Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 70 of 318
Found at i:24693539 original size:19 final size:19
Alignment explanation
Indices: 24693515--24693560 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
24693505 TGTGAAGTTT
*
24693515 AATGCACATG-ATGCAATG
1 AATGCAAATGCATGCAATG
*
24693533 CAATGCAAATGCATGGAATG
1 -AATGCAAATGCATGCAATG
24693553 AATGCAAA
1 AATGCAAA
24693561 AGAAAGCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATGCAATG
Found at i:24695948 original size:37 final size:34
Alignment explanation
Indices: 24695883--24695953 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
24695873 AGTAATAATG
* *
24695883 ATAATAATATTAGTATATAAATAGAAATAAAAAT
1 ATAATAATACTAGAATATAAATAGAAATAAAAAT
*
24695917 ATAATAATACTAGAAATATAAGTAGATAAATAAAAAT
1 ATAATAATACTAG-AATATAAATAG--AAATAAAAAT
24695954 TAGATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 12 0.39
35 9 0.29
37 10 0.32
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (34 bp):
ATAATAATACTAGAATATAAATAGAAATAAAAAT
Found at i:24696551 original size:5 final size:5
Alignment explanation
Indices: 24696543--24696573 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
24696533 CTAATTTAAT
24696543 AATAA AATAA AAT-A AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
24696574 ATAATATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:24696579 original size:14 final size:14
Alignment explanation
Indices: 24696543--24696572 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24696533 CTAATTTAAT
24696543 AATAAAATAAAATA
1 AATAAAATAAAATA
24696557 AATAAAATAAAATA
1 AATAAAATAAAATA
24696571 AA
1 AA
24696573 AATAATATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:24697626 original size:20 final size:21
Alignment explanation
Indices: 24697592--24697645 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
24697582 TGATGATATT
*
24697592 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
24697613 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
24697633 TTTTATTATTTTA
1 TTATATTATTTTA
24697646 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:24697649 original size:3 final size:3
Alignment explanation
Indices: 24697631--24697679 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
24697621 TTTAATGAGA
*
24697631 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
24697676 TAT T
1 TAT T
24697680 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:24697651 original size:11 final size:11
Alignment explanation
Indices: 24697635--24697673 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
24697625 ATGAGATATT
24697635 TTATTATTTTA
1 TTATTATTTTA
*
24697646 TTATTATTTCA
1 TTATTATTTTA
24697657 TTATTATTTTA
1 TTATTATTTTA
24697668 TTATTA
1 TTATTA
24697674 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:24697659 original size:19 final size:19
Alignment explanation
Indices: 24697631--24697672 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
24697621 TTTAATGAGA
*
24697631 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
24697650 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
24697669 TATT
1 TATT
24697673 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:24699861 original size:46 final size:46
Alignment explanation
Indices: 24699809--24699990 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
24699799 GGTGTGCTCT
*
24699809 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
24699855 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
24699901 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
24699947 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
24699991 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:24704729 original size:39 final size:39
Alignment explanation
Indices: 24704681--24704756 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
24704671 TATATTACCA
*
24704681 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCT
1 GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCCT
*
24704720 GCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTC
24704757 TAGTATCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCCT
Found at i:24706531 original size:20 final size:19
Alignment explanation
Indices: 24706501--24706542 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
24706491 AGGCAAGTGG
* *
24706501 TTTTATTTTATTCCTTTTA
1 TTTTATTTTATTACTTTCA
24706520 TTTTATTTTTATTACTTTCA
1 TTTTA-TTTTATTACTTTCA
24706540 TTT
1 TTT
24706543 CATATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATTTTATTACTTTCA
Found at i:24707435 original size:15 final size:14
Alignment explanation
Indices: 24707417--24707446 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
24707407 TTAATTTATT
24707417 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
24707432 TAATAATAATCTAA
1 TAATAATAATCTAA
24707446 T
1 T
24707447 GTAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:24707458 original size:21 final size:19
Alignment explanation
Indices: 24707434--24707502 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 19
24707424 AATGCTAATA
24707434 ATAATAATCTAATGTAAAACT
1 ATAATAAT-TAAT-TAAAACT
* *
24707455 ATAAT-GTTAATTAATAATT
1 ATAATAATTAATTAA-AACT
*
24707474 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAAT-TAAAACT
24707495 ATAATAAT
1 ATAATAAT
24707503 AATCATTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.08
19 12 0.31
20 2 0.05
21 19 0.49
22 3 0.08
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAATAATTAATTAAAACT
Found at i:24708603 original size:26 final size:26
Alignment explanation
Indices: 24708553--24708603 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
24708543 ATTTAATAAA
* *
24708553 TAAAAATAAAAATAAAAATCTTATAC
1 TAAAAATAAAAATAAAAAACATATAC
24708579 TAAAAATAAAAATAAAAAACATATA
1 TAAAAATAAAAATAAAAAACATATA
24708604 ATTTTATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (26 bp):
TAAAAATAAAAATAAAAAACATATAC
Found at i:24708630 original size:9 final size:9
Alignment explanation
Indices: 24708616--24708674 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 9
24708606 TTTATACAAA
*
24708616 TAATTCGGT
1 TAATTCGGG
* *
24708625 TAATTCAGT
1 TAATTCGGG
*
24708634 TAATTTGGG
1 TAATTCGGG
*
24708643 TAATTTGGG
1 TAATTCGGG
*
24708652 TAATTTGGG
1 TAATTCGGG
*
24708661 TAATTCGGT
1 TAATTCGGG
24708670 TAATT
1 TAATT
24708675 TTATACTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.25, C:0.05, G:0.24, T:0.46
Consensus pattern (9 bp):
TAATTCGGG
Found at i:24708646 original size:18 final size:18
Alignment explanation
Indices: 24708625--24708675 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
24708615 ATAATTCGGT
*
24708625 TAATTCAGTTAATTTGGG
1 TAATTCGGTTAATTTGGG
* *
24708643 TAATTTGGGTAATTTGGG
1 TAATTCGGTTAATTTGGG
24708661 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
24708676 TATACTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.47
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGG
Found at i:24710534 original size:28 final size:23
Alignment explanation
Indices: 24710477--24710537 Score: 61
Period size: 28 Copynumber: 2.5 Consensus size: 23
24710467 TGAATTGAAA
24710477 ATTG-ATTGAAAAGTGGAAAATG
1 ATTGAATTGAAAAGTGGAAAATG
*
24710499 ATTAAATTGAAAATGTGAGAAAATTGCG
1 ATTGAATTGAAAA-GTG-GAAAA-T--G
24710527 ATTGAATTGAA
1 ATTGAATTGAA
24710538 TTGAGATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 3 0.10
23 8 0.26
24 3 0.10
25 5 0.16
26 1 0.03
28 11 0.35
ACGTcount: A:0.46, C:0.02, G:0.23, T:0.30
Consensus pattern (23 bp):
ATTGAATTGAAAAGTGGAAAATG
Found at i:24710736 original size:37 final size:40
Alignment explanation
Indices: 24710645--24710739 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 40
24710635 GACCTCGAGT
* * *
24710645 TGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGAT
1 TGATGAGACACTGGGTGACACACTGTTACTTCGGATAGAC
** * *
24710685 TCGATGAGGTACTGGGT-AC-CACT-TTACTTCGGCTAGGC
1 T-GATGAGACACTGGGTGACACACTGTTACTTCGGATAGAC
24710723 TGATGAGACACTGGGTG
1 TGATGAGACACTGGGTG
24710740 TCAACTTTGC
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
37 13 0.30
38 13 0.30
39 3 0.07
40 2 0.05
41 13 0.30
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (40 bp):
TGATGAGACACTGGGTGACACACTGTTACTTCGGATAGAC
Found at i:24710747 original size:38 final size:38
Alignment explanation
Indices: 24710645--24710747 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
24710635 GACCTCGAGT
*
24710645 TGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGAT
1 TGATGAGACACTGGGTGTCA-ACT-TTACTTCGGATAGAC
** * * * *
24710685 TCGATGAGGTACTGGGT-ACCACTTTACTTCGGCTAGGC
1 T-GATGAGACACTGGGTGTCAACTTTACTTCGGATAGAC
24710723 TGATGAGACACTGGGTGTCAACTTT
1 TGATGAGACACTGGGTGTCAACTTT
24710748 GCTTTGAACT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
37 13 0.26
38 19 0.38
39 3 0.06
40 2 0.04
41 13 0.26
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (38 bp):
TGATGAGACACTGGGTGTCAACTTTACTTCGGATAGAC
Found at i:24711072 original size:12 final size:12
Alignment explanation
Indices: 24711055--24711079 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24711045 ATATATTGAG
24711055 AATGGCAAATTT
1 AATGGCAAATTT
24711067 AATGGCAAATTT
1 AATGGCAAATTT
24711079 A
1 A
24711080 TATTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AATGGCAAATTT
Found at i:24711456 original size:9 final size:10
Alignment explanation
Indices: 24711433--24711462 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24711423 AAAAATACCT
24711433 TTTTTCCTTC
1 TTTTTCCTTC
*
24711443 TTTTTCGTTC
1 TTTTTCCTTC
24711453 TTTTTCCTTC
1 TTTTTCCTTC
24711463 CCTCCCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (10 bp):
TTTTTCCTTC
Found at i:24711544 original size:3 final size:3
Alignment explanation
Indices: 24711538--24711609 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
24711528 CTCCTTATTA
*
24711538 TTC TTC -TC TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC CTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
24711583 TTC TT- TTT TTC TTC TAC TTC TTTC TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC
24711610 CTAGTCGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
2 8 0.13
3 49 0.82
4 3 0.05
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:24711566 original size:37 final size:37
Alignment explanation
Indices: 24711525--24711603 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
24711515 GTGCCTCCTC
* *
24711525 CTTCTCCTTATTATTCTTCTCTTCTTTTCTTCTTCTT
1 CTTCTCCTTATTATTCTCCTCTTCTTTTCTTCTTCTA
* * * *
24711562 CTTCTTCTTCTTCTTCTCCTCTTCTTTTTTTCTTCTA
1 CTTCTCCTTATTATTCTCCTCTTCTTTTCTTCTTCTA
24711599 CTTCT
1 CTTCT
24711604 TTCTTCCTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.65
Consensus pattern (37 bp):
CTTCTCCTTATTATTCTCCTCTTCTTTTCTTCTTCTA
Found at i:24711808 original size:17 final size:17
Alignment explanation
Indices: 24711788--24711828 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
24711778 TTTACAACTT
24711788 TTTTTTTTCAGATTTTG
1 TTTTTTTTCAGATTTTG
*
24711805 TTTTTTTTTAGATTTTG
1 TTTTTTTTCAGATTTTG
24711822 TTTTTTT
1 TTTTTTT
24711829 AACATTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.78
Consensus pattern (17 bp):
TTTTTTTTCAGATTTTG
Found at i:24711810 original size:21 final size:20
Alignment explanation
Indices: 24711786--24711850 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 20
24711776 TCTTTACAAC
*
24711786 TTTTTTTTTTCAGATTTTG-
1 TTTTTTTTTTTAGATTTTGT
24711805 --TTTTTTTTTAGATTTTGT
1 TTTTTTTTTTTAGATTTTGT
***
24711823 TTTTTTAACATTAGATTTTGT
1 TTTTTT-TTTTTAGATTTTGT
24711844 TTTTTTT
1 TTTTTTT
24711851 AAACAAATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 16 0.43
20 4 0.11
21 17 0.46
ACGTcount: A:0.14, C:0.03, G:0.09, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTTTAGATTTTGT
Found at i:24711852 original size:22 final size:21
Alignment explanation
Indices: 24711797--24711849 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
24711787 TTTTTTTTTC
24711797 AGATTTTGTTTTTTT----TT
1 AGATTTTGTTTTTTTAACATT
24711814 AGATTTTGTTTTTTTAACATT
1 AGATTTTGTTTTTTTAACATT
24711835 AGATTTTGTTTTTTT
1 AGATTTTGTTTTTTT
24711850 TAAACAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.47
21 17 0.53
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (21 bp):
AGATTTTGTTTTTTTAACATT
Found at i:24712993 original size:42 final size:42
Alignment explanation
Indices: 24712932--24713044 Score: 181
Period size: 42 Copynumber: 2.7 Consensus size: 42
24712922 TCGTTTTCTC
**
24712932 GATGCCATAGTTCAACTATGGTCTTACACATATTCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
* *
24712974 GATGCCATAGCCCAGCTATGGTCTTACACATATCCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
*
24713016 GATGCCATAGCCCAACTATAGTCTTACAC
1 GATGCCATAGCCCAACTATGGTCTTACAC
24713045 GAATCACATA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
Found at i:24713086 original size:46 final size:47
Alignment explanation
Indices: 24713015--24713134 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
24713005 ATCCACATAA
* * * *
24713015 TGATGCCATAGCCCA-ACTATAGTCTTACAC-GAATCACATATCTCAC
1 TGATGCCATATCCCAGA-TATGGTCTTACACAGAAGCACATATCACAC
* * *
24713061 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* *
24713108 CGATGTCATATCCCAGATATGGTCTTA
1 TGATGCCATATCCCAGATATGGTCTTA
24713135 TACGGAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 25 0.40
47 38 0.60
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:24713209 original size:31 final size:31
Alignment explanation
Indices: 24713163--24713404 Score: 326
Period size: 31 Copynumber: 7.8 Consensus size: 31
24713153 CTTGTCACTT
* * * *
24713163 GTAGTCGAAGCTACCACTATTCGCTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24713194 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24713225 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
24713256 GTAGCCGTAA-CTACCACTTTTCACTGATCAG
1 GTAGCCG-AAGCTACCACTTTTCACTGATCAG
**
24713287 GTAGTAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
24713318 GTTGCCGGAA-CTACCACTTTTCATTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
24713349 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
24713380 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
24713405 TGTCATTTGT
Statistics
Matches: 187, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
30 5 0.03
31 178 0.95
32 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:24713486 original size:50 final size:51
Alignment explanation
Indices: 24713380--24713508 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
24713370 CACTGATCAG
* * *
24713380 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
24713431 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
24713481 GTAGCCGAAACTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
24713509 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:24715932 original size:22 final size:23
Alignment explanation
Indices: 24715904--24715954 Score: 95
Period size: 22 Copynumber: 2.3 Consensus size: 23
24715894 TTATTGCAAC
24715904 AACAAAAAAAATTAAGAGAAC-A
1 AACAAAAAAAATTAAGAGAACGA
24715926 AACAAAAAAAATTAAGAGAACGA
1 AACAAAAAAAATTAAGAGAACGA
24715949 AACAAA
1 AACAAA
24715955 GGTAAGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.08
Consensus pattern (23 bp):
AACAAAAAAAATTAAGAGAACGA
Found at i:24717417 original size:44 final size:43
Alignment explanation
Indices: 24717358--24717443 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 43
24717348 ATTGTAGTAA
* * *
24717358 AATAGAAGTTGTGATAATAATATATTTAAAAATAATTACAATTT
1 AATAGAAGTTCTGATAAGAATACATTT-AAAATAATTACAATTT
* *
24717402 AATAGAAGTTCTGATAAGAATGCATTTAAAATAATTATAATT
1 AATAGAAGTTCTGATAAGAATACATTTAAAATAATTACAATT
24717444 CCATTGACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 14 0.38
44 23 0.62
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.37
Consensus pattern (43 bp):
AATAGAAGTTCTGATAAGAATACATTTAAAATAATTACAATTT
Found at i:24717552 original size:6 final size:6
Alignment explanation
Indices: 24717541--24717568 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24717531 AAAAATTATG
24717541 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
24717569 AATTTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:24717664 original size:27 final size:26
Alignment explanation
Indices: 24717600--24717664 Score: 60
Period size: 27 Copynumber: 2.4 Consensus size: 26
24717590 TTAAAAGATT
24717600 TTGATGTTAAAAATTGTGCTAAATTTA
1 TTGATG-TAAAAATTGTGCTAAATTTA
** * *
24717627 -AAATTTAAAAAATATGTGCTAATTTTA
1 TTGATGT-AAAAAT-TGTGCTAAATTTA
24717654 TTGATGTAAAA
1 TTGATGTAAAA
24717665 TGTAGTTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
25 1 0.04
26 8 0.29
27 16 0.57
28 3 0.11
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (26 bp):
TTGATGTAAAAATTGTGCTAAATTTA
Found at i:24736023 original size:25 final size:27
Alignment explanation
Indices: 24735984--24736044 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
24735974 ATATAAGTCA
*
24735984 AAATTAT-TAATAAATTTAATTT-ATT
1 AAATTATATAATAAATTTAATTTGATG
* *
24736009 ATATTATATAA-AAATTTGATTTGATG
1 AAATTATATAATAAATTTAATTTGATG
24736035 AAATTATATA
1 AAATTATATA
24736045 TAATTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
AAATTATATAATAAATTTAATTTGATG
Found at i:24736097 original size:20 final size:21
Alignment explanation
Indices: 24736056--24736111 Score: 87
Period size: 20 Copynumber: 2.6 Consensus size: 21
24736046 AATTTTTTTT
24736056 ATTTTTATATATTTAAAAATCTA
1 ATTTTTAT-TATTT-AAAATCTA
24736079 ATTTTTATTATTT-AAATCTA
1 ATTTTTATTATTTAAAATCTA
24736099 ATTTTTATTATTT
1 ATTTTTATTATTT
24736112 TTATTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.61
22 5 0.15
23 8 0.24
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTATTATTTAAAATCTA
Found at i:24740842 original size:18 final size:18
Alignment explanation
Indices: 24740819--24740853 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24740809 GGAACCAGAA
24740819 GTTAAAGTATCTAGTACT
1 GTTAAAGTATCTAGTACT
24740837 GTTAAAGTATCTAGTAC
1 GTTAAAGTATCTAGTAC
24740854 AGACGATCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
GTTAAAGTATCTAGTACT
Found at i:24752971 original size:12 final size:12
Alignment explanation
Indices: 24752954--24753012 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
24752944 CAATTCTTTC
24752954 ACTTTTTTTTTT
1 ACTTTTTTTTTT
* *
24752966 ACTTTTTTATTA
1 ACTTTTTTTTTT
24752978 ACTTTTGTCTTTTT
1 ACTTTT-T-TTTTT
24752992 -CTTTAATTTTTTT
1 ACTTT--TTTTTTT
24753005 A-TTTTTTT
1 ACTTTTTTT
24753013 ATTTTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
11 4 0.11
12 16 0.42
13 13 0.34
14 4 0.11
15 1 0.03
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (12 bp):
ACTTTTTTTTTT
Found at i:24753028 original size:37 final size:41
Alignment explanation
Indices: 24752987--24753063 Score: 99
Period size: 40 Copynumber: 1.9 Consensus size: 41
24752977 AACTTTTGTC
24752987 TTTTTC-TTTAATTTT-TTTATTTT-TTTATTT-TTTTAAT
1 TTTTTCTTTTAATTTTGTTTATTTTGTTTATTTATTTTAAT
*
24753024 TTTTTCTTATTTTATTTTGTTTATTTTGTTTATTTATTTT
1 TTTTTC-T-TTTAATTTTGTTTATTTTGTTTATTTATTTT
24753064 TTGTTATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 6 0.18
40 8 0.24
41 8 0.24
42 7 0.21
43 4 0.12
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (41 bp):
TTTTTCTTTTAATTTTGTTTATTTTGTTTATTTATTTTAAT
Found at i:24753036 original size:9 final size:8
Alignment explanation
Indices: 24752997--24753063 Score: 80
Period size: 8 Copynumber: 8.0 Consensus size: 8
24752987 TTTTTCTTTA
24752997 ATTTTTTT
1 ATTTTTTT
24753005 ATTTTTTT
1 ATTTTTTT
24753013 ATTTTTTT
1 ATTTTTTT
*
24753021 AATTTTTT
1 ATTTTTTT
* *
24753029 CTTATTTT
1 ATTTTTTT
24753037 ATTTTGTTT
1 ATTTT-TTT
24753046 ATTTTGTTT
1 ATTTT-TTT
24753055 ATTTATTTT
1 ATTT-TTTT
24753064 TTGTTATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
8 31 0.61
9 19 0.37
10 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.03, T:0.81
Consensus pattern (8 bp):
ATTTTTTT
Found at i:24753070 original size:14 final size:13
Alignment explanation
Indices: 24752987--24753077 Score: 64
Period size: 13 Copynumber: 7.1 Consensus size: 13
24752977 AACTTTTGTC
* *
24752987 TTTTTCTTTAATT
1 TTTTTATTTATTT
24753000 TTTTTATTT-TTT
1 TTTTTATTTATTT
*
24753012 TATTTT-TTTA-AT
1 T-TTTTATTTATTT
*
24753024 TTTTT-CTTATTT
1 TTTTTATTTATTT
*
24753036 TATTTTGTTTATTT
1 T-TTTTATTTATTT
*
24753050 TGTTTATTTATTT
1 TTTTTATTTATTT
*
24753063 TTTGTTATTAATTT
1 TTT-TTATTTATTT
24753077 T
1 T
24753078 AAAAATTTGA
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
11 7 0.11
12 10 0.16
13 28 0.45
14 17 0.27
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTATTTATTT
Found at i:24753164 original size:34 final size:35
Alignment explanation
Indices: 24753126--24753206 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
24753116 ATATTTTTTA
* *
24753126 AAATTTTAAATTAT-TTTTTTAAATT-ATGTCTTAT
1 AAATTTTAAAATATATTTTTGAAATTAAT-TCTTAT
* *
24753160 AAATTTTAAAATATATTTTTGAAATTAATTTTTCT
1 AAATTTTAAAATATATTTTTGAAATTAATTCTTAT
24753195 AAATTTTAAAAT
1 AAATTTTAAAAT
24753207 TTTAAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
34 13 0.32
35 26 0.63
36 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (35 bp):
AAATTTTAAAATATATTTTTGAAATTAATTCTTAT
Found at i:24753229 original size:33 final size:33
Alignment explanation
Indices: 24753187--24753267 Score: 162
Period size: 33 Copynumber: 2.5 Consensus size: 33
24753177 TTTGAAATTA
24753187 ATTTTTCTAAATTTTAAAATTTTAAAATATATT
1 ATTTTTCTAAATTTTAAAATTTTAAAATATATT
24753220 ATTTTTCTAAATTTTAAAATTTTAAAATATATT
1 ATTTTTCTAAATTTTAAAATTTTAAAATATATT
24753253 ATTTTTCTAAATTTT
1 ATTTTTCTAAATTTT
24753268 TGAAATTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (33 bp):
ATTTTTCTAAATTTTAAAATTTTAAAATATATT
Found at i:24753233 original size:43 final size:41
Alignment explanation
Indices: 24753160--24753247 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 41
24753150 TATGTCTTAT
* *
24753160 AAATTTTAAAATATATTTTTGAAATTAATTTTTCTAAATTTTA
1 AAATTTTAAAATATATTTTTGAAA-TAAATTTT-AAAATTTTA
***
24753203 AAATTTTAAAATATATTATTT-TTCTAAATTTTAAAATTTTA
1 AAATTTTAAAATATATT-TTTGAAATAAATTTTAAAATTTTA
24753244 AAAT
1 AAAT
24753248 ATATTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
41 12 0.31
42 7 0.18
43 17 0.44
44 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (41 bp):
AAATTTTAAAATATATTTTTGAAATAAATTTTAAAATTTTA
Found at i:24753296 original size:15 final size:13
Alignment explanation
Indices: 24753262--24753288 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24753252 TATTTTTCTA
24753262 AATTTTTGAAATT
1 AATTTTTGAAATT
24753275 AATTTTTGAAATT
1 AATTTTTGAAATT
24753288 A
1 A
24753289 TAATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
AATTTTTGAAATT
Found at i:24753403 original size:19 final size:19
Alignment explanation
Indices: 24753379--24753434 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
24753369 TTAAATATTA
*
24753379 TTAAAAATATATTTAATAT
1 TTAAAAATATATTTAAAAT
24753398 TT-AAAATAATATTTAAAAT
1 TTAAAAAT-ATATTTAAAAT
24753417 TTAAAAATA-ATTTCAAAA
1 TTAAAAATATATTT-AAAA
24753435 ATATATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.27
19 19 0.58
20 5 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAAAATATATTTAAAAT
Found at i:24753405 original size:30 final size:29
Alignment explanation
Indices: 24753342--24753416 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
24753332 AATTTTTATA
* *
24753342 AAAATTTTATTGAAAA-ATTTTAAATGTT
1 AAAATATTATTAAAAATATTTTAAATGTT
*
24753370 TAAATATTATTAAAAATATATTTAATAT-TT
1 AAAATATTATTAAAAATAT-TTTAA-ATGTT
* *
24753400 AAAATAATATTTAAAAT
1 AAAATATTATTAAAAAT
24753417 TTAAAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 13 0.34
29 2 0.05
30 21 0.55
31 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
AAAATATTATTAAAAATATTTTAAATGTT
Found at i:24753407 original size:12 final size:12
Alignment explanation
Indices: 24753392--24753416 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24753382 AAAATATATT
24753392 TAATATTTAAAA
1 TAATATTTAAAA
24753404 TAATATTTAAAA
1 TAATATTTAAAA
24753416 T
1 T
24753417 TTAAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATATTTAAAA
Found at i:24753492 original size:43 final size:43
Alignment explanation
Indices: 24753442--24753570 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
24753432 AAAATATATT
24753442 TTTAAAATTTATAAGAAATAATTTCAAAAATATATATTTAAAA
1 TTTAAAATTTATAAGAAATAATTTCAAAAATATATATTTAAAA
*
24753485 TTTAAAATTTAGAA-AAATTAATTTC--AAATATATA-TT----
1 TTTAAAATTTATAAGAAA-TAATTTCAAAAATATATATTTAAAA
* * *
24753521 TTTAAAATTTATAAGACATAATTTTAAAAA-ATAATATTCAAAA
1 TTTAAAATTTATAAGAAATAATTTCAAAAATAT-ATATTTAAAA
24753564 TTTAAAA
1 TTTAAAA
24753571 AATAATTTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
36 19 0.27
37 4 0.06
38 6 0.08
39 1 0.01
40 2 0.03
41 9 0.13
42 3 0.04
43 27 0.38
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.40
Consensus pattern (43 bp):
TTTAAAATTTATAAGAAATAATTTCAAAAATATATATTTAAAA
Found at i:24753526 original size:36 final size:34
Alignment explanation
Indices: 24753400--24753597 Score: 172
Period size: 36 Copynumber: 5.6 Consensus size: 34
24753390 TTTAATATTT
*
24753400 AAAATA-ATATTTAAAATTT-AAAAATAATTTCA
1 AAAATATATTTTTAAAATTTAAAAAATAATTTCA
24753432 AAAATATATTTTTAAAATTTATAAGAAATAATTTCAA
1 AAAATATATTTTTAAAATTTA-AA-AAATAATTTC-A
24753469 AAATATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCA
1 AAA-ATATA-TT----TTTAAAATTTA-AAAAA-TAATTTCA
* * *
24753511 AATATATATTTTTAAAATTTATAAGACATAATTTTA
1 AAAATATATTTTTAAAATTTA-AA-AAATAATTTCA
* *
24753547 AAAA-ATAATATTCAAAATTTAAAAAATAATTT-A
1 AAAATAT-ATTTTTAAAATTTAAAAAATAATTTCA
*
24753580 AAAATA-ATATTTAAAATT
1 AAAATATATTTTTAAAATT
24753598 GAAATTATTT
Statistics
Matches: 140, Mismatches: 11, Indels: 30
0.77 0.06 0.17
Matches are distributed among these distances:
32 17 0.12
33 17 0.12
34 9 0.06
35 6 0.04
36 45 0.32
37 6 0.04
38 5 0.04
39 2 0.01
40 2 0.01
41 5 0.04
42 6 0.04
43 20 0.14
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (34 bp):
AAAATATATTTTTAAAATTTAAAAAATAATTTCA
Found at i:24753569 original size:21 final size:20
Alignment explanation
Indices: 24753543--24753584 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
24753533 AAGACATAAT
*
24753543 TTTAAAAAATAATATTCAAAA
1 TTTAAAAAATAAT-TTAAAAA
24753564 TTTAAAAAATAATTTAAAAA
1 TTTAAAAAATAATTTAAAAA
24753584 T
1 T
24753585 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAAATAATTTAAAAA
Found at i:24753634 original size:14 final size:14
Alignment explanation
Indices: 24753615--24753643 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24753605 TTTCATTTTG
24753615 TTTAAAAATATATT
1 TTTAAAAATATATT
24753629 TTTAAAAATATATT
1 TTTAAAAATATATT
24753643 T
1 T
24753644 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:24753644 original size:12 final size:13
Alignment explanation
Indices: 24753615--24753647 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
24753605 TTTCATTTTG
24753615 TTTAAAAATATATT
1 TTTAAAAATATA-T
24753629 TTTAAAAATATA-
1 TTTAAAAATATAT
24753641 TTTAAAA
1 TTTAAAA
24753648 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:24753656 original size:163 final size:163
Alignment explanation
Indices: 24753468--24753889 Score: 810
Period size: 163 Copynumber: 2.6 Consensus size: 163
24753458 AATAATTTCA
24753468 AAAATATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTAT
1 AAAA-ATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTAT
24753533 AAGACATAATTTTAAAAAATAATATTCAAAATTTAAAAAATAATTTAAAAATAATATTTAAAATT
65 AAGACATAATTTTAAAAAATAATATTCAAAATTTAAAAAATAATTTAAAAATAATATTTAAAATT
24753598 GAAATTATTTCATTTTGTTTAAAAATATATTTTT
130 GAAATTATTTCATTTTGTTTAAAAATATATTTTT
24753632 AAAAATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTATA
1 AAAAATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTATA
24753697 AGACATAATTTTAAAAAATAATATTCAAAATTTAAAAAATAATTTAAAAATAATATTTAAAATTG
66 AGACATAATTTTAAAAAATAATATTCAAAATTTAAAAAATAATTTAAAAATAATATTTAAAATTG
24753762 AAATTATTTCATTTTGTTTAAAAATATATTTTT
131 AAATTATTTCATTTTGTTTAAAAATATATTTTT
*
24753795 AAAAATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTGTA
1 AAAAATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTATA
*
24753860 AGACATAATTTTAAAAAATAAT-TTAAAAAT
66 AGACATAATTTTAAAAAATAATATTCAAAAT
24753890 AATATTTAAA
Statistics
Matches: 256, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
162 7 0.03
163 245 0.96
164 4 0.02
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (163 bp):
AAAAATATATTTAAAATTTAAAATTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTATA
AGACATAATTTTAAAAAATAATATTCAAAATTTAAAAAATAATTTAAAAATAATATTTAAAATTG
AAATTATTTCATTTTGTTTAAAAATATATTTTT
Found at i:24753691 original size:36 final size:32
Alignment explanation
Indices: 24753647--24753760 Score: 104
Period size: 36 Copynumber: 3.3 Consensus size: 32
24753637 TATATTTAAA
24753647 ATTTAAAATTTAGAAAAATTAATTTCAAATATATAT
1 ATTTAAAATTTA-AAAAA-TAATTT-AAA-ATATAT
* * *
24753683 TTTTAAAATTTATAAGACATAATTTTAAAAAATAAT
1 ATTTAAAATTTA-AA-AAATAA-TTTAAAATAT-AT
*
24753719 ATTCAAAATTTAAAAAATAATTTAAAA-ATAAT
1 ATTTAAAATTTAAAAAATAATTTAAAATAT-AT
24753751 ATTTAAAATT
1 ATTTAAAATT
24753761 GAAATTATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
32 14 0.21
33 7 0.10
34 5 0.07
35 5 0.07
36 31 0.46
37 5 0.07
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (32 bp):
ATTTAAAATTTAAAAAATAATTTAAAATATAT
Found at i:24753732 original size:21 final size:20
Alignment explanation
Indices: 24753706--24753747 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
24753696 AAGACATAAT
*
24753706 TTTAAAAAATAATATTCAAAA
1 TTTAAAAAATAAT-TTAAAAA
24753727 TTTAAAAAATAATTTAAAAA
1 TTTAAAAAATAATTTAAAAA
24753747 T
1 T
24753748 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAAATAATTTAAAAA
Found at i:24753797 original size:14 final size:14
Alignment explanation
Indices: 24753778--24753806 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24753768 TTTCATTTTG
24753778 TTTAAAAATATATT
1 TTTAAAAATATATT
24753792 TTTAAAAATATATT
1 TTTAAAAATATATT
24753806 T
1 T
24753807 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:24753807 original size:12 final size:13
Alignment explanation
Indices: 24753778--24753810 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
24753768 TTTCATTTTG
24753778 TTTAAAAATATATT
1 TTTAAAAATATA-T
24753792 TTTAAAAATATA-
1 TTTAAAAATATAT
24753804 TTTAAAA
1 TTTAAAA
24753811 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:24753882 original size:13 final size:13
Alignment explanation
Indices: 24753864--24753900 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
24753854 TTTGTAAGAC
24753864 ATAATTTTAAAAA
1 ATAATTTTAAAAA
24753877 ATAA-TTT-AAAA
1 ATAATTTTAAAAA
24753888 ATAATATTTAAAA
1 ATAAT-TTTAAAA
24753901 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.38
12 3 0.14
13 7 0.33
14 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTTTAAAAA
Found at i:24753883 original size:49 final size:48
Alignment explanation
Indices: 24753818--24753942 Score: 121
Period size: 47 Copynumber: 2.6 Consensus size: 48
24753808 AAATTTAAAA
* *
24753818 TTTAGAAAAATTAATTTCAAATATATATTTTTAAAATTTGTAAGACATA-AT
1 TTTA-AAAAA-TAATTTCAAATATA-ATTTTTAAAATTT-TAAAAAATACAT
* *
24753869 TTTAAAAAATAATTT-AAAAATAATATTTAAAATTTTAAAAAATACAT
1 TTTAAAAAATAATTTCAAATATAATTTTTAAAATTTTAAAAAATACAT
* * *
24753916 ATTATAAAA-CATTTCAAATATACATTT
1 TTTAAAAAATAATTTCAAATATA-ATTT
24753943 CAAATTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
46 11 0.18
47 27 0.44
48 9 0.15
49 6 0.10
50 5 0.08
51 4 0.06
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (48 bp):
TTTAAAAAATAATTTCAAATATAATTTTTAAAATTTTAAAAAATACAT
Found at i:24753982 original size:23 final size:22
Alignment explanation
Indices: 24753955--24754005 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
24753945 AATTTTTTTT
*
24753955 AAAATTAATAACAAAAAATAAAA
1 AAAATAAATAA-AAAAAATAAAA
* *
24753978 TAAATAAATAAACAAAATAAAA
1 AAAATAAATAAAAAAAATAAAA
24754000 AAAATA
1 AAAATA
24754006 TAAAACTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAATAAATAAAAAAAATAAAA
Found at i:24753984 original size:9 final size:9
Alignment explanation
Indices: 24753954--24754005 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
24753944 AAATTTTTTT
*
24753954 TAAAATTAA
1 TAAAATAAA
*
24753963 TAACAAAAAA
1 TAA-AATAAA
24753973 TAAAATAAA
1 TAAAATAAA
24753982 T-AAATAAA
1 TAAAATAAA
*
24753990 CAAAATAAA
1 TAAAATAAA
*
24753999 AAAAATA
1 TAAAATA
24754006 TAAAACTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 7 0.19
9 22 0.61
10 7 0.19
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (9 bp):
TAAAATAAA
Found at i:24754002 original size:8 final size:8
Alignment explanation
Indices: 24753961--24754029 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
24753951 TTTTAAAATT
*
24753961 AATAACAA
1 AATAAAAA
*
24753969 AA-AATAA
1 AATAAAAA
*
24753976 AATAAATA
1 AATAAAAA
24753984 AATAAACAA
1 AATAAA-AA
24753993 AATAAAAAA
1 AAT-AAAAA
24754002 AATATAAAA
1 AATA-AAAA
**
24754011 CTTAAAAA
1 AATAAAAA
*
24754019 AAGAAAAA
1 AATAAAAA
24754027 AAT
1 AAT
24754030 TTAAAGAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
7 6 0.13
8 23 0.49
9 15 0.32
10 3 0.06
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:24754020 original size:19 final size:17
Alignment explanation
Indices: 24753995--24754062 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 17
24753985 ATAAACAAAA
*
24753995 TAAAAAAAATATAAAACT
1 TAAAAAAAA-AAAAAACT
*
24754013 TAAAAAAAGAAAAAAATT
1 TAAAAAAA-AAAAAAACT
* *
24754031 TAAAGAAAAAGACAAAAGT
1 TAAA-AAAAA-AAAAAACT
24754050 TAATAAAAAAAAA
1 TAA-AAAAAAAAA
24754063 GTGAGTGGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 21 0.51
19 19 0.46
20 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (17 bp):
TAAAAAAAAAAAAAACT
Found at i:24754059 original size:20 final size:21
Alignment explanation
Indices: 24754013--24754060 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
24754003 ATATAAAACT
*
24754013 TAAAAAAAGAAAAAAATTTAA
1 TAAAAAAAGAAAAAAAGTTAA
* *
24754034 -AGAAAAAG-ACAAAAGTTAA
1 TAAAAAAAGAAAAAAAGTTAA
24754053 TAAAAAAA
1 TAAAAAAA
24754061 AAGTGAGTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (21 bp):
TAAAAAAAGAAAAAAAGTTAA
Found at i:24755348 original size:105 final size:101
Alignment explanation
Indices: 24755161--24755343 Score: 248
Period size: 105 Copynumber: 1.8 Consensus size: 101
24755151 ACTGGTATAT
* *
24755161 AAAATACGAGTTTTTAATTTTTTTTTGTTGCTGGCCTGTCAATGACCAGCACCAAGTAAAAATAA
1 AAAATACGAGTTTTTAATTTTTTTTTGGTGCTGGCCTGTCAATGACCAGCACCAAATAAAAATAA
24755226 AAAAATTCAAATTTTTAAATTTTTTTTTGATGTCCG
66 AAAAATTCAAATTTTTAAATTTTTTTTTGATGTCCG
* * *
24755262 AAAATATGAGTTTTTTAAGTTTTTCTTTTTGGTGCTGGCCTGTCAATGGCC-GACACCAAAT-AC
1 AAAATACGAG-TTTTTAA--TTTT-TTTTTGGTGCTGGCCTGTCAATGACCAG-CACCAAATAAA
24755325 AA-AAAAAAATT-AAATTTTT
61 AATAAAAAAATTCAAATTTTT
24755344 TTTAATGTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
101 9 0.12
102 15 0.21
103 9 0.12
104 8 0.11
105 31 0.43
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (101 bp):
AAAATACGAGTTTTTAATTTTTTTTTGGTGCTGGCCTGTCAATGACCAGCACCAAATAAAAATAA
AAAAATTCAAATTTTTAAATTTTTTTTTGATGTCCG
Found at i:24755590 original size:101 final size:102
Alignment explanation
Indices: 24755472--24755680 Score: 291
Period size: 101 Copynumber: 2.0 Consensus size: 102
24755462 CCAATACAAG
* *
24755472 TTTTTAAAAAAATTTTTTAATATCTGAAAATTCGAGTTTTTTTAAAA-AAAAATTTGGTGCTGGC
1 TTTTTAAAAAAATTTTTTAATATCCGAAAATACGAG---TTTTAAAAGAAAAATTTGGTGCTGGC
*
24755536 CTGT-AATGGCTGGCACCAAGTAC-AAAAAAAATCAATTT
63 CTGTCAATGGCTGGCACCAAGTACAAAAAAAAATCAAATT
* * * *
24755574 TTTTTAAAAAAA-TTTTTATTGTCCGAAAATACGAGTTTTAAAATGAAAATTTTGGTGTTGGCCT
1 TTTTTAAAAAAATTTTTTAATATCCGAAAATACGAGTTTTAAAA-GAAAAATTTGGTGCTGGCCT
24755638 GTCAATGGCTGGCACCAAGTACAAAAAAAAATCAAATT
65 GTCAATGGCTGGCACCAAGTACAAAAAAAAATCAAATT
24755676 TTTTT
1 TTTTT
24755681 GGTGCTGGCC
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
98 8 0.08
100 19 0.20
101 38 0.40
102 31 0.32
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (102 bp):
TTTTTAAAAAAATTTTTTAATATCCGAAAATACGAGTTTTAAAAGAAAAATTTGGTGCTGGCCTG
TCAATGGCTGGCACCAAGTACAAAAAAAAATCAAATT
Found at i:24755656 original size:243 final size:244
Alignment explanation
Indices: 24755382--24755822 Score: 658
Period size: 244 Copynumber: 1.8 Consensus size: 244
24755372 TAAAAAAAAA
*
24755382 TTGGTGTTGGCCTGTCAATGGCCGGCACCAAGTA-AAAAAAAATTCAAATTTTTTTGGTGCTGCC
1 TTGGTGTTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATCAAATTTTTTTGGTGCTGCC
* * * *
24755446 CTGTCAATGGTCGGCACCAATACAAG-TTTTTAAAAAAATTTTTTAATATCTGAAAATTCGAGTT
66 CTGTCAATGGCCGGCACCAATACAAGTTTTTTAAAAAAA-ATTTTAATATCTGAAAATACGA--A
* * *
24755510 TTTTTAAAAAAAAATTTGGTGCTGGCCTGT-AATGGCTGGCACCAAGTAC-AAAAAAAA-TCAAT
128 TTTTTAAAAAAAAAATT-GTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATTCAAA
24755572 TTTTTTTAAAAAAATTTTTATTGTCCGAAAATACGAGTTTTAAAATGAAAATT
192 TTTTTTTAAAAAAATTTTTATTGTCCGAAAATACGAGTTTTAAAATGAAAATT
* *
24755625 TTGGTGTTGGCCTGTCAATGGCTGGCACCAAGTACAAAAAAAAATCAAATTTTTTTGGTGCTGGC
1 TTGGTGTTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATCAAATTTTTTTGGTGCTGCC
* * * * * *
24755690 CTGTCAATGGCCTGCACCAATACGAGTTTTTTAAAAAAAATTTTGATGTTTGAAAGTACGAATTT
66 CTGTCAATGGCCGGCACCAATACAAGTTTTTTAAAAAAAATTTTAATATCTGAAAATACGAATTT
*
24755755 TTAAAAAAAAAATTGTGTTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATTCAAATTTT
131 TTAAAAAAAAAATTGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATTCAAATTTT
24755820 TTT
196 TTT
24755823 GGTGCTGGCC
Statistics
Matches: 176, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
241 11 0.06
242 34 0.19
243 41 0.23
244 78 0.44
245 12 0.07
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (244 bp):
TTGGTGTTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATCAAATTTTTTTGGTGCTGCC
CTGTCAATGGCCGGCACCAATACAAGTTTTTTAAAAAAAATTTTAATATCTGAAAATACGAATTT
TTAAAAAAAAAATTGTGCTGGCCTGTCAATGGCCGGCACCAAGTACAAAAAAAAATTCAAATTTT
TTTAAAAAAATTTTTATTGTCCGAAAATACGAGTTTTAAAATGAAAATT
Found at i:24755798 original size:141 final size:138
Alignment explanation
Indices: 24755573--24755933 Score: 503
Period size: 142 Copynumber: 2.6 Consensus size: 138
24755563 AAAATCAATT
* * *
24755573 TTTTTTAAAAAAATTTTTATTGTCCGAAAATACGAGTTTTAAAATGAAAATTTTGGTGTTGGCCT
1 TTTTTTAAAAAAAATTTGATT-TCCGAAAATACGAGTTTTAAAA--AAAA--AT-GTGTTGGCCT
24755638 GTCAATGGCTGGCACCAAGTACAAAAAAAAA-TCAAATTTTTTTGGTGCTGGCCTGTCAATGGCC
60 GTCAATGGCTGGCACCAAGTACAAAAAAAAATTCAAATTTTTTTGGTGCTGGCCTGTCAATGGCC
*
24755702 TGCACCAATACGAG
125 AGCACCAATACGAG
* * *
24755716 TTTTTTAAAAAAAATTTTGATGTT-TGAAAGTACGAATTTTTAAAAAAAAAATTGTGTTGGCCTG
1 TTTTTTAAAAAAAA-TTTGAT-TTCCGAAAATACG-AGTTTT-AAAAAAAAA-TGTGTTGGCCTG
* *
24755780 TCAATGGCCGGCACCAAGTACAAAAAAAAATTCAAATTTTTTTGGTGCTGGCCTGTCAATGGTCA
61 TCAATGGCTGGCACCAAGTACAAAAAAAAATTCAAATTTTTTTGGTGCTGGCCTGTCAATGGCCA
24755845 GCACCAATACGAG
126 GCACCAATACGAG
*
24755858 TTTTTTAAAAAAAATTTGATTTCCGAAAATACGAGTTTTAAAAAAAAAT-TGATGGCCTGTCAAT
1 TTTTTTAAAAAAAATTTGATTTCCGAAAATACGAGTTTTAAAAAAAAATGTGTTGGCCTGTCAAT
*
24755922 GGGTGGCACCAA
66 GGCTGGCACCAA
24755934 TATGAGTTTG
Statistics
Matches: 196, Mismatches: 15, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
137 24 0.12
138 1 0.01
139 9 0.05
140 7 0.04
141 54 0.28
142 60 0.31
143 25 0.13
144 11 0.06
145 5 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (138 bp):
TTTTTTAAAAAAAATTTGATTTCCGAAAATACGAGTTTTAAAAAAAAATGTGTTGGCCTGTCAAT
GGCTGGCACCAAGTACAAAAAAAAATTCAAATTTTTTTGGTGCTGGCCTGTCAATGGCCAGCACC
AATACGAG
Found at i:24758479 original size:21 final size:20
Alignment explanation
Indices: 24758454--24758503 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
24758444 TCTTTTTTTT
* *
24758454 TTCATTTCTTTTCATTTTCA
1 TTCATTTCTTTTAATTTTAA
*
24758474 TCTCATTTTATTTTAATTTTAA
1 T-TCA-TTTCTTTTAATTTTAA
24758496 TTCATTTC
1 TTCATTTC
24758504 AACTTCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 4 0.17
21 6 0.25
22 14 0.58
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCATTTCTTTTAATTTTAA
Found at i:24762204 original size:103 final size:104
Alignment explanation
Indices: 24761973--24762224 Score: 409
Period size: 103 Copynumber: 2.4 Consensus size: 104
24761963 AGGTTGTTGT
* * **
24761973 GTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCTTTGAAATGTGAAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAATGAAAAA
*
24762038 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
24762077 GTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAAT-AAAA
1 GTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAATGAAAA
24762140 AGGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
65 AGGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
* * *
24762180 GTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCAC
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCAC
24762225 TAATAACGGT
Statistics
Matches: 138, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
103 82 0.59
104 56 0.41
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (104 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTCTGAAATGAAAAA
GGGGGTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAA
Found at i:24763834 original size:58 final size:59
Alignment explanation
Indices: 24763762--24763875 Score: 167
Period size: 58 Copynumber: 1.9 Consensus size: 59
24763752 GATACGAATT
* * *
24763762 TTTAATTTTTTTGTATTTGGTGCTGGCCATTGACAGGCCAACACC-TATTTTTTTTAAA
1 TTTAATTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCAAATTTTTTTTAAA
** *
24763820 TTTAATTTTTTTGTACTTGGTGCCGGTTATTGACAGGCCAGCACCAAATTTTTTTT
1 TTTAATTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCAAATTTTTTTT
24763876 TAAAAACTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
58 40 0.82
59 9 0.18
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.46
Consensus pattern (59 bp):
TTTAATTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACCAAATTTTTTTTAAA
Found at i:24764082 original size:138 final size:139
Alignment explanation
Indices: 24763758--24764087 Score: 355
Period size: 141 Copynumber: 2.3 Consensus size: 139
24763748 ACCAGATACG
* * * *****
24763758 AATTTTTAATTTTTTTGTATTTGGTGCTGGCCATTGACAGGCCAACACCTATTTTTTTTAAATTT
1 AATTTTT-TTTTTTTTGTA-TTGGTGCCGGCCATTGACAGGCCAACACCAAAAAAATTTAAATTT
** * * *
24763823 AATTTTTTTGTACTTGGTGCCGGTTATTGACAGGCCAGCACCAAATTTTTTTTTAAAAACTTGTA
64 -ATTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACACCAAATTTTTTTTTAAAAACTCGTA
24763888 TTTTCGAATATC
128 TTTTCGAATATC
*** * * *
24763900 AATTTTTTTTAAAAAACTCGTATTGGTGCCTGCCATTGACAGGCCAGCACCAAAAAAATTTAAA-
1 AATTTTTTTT----TTTTTGTATTGGTGCCGGCCATTGACAGGCCAACACCAAAAAAATTTAAAT
24763964 TT-TTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACA-C-AATTTTTTTTTAAAAACTCGT
62 TTATTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACACCAAATTTTTTTTTAAAAACTCGT
24764026 ATTTTCGGAA-ATC
127 ATTTTC-GAATATC
24764039 AATTTGATTTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACAC
1 AATTT--TTTTTTTTTTGTA-TTGGTGCCGGCCATTGACAGGCCAACAC
24764088 TATTTTTTTT
Statistics
Matches: 155, Mismatches: 25, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
137 4 0.03
138 26 0.17
139 34 0.22
140 4 0.03
141 41 0.26
142 7 0.05
143 2 0.01
144 33 0.21
145 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (139 bp):
AATTTTTTTTTTTTTGTATTGGTGCCGGCCATTGACAGGCCAACACCAAAAAAATTTAAATTTAT
TTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACACCAAATTTTTTTTTAAAAACTCGTATTT
TCGAATATC
Found at i:24764110 original size:82 final size:82
Alignment explanation
Indices: 24763964--24764121 Score: 264
Period size: 83 Copynumber: 1.9 Consensus size: 82
24763954 AAAATTTAAA
24763964 TTTTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACACAATTTTTTTTTAAAAACTCGTATT
1 TTTTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACACAATTTTTTTTTAAAAACTCGTATT
24764029 TTCGGAAATCAATTTGAT
66 TT-GGAAATCAATTTGAT
* * *
24764047 TTTTTTTTTGTACTTGGTGCCGGCCATTGACAGGCCAACACTA-TTTTTTTTAAATACTCGTATT
1 TTTTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACACAATTTTTTTTTAAAAACTCGTATT
*
24764111 TTGGACATCAA
66 TTGGAAATCAA
24764122 AATTTTTTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 8 0.11
82 22 0.31
83 41 0.58
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (82 bp):
TTTTTTTTTGTACTTGGTGCCGGCCATTAACAGGCCAACACAATTTTTTTTTAAAAACTCGTATT
TTGGAAATCAATTTGAT
Found at i:24768092 original size:17 final size:17
Alignment explanation
Indices: 24768072--24768105 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24768062 TATGAATTTT
24768072 TATTTTTTTAGGGATTA
1 TATTTTTTTAGGGATTA
24768089 TATTTTTTTAGGGATTA
1 TATTTTTTTAGGGATTA
24768106 AAGTATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.59
Consensus pattern (17 bp):
TATTTTTTTAGGGATTA
Found at i:24783504 original size:33 final size:33
Alignment explanation
Indices: 24783462--24783525 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
24783452 TTTCTTCTTG
24783462 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
*
24783495 ACATTCCAGCTCCTGTCCAGCAACCAAACAC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACAC
24783526 TCCCACTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.42, G:0.09, T:0.16
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
Found at i:24785971 original size:81 final size:81
Alignment explanation
Indices: 24785857--24786019 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
24785847 TCATTACCTG
* * ** *
24785857 TCTTAAATACAATGTTCACACTTGACCGCTGTAGAGTTGTTTATAGTGAAATTCTACAGTTCATT
1 TCTTAAATACAATGCTCACACCTGACCAATGTAGAGTTGTTTATAGTGAAACTCTACAGTTCATT
24785922 TAGATGGTGCTCATCA
66 TAGATGGTGCTCATCA
* * * *
24785938 TCTTAAATATAGTGCTCACACCTGACCAATGTAGAGTTGTTTATAGTGATACTCTATAGTTCATT
1 TCTTAAATACAATGCTCACACCTGACCAATGTAGAGTTGTTTATAGTGAAACTCTACAGTTCATT
*
24786003 TAGATGGTGCTCGTCA
66 TAGATGGTGCTCATCA
24786019 T
1 T
24786020 TCTATCATGC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (81 bp):
TCTTAAATACAATGCTCACACCTGACCAATGTAGAGTTGTTTATAGTGAAACTCTACAGTTCATT
TAGATGGTGCTCATCA
Found at i:24792149 original size:89 final size:89
Alignment explanation
Indices: 24791992--24792172 Score: 317
Period size: 89 Copynumber: 2.0 Consensus size: 89
24791982 CGCTTCAACT
*
24791992 AATAAAAGTGTATTTTAAAAATTCACATGTAAATGTACATAAAAAACAAATTAAAAATATATAAT
1 AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACATAAAAAACAAATTAAAAATATATAAT
*
24792057 TATTTTTATTAATATTATACTTTA
66 TATTTTTATGAATATTATACTTTA
* *
24792081 AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACATAAAAAACAAATTAAAAATATTTATT
1 AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACATAAAAAACAAATTAAAAATATATAAT
*
24792146 TATTTTTATGGATATTATACTTTA
66 TATTTTTATGAATATTATACTTTA
24792170 AAT
1 AAT
24792173 TACACATATG
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.40
Consensus pattern (89 bp):
AATAAAAGTATATTTTAAAAATTCACATGTAAATGTACATAAAAAACAAATTAAAAATATATAAT
TATTTTTATGAATATTATACTTTA
Found at i:24795807 original size:19 final size:19
Alignment explanation
Indices: 24795785--24795821 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24795775 AAAAAGAAAA
24795785 AGAAGAAGAAAAAAGGAGG
1 AGAAGAAGAAAAAAGGAGG
* *
24795804 AGAAGAGGAAAAATGGAG
1 AGAAGAAGAAAAAAGGAG
24795822 ATGCCTGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (19 bp):
AGAAGAAGAAAAAAGGAGG
Found at i:24796258 original size:38 final size:36
Alignment explanation
Indices: 24796173--24796258 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
24796163 TTGTAATATT
**
24796173 GTTGCTAGTATATTGTTGCTTATGTTGGTATACATG
1 GTTGCTAGTATATTGTTGCTTACATTGGTATACATG
* *
24796209 GCTGCTAGTATATTGTTGCTTAACATATGTTATACATG
1 GTTGCTAGTATATTGTTGCTT-ACAT-TGGTATACATG
*
24796247 GTTGCTGGTATA
1 GTTGCTAGTATA
24796259 AATGGCTAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 20 0.48
37 2 0.05
38 20 0.48
ACGTcount: A:0.22, C:0.10, G:0.23, T:0.44
Consensus pattern (36 bp):
GTTGCTAGTATATTGTTGCTTACATTGGTATACATG
Found at i:24797751 original size:40 final size:40
Alignment explanation
Indices: 24797696--24797793 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
24797686 AAAAAATACC
24797696 CACTGCATGCATATTAAAAAATAGGT-AACACACCAACAAT
1 CACTGCATGCATATTAAAAAATA-GTCAACACACCAACAAT
* *
24797736 CACTGCATGTATATTAAAAAATAGTCAACATACCAACAAT
1 CACTGCATGCATATTAAAAAATAGTCAACACACCAACAAT
*
24797776 CAGTGCATGCATATTAAA
1 CACTGCATGCATATTAAA
24797794 GAACATTCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.04
40 51 0.96
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.23
Consensus pattern (40 bp):
CACTGCATGCATATTAAAAAATAGTCAACACACCAACAAT
Found at i:24799489 original size:15 final size:15
Alignment explanation
Indices: 24799457--24799496 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
24799447 CTATCCTATT
**
24799457 AGACACATCACTTTC
1 AGACACATCACTGCC
*
24799472 AGATACATCACTGCC
1 AGACACATCACTGCC
24799487 AGACACATCA
1 AGACACATCA
24799497 ATACTAGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.20
Consensus pattern (15 bp):
AGACACATCACTGCC
Found at i:24799972 original size:6 final size:6
Alignment explanation
Indices: 24799963--24800052 Score: 72
Period size: 6 Copynumber: 15.0 Consensus size: 6
24799953 CCCTAAATAG
* * * ** * * * *
24799963 AAATCA AAATCT AAATCT AAATCT AAATTT AAATCG AGATCG AAATTA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* * *
24800011 AAATCA AAATCA AAATCA AAATCA GAATCA GAATCA GAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
24800053 GTGAGTGTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (6 bp):
AAATCA
Found at i:24800079 original size:12 final size:12
Alignment explanation
Indices: 24800062--24800110 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
24800052 AGTGAGTGTT
*
24800062 TCAAAATTGAAA
1 TCAAAATCGAAA
24800074 TCAAAATCGAAA
1 TCAAAATCGAAA
*
24800086 TCAAAATCAAAA
1 TCAAAATCGAAA
*
24800098 TTAAAATCGAAA
1 TCAAAATCGAAA
24800110 T
1 T
24800111 AACCCTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (12 bp):
TCAAAATCGAAA
Found at i:24800080 original size:6 final size:6
Alignment explanation
Indices: 24800071--24800110 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
24800061 TTCAAAATTG
* * *
24800071 AAATCA AAATCG AAATCA AAATCA AAATTA AAATCG AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
24800111 AACCCTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:24800602 original size:21 final size:21
Alignment explanation
Indices: 24800576--24800615 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
24800566 AACGTGGCAA
24800576 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
24800597 GTTAACTTGCCACATCAGC
1 GTTAACTTGCCACATCAGC
24800616 GGTCCCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:24801109 original size:23 final size:22
Alignment explanation
Indices: 24801083--24801125 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
24801073 AAAATTATGA
*
24801083 ATAAAATAATAGTAAAATAATAT
1 ATAAAATAAAAGT-AAATAATAT
*
24801106 ATAACATAAAAGTAAATAAT
1 ATAAAATAAAAGTAAATAAT
24801126 TGATGGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (22 bp):
ATAAAATAAAAGTAAATAATAT
Found at i:24808443 original size:3 final size:3
Alignment explanation
Indices: 24808437--24808471 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
24808427 AGAAGAAGAA
* *
24808437 GAT GAT GAT GAT AAT GAT GAT GAT GAT GAA GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
24808472 CCTGGCCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:24809695 original size:31 final size:29
Alignment explanation
Indices: 24809616--24809683 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
24809606 TTTTTTAAAA
* * *
24809616 TAAAAAAAAAACTTATTAGTTTACTATCT
1 TAAAAAAAAAACTTAATAGTCTGCTATCT
24809645 TAAAAAAAAAACTTAATAGTCTGCTATCT
1 TAAAAAAAAAACTTAATAGTCTGCTATCT
*
24809674 TAAATAAAAA
1 TAAAAAAAAA
24809684 CTTTCGAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.32
Consensus pattern (29 bp):
TAAAAAAAAAACTTAATAGTCTGCTATCT
Found at i:24812430 original size:27 final size:27
Alignment explanation
Indices: 24812400--24812451 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
24812390 CACAGCTTGT
* *
24812400 GTGAGCAGGCACGTTTTCACAACTCAC
1 GTGAGCAGACACATTTTCACAACTCAC
*
24812427 GTGAGCAGACCCATTTTCACAACTC
1 GTGAGCAGACACATTTTCACAACTC
24812452 GTATGAGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (27 bp):
GTGAGCAGACACATTTTCACAACTCAC
Found at i:24813855 original size:107 final size:108
Alignment explanation
Indices: 24813711--24814067 Score: 404
Period size: 111 Copynumber: 3.3 Consensus size: 108
24813701 AATAATTATT
* * *
24813711 TATATAA--ATTAAATTAAAATAATTAAACTCG-TAAATATACGTG-CGTGAATTAAGAAACTAA
1 TATATAATTATTAAATTAAAATAAATAAACACGATAAATATACGTGACGTGATTTAAGAAACTAA
*
24813772 TGAAAATTTTAAAATAATTATTTACTTTAATTGAGTAAAATAAA
66 T-AAAATTTTAAAATAATTATTTACATTAATTGAGTAAAATAAA
* * * *
24813816 TATATAATTATTAAATTAAAACAAATAGACACGAT-AATATAAGTGTGCACGTGATTTAAGAAAT
1 TATATAATTATTAAATTAAAATAAATAAACACGATAAATAT-A-CGTG-ACGTGATTTAAGAAAC
*
24813880 TAAT-AACTTTTAAAAAATAATTATTTACATTAATTGAGTAAAATAAA
63 TAATAAAATTTT--AAAATAATTATTTACATTAATTGAGTAAAATAAA
* * * * *
24813927 TATATAGTTATTAAATTAAAATAAATAAATAC-ATCAATATACGTGCGCACGTTATTTGAGAAAC
1 TATATAATTATTAAATTAAAATAAATAAACACGATAAATATACGT--G-ACGTGATTTAAGAAAC
** * * *
24813991 TAATAATTTTTTAAAATAGTTATTTAAATTAATTAAGTAAAATAAA
63 TAATAAAATTTTAAAATAATTATTTACATTAATTGAGTAAAATAAA
24814037 TATATAATTAATTAAATTAAAATAAATAAAC
1 TATATAATT-ATTAAATTAAAATAAATAAAC
24814068 GCGTCAATGG
Statistics
Matches: 214, Mismatches: 24, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
105 7 0.03
107 25 0.12
108 2 0.01
109 11 0.05
110 42 0.20
111 122 0.57
112 5 0.02
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (108 bp):
TATATAATTATTAAATTAAAATAAATAAACACGATAAATATACGTGACGTGATTTAAGAAACTAA
TAAAATTTTAAAATAATTATTTACATTAATTGAGTAAAATAAA
Found at i:24813878 original size:111 final size:110
Alignment explanation
Indices: 24813754--24814115 Score: 428
Period size: 111 Copynumber: 3.3 Consensus size: 110
24813744 AATATACGTG
* *
24813754 CGTGAATTAAGAAACTAATGAAAATTTTAAAATAATTATTTACTTTAATTGAGTAAAATAAATAT
1 CGTGATTTAAGAAACTAAT-AAAATTTTAAAATAATTATTTACATTAATTGAGTAAAATAAATAT
* * *
24813819 ATAATTATTAAATTAAAACAAATAGACACGAT-AATATAAGTGTGCA
65 ATAATTATTAAATTAAAATAAATAAACAC-ATCAATATAAGTGCGCA
* *
24813865 CGTGATTTAAGAAATTAAT-AACTTTTAAAAAATAATTATTTACATTAATTGAGTAAAATAAATA
1 CGTGATTTAAGAAACTAATAAAATTTT--AAAATAATTATTTACATTAATTGAGTAAAATAAATA
* * *
24813929 TATAGTTATTAAATTAAAATAAATAAATACATCAATATACGTGCGCA
64 TATAATTATTAAATTAAAATAAATAAACACATCAATATAAGTGCGCA
* * ** * * *
24813976 CGTTATTTGAGAAACTAATAATTTTTTAAAATAGTTATTTAAATTAATTAAGTAAAATAAATATA
1 CGTGATTTAAGAAACTAATAAAATTTTAAAATAATTATTTACATTAATTGAGTAAAATAAATATA
* * ** *
24814041 TAATTAATTAAATTAAAATAAATAAACGCGTCAATGGACA-TGGGCA
66 TAATT-ATTAAATTAAAATAAATAAACACATCAATATA-AGTGCGCA
24814087 CGTGATTTAAGAAA-TAA-ATAAATTTTAAA
1 CGTGATTTAAGAAACTAATA-AAATTTTAAA
24814116 CATTTAAAAA
Statistics
Matches: 214, Mismatches: 30, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
109 7 0.03
110 52 0.24
111 150 0.70
112 5 0.02
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (110 bp):
CGTGATTTAAGAAACTAATAAAATTTTAAAATAATTATTTACATTAATTGAGTAAAATAAATATA
TAATTATTAAATTAAAATAAATAAACACATCAATATAAGTGCGCA
Found at i:24814851 original size:29 final size:30
Alignment explanation
Indices: 24814795--24814853 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
24814785 TAATTGGATT
24814795 AAATCAAAATTTTATGTATAAAATTACACA
1 AAATCAAAATTTTATGTATAAAATTACACA
*
24814825 AAATCAAAATTTT-TGTATACAATTACACA
1 AAATCAAAATTTTATGTATAAAATTACACA
24814854 TTAAACTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTTTATGTATAAAATTACACA
Found at i:24816408 original size:30 final size:29
Alignment explanation
Indices: 24816372--24816437 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
24816362 AATTAGTAAA
*
24816372 AATAAAATTGTAATTTAA-CCTCTTAAAAAT
1 AATAAAAAT-TAATTTAATCCT-TTAAAAAT
24816402 AATAAAAAATTAATTTAATCCTTTAAAAAT
1 AAT-AAAAATTAATTTAATCCTTTAAAAAT
*
24816432 TATAAA
1 AATAAA
24816438 GATATAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.09
30 21 0.66
31 8 0.25
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAAATTAATTTAATCCTTTAAAAAT
Found at i:24816592 original size:7 final size:7
Alignment explanation
Indices: 24816580--24816608 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
24816570 AACTCTAACC
24816580 AGTCCCA
1 AGTCCCA
24816587 AGTCCCA
1 AGTCCCA
24816594 AGTCCCA
1 AGTCCCA
24816601 AGTCCCA
1 AGTCCCA
24816608 A
1 A
24816609 CACATAGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.41, G:0.14, T:0.14
Consensus pattern (7 bp):
AGTCCCA
Found at i:24821322 original size:29 final size:34
Alignment explanation
Indices: 24821289--24821351 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 34
24821279 TTTTATTTCA
24821289 ATACTTT-A-ATTTTTAATT-T-AAATAA-AAAT
1 ATACTTTAATATTTTTAATTATAAAATAACAAAT
24821318 ATACTTTAATATTTTTAATTATAAAATAACAAAT
1 ATACTTTAATATTTTTAATTATAAAATAACAAAT
24821352 TTTAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 7 0.24
30 1 0.03
31 10 0.34
32 1 0.03
33 6 0.21
34 4 0.14
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (34 bp):
ATACTTTAATATTTTTAATTATAAAATAACAAAT
Found at i:24822859 original size:3 final size:3
Alignment explanation
Indices: 24822810--24822845 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
24822800 GTTAACCTTC
24822810 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
24822846 TATTTTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:24822874 original size:18 final size:18
Alignment explanation
Indices: 24822814--24822875 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
24822804 ACCTTCCTTC
24822814 TTCTTCTTCTTCTTCT--T
1 TTCTTCTTCTTCTT-TAAT
*
24822831 CTTCTTCTTCTTCTTTATT
1 -TTCTTCTTCTTCTTTAAT
*
24822850 TTTTTCTTC-TCTTTAGAT
1 TTCTTCTTCTTCTTTA-AT
24822868 TTCTTCTT
1 TTCTTCTT
24822876 GGTATTCGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 7 0.18
18 30 0.79
19 1 0.03
ACGTcount: A:0.05, C:0.24, G:0.02, T:0.69
Consensus pattern (18 bp):
TTCTTCTTCTTCTTTAAT
Found at i:24829818 original size:22 final size:24
Alignment explanation
Indices: 24829773--24829820 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
24829763 TGGCTCTATG
*
24829773 CTTTATCCTTGTTTTTTCATTAAT
1 CTTTATCCTTGTTTTTTCACTAAT
*
24829797 CTTTGTCCTTG-TTTTTC-CTAAT
1 CTTTATCCTTGTTTTTTCACTAAT
24829819 CT
1 CT
24829821 CTCCTTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 6 0.27
24 10 0.45
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.60
Consensus pattern (24 bp):
CTTTATCCTTGTTTTTTCACTAAT
Found at i:24830366 original size:6 final size:6
Alignment explanation
Indices: 24830355--24830401 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
24830345 AATAACTAAT
24830355 GTATTA GTATTA GTATTA GTATTA GTATTA GTATTA GTATTA GTATT
1 GTATTA GTATTA GTATTA GTATTA GTATTA GTATTA GTATTA GTATT
24830402 TTAGTATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
GTATTA
Found at i:24830416 original size:6 final size:6
Alignment explanation
Indices: 24830407--24830437 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
24830397 GTATTTTAGT
24830407 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG A
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG A
24830438 CAACAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (6 bp):
ATTTTG
Found at i:24834874 original size:76 final size:76
Alignment explanation
Indices: 24834772--24834923 Score: 277
Period size: 76 Copynumber: 2.0 Consensus size: 76
24834762 AACCCTCTGT
*
24834772 ATTGCAAGTCATGTCGACTGCTTAGAGTTAGAAAAGGAGGTTGTAATAAGTAGAAGGCTTAAAAT
1 ATTGCAAGTCATGTCGACTGCTTAGAGTTAGAAAAGGAGGTAGTAATAAGTAGAAGGCTTAAAAT
24834837 TGTTTATTATC
66 TGTTTATTATC
* *
24834848 ATTGCAAGTCATGTTGACTGCTTAGAGTTAGAAAAGGAGGTAGTAATAAGTAGAAGGCTTAGAAT
1 ATTGCAAGTCATGTCGACTGCTTAGAGTTAGAAAAGGAGGTAGTAATAAGTAGAAGGCTTAAAAT
24834913 TGTTTATTATC
66 TGTTTATTATC
24834924 TCCCTAAAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (76 bp):
ATTGCAAGTCATGTCGACTGCTTAGAGTTAGAAAAGGAGGTAGTAATAAGTAGAAGGCTTAAAAT
TGTTTATTATC
Found at i:24842164 original size:17 final size:16
Alignment explanation
Indices: 24842138--24842173 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
24842128 AACAAAAACC
24842138 AAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAGAA
24842154 AAAAAAGAAAAAAAGAA
1 AAAAAA-AAAAAAAGAA
24842171 AAA
1 AAA
24842174 CGCAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAA
Found at i:24845482 original size:30 final size:30
Alignment explanation
Indices: 24845438--24845530 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
24845428 ACTTAACAAG
* *
24845438 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
*
24845468 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
*
24845498 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
24845528 CAA
1 CAA
24845531 TAAAATAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:24846194 original size:22 final size:22
Alignment explanation
Indices: 24846169--24846211 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24846159 TGATGTTGTT
24846169 TTGCTATCATTTTATTATTATG
1 TTGCTATCATTTTATTATTATG
* *
24846191 TTGCTATTATTTTATTGTTAT
1 TTGCTATCATTTTATTATTAT
24846212 CATTTAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (22 bp):
TTGCTATCATTTTATTATTATG
Found at i:24848701 original size:15 final size:16
Alignment explanation
Indices: 24848681--24848713 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
24848671 GTATATATAT
24848681 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
24848696 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
24848713 T
1 T
24848714 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:24848786 original size:21 final size:22
Alignment explanation
Indices: 24848760--24848818 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
24848750 GTTTTAAGAA
*
24848760 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
24848781 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
24848803 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
24848819 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:24848833 original size:26 final size:24
Alignment explanation
Indices: 24848789--24848838 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
24848779 ATTTGTTTTA
*
24848789 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
24848813 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
24848839 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:24853701 original size:12 final size:12
Alignment explanation
Indices: 24853680--24853721 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
24853670 CTCACCAACA
24853680 ATTT-TTTTTAT
1 ATTTATTTTTAT
* *
24853691 ATATATTTTTAA
1 ATTTATTTTTAT
*
24853703 ATTTATTATTAT
1 ATTTATTTTTAT
24853715 ATTTATT
1 ATTTATT
24853722 GTAAATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 3 0.12
12 22 0.88
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTATTTTTAT
Found at i:24853715 original size:24 final size:23
Alignment explanation
Indices: 24853679--24853731 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
24853669 TCTCACCAAC
* *
24853679 AATTT-TTTTTATATATATTTTTA
1 AATTTATTATTATATATA-TTGTA
*
24853702 AATTTATTATTATATTTATTGTA
1 AATTTATTATTATATATATTGTA
24853725 AATTTAT
1 AATTTAT
24853732 CTGAGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
AATTTATTATTATATATATTGTA
Found at i:24858350 original size:21 final size:21
Alignment explanation
Indices: 24858298--24858339 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24858288 AGCTCGAAAA
*
24858298 CTGAACAGAAGCTCATAAGAG
1 CTGAACAGAAACTCATAAGAG
24858319 CTGAACAGAAACTCATAAGAG
1 CTGAACAGAAACTCATAAGAG
24858340 TTTAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.14
Consensus pattern (21 bp):
CTGAACAGAAACTCATAAGAG
Found at i:24860463 original size:10 final size:10
Alignment explanation
Indices: 24860448--24860472 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24860438 TGATTTTTAC
24860448 ATTTTCATAA
1 ATTTTCATAA
24860458 ATTTTCATAA
1 ATTTTCATAA
24860468 ATTTT
1 ATTTT
24860473 TTTATATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTCATAA
Found at i:24861040 original size:85 final size:85
Alignment explanation
Indices: 24860916--24861104 Score: 195
Period size: 85 Copynumber: 2.2 Consensus size: 85
24860906 TTCAACTTTT
* *
24860916 AAATGCATAAAAAATGCTCTCAAATCTTTTAAAAAAAAACAATTAAG-CCTCAATTTTTTTCACT
1 AAATGCAT-AAAAAGGCCCTCAAATCTTTTAAAAAAAAACAATTAAGTCC-CAATTTTTTTCA-T
* * * * *
24860980 T-AATTGGGTATTTGAATTGTCA
63 TCAACTGAGTACTTAAATTGCCA
* * * **
24861002 AAATGCATAAAAAGGCCCTCATA-CTTTTTCAAAGAAAACAATTAAGTCCCTTTTTTTTTCATTC
1 AAATGCATAAAAAGGCCCTCAAATC-TTTTAAAAAAAAACAATTAAGTCCCAATTTTTTTCATTC
24861066 AACTGAGTACTTAAATTGCCA
65 AACTGAGTACTTAAATTGCCA
*
24861087 AAATACATTAAAAAGGCC
1 AAATGCA-TAAAAAGGCC
24861105 AAGGGCGGAT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
84 3 0.03
85 63 0.73
86 20 0.23
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (85 bp):
AAATGCATAAAAAGGCCCTCAAATCTTTTAAAAAAAAACAATTAAGTCCCAATTTTTTTCATTCA
ACTGAGTACTTAAATTGCCA
Found at i:24861517 original size:10 final size:10
Alignment explanation
Indices: 24861504--24861611 Score: 55
Period size: 10 Copynumber: 11.1 Consensus size: 10
24861494 ATTTCTTTAC
24861504 ATTTTTTATA
1 ATTTTTTATA
**
24861514 ATTTTCTTACG
1 ATTTT-TTATA
* * *
24861525 ACTTTATAAA
1 ATTTTTTATA
*
24861535 ATTTTATA-A
1 ATTTTTTATA
24861544 ATTTTTCTAT-
1 ATTTTT-TATA
*
24861554 A-TTTCTAT-
1 ATTTTTTATA
*
24861562 ATATTTTATA
1 ATTTTTTATA
* *
24861572 TTTTTTTATG
1 ATTTTTTATA
24861582 A-TTTTTATA
1 ATTTTTTATA
*
24861591 ATTTTTTCTA
1 ATTTTTTATA
*
24861601 ATTTTTAATA
1 ATTTTTTATA
24861611 A
1 A
24861612 AAATTTAATA
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
8 4 0.05
9 22 0.30
10 40 0.55
11 7 0.10
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:24861587 original size:19 final size:19
Alignment explanation
Indices: 24861565--24861607 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
24861555 TTTCTATATA
* *
24861565 TTTTATATTTTTTTATGAT
1 TTTTATAATTTTTTATAAT
*
24861584 TTTTATAATTTTTTCTAAT
1 TTTTATAATTTTTTATAAT
24861603 TTTTA
1 TTTTA
24861608 ATAAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:24861620 original size:28 final size:28
Alignment explanation
Indices: 24861589--24861647 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
24861579 ATGATTTTTA
*
24861589 TAATTTTTTCTA-ATTTTTAATAAAAATT
1 TAATTATTTCTATATTTTT-ATAAAAATT
*
24861617 TAA-TATTTCTATATTTTTATTAAAATT
1 TAATTATTTCTATATTTTTATAAAAATT
24861644 TAAT
1 TAAT
24861648 ATAACTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
TAATTATTTCTATATTTTTATAAAAATT
Found at i:24861625 original size:27 final size:27
Alignment explanation
Indices: 24861595--24861649 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
24861585 TTTATAATTT
24861595 TTTCTA-ATTTTTAATAAAAATTTAATA
1 TTTCTATATTTTT-ATAAAAATTTAATA
*
24861622 TTTCTATATTTTTATTAAAATTTAATA
1 TTTCTATATTTTTATAAAAATTTAATA
24861649 T
1 T
24861650 AACTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTCTATATTTTTATAAAAATTTAATA
Found at i:24863313 original size:17 final size:17
Alignment explanation
Indices: 24863288--24863320 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24863278 CCGCTGAGTC
*
24863288 TCTATCAATGGACATTA
1 TCTACCAATGGACATTA
24863305 TCTACCAATGGACATT
1 TCTACCAATGGACATT
24863321 CAATGGGGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (17 bp):
TCTACCAATGGACATTA
Found at i:24866286 original size:6 final size:6
Alignment explanation
Indices: 24866275--24866313 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
24866265 TGGAGGGATA
24866275 TGTGGC TGTGGC TGTGGC TGTGGC TGTGGC TGTGGC TGT
1 TGTGGC TGTGGC TGTGGC TGTGGC TGTGGC TGTGGC TGT
24866314 TCACAACTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.49, T:0.36
Consensus pattern (6 bp):
TGTGGC
Found at i:24866727 original size:14 final size:14
Alignment explanation
Indices: 24866700--24866744 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
24866690 AAAATAAAAT
24866700 ATTAAAATAATTAGA
1 ATTAAAA-AATTAGA
24866715 ATTAAAAAATTAG-
1 ATTAAAAAATTAGA
*
24866728 ATTAAGAAATTA-A
1 ATTAAAAAATTAGA
24866741 ATTA
1 ATTA
24866745 GGTGCCCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 15 0.54
14 6 0.21
15 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (14 bp):
ATTAAAAAATTAGA
Done.