAT-A
*
2429161 CTTTAATATTAAATTAATAA
1 --TTAATATTAAAATAAT-A
* *
2429181 ATACTATTAAAATAAGTA
1 TTAATATTAAAATAA-TA
*
2429199 TTAA-ATTAAATTTAATA
1 TTAATATTAAA-ATAATA
2429216 TTAAACTATTAAAATAATA
1 TT-AA-TATTAAAATAATA
*
2429235 TTAATTTTAAAATAAT
1 TTAATATTAAAATAAT
2429251 TAATCTGAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
17 21 0.29
18 22 0.30
19 8 0.11
20 22 0.30
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAATATTAAAATAATA
Found at i:2429225 original size:25 final size:25
Alignment explanation
Indices: 2429163--2429245 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
2429153 GATAATAACT
* * *
2429163 TTAATATTAAATTAAT-AAATACTA
1 TTAATATTAAACTATTAAAATAATA
* * *
2429187 TTAA-AAT-AAGTATTAAATTAA-A
1 TTAATATTAAACTATTAAAATAATA
2429209 TTTAATATTAAACTATTAAAATAATA
1 -TTAATATTAAACTATTAAAATAATA
*
2429235 TTAATTTTAAA
1 TTAATATTAAA
2429246 ATAATTAATC
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
22 6 0.13
23 10 0.22
24 6 0.13
25 22 0.49
26 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (25 bp):
TTAATATTAAACTATTAAAATAATA
Found at i:2429245 original size:37 final size:36
Alignment explanation
Indices: 2429163--2429250 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 36
2429153 GATAATAACT
2429163 TTAATATTAAATTAATAAATACTATTAAAATAAGTA
1 TTAATATTAAATTAATAAATACTATTAAAATAAGTA
2429199 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAA-TA
1 TTAATATTAAA-TTAATA--AATACTATTAAAATAAGTA
* *
2429235 TTAATTTTAAAATAAT
1 TTAATATTAAATTAAT
2429251 TAATCTGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
35 6 0.13
36 20 0.43
37 18 0.39
38 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (36 bp):
TTAATATTAAATTAATAAATACTATTAAAATAAGTA
Found at i:2429254 original size:15 final size:17
Alignment explanation
Indices: 2429187--2429250 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
2429177 ATAAATACTA
*
2429187 TTAAAATAAGTATTAA-A
1 TTAAAATAA-TATTAATT
* *
2429204 TTAAATTTAATATTAAACTA
1 TTAAA-ATAATATT-AA-TT
2429224 TTAAAATAATATTAATT
1 TTAAAATAATATTAATT
2429241 TTAAAATAAT
1 TTAAAATAAT
2429251 TAATCTGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 20 0.50
18 7 0.17
19 7 0.17
20 6 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
TTAAAATAATATTAATT
Found at i:2430851 original size:15 final size:15
Alignment explanation
Indices: 2430827--2430858 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2430817 TATGCATGAA
*
2430827 AAATATAAAAGACAT
1 AAATACAAAAGACAT
2430842 AAATACAAAAGACAT
1 AAATACAAAAGACAT
2430857 AA
1 AA
2430859 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:2471167 original size:2 final size:2
Alignment explanation
Indices: 2471160--2471198 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2471150 AGGTGGGTGG
*
2471160 GT GT GT GT GT GT GT GT GT GT GT GT GT GG GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
2471199 GGTCATAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.54, T:0.46
Consensus pattern (2 bp):
GT
Found at i:2475964 original size:21 final size:20
Alignment explanation
Indices: 2475931--2475975 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
2475921 GCTTTAACAG
2475931 AACTACTAATGTGGCAAGTT
1 AACTACTAATGTGGCAAGTT
* *
2475951 AACTAGCTGATGTGGCCAGTT
1 AACTA-CTAATGTGGCAAGTT
2475972 AACT
1 AACT
2475976 TGCCACGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (20 bp):
AACTACTAATGTGGCAAGTT
Found at i:2478052 original size:30 final size:31
Alignment explanation
Indices: 2477985--2478053 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
2477975 AAACTGTTAA
* * *
2477985 TTAGTGACTGTTTTGTCACTTTTTTATAACG
1 TTAGTGACAGTTTTGTCACTTTTTCATAAAG
*
2478016 TTAGTGACAGTTTTGTTA-TTTTTCA-AAAG
1 TTAGTGACAGTTTTGTCACTTTTTCATAAAG
2478045 TTGAGTGAC
1 TT-AGTGAC
2478054 TGAAATGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 12 0.36
31 16 0.48
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (31 bp):
TTAGTGACAGTTTTGTCACTTTTTCATAAAG
Found at i:2485815 original size:19 final size:17
Alignment explanation
Indices: 2485783--2485825 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2485773 TTACTTGTGC
*
2485783 ATTTATGTTTTGAACTTG
1 ATTTATGTTATGAA-TTG
2485801 ATTTGATGTTATGAATTG
1 ATTT-ATGTTATGAATTG
*
2485819 AATTATG
1 ATTTATG
2485826 ATAATACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (17 bp):
ATTTATGTTATGAATTG
Found at i:2489444 original size:77 final size:77
Alignment explanation
Indices: 2489362--2489640 Score: 393
Period size: 77 Copynumber: 3.6 Consensus size: 77
2489352 ATTAAAACCC
* *
2489362 GAAACAAATTTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATAAAATCTGTTAAACGAAG
1 GAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGTTAAACGAAG
2489427 GGAATAAATCCT
66 GGAATAAATCCT
* * * **
2489439 GAAACAGAATTATTTAACTAAATCTTGTTTGGAAACAAAATCAAAATAAAATATGTTAAACGGTG
1 GAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGTTAAACGAAG
2489504 GGAATAAATCAC-
66 GGAATAAATC-CT
* * * *
2489516 AAAACAAAATTATTTGATTAAATATTGTTTGGAAACAAAATCAAAATAAAATCTGTTAAAC-AGC
1 GAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGTTAAACGA-A
2489580 GGGAATAAATCCCT
65 GGGAATAAAT-CCT
*
2489594 -AAACAAAATTATTTAATTAAATCTTCGTTTGGAAATAAAATCAAAAT
1 GAAACAAAATTATTTAATTAAATCTT-GTTTGGAAACAAAATCAAAAT
2489641 CTATTAAATG
Statistics
Matches: 179, Mismatches: 18, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
77 157 0.88
78 22 0.12
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.29
Consensus pattern (77 bp):
GAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGTTAAACGAAG
GGAATAAATCCT
Found at i:2490548 original size:18 final size:19
Alignment explanation
Indices: 2490493--2490542 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
2490483 AAATATACCT
2490493 CAATGTTTTCAAAAAATTA
1 CAATGTTTTCAAAAAATTA
2490512 CAATGTTTTCAAAAAATTA
1 CAATGTTTTCAAAAAATTA
*
2490531 CAATTTTTTCAA
1 CAATGTTTTCAA
2490543 CAATTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (19 bp):
CAATGTTTTCAAAAAATTA
Found at i:2502416 original size:50 final size:51
Alignment explanation
Indices: 2502289--2502416 Score: 188
Period size: 50 Copynumber: 2.5 Consensus size: 51
2502279 GACCATGGCA
* *
2502289 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
2502340 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
2502390 ACAAGTGA-AAGTGGTAGTTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
2502417 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 62 0.90
51 7 0.10
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:2502434 original size:31 final size:31
Alignment explanation
Indices: 2502393--2502540 Score: 174
Period size: 31 Copynumber: 4.8 Consensus size: 31
2502383 ACAAATGACA
*
2502393 AGTG-AAAGTGGTAGTTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
2502423 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
2502454 AGTGAAAAATGGTAGC-TCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAG-CTACCTGATC
* * * *
2502485 AGTGAAAAATGGTAGCTCCAACTACATGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* * *
2502516 AATGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
2502541 AAGTGACAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
30 7 0.07
31 93 0.92
32 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:2502644 original size:47 final size:46
Alignment explanation
Indices: 2502558--2502680 Score: 138
Period size: 47 Copynumber: 2.7 Consensus size: 46
2502548 AAGTGATTTC
* * * *
2502558 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATGTCTGGGATATGGCATCAGTGAGATATATGATA
* * *
2502604 CTGTATAAGACCATGTCTGGGATATGGCATCATTGAGATATGTGATT
1 C-GTATAAGACCATGTCTGGGATATGGCATCAGTGAGATATATGATA
* * * *
2502651 CGTGTAAGACCATGACTGGGCTATGACATC
1 CGTATAAGACCATGTCTGGGATATGGCATC
2502681 GATAAATGAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 26 0.40
47 39 0.60
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATGTCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:2504236 original size:18 final size:18
Alignment explanation
Indices: 2504213--2504248 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2504203 AGTTAAAAAA
*
2504213 TATTTTATTAATTATTTT
1 TATTTTATTAATGATTTT
2504231 TATTTTATTAATGATTTT
1 TATTTTATTAATGATTTT
2504249 ATTAATGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTATTAATGATTTT
Found at i:2507298 original size:16 final size:15
Alignment explanation
Indices: 2507272--2507306 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2507262 TGATGTGAAT
2507272 AATATAAAATATTAA
1 AATATAAAATATTAA
*
2507287 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
2507303 AATA
1 AATA
2507307 ATAATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:2507491 original size:20 final size:21
Alignment explanation
Indices: 2507449--2507491 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
2507439 CCTTTTTTAG
* *
2507449 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
2507470 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
2507490 AA
1 AA
2507492 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:2507708 original size:11 final size:11
Alignment explanation
Indices: 2507692--2507721 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2507682 TAACATTAAG
2507692 AATATATATAT
1 AATATATATAT
*
2507703 AATATAAATAT
1 AATATATATAT
2507714 AATATATA
1 AATATATA
2507722 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:2508185 original size:11 final size:12
Alignment explanation
Indices: 2508144--2508194 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
2508134 GAAAAATGTA
2508144 ATTTTTT-TTAT
1 ATTTTTTATTAT
*
2508155 ATTTGTTTTGTATAT
1 A-TT-TTTTAT-TAT
2508170 ATATTTTTATTAT
1 AT-TTTTTATTAT
2508183 ATTTTTTATTAT
1 ATTTTTTATTAT
2508195 GATGTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 1 0.03
12 12 0.35
13 9 0.26
14 7 0.21
15 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:2508266 original size:18 final size:18
Alignment explanation
Indices: 2508231--2508284 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
2508221 CGAAAAAACG
2508231 AAAAA-AATAAA-AA-AT
1 AAAAATAATAAAGAAGAT
*
2508246 AAAAATAA-AAATAAGAGT
1 AAAAATAATAAAGAAGA-T
2508264 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAGAAGAT
2508281 AAAA
1 AAAA
2508285 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 8 0.25
16 4 0.12
17 9 0.28
18 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATAATAAAGAAGAT
Found at i:2508269 original size:17 final size:17
Alignment explanation
Indices: 2508247--2508285 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2508237 ATAAAAAATA
*
2508247 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
2508264 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
2508281 AAAAT
1 AAAAT
2508286 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:2508529 original size:28 final size:27
Alignment explanation
Indices: 2508497--2508553 Score: 105
Period size: 28 Copynumber: 2.1 Consensus size: 27
2508487 GGTTTCTTGG
2508497 TTTTTTGGGGGGGGTTAGGTTTTTCCTT
1 TTTTTTGGGGGGGGTTAGGTTTTT-CTT
2508525 TTTTTTGGGGGGGGTTAGGTTTTTCTT
1 TTTTTTGGGGGGGGTTAGGTTTTTCTT
2508552 TT
1 TT
2508554 GGGGGACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.04, C:0.05, G:0.35, T:0.56
Consensus pattern (27 bp):
TTTTTTGGGGGGGGTTAGGTTTTTCTT
Found at i:2509454 original size:93 final size:87
Alignment explanation
Indices: 2509228--2509481 Score: 240
Period size: 87 Copynumber: 2.8 Consensus size: 87
2509218 ACTAGACATT
* * * * *
2509228 AAAAACATAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAT-AATTGAAAATACCTCGGCATGTG-GCCGAGGCTCAACTCACCTCTCGCAATATGAG
***
2509293 TTGATTTTTAAAACAAAATTTGTA
64 TTGATTTTTAAAACAAAATTAAAA
* * * ** * * *
2509317 AAACAGATTA-TGAAAATACCTCGATATGTGACCCGAAGCTCAACTCACCTCTCGTAATATGAGT
1 AAAAACATAATTGAAAATACCTCGGCATGTG-GCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
2509381 TGATTTTTGCAAAGCATAAATTAAAAA
65 TGATTTTT--AAAACA-AAATT-AAAA
* *
2509408 AAAAACATCAATTGAAAATACCTCGGCGTGTGGCCTGAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAACAT-AATTGAAAATACCTCGGCATGTGGCC-GAGGCTCAACTCACCTCTCGCAATATGAG
*
2509473 CTGATTTTT
64 TTGATTTTT
2509482 TTGAAACACA
Statistics
Matches: 130, Mismatches: 28, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
87 52 0.40
88 1 0.01
89 11 0.08
90 5 0.04
91 7 0.05
92 3 0.02
93 51 0.39
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (87 bp):
AAAAACATAATTGAAAATACCTCGGCATGTGGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTAAAACAAAATTAAAA
Found at i:2509629 original size:75 final size:73
Alignment explanation
Indices: 2509503--2509643 Score: 228
Period size: 75 Copynumber: 1.9 Consensus size: 73
2509493 AAATTGAAGA
*
2509503 ACAGAAATGGAAAACACCTCAACGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 ACAGAAATGGAAAACACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
2509568 TTTGAAAG
66 TTTGAAAG
* * *
2509576 ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ACAGAAATGGAAAACACCTCAAC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
2509641 TTT
64 TTT
2509644 GAAACTTAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 21 0.34
75 41 0.66
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (73 bp):
ACAGAAATGGAAAACACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
TTTGAAAG
Found at i:2509713 original size:87 final size:81
Alignment explanation
Indices: 2509671--2509979 Score: 235
Period size: 81 Copynumber: 3.8 Consensus size: 81
2509661 GCAGATTTTG
2509671 AAAATACCTC-GATATGTGA-CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
1 AAAATACCTCAG-TATGTGATCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-A
2509734 AAATATAAATTGAAAAAA
64 AAATATAAATTGAAAAAA
* *
2509752 AAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 AAAATACCTCAGTATGTGATCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
* *
2509816 AGACAGAAATTG------
65 A-ATATAAATTGAAAAAA
* *** * * * *
2509828 AAAATAGCTCAGCGCGTGAGC-CAAAGCTCAACTCACCTCTCGTAATATGAGTCGATTTTTTTTG
1 AAAATACCTCAGTATGTGATCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTG
* *
2509892 AAAGGTAGAAATTGAAAAACGGAAA
63 AAA-ATATAAATTG--AAA---AAA
* ** *
2509917 TTGAAAATACCTCGGCGTGTGATCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 ---AAAATACCTCAGTATGTGATCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
2509980 TTGAAAGACA
Statistics
Matches: 185, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
75 2 0.01
76 45 0.24
78 19 0.10
81 49 0.26
82 19 0.10
89 5 0.03
92 46 0.25
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (81 bp):
AAAATACCTCAGTATGTGATCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
ATATAAATTGAAAAAA
Found at i:2509715 original size:249 final size:250
Alignment explanation
Indices: 2509327--2509998 Score: 647
Period size: 249 Copynumber: 2.7 Consensus size: 250
2509317 AAACAGATTA
* * * * * *
2509327 TGAAAATACCTCGATATGTGACCCGAAGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGC
1 TGAAAATACCTC-ACACGTGAGCCAAAGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTG-
* * ** * * ** *
2509391 AAAGC-ATAAATTAAAAAAAAAACATCAATTGAAAATACCTCGGCGTGTGGCCTGAGGCTCAACT
64 AAAGCTAGAAATT----GAAAAACAGAAATTGAAAATACCTCGACATGTGATCTAAGGCTCAACT
* * *
2509455 CACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACAC
125 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAGAA-A-AAA---AAAACAC
* * *
2509520 CTCA-ACGT-CT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAA
185 CTCAGACGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTGAAAGACAGAA
2509582 AT
249 AT
* ** * *
2509584 TGAAAATACCTCA-ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA
1 TGAAAATACCTCACACGTGAGC-CAAAGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGA
* * * ** *
2509646 AA-CT-TAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTCAAGGCTCAACTCACC
65 AAGCTAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGATCT-AAGGCTCAACTCACC
* * * **
2509708 TCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATT---GAAAAAAAAAATACCTCAGTGTG
129 TCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAGAAAAAAAAAACACCTCAG-ACG
*
2509768 TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAT
193 TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAGACAGAAAT
* * *
2509826 TGAAAATAGCTCAGCGCGTGAGCCAAAGCTCAACTCACCTCTCGTAATATGAGTCGATTTTTTTT
1 TGAAAATACCTCA-CACGTGAGCCAAAGCTCAACTCACCTCTCGCAATATGAGTCGA--TTTTTT
* * * * *
2509891 GAAAGGTAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCAC
63 GAAAGCTAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGATCTAAGGCTCAACTCAC
*
2509956 CTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
128 CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAA
2509999 AATAGCTCAG
Statistics
Matches: 343, Mismatches: 51, Indels: 45
0.78 0.12 0.10
Matches are distributed among these distances:
239 10 0.03
241 2 0.01
242 35 0.10
243 32 0.09
244 36 0.10
245 1 0.00
247 25 0.07
248 3 0.01
249 117 0.34
250 2 0.01
251 16 0.05
253 6 0.02
254 4 0.01
255 41 0.12
256 1 0.00
257 12 0.03
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (250 bp):
TGAAAATACCTCACACGTGAGCCAAAGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAA
AGCTAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGATCTAAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAGAAAAAAAAAACACCTCAGACGTGA
TCTGAAGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAGACAGAAAT
Found at i:2509802 original size:81 final size:82
Alignment explanation
Indices: 2509536--2510226 Score: 365
Period size: 76 Copynumber: 8.4 Consensus size: 82
2509526 GTCTTGAGGT
* *
2509536 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTG------AAAATACCT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGATAGAAATTGAAAAAAAAAATACCT
* * *
2509595 CAACGTGT-CT-TGAGGC
65 CAGCGTGTGATCTGAAGC
* * *
2509611 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-CT-TAACTTGAAAAGCAGATTTTGAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGATAGAAATTGAAAA--A-A-----AA
** *
2509673 AATACCTC-GATATGTGA-CTCAAGGC
58 AATACCTCAG-CGTGTGATCTGAA-GC
* *
2509698 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAAAAAAATACCTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGATAGAAATTGAAAAAAAAAATACCTC
*
2509762 AGTGTGTGATCTGAAGC
66 AGCGTGTGATCTGAAGC
* *
2509779 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATTG------AAAATAGCTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGATAGAAATTGAAAAAAAAAATACCTC
* * **
2509838 AGCGCGTGAGCCAAAGC
66 AGCGTGTGATCTGAAGC
* * *
2509855 TCAACTCACCTCTCGTAATATGAGTCGATTTTTTTTGAAAGGTAGAAATTGAAAAACGGAAATTG
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAGATAGAAATTG--AAA---AAA---
* *
2509920 AAAATACCTCGGCGTGTGATCTGAGGC
56 AAAATACCTCAGCGTGTGATCTGAAGC
* *
2509947 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG------AAAATAGCT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGATAGAAATTGAAAAAAAAAATACCT
* * * *
2510006 CAGTGCGTGAGC-CAAGGC
65 CAGCGTGTGATCTGAA-GC
* * * **
2510024 TTAACTCACCCCTCGCAATATGAGTCGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAGATAGAAATTG--AAA---AAA--
* * *
2510089 GAAAATACCTCGGCGTGTGACCTGATGC
56 -AAAATACCTCAGCGTGTGATCTGAAGC
* * * * * * *
2510117 TCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTTTTACA-ACAGAAATTG------AAATTAC
1 TCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAAGATAGAAATTGAAAAAAAAAATAC
* *
2510175 CTCAGCGTGT--CCTGAGGC
63 CTCAGCGTGTGATCTGAAGC
2510193 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
2510227 AAAATACCTC
Statistics
Matches: 488, Mismatches: 71, Indels: 116
0.72 0.11 0.17
Matches are distributed among these distances:
71 5 0.01
73 15 0.03
75 27 0.06
76 80 0.16
77 43 0.09
78 34 0.07
79 21 0.04
81 46 0.09
82 22 0.05
85 13 0.03
86 3 0.01
87 40 0.08
88 1 0.00
89 10 0.02
91 20 0.04
92 55 0.11
93 52 0.11
94 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (82 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAGATAGAAATTGAAAAAAAAAATACCTC
AGCGTGTGATCTGAAGC
Found at i:2509968 original size:92 final size:91
Alignment explanation
Indices: 2509811--2510000 Score: 254
Period size: 92 Copynumber: 2.1 Consensus size: 91
2509801 AGTTGATTTT
* * *
2509811 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAAGCTCAACTCACCTCTCGTAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAAGCTCAACTCACCTCTCGCAATAT
**
2509876 GAGTCGATTTTTTTTGAAAGGTAGAAA
66 GAGTCGA-TTTTTTTGAAAGACAGAAA
* * * * ** *
2509903 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAAGCTCAACTCACCTCTCGCAATAT
*
2509968 GAGTTGATTTTTTTGAAAGACAGAAA
66 GAGTCGATTTTTTTGAAAGACAGAAA
2509994 TTGAAAA
1 TTGAAAA
2510001 TAGCTCAGTG
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
91 24 0.28
92 61 0.72
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAAGCTCAACTCACCTCTCGCAATAT
GAGTCGATTTTTTTGAAAGACAGAAA
Found at i:2510135 original size:170 final size:169
Alignment explanation
Indices: 2509752--2510226 Score: 690
Period size: 169 Copynumber: 2.8 Consensus size: 169
2509742 ATTGAAAAAA
* *
2509752 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAA
1 AAAATACCTCGGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* *
2509816 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAAGCTCAACTCACCTCTCGTAATATGAGTC
66 AGACAGAAATTGAAAATAGCTCAG-GCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTC
*
2509881 GA-TTTTTTTTGAAAGGTAGAAATTGAAAAACGGAAATTG
130 GATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
*
2509920 AAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCGGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* *
2509985 AGACAGAAATTGAAAATAGCTCAGTGCGTGAGCCAAGGCTTAACTCACCCCTCGCAATATGAGTC
66 AGACAGAAATTGAAAATAGCTCAG-GCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTC
2510050 GATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
130 GATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * * * * *
2510090 AAAATACCTCGGCGTGTGACCTGATGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTTTT
1 AAAATACCTCGGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTG
* * * * *
2510155 ACA-ACAGAAATTGAAATTACCTCA-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
64 AAAGACAGAAATTGAAAATAGCTCAGGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAG
*
2510217 TTGATTTTTT
128 TCGATTTTTT
2510227 AAAATACCTC
Statistics
Matches: 279, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
168 54 0.19
169 111 0.40
170 86 0.31
171 19 0.07
172 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (169 bp):
AAAATACCTCGGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AGACAGAAATTGAAAATAGCTCAGGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCG
ATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
Found at i:2510264 original size:59 final size:60
Alignment explanation
Indices: 2510172--2510293 Score: 201
Period size: 59 Copynumber: 2.0 Consensus size: 60
2510162 AAATTGAAAT
* *
2510172 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAA-A
1 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA
* *
2510231 TACCTCAGTGCGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAACA
1 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA
2510291 TAC
1 TAC
2510294 GAAAAATTGA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
59 54 0.93
60 4 0.07
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (60 bp):
TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA
Found at i:2513658 original size:52 final size:52
Alignment explanation
Indices: 2513582--2513780 Score: 223
Period size: 52 Copynumber: 3.9 Consensus size: 52
2513572 CCATGGCAGC
* *
2513582 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* *
2513635 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCAGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * *
2513687 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGG-TATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCT-TCGGAGAA
* * * *
2513735 -TGTGATATGTG-ATCCATATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
2513781 TATGTGATAT
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
46 24 0.19
47 11 0.09
50 2 0.02
51 1 0.01
52 77 0.62
53 10 0.08
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:2535981 original size:16 final size:15
Alignment explanation
Indices: 2535955--2535989 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2535945 TGATGTGAAT
2535955 AATATAAAATATTAA
1 AATATAAAATATTAA
*
2535970 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
2535986 AATA
1 AATA
2535990 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:2536175 original size:20 final size:21
Alignment explanation
Indices: 2536133--2536175 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
2536123 CCCTTTTTAG
* *
2536133 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
2536154 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
2536174 AA
1 AA
2536176 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:2536392 original size:11 final size:11
Alignment explanation
Indices: 2536376--2536405 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2536366 TAACATTAAG
2536376 AATATATATAT
1 AATATATATAT
*
2536387 AATATAAATAT
1 AATATATATAT
2536398 AATATATA
1 AATATATA
2536406 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:2536937 original size:13 final size:13
Alignment explanation
Indices: 2536919--2536943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2536909 AAAAAACGAA
2536919 AAAAATAAAAAAT
1 AAAAATAAAAAAT
2536932 AAAAATAAAAAA
1 AAAAATAAAAAA
2536944 AAGAGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:2536952 original size:18 final size:18
Alignment explanation
Indices: 2536917--2536970 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
2536907 CGAAAAAACG
2536917 AAAAA-AAT-AAAAA-AT
1 AAAAATAATAAAAAAGAT
2536932 AAAAATAA-AAAAAAGAGT
1 AAAAATAATAAAAAAGA-T
*
2536950 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAAAAGAT
2536967 AAAA
1 AAAA
2536971 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 9 0.28
18 11 0.34
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (18 bp):
AAAAATAATAAAAAAGAT
Found at i:2536953 original size:17 final size:17
Alignment explanation
Indices: 2536909--2536971 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
2536899 AATAGATTCG
2536909 AAAAAACGA-AAAA-AAT
1 AAAAAA-GATAAAATAAT
*
2536925 AAAAAATA-AAAATAA-
1 AAAAAAGATAAAATAAT
2536940 AAAAAAGAGTAAAATAAT
1 AAAAAAGA-TAAAATAAT
*
2536958 AAAGAAGATAAAAT
1 AAAAAAGATAAAAT
2536972 CACCTTTAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 12 0.30
16 8 0.20
17 13 0.32
18 7 0.17
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAAAGATAAAATAAT
Found at i:2538009 original size:3 final size:3
Alignment explanation
Indices: 2538001--2538026 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2537991 TTGAGAGAAG
2538001 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2538027 TTGAGTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2542705 original size:78 final size:78
Alignment explanation
Indices: 2542576--2542734 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
2542566 TTAGGTGTTC
*
2542576 AATACTCTTGTGAATGTTGATGTTTTCTGCCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
1 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
2542641 AACGGTTGCATGA
66 AACGGTTGCATGA
2542654 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
1 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
2542719 AACGGTTGCATGA
66 AACGGTTGCATGA
2542732 AAT
1 AAT
2542735 GAAACTGAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (78 bp):
AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
AACGGTTGCATGA
Found at i:2544032 original size:2 final size:2
Alignment explanation
Indices: 2544025--2544064 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2544015 ATCAGTCTTT
*
2544025 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2544065 TGTATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2544243 original size:18 final size:19
Alignment explanation
Indices: 2544209--2544245 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2544199 TCCCGACACT
2544209 ATAGCTTCTCCTTCCCATG
1 ATAGCTTCTCCTTCCCATG
*
2544228 ATAGCTTCT-GTTCCCATG
1 ATAGCTTCTCCTTCCCATG
2544246 GTTCTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.38
Consensus pattern (19 bp):
ATAGCTTCTCCTTCCCATG
Found at i:2545581 original size:16 final size:18
Alignment explanation
Indices: 2545543--2545582 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
2545533 ATTATAAATA
2545543 ATAATGTGTAAAAATTGCT
1 ATAAT-TGTAAAAATTGCT
2545562 -TAATTGTAAAAA-TG-T
1 ATAATTGTAAAAATTGCT
2545577 ATAATT
1 ATAATT
2545583 TCATGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 8 0.40
18 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (18 bp):
ATAATTGTAAAAATTGCT
Found at i:2548178 original size:10 final size:11
Alignment explanation
Indices: 2548152--2548190 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2548142 TATATTTTCC
2548152 TATTTTTATAA
1 TATTTTTATAA
2548163 TATTTTTATAA
1 TATTTTTATAA
2548174 T-TTTTTAATAA
1 TATTTTT-ATAA
*
2548185 AATTTT
1 TATTTT
2548191 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 5 0.20
11 16 0.64
12 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTTATAA
Found at i:2549516 original size:20 final size:21
Alignment explanation
Indices: 2549493--2549533 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
2549483 GGTAGTTATT
*
2549493 TGTTAGTTAGTAG-TTGTTAA
1 TGTTAGTTAGCAGTTTGTTAA
2549513 TGTTAGTTAGCAGTTTGTTAA
1 TGTTAGTTAGCAGTTTGTTAA
2549534 AGTCAGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
TGTTAGTTAGCAGTTTGTTAA
Found at i:2551988 original size:21 final size:22
Alignment explanation
Indices: 2551959--2551999 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2551949 TAACTATAAT
2551959 GTAAAAACAATGAT-ATAAATA
1 GTAAAAACAATGATGATAAATA
*
2551980 GTAACAACAATGATGATAAA
1 GTAAAAACAATGATGATAAA
2552000 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (22 bp):
GTAAAAACAATGATGATAAATA
Found at i:2552045 original size:25 final size:23
Alignment explanation
Indices: 2552008--2552060 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
2551998 AAATATAAGA
2552008 AATAATAGAATAAT-GACAATAAT
1 AATAATAGAATAATAGA-AATAAT
*
2552031 AATAAGTAGTAATAATAGAATTAAT
1 AATAA-TAG-AATAATAGAAATAAT
2552056 AATAA
1 AATAA
2552061 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 3 0.12
25 16 0.62
26 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
AATAATAGAATAATAGAAATAAT
Found at i:2560119 original size:30 final size:30
Alignment explanation
Indices: 2560085--2560142 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
2560075 TAACATACAA
2560085 TAAAATTATAG-TTTAA-CTCTTTTAAAATAT
1 TAAAATT-TAGATTTAATC-CTTTTAAAATAT
*
2560115 TAAAATTTTGATTTAATCCTTTTAAAAT
1 TAAAATTTAGATTTAATCCTTTTAAAAT
2560143 CACAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 22 0.88
31 1 0.04
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (30 bp):
TAAAATTTAGATTTAATCCTTTTAAAATAT
Found at i:2574472 original size:16 final size:15
Alignment explanation
Indices: 2574446--2574480 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2574436 TGATGTGAAT
2574446 AATATAAAATATTAA
1 AATATAAAATATTAA
*
2574461 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
2574477 AATA
1 AATA
2574481 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:2574667 original size:20 final size:21
Alignment explanation
Indices: 2574625--2574667 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
2574615 CCCTTTTTAG
* *
2574625 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
2574646 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
2574666 AA
1 AA
2574668 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:2574884 original size:11 final size:11
Alignment explanation
Indices: 2574868--2574897 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2574858 TAACATTAAG
2574868 AATATATATAT
1 AATATATATAT
*
2574879 AATATAAATAT
1 AATATATATAT
2574890 AATATATA
1 AATATATA
2574898 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:2575366 original size:13 final size:13
Alignment explanation
Indices: 2575323--2575372 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
2575313 AAAAATGTAA
2575323 TTTTT-TTATATT
1 TTTTTATTATATT
* *
2575335 TGTTTTGTATATATA
1 T-TTTTAT-TATATT
2575350 TTTTTATTATATT
1 TTTTTATTATATT
2575363 TTTTTATTAT
1 TTTTTATTAT
2575373 GATGTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 1 0.03
13 19 0.59
14 6 0.19
15 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTTATTATATT
Found at i:2575429 original size:13 final size:13
Alignment explanation
Indices: 2575411--2575435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2575401 AAAAAACGAA
2575411 AAAAATAAAAAAT
1 AAAAATAAAAAAT
2575424 AAAAATAAAAAA
1 AAAAATAAAAAA
2575436 AAGAGTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:2575444 original size:18 final size:18
Alignment explanation
Indices: 2575409--2575462 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
2575399 CGAAAAAACG
2575409 AAAAA-AAT-AAAAA-AT
1 AAAAATAATAAAAAAGAT
2575424 AAAAATAA-AAAAAAGAGT
1 AAAAATAATAAAAAAGA-T
*
2575442 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAAAAGAT
2575459 AAAA
1 AAAA
2575463 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 9 0.28
18 11 0.34
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (18 bp):
AAAAATAATAAAAAAGAT
Found at i:2575445 original size:17 final size:17
Alignment explanation
Indices: 2575401--2575463 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
2575391 AATAGATTCG
2575401 AAAAAACGA-AAAA-AAT
1 AAAAAA-GATAAAATAAT
*
2575417 AAAAAATA-AAAATAA-
1 AAAAAAGATAAAATAAT
2575432 AAAAAAGAGTAAAATAAT
1 AAAAAAGA-TAAAATAAT
*
2575450 AAAGAAGATAAAAT
1 AAAAAAGATAAAAT
2575464 CACCTTTAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 12 0.30
16 8 0.20
17 13 0.32
18 7 0.17
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAAAGATAAAATAAT
Found at i:2576506 original size:3 final size:3
Alignment explanation
Indices: 2576498--2576526 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2576488 TTGAGAGAAG
2576498 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2576527 TTGAGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2581217 original size:78 final size:78
Alignment explanation
Indices: 2581088--2581246 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
2581078 TTAGGTGTTC
*
2581088 AATACTCTTGTGAATGTTGATGTTTTCTGCCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
1 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
2581153 AACGGTTGCATGA
66 AACGGTTGCATGA
2581166 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
1 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
2581231 AACGGTTGCATGA
66 AACGGTTGCATGA
2581244 AAT
1 AAT
2581247 GAAACTGAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (78 bp):
AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTATTGTGATTTCTTCTTCTTGTAGGCC
AACGGTTGCATGA
Found at i:2582547 original size:2 final size:2
Alignment explanation
Indices: 2582540--2582579 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2582530 ATCAGTCTTT
*
2582540 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CG CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2582580 TGTATTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2582758 original size:18 final size:19
Alignment explanation
Indices: 2582724--2582760 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2582714 TCCCGACACT
2582724 ATAGCTTCTCCTTCCCATG
1 ATAGCTTCTCCTTCCCATG
*
2582743 ATAGCTTCT-GTTCCCATG
1 ATAGCTTCTCCTTCCCATG
2582761 GTTCTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.38
Consensus pattern (19 bp):
ATAGCTTCTCCTTCCCATG
Found at i:2584091 original size:16 final size:18
Alignment explanation
Indices: 2584053--2584092 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
2584043 ATTATAAATA
2584053 ATAATGTGTAAAAATTGCT
1 ATAAT-TGTAAAAATTGCT
2584072 -TAATTGTAAAAA-TG-T
1 ATAATTGTAAAAATTGCT
2584087 ATAATT
1 ATAATT
2584093 TCATGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 8 0.40
18 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (18 bp):
ATAATTGTAAAAATTGCT
Found at i:2586677 original size:10 final size:11
Alignment explanation
Indices: 2586651--2586688 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2586641 TATATTTTCC
2586651 TATTTTTATAA
1 TATTTTTATAA
2586662 TATTTTTATAA
1 TATTTTTATAA
2586673 T-TTTTTAATAA
1 TATTTTT-ATAA
2586684 -ATTTT
1 TATTTT
2586689 AAAAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTTTATAA
Found at i:2586695 original size:21 final size:21
Alignment explanation
Indices: 2586653--2586695 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
2586643 TATTTTCCTA
* *
2586653 TTTTTATAATATTTTTATAAT
1 TTTTTATAATATTTTAAAAAT
2586674 TTTTTAATAA-ATTTTAAAAAT
1 TTTTT-ATAATATTTTAAAAAT
2586695 T
1 T
2586696 AATAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATAATATTTTAAAAAT
Found at i:2588006 original size:20 final size:21
Alignment explanation
Indices: 2587983--2588023 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
2587973 GGTAGTTATT
*
2587983 TGTTAGTTAGTAG-TTGTTAA
1 TGTTAGTTAGCAGTTTGTTAA
2588003 TGTTAGTTAGCAGTTTGTTAA
1 TGTTAGTTAGCAGTTTGTTAA
2588024 AGTCAGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
TGTTAGTTAGCAGTTTGTTAA
Found at i:2590474 original size:21 final size:22
Alignment explanation
Indices: 2590445--2590485 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2590435 TAACTATAAT
2590445 GTAAAAACAATGAT-ATAAATA
1 GTAAAAACAATGATGATAAATA
*
2590466 GTAACAACAATGATGATAAA
1 GTAAAAACAATGATGATAAA
2590486 ATATAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (22 bp):
GTAAAAACAATGATGATAAATA
Found at i:2590531 original size:25 final size:23
Alignment explanation
Indices: 2590494--2590546 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
2590484 AAATATAAGA
2590494 AATAATAGAATAAT-GACAATAAT
1 AATAATAGAATAATAGA-AATAAT
*
2590517 AATAAGTAGTAATAATAGAATTAAT
1 AATAA-TAG-AATAATAGAAATAAT
2590542 AATAA
1 AATAA
2590547 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 3 0.12
25 16 0.62
26 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
AATAATAGAATAATAGAAATAAT
Found at i:2594875 original size:15 final size:16
Alignment explanation
Indices: 2594847--2594876 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2594837 AAGCGGCATT
2594847 AATATATCATATAAAA
1 AATATATCATATAAAA
2594863 AATATAT-ATATAAA
1 AATATATCATATAAA
2594877 TAAGAGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATATCATATAAAA
Found at i:2599114 original size:20 final size:21
Alignment explanation
Indices: 2599076--2599114 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
2599066 AAAATCAATT
*
2599076 AATATTTATATAATTAAAATA
1 AATATTTATATAATGAAAATA
*
2599097 AATA-TTATATTATGAAAA
1 AATATTTATATAATGAAAA
2599115 ATAATATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
AATATTTATATAATGAAAATA
Found at i:2603950 original size:138 final size:138
Alignment explanation
Indices: 2603760--2604038 Score: 549
Period size: 138 Copynumber: 2.0 Consensus size: 138
2603750 ATTAGGTATG
2603760 TATTTTTGTCCCGTTTTTAATGATTTCTATGTTTCTGAGATCGTAGTAGCTTAATCTAGCTAGCT
1 TATTTTTGTCCCGTTTTTAATGATTTCTATGTTTCTGAGATCGTAGTAGCTTAATCTAGCTAGCT
*
2603825 CGGGGATTAATTTGCAAAACTGTTAAAGTATTAAGGTTTTTCCATTGATGAGTATGCTTGAATTT
66 CGGGGATTAATTTGCAAAACTGTTAAAGTATTAAGATTTTTCCATTGATGAGTATGCTTGAATTT
2603890 TGAAGTTT
131 TGAAGTTT
2603898 TATTTTTGTCCCGTTTTTAATGATTTCTATGTTTCTGAGATCGTAGTAGCTTAATCTAGCTAGCT
1 TATTTTTGTCCCGTTTTTAATGATTTCTATGTTTCTGAGATCGTAGTAGCTTAATCTAGCTAGCT
2603963 CGGGGATTAATTTGCAAAACTGTTAAAGTATTAAGATTTTTCCATTGATGAGTATGCTTGAATTT
66 CGGGGATTAATTTGCAAAACTGTTAAAGTATTAAGATTTTTCCATTGATGAGTATGCTTGAATTT
2604028 TGAAGTTT
131 TGAAGTTT
2604036 TAT
1 TAT
2604039 GATAGAAAAT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 140 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (138 bp):
TATTTTTGTCCCGTTTTTAATGATTTCTATGTTTCTGAGATCGTAGTAGCTTAATCTAGCTAGCT
CGGGGATTAATTTGCAAAACTGTTAAAGTATTAAGATTTTTCCATTGATGAGTATGCTTGAATTT
TGAAGTTT
Found at i:2604689 original size:25 final size:25
Alignment explanation
Indices: 2604652--2604707 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
2604642 AGACACACCA
* *
2604652 CAGCTCATATGAGCTTCTCGATATT
1 CAGCTCATATGAGCTTCCCGATACT
*
2604677 CAGCTCACT-TGAGCTTCCCGTTACT
1 CAGCTCA-TATGAGCTTCCCGATACT
2604702 CAGCTC
1 CAGCTC
2604708 GGAGGAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (25 bp):
CAGCTCATATGAGCTTCCCGATACT
Found at i:2606547 original size:21 final size:21
Alignment explanation
Indices: 2606523--2606592 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
2606513 CGTGTATCTC
2606523 AGTCACACAGGCTTGTGTCTT
1 AGTCACACAGGCTTGTGTCTT
2606544 AGTCACACA-G-TTGTGTCCCTT
1 AGTCACACAGGCTTGTGT--CTT
* * * *
2606565 CGTTACAC-GGCGTGTGTCTC
1 AGTCACACAGGCTTGTGTCTT
2606585 AGTCACAC
1 AGTCACAC
2606593 GACCGTGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 6 0.15
20 9 0.23
21 19 0.49
22 5 0.13
ACGTcount: A:0.19, C:0.29, G:0.23, T:0.30
Consensus pattern (21 bp):
AGTCACACAGGCTTGTGTCTT
Found at i:2611906 original size:10 final size:10
Alignment explanation
Indices: 2611889--2611927 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
2611879 TAAATATGAG
2611889 ATAAAAATAA
1 ATAAAAATAA
* **
2611899 AAAAAAATTC
1 ATAAAAATAA
2611909 ATAAAAATAA
1 ATAAAAATAA
2611919 ATAAAAATA
1 ATAAAAATA
2611928 TAAAGCCTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:2611914 original size:20 final size:20
Alignment explanation
Indices: 2611889--2611926 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2611879 TAAATATGAG
2611889 ATAAAAATAAAAAAAAATTC
1 ATAAAAATAAAAAAAAATTC
*
2611909 ATAAAAATAAATAAAAAT
1 ATAAAAATAAAAAAAAAT
2611927 ATAAAGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAAAAATAAAAAAAAATTC
Found at i:2615236 original size:15 final size:16
Alignment explanation
Indices: 2615208--2615240 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2615198 ATATTTAAAA
*
2615208 TTTTAGTTTATATATT
1 TTTTAATTTATATATT
2615224 TTTTAATTT-TATATT
1 TTTTAATTTATATATT
2615239 TT
1 TT
2615241 AACCCATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTAATTTATATATT
Found at i:2616748 original size:29 final size:29
Alignment explanation
Indices: 2616704--2616761 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2616694 GCTTAGTTGC
*
2616704 AATTGACGATAGATATGGCTACATTCTCT
1 AATTGACGATAAATATGGCTACATTCTCT
2616733 AATTGACGATAAATATGGCTACATTCTCT
1 AATTGACGATAAATATGGCTACATTCTCT
2616762 TGAGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (29 bp):
AATTGACGATAAATATGGCTACATTCTCT
Found at i:2621079 original size:78 final size:78
Alignment explanation
Indices: 2620940--2621095 Score: 249
Period size: 78 Copynumber: 2.0 Consensus size: 78
2620930 TAAGAAGTAC
2620940 TTATAATTGGACCAAATACGAGAGAAACCCAAAAGATCCTAATGATAATGCTAAGGATGACAAAC
1 TTATAATTGGACCAAATACGAGAGAAACCCAAAAGATCCTAATGATAATGCTAAGGATGACAAAC
2621005 CTTAGTATAATTA
66 CTTAGTATAATTA
* * * * * * *
2621018 TTATAATTGGACCCAATACGGGAGAGACCCAAAAGATCCTCATGATAATGTTAGGGGTGACAAAC
1 TTATAATTGGACCAAATACGAGAGAAACCCAAAAGATCCTAATGATAATGCTAAGGATGACAAAC
2621083 CTTAGTATAATTA
66 CTTAGTATAATTA
2621096 ACTAGGGTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (78 bp):
TTATAATTGGACCAAATACGAGAGAAACCCAAAAGATCCTAATGATAATGCTAAGGATGACAAAC
CTTAGTATAATTA
Found at i:2631196 original size:29 final size:26
Alignment explanation
Indices: 2631130--2631186 Score: 69
Period size: 29 Copynumber: 2.1 Consensus size: 26
2631120 ACTTTTTATA
2631130 TATTTAAAATTAAGTCCTTTTATTTT
1 TATTTAAAATTAAGTCCTTTTATTTT
* *
2631156 TATTTCAAAAAATTTAGTCTTTTTATTTT
1 TATTT---AAAATTAAGTCCTTTTATTTT
2631185 TA
1 TA
2631187 GGATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
29 21 0.81
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTAAAATTAAGTCCTTTTATTTT
Found at i:2633957 original size:23 final size:25
Alignment explanation
Indices: 2633926--2633979 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
2633916 TATATATTCA
2633926 CATTCAAT-ATCAAAATCACAAT-TCT
1 CATT-AATAATCAAAA-CACAATATCT
*
2633951 -ATTAATAATCAACACACAATATCT
1 CATTAATAATCAAAACACAATATCT
2633975 CATTA
1 CATTA
2633980 TAAACGTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 9 0.36
24 12 0.48
25 4 0.16
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.31
Consensus pattern (25 bp):
CATTAATAATCAAAACACAATATCT
Found at i:2637240 original size:71 final size:72
Alignment explanation
Indices: 2637146--2637296 Score: 168
Period size: 72 Copynumber: 2.1 Consensus size: 72
2637136 CATTTGGGTT
* ** *
2637146 AAATAATGGTAAAATTATTTTTGGTCCC-CAAAGT-TTTTAATATTGTT-AATTTATCCTTGTAT
1 AAATAATGGTAAAATTATATTTGG-CCCTCAAA-TCTTTTAATATT-TTAAACCTATCCTTCTAT
*
2637208 CATTATTTAA
63 CACTATTTAA
2637218 AAATAAT-GTAAAATT-TGATTTGGCCCTTCAAATCTTTTAATATTTTAAACCTATCCTTCTATC
1 AAATAATGGTAAAATTAT-ATTTGGCCC-TCAAATCTTTTAATATTTTAAACCTATCCTTCTATC
2637281 ACTATTTAA
64 ACTATTTAA
*
2637290 AAGTAAT
1 AAATAAT
2637297 ATAATTTACA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
70 4 0.06
71 16 0.24
72 48 0.71
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (72 bp):
AAATAATGGTAAAATTATATTTGGCCCTCAAATCTTTTAATATTTTAAACCTATCCTTCTATCAC
TATTTAA
Found at i:2638197 original size:17 final size:16
Alignment explanation
Indices: 2638171--2638209 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2638161 AATTGAAAAT
*
2638171 TTTCTCCTCTCTCTCTA
1 TTTCTTCTCTCT-TCTA
*
2638188 TTTCTTCTCTCTTTTA
1 TTTCTTCTCTCTTCTA
2638204 TTTCTT
1 TTTCTT
2638210 ATAATCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTCTTCTCTCTTCTA
Found at i:2641530 original size:45 final size:46
Alignment explanation
Indices: 2641463--2641586 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
2641453 CATATGACCT
*
2641463 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
2641506 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
2641552 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
2641587 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:2641569 original size:46 final size:45
Alignment explanation
Indices: 2641463--2641658 Score: 203
Period size: 37 Copynumber: 4.7 Consensus size: 45
2641453 CATATGACCT
*
2641463 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
2641506 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
2641552 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
2641589 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
2641626 CTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
2641659 ACCACTTATC
Statistics
Matches: 139, Mismatches: 7, Indels: 17
0.85 0.04 0.10
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 2 0.01
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:2641590 original size:37 final size:37
Alignment explanation
Indices: 2641548--2641687 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
2641538 AGCTGAAGCT
* *
2641548 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
2641585 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
2641622 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
2641659 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTCTCTTGATCAGA
2641688 AGTACTCAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
Found at i:2646515 original size:50 final size:50
Alignment explanation
Indices: 2646400--2646642 Score: 387
Period size: 50 Copynumber: 4.8 Consensus size: 50
2646390 GATAATAACA
* ** * *
2646400 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
2646451 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
2646501 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
2646551 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
2646601 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
2646643 TTACCCAAAT
Statistics
Matches: 178, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 145 0.81
51 33 0.19
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:2647014 original size:29 final size:30
Alignment explanation
Indices: 2646980--2647036 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
2646970 CCTCGACTCT
*
2646980 AACTTTTTCAAAATTACA-ATTTGCCCCTA
1 AACTTTTACAAAATTACATATTTGCCCCTA
* *
2647009 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATATTTGCCCC
2647037 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACATATTTGCCCCTA
Found at i:2649540 original size:37 final size:37
Alignment explanation
Indices: 2649499--2649749 Score: 439
Period size: 37 Copynumber: 6.8 Consensus size: 37
2649489 TTTGAGTACT
*
2649499 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
2649536 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
2649573 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
2649610 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
*
2649647 TCTGATCAAGAGACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
* *
2649684 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
2649721 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
2649750 AGCTTCAGCT
Statistics
Matches: 208, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 208 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:2649820 original size:45 final size:46
Alignment explanation
Indices: 2649711--2649834 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
2649701 GTGATAAGTG
* *
2649711 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
2649757 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
2649802 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
2649835 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:2657310 original size:37 final size:37
Alignment explanation
Indices: 2657269--2657482 Score: 365
Period size: 37 Copynumber: 5.8 Consensus size: 37
2657259 TTTGAGTACT
*
2657269 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
2657306 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
2657343 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
*
2657380 TCTGATCAAGAGACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
* *
2657417 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
2657454 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
2657483 AGCTTCAGCT
Statistics
Matches: 171, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 171 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:2657553 original size:45 final size:46
Alignment explanation
Indices: 2657444--2657567 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
2657434 GTGATAAGTG
* *
2657444 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
2657490 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
2657535 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
2657568 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:2675030 original size:37 final size:37
Alignment explanation
Indices: 2674989--2675202 Score: 365
Period size: 37 Copynumber: 5.8 Consensus size: 37
2674979 TTTGAGTACT
*
2674989 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
2675026 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
2675063 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
*
2675100 TCTGATCAAGAGACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
* *
2675137 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
** *
2675174 TCTGATCAAGTGATAAAGTGATAAGTGGT
1 TCTGATCAAGAAACAAAGTGATAAGTGGT
2675203 AGCTTCAGCT
Statistics
Matches: 171, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 171 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
Found at i:2675273 original size:45 final size:46
Alignment explanation
Indices: 2675164--2675287 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
2675154 GTGATAAGTG
* *
2675164 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
2675210 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
2675255 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
2675288 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:2682484 original size:50 final size:50
Alignment explanation
Indices: 2682369--2682611 Score: 387
Period size: 50 Copynumber: 4.8 Consensus size: 50
2682359 GATAATAACA
* ** * *
2682369 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
2682420 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
2682470 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
2682520 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
2682570 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
2682612 TTACCCAAAT
Statistics
Matches: 178, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 145 0.81
51 33 0.19
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:2682983 original size:30 final size:30
Alignment explanation
Indices: 2682949--2683006 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2682939 CCTCGACTCT
**
2682949 AACTTTTTTAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
2682979 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
2683007 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:2686256 original size:26 final size:26
Alignment explanation
Indices: 2686227--2686286 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
2686217 AAAAGAATTC
*
2686227 AATATTTTATCTATATATTAATTTAA
1 AATATTTTATCTAAATATTAATTTAA
*
2686253 AATATTTTATCTAAATTTTAATTTAA
1 AATATTTTATCTAAATATTAATTTAA
*
2686279 TATATTTT
1 AATATTTT
2686287 TAAATGAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
AATATTTTATCTAAATATTAATTTAA
Found at i:2697078 original size:51 final size:51
Alignment explanation
Indices: 2697015--2697147 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
2697005 CAATCAAATC
* * * * * *
2697015 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATTTAAGATA
1 TCTAAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATA
* ** *
2697066 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATA
* *
2697117 TCTAAGATTATAAAATTATATCTTTTAAGAT
1 TCTAAGATTATAAAATAATATCTTATAAGAT
2697148 CATGTTTCCA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (51 bp):
TCTAAGATTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:2702280 original size:51 final size:51
Alignment explanation
Indices: 2702217--2702349 Score: 160
Period size: 51 Copynumber: 2.6 Consensus size: 51
2702207 CAATCAAATC
* * * *
2702217 TCTAAGAATATAAAATCATATCTTTAAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATAATATCTTTAAAGATTACATATCATATCTAAGATA
* ** *
2702268 TGTAATCTTATAAAATAATATC-TTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATAATATCTTTA-AAGATTACATATCATATCTAAGATA
* *
2702319 TCTAAGATTATAAAATTATATCTTTTAAGAT
1 TCTAAGATTATAAAATAATATCTTTAAAGAT
2702350 CATGTTTCCA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 3 0.04
51 62 0.93
52 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (51 bp):
TCTAAGATTATAAAATAATATCTTTAAAGATTACATATCATATCTAAGATA
Found at i:2705649 original size:23 final size:21
Alignment explanation
Indices: 2705594--2705648 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
2705584 ACTGAAGGGC
2705594 TATACACACACACTGTGTATA
1 TATACACACACACTGTGTATA
*
2705615 TACACACACACACTGTGTATA
1 TATACACACACACTGTGTATA
*
2705636 TATATACACACAC
1 TATACACACACAC
2705649 ATATACATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.25
Consensus pattern (21 bp):
TATACACACACACTGTGTATA
Found at i:2710154 original size:17 final size:17
Alignment explanation
Indices: 2710100--2710154 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2710090 TGGTAGATCG
*
2710100 TGTGGGTCACA-AGGTCC
1 TGTGGGTCACATAGG-CA
* *
2710117 TGTGGGTCACAT-GACTG
1 TGTGGGTCACATAGGC-A
2710134 TGTGGGTCACATAGGCA
1 TGTGGGTCACATAGGCA
2710151 TGTG
1 TGTG
2710155 TCAGGTTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 1 0.03
17 28 0.90
18 2 0.06
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (17 bp):
TGTGGGTCACATAGGCA
Found at i:2711883 original size:32 final size:32
Alignment explanation
Indices: 2711846--2711909 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
2711836 TTAAAGAGTT
2711846 AAAATCAGGAAGAGAACCTCAGCAACAAAACC
1 AAAATCAGGAAGAGAACCTCAGCAACAAAACC
2711878 AAAATCAGGAAGAGAACCTCAGCAACAAAACC
1 AAAATCAGGAAGAGAACCTCAGCAACAAAACC
2711910 CTCCACCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.25, G:0.16, T:0.06
Consensus pattern (32 bp):
AAAATCAGGAAGAGAACCTCAGCAACAAAACC
Found at i:2713238 original size:29 final size:28
Alignment explanation
Indices: 2713200--2713254 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
2713190 AATATTATGT
*
2713200 TAAATGTAATAACTAATAGCATAATTTA
1 TAAATGTAATAACTAATAACATAATTTA
2713228 TAAATTGTAATAACTAATAACATAATT
1 TAAA-TGTAATAACTAATAACATAATT
2713255 ATACATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.36
Consensus pattern (28 bp):
TAAATGTAATAACTAATAACATAATTTA
Found at i:2713473 original size:20 final size:19
Alignment explanation
Indices: 2713434--2713474 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2713424 TTTTAATTAG
*
2713434 ATTTGTTTTTAATCAATTT
1 ATTTGTTTTTAAACAATTT
*
2713453 ATTTGATTTTTAAACATTTT
1 ATTTG-TTTTTAAACAATTT
2713473 AT
1 AT
2713475 ATATACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (19 bp):
ATTTGTTTTTAAACAATTT
Found at i:2713665 original size:23 final size:22
Alignment explanation
Indices: 2713634--2713687 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
2713624 TGAGAGAGAG
2713634 AAAAAAAATATT-AGAATGGATA
1 AAAAAAAATATTGAGAATGGA-A
*
2713656 AAAAATAAATATTGAGAATTGAA
1 AAAAA-AAATATTGAGAATGGAA
2713679 AAAAAAAAT
1 AAAAAAAAT
2713688 CAATACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 9 0.31
23 13 0.45
24 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (22 bp):
AAAAAAAATATTGAGAATGGAA
Found at i:2715566 original size:40 final size:40
Alignment explanation
Indices: 2715505--2715583 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
2715495 ATGACAGTTG
2715505 GTACCACACCCATGACAGCAGTAATAGCATGCAACCACCA
1 GTACCACACCCATGACAGCAGTAATAGCATGCAACCACCA
** * *
2715545 GTACCACACCCATGATTGCAGTAGTAGTATGCAACCACC
1 GTACCACACCCATGACAGCAGTAATAGCATGCAACCACC
2715584 GATTTTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.33, G:0.16, T:0.16
Consensus pattern (40 bp):
GTACCACACCCATGACAGCAGTAATAGCATGCAACCACCA
Found at i:2717874 original size:20 final size:20
Alignment explanation
Indices: 2717849--2717888 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2717839 CTTTACAAAA
2717849 ACTCTAGCAAAAGGGTAAGG
1 ACTCTAGCAAAAGGGTAAGG
2717869 ACTCTAGCAAAAGGGTAAGG
1 ACTCTAGCAAAAGGGTAAGG
2717889 GCTGGAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.30, T:0.15
Consensus pattern (20 bp):
ACTCTAGCAAAAGGGTAAGG
Found at i:2718271 original size:18 final size:18
Alignment explanation
Indices: 2718250--2718288 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2718240 AATTCGAAAT
* *
2718250 AATTTTTAAATTTTAAAA
1 AATTTTAAAAATTTAAAA
*
2718268 AATTTTAAAAATTTATAA
1 AATTTTAAAAATTTAAAA
2718286 AAT
1 AAT
2718289 ATATATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATTTTAAAAATTTAAAA
Found at i:2719278 original size:20 final size:20
Alignment explanation
Indices: 2719243--2719280 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2719233 TGACTACTTC
2719243 GTGACAAAACGATAACATAA
1 GTGACAAAACGATAACATAA
2719263 GTGACTAAAACG-TAACAT
1 GTGAC-AAAACGATAACAT
2719281 TTCAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (20 bp):
GTGACAAAACGATAACATAA
Found at i:2724664 original size:24 final size:21
Alignment explanation
Indices: 2724629--2724675 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 21
2724619 TAATTTCCTA
2724629 TTTTTATATTTTATAATAATTT
1 TTTTTATATTTTATAAT-ATTT
2724651 TTTTTATGATTTTTATAATATTT
1 TTTTTAT-A-TTTTATAATATTT
2724674 TT
1 TT
2724676 AAGAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATATTTTATAATATTT
Found at i:2724668 original size:21 final size:22
Alignment explanation
Indices: 2724629--2724675 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
2724619 TAATTTCCTA
*
2724629 TTTTTATATTTTATAATAATTT
1 TTTTTATATTTTATAATAATAT
2724651 TTTTTATGATTTT-T-ATAATAT
1 TTTTTAT-ATTTTATAATAATAT
2724672 TTTT
1 TTTT
2724676 AAGAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 8 0.35
23 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTATATTTTATAATAATAT
Found at i:2724729 original size:13 final size:13
Alignment explanation
Indices: 2724711--2724738 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2724701 AATTTAAATA
2724711 TTTTTCTATATTT
1 TTTTTCTATATTT
2724724 TTTTTCTATATTT
1 TTTTTCTATATTT
2724737 TT
1 TT
2724739 ATATTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTCTATATTT
Found at i:2724771 original size:21 final size:21
Alignment explanation
Indices: 2724703--2724772 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
2724693 TTTTAATAAA
2724703 TTTA-AATAT-TTTTCTATATT
1 TTTATAATATATTTT-TATATT
* **
2724723 TTTTTTCTATATTTTTATA-T
1 TTTATAATATATTTTTATATT
*
2724743 TTTCTAATATATTTTTATATT
1 TTTATAATATATTTTTATATT
2724764 TTTATAATA
1 TTTATAATA
2724773 ATTGGGTAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
20 20 0.50
21 16 0.40
22 4 0.10
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATAATATATTTTTATATT
Found at i:2726833 original size:16 final size:16
Alignment explanation
Indices: 2726812--2726842 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2726802 ATAAATAAAT
2726812 TTAAAATTAATTTAAG
1 TTAAAATTAATTTAAG
2726828 TTAAAATTAATTTAA
1 TTAAAATTAATTTAA
2726843 TAAATAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTAAAATTAATTTAAG
Found at i:2732970 original size:14 final size:16
Alignment explanation
Indices: 2732944--2732977 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
2732934 AAATAAAAAC
2732944 ATAAAATATGACAA-A
1 ATAAAATATGACAATA
2732959 ATAAAA-ATGACAATA
1 ATAAAATATGACAATA
2732974 ATAA
1 ATAA
2732978 TGAAAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAAAATATGACAATA
Found at i:2733104 original size:3 final size:3
Alignment explanation
Indices: 2732987--2733088 Score: 107
Period size: 3 Copynumber: 33.7 Consensus size: 3
2732977 ATGAAAACAG
* * * * * *
2732987 TAA TAA TAA TAC TAA TAG TAG TAA TAG TAA TAG TAA AAA GTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
*
2733033 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TGAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
*
2733078 TAG TAA TAA TA
1 TAA TAA TAA TA
2733089 TGCTAAATAA
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.02
3 76 0.93
4 4 0.05
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2734080 original size:28 final size:28
Alignment explanation
Indices: 2734040--2734096 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
2734030 GTCTCGTTCT
*
2734040 AGTCCACTACGTCTTGTTGCTTGGATCC
1 AGTCCACTACGTCTTGTTGCTTCGATCC
*
2734068 AGTCCACTGCGTCTTGTTGCTTCGATCC
1 AGTCCACTACGTCTTGTTGCTTCGATCC
2734096 A
1 A
2734097 CTTCATGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.14, C:0.30, G:0.21, T:0.35
Consensus pattern (28 bp):
AGTCCACTACGTCTTGTTGCTTCGATCC
Done.