Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 10 of 173
Found at i:2827538 original size:2 final size:2
Alignment explanation
Indices: 2827531--2827580 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2827521 TGCCTTTGAA
2827531 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2827573 CT CT CT CT
1 CT CT CT CT
2827581 GTATGCAGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2828005 original size:26 final size:26
Alignment explanation
Indices: 2827966--2828019 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
2827956 TTCATATTAA
*
2827966 TATTTTAATAATAAAATTAATCTTTT
1 TATTTTAATAATAAAATCAATCTTTT
* *
2827992 TATTTTAATTATAAAATCACTCTTTT
1 TATTTTAATAATAAAATCAATCTTTT
2828018 TA
1 TA
2828020 ATATATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTTAATAATAAAATCAATCTTTT
Found at i:2828753 original size:21 final size:21
Alignment explanation
Indices: 2828715--2828755 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2828705 TTAAGCTCTG
**
2828715 GTTTAAGATTTAGGGTTTAAA
1 GTTTAAGATTTAAAGTTTAAA
*
2828736 GTTTGAGATTTAAAGTTTAA
1 GTTTAAGATTTAAAGTTTAA
2828756 GGTTCAATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (21 bp):
GTTTAAGATTTAAAGTTTAAA
Found at i:2828802 original size:20 final size:20
Alignment explanation
Indices: 2828772--2828821 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2828762 ATGTTCAAGA
2828772 TTTTGGGTTC-AGAGTTTAGGG
1 TTTT-GGTTCAAG-GTTTAGGG
2828793 TTTTGGTTCAAGGTTTAGGG
1 TTTTGGTTCAAGGTTTAGGG
2828813 TTTTGGTTC
1 TTTTGGTTC
2828822 GGAGGTCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.12, C:0.06, G:0.34, T:0.48
Consensus pattern (20 bp):
TTTTGGTTCAAGGTTTAGGG
Found at i:2828833 original size:20 final size:20
Alignment explanation
Indices: 2828756--2828821 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
2828746 TAAAGTTTAA
* * *
2828756 GGTTCAATGTTCAAGATTTT
1 GGTTCAAGGTTCAGGGTTTT
*
2828776 GGGTTC-AGAGTTTAGGGTTTT
1 -GGTTCAAG-GTTCAGGGTTTT
*
2828797 GGTTCAAGGTTTAGGGTTTT
1 GGTTCAAGGTTCAGGGTTTT
2828817 GGTTC
1 GGTTC
2828822 GGAGGTCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.17, C:0.08, G:0.32, T:0.44
Consensus pattern (20 bp):
GGTTCAAGGTTCAGGGTTTT
Found at i:2829406 original size:30 final size:30
Alignment explanation
Indices: 2829362--2829424 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
2829352 ACTTAACAAG
2829362 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
2829392 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
2829422 CAA
1 CAA
2829425 TAAAATAAGC
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:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:2832081 original size:28 final size:30
Alignment explanation
Indices: 2832034--2832099 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 30
2832024 TTAAATTAGT
2832034 AATAAT-AAAATTACACTTT-AGCCCTTAA
1 AATAATAAAAATTACACTTTAAGCCCTTAA
* *
2832062 AATAATAAAAATGTA-A-TTTAATCCTTTAA
1 AATAATAAAAAT-TACACTTTAAGCCCTTAA
*
2832091 AATTATAAA
1 AATAATAAA
2832100 GATATTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 9 0.28
29 21 0.66
30 2 0.06
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.35
Consensus pattern (30 bp):
AATAATAAAAATTACACTTTAAGCCCTTAA
Found at i:2835980 original size:17 final size:17
Alignment explanation
Indices: 2835933--2835980 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
2835923 AGCCTAAAAT
*
2835933 ATTTGGATAAATTATTG
1 ATTTAGATAAATTATTG
2835950 ATTTAGA-AATATTAGTTG
1 ATTTAGATAA-ATTA-TTG
2835968 ATTT-GATAAATTA
1 ATTTAGATAAATTA
2835981 ATTAGTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 2 0.07
17 16 0.59
18 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.46
Consensus pattern (17 bp):
ATTTAGATAAATTATTG
Found at i:2836453 original size:24 final size:25
Alignment explanation
Indices: 2836401--2836447 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2836391 TAGCCCTCTC
*
2836401 GAGCTTCCCGTTATATAGTTCTTGT
1 GAGCTTCCCGTTATATAGCTCTTGT
*
2836426 GAGCTTCCTGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
2836448 CGGAGCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGT
Found at i:2836540 original size:26 final size:26
Alignment explanation
Indices: 2836511--2836652 Score: 95
Period size: 26 Copynumber: 5.7 Consensus size: 26
2836501 CTTATGAGTG
2836511 TCCCGATATATGGCTCTTCGTGAGCT
1 TCCCGATATATGGCTCTTCGTGAGCT
* *
2836537 TCCCGTTGAT-TGGCTCTTTGTGAGCT
1 TCCCGAT-ATATGGCTCTTCGTGAGCT
*
2836563 TCCTC-AT-TAATGGCTCTCCG-GAGCT
1 TCC-CGATAT-ATGGCTCTTCGTGAGCT
* * * *
2836588 TCTCGATAT-TGGCTC-GCTTGAACT
1 TCCCGATATATGGCTCTTCGTGAGCT
* *
2836612 TCCTGATATATGGCT-ATC-TAGAGCT
1 TCCCGATATATGGCTCTTCGT-GAGCT
*
2836637 TCCCGTTA-ATGGCTCT
1 TCCCGATATATGGCTCT
2836653 ACGAAGCTAC
Statistics
Matches: 89, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
23 1 0.01
24 26 0.29
25 25 0.28
26 34 0.38
27 3 0.03
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (26 bp):
TCCCGATATATGGCTCTTCGTGAGCT
Found at i:2836651 original size:73 final size:73
Alignment explanation
Indices: 2836558--2836695 Score: 179
Period size: 73 Copynumber: 1.9 Consensus size: 73
2836548 GGCTCTTTGT
* * * * *
2836558 GAGCTTCCTCATTAATGGCTCTCCGGAGCTTCTCGATATTGGCTCGCTTGAACTTCCTGATATAT
1 GAGCTTCCTCATTAATGGCTCTACGAAGCTACCCGATATTGGCTCGCATGAACTTCCTGAT-TAT
2836623 GGCTATCTA
65 GGCTATCTA
* * * *
2836632 GAGCTTCC-CGTTAATGGCTCTACGAAGCTACCCGTTATTGGCTCGCATGAGCTTTCTGATTATG
1 GAGCTTCCTCATTAATGGCTCTACGAAGCTACCCGATATTGGCTCGCATGAACTTCCTGATTATG
2836696 ACTGCAGCGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 4 0.07
73 43 0.78
74 8 0.15
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (73 bp):
GAGCTTCCTCATTAATGGCTCTACGAAGCTACCCGATATTGGCTCGCATGAACTTCCTGATTATG
GCTATCTA
Found at i:2837246 original size:19 final size:19
Alignment explanation
Indices: 2837163--2837258 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
2837153 TAAATGAAAA
* *
2837163 TTTTG-AAACACGAGATTT
1 TTTTGAAAACACAAAATTT
* * *
2837181 TTTTAGGAAACACGAATTTT
1 TTTT-GAAAACACAAAATTT
*
2837201 CTTTTTAAAACACGAAAA--T
1 -TTTTGAAAACAC-AAAATTT
2837220 TTTT-AAAACACAAAATTT
1 TTTTGAAAACACAAAATTT
*
2837238 TTTTGAAAACATAAAATTT
1 TTTTGAAAACACAAAATTT
2837257 TT
1 TT
2837259 GATAAAATAC
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
16 4 0.06
17 7 0.11
18 13 0.20
19 17 0.27
20 17 0.27
21 6 0.09
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (19 bp):
TTTTGAAAACACAAAATTT
Found at i:2837260 original size:17 final size:16
Alignment explanation
Indices: 2837202--2837258 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 16
2837192 ACGAATTTTC
2837202 TTTTTAAAACACGAAAA
1 TTTTTAAAACAC-AAAA
2837219 TTTTTAAAACACAAAA
1 TTTTTAAAACACAAAA
*
2837235 TTTTTTTGAAAACATAAAA
1 --TTTTT-AAAACACAAAA
2837254 TTTTT
1 TTTTT
2837259 GATAAAATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 4 0.11
17 17 0.47
18 5 0.14
19 10 0.28
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (16 bp):
TTTTTAAAACACAAAA
Found at i:2837265 original size:19 final size:18
Alignment explanation
Indices: 2837202--2837265 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
2837192 ACGAATTTTC
2837202 TTTT-TAAAACACGAAAA-
1 TTTTATAAAACAC-AAAAT
2837219 TTTT-TAAAACACAAAAT
1 TTTTATAAAACACAAAAT
* *
2837236 TTTTTTGAAAACATAAAAT
1 TTTTAT-AAAACACAAAAT
2837255 TTTTGATAAAA
1 TTTT-ATAAAA
2837266 TACGAAACAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.10
17 16 0.39
18 1 0.02
19 19 0.46
20 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
TTTTATAAAACACAAAAT
Found at i:2837308 original size:35 final size:34
Alignment explanation
Indices: 2837269--2837510 Score: 154
Period size: 35 Copynumber: 6.8 Consensus size: 34
2837259 GATAAAATAC
2837269 GAAACACGAGGATTTTTTG-AAACACGAAAATTTAT
1 GAAACACG-GGATTTTTTGAAAACACGAAAATTT-T
*
2837304 GAAACACGGTCAATTTTTTTGAAAACACGAAAATTTTT
1 GAAACACGG--GA-TTTTTTGAAAACACGAAAA-TTTT
* * * *
2837342 GAAAGACCGGATTTTTTGAAAACATGGAAATTTAT
1 GAAACACGGGATTTTTTGAAAACACGAAAATTT-T
* *
2837377 GAAACACGGAATTTTTTTGAAAACAAGAAAATTTT
1 GAAACACGGGA-TTTTTTGAAAACACGAAAATTTT
* * * *
2837412 CGGAATACGGGA-CTTTTGAAAACAAGGAAAATTTTTT
1 -GAAACACGGGATTTTTTGAAAAC-ACGAAAA--TTTT
** * *
2837449 GAAAACACGACAATTTTTG-AAACACTG-GAATTTT
1 G-AAACACGGGATTTTTTGAAAACAC-GAAAATTTT
*
2837483 GAAAACACGAAGA-TTTTTG-AAACACGAA
1 G-AAACACG-GGATTTTTTGAAAACACGAA
2837511 TTTTTTTTTT
Statistics
Matches: 166, Mismatches: 25, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
33 1 0.01
34 39 0.23
35 43 0.26
36 34 0.20
37 22 0.13
38 24 0.14
39 3 0.02
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (34 bp):
GAAACACGGGATTTTTTGAAAACACGAAAATTTT
Found at i:2837356 original size:36 final size:36
Alignment explanation
Indices: 2837281--2837410 Score: 167
Period size: 35 Copynumber: 3.6 Consensus size: 36
2837271 AACACGAGGA
2837281 TTTTTTG-AAACACGAAAATTTATGAAACACGGTCAAT
1 TTTTTTGAAAACACGAAAATTTATGAAACACGG--AAT
* *
2837318 TTTTTTGAAAACACGAAAATTTTTGAAAGACCGG-A-
1 TTTTTTGAAAACACGAAAATTTATGAAACA-CGGAAT
* *
2837353 TTTTTTGAAAACATGGAAATTTATGAAACACGGAAT
1 TTTTTTGAAAACACGAAAATTTATGAAACACGGAAT
*
2837389 TTTTTTGAAAACAAGAAAATTT
1 TTTTTTGAAAACACGAAAATTT
2837411 TCGGAATACG
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
34 3 0.04
35 27 0.33
36 21 0.26
37 7 0.09
38 20 0.25
39 3 0.04
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (36 bp):
TTTTTTGAAAACACGAAAATTTATGAAACACGGAAT
Found at i:2837444 original size:71 final size:73
Alignment explanation
Indices: 2837278--2837466 Score: 217
Period size: 71 Copynumber: 2.6 Consensus size: 73
2837268 CGAAACACGA
* * *
2837278 GGATTTTTTG-AAAC-ACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACACGAAAATTTT
1 GGATCTTTTGAAAACAAGGAAAATTTATGAAACACGG-CAATTTTTTTGAAAACAAGAAAATTTT
*
2837341 TGAAAGACC
65 CGAAAGACC
* *
2837350 GGATTTTTTGAAAACATGG-AAATTTATGAAACACGG-AATTTTTTTGAAAACAAGAAAATTTTC
1 GGATCTTTTGAAAACAAGGAAAATTTATGAAACACGGCAATTTTTTTGAAAACAAGAAAATTTTC
* * *
2837413 GGAATACG
66 GAAAGACC
* *
2837421 GGA-CTTTTGAAAACAAGGAAAATTTTTTGAAAACACGACAATTTTT
1 GGATCTTTTGAAAACAAGGAAAA-TTTATG-AAACACGGCAATTTTT
2837467 GAAACACTGG
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
70 13 0.13
71 36 0.36
72 15 0.15
73 28 0.28
74 8 0.08
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (73 bp):
GGATCTTTTGAAAACAAGGAAAATTTATGAAACACGGCAATTTTTTTGAAAACAAGAAAATTTTC
GAAAGACC
Found at i:2837466 original size:20 final size:20
Alignment explanation
Indices: 2837425--2837470 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2837415 AATACGGGAC
*
2837425 TTTTGAAAACAAGGAAAATT
1 TTTTGAAAACAACGAAAATT
*
2837445 TTTTGAAAAC-ACGACAA-T
1 TTTTGAAAACAACGAAAATT
2837463 TTTTGAAA
1 TTTTGAAA
2837471 CACTGGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 5 0.21
20 10 0.42
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (20 bp):
TTTTGAAAACAACGAAAATT
Found at i:2837471 original size:17 final size:17
Alignment explanation
Indices: 2837319--2837515 Score: 111
Period size: 17 Copynumber: 11.3 Consensus size: 17
2837309 ACGGTCAATT
2837319 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACG-AAA
* *
2837337 TTTTTGAAAGAC-CGGAT
1 TTTTTGAAA-ACACGAAA
*
2837354 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACA-CGAAA
* *
2837372 TTTATG-AAACACGGAATT
1 TTTTTGAAAACAC-GAA-A
*
2837390 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACG-AAA
* * * **
2837408 TTTTCG-GAATACGGGA
1 TTTTTGAAAACACGAAA
* *
2837424 CTTTTGAAAACAAGGAAAA
1 TTTTTGAAAAC-ACG-AAA
2837443 TTTTTTGAAAACACGACAA
1 -TTTTTGAAAACACGA-AA
*
2837462 TTTTTG-AAACACTGGAA
1 TTTTTGAAAACAC-GAAA
2837479 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
2837496 TTTTTG-AAACACG-AA
1 TTTTTGAAAACACGAAA
2837511 TTTTT
1 TTTTT
2837516 TTTTTTTAAA
Statistics
Matches: 135, Mismatches: 28, Indels: 35
0.68 0.14 0.18
Matches are distributed among these distances:
15 6 0.04
16 15 0.11
17 46 0.34
18 44 0.33
19 14 0.10
20 10 0.07
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:2837517 original size:17 final size:18
Alignment explanation
Indices: 2837270--2837510 Score: 96
Period size: 18 Copynumber: 13.5 Consensus size: 18
2837260 ATAAAATACG
*
2837270 AAACACGAGGATTTTTTG-
1 AAACACGAAGA-TTTTTGA
* *
2837288 AAACACGAAAATTTATG-
1 AAACACGAAGATTTTTGA
**
2837305 AAACACGGTCAATTTTTTTGA
1 AAACAC-G--AAGATTTTTGA
*
2837326 AAACACGAAAATTTTTGA
1 AAACACGAAGATTTTTGA
2837344 AAGAC-CG--GATTTTTTGA
1 AA-ACACGAAGA-TTTTTGA
* *
2837361 AAACATGGAA-ATTTATG-
1 AAACA-CGAAGATTTTTGA
**
2837378 AAACACGGAATTTTTTTGA
1 AAACAC-GAAGATTTTTGA
* * *
2837397 AAACAAGAAAATTTTCG-
1 AAACACGAAGATTTTTGA
* * * *
2837414 GAATACG-GGACTTTTGA
1 AAACACGAAGATTTTTGA
* *
2837431 AAACAAGGAAAATTTTTTGA
1 AAAC-ACGAAGA-TTTTTGA
2837451 AAACACGACA-ATTTTTG-
1 AAACACGA-AGATTTTTGA
*
2837468 AAACACTG--GAATTTTGA
1 AAACAC-GAAGATTTTTGA
2837485 AAACACGAAGATTTTTG-
1 AAACACGAAGATTTTTGA
2837502 AAACACGAA
1 AAACACGAA
2837511 TTTTTTTTTT
Statistics
Matches: 166, Mismatches: 34, Indels: 47
0.67 0.14 0.19
Matches are distributed among these distances:
16 15 0.09
17 55 0.33
18 58 0.35
19 13 0.08
20 19 0.11
21 6 0.04
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (18 bp):
AAACACGAAGATTTTTGA
Found at i:2837686 original size:17 final size:17
Alignment explanation
Indices: 2837635--2837686 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
2837625 AGAAATTATT
*
2837635 TTTTTGAAAACACGAACA
1 TTTTTGAAAACACGGA-A
* *
2837653 TTTTT-CAAACAAGGGAA
1 TTTTTGAAAAC-ACGGAA
2837670 TTTTTGAAAACACGGAA
1 TTTTTGAAAACACGGAA
2837687 AATTATTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (17 bp):
TTTTTGAAAACACGGAA
Found at i:2838234 original size:14 final size:14
Alignment explanation
Indices: 2838215--2838252 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
2838205 GAAAATGGGC
2838215 CTTTTCTCTTTTTT
1 CTTTTCTCTTTTTT
2838229 CTTTTCT-TTTTTT
1 CTTTTCTCTTTTTT
2838242 CTTTT-TCTTTT
1 CTTTTCTCTTTT
2838253 CTGCAGATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.04
13 15 0.65
14 7 0.30
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
CTTTTCTCTTTTTT
Found at i:2838368 original size:19 final size:19
Alignment explanation
Indices: 2838344--2838391 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
2838334 TGCTGTTCTG
*
2838344 GGCTTGCTGGACTGGGTCA
1 GGCTTGCTGGACTGGGACA
* * *
2838363 GGCTTGTTGGGCTTGGACA
1 GGCTTGCTGGACTGGGACA
*
2838382 GGCCTGCTGG
1 GGCTTGCTGG
2838392 CCTTTTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.08, C:0.21, G:0.44, T:0.27
Consensus pattern (19 bp):
GGCTTGCTGGACTGGGACA
Found at i:2838420 original size:23 final size:22
Alignment explanation
Indices: 2838385--2838429 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
2838375 TTGGACAGGC
2838385 CTGCTGGCCTTTTTTTTCTGCTG
1 CTGCTGGCCTTTTTTTT-TGCTG
* *
2838408 CTGCTTGCTTTTTTTTTTGCTG
1 CTGCTGGCCTTTTTTTTTGCTG
2838430 GTTGCTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.00, C:0.22, G:0.20, T:0.58
Consensus pattern (22 bp):
CTGCTGGCCTTTTTTTTTGCTG
Found at i:2838575 original size:11 final size:11
Alignment explanation
Indices: 2838561--2838614 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 11
2838551 TTATTTTTTG
2838561 TTCTTTTTTCT
1 TTCTTTTTTCT
2838572 TTCTCTTTTTCT
1 TTCT-TTTTTCT
2838584 TCTCTCTTTTTCT
1 T-TCT-TTTTTCT
*
2838597 TCCTTTTTT-T
1 TTCTTTTTTCT
2838607 TTCTTTTT
1 TTCTTTTT
2838615 CTTCTTCTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
10 8 0.21
11 9 0.23
12 10 0.26
13 12 0.31
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTCTTTTTTCT
Found at i:2838580 original size:13 final size:13
Alignment explanation
Indices: 2838562--2838620 Score: 58
Period size: 11 Copynumber: 4.8 Consensus size: 13
2838552 TATTTTTTGT
2838562 TCTTTTTTCTTTC
1 TCTTTTTTCTTTC
2838575 TC-TTTTTC-TTC
1 TCTTTTTTCTTTC
2838586 TCTCTTTTTC-TTC
1 TCT-TTTTTCTTTC
2838599 -CTTTTTT-TTTC
1 TCTTTTTTCTTTC
2838610 T-TTTTCTTCTT
1 TCTTTT-TTCTT
2838621 CTTCCTCGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
11 17 0.43
12 10 0.25
13 13 0.32
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTTTTCTTTC
Found at i:2838584 original size:6 final size:6
Alignment explanation
Indices: 2838565--2838623 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
2838555 TTTTTGTTCT
* * *
2838565 TTTTTC TTTCTC TTTTTC TTCTCTC TTTTTC TTCCTTTT TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TT--TTTC TTTTTC TTTTTC
*
2838616 TTCTTC TT
1 TTTTTC TT
2838624 CCTCGGGCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
6 33 0.77
7 5 0.12
8 5 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:2838730 original size:14 final size:15
Alignment explanation
Indices: 2838707--2838750 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
2838697 CCTCCCCTTC
*
2838707 TCTTCCTCTCTTCTT
1 TCTTTCTCTCTTCTT
2838722 TCTTT-TCTCTTCTT
1 TCTTTCTCTCTTCTT
2838736 T-TTTCTCTCTT-TT
1 TCTTTCTCTCTTCTT
2838749 TC
1 TC
2838751 CTTTGGGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TCTTTCTCTCTTCTT
Found at i:2839289 original size:29 final size:29
Alignment explanation
Indices: 2839237--2839309 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
2839227 GTCAAAGTGA
* *
2839237 AATTTTGAGAAATTTTAGGGGTTGAAATAT
1 AATTTTGA-AAAGTTCAGGGGTTGAAATAT
*
2839267 AATTTTGAAAAGTTCAGGGGTTGAAATGT
1 AATTTTGAAAAGTTCAGGGGTTGAAATAT
**
2839296 AATTTAAAAAAGTT
1 AATTTTGAAAAGTT
2839310 TTGGGGCCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 30 0.79
30 8 0.21
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (29 bp):
AATTTTGAAAAGTTCAGGGGTTGAAATAT
Found at i:2839315 original size:29 final size:29
Alignment explanation
Indices: 2839249--2839330 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
2839239 TTTTGAGAAA
* **
2839249 TTTTAGGGGTTGAAATATAATTTTGAAAAG
1 TTTT-GGGGTTGAAATGTAATTTAAAAAAG
**
2839279 TTCAGGGGTTGAAATGTAATTTAAAAAAG
1 TTTTGGGGTTGAAATGTAATTTAAAAAAG
***
2839308 TTTTGGGGCCAAAATGTAATTTA
1 TTTTGGGGTTGAAATGTAATTTA
2839331 TATTTTTTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 40 0.95
30 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
TTTTGGGGTTGAAATGTAATTTAAAAAAG
Found at i:2839886 original size:15 final size:15
Alignment explanation
Indices: 2839866--2839913 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
2839856 GAAATACATG
*
2839866 GAAATAATGGTATAT
1 GAAATAATGATATAT
*
2839881 GAAATATTGATATAAT
1 GAAATAATGATAT-AT
2839897 GAAATGAATGATATAT
1 GAAAT-AATGATATAT
2839913 G
1 G
2839914 TTTATGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.39
16 10 0.36
17 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (15 bp):
GAAATAATGATATAT
Found at i:2841567 original size:20 final size:20
Alignment explanation
Indices: 2841542--2841579 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2841532 TGTTGAGTCA
2841542 GGAATCACTTCTTGGATGCT
1 GGAATCACTTCTTGGATGCT
2841562 GGAATCACTTCTTGGATG
1 GGAATCACTTCTTGGATG
2841580 TAACACCCCT
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:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (20 bp):
GGAATCACTTCTTGGATGCT
Found at i:2843942 original size:23 final size:25
Alignment explanation
Indices: 2843916--2843962 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2843906 AATTTAATTA
2843916 TTAATT-TTTGA-ATATATTATTTT
1 TTAATTCTTTGACATATATTATTTT
* *
2843939 TTAATTCTTTTACTTATATTATTT
1 TTAATTCTTTGACATATATTATTT
2843963 ATATAACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 4 0.20
25 10 0.50
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
TTAATTCTTTGACATATATTATTTT
Found at i:2843973 original size:25 final size:25
Alignment explanation
Indices: 2843928--2843975 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2843918 AATTTTTGAA
* *
2843928 TATATTATTTTTTAATTCTTTTACT
1 TATATTATTTTATAATCCTTTTACT
2843953 TATATTATTTATATAA-CCTTTTA
1 TATATTATTT-TATAATCCTTTTA
2843976 AATTGAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTATTTTATAATCCTTTTACT
Found at i:2849466 original size:21 final size:21
Alignment explanation
Indices: 2849442--2849491 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
2849432 GAGCTTACAA
2849442 GAGCAAATACAAGTGATGAAG
1 GAGCAAATACAAGTGATGAAG
2849463 GAGCAAATACAAGTGATGAAG
1 GAGCAAATACAAGTGATGAAG
2849484 GAGCAAAT
1 GAGCAAAT
2849492 GGCATAGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.28, T:0.14
Consensus pattern (21 bp):
GAGCAAATACAAGTGATGAAG
Found at i:2858142 original size:31 final size:31
Alignment explanation
Indices: 2858104--2858173 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
2858094 AAATACGTTG
2858104 ACATGGCATTATAAACAAATAGTATGGTGAT
1 ACATGGCATTATAAACAAATAGTATGGTGAT
* *
2858135 ACATGGCATTATCAACCAATAGTATGGTGAT
1 ACATGGCATTATAAACAAATAGTATGGTGAT
2858166 ACATGGCA
1 ACATGGCA
2858174 ACGTCATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (31 bp):
ACATGGCATTATAAACAAATAGTATGGTGAT
Found at i:2858445 original size:27 final size:28
Alignment explanation
Indices: 2858402--2858459 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
2858392 TTCGAAATTT
2858402 AAAATATATAATATTA-TAAAA-ACTTAA
1 AAAATATATAATATTATTAAAATA-TTAA
2858429 AAAATATATAA-ATTTATTAAAATATTAA
1 AAAATATATAATA-TTATTAAAATATTAA
2858457 AAA
1 AAA
2858460 TATTAGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.04
27 14 0.50
28 12 0.43
29 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAATATATAATATTATTAAAATATTAA
Found at i:2858703 original size:23 final size:24
Alignment explanation
Indices: 2858664--2858730 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 24
2858654 TTATACATTT
*
2858664 TATATATTTTA-ACAAAT-ATATTG
1 TATATATTTTATA-AAATAAGATTG
*
2858687 TATATATTTTATAAAATGCAAGATTT
1 TATATATTTTATAAAAT--AAGATTG
2858713 TATATATATTTATAAAAT
1 TATATAT-TTTATAAAAT
2858731 CTTATTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 15 0.41
24 1 0.03
26 11 0.30
27 10 0.27
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (24 bp):
TATATATTTTATAAAATAAGATTG
Found at i:2859199 original size:18 final size:20
Alignment explanation
Indices: 2859156--2859192 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2859146 TTAACCCAAA
2859156 AAAATATAAAGTAAAAAATC
1 AAAATATAAAGTAAAAAATC
*
2859176 AAAATATATA-TAAAAAA
1 AAAATATAAAGTAAAAAA
2859193 GAAAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (20 bp):
AAAATATAAAGTAAAAAATC
Found at i:2863658 original size:93 final size:92
Alignment explanation
Indices: 2863498--2863775 Score: 335
Period size: 93 Copynumber: 3.0 Consensus size: 92
2863488 TGATGACAAT
* * * *
2863498 TTATGGTTTTGGTGCTTTTATTATATCTAGATTTGGGATTTAGTCCTTAAAATTTAATTTGACAT
1 TTATGGTTTTGGT-CTTTTATTATA-CCAGATTTGAGATTTAGTCCCTATAATTTAATTTGACAT
2863563 AATTTTTCTAT-TACTTTTATAATATCAAA
64 AATTTTTC-ATCTACTTTTATAATATCAAA
* *
2863592 TTATGGTTTTGGTCTTTTTATTATACCGGAATTTGAGA-TTAGTCCCTATAATTTAATTTGGCAT
1 TTATGGTTTTGGTC-TTTTATTATACCAG-ATTTGAGATTTAGTCCCTATAATTTAATTTGACAT
* *
2863656 AATTTTTCATCAACTTTTATGATATCAAA
64 AATTTTTCATCTACTTTTATAATATCAAA
* * * * *
2863685 TTGTGATTTTGGTCCTTTTATTATACTCATATATGAGATTTAGTCCCTATCATTTAATTTGACAC
1 TTATGGTTTTGGT-CTTTTATTATAC-CAGATTTGAGATTTAGTCCCTATAATTTAATTTGACA-
* *
2863750 AAACTTTTCATCTACTTTTATAATAT
63 TAATTTTTCATCTACTTTTATAATAT
2863776 AATTAGTTGC
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
92 2 0.01
93 79 0.50
94 55 0.35
95 22 0.14
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (92 bp):
TTATGGTTTTGGTCTTTTATTATACCAGATTTGAGATTTAGTCCCTATAATTTAATTTGACATAA
TTTTTCATCTACTTTTATAATATCAAA
Found at i:2864054 original size:90 final size:90
Alignment explanation
Indices: 2863897--2864065 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 90
2863887 CTATTAAACC
* *
2863897 ATGATTTAGTTAGTCCAAATAATTACCATGGTTAATAATTTCGATTAAAGCGTTGAAGTGGAATT
1 ATGATTTAGTTAGTCCAAATAACTACCATGATTAATAATTTCGATTAAAGCGTTGAAGTGGAATT
*
2863962 TTCCTTAAACATACACGGTTAAGCA
66 TTCCGTAAACATACACGGTTAAGCA
* ** *
2863987 ATGATTTAGTTAGTCCAAATAACTATCATGATTAATAATTTC-AGTTAAATTGTTGAGGT-GAAT
1 ATGATTTAGTTAGTCCAAATAACTACCATGATTAATAATTTCGA-TTAAAGCGTTGAAGTGGAA-
2864050 TTTTCCGTAAACATAC
64 TTTTCCGTAAACATAC
2864066 TTATTCTGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 4 0.06
90 66 0.94
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (90 bp):
ATGATTTAGTTAGTCCAAATAACTACCATGATTAATAATTTCGATTAAAGCGTTGAAGTGGAATT
TTCCGTAAACATACACGGTTAAGCA
Found at i:2864373 original size:18 final size:19
Alignment explanation
Indices: 2864344--2864379 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
2864334 TAATAAACAT
2864344 TAAAAAATTATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
2864363 TAAAAAA-TATTTTAAAA
1 TAAAAAATTATTTTAAAA
2864380 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:2866629 original size:22 final size:22
Alignment explanation
Indices: 2866604--2866648 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
2866594 GGTGAAATTG
2866604 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
2866626 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
2866648 T
1 T
2866649 CTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:2871645 original size:16 final size:17
Alignment explanation
Indices: 2871614--2871647 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2871604 GTATAAAATT
2871614 AAATATTAATTTTTAAA
1 AAATATTAATTTTTAAA
*
2871631 AAATATTTA-TTTTAAA
1 AAATATTAATTTTTAAA
2871647 A
1 A
2871648 TCTAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTAATTTTTAAA
Found at i:2871727 original size:20 final size:20
Alignment explanation
Indices: 2871702--2871743 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2871692 TGGATGAAAA
2871702 ATAAATATGATGATTTCAGT
1 ATAAATATGATGATTTCAGT
*
2871722 ATAAATATGATGATTTGAGT
1 ATAAATATGATGATTTCAGT
2871742 AT
1 AT
2871744 CTCCTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (20 bp):
ATAAATATGATGATTTCAGT
Found at i:2871997 original size:17 final size:17
Alignment explanation
Indices: 2871971--2872003 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
2871961 CGAATATAAT
2871971 AAATATTTTTTAATTTTA
1 AAATATTTTTT-ATTTTA
2871989 AAATA-TTTTTATTTT
1 AAATATTTTTTATTTT
2872004 TTATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AAATATTTTTTATTTTA
Found at i:2875101 original size:9 final size:9
Alignment explanation
Indices: 2875087--2875153 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
2875077 TTTGGTTAAA
2875087 AATTAACCG
1 AATTAACCG
*
2875096 AATTAAACG
1 AATTAACCG
*
2875105 AATTAACTG
1 AATTAACCG
*
2875114 AATTACCCG
1 AATTAACCG
2875123 AATTAACCG
1 AATTAACCG
2875132 AATT-ACTCG
1 AATTAAC-CG
*
2875141 AATTAATCG
1 AATTAACCG
2875150 AATT
1 AATT
2875154 GAATCACTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
8 2 0.04
9 46 0.94
10 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:2875123 original size:27 final size:27
Alignment explanation
Indices: 2875087--2875153 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
2875077 TTTGGTTAAA
2875087 AATTAACCGAATTAAACGAATTAACT-G
1 AATTAACCGAATTAAACGAATT-ACTCG
* *
2875114 AATTACCCGAATTAACCGAATTACTCG
1 AATTAACCGAATTAAACGAATTACTCG
*
2875141 AATTAATCGAATT
1 AATTAACCGAATT
2875154 GAATCACTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTAAACGAATTACTCG
Found at i:2876121 original size:20 final size:20
Alignment explanation
Indices: 2876096--2876141 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2876086 TAAACACAAC
*
2876096 AAAAAAA-AATTTAGAAATTA
1 AAAAAAATAATTTA-AAAATA
*
2876116 AAAAAAATATTTTAAAAATA
1 AAAAAAATAATTTAAAAATA
2876136 AAAAAA
1 AAAAAA
2876142 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAAATAATTTAAAAATA
Found at i:2876134 original size:11 final size:11
Alignment explanation
Indices: 2876118--2876173 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
2876108 AGAAATTAAA
2876118 AAAAATATTTT
1 AAAAATATTTT
2876129 AAAAATA----
1 AAAAATATTTT
2876136 AAAAA-ATTTT
1 AAAAATATTTT
2876146 AAAAAAGTATTTT
1 -AAAAA-TATTTT
2876159 -AAAATATTTT
1 AAAAATATTTT
2876169 AAAAA
1 AAAAA
2876174 AAATATTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
10 6 0.16
11 20 0.54
13 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:2876142 original size:19 final size:17
Alignment explanation
Indices: 2876117--2876150 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
2876107 TAGAAATTAA
2876117 AAAAAATATTTTAAAAAT
1 AAAAAA-ATTTTAAAAAT
2876135 AAAAAAATTTTAAAAA
1 AAAAAAATTTTAAAAA
2876151 AGTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAAATTTTAAAAAT
Found at i:2876151 original size:18 final size:19
Alignment explanation
Indices: 2876096--2876151 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2876086 TAAACACAAC
* * *
2876096 AAAAAAAAATTTAGAAATT
1 AAAAAAAATTTTAAAAAAT
*
2876115 AAAAAAAATATTTTAAAAAT
1 AAAAAAAAT-TTTAAAAAAT
2876135 -AAAAAAATTTTAAAAAA
1 AAAAAAAATTTTAAAAAA
2876152 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 8 0.26
19 16 0.52
20 7 0.23
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAAAATTTTAAAAAAT
Found at i:2876182 original size:23 final size:23
Alignment explanation
Indices: 2876136--2876181 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
2876126 TTTAAAAATA
*
2876136 AAAAAATTTTAAAAAAGTATTTT
1 AAAAAATTTTAAAAAAATATTTT
*
2876159 AAAATATTTTAAAAAAAATATTT
1 AAAAAATTTT-AAAAAAATATTT
2876182 ATTATATTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAAAATTTTAAAAAAATATTTT
Found at i:2878575 original size:138 final size:138
Alignment explanation
Indices: 2878327--2878604 Score: 504
Period size: 138 Copynumber: 2.0 Consensus size: 138
2878317 GAGGCTTAAA
* *
2878327 AACGTATGGATGCTTTGAGGAGTCCCTGTTTTGAATTTTAGAATCATATGTAATTTCTTTAAAAT
1 AACGTATGGATGCTTTCAGGAGTCCCTGTTTTGAATTTTAGAACCATATGTAATTTCTTTAAAAT
2878392 TTGGCATTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTA
66 TTGGCATTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTA
2878457 TTTGATTT
131 TTTGATTT
*
2878465 AACGTCTGGATGCTTTCAGGAGTCCCTGTTTTGAATTTTAGAACCATATGTAATTTCTTTAGAAA
1 AACGTATGGATGCTTTCAGGAGTCCCTGTTTTGAATTTTAGAACCATATGTAATTTCTTTA-AAA
*
2878530 -TTGGCATTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTT
65 TTTGGCATTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTT
2878594 ATTTGATTT
130 ATTTGATTT
2878603 AA
1 AA
2878605 AATTTTACAA
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
138 132 0.98
139 3 0.02
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (138 bp):
AACGTATGGATGCTTTCAGGAGTCCCTGTTTTGAATTTTAGAACCATATGTAATTTCTTTAAAAT
TTGGCATTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTA
TTTGATTT
Found at i:2889637 original size:26 final size:26
Alignment explanation
Indices: 2889588--2889637 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2889578 TGGTTTCCTT
*
2889588 AACTATAGTTTCTTATTCTTCAAGTA
1 AACTATAGTTTCTTATTCTACAAGTA
*
2889614 AACTTTAGTTTCTTAGTT-TACAAG
1 AACTATAGTTTCTTA-TTCTACAAG
2889638 AATAAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (26 bp):
AACTATAGTTTCTTATTCTACAAGTA
Found at i:2889800 original size:29 final size:29
Alignment explanation
Indices: 2889742--2889801 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
2889732 TTCTAATGAG
** *
2889742 TCTAAGGTTAGGAGCTCCATTTGACTAGT
1 TCTAAGGTTAGGAGCTCCATTCAACGAGT
*
2889771 TCTAAGGTTAGGAGCTCCCTTCAACGAGT
1 TCTAAGGTTAGGAGCTCCATTCAACGAGT
2889800 TC
1 TC
2889802 CATACGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (29 bp):
TCTAAGGTTAGGAGCTCCATTCAACGAGT
Found at i:2911924 original size:186 final size:186
Alignment explanation
Indices: 2911610--2911986 Score: 754
Period size: 186 Copynumber: 2.0 Consensus size: 186
2911600 GAAAGCTAAA
2911610 ATGGATTTAGATTCACGATAGTTGGTTCCTCTCTTTTACACCCTTGCAATTTGGTGAAGACATTG
1 ATGGATTTAGATTCACGATAGTTGGTTCCTCTCTTTTACACCCTTGCAATTTGGTGAAGACATTG
2911675 ACAACACCCAACTTGGAACATGCAACCTGATCTACTGTGTGTAAATGTTTGACTGCAACTTCTTT
66 ACAACACCCAACTTGGAACATGCAACCTGATCTACTGTGTGTAAATGTTTGACTGCAACTTCTTT
2911740 GTTTTCTACCTATTCATGAATGAAGTGGAAGTCGTTTGCACATGTTTCATTCAGTT
131 GTTTTCTACCTATTCATGAATGAAGTGGAAGTCGTTTGCACATGTTTCATTCAGTT
2911796 ATGGATTTAGATTCACGATAGTTGGTTCCTCTCTTTTACACCCTTGCAATTTGGTGAAGACATTG
1 ATGGATTTAGATTCACGATAGTTGGTTCCTCTCTTTTACACCCTTGCAATTTGGTGAAGACATTG
2911861 ACAACACCCAACTTGGAACATGCAACCTGATCTACTGTGTGTAAATGTTTGACTGCAACTTCTTT
66 ACAACACCCAACTTGGAACATGCAACCTGATCTACTGTGTGTAAATGTTTGACTGCAACTTCTTT
2911926 GTTTTCTACCTATTCATGAATGAAGTGGAAGTCGTTTGCACATGTTTCATTCAGTT
131 GTTTTCTACCTATTCATGAATGAAGTGGAAGTCGTTTGCACATGTTTCATTCAGTT
2911982 ATGGA
1 ATGGA
2911987 AGACATGGTT
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 191 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (186 bp):
ATGGATTTAGATTCACGATAGTTGGTTCCTCTCTTTTACACCCTTGCAATTTGGTGAAGACATTG
ACAACACCCAACTTGGAACATGCAACCTGATCTACTGTGTGTAAATGTTTGACTGCAACTTCTTT
GTTTTCTACCTATTCATGAATGAAGTGGAAGTCGTTTGCACATGTTTCATTCAGTT
Found at i:2917662 original size:11 final size:12
Alignment explanation
Indices: 2917645--2917673 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
2917635 ATCATTAATA
2917645 AATAAATGAGTC
1 AATAAATGAGTC
2917657 -ATAAATGAGTC
1 AATAAATGAGTC
2917668 AATAAA
1 AATAAA
2917674 CAAGCTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (12 bp):
AATAAATGAGTC
Found at i:2929972 original size:50 final size:50
Alignment explanation
Indices: 2929856--2930040 Score: 225
Period size: 50 Copynumber: 3.7 Consensus size: 50
2929846 GATAATAACA
* *
2929856 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
2929905 -GCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
2929954 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
2930004 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
2930041 TCTCTTTACC
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.03
48 37 0.32
50 74 0.64
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:2932397 original size:18 final size:20
Alignment explanation
Indices: 2932378--2932416 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2932368 GAGCAGACCA
2932378 TGCAGCTAGAGCC-ATGCATGT
1 TGCAGCTAGAGCCTATGCA--T
2932399 TGCAGCTAGAGCCTATGC
1 TGCAGCTAGAGCCTATGC
2932417 TACTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (20 bp):
TGCAGCTAGAGCCTATGCAT
Found at i:2938070 original size:14 final size:14
Alignment explanation
Indices: 2938026--2938109 Score: 53
Period size: 14 Copynumber: 5.9 Consensus size: 14
2938016 GTAATTTGTA
2938026 TATGTGAACCCCCTG
1 TATGTGAA-CCCCTG
* ** *
2938041 TACGTGAGTCCATG
1 TATGTGAACCCCTG
2938055 TATGTGAACCCCTG
1 TATGTGAACCCCTG
* *
2938069 TATGCGAACCAC-G
1 TATGTGAACCCCTG
* * *
2938082 ATAGGCGAACCTCTTG
1 -TATGTGAACC-CCTG
2938098 TATGTGAACCCC
1 TATGTGAACCCC
2938110 CATATATGTG
Statistics
Matches: 50, Mismatches: 16, Indels: 7
0.68 0.22 0.10
Matches are distributed among these distances:
13 1 0.02
14 34 0.68
15 14 0.28
16 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (14 bp):
TATGTGAACCCCTG
Found at i:2938259 original size:15 final size:15
Alignment explanation
Indices: 2938217--2938282 Score: 80
Period size: 15 Copynumber: 4.5 Consensus size: 15
2938207 ATGTGATTTA
*
2938217 ATATGTGAGAACCC-
1 ATATGTGCGAACCCT
**
2938231 ATACATGCGAACCCT
1 ATATGTGCGAACCCT
*
2938246 ATATGTGTGAACCCT
1 ATATGTGCGAACCCT
*
2938261 ATATGTGCGAACCTT
1 ATATGTGCGAACCCT
2938276 ATATGTG
1 ATATGTG
2938283 AACCTATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
14 11 0.26
15 32 0.74
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (15 bp):
ATATGTGCGAACCCT
Found at i:2938259 original size:29 final size:30
Alignment explanation
Indices: 2938217--2938283 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
2938207 ATGTGATTTA
2938217 ATATGTGAGAACCC-ATACATGCGAACCCT
1 ATATGTGAGAACCCTATACATGCGAACCCT
* ** *
2938246 ATATGTGTGAACCCTATATGTGCGAACCTT
1 ATATGTGAGAACCCTATACATGCGAACCCT
2938276 ATATGTGA
1 ATATGTGA
2938284 ACCTATTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (30 bp):
ATATGTGAGAACCCTATACATGCGAACCCT
Found at i:2940959 original size:16 final size:16
Alignment explanation
Indices: 2940938--2940968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2940928 AAAACTTTTT
2940938 TTATAAATGTTATATC
1 TTATAAATGTTATATC
*
2940954 TTATAAATTTTATAT
1 TTATAAATGTTATAT
2940969 TATTATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
TTATAAATGTTATATC
Found at i:2941701 original size:18 final size:17
Alignment explanation
Indices: 2941661--2941709 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
2941651 GTTAAGAACT
* *
2941661 TATTTTTATCATACTAA
1 TATTTTTATAATAATAA
2941678 TAATTTTTATAATAATAAA
1 T-ATTTTTATAATAAT-AA
*
2941697 TATTTTTAAAATA
1 TATTTTTATAATA
2941710 CAAATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.85
19 3 0.11
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTTTTATAATAATAA
Found at i:2946981 original size:21 final size:20
Alignment explanation
Indices: 2946957--2946996 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2946947 AAAATTATAA
2946957 TATAAATATTGAAAAAAATAT
1 TATAAA-ATTGAAAAAAATAT
* *
2946978 TATAAAATTTAATAAAATA
1 TATAAAATTGAAAAAAATA
2946997 AATATATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
TATAAAATTGAAAAAAATAT
Found at i:2947002 original size:21 final size:21
Alignment explanation
Indices: 2946938--2947002 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
2946928 CAATGCAAAG
2946938 TAAAA-TT-ATAAAATTATAATA
1 TAAAATTTAATAAAA-TA-AATA
* * *
2946959 TAAATATTGAAAAAAAT-ATTA
1 TAAA-ATTTAATAAAATAAATA
2946980 TAAAATTTAATAAAATAAATA
1 TAAAATTTAATAAAATAAATA
2947001 TA
1 TA
2947003 TATGTTTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
20 10 0.29
21 16 0.47
22 1 0.03
23 2 0.06
24 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAATTTAATAAAATAAATA
Found at i:2947329 original size:18 final size:18
Alignment explanation
Indices: 2947306--2947348 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2947296 AAATTTAAAT
2947306 ATTAAA-AAAGATCAAAAA
1 ATTAAAGAAAGA-CAAAAA
*
2947324 ATTAAATGAATGACAAAAA
1 ATTAAA-GAAAGACAAAAA
2947343 ATTAAA
1 ATTAAA
2947349 CGCAAAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (18 bp):
ATTAAAGAAAGACAAAAA
Found at i:2954507 original size:242 final size:241
Alignment explanation
Indices: 2954074--2954818 Score: 892
Period size: 254 Copynumber: 3.0 Consensus size: 241
2954064 ATTCAAGAAA
* * *
2954074 AAGATCATTAGTATAATCGTAATACTGTCATCACCCAGTATAATACATTTTCTCGGCAACCATGC
1 AAGAACATTAGTATAATCGAAATACTATCATCA-CCAGTATAATACATTTTCTCGGCAACCATGC
* * * *
2954139 A-ATAATCATTTAAAAAAGAAATAAAACGAACAAGAGCAAGGGGAGAAGATTCTTTACCTTTCTA
65 AGATAATCATTCAAAAAAG----AAAACGAACAAGAGCAAAGGGAGATGATT-TTTACCTTTCCA
* *
2954203 GAGAAATAACCTTTACTTTAGTCTCCCCTT-TGGCTAACTGTCGACCCCTTTTTAAAGAAGAAAT
125 GAGAAAAAACCTTTGCTTTAGTCTCCCCTTCT-GCTAACTGTCGACCCCTTTTTAAAGAAGAAAT
*
2954267 GTTCTTGACTTCTTCTTATTCTTGCTCTGTTTCTTCTTCTCATGAATTTTAAG
189 GTTCTTGACTTCTTCTTGTTCTTGCTCTGTTTCTTCTTCTCATGAATTTTAAG
*
2954320 -AGAACATTAGTATAATCGAAATACTATCATCACCTAGTATAATACATTTTCTCGGCAATCATGC
1 AAGAACATTAGTATAATCGAAATACTATCATCACC-AGTATAATACATTTTCTCGGCAACCATGC
* *
2954384 AGATAATCATTCGAAAAAGAAAACGAACAAGTGCAAAGGGAGATGATTTGTTACCTTTCCAGAGA
65 AGATAATCATTCAAAAAAGAAAACGAACAAGAGCAAAGGGAGATGATTT-TTACCTTTCCAGAGA
* * *
2954449 AAAAACTTTTGCTTTAGTCTCCCCTTCTGCTAACTGTCGACCCTTTTTTAAAGAAGAAATATTCT
129 AAAAACCTTTGCTTTAGTCTCCCCTTCTGCTAACTGTCGACCCCTTTTTAAAGAAGAAATGTTCT
* * * **
2954514 TGA---CTTCTTGTTCTTGCTCTGTTTCTTCACATGAATTTTAAGAGAACATTAGAG
194 TGACTTCTTCTTGTTCTTGCTCTGTTTCTT--C-----TTCTCA-TGAATTTTA-AG
* * * *
2954568 AAAGAGCATTAGTATAATCGAAATACTATCATCACCAGTATAATACATTTTATCAGTAACCATGC
1 -AAGAACATTAGTATAATCGAAATACTATCATCACCAGTATAATACATTTTCTCGGCAACCATGC
* * * *
2954633 GGATAATCATTCAAAAAAAGAAAGAAAACGAACAAGAAC-AAGGAGAGATGATTCATTACCTTCC
65 AGATAATCATTC----AAA-AAAGAAAACGAACAAGAGCAAAGG-GAGATGATT-TTTACCTTTC
* *
2954697 CAGAGAAAAAACCTTTGCTTTAGTCTCCCCTTCTGTTAACTGTCGACCCCTTTTTAAACAAGAAA
123 CAGAGAAAAAACCTTTGCTTTAGTCTCCCCTTCTGCTAACTGTCGACCCCTTTTTAAAGAAGAAA
*
2954762 TGTTCTCGACTTCTTGTTCTTGTTCTTGCTCTGTTTCTTCTTCTCATGAATTTTAAG
188 TGTTCTTGACTTC---TTCTTGTTCTTGCTCTGTTTCTTCTTCTCATGAATTTTAAG
2954819 TTTTGCACGC
Statistics
Matches: 428, Mismatches: 43, Indels: 51
0.82 0.08 0.10
Matches are distributed among these distances:
239 23 0.05
241 2 0.00
242 101 0.24
243 1 0.00
244 2 0.00
245 58 0.14
246 19 0.04
247 6 0.01
248 2 0.00
249 36 0.08
250 33 0.08
251 2 0.00
252 6 0.01
253 10 0.02
254 102 0.24
257 1 0.00
258 1 0.00
260 23 0.05
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (241 bp):
AAGAACATTAGTATAATCGAAATACTATCATCACCAGTATAATACATTTTCTCGGCAACCATGCA
GATAATCATTCAAAAAAGAAAACGAACAAGAGCAAAGGGAGATGATTTTTACCTTTCCAGAGAAA
AAACCTTTGCTTTAGTCTCCCCTTCTGCTAACTGTCGACCCCTTTTTAAAGAAGAAATGTTCTTG
ACTTCTTCTTGTTCTTGCTCTGTTTCTTCTTCTCATGAATTTTAAG
Found at i:2958170 original size:3 final size:3
Alignment explanation
Indices: 2958164--2958188 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2958154 CTTCTTCTTC
2958164 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
2958189 ATTGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2958337 original size:24 final size:26
Alignment explanation
Indices: 2958310--2958357 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
2958300 ATTTTCTATG
*
2958310 TATATCTAATATAA-T-ATACATATA
1 TATATATAATATAATTCATACATATA
*
2958334 TATATATATTATAATTCATACATA
1 TATATATAATATAATTCATACATA
2958358 CATACATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 1 0.05
26 7 0.35
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (26 bp):
TATATATAATATAATTCATACATATA
Found at i:2958448 original size:45 final size:44
Alignment explanation
Indices: 2958353--2958450 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 44
2958343 TATAATTCAT
* *
2958353 ACATACATACATTTTTATATATATTTTATAATTTAAACTATATAT
1 ACATACATACATTTTTATATATATTTTATAATTTAAAC-ACATAC
* * *
2958398 ACATACATATATTCTTTTTATATATTTTATAGTCTTAAA-ACATAC
1 ACATACATACATT-TTTATATATATTTTATAAT-TTAAACACATAC
*
2958443 GCATACAT
1 ACATACAT
2958451 CTATACATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 23 0.51
46 17 0.38
47 5 0.11
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (44 bp):
ACATACATACATTTTTATATATATTTTATAATTTAAACACATAC
Found at i:2960510 original size:17 final size:19
Alignment explanation
Indices: 2960475--2960510 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2960465 AGCACCACAC
2960475 GGCCGTGTGGAAGGGTCTA
1 GGCCGTGTGGAAGGGTCTA
2960494 GGCCGTGT-GAA-GGTCTA
1 GGCCGTGTGGAAGGGTCTA
2960511 CACGGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.17, C:0.17, G:0.44, T:0.22
Consensus pattern (19 bp):
GGCCGTGTGGAAGGGTCTA
Found at i:2960565 original size:25 final size:25
Alignment explanation
Indices: 2960530--2960593 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
2960520 GTGAAAGAGG
2960530 CACACAC--CCGTG-AAAAAGAAGCA
1 CACACACGACCGTGTAAAAA-AAGCA
*
2960553 CACACACGACCGTGTGAAAAAAGCA
1 CACACACGACCGTGTAAAAAAAGCA
**
2960578 CATGCACGACCGTGTA
1 CACACACGACCGTGTA
2960594 GTGAAGACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.21
25 23 0.68
26 4 0.12
ACGTcount: A:0.41, C:0.30, G:0.20, T:0.09
Consensus pattern (25 bp):
CACACACGACCGTGTAAAAAAAGCA
Found at i:2961083 original size:28 final size:28
Alignment explanation
Indices: 2961052--2961108 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
2961042 GATAGATATG
2961052 CTTCAATTCCACCAATTCTGATTCTAAA
1 CTTCAATTCCACCAATTCTGATTCTAAA
2961080 CTTCAATTCCACCAATTCTGATTCTAAA
1 CTTCAATTCCACCAATTCTGATTCTAAA
2961108 C
1 C
2961109 CCCAATGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (28 bp):
CTTCAATTCCACCAATTCTGATTCTAAA
Found at i:2965937 original size:16 final size:16
Alignment explanation
Indices: 2965897--2965938 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2965887 ATAATATGTG
2965897 AATACTATTATTTAAA
1 AATACTATTATTTAAA
*
2965913 AATATTATT-TTTAAA
1 AATACTATTATTTAAA
*
2965928 ATTTACTATTA
1 A-ATACTATTA
2965939 AAATAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
AATACTATTATTTAAA
Found at i:2965962 original size:18 final size:18
Alignment explanation
Indices: 2965924--2965959 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2965914 ATATTATTTT
*
2965924 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
2965942 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
2965960 TAATTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:2966097 original size:9 final size:8
Alignment explanation
Indices: 2966066--2966108 Score: 59
Period size: 8 Copynumber: 5.0 Consensus size: 8
2966056 ATATAATATT
2966066 TATTTTAA
1 TATTTTAA
2966074 TATTTTAA
1 TATTTTAA
2966082 TATTTTAA
1 TATTTTAA
2966090 TAATTTTAAA
1 T-ATTTT-AA
2966100 TATATTTAA
1 TAT-TTTAA
2966109 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.53
9 9 0.28
10 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTTTAA
Found at i:2967533 original size:26 final size:26
Alignment explanation
Indices: 2967504--2967563 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
2967494 TAAAATACTC
* *
2967504 TTAAAATAATTTTTTTATTTTTATTT
1 TTAAAATAATTTTTTAATATTTATTT
2967530 TTAAAATAATTTTTTAATATTTATTT
1 TTAAAATAATTTTTTAATATTTATTT
*
2967556 TAAAAATA
1 TTAAAATA
2967564 GGCCGGGCCG
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:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTAAAATAATTTTTTAATATTTATTT
Found at i:2968070 original size:29 final size:30
Alignment explanation
Indices: 2968005--2968074 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
2967995 ACTATCAAAA
* **
2968005 TAGTCACTTTTGTTTGACTTAGGTTACATTT
1 TAGTCACTTATGTTTGAAATA-GTTACATTT
2968036 TAGTCACTTATGTTTGAAATA-TTACATTT
1 TAGTCACTTATGTTTGAAATAGTTACATTT
2968065 TAGTCACTTA
1 TAGTCACTTA
2968075 CGTTATCGCG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 18 0.50
31 18 0.50
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (30 bp):
TAGTCACTTATGTTTGAAATAGTTACATTT
Found at i:2970875 original size:28 final size:28
Alignment explanation
Indices: 2970822--2970876 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
2970812 AATAAAACAT
*
2970822 AATAATTTAAAAAATATTTGTATTAAAA
1 AATAATTTAAAAAATATTTATATTAAAA
*
2970850 AATAATTT-AAAAATATGTTATTTTAAA
1 AATAATTTAAAAAATAT-TTATATTAAA
2970877 TTCCAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (28 bp):
AATAATTTAAAAAATATTTATATTAAAA
Found at i:2974276 original size:15 final size:15
Alignment explanation
Indices: 2974243--2974275 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2974233 GATTGACTTG
2974243 TTTTATATTTTAATA
1 TTTTATATTTTAATA
2974258 TTTTATATTTTAAT-
1 TTTTATATTTTAATA
2974272 TTTT
1 TTTT
2974276 TTCTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATATTTTAATA
Found at i:2974955 original size:6 final size:6
Alignment explanation
Indices: 2974941--2974975 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
2974931 TCAAGAAATG
*
2974941 AGAAAA AGAACA AGAAAA AGAAAA A-AAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
2974976 TTTCTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:2974958 original size:12 final size:11
Alignment explanation
Indices: 2974941--2974975 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2974931 TCAAGAAATG
2974941 AGAAAAAGAACA
1 AGAAAAAGAA-A
2974953 AGAAAAAGAAA
1 AGAAAAAGAAA
*
2974964 AAAAAAAGAAA
1 AGAAAAAGAAA
2974975 A
1 A
2974976 TTTCTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:2976418 original size:25 final size:23
Alignment explanation
Indices: 2976390--2976440 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
2976380 TTTCGAGCAA
* *
2976390 TTTAATTTTTCTTCTTTTATGTTCT
1 TTTAACTTTTCTT-TTTT-TCTTCT
2976415 TTTAACTTTTCTTTTTTTCTTCT
1 TTTAACTTTTCTTTTTTTCTTCT
2976438 TTT
1 TTT
2976441 TATTCAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
24 4 0.17
25 12 0.50
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTAACTTTTCTTTTTTTCTTCT
Found at i:2988199 original size:3 final size:3
Alignment explanation
Indices: 2988191--2988216 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2988181 CAATTTCTAG
2988191 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2988217 CCCATAATGT
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:2989975 original size:39 final size:39
Alignment explanation
Indices: 2989932--2990010 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
2989922 ATTATCGAGT
2989932 TAATACCATTTTACGTTGATGTATTGCATATACAAACAA
1 TAATACCATTTTACGTTGATGTATTGCATATACAAACAA
*
2989971 TAATACCATTTTACGTTGATTTATTGCATATACAAACAA
1 TAATACCATTTTACGTTGATGTATTGCATATACAAACAA
2990010 T
1 T
2990011 TATATTAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (39 bp):
TAATACCATTTTACGTTGATGTATTGCATATACAAACAA
Found at i:2991471 original size:103 final size:103
Alignment explanation
Indices: 2991290--2991656 Score: 503
Period size: 103 Copynumber: 3.6 Consensus size: 103
2991280 TTGCATATAA
** * *
2991290 AGGGGTTGCTGTGTGCTGATTCCCCTG--TTCATTAGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AGGGGTTGCTAAGTGCTGATTCCCC-GACCTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
2991353 TTTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTTAAATGT-GAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
2991393 AGGGGTTGCTAAGTGCTGATTCCCCTACCT-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACCTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
2991457 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TTAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
2991496 AGGGGTTGCTAAGTGCTGATTCCCCGACC-CATTTGGTGATTGCTAAGTGCTGATTCCACCGCAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACCTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* * *
2991560 CTGAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCA
65 TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* ** * * * *
2991599 AGGAGTTGCTGTGTGCTGATTCCTCGA-TTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACCTCATTGGTGGTTGCTAAGTGCTGATTCCACC
2991657 AACAACGGTT
Statistics
Matches: 239, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
101 18 0.08
102 7 0.03
103 175 0.73
104 39 0.16
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGACCTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:2993061 original size:19 final size:19
Alignment explanation
Indices: 2993037--2993074 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2993027 CAAGTGTGTA
2993037 TCTACTTTAGTGGTTAAGT
1 TCTACTTTAGTGGTTAAGT
2993056 TCTACTTTAGTGGTTAAGT
1 TCTACTTTAGTGGTTAAGT
2993075 GTTTTTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (19 bp):
TCTACTTTAGTGGTTAAGT
Found at i:3004194 original size:12 final size:12
Alignment explanation
Indices: 3004177--3004221 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
3004167 AACATTAAAT
3004177 AATTAAATTTTA
1 AATTAAATTTTA
*
3004189 AATTAAA--CT-
1 AATTAAATTTTA
3004198 AATTAAATTTTA
1 AATTAAATTTTA
3004210 AATTAAACTTTT
1 AATTAAA-TTTT
3004222 CAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
9 7 0.26
10 1 0.04
11 1 0.04
12 14 0.52
13 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTTTA
Found at i:3004202 original size:21 final size:21
Alignment explanation
Indices: 3004170--3004218 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
3004160 TGACAATAAC
3004170 ATTAAA-TAATTAAATTTTAA
1 ATTAAACTAATTAAATTTTAA
3004190 ATTAAACTAATTAAATTTTAA
1 ATTAAACTAATTAAATTTTAA
3004211 ATTAAACT
1 ATTAAACT
3004219 TTTCAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAAACTAATTAAATTTTAA
Found at i:3018259 original size:26 final size:26
Alignment explanation
Indices: 3018229--3018326 Score: 126
Period size: 26 Copynumber: 3.7 Consensus size: 26
3018219 TTCCTTATTT
*
3018229 GCCACAAAGGCATTCTTTCATATTAT
1 GCCACAAAGGCATTCTTTCATATTAC
*
3018255 GCCACAAAGGCTTTCTTTCATATTAC
1 GCCACAAAGGCATTCTTTCATATTAC
3018281 GCCACAAAGG-ATTTTCTTTCATATTAC
1 GCCACAAAGGCA--TTCTTTCATATTAC
* * *
3018308 GTCATAAAGGCTTTCTTTC
1 GCCACAAAGGCATTCTTTC
3018327 TTCATATTAC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
26 41 0.65
27 22 0.35
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (26 bp):
GCCACAAAGGCATTCTTTCATATTAC
Found at i:3018304 original size:27 final size:27
Alignment explanation
Indices: 3018229--3018356 Score: 118
Period size: 26 Copynumber: 4.7 Consensus size: 27
3018219 TTCCTTATTT
*
3018229 GCCACAAAGGCA--TTCTTTCATATTAT
1 GCCACAAAGG-ATTTTCTTTCATATTAC
*
3018255 GCCACAAAGG-CTTTCTTTCATATTAC
1 GCCACAAAGGATTTTCTTTCATATTAC
3018281 GCCACAAAGGATTTTCTTTCATATTAC
1 GCCACAAAGGATTTTCTTTCATATTAC
* * * *
3018308 GTCATAAAGGCTTTCTTTCTTCATATTAC
1 GCCACAAAGGATTT-TCT-TTCATATTAC
** * *
3018337 ATCACAAAAGCTTTTCTTTC
1 GCCACAAAGGATTTTCTTTC
3018357 CTAACGTGTT
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
26 33 0.38
27 29 0.33
28 4 0.05
29 21 0.24
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (27 bp):
GCCACAAAGGATTTTCTTTCATATTAC
Found at i:3018353 original size:30 final size:30
Alignment explanation
Indices: 3018293--3018356 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
3018283 CACAAAGGAT
* * *
3018293 TTTCTTTCATATTACGTCATAAAGGCTTTC
1 TTTCTTTCATATTACATCACAAAAGCTTTC
3018323 TTTC-TTCATATTACATCACAAAAGCTTTTC
1 TTTCTTTCATATTACATCACAAAAGC-TTTC
3018353 TTTC
1 TTTC
3018357 CTAACGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (30 bp):
TTTCTTTCATATTACATCACAAAAGCTTTC
Found at i:3018981 original size:19 final size:19
Alignment explanation
Indices: 3018945--3018983 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3018935 CCGTCACACC
*
3018945 AAAATTTAATTAATTTTTT
1 AAAATTTAATAAATTTTTT
3018964 AAAATTTAA-AAATATTTTT
1 AAAATTTAATAAAT-TTTTT
3018983 A
1 A
3018984 TAAGTGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATTTAATAAATTTTTT
Found at i:3025280 original size:6 final size:6
Alignment explanation
Indices: 3025215--3025276 Score: 106
Period size: 6 Copynumber: 10.3 Consensus size: 6
3025205 GAGTGAGTAT
3025215 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
1 TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA TGGGTA
* *
3025263 TGAGTA TGAGTA TG
1 TGGGTA TGGGTA TG
3025277 AGTACGAGTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (6 bp):
TGGGTA
Found at i:3025285 original size:18 final size:18
Alignment explanation
Indices: 3025248--3025286 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3025238 ATGGGTATGG
* * *
3025248 GTATGGGTATGGGTATGA
1 GTATGAGTATGAGTACGA
3025266 GTATGAGTATGAGTACGA
1 GTATGAGTATGAGTACGA
3025284 GTA
1 GTA
3025287 CGATTTTTTA
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:0.28, C:0.03, G:0.38, T:0.31
Consensus pattern (18 bp):
GTATGAGTATGAGTACGA
Found at i:3026051 original size:28 final size:27
Alignment explanation
Indices: 3026016--3026073 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
3026006 AGGTTCTGAA
3026016 TAAAAAGAAATATGTTTT-GTTGAAATAG
1 TAAAAAGAAATAT-TTTTAGTTG-AATAG
3026044 TAAAAAGAAATATTTTTAGTTGAATAG
1 TAAAAAGAAATATTTTTAGTTGAATAG
3026071 TAA
1 TAA
3026074 GATTGCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (27 bp):
TAAAAAGAAATATTTTTAGTTGAATAG
Found at i:3029599 original size:4 final size:4
Alignment explanation
Indices: 3029590--3029619 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
3029580 ACAAAGGTGC
3029590 TTTA TTTA TTTA TTTA TTTA TTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
3029620 CAAAATAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTA
Found at i:3029772 original size:9 final size:8
Alignment explanation
Indices: 3029753--3029787 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
3029743 AACCAAAGGG
3029753 TTTTCTTT
1 TTTTCTTT
3029761 TTTTCTTT
1 TTTTCTTT
*
3029769 TTTTCTTC
1 TTTTCTTT
*
3029777 TTCTCTTT
1 TTTTCTTT
3029785 TTT
1 TTT
3029788 GACTTTTGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:3031751 original size:3 final size:3
Alignment explanation
Indices: 3031729--3031919 Score: 80
Period size: 3 Copynumber: 64.0 Consensus size: 3
3031719 AAATGGAAAT
* * * * * *
3031729 ATA ATG ATA AGA ACA ATA ATA ATA TTA ATA TTA ATAA ATA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * * * * * *
3031774 ATA ACA ACA TTA GTA ATA ATT CTA ATG ATA ATA CTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * * * *
3031822 AGG GTA ATA ATA ATA ATA TTA TTA ATA ATA CTA CTA ATA ATA ATA ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** * *
3031870 GTA ATC ATA A-A CTA ATT AGC TTA ATA ATA ATA AAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3031917 ATA
1 ATA
3031920 GGACTAAATT
Statistics
Matches: 133, Mismatches: 52, Indels: 6
0.70 0.27 0.03
Matches are distributed among these distances:
2 3 0.02
3 127 0.95
4 3 0.02
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3033849 original size:23 final size:22
Alignment explanation
Indices: 3033806--3033849 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
3033796 TTTCAAGTTA
3033806 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
3033829 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
3033850 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:3033974 original size:23 final size:23
Alignment explanation
Indices: 3033948--3034046 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
3033938 ATAAGTGCCA
3033948 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3033971 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3033994 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
3034017 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
3034040 CACTGAT
1 CACTGAT
3034047 CAATAACACT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:3034015 original size:46 final size:46
Alignment explanation
Indices: 3033948--3034046 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
3033938 ATAAGTGCCA
*
3033948 CACTGATATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
3033994 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
3034040 CACTGAT
1 CACTGAT
3034047 CAATAACACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (46 bp):
CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:3037402 original size:14 final size:14
Alignment explanation
Indices: 3037383--3037409 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3037373 TAAATATATA
3037383 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
3037397 TTTTTTATTTTTA
1 TTTTTTATTTTTA
3037410 AAATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:3043162 original size:25 final size:25
Alignment explanation
Indices: 3043117--3043164 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
3043107 AAAAAATTAA
* *
3043117 TTTATTTTTAATTATTTAAATATTT
1 TTTATTTTGAATTATTCAAATATTT
3043142 TTTATTTTGAACTTA-TCAAATAT
1 TTTATTTTGAA-TTATTCAAATAT
3043165 GGTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTATTTTGAATTATTCAAATATTT
Found at i:3049339 original size:20 final size:18
Alignment explanation
Indices: 3049314--3049365 Score: 50
Period size: 20 Copynumber: 2.8 Consensus size: 18
3049304 CAATAAATGC
3049314 ATAAAAAATTATAAAAAT
1 ATAAAAAATTATAAAAAT
** *
3049332 AATCAAAATTTTACAAAAAT
1 -AT-AAAAAATTATAAAAAT
*
3049352 ATAAAAAATAATAA
1 ATAAAAAATTATAA
3049366 GCGTAATTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 13 0.52
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAAATTATAAAAAT
Found at i:3049488 original size:19 final size:19
Alignment explanation
Indices: 3049447--3049542 Score: 61
Period size: 20 Copynumber: 4.8 Consensus size: 19
3049437 ATTTGAATTT
*
3049447 TTTTTTATAAATTCTTTACGA
1 TTTTTTAT-AATT-TTTATGA
*
3049468 TTTTTTATAATTTTTGTGA
1 TTTTTTATAATTTTTATGA
* * *
3049487 TTTCTATAAAATTTTTCT-A
1 TTT-TTTATAATTTTTATGA
3049506 TTTTTATTATAATTTTTAAAT-A
1 -TTTT-TTATAATTTTT--ATGA
*
3049528 TTTTCTATAATTTTT
1 TTTTTTATAATTTTT
3049543 TATAAAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
19 10 0.16
20 37 0.61
21 12 0.20
22 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTTTATAATTTTTATGA
Found at i:3049519 original size:20 final size:21
Alignment explanation
Indices: 3049468--3049522 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
3049458 TTCTTTACGA
*
3049468 TTTT-TTATAATTTTTGTGAT
1 TTTTATTATAATTTTTCTGAT
* *
3049488 TTCTA-TAAAATTTTTCT-AT
1 TTTTATTATAATTTTTCTGAT
3049507 TTTTATTATAATTTTT
1 TTTTATTATAATTTTT
3049523 AAATATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTATTATAATTTTTCTGAT
Found at i:3049563 original size:31 final size:31
Alignment explanation
Indices: 3049493--3049573 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
3049483 GTGATTTCTA
**
3049493 TAAA-ATTTTTCTAT--TTTTATTATAATTTT
1 TAAATATTTTTCTATAATTTT-TTATAAAATT
3049522 TAAATAT-TTTCTATAATTTTTTATAAAATT
1 TAAATATTTTTCTATAATTTTTTATAAAATT
* *
3049552 TTAATATTTTTCTATAACTTTT
1 TAAATATTTTTCTATAATTTTT
3049574 ATTGATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
29 11 0.25
30 16 0.36
31 17 0.39
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (31 bp):
TAAATATTTTTCTATAATTTTTTATAAAATT
Found at i:3063022 original size:29 final size:29
Alignment explanation
Indices: 3062919--3063061 Score: 153
Period size: 29 Copynumber: 4.8 Consensus size: 29
3062909 GTCATTAGGG
*
3062919 TTTATCAGACACTATGTA-CAGGTGATTATA
1 TTTATCAGGCACTATGTATC-GGTG-TTATA
* * *
3062949 TTTATCAGGTACTTTGTATCGGTGTTCATG
1 TTTATCAGGCACTATGTATCGGTGTT-ATA
3062979 TTGTATCAGGCACTATGTATCGGTGTTATA
1 TT-TATCAGGCACTATGTATCGGTGTTATA
** *
3063009 TTTATCAGGCACTATGTGCCAGTGTTATA
1 TTTATCAGGCACTATGTATCGGTGTTATA
** *
3063038 TTTATCAGATACTATGTATAGGTG
1 TTTATCAGGCACTATGTATCGGTG
3063062 GTGGATATCA
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
29 44 0.47
30 27 0.29
31 23 0.24
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (29 bp):
TTTATCAGGCACTATGTATCGGTGTTATA
Found at i:3063034 original size:60 final size:59
Alignment explanation
Indices: 3062919--3063061 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 59
3062909 GTCATTAGGG
* * * * *
3062919 TTTATCAGACACTATGTA-CAGGTGATTATATTTATCAGGTACTTTGTATCGGTGTTCATG
1 TTTATCAGACACTATGTATC-GGTGATTATATTTATCAGGCACTATGTACCAGTGTT-ATA
* *
3062979 TTGTATCAGGCACTATGTATCGGTG-TTATATTTATCAGGCACTATGTGCCAGTGTTATA
1 TT-TATCAGACACTATGTATCGGTGATTATATTTATCAGGCACTATGTACCAGTGTTATA
* *
3063038 TTTATCAGATACTATGTATAGGTG
1 TTTATCAGACACTATGTATCGGTG
3063062 GTGGATATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 19 0.27
59 4 0.06
60 28 0.39
61 19 0.27
62 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (59 bp):
TTTATCAGACACTATGTATCGGTGATTATATTTATCAGGCACTATGTACCAGTGTTATA
Found at i:3065082 original size:101 final size:100
Alignment explanation
Indices: 3064963--3065186 Score: 256
Period size: 101 Copynumber: 2.2 Consensus size: 100
3064953 TGTGGCACGG
* * *
3064963 ACTATGTGTAGGCCACTATGTAAAAGTGAAAGTGAT-GGTCACGGGTGTAGTACTATGTGCAGGC
1 ACTATGTGCAGGCTACTATGTAAAA--GAAAGT-ATCGATCACGGGTGTAGTACTATGTGCAGGC
*
3065027 TACTACGTGTACCGGAATGAT-A-GGTCGCATGTCTAGT
63 TACTACGTGTACCGG-ATGATAACGGTCACATGTCTAGT
** * * *
3065064 ACTATGTGCAGGCTACTATGCGTACTAGATAGTTTCGATCACGTGTGTAGTACTATGTGCAGGCT
1 ACTATGTGCAGGCTACTAT--GTAAAAGAAAGTATCGATCACGGGTGTAGTACTATGTGCAGGCT
* * *
3065129 ACTACGTGTATCGGATGGTAACGGTCACATGTGTAGT
64 ACTACGTGTACCGGATGATAACGGTCACATGTCTAGT
*
3065166 ACTATGTGCAGGGTACTATGT
1 ACTATGTGCAGGCTACTATGT
3065187 GAACTGAACA
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
100 7 0.07
101 63 0.60
102 31 0.30
103 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (100 bp):
ACTATGTGCAGGCTACTATGTAAAAGAAAGTATCGATCACGGGTGTAGTACTATGTGCAGGCTAC
TACGTGTACCGGATGATAACGGTCACATGTCTAGT
Found at i:3065131 original size:51 final size:51
Alignment explanation
Indices: 3065007--3065185 Score: 159
Period size: 51 Copynumber: 3.5 Consensus size: 51
3064997 ATGGTCACGG
* * * * * *
3065007 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATA-GGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGT-A-ACGATCACAT
* ** *
3065057 GTCTAGTACTATGTGCAGGCTACTATGCGTA-CTAGATAGTTTCGATCACGT
1 GTGTAGTACTATGTGCAGGCTACTATGCGTATC-AGATAGTAACGATCACAT
* * * * *
3065108 GTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAACGGTCACAT
1 GTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGTAACGATCACAT
*
3065159 GTGTAGTACTATGTGCAGGGTACTATG
1 GTGTAGTACTATGTGCAGGCTACTATG
3065186 TGAACTGAAC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
49 1 0.01
50 30 0.29
51 71 0.68
52 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
GTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGTAACGATCACAT
Found at i:3065187 original size:26 final size:26
Alignment explanation
Indices: 3065107--3065187 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
3065097 TTCGATCACG
*
3065107 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGGTACTA
* * * *
3065133 CGTGTA-T-CGGATG-GTAACGGTCAC-A
1 TGTGTAGTAC-TATGTG-CAGGGT-ACTA
3065158 TGTGTAGTACTATGTGCAGGGTACTA
1 TGTGTAGTACTATGTGCAGGGTACTA
3065184 TGTG
1 TGTG
3065188 AACTGAACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 2 0.05
25 15 0.38
26 20 0.51
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGGTACTA
Found at i:3065245 original size:45 final size:45
Alignment explanation
Indices: 3065194--3065282 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
3065184 TGTGAACTGA
* *
3065194 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
*
3065239 ACATCATTGATTAATGAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
3065283 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:3068767 original size:3 final size:3
Alignment explanation
Indices: 3068761--3068804 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
3068751 ACTTCCACCA
* * * *
3068761 CCT CCT CCT CCT CCT CCA CCA CCT CCT CCT CCA CCT CCA CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CC
3068805 ACCACTACCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.09, C:0.68, G:0.00, T:0.23
Consensus pattern (3 bp):
CCT
Found at i:3068770 original size:21 final size:21
Alignment explanation
Indices: 3068746--3068801 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
3068736 CAAGCCGTTG
*
3068746 CCTCCACTTCCACCACCTCCT
1 CCTCCACCTCCACCACCTCCT
*
3068767 CCTCCTCCTCCACCACCTCCT
1 CCTCCACCTCCACCACCTCCT
3068788 CCTCCACCTCCACC
1 CCTCCACCTCCACC
3068802 TCCACCACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.12, C:0.66, G:0.00, T:0.21
Consensus pattern (21 bp):
CCTCCACCTCCACCACCTCCT
Found at i:3068785 original size:12 final size:12
Alignment explanation
Indices: 3068754--3068807 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
3068744 TGCCTCCACT
*
3068754 TCCACCACCTCC
1 TCCACCTCCTCC
*
3068766 TCCTCCTCCTCC
1 TCCACCTCCTCC
*
3068778 ACCACCTCCTCC
1 TCCACCTCCTCC
*
3068790 TCCACCTCCACC
1 TCCACCTCCTCC
3068802 TCCACC
1 TCCACC
3068808 ACTACCACCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.13, C:0.67, G:0.00, T:0.20
Consensus pattern (12 bp):
TCCACCTCCTCC
Found at i:3068787 original size:15 final size:15
Alignment explanation
Indices: 3068770--3068819 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
3068760 ACCTCCTCCT
*
3068770 CCTCCTCCACCACCT
1 CCTCCTCCACCACCA
*
3068785 CCTCCTCCACCTCCA
1 CCTCCTCCACCACCA
* *
3068800 CCTCCACCACTACCA
1 CCTCCTCCACCACCA
3068815 CCTCC
1 CCTCC
3068820 ACTTCCATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.16, C:0.66, G:0.00, T:0.18
Consensus pattern (15 bp):
CCTCCTCCACCACCA
Done.