Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 10 of 117
Found at i:992535 original size:12 final size:12
Alignment explanation
Indices: 992518--992555 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
992508 CATTTTCTCA
992518 TTTTTTCCTTTT
1 TTTTTTCCTTTT
992530 TTTTTTCCTTTT
1 TTTTTTCCTTTT
992542 TTTATTT-CTTTT
1 TTT-TTTCCTTTT
992554 TT
1 TT
992556 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTCCTTTT
Found at i:992587 original size:16 final size:16
Alignment explanation
Indices: 992558--992592 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
992548 TCTTTTTTAA
992558 TTTTTTTTCATCATCTT
1 TTTTTTTTCATCAT-TT
992575 TTTTTTTTC-TCATTT
1 TTTTTTTTCATCATTT
992590 TTT
1 TTT
992593 ATCCATTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 4 0.22
17 9 0.50
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTTCATCATTT
Found at i:996499 original size:58 final size:58
Alignment explanation
Indices: 996437--996826 Score: 522
Period size: 58 Copynumber: 6.7 Consensus size: 58
996427 TTTTGTGTGG
996437 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTT-GAAATTTTATTTTTAA
* * * *
996495 GGAAAATTGATACTTTCAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGAAATTTTATTTTTAA
* * *
996553 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTGAAATTTTGTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATATTTTTTGAAATTTTATTTTTAA
** ** **
996611 GGAAAATTGATACTTTCAACTTTTCCTTAAAATCT-TTTTTTTTAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGAAATTTTATTTTTAA
** *
996667 GGAAAATTGATACTTTCAACTTTTCCCCAAAATGTTTTTTTTGGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTT-GAAATTTTATTTTTAA
* *
996725 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACCTCTTTTTGAAATTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATA--T-TTTTTGAAATTTTATTTTTAA
996786 GGAAAATTGATACTTTCAACTTTTCCCC-AAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTT
996827 TTTTTGGAAC
Statistics
Matches: 299, Mismatches: 25, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
56 42 0.14
57 25 0.08
58 177 0.59
59 1 0.00
60 11 0.04
61 43 0.14
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGAAATTTTATTTTTAA
Found at i:996691 original size:114 final size:113
Alignment explanation
Indices: 996437--996827 Score: 552
Period size: 114 Copynumber: 3.4 Consensus size: 113
996427 TTTTGTGTGG
996437 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAAT-TTTTTTGGAAATTTATTTTTAAGGAAAAT
* *
996502 TGATACTTTCAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAA
65 TGATACTTTCAACTTTTCCTAAAAAC-TTTTTTTT-AAATTTTATTTTTAA
* * *
996553 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTT-GAAATTTTGTTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATTTTTTTGGAAA-TTTATTTTTAAGGAAAA
* *
996617 TTGATACTTTCAACTTTTCCTTAAAATCTTTTTTTTTAA-TTTATTTTTAA
64 TTGATACTTTCAACTTTTCC-TAAAAACTTTTTTTTAAATTTTATTTTTAA
**
996667 GGAAAATTGATACTTTCAACTTTTCCCCAAAATGTTTTTTTTGGAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAA-AATTTTTTTGGAAATTTATTTTTAAGGAAAAT
* *
996732 TGATACTTTCAACTTTTCCTCAAAAAAAACCTCTTTTTGAAATTTTATTTTTAA
65 TGATACTTTCAACTTTTCCT----AAAAA-CTTTTTTTTAAATTTTATTTTTAA
996786 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAA-ATTTTTTT
996828 TTTTGGAACT
Statistics
Matches: 246, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
113 1 0.00
114 84 0.34
115 10 0.04
116 82 0.33
117 10 0.04
118 9 0.04
119 50 0.20
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (113 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATTTTTTTGGAAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCTAAAAACTTTTTTTTAAATTTTATTTTTAA
Found at i:996729 original size:172 final size:174
Alignment explanation
Indices: 996437--996829 Score: 612
Period size: 172 Copynumber: 2.3 Consensus size: 174
996427 TTTTGTGTGG
***
996437 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAAATATTTTTTTTTAATTTATTTTTAAGGAAAAT
*
996502 TGATACTTTCAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACT
65 TGATACTTTCAACTTTTCCCCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACT
* *
996567 TTCAACTTTTCCTC-AAAAACCTTTTTTTGAAATTTTGTTTTTAA
130 TTCAACTTTTCCTCAAAAAACCTCTTTTTGAAATTTTATTTTTAA
** *
996611 GGAAAATTGATACTTTCAACTTTT-CCTTAAAATCTTTTTTTTTAATTTATTTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTTAATTTATTTTTAAGGAAAATT
** *
996675 GATACTTTCAACTTTTCCCCAAAATGTTTTTTTTGGAAA-TTTATTTTTAAGGAAAATTGATACT
66 GATACTTTCAACTTTTCCCCAAAACATTTTTTTT-GAAATTTTATTTTCAAGGAAAATTGATACT
996739 TTCAACTTTTCCTCAAAAAAAACCTCTTTTTGAAATTTTATTTTTAA
130 TTCAACTTTTCCTC--AAAAAACCTCTTTTTGAAATTTTATTTTTAA
*
996786 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTT
996830 TTGGAACTTT
Statistics
Matches: 199, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
172 103 0.52
173 4 0.02
174 24 0.12
175 52 0.26
176 16 0.08
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (174 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTTAATTTATTTTTAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTT
TCAACTTTTCCTCAAAAAACCTCTTTTTGAAATTTTATTTTTAA
Found at i:996887 original size:11 final size:11
Alignment explanation
Indices: 996871--996920 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
996861 AAAATAGAAT
996871 AATAAAAAAAA
1 AATAAAAAAAA
996882 AATAAAAAAAA
1 AATAAAAAAAA
* *
996893 AGTAAAACAAA
1 AATAAAAAAAA
* *
996904 ACTAAAAATAA
1 AATAAAAAAAA
996915 AATAAA
1 AATAAA
996921 GATAAAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:996911 original size:7 final size:6
Alignment explanation
Indices: 996860--996928 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
996850 TTATTTAAAG
* * *
996860 AAAAAT AGAATAAT AAAAA- AAAAAT AAAAA- AAAAGT -AAAAC AAAACT
1 AAAAAT A-AA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
996907 AAAAAT -AAAAT AAAGAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA
996929 GAATATTAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
5 17 0.35
6 24 0.49
7 4 0.08
8 4 0.08
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:996966 original size:7 final size:7
Alignment explanation
Indices: 996954--997007 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
996944 CTAATCTAAT
996954 AAATAAA
1 AAATAAA
*
996961 AAATAAT
1 AAATAAA
996968 AAATAAA
1 AAATAAA
996975 CAAATAAAA
1 -AAAT-AAA
996984 CAAATAAA
1 -AAATAAA
*
996992 AATTAAA
1 AAATAAA
996999 AAA-AAA
1 AAATAAA
997005 AAA
1 AAA
997008 ACCTGGAGCG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.15
7 20 0.49
8 7 0.17
9 8 0.20
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:996967 original size:14 final size:15
Alignment explanation
Indices: 996950--996981 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
996940 AAACCTAATC
996950 TAATAAATAAA-AAA
1 TAATAAATAAACAAA
996964 TAATAAATAAACAAA
1 TAATAAATAAACAAA
996979 TAA
1 TAA
996982 AACAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (15 bp):
TAATAAATAAACAAA
Found at i:998317 original size:1 final size:1
Alignment explanation
Indices: 998313--998412 Score: 56
Period size: 1 Copynumber: 100.0 Consensus size: 1
998303 CATTTTTTGA
* * * ** * ** ** *
998313 TTTTTTTTTATTTTTGTTTTTATTTTTTGATTTTTATTTTTTGATTTTTTTTGATTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** * *
998378 TTTGTTTTTTGATTTTTATTTTTATTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
998413 GCCGAAGCTC
Statistics
Matches: 71, Mismatches: 28, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (1 bp):
T
Found at i:998317 original size:8 final size:8
Alignment explanation
Indices: 998304--998394 Score: 86
Period size: 8 Copynumber: 11.8 Consensus size: 8
998294 TCAACTCAAC
998304 ATTTTTTG
1 ATTTTTTG
*
998312 ATTTTTTT
1 ATTTTTTG
*
998320 TTATTTTTG
1 AT-TTTTTG
998329 --TTTTT-
1 ATTTTTTG
998334 ATTTTTTG
1 ATTTTTTG
998342 A-TTTTT-
1 ATTTTTTG
998348 ATTTTTTG
1 ATTTTTTG
998356 ATTTTTTTTG
1 A--TTTTTTG
998366 ATTTTTTG
1 ATTTTTTG
*
998374 TTTTTTTG
1 ATTTTTTG
998382 -TTTTTTG
1 ATTTTTTG
998389 ATTTTT
1 ATTTTT
998395 ATTTTTATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
6 6 0.09
7 22 0.31
8 29 0.41
9 5 0.07
10 8 0.11
ACGTcount: A:0.10, C:0.00, G:0.09, T:0.81
Consensus pattern (8 bp):
ATTTTTTG
Found at i:998326 original size:6 final size:6
Alignment explanation
Indices: 998313--998411 Score: 68
Period size: 6 Copynumber: 16.7 Consensus size: 6
998303 CATTTTTTGA
*
998313 TTTT-T TTTTAT TTTTGT TTTTATT TTTTGAT TTTTAT TTTT-T GATTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTT-AT TTTTAT TTTTAT --TTTTAT
* *
998362 TTTGAT TTTT-T GTTTT-T TTGTT-T TTTGAT TTTTAT TTTTAT TTTT-T
1 TTTTAT TTTTAT -TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT
998408 TTTT
1 TTTT
998412 TGCCGAAGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
5 17 0.22
6 46 0.58
7 15 0.19
8 1 0.01
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:998340 original size:14 final size:14
Alignment explanation
Indices: 998323--998412 Score: 66
Period size: 14 Copynumber: 6.7 Consensus size: 14
998313 TTTTTTTTTA
998323 TTTTTGTTTTTA-T
1 TTTTTGTTTTTATT
998336 TTTTTGATTTTTA-T
1 TTTTTG-TTTTTATT
*
998350 TTTTTGATTTT-TT
1 TTTTTGTTTTTATT
** *
998363 TTGAT-TTTTTGTT
1 TTTTTGTTTTTATT
*
998376 TTTTTGTTTTT-TGA
1 TTTTTGTTTTTAT-T
*
998390 TTTTTATTTTTATT
1 TTTTTGTTTTTATT
998404 TTTTT-TTTT
1 TTTTTGTTTT
998413 GCCGAAGCTC
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
12 4 0.06
13 24 0.39
14 33 0.53
15 1 0.02
ACGTcount: A:0.09, C:0.00, G:0.08, T:0.83
Consensus pattern (14 bp):
TTTTTGTTTTTATT
Found at i:998383 original size:53 final size:53
Alignment explanation
Indices: 998305--998407 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 53
998295 CAACTCAACA
*
998305 TTTTTTGATTTTTTTTTATTTTTG-TTTTTATTTTTTGATTTTTATTTTTTGATT
1 TTTTTTGATTTTTTGTTATTTTTGTTTTTTA-TTTTT-ATTTTTATTTTTTGATT
998359 TTTTTTGATTTTTTGTT-TTTTTGTTTTTTGATTTTTATTTTTATTTTTT
1 TTTTTTGATTTTTTGTTATTTTTGTTTTTT-ATTTTTATTTTTATTTTTT
998408 TTTTTGCCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
53 19 0.41
54 26 0.57
55 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.83
Consensus pattern (53 bp):
TTTTTTGATTTTTTGTTATTTTTGTTTTTTATTTTTATTTTTATTTTTTGATT
Found at i:998408 original size:54 final size:54
Alignment explanation
Indices: 998305--998407 Score: 158
Period size: 53 Copynumber: 1.9 Consensus size: 54
998295 CAACTCAACA
*
998305 TTTTTTGATTTTTTTTTATTTTTGTTTTTATTTTTTGATTTTTATTTTTTGATT
1 TTTTTTGATTTTTTGTTATTTTTGTTTTTATTTTTTGATTTTTATTTTTTGATT
998359 TTTTTTGATTTTTTGTT-TTTTTGTTTTT-TGATTTTT-ATTTTTATTTTTT
1 TTTTTTGATTTTTTGTTATTTTTGTTTTTAT--TTTTTGATTTTTATTTTTT
998408 TTTTTGCCGA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
52 1 0.02
53 24 0.52
54 21 0.46
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.83
Consensus pattern (54 bp):
TTTTTTGATTTTTTGTTATTTTTGTTTTTATTTTTTGATTTTTATTTTTTGATT
Found at i:998410 original size:47 final size:43
Alignment explanation
Indices: 998304--998413 Score: 88
Period size: 47 Copynumber: 2.5 Consensus size: 43
998294 TCAACTCAAC
*
998304 ATTTTTTGATTTTT-TTTTATT-TTTGTTTTTATTTTTTGATTTTT
1 ATTTTTTGATTTTTATTTT-TTGTTTTTTTTTA-TTTTTG-TTTTT
*
998348 ATTTTTTGATTTTTTTTGATTTTTTGTTTTTTTGT-TTTTTGATTTTT
1 ATTTTTTGA---TTTTT-ATTTTTTGTTTTTTTTTATTTTTG-TTTTT
998395 A-TTTTT-ATTTTT-TTTTTTG
1 ATTTTTTGATTTTTATTTTTTG
998414 CCGAAGCTCC
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
40 7 0.12
42 5 0.09
44 9 0.16
45 1 0.02
46 5 0.09
47 18 0.31
48 2 0.03
49 11 0.19
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (43 bp):
ATTTTTTGATTTTTATTTTTTGTTTTTTTTTATTTTTGTTTTT
Found at i:998588 original size:83 final size:82
Alignment explanation
Indices: 998419--998830 Score: 589
Period size: 83 Copynumber: 5.0 Consensus size: 82
998409 TTTTGCCGAA
* * * * * *
998419 GCTCCTCTAAACAGAGACTCAACGACTTTTGAAAGTAAATTGCTCCTCTAAATAGAGGCA--ACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC-
*
998482 GACTTTGGAAAGTAAATT
65 GACTTTGAAAAGTAAATT
* *
998500 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTCAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
998565 GACTTTGAAAAGTAAATT
65 GACTTTGAAAAGTAAATT
998583 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
998648 ACTTTGAAAAAATAAATT
66 ACTTTG-AAAAGTAAATT
* *
998666 GCTCCTCTCAACAGAGGCA--ACGGAACTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCA
1 GCTCCTCTCAACAGAGGCACCAC-G-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
998729 CGACTTTGGAAAAATAAATT
64 CGACTTT-GAAAAGTAAATT
* * *
998749 GCTCATCTCAACAGAGGCGCCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACACG
1 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
998814 ACTTTTGAAAAGTAAAT
66 AC-TTTGAAAAGTAAAT
998831 ACTCCTTGAC
Statistics
Matches: 301, Mismatches: 20, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
81 28 0.09
82 65 0.22
83 199 0.66
84 7 0.02
85 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (82 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGAAAAGTAAATT
Found at i:998661 original size:124 final size:124
Alignment explanation
Indices: 998419--998830 Score: 595
Period size: 124 Copynumber: 3.3 Consensus size: 124
998409 TTTTGCCGAA
* * * * *
998419 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAATAGAGGCA--AC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
998481 GGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
66 -GACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAATAAATT
*
998542 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
*
998606 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATT
66 GACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTG-AAAAATAAATT
*
998666 GCTCCTCTCAACAGAGGCA--ACGGAAC-TTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACC
* * * * *
998728 ACGACTTTGGAAAAATAAATTGCTCATCTCAACAGAGGCGCCACGACTTTGGAAAGTAAATT
64 ACGACTTTGG-AAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
*
998790 GCTCCTCTAAACAGAGGCAACACGACTTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAAT
998831 ACTCCTTGAC
Statistics
Matches: 265, Mismatches: 14, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
122 6 0.02
123 51 0.19
124 153 0.58
125 53 0.20
126 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (124 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTCAACAGAGGCACCAC
GACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGAAAAATAAATT
Found at i:998836 original size:41 final size:41
Alignment explanation
Indices: 998419--998830 Score: 564
Period size: 41 Copynumber: 10.0 Consensus size: 41
998409 TTTTGCCGAA
* * * *
998419 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* * *
998460 GCTCCTCTAAATAGAGGCA--ACGGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCAC-GACTTTGAAAAGTAAATT
*
998500 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATT
998542 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
998583 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
998624 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTG-AAAAGTAAATT
998666 GCTCCTCTCAACAGAGGCA--ACGGAACTTTGAAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCAC-G-ACTTTGAAAAGTAAATT
*
998707 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTT-GAAAAGTAAATT
* * *
998749 GCTCATCTCAACAGAGGCGCCACGACTTTGGAAAGTAAATT
1 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
998790 GCTCCTCTAAACAGAGGCAACACGACTTTTGAAAAGTAAAT
1 GCTCCTCTCAACAGAGGCACCACGAC-TTTGAAAAGTAAAT
998831 ACTCCTTGAC
Statistics
Matches: 335, Mismatches: 24, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
39 6 0.02
40 32 0.10
41 169 0.50
42 126 0.38
43 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:1000058 original size:8 final size:8
Alignment explanation
Indices: 1000030--1000073 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
1000020 TTTGAATCTC
1000030 TTTTTTCA
1 TTTTTTCA
*
1000038 TTTTCTCA
1 TTTTTTCA
1000046 TTTTTTCA
1 TTTTTTCA
1000054 TTTTTT--
1 TTTTTTCA
1000060 TTTTTTCA
1 TTTTTTCA
1000068 TTTTTT
1 TTTTTT
1000074 TTTCATCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
8 26 0.81
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTCA
Found at i:1000063 original size:14 final size:14
Alignment explanation
Indices: 1000030--1000103 Score: 85
Period size: 14 Copynumber: 5.0 Consensus size: 14
1000020 TTTGAATCTC
*
1000030 TTTTTTCATTTTCTCA
1 TTTTTTCATTTT-T-T
1000046 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
1000060 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
**
1000074 TTTCATCATCTTTTT
1 TTTTTTCAT-TTTTT
1000089 TTTTTCTCATTTTTT
1 TTTTT-TCATTTTTT
1000104 ATCCATTGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
14 21 0.41
15 14 0.27
16 16 0.31
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTCATTTTTT
Found at i:1004007 original size:58 final size:57
Alignment explanation
Indices: 1003940--1004137 Score: 299
Period size: 58 Copynumber: 3.4 Consensus size: 57
1003930 TTTTGTGTGG
*
1003940 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAA-TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAT-TTTTTT-GAAATTTTATTTTTAA
* *
1003998 GGAAAATTGATACTTTCAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-AATTTTTTTGAAATTTTATTTTTAA
* *
1004056 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTGTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ATTTTTTTGAAATTTTATTTTTAA
*
1004114 GGAAAATTGATACTATCAACTTTT
1 GGAAAATTGATACTTTCAACTTTT
1004138 ATACTTTCAA
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
57 5 0.04
58 123 0.95
59 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATTTTTTTGAAATTTTATTTTTAA
Found at i:1004147 original size:15 final size:15
Alignment explanation
Indices: 1004123--1004152 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1004113 AGGAAAATTG
1004123 ATACTATCAACTTTT
1 ATACTATCAACTTTT
*
1004138 ATACTTTCAACTTTT
1 ATACTATCAACTTTT
1004153 CCTCAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (15 bp):
ATACTATCAACTTTT
Found at i:1004206 original size:72 final size:73
Alignment explanation
Indices: 1004065--1004209 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 73
1004055 AGGAAAATTG
*
1004065 ATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTGTTTTTAAGGAAAATTGATACTAT
1 ATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTAT
1004130 CAACTTTT
66 CAACTTTT
* * ** *
1004138 ATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTAA-TTTATTTTTAAGGAAAATTGATACTTT
1 ATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTAT
1004202 CAACTTTT
66 CAACTTTT
1004210 CCCCAAAATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
72 33 0.50
73 33 0.50
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.50
Consensus pattern (73 bp):
ATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTAT
CAACTTTT
Found at i:1004209 original size:130 final size:131
Alignment explanation
Indices: 1004007--1004267 Score: 402
Period size: 130 Copynumber: 2.0 Consensus size: 131
1003997 AGGAAAATTG
1004007 ATACTTTCAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTT
1 ATACTTTCAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTT
* *
1004072 CAACTTTTCCTCAAAAACCTTTTTTT-GAAATTTTGTTTTTAAGGAAAATTGATACTATCAACTT
66 CAACTTTTCCCCAAAAACCTTTTTTTGGAAA-TTTATTTTTAAGGAAAATTGATACTATCAACTT
1004136 TT
130 TT
** *
1004138 ATACTTTCAACTTTTCCTCAAAATC-TTTTTTTTTTAA-TTTATTTTTAAGGAAAATTGATACTT
1 ATACTTTCAACTTTTCCTCAAAA-CATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTT
*** *
1004201 TCAACTTTTCCCCAAAATGTTTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTTCAACTT
65 TCAACTTTTCCCCAAAAACCTTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTATCAACTT
1004266 TT
130 TT
1004268 CCTAAAAAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
130 81 0.68
131 37 0.31
132 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (131 bp):
ATACTTTCAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTT
CAACTTTTCCCCAAAAACCTTTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTATCAACTTT
T
Found at i:1004253 original size:58 final size:57
Alignment explanation
Indices: 1004138--1004347 Score: 276
Period size: 61 Copynumber: 3.6 Consensus size: 57
1004128 ATCAACTTTT
* **
1004138 ATACTTTCAACTTTTCCTCAAAATCTTTTTTTTTTAATTTATTTTTAAGGAAAATTG
1 ATACTTTCAACTTTTCCCCAAAATCTTTTTTTTGAAATTTATTTTTAAGGAAAATTG
*
1004195 ATACTTTCAACTTTTCCCCAAAATGTTTTTTTTGGAAATTTATTTTTAAGGAAAATTG
1 ATACTTTCAACTTTTCCCCAAAATCTTTTTTTT-GAAATTTATTTTTAAGGAAAATTG
** * * *
1004253 ATACTTTCAACTTTTCCTAAAAAAAAACCTCTTTTTGAAATTTTATTTTTAAGGAAAATTG
1 ATACTTTCAACTTTTCC---CCAAAATCTTTTTTTTGAAA-TTTATTTTTAAGGAAAATTG
*
1004314 ATACTTTCAACTTTTCCCCAAAAATGTTTTTTTT
1 ATACTTTCAACTTTTCCCC-AAAATCTTTTTTTT
1004348 TTTGGAACTT
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
57 31 0.24
58 39 0.30
59 10 0.08
60 4 0.03
61 47 0.36
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.48
Consensus pattern (57 bp):
ATACTTTCAACTTTTCCCCAAAATCTTTTTTTTGAAATTTATTTTTAAGGAAAATTG
Found at i:1004267 original size:188 final size:190
Alignment explanation
Indices: 1003949--1004328 Score: 586
Period size: 188 Copynumber: 2.0 Consensus size: 190
1003939 GGGAAAATTG
1003949 ATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTT
1 ATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTT
*
1004014 CAACTTTTCCTCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTT
66 CAACTTTTCCCCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTT
* * *
1004079 TCCT-CAAAAACCTTTTTTTGAAATTTTGTTTTTAAGGAAAATTGATACTATCAACTTTT
131 TCCTAAAAAAACCTCTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTATCAACTTTT
* ** ***
1004138 ATACTTTCAACTTTTCCTCAAAATCT-TTTTTTTTTAATTTATTTTTAAGGAAAATTGATACTTT
1 ATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTT
** *
1004202 CAACTTTTCCCCAAAATGTTTTTTTTGGAAA-TTTATTTTTAAGGAAAATTGATACTTTCAACTT
66 CAACTTTTCCCCAAAACATTTTTTTT-GAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTT
*
1004266 TTCCTAAAAAAAAACCTCTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTT
130 TTCCT--AAAAAAACCTCTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTATCAACTTTT
1004329 CCCCAAAAAT
Statistics
Matches: 173, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
188 95 0.55
189 27 0.16
191 51 0.29
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (190 bp):
ATACTTTCAACTTTTCCCCAAAAAATATTTTTTGGAAATTTATTTTTAAGGAAAATTGATACTTT
CAACTTTTCCCCAAAACATTTTTTTTGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTT
TCCTAAAAAAACCTCTTTTTGAAATTTTATTTTTAAGGAAAATTGATACTATCAACTTTT
Found at i:1004318 original size:61 final size:58
Alignment explanation
Indices: 1004138--1004330 Score: 219
Period size: 58 Copynumber: 3.3 Consensus size: 58
1004128 ATCAACTTTT
** * * ***
1004138 ATACTTTCAACTTTTCC-TCAAAATCTTTTTTTTTTAATTTATTTTTAAGGAAAATTG
1 ATACTTTCAACTTTTCCAAAAAAACCTCTTTTTGGAAATTTATTTTTAAGGAAAATTG
** *** *
1004195 ATACTTTCAACTTTTCCCCAAAATGTTTTTTTTGGAAATTTATTTTTAAGGAAAATTG
1 ATACTTTCAACTTTTCCAAAAAAACCTCTTTTTGGAAATTTATTTTTAAGGAAAATTG
1004253 ATACTTTCAACTTTTCCTAAAAAAAAACCTCTTTTT-GAAATTTTATTTTTAAGGAAAATTG
1 ATACTTTCAACTTTTCC---AAAAAAACCTCTTTTTGGAAA-TTTATTTTTAAGGAAAATTG
1004314 ATACTTTCAACTTTTCC
1 ATACTTTCAACTTTTCC
1004331 CCAAAAATGT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
57 17 0.15
58 49 0.42
60 4 0.03
61 47 0.40
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (58 bp):
ATACTTTCAACTTTTCCAAAAAAACCTCTTTTTGGAAATTTATTTTTAAGGAAAATTG
Found at i:1004444 original size:11 final size:11
Alignment explanation
Indices: 1004380--1004523 Score: 52
Period size: 11 Copynumber: 12.9 Consensus size: 11
1004370 TATTTAAAGA
1004380 AAAATAGAATAAT
1 AAAATA-AA-AAT
1004393 AAAA-AAAAATT
1 AAAATAAAAA-T
*
1004404 AAAA-AAAAAG
1 AAAATAAAAAT
1004414 AAAAGTAAAACA-
1 AAAA-TAAAA-AT
*
1004426 AAACTAAAAAT
1 AAAATAAAAAT
*
1004437 AAAATAAAGAT
1 AAAATAAAAAT
*
1004448 AAAA-AGAATAT
1 AAAATA-AAAAT
* **
1004459 TAAATAAACCT
1 AAAATAAAAAT
**
1004470 AATCTAATAAAT
1 AAAATAA-AAAT
*
1004482 AAAA-AATAAT
1 AAAATAAAAAT
1004492 -AAATAAACAAAT
1 AAAAT-AA-AAAT
1004504 AAAAATAAAAA-
1 -AAAATAAAAAT
1004515 AAAA-AAAAA
1 AAAATAAAAA
1004524 ACCTAGAGCG
Statistics
Matches: 101, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
9 8 0.08
10 15 0.15
11 48 0.48
12 19 0.19
13 7 0.07
14 4 0.04
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:1004490 original size:7 final size:7
Alignment explanation
Indices: 1004478--1004521 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
1004468 CTAATCTAAT
1004478 AAATAAA
1 AAATAAA
*
1004485 AAATAAT
1 AAATAAA
1004492 AAATAAA
1 AAATAAA
1004499 CAAAT-AA
1 -AAATAAA
1004506 AAATAAA
1 AAATAAA
1004513 AAA-AAA
1 AAATAAA
1004519 AAA
1 AAA
1004522 AAACCTAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 10 0.30
7 19 0.58
8 4 0.12
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:1004491 original size:14 final size:14
Alignment explanation
Indices: 1004474--1004515 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
1004464 AAACCTAATC
1004474 TAATAAATAAAAAA
1 TAATAAATAAAAAA
1004488 TAATAAATAAACAAA
1 TAATAAATAAA-AAA
1004503 TAA-AAATAAAAAA
1 TAATAAATAAAAAA
1004516 AAAAAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.11
14 18 0.67
15 6 0.22
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (14 bp):
TAATAAATAAAAAA
Found at i:1004902 original size:11 final size:11
Alignment explanation
Indices: 1004886--1004912 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1004876 TGGAAATTTC
1004886 GCCGGAAGTTG
1 GCCGGAAGTTG
1004897 GCCGGAAGTTG
1 GCCGGAAGTTG
1004908 GCCGG
1 GCCGG
1004913 TTTCTGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.22, G:0.48, T:0.15
Consensus pattern (11 bp):
GCCGGAAGTTG
Found at i:1006168 original size:35 final size:35
Alignment explanation
Indices: 1006084--1006168 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 35
1006074 TCATTATAGT
1006084 TATTAATT-AATAATATAAAAATACAGATAAAAGAA
1 TATTAATTAAATAA-ATAAAAATACAGATAAAAGAA
*
1006119 -A-TAATTAACA-AAATAAAAA-A-AGACTTAAAGTAA
1 TATTAATTAA-ATAAATAAAAATACAGA-TAAAAG-AA
1006152 TATTAATTAAATAAATA
1 TATTAATTAAATAAATA
1006169 CATTGGTTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
31 3 0.07
32 6 0.14
33 14 0.33
34 6 0.14
35 13 0.31
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.28
Consensus pattern (35 bp):
TATTAATTAAATAAATAAAAATACAGATAAAAGAA
Found at i:1008555 original size:23 final size:22
Alignment explanation
Indices: 1008515--1008573 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
1008505 TAAATTATTA
1008515 TTTTATTTTTAAAATAATTAAT
1 TTTTATTTTTAAAATAATTAAT
** *
1008537 TTTTATTATTTAATTTAATTTAT
1 TTTTATT-TTTAAAATAATTAAT
*
1008560 TCTTATTTTATAAA
1 TTTTATTTT-TAAA
1008574 CAATTTGATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTATTTTTAAAATAATTAAT
Found at i:1010014 original size:40 final size:40
Alignment explanation
Indices: 1009959--1010050 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
1009949 ATTAACAAAA
* * * *
1009959 TATATATTCCTTTGAACTGTTCAAATCATGGCTTTTTTCT
1 TATATATTCCGTTGAACTATCCAAATCATGGCTTCTTTCT
*
1009999 TATATATTCCGTTGAACTATCCAAATTATGGCTTCTTTCT
1 TATATATTCCGTTGAACTATCCAAATCATGGCTTCTTTCT
1010039 TAATATCATTCC
1 T-ATAT-ATTCC
1010051 AAGTCTTGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
40 36 0.80
41 4 0.09
42 5 0.11
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.47
Consensus pattern (40 bp):
TATATATTCCGTTGAACTATCCAAATCATGGCTTCTTTCT
Found at i:1018623 original size:50 final size:50
Alignment explanation
Indices: 1018519--1018623 Score: 113
Period size: 50 Copynumber: 2.1 Consensus size: 50
1018509 CCATAATTGA
* * * ** *
1018519 TTCAACCGTTAAACCATAGAATCGGATCTTGGATTCTCAAAATTGAGATC
1 TTCAACCATTAAACCACAAAATCAAATCTTGGATTCTCAAAATTAAGATC
** *
1018569 TTCAACCATTAAACCACAAAATCAAATCATT-GATTCTCCGAATTAAGATT
1 TTCAACCATTAAACCACAAAATCAAATC-TTGGATTCTCAAAATTAAGATC
1018619 TTCAA
1 TTCAA
1018624 ATTCTTACAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
50 43 0.96
51 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (50 bp):
TTCAACCATTAAACCACAAAATCAAATCTTGGATTCTCAAAATTAAGATC
Found at i:1018723 original size:12 final size:12
Alignment explanation
Indices: 1018682--1018735 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
1018672 GACTAAAAAC
1018682 AAAATT-AAA-T
1 AAAATTAAAATT
* *
1018692 AAAAATAAAA-C
1 AAAATTAAAATT
*
1018703 AAAAATAAAATT
1 AAAATTAAAATT
*
1018715 AAGATTAAAATT
1 AAAATTAAAATT
1018727 AAAATTAAA
1 AAAATTAAA
1018736 TAAAAACCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
10 5 0.14
11 13 0.36
12 18 0.50
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:1018741 original size:11 final size:11
Alignment explanation
Indices: 1018682--1018741 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
1018672 GACTAAAAAC
1018682 AAAATTAAATA
1 AAAATTAAATA
* *
1018693 AAAATAAAACA
1 AAAATTAAATA
* *
1018704 AAAATAAAATT
1 AAAATTAAATA
* *
1018715 AAGATTAAAATT
1 AAAATT-AAATA
1018727 AAAATTAAATA
1 AAAATTAAATA
1018738 AAAA
1 AAAA
1018742 CCCAAAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 30 0.75
12 10 0.25
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (11 bp):
AAAATTAAATA
Found at i:1019653 original size:2 final size:2
Alignment explanation
Indices: 1019646--1019677 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1019636 GTATTATCAT
*
1019646 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1019678 AGAGTACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1029089 original size:144 final size:143
Alignment explanation
Indices: 1028826--1029426 Score: 789
Period size: 144 Copynumber: 4.2 Consensus size: 143
1028816 TTCGGTATGC
* * * *
1028826 TTCCTACGGAAGCAGGGATTGAACCAGAGAAATTATTTTTACTCAACCCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTTAACTCAAAGTCAGTGAGAGAT
* * *
1028891 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATCGAGGTAAAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAATAGA
1028956 TAGACTGGTCAAGT
131 TA-ACTGGTCAAGT
* *
1028970 TTCCTATGCAAGCAGGGATTGAACCAAAGAAATTATTTTGACTTAACTCAATA-TCAGTGAGAGA
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTTAACTCAA-AGTCAGTGAGAGA
* * * * *
1029034 TTTAAGCATGCCTATCTCTTGAGGCATCGATCCAGAAAACATATTTTGGTAGAGGTAGAA-AAAA
65 TTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTA-AAGAATA
*
1029098 GATAAGTTGGTCAAGT
129 GATAA-CTGGTCAAGT
*
1029114 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGA-TTCAACTCATAGTCAGTGAGAGA
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTT-AACTCAAAGTCAGTGAGAGA
* * ** *
1029178 TTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTAT-AT-GAAGGTAGAGGCTG
65 TTTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAG-AGGTAAAGAATA
1029241 GATAAACTGGTCAAGT
129 GAT-AACTGGTCAAGT
* * ** *
1029257 TTCTTATGGAAGCAGGGACTGAACCAGAGAAATTATAATGACTAAACTCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTTAACTCAAAGTCAGTGAGAGAT
* * * ** *
1029322 TTAAGCATCCCTATTTCTTGAGGTATCGATCCACAAAACATATTTTGATAGAGGTGGAGAACAGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAATAGA
*
1029387 TAAGTAGGTCAAGT
131 TAACT-GGTCAAGT
*
1029401 TTCCTATGGAAGCAGGGATAGAACCA
1 TTCCTATGGAAGCAGGGATTGAACCA
1029427 CGTAGATAGT
Statistics
Matches: 397, Mismatches: 48, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
142 2 0.01
143 124 0.31
144 267 0.67
145 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (143 bp):
TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTTAACTCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATAGAGGTAAAGAATAGA
TAACTGGTCAAGT
Found at i:1029362 original size:287 final size:288
Alignment explanation
Indices: 1028826--1029426 Score: 922
Period size: 287 Copynumber: 2.1 Consensus size: 288
1028816 TTCGGTATGC
* *
1028826 TTCCTACGGAAGCAGGGATTGAACCAGAGAAATTATTTTTACTCAACCCAAAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
*
1028891 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTTTGATCGAGGTAAAGAGTGGA
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCGAGGTAAAGAGTGGA
* * ** *
1028956 TAGACTGGTCAAGTTTCCTATGCAAGCAGGGATTGAACCAAAGAAATTATTTTGACTTAACTCAA
131 TAAACTGGTCAAGTTTCCTATGCAAGCAGGGACTGAACCAAAGAAATTATAATGACTAAACTCAA
* * *
1029021 TATCAGTGAGAGATTTAAGCATGCCTATCTCTTGAGGCATCGATCCAGAAAACATATTTTGGTAG
196 TATCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGATAG
*
1029086 AGGTAGAAAAAAGATAAGTTGGTCAAGT
261 AGGTAGAAAAAAGATAAGTAGGTCAAGT
* * *
1029114 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGATTCAACTCATAGTCAGTGAGAGAT
1 TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
*
1029179 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTAT-AT-GAAGGTAGAG-GCTG
66 TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCG-AGGTAAAGAG-TG
* * *
1029241 GATAAACTGGTCAAGTTTCTTATGGAAGCAGGGACTGAACCAGAGAAATTATAATGACTAAACTC
129 GATAAACTGGTCAAGTTTCCTATGCAAGCAGGGACTGAACCAAAGAAATTATAATGACTAAACTC
* *
1029306 AA-AGTCAGTGAGAGATTTAAGCATCCCTATTTCTTGAGGTATCGATCCACAAAACATATTTTGA
194 AATA-TCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGA
* * *
1029370 TAGAGGTGGAGAACAGATAAGTAGGTCAAGT
258 TAGAGGTAGAAAAAAGATAAGTAGGTCAAGT
*
1029401 TTCCTATGGAAGCAGGGATAGAACCA
1 TTCCTATGGAAGCAGGGATTGAACCA
1029427 CGTAGATAGT
Statistics
Matches: 285, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
286 3 0.01
287 177 0.62
288 105 0.37
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (288 bp):
TTCCTATGGAAGCAGGGATTGAACCAGAGAAATTATTTTGACTCAACCCAAAGTCAGTGAGAGAT
TTAAGCATCCCTATCTCTTGAGGTATCGACCCAGAAAACATATTATGATCGAGGTAAAGAGTGGA
TAAACTGGTCAAGTTTCCTATGCAAGCAGGGACTGAACCAAAGAAATTATAATGACTAAACTCAA
TATCAGTGAGAGATTTAAGCATCCCTATCTCTTGAGGCATCGATCCACAAAACATATTTTGATAG
AGGTAGAAAAAAGATAAGTAGGTCAAGT
Found at i:1037052 original size:22 final size:22
Alignment explanation
Indices: 1037027--1037071 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1037017 ATTAATGAGC
1037027 AAAATTTGA-AAAATTTTTAAAT
1 AAAA-TTGATAAAATTTTTAAAT
* *
1037049 AAAATTGATAGATTTTTTAAAT
1 AAAATTGATAAAATTTTTAAAT
1037071 A
1 A
1037072 GGTAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AAAATTGATAAAATTTTTAAAT
Found at i:1037470 original size:49 final size:49
Alignment explanation
Indices: 1037413--1037509 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
1037403 TTATGCATCA
1037413 GCTATAATTTTATATATTGATAATGAAAATTTAAAAATTTAAAAATGAT
1 GCTATAATTTTATATATTGATAATGAAAATTTAAAAATTTAAAAATGAT
* *
1037462 GCTATAATTTTATATATTGATAATGAAATTTTTAAAATTTAAAAATGA
1 GCTATAATTTTATATATTGATAATGAAAATTTAAAAATTTAAAAATGA
1037510 GATAAGGGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.42
Consensus pattern (49 bp):
GCTATAATTTTATATATTGATAATGAAAATTTAAAAATTTAAAAATGAT
Found at i:1037567 original size:20 final size:22
Alignment explanation
Indices: 1037528--1037567 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
1037518 AGTTGGCACA
*
1037528 AATTTATTTAATTTTAATAATT
1 AATTTATTTAATTCTAATAATT
1037550 AATTT-TTTAA-TCTAATAA
1 AATTTATTTAATTCTAATAA
1037568 ATATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTATTTAATTCTAATAATT
Found at i:1038437 original size:20 final size:22
Alignment explanation
Indices: 1038398--1038443 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1038388 GGTGTTAATT
*
1038398 TTAATATAAATGGTTATATTTA
1 TTAATATAAATAGTTATATTTA
1038420 TTAATATAAATAG-T-TATTTA
1 TTAATATAAATAGTTATATTTA
1038440 TTAA
1 TTAA
1038444 AAACTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 1 0.04
22 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
TTAATATAAATAGTTATATTTA
Found at i:1039224 original size:15 final size:16
Alignment explanation
Indices: 1039187--1039225 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1039177 TAACTTTACT
1039187 TCAA-TTTTCCTTAAA
1 TCAATTTTTCCTTAAA
*
1039202 TCATTTTTTCCTTAAA
1 TCAATTTTTCCTTAAA
1039218 T-AATTTTT
1 TCAATTTTT
1039226 TTCTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (16 bp):
TCAATTTTTCCTTAAA
Found at i:1039228 original size:17 final size:16
Alignment explanation
Indices: 1039191--1039226 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1039181 TTTACTTCAA
*
1039191 TTTTCCTTAAATCATT
1 TTTTCCTTAAATAATT
1039207 TTTTCCTTAAATAATT
1 TTTTCCTTAAATAATT
1039223 TTTT
1 TTTT
1039227 TCTTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTCCTTAAATAATT
Found at i:1042663 original size:7 final size:7
Alignment explanation
Indices: 1042653--1042678 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1042643 TTTTTTTTGG
1042653 TTTTTAT
1 TTTTTAT
1042660 TTTTTAT
1 TTTTTAT
1042667 TTTTTAT
1 TTTTTAT
1042674 TTTTT
1 TTTTT
1042679 TGAAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:1042664 original size:14 final size:14
Alignment explanation
Indices: 1042645--1042678 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1042635 AACACACTTT
*
1042645 TTTTTTGGTTTTTA
1 TTTTTTAGTTTTTA
*
1042659 TTTTTTATTTTTTA
1 TTTTTTAGTTTTTA
1042673 TTTTTT
1 TTTTTT
1042679 TGAAAAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (14 bp):
TTTTTTAGTTTTTA
Found at i:1042813 original size:42 final size:41
Alignment explanation
Indices: 1042716--1042942 Score: 235
Period size: 41 Copynumber: 5.4 Consensus size: 41
1042706 TAGAAGCTCA
* * * *
1042716 ACAACTTTAAAAAAATAAATTGCCCCTCTAAACCA-ACGTACC
1 ACAACTTT-GAAAAATAAAATGCTCCTCTAAA-CAGAGGTACC
* * ** *
1042758 ATAACCCTTGAAAAATAAAATGCTTTTCTAAACAGAGGCACC
1 ACAA-CTTTGAAAAATAAAATGCTCCTCTAAACAGAGGTACC
1042800 ACAACTTT-AGAAAATAAAAATGCTCCTCTAAACAGAGGTACC
1 ACAACTTTGA-AAAAT-AAAATGCTCCTCTAAACAGAGGTACC
* *
1042842 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAAAGGTACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGTACC
* * * *
1042883 ACAACTTTGAAAAA-ATAAATGCTCCTCTAAATAGAAGAAAC
1 ACAACTTTGAAAAATA-AAATGCTCCTCTAAACAGAGGTACC
1042924 ACAACTTTGAAAAAATAAA
1 ACAACTTTG-AAAAATAAA
1042943 TTACTCATCT
Statistics
Matches: 157, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
40 2 0.01
41 78 0.50
42 72 0.46
43 5 0.03
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.22
Consensus pattern (41 bp):
ACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGTACC
Found at i:1042871 original size:83 final size:83
Alignment explanation
Indices: 1042677--1042963 Score: 285
Period size: 83 Copynumber: 3.4 Consensus size: 83
1042667 TTTTTATTTT
* * * * *
1042677 TTTGAAAAAGTAAATAAAGCTCCTCTAAATAGAAGCTCAACAACTTTA-AAAAAATAAATTGCCC
1 TTTGAAAAA-T-AA-AATGCTCCTCTAAATAGAGGCACCACAACTTTAGAAAAAATAAA-TGCTC
* *
1042741 CTCTAAACCA-ACGTACCATAACC
62 CTCTAAA-CAGAAGTACCACAA-C
* ** *
1042764 CTTGAAAAATAAAATGCTTTTCTAAACAGAGGCACCACAACTTTAGAAAATAA-AAATGCTCCTC
1 TTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCACAACTTTAGAAAA-AATAAATGCTCCTC
*
1042828 TAAACAGAGGTACCACAAC
65 TAAACAGAAGTACCACAAC
* *
1042847 TTTGAAAAATAAAATGCTCCTCTAAATAAAGGTACCACAACTTT-GAAAAAATAAATGCTCCTCT
1 TTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCACAACTTTAGAAAAAATAAATGCTCCTCT
* * *
1042911 AAATAGAAGAAACACAAC
66 AAACAGAAGTACCACAAC
* * * *
1042929 TTTGAAAAAATAAATTACTCATCTAAATAAAGGCA
1 TTTG-AAAAATAAAATGCTCCTCTAAATAGAGGCA
1042964 ATAGAAATTT
Statistics
Matches: 170, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
81 2 0.01
82 35 0.21
83 67 0.39
84 46 0.27
85 9 0.05
86 3 0.02
87 8 0.05
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (83 bp):
TTTGAAAAATAAAATGCTCCTCTAAATAGAGGCACCACAACTTTAGAAAAAATAAATGCTCCTCT
AAACAGAAGTACCACAAC
Found at i:1042986 original size:42 final size:42
Alignment explanation
Indices: 1042716--1042989 Score: 200
Period size: 42 Copynumber: 6.6 Consensus size: 42
1042706 TAGAAGCTCA
* * ** * * *
1042716 ACAACTTTAAAAAAATAAATTGCCCCTCTAAACCAACGTACC
1 ACAACTTTGAAAAAATAAATTGCTCCTCTAAATAAAGGAAAC
* * * ** * * * *
1042758 ATAACCCTTG-AAAAATAAAATGCTTTTCTAAACAGAGGCACC
1 ACAA-CTTTGAAAAAATAAATTGCTCCTCTAAATAAAGGAAAC
* * * *
1042800 ACAACTTTAGAAAATAA-AAA-TGCTCCTCTAAACAGAGGTACC
1 ACAACTTT-GAAAA-AATAAATTGCTCCTCTAAATAAAGGAAAC
* * *
1042842 ACAACTTTG-AAAAATAAAATGCTCCTCTAAATAAAGGTACC
1 ACAACTTTGAAAAAATAAATTGCTCCTCTAAATAAAGGAAAC
1042883 ACAACTTTGAAAAAATAAA-TGCTCCTCTAAATAGAA-GAAAC
1 ACAACTTTGAAAAAATAAATTGCTCCTCTAAATA-AAGGAAAC
* * * *
1042924 ACAACTTTGAAAAAATAAATTACTCATCTAAATAAAGGCAAT
1 ACAACTTTGAAAAAATAAATTGCTCCTCTAAATAAAGGAAAC
* * *
1042966 AGAAATTTGGAAAAATAAATTGCT
1 ACAACTTTGAAAAAATAAATTGCT
1042990 TCCAAATAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.01
40 6 0.03
41 71 0.37
42 104 0.54
43 9 0.05
44 2 0.01
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (42 bp):
ACAACTTTGAAAAAATAAATTGCTCCTCTAAATAAAGGAAAC
Found at i:1042999 original size:57 final size:57
Alignment explanation
Indices: 1042936--1043046 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 57
1042926 AACTTTGAAA
*
1042936 AAATAAATTACTCATCTAAATAAAGGCAATAGAAATTTGGAAA-AATAAATTGCTTCC
1 AAATAAATTACTCATCTAAATAAAGGCAACAGAAATTT-GAAAGAATAAATTGCTTCC
* * * *
1042993 AAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTGAAAGAATAAATTGCT
1 AAATAAATTACTCATCTAAATAAAGGCAACAGAAATTTGAAAGAATAAATTGCT
1043047 CATCTAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 4 0.08
57 44 0.92
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (57 bp):
AAATAAATTACTCATCTAAATAAAGGCAACAGAAATTTGAAAGAATAAATTGCTTCC
Found at i:1043079 original size:99 final size:98
Alignment explanation
Indices: 1042895--1043088 Score: 298
Period size: 99 Copynumber: 2.0 Consensus size: 98
1042885 AACTTTGAAA
1042895 AAATAAATGCTCCTCTAAATAGAAGAAACACAACTTTGAAAAAATAAATTACTCATCTAAATAAA
1 AAATAAATGCTCCTCTAAATAGAAGAAACACAACTTTGAAAAAATAAATTACTCATCTAAATAAA
* *
1042960 GGCAATAGAAATTTGGAAAAATAAATTGCTTCC
66 GGCAACAGAAATTTGAAAAAATAAATTGCTTCC
* * * * * *
1042993 AAATAAATTGCTCCTCTAAATAGAGGCAACAGAACTTTGAAAGAATAAATTGCTCATCTAAATAG
1 AAATAAA-TGCTCCTCTAAATAGAAGAAACACAACTTTGAAAAAATAAATTACTCATCTAAATAA
*
1043058 AGGCAACAGAACTTTGAAAAAATAAATTGCT
65 AGGCAACAGAAATTTGAAAAAATAAATTGCT
1043089 CCTCTAAATA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 7 0.08
99 79 0.92
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (98 bp):
AAATAAATGCTCCTCTAAATAGAAGAAACACAACTTTGAAAAAATAAATTACTCATCTAAATAAA
GGCAACAGAAATTTGAAAAAATAAATTGCTTCC
Found at i:1043180 original size:44 final size:43
Alignment explanation
Indices: 1042993--1043262 Score: 422
Period size: 42 Copynumber: 6.3 Consensus size: 43
1042983 AATTGCTTCC
*
1042993 AAATAAATTGCTCCTCTAAATAGAGGCAA-CAGAACTTTGAAA
1 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTTGAAA
* * *
1043035 GAATAAATTGCTCATCTAAATAGAGGCAA-CAGAACTTTGAAA
1 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTTGAAA
1043077 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTTG-AA
1 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTTGAAA
1043119 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTTAGAAA
1 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTT-GAAA
*
1043163 AAATAAAATGCTCCTCTAAATAGAGGCAACCACAACTTTAGAAA
1 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTT-GAAA
*
1043207 AAATAAAATGCTCCTCTAAATAGAGGCAACCACAACTTT-AAGA
1 AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTTGAA-A
*
1043250 AAATAAAATGCTC
1 AAATAAATTGCTC
1043263 ATTGACAATA
Statistics
Matches: 218, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
42 110 0.50
43 24 0.11
44 84 0.39
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (43 bp):
AAATAAATTGCTCCTCTAAATAGAGGCAACCACAACTTTGAAA
Found at i:1043715 original size:24 final size:23
Alignment explanation
Indices: 1043688--1043791 Score: 120
Period size: 24 Copynumber: 4.4 Consensus size: 23
1043678 ATTATTTGTT
* *
1043688 TTTATTTTTTATTTTTTAAGTATA
1 TTTATTTTTTATCTATTAA-TATA
* *
1043712 TTTATTATTTATCTACTAATATA
1 TTTATTTTTTATCTATTAATATA
1043735 TTTA-TTTTTATCTATTAATATA
1 TTTATTTTTTATCTATTAATATA
*
1043757 TTTTTTTATTTATCTATTAATATA
1 TTTATTT-TTTATCTATTAATATA
*
1043781 TATATGTTTTT
1 TTTAT-TTTTT
1043792 TATTATAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.28
23 10 0.15
24 37 0.54
25 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTTTATCTATTAATATA
Found at i:1043739 original size:20 final size:20
Alignment explanation
Indices: 1043716--1043765 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
1043706 AGTATATTTA
1043716 TTATTTATCTACTAATATAT
1 TTATTTATCTACTAATATAT
*
1043736 TTATTTTTATCTATTAATATAT
1 TTA--TTTATCTACTAATATAT
*
1043758 TTTTTTAT
1 TTATTTAT
1043766 TTATCTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATTTATCTACTAATATAT
Found at i:1043745 original size:46 final size:46
Alignment explanation
Indices: 1043688--1043790 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 46
1043678 ATTATTTGTT
* *
1043688 TTTATTTTTTATTTTTTAAGTATA-TTTATTATTTATCTACTAATATA
1 TTTA-TTTTTATCTATTAA-TATATTTTATTATTTATCTACTAATATA
* *
1043735 TTTATTTTTATCTATTAATATATTTTTTTATTTATCTATTAATATA
1 TTTATTTTTATCTATTAATATATTTTATTATTTATCTACTAATATA
*
1043781 TATATGTTTT
1 TTTAT-TTTT
1043791 TTATTATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 4 0.08
46 37 0.76
47 8 0.16
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (46 bp):
TTTATTTTTATCTATTAATATATTTTATTATTTATCTACTAATATA
Found at i:1043812 original size:3 final size:3
Alignment explanation
Indices: 1043791--1043858 Score: 50
Period size: 3 Copynumber: 21.7 Consensus size: 3
1043781 TATATGTTTT
* *
1043791 TTA TTA TAA TTTA TCTA TTA TTA TTA TAA GTTA TCTA TTA TTA TT- TT-
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA
*
1043838 TTT TCTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TT
1043859 TTCTTTTAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
2 4 0.07
3 38 0.70
4 12 0.22
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1043813 original size:17 final size:17
Alignment explanation
Indices: 1043791--1043851 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
1043781 TATATGTTTT
1043791 TTATTATAATTTATCTATTA
1 TTATTATAATTTATC---TA
*
1043811 TTATTATAAGTTATCTA
1 TTATTATAATTTATCTA
** *
1043828 TTATTATTTTTTTTCTA
1 TTATTATAATTTATCTA
1043845 TTATTAT
1 TTATTAT
1043852 TATTATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 22 0.61
20 14 0.39
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTATAATTTATCTA
Found at i:1043860 original size:20 final size:20
Alignment explanation
Indices: 1043791--1043859 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
1043781 TATATGTTTT
1043791 TTATTATAATTTATCTATTA
1 TTATTATAATTTATCTATTA
*
1043811 TTATTATAAGTTATCTATTA
1 TTATTATAATTTATCTATTA
*
1043831 TTATT-T--TTTTTCTATTA
1 TTATTATAATTTATCTATTA
*
1043848 TTATTATTATTT
1 TTATTATAATTT
1043860 TCTTTTAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
17 14 0.33
18 1 0.02
19 1 0.02
20 27 0.63
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (20 bp):
TTATTATAATTTATCTATTA
Found at i:1043871 original size:20 final size:19
Alignment explanation
Indices: 1043791--1043877 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 19
1043781 TATATGTTTT
*
1043791 TTATTATAATTTATCTATTA
1 TTATTATTATTT-TCTATTA
* *
1043811 TTATTATAAGTTATCTATTA
1 TTATTATTA-TTTTCTATTA
1043831 TTATT-TT-TTTTCTATTA
1 TTATTATTATTTTCTATTA
*
1043848 TTATTATTATTTTCTTTTA
1 TTATTATTATTTTCTATTA
1043867 GTTATCTATTA
1 -TTAT-TATTA
1043878 ATATATTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
17 14 0.24
18 2 0.03
19 10 0.17
20 25 0.43
21 7 0.12
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATTATTATTTTCTATTA
Found at i:1043901 original size:20 final size:20
Alignment explanation
Indices: 1043878--1043919 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1043868 TTATCTATTA
1043878 ATATATTTATTTTTATTTTT
1 ATATATTTATTTTTATTTTT
* * *
1043898 ATATTTTTCTTTTTCTTTTT
1 ATATATTTATTTTTATTTTT
1043918 AT
1 AT
1043920 TCGGCTGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (20 bp):
ATATATTTATTTTTATTTTT
Found at i:1044708 original size:14 final size:13
Alignment explanation
Indices: 1044689--1044739 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
1044679 TAGATTAGAA
1044689 TTATTTAGTATTTT
1 TTATTTA-TATTTT
*
1044703 TTATTTATTTTATT
1 TTATTTATATT-TT
1044717 TTATTT-TA-TTT
1 TTATTTATATTTT
1044728 TTATTTAT-TTTT
1 TTATTTATATTTT
1044740 CTTTAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 8 0.25
12 5 0.16
13 4 0.12
14 15 0.47
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (13 bp):
TTATTTATATTTT
Found at i:1044716 original size:5 final size:5
Alignment explanation
Indices: 1044701--1044738 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
1044691 ATTTAGTATT
1044701 TTTTA -TTTA TTTTA TTTTA TTTTA TTTT- TATTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTT
1044739 TCTTTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.17
5 24 0.80
6 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:1044804 original size:58 final size:56
Alignment explanation
Indices: 1044736--1044916 Score: 193
Period size: 58 Copynumber: 3.1 Consensus size: 56
1044726 TTTTATTTAT
* * * *
1044736 TTTTCTTTAAATAAAATTCCAAAAAGAAATATTTTAAAGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAATAAAATTTC-TAAA-AAATATTTTTAAGGAAAAGTTGAAAGTATCAA
* *
1044794 TTTTCCTTAAA-AATAAGTTTTCTAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTCCTTAAATAA-AA--TTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA
* ** * *
1044852 TTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTTAGGAAAAGTTAAAAGTATCAA
1 TTTTCCTT--AAATAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA
1044910 TTTTCCT
1 TTTTCCT
1044917 AGTATCAATT
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
57 2 0.02
58 91 0.88
59 3 0.03
60 6 0.06
61 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (56 bp):
TTTTCCTTAAATAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA
Found at i:1044921 original size:73 final size:73
Alignment explanation
Indices: 1044844--1044987 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 73
1044834 AAAAGTTGAA
* **
1044844 AGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTTAGGAAAAGTTAAAAGTATCA
1 AGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTAAAAGTATCA
1044909 ATTTTCCT
66 ATTTTCCT
*
1044917 AGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCA
1 AGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTAAAAGTATCA
1044982 ATTTTC
66 ATTTTC
1044988 TTTGAAAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (73 bp):
AGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTAAAAGTATCA
ATTTTCCT
Found at i:1044922 original size:15 final size:15
Alignment explanation
Indices: 1044902--1044931 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1044892 AAAAGTTAAA
1044902 AGTATCAATTTTCCT
1 AGTATCAATTTTCCT
1044917 AGTATCAATTTTCCT
1 AGTATCAATTTTCCT
1044932 TGAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
AGTATCAATTTTCCT
Found at i:1045045 original size:131 final size:131
Alignment explanation
Indices: 1044786--1045043 Score: 430
Period size: 131 Copynumber: 2.0 Consensus size: 131
1044776 AAAAGTTGAA
* *
1044786 AGTATCAATTTTCCTTAAAAATAAGTTTTCTAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
1 AGTATCAATTTTCCTTAAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCA
* *
1044851 ATTTTTCTTGAAAATAAGTTTTCTAAAAAATATTTTTTAGGAAAAGTTAAAAGTATCAATTTTCC
66 ATTTTTCTTGAAAATAAGTTTTCTAAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCC
1044916 T
131 T
*
1044917 AGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCA
1 AGTATCAATTTTCCTTAAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCA
* *
1044982 A-TTTTCTTTGAAAATAA-TTTTCTAAAAAAGCTTTTTGAGGAAAAGTTTAAAGTATCAATTTT
66 ATTTTTC-TTGAAAATAAGTTTTCTAAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTT
1045044 TCTCGGAATT
Statistics
Matches: 119, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
130 46 0.39
131 73 0.61
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (131 bp):
AGTATCAATTTTCCTTAAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCA
ATTTTTCTTGAAAATAAGTTTTCTAAAAAAGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCC
T
Found at i:1045046 original size:58 final size:58
Alignment explanation
Indices: 1044917--1045043 Score: 202
Period size: 57 Copynumber: 2.2 Consensus size: 58
1044907 CAATTTTCCT
* *
1044917 AGTATCAATTTTCCTTGAAAATAAGTTTTCTAAAAAATATTTTCGAGGAAAAGTTGAA
1 AGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAAAAGATTTTCGAGGAAAAGTTGAA
* * *
1044975 AGTATCAATTTTCTTTGAAAATAA-TTTTCTAAAAAAGCTTTTTGAGGAAAAGTTTAA
1 AGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAAAAGATTTTCGAGGAAAAGTTGAA
1045032 AGTATCAATTTT
1 AGTATCAATTTT
1045044 TCTCGGAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
57 41 0.64
58 23 0.36
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (58 bp):
AGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAAAAGATTTTCGAGGAAAAGTTGAA
Found at i:1046244 original size:71 final size:71
Alignment explanation
Indices: 1046155--1046361 Score: 276
Period size: 70 Copynumber: 2.9 Consensus size: 71
1046145 ACCCCACATG
*
1046155 ATAGGCTTCTTAGCACTAGCCATTTTAACATAAATTTCATCCACTGACTCACATTATTCTCATCA
1 ATAGGCTTCTTAGCACTAGCCATTTTAACATGAATTTCATCCACTGACTCACATTATTCTCATCA
1046220 CAATTC
66 CAATTC
* * * *
1046226 ATAGGCTTCTCAGTACTAGCCATTCTAACATGAATTTCATCCACTGAC-CACACTATTCTCATCA
1 ATAGGCTTCTTAGCACTAGCCATTTTAACATGAATTTCATCCACTGACTCACATTATTCTCATCA
*
1046290 TAATTC
66 CAATTC
* * * * *
1046296 GTAAGCTTCTTAGCACTAGCCATTTTATA-ATGAATTTTATCCTCTGATTCACATTATGT-TCAT
1 ATAGGCTTCTTAGCACTAGCCATTTTA-ACATGAATTTCATCCACTGACTCACATTAT-TCTCAT
1046359 CAC
64 CAC
1046362 TTGATCACCA
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
70 58 0.50
71 58 0.50
72 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (71 bp):
ATAGGCTTCTTAGCACTAGCCATTTTAACATGAATTTCATCCACTGACTCACATTATTCTCATCA
CAATTC
Found at i:1047006 original size:25 final size:27
Alignment explanation
Indices: 1046978--1047034 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
1046968 TATTTTCTCA
*
1046978 TTTTCTCCCTT-TTTTTTTCT-TTTTT
1 TTTTCTCCATTCTTTTTTTCTCTTTTT
*
1047003 TTTT-TTCATTCTTTTTTTCTCTTTTT
1 TTTTCTCCATTCTTTTTTTCTCTTTTT
1047029 TCTTTC
1 T-TTTC
1047035 CTTCATTCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 13 0.50
26 6 0.23
27 3 0.12
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTCTCCATTCTTTTTTTCTCTTTTT
Found at i:1047034 original size:13 final size:12
Alignment explanation
Indices: 1046986--1047034 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 12
1046976 CATTTTCTCC
1046986 CTTTTTTTTTCT
1 CTTTTTTTTTCT
*
1046998 -TTTTTTTTTTT
1 CTTTTTTTTTCT
1047009 CATTCTTTTTTTCT
1 C-TT-TTTTTTTCT
1047023 CTTTTTTCTTTC
1 CTTTTTT-TTTC
1047035 CTTCATTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 10 0.32
12 4 0.13
13 8 0.26
14 9 0.29
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTCT
Found at i:1047412 original size:14 final size:14
Alignment explanation
Indices: 1047380--1047411 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
1047370 AGGTGTGGCA
1047380 TTTTTCTTTGCTTT
1 TTTTTCTTTGCTTT
1047394 TTTTTC-TTGCTTT
1 TTTTTCTTTGCTTT
1047407 TTTTT
1 TTTTT
1047412 TTAAGACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTGCTTT
Found at i:1049345 original size:20 final size:20
Alignment explanation
Indices: 1049303--1049347 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1049293 ATAAGTTTAT
* * *
1049303 CTTCTGTTTGACTTTTGAGG
1 CTTCTGTTCGACTTTTAAAG
1049323 CTTCTGTTCGACTTTTAAAG
1 CTTCTGTTCGACTTTTAAAG
1049343 CTTCT
1 CTTCT
1049348 AAAGTCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.20, G:0.18, T:0.49
Consensus pattern (20 bp):
CTTCTGTTCGACTTTTAAAG
Found at i:1050033 original size:17 final size:16
Alignment explanation
Indices: 1049986--1050035 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
1049976 GATGTATAGA
1049986 ATGAAATGATAATGAT
1 ATGAAATGATAATGAT
*
1050002 GCACGAAATGA-AATGAT
1 --ATGAAATGATAATGAT
1050019 ATGAAAATGATAATGAT
1 ATG-AAATGATAATGAT
1050036 GCAGGTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 2 0.07
16 6 0.21
17 12 0.43
18 8 0.29
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (16 bp):
ATGAAATGATAATGAT
Found at i:1051609 original size:26 final size:26
Alignment explanation
Indices: 1051557--1051609 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
1051547 CACTTAAACA
**
1051557 TTTTATAAAAATTTATCATTTAAAAT
1 TTTTATAAAAATTTATCATCGAAAAT
*
1051583 TTTTAT-AAATTTTATCATCGAATAAT
1 TTTTATAAAAATTTATCATCGAA-AAT
1051609 T
1 T
1051610 AATATTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
TTTTATAAAAATTTATCATCGAAAAT
Found at i:1052351 original size:9 final size:9
Alignment explanation
Indices: 1052328--1052361 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1052318 TATTTTCTCG
1052328 TTTTTTTCA
1 TTTTTTTCA
**
1052337 GCTTTTTCA
1 TTTTTTTCA
1052346 TTTTTTTCA
1 TTTTTTTCA
1052355 TTTTTTT
1 TTTTTTT
1052362 ATAAAAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.09, C:0.12, G:0.03, T:0.76
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:1059940 original size:23 final size:26
Alignment explanation
Indices: 1059899--1059959 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
1059889 ATATATTTTT
*
1059899 TTAATAAAAATATATTAATTT-TA-A
1 TTAATTAAAATATATTAATTTATATA
1059923 TTAATCTAAAATA-A-TAATTTATATTA
1 TTAAT-TAAAATATATTAATTTATA-TA
1059949 TTAATTAAAAT
1 TTAATTAAAAT
1059960 TTTATATACT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
23 6 0.19
24 8 0.25
25 12 0.38
26 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TTAATTAAAATATATTAATTTATATA
Found at i:1064282 original size:16 final size:15
Alignment explanation
Indices: 1064261--1064356 Score: 65
Period size: 16 Copynumber: 6.1 Consensus size: 15
1064251 TAGGTAAGTC
1064261 TATTTTCTTTTATTTT
1 TATTTT-TTTTATTTT
1064277 TATTTTTTTGTA-TTT
1 TATTTTTTT-TATTTT
**
1064292 TA-CATTTTTATTTT
1 TATTTTTTTTATTTT
1064306 T-TTGTATTTTTATTTT
1 TATT-T-TTTTTATTTT
1064322 TATTATTGTTTTATATATT
1 TATT-TT-TTTTAT-T-TT
1064341 T-TTTTCTTTTATTTT
1 TATTTT-TTTTATTTT
1064356 T
1 T
1064357 TATCTTAGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
13 2 0.03
14 8 0.12
15 11 0.17
16 21 0.32
17 17 0.26
18 3 0.05
19 3 0.05
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (15 bp):
TATTTTTTTTATTTT
Found at i:1064292 original size:7 final size:6
Alignment explanation
Indices: 1064268--1064356 Score: 53
Period size: 6 Copynumber: 14.7 Consensus size: 6
1064258 GTCTATTTTC
* * *
1064268 TTTTAT TTTTA- TTTT-T TTGTAT TTTACAT TTTTA- TTTT-T TTGTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT
*
1064313 TTTTAT TTTTAT TATTGT-T TTATATAT TTTTTT CTTTTAT TTTT
1 TTTTAT TTTTAT T-TT-TAT TT-T-TAT TTTTAT -TTTTAT TTTT
1064357 TATCTTAGGT
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
5 14 0.22
6 29 0.45
7 17 0.27
8 4 0.06
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:1064292 original size:8 final size:8
Alignment explanation
Indices: 1064271--1064359 Score: 51
Period size: 8 Copynumber: 11.1 Consensus size: 8
1064261 TATTTTCTTT
1064271 TATTTTTA
1 TATTTTTA
* *
1064279 TTTTTTTG
1 TATTTTTA
1064287 TA-TTTTA
1 TATTTTTA
*
1064294 CATTTTTA
1 TATTTTTA
* *
1064302 TTTTTTTG
1 TATTTTTA
1064310 TATTTTTA
1 TATTTTTA
*
1064318 TTTTTATTA
1 TATTT-TTA
1064327 T-TGTTTTA
1 TAT-TTTTA
1064335 TATATTTT-
1 TAT-TTTTA
*
1064343 TTTCTTTTA
1 TAT-TTTTA
1064352 T-TTTTTA
1 TATTTTTA
1064359 T
1 T
1064360 CTTAGGTATT
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
7 11 0.18
8 39 0.63
9 12 0.19
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (8 bp):
TATTTTTA
Found at i:1064300 original size:23 final size:22
Alignment explanation
Indices: 1064268--1064325 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
1064258 GTCTATTTTC
1064268 TTTT-ATTTTTATTTTTTTGTA
1 TTTTCATTTTTATTTTTTTGTA
1064289 TTTTACATTTTTATTTTTTTGTA
1 TTTT-CATTTTTATTTTTTTGTA
*
1064312 TTTTTATTTTTATT
1 TTTTCATTTTTATT
1064326 ATTGTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 4 0.12
22 9 0.26
23 21 0.62
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTTCATTTTTATTTTTTTGTA
Found at i:1064503 original size:22 final size:22
Alignment explanation
Indices: 1064478--1064543 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
1064468 TTATATGTTA
1064478 TAATTTATCTGTTATTTAATTT
1 TAATTTATCTGTTATTTAATTT
*
1064500 TAATTTATCTGTTAATT--TTT
1 TAATTTATCTGTTATTTAATTT
*
1064520 TGATTTATCTGATTTATTTAATTT
1 TAATTTATCTG--TTATTTAATTT
1064544 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.35
22 21 0.57
24 3 0.08
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.64
Consensus pattern (22 bp):
TAATTTATCTGTTATTTAATTT
Found at i:1064516 original size:12 final size:12
Alignment explanation
Indices: 1064478--1064517 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
1064468 TTATATGTTA
1064478 TAATTTATCTGT
1 TAATTTATCTGT
1064490 T-ATTTAAT-T-T
1 TAATTT-ATCTGT
1064500 TAATTTATCTGT
1 TAATTTATCTGT
1064512 TAATTT
1 TAATTT
1064518 TTTGATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 4 0.17
11 10 0.42
12 10 0.42
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (12 bp):
TAATTTATCTGT
Found at i:1064543 original size:9 final size:9
Alignment explanation
Indices: 1064511--1064564 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
1064501 AATTTATCTG
1064511 TTAATTT-T
1 TTAATTTAT
*
1064519 TTGATTTAT
1 TTAATTTAT
* *
1064528 CTGATTTAT
1 TTAATTTAT
1064537 TTAATTTAT
1 TTAATTTAT
* *
1064546 TTTATTTTT
1 TTAATTTAT
1064555 TTAATTTAT
1 TTAATTTAT
1064564 T
1 T
1064565 CGGCTGAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
8 6 0.16
9 31 0.84
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (9 bp):
TTAATTTAT
Found at i:1064564 original size:18 final size:19
Alignment explanation
Indices: 1064478--1064564 Score: 81
Period size: 18 Copynumber: 4.5 Consensus size: 19
1064468 TTATATGTTA
1064478 TAATTTATCTGTTATTTAATTT
1 TAATTTAT-TGTTATTT--TTT
*
1064500 TAATTTATCTGTTAATTTTT
1 TAATTTAT-TGTTATTTTTT
* *
1064520 TGATTTATCTG--ATTTATT
1 TAATTTAT-TGTTATTTTTT
1064538 TAATTTATT-TTATTTTTT
1 TAATTTATTGTTATTTTTT
1064556 TAATTTATT
1 TAATTTATT
1064565 CGGCTGAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
17 1 0.02
18 27 0.47
20 13 0.23
22 16 0.28
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
TAATTTATTGTTATTTTTT
Found at i:1065445 original size:5 final size:5
Alignment explanation
Indices: 1065414--1065521 Score: 55
Period size: 5 Copynumber: 21.6 Consensus size: 5
1065404 TTAGATTAGG
* * * * *
1065414 TTTAT TTAAT ATTCT TTTAT CTTTAT TTTAT TTT-T TAT-T TTTGT TTTACT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T
* * * *
1065464 TTT-C TTTAT TTTTT TATTTT TTTAT TTTCACT TTTAT TTTGT TTTA-
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT
1065510 -TTAT TTTAT TTT
1 TTTAT TTTAT TTT
1065522 CTTTAAATAA
Statistics
Matches: 79, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
3 3 0.04
4 9 0.11
5 47 0.59
6 16 0.20
7 4 0.05
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:1065451 original size:18 final size:17
Alignment explanation
Indices: 1065423--1065521 Score: 69
Period size: 18 Copynumber: 5.4 Consensus size: 17
1065413 GTTTATTTAA
1065423 TATTCTTTTATCTTTATTT
1 TATT-TTTTAT-TTTATTT
*
1065442 TATTTTTTATTTTTGTTT
1 TATTTTTTA-TTTTATTT
1065460 TACTTTTCTT-TATTT-TTT
1 TA-TTTT-TTAT-TTTATTT
1065478 TATTTTTTTATTTTCACTTT
1 TA-TTTTTTATTTT-A-TTT
1065498 TATTTTGTT-TTATTATTT
1 TATTTT-TTATT-TTATTT
1065516 TATTTT
1 TATTTT
1065522 CTTTAAATAA
Statistics
Matches: 68, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
17 5 0.07
18 33 0.49
19 19 0.28
20 11 0.16
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (17 bp):
TATTTTTTATTTTATTT
Found at i:1065470 original size:33 final size:34
Alignment explanation
Indices: 1065433--1065521 Score: 103
Period size: 33 Copynumber: 2.6 Consensus size: 34
1065423 TATTCTTTTA
*
1065433 TCTTTATTTTATTTTTTATTTTTGTTTT-ACTTT
1 TCTTTATTTTATTTTTTATTTTTATTTTCACTTT
*
1065466 TCTTTATTTT-TTTATT-TTTTTATTTTCACTTT
1 TCTTTATTTTATTTTTTATTTTTATTTTCACTTT
* *
1065498 TATTTTGTTTTATTATTTTATTTT
1 T-CTTTATTTTATT-TTTTATTTT
1065522 CTTTAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 9 0.20
32 11 0.24
33 17 0.37
34 2 0.04
35 3 0.07
36 4 0.09
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (34 bp):
TCTTTATTTTATTTTTTATTTTTATTTTCACTTT
Found at i:1065481 original size:8 final size:8
Alignment explanation
Indices: 1065439--1065491 Score: 61
Period size: 8 Copynumber: 6.1 Consensus size: 8
1065429 TTTATCTTTA
1065439 TTTTATTT
1 TTTTATTT
*
1065447 TTTATTTTT
1 TTT-TATTT
1065456 GTTTTACTTT
1 -TTTTA-TTT
1065466 TCTTTATTT
1 T-TTTATTT
1065475 TTTTATTT
1 TTTTATTT
1065483 TTTTATTT
1 TTTTATTT
1065491 T
1 T
1065492 CACTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 19 0.49
9 10 0.26
10 10 0.26
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:1065499 original size:38 final size:37
Alignment explanation
Indices: 1065436--1065526 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 37
1065426 TCTTTTATCT
**
1065436 TTATTTTA-TTTTTTATTTTTGTTTTACTTTT-CTTTA
1 TTATTTTATTTTTTTATTTTACTTTTA-TTTTGCTTTA
* *
1065472 TTTTTTTATTTTTTTATTTTCACTTTTATTTTGTTTTA
1 TTATTTTATTTTTTTATTTT-ACTTTTATTTTGCTTTA
1065510 TTATTTTATTTTCTTTA
1 TTATTTTATTTT-TTTA
1065527 AATAAAATCC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 7 0.15
37 15 0.33
38 20 0.43
39 4 0.09
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (37 bp):
TTATTTTATTTTTTTATTTTACTTTTATTTTGCTTTA
Found at i:1065513 original size:13 final size:13
Alignment explanation
Indices: 1065436--1065521 Score: 58
Period size: 12 Copynumber: 6.9 Consensus size: 13
1065426 TCTTTTATCT
1065436 TTATTTTATTTT-
1 TTATTTTATTTTA
*
1065448 TTATTTT-TGTT-
1 TTATTTTATTTTA
*
1065459 TTACTTTT-CTTTA
1 TTA-TTTTATTTTA
* *
1065472 TTTTTTTATTTTT
1 TTATTTTATTTTA
*
1065485 TTATTTTCA-CTT-
1 TTATTTT-ATTTTA
*
1065497 TTATTTTGTTTTA
1 TTATTTTATTTTA
1065510 TTATTTTATTTT
1 TTATTTTATTTT
1065522 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
11 6 0.11
12 26 0.46
13 24 0.42
14 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:1065598 original size:58 final size:57
Alignment explanation
Indices: 1065536--1065804 Score: 285
Period size: 57 Copynumber: 4.7 Consensus size: 57
1065526 AAATAAAATC
*
1065536 CAAAAAAATATTTTTGGGAAAAATTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
** * *
1065594 CAAAAAAAGGTTTTTGAGGAAAAGTTGAAATTATCAATTTTCTTTAAAAATAAATTTT
1 CAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *** * * *
1065652 TAAAACTGT-TTTTTAGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAATTAAGGTTTT
1 CAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAAATAA-ATTTT
* ** * * *
1065709 C-AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCGAGATTAAAATTT
1 CAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* *
1065765 CTAAAAAATA-TTTTGGAAAAAAGTTGAAAGTATCAATTTT
1 CAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
1065805 TCCTACACAA
Statistics
Matches: 177, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
55 2 0.01
56 44 0.25
57 75 0.42
58 54 0.31
59 2 0.01
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (57 bp):
CAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:1077301 original size:41 final size:41
Alignment explanation
Indices: 1077256--1077351 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
1077246 GATTGTCAAT
*
1077256 GAGCAATTTACTTTTCAAAGTTGCGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGCGGTGCCTCTGTTTAGAG
*
1077297 GAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGCGGTGCCTCTGTTTAGAG
1077338 GAGCAATTTACTTT
1 GAGCAATTTACTTT
1077352 CCGAGTCGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGCGGTGCCTCTGTTTAGAG
Found at i:1077403 original size:41 final size:41
Alignment explanation
Indices: 1077286--1077547 Score: 233
Period size: 41 Copynumber: 6.4 Consensus size: 41
1077276 TTGCGGTGCC
* * * * * * *
1077286 TCTGTTTAGAGGAG-CAATTTACTTTTCAAAGTCGTGGTGCC
1 TCTGATTAGAGGAGCCATTTTATTTTTC-GAGTCGTTGAGCT
* * * *
1077327 TCTGTTTAGAGGAG-CAATTTACTTTCCGAGTCGTTGAGCT
1 TCTGATTAGAGGAGCCATTTTATTTTTCGAGTCGTTGAGCT
*
1077367 TTTGATTAGAGGAGCCATTTTATTTTTCGAGTCGTTGAGCT
1 TCTGATTAGAGGAGCCATTTTATTTTTCGAGTCGTTGAGCT
* * * * *
1077408 TCTGATTATAGGTGCTATTTTATTTTTCGAGTCATTGAGTT
1 TCTGATTAGAGGAGCCATTTTATTTTTCGAGTCGTTGAGCT
* * * * *
1077449 TCTAATTAGAGGAGCCA-TTTATTTTCCAAAGTCATTGAGCC
1 TCTGATTAGAGGAGCCATTTTATTTTTC-GAGTCGTTGAGCT
* * *
1077490 TCTGATTAGAGGAGCCATTTATATTTCTCAAAGTCGTTGAGCC
1 TCTGATTAGAGGAGCCATTT-TATTTTTC-GAGTCGTTGAGCT
*
1077533 TCTGCTTAGAGGAGC
1 TCTGATTAGAGGAGC
1077548 TTTGATCAAA
Statistics
Matches: 188, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
40 30 0.16
41 123 0.65
42 2 0.01
43 33 0.18
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (41 bp):
TCTGATTAGAGGAGCCATTTTATTTTTCGAGTCGTTGAGCT
Found at i:1077572 original size:12 final size:12
Alignment explanation
Indices: 1077555--1077584 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
1077545 AGCTTTGATC
1077555 AAAAACAAAAAA
1 AAAAACAAAAAA
1077567 AAAAACAAAAAA
1 AAAAACAAAAAA
1077579 ACAAAA
1 A-AAAA
1077585 AAATAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:1077746 original size:6 final size:6
Alignment explanation
Indices: 1077735--1077781 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
1077725 GGTAAGTCTA
*
1077735 TTTTAT TTTTAT TTTTA- -TTT-T TTTTAT TTTACAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT
1077781 T
1 T
1077782 ATTGCTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
4 3 0.09
5 3 0.09
6 24 0.69
7 5 0.14
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:1077773 original size:22 final size:21
Alignment explanation
Indices: 1077735--1077784 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
1077725 GGTAAGTCTA
*
1077735 TTTTATTTTTATTTTTATTTT
1 TTTTATTTTCATTTTTATTTT
1077756 TTTTATTTTACATTTTTATTTT
1 TTTTATTTT-CATTTTTATTTT
*
1077778 TATTATT
1 TTTTATT
1077785 GCTTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTATTTTCATTTTTATTTT
Found at i:1077945 original size:22 final size:22
Alignment explanation
Indices: 1077920--1077967 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1077910 TTTATATGTA
1077920 TATCAGATTATAT-ATTATAATT
1 TATC-GATTATATAATTATAATT
* *
1077942 TATCTATTATATAATTTTAATT
1 TATCGATTATATAATTATAATT
1077964 TATC
1 TATC
1077968 TGTTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (22 bp):
TATCGATTATATAATTATAATT
Found at i:1077968 original size:22 final size:21
Alignment explanation
Indices: 1077926--1077968 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
1077916 TGTATATCAG
1077926 ATTATATATTATAATTTATCT
1 ATTATATATTATAATTTATCT
*
1077947 ATTATATAATTTTAATTTATCT
1 ATTATAT-ATTATAATTTATCT
1077969 GTTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATATATTATAATTTATCT
Found at i:1077976 original size:18 final size:18
Alignment explanation
Indices: 1077953--1078022 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
1077943 ATCTATTATA
1077953 TAATTTTAATTTATCTG-T
1 TAATTTT-ATTTATCTGAT
1077971 TAATTTTTTGATTTATCTGAT
1 TAA--TTTT-ATTTATCTGAT
* * *
1077992 TTATTTTATTTATTTTAT
1 TAATTTTATTTATCTGAT
*
1078010 TTATTTTATTTAT
1 TAATTTTATTTAT
1078023 TCGACTGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 25 0.56
19 4 0.09
20 13 0.29
21 3 0.07
ACGTcount: A:0.24, C:0.03, G:0.04, T:0.69
Consensus pattern (18 bp):
TAATTTTATTTATCTGAT
Found at i:1078002 original size:9 final size:9
Alignment explanation
Indices: 1077976--1078023 Score: 69
Period size: 9 Copynumber: 5.2 Consensus size: 9
1077966 TCTGTTAATT
1077976 TTTTGATTTA
1 TTTT-ATTTA
* *
1077986 TCTGATTTA
1 TTTTATTTA
1077995 TTTTATTTA
1 TTTTATTTA
1078004 TTTTATTTA
1 TTTTATTTA
1078013 TTTTATTTA
1 TTTTATTTA
1078022 TT
1 TT
1078024 CGACTGAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 32 0.94
10 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:1078975 original size:10 final size:9
Alignment explanation
Indices: 1078909--1078991 Score: 53
Period size: 9 Copynumber: 8.7 Consensus size: 9
1078899 CTTTATTTCA
1078909 TTTTTATTTT
1 TTTTTA-TTT
1078919 TGTTTTACTTT
1 T-TTTTA-TTT
* *
1078930 TCTTTACTT
1 TTTTTATTT
1078939 TTTTTA-TT
1 TTTTTATTT
1078947 TTTTTATTT
1 TTTTTATTT
1078956 TCACTTTTATTT
1 T---TTTTATTT
1078968 TGTTTTA-TT
1 T-TTTTATTT
*
1078977 ATTTTATTT
1 TTTTTATTT
*
1078986 TCTTTA
1 TTTTTA
1078992 AATAAAATCC
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
8 13 0.22
9 18 0.31
10 10 0.17
11 9 0.15
12 9 0.15
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.77
Consensus pattern (9 bp):
TTTTTATTT
Found at i:1078979 original size:33 final size:32
Alignment explanation
Indices: 1078892--1078981 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 32
1078882 ATTTAATATT
* * *
1078892 CTTTTATCTTTATTTCATTTTTATTTTTGTTTTA
1 CTTTTAT-TTTATTTTATTATT-TTTTTATTTTA
* *
1078926 CTTTT-CTTTACTTTTTTTATTTTTTTATTTTCA
1 CTTTTATTTTA-TTTTATTATTTTTTTATTTT-A
*
1078959 CTTTTATTTTGTTTTATTATTTT
1 CTTTTATTTTATTTTATTATTTT
1078982 ATTTTCTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
32 13 0.29
33 24 0.53
34 8 0.18
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.76
Consensus pattern (32 bp):
CTTTTATTTTATTTTATTATTTTTTTATTTTA
Found at i:1079051 original size:58 final size:57
Alignment explanation
Indices: 1078982--1079446 Score: 291
Period size: 58 Copynumber: 8.1 Consensus size: 57
1078972 TTATTATTTT
* * * *
1078982 ATTTTCTTTAAATAAA-ATCCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAATAAATTTCC--AAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
* * *
1079040 ATTTTCCTTAAAATAAATTTTCAAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTT-AAATAAATTTCCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
*
1079098 ATTTTCCTTAAAAATAAACTTT-CAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTT--AAATAAA-TTTCCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
* *
1079157 ATTTTCCTCGAAATTAAAGTTTCC--AAAAAATGTTTATG-GTGAAAAGTTGAAAGTATCA
1 ATTTTCCT-TAAA-TAAA-TTTCCAAAAAAAATGTTTTTGAG-GAAAAGTTGAAAGTATCA
* ** ** *
1079215 ATTTTTCTTAAAAATAAATTT---TTAAAACGGTTTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTCCTT--AAATAAATTTCCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
* * * * * * *
1079271 ATTTTACTCAAAATTAAGGTTT-C-AAAAAAGTATTTTTG-GAAAAAGTTAAAAGTATCA
1 ATTTTCCT-TAAA-TAA-ATTTCCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
* * * * * *
1079328 ATTTTTCTCGAAATTAAAGTTT-C--AAAAGAT-ATTTTGGGGAAAATTTGAAAAGTATCA
1 ATTTTCCT-TAAA-TAAA-TTTCCAAAAAAAATGTTTTTGAGGAAAAGTTG-AAAGTATCA
* * * * * *
1079385 ATTTTTCTCGAGATTAAAATTT-C-TAAAAAAT-ATTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTCCT-TA-AAT-AAATTTCCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
1079442 ATTTT
1 ATTTT
1079447 TCCTACACAA
Statistics
Matches: 342, Mismatches: 43, Indels: 45
0.80 0.10 0.10
Matches are distributed among these distances:
55 8 0.02
56 49 0.14
57 83 0.24
58 129 0.38
59 67 0.20
60 6 0.02
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
ATTTTCCTTAAATAAATTTCCAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:1079342 original size:57 final size:56
Alignment explanation
Indices: 1079006--1079448 Score: 458
Period size: 57 Copynumber: 7.7 Consensus size: 56
1078996 AAATCCAAAA
* * *
1079006 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAATTTTC
1 AAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTC
* * * * *
1079062 AAAAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAACTTTC
1 -AAAAAA-TATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTC
* * *
1079121 AAAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
1 -AAAAAATA-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTT-C
* * * * * *
1079181 AAAAAATGTTTATGGTGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
1 AAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTC
** ** * *
1079238 AAAACGGT-TTTTAAGGAAAAGTTGAAAGTATCAATTTTACTCAAAATTAAGGTTTC
1 AAAA-AATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTC
* * *
1079294 AAAAAAGTATTTTTGGAAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
1 AAAAAA-TATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTC
* * * * * *
1079351 AAAAGATATTTTGGGGAAAATTTGAAAAGTATCAATTTTTCTCGAGATTAAAATTTC
1 AAAAAATATTTTTGGGAAAAGTTG-AAAGTATCAATTTTTCTCAAAATTAAAGTTTC
*
1079408 TAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 -AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTC
1079449 CTACACAAAA
Statistics
Matches: 329, Mismatches: 46, Indels: 22
0.83 0.12 0.06
Matches are distributed among these distances:
56 54 0.16
57 108 0.33
58 101 0.31
59 65 0.20
60 1 0.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (56 bp):
AAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTC
Found at i:1080565 original size:79 final size:79
Alignment explanation
Indices: 1080431--1080588 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
1080421 CATGAAAAAA
* * *
1080431 ATAAATAATCACATACAAACTATCAAACTAAGTCTTAAGATAACATATGACTGACAACTAGCTCA
1 ATAAATAATCACACAAAAACTATCAAACTAAGGCTTAAGATAACATATGACTGACAACTAGCTCA
1080496 ACTCTCTAATGTCG
66 ACTCTCTAATGTCG
*
1080510 ATAAATAATCACACAAAAACTATCAAACTAAGGCTTAAGATAACATATGATTGACAACTAGCTCA
1 ATAAATAATCACACAAAAACTATCAAACTAAGGCTTAAGATAACATATGACTGACAACTAGCTCA
1080575 ACTCTCTAATGTCG
66 ACTCTCTAATGTCG
1080589 CTGTCATAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (79 bp):
ATAAATAATCACACAAAAACTATCAAACTAAGGCTTAAGATAACATATGACTGACAACTAGCTCA
ACTCTCTAATGTCG
Found at i:1081284 original size:13 final size:14
Alignment explanation
Indices: 1081252--1081283 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1081242 TTAAAAAAAT
*
1081252 AAAAATTATCATGC
1 AAAAATTACCATGC
1081266 AAAAATTACCATGC
1 AAAAATTACCATGC
1081280 AAAA
1 AAAA
1081284 TAATATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (14 bp):
AAAAATTACCATGC
Found at i:1081314 original size:15 final size:15
Alignment explanation
Indices: 1081294--1081351 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
1081284 TAATATTATG
1081294 TTAATAATCATGCAA
1 TTAATAATCATGCAA
*
1081309 TTAATAAACCATACAGACATA
1 TTAAT-AATCAT---G-CA-A
1081330 TTAATAATCATGCAA
1 TTAATAATCATGCAA
1081345 TTAATAA
1 TTAATAA
1081352 ATAAATCACA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
15 13 0.37
16 7 0.20
17 1 0.03
19 1 0.03
20 7 0.20
21 6 0.17
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (15 bp):
TTAATAATCATGCAA
Found at i:1082109 original size:18 final size:18
Alignment explanation
Indices: 1082069--1082124 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
1082059 TGAAACAAGT
1082069 AAAATTAAA-C-AA-AAA
1 AAAATTAAATCAAATAAA
*
1082084 TAAA-TAAAT-AAATAAA
1 AAAATTAAATCAAATAAA
*
1082100 ACAAATTAAATCAAATTAA
1 A-AAATTAAATCAAATAAA
1082119 AAAATT
1 AAAATT
1082125 TCTTATAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
14 4 0.12
15 5 0.16
16 3 0.09
17 3 0.09
18 10 0.31
19 7 0.22
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATTAAATCAAATAAA
Found at i:1082782 original size:42 final size:41
Alignment explanation
Indices: 1082705--1082962 Score: 291
Period size: 42 Copynumber: 6.1 Consensus size: 41
1082695 ATGATTGTCA
* *
1082705 AGGAGTAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
1082746 AGGAGCAATTTACTTTTCAAAAGTCGTGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* *
1082788 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
1082829 AGGAGCAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * * * *
1082871 AGAAGCAATTTATTTTTTTCAAAGTTGTTGAGGCTCTGATTAA
1 AGGAGCAATTTA--CTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
1082914 AGGAGCCATTTATGTTTCTCAAAGTTGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
1082957 AGGAGC
1 AGGAGC
1082963 TTTGGTCAAA
Statistics
Matches: 188, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
41 52 0.28
42 77 0.41
43 56 0.30
44 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:1082844 original size:83 final size:83
Alignment explanation
Indices: 1082705--1082962 Score: 308
Period size: 83 Copynumber: 3.1 Consensus size: 83
1082695 ATGATTGTCA
* * * *
1082705 AGGAGTAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGT
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCCAAAGT
1082770 CGTGTTGCCTCTGTTTAG
66 CGTGTTGCCTCTGTTTAG
* *
1082788 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCCAAAGT
1 AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCCAAAGT
*
1082853 CGTGGTGCCTCTGTTTAG
66 CGTGTTGCCTCTGTTTAG
* * * * * *
1082871 AGAAGCAATTTATTTTTTTCAAAGTTGTTGAGGCTCTGA-TTAAAGGAGCCATTTA-TGTTTCTC
1 AGGAGCAATTTA--TTTTTCAAAGTTGTGGTGCCTCT-ATTTAGAGGAGCAATTTACT-TTTC-C
1082934 AAAGT--TGTTGAGCCTCTGTTTAG
61 AAAGTCGTGTT--GCCTCTGTTTAG
1082957 AGGAGC
1 AGGAGC
1082963 TTTGGTCAAA
Statistics
Matches: 151, Mismatches: 17, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
83 87 0.58
84 4 0.03
85 36 0.24
86 24 0.16
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (83 bp):
AGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTTCCAAAGT
CGTGTTGCCTCTGTTTAG
Found at i:1082989 original size:14 final size:12
Alignment explanation
Indices: 1082970--1083007 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
1082960 AGCTTTGGTC
1082970 AAAAACGAAAACAA
1 AAAAAC-AAAA-AA
1082984 AAAAAC-AAAAA
1 AAAAACAAAAAA
1082995 AAAAACAAAAAA
1 AAAAACAAAAAA
1083007 A
1 A
1083008 TGAAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 8 0.35
12 9 0.39
14 6 0.26
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAA
Found at i:1082996 original size:11 final size:11
Alignment explanation
Indices: 1082982--1083007 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1082972 AAACGAAAAC
1082982 AAAAAAACAAA
1 AAAAAAACAAA
1082993 AAAAAAACAAA
1 AAAAAAACAAA
1083004 AAAA
1 AAAA
1083008 TGAAAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1083321 original size:19 final size:19
Alignment explanation
Indices: 1083287--1083339 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
1083277 AATATTTATA
1083287 TATATATTGTATT-TATATAGT
1 TATATATT-TATTATA-ATA-T
1083308 TATATATTTATTATAATAT
1 TATATATTTATTATAATAT
1083327 TATA-ATTTATTAT
1 TATATATTTATTAT
1083340 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 7 0.23
21 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TATATATTTATTATAATAT
Found at i:1083330 original size:17 final size:16
Alignment explanation
Indices: 1083278--1083336 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
1083268 TTTTCTGTTA
1083278 ATATTTATATATATATT
1 ATATTTATATA-ATATT
* *
1083295 GTATTTATATAGT-TAT
1 ATATTTATATAATAT-T
1083311 ATATTTATTATAATATT
1 ATATTTA-TATAATATT
1083328 ATAATTTAT
1 AT-ATTTAT
1083337 TATTATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.03
16 8 0.24
17 19 0.56
18 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
ATATTTATATAATATT
Found at i:1083395 original size:44 final size:43
Alignment explanation
Indices: 1083346--1083429 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 43
1083336 TTATTATTTT
* *
1083346 TTATCT-TGTAATATTTTT-TTGGATTTATCTTATTTTATTTTTAA
1 TTATCTGT-TAATATTTTTATTCG-TTTATCTGATTTT-TTTTTAA
*
1083390 TTATCTGTTAATTTTTTTATTCGTTTATCTGATTTTTTTT
1 TTATCTGTTAATATTTTTATTCGTTTATCTGATTTTTTTT
1083430 CGTTTATCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
43 4 0.11
44 27 0.77
45 4 0.11
ACGTcount: A:0.19, C:0.06, G:0.07, T:0.68
Consensus pattern (43 bp):
TTATCTGTTAATATTTTTATTCGTTTATCTGATTTTTTTTTAA
Found at i:1083417 original size:24 final size:23
Alignment explanation
Indices: 1083390--1083451 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 23
1083380 TTATTTTTAA
1083390 TTATCTGTTAATTTTTTTATTCGT
1 TTATCTGTTAATTTTTTT-TTCGT
1083414 TTATCTG---A-TTTTTTTTCGT
1 TTATCTGTTAATTTTTTTTTCGT
1083433 TTATCTGATT-ATTTTTTTT
1 TTATCTG-TTAATTTTTTTT
1083452 CTTTTTTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 1 0.03
22 1 0.03
23 7 0.21
24 7 0.21
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (23 bp):
TTATCTGTTAATTTTTTTTTCGT
Found at i:1083452 original size:22 final size:19
Alignment explanation
Indices: 1083402--1083449 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 19
1083392 ATCTGTTAAT
1083402 TTTTTTATTCGTTTATCTGA
1 TTTTTT-TTCGTTTATCTGA
1083422 TTTTTTTTCGTTTATCTGA
1 TTTTTTTTCGTTTATCTGA
1083441 TTATTTTTT
1 TT-TTTTTT
1083450 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.12, C:0.08, G:0.08, T:0.71
Consensus pattern (19 bp):
TTTTTTTTCGTTTATCTGA
Done.