Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 196 of 216
Found at i:60953595 original size:14 final size:15
Alignment explanation
Indices: 60953578--60953606 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60953568 ATACTGTTTT
60953578 AAAATTA-ATAAATA
1 AAAATTATATAAATA
60953592 AAAATTATATAAATA
1 AAAATTATATAAATA
60953607 TATAAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTATATAAATA
Found at i:60968472 original size:39 final size:39
Alignment explanation
Indices: 60968296--60968464 Score: 257
Period size: 39 Copynumber: 4.3 Consensus size: 39
60968286 CATGTTTTGA
* * * *
60968296 GTATTGTGATATATTCTTGAATGTTATGTGATTAAATAT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
*
60968335 GTATTGTGATATATGCTTAAATGTTATGTGATTGTATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
**
60968374 GTATTGTGATATATGCTTAAATGTTACATGATTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
*
60968413 GTACTGTGATATATGCTTAAATGTTATGTGATTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
*
60968452 GTAATGTGATATA
1 GTATTGTGATATA
60968465 CGTTTAAAAG
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 118 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.47
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGT
Found at i:60970705 original size:20 final size:20
Alignment explanation
Indices: 60970680--60970741 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
60970670 GCGATTCAAT
60970680 TAAAAATTATTATAATTTAA
1 TAAAAATTATTATAATTTAA
***
60970700 TAAAAATTGCAATAA-TTACA
1 TAAAAATTATTATAATTTA-A
*
60970720 TTAAAAATAATTATAATTTAA
1 -TAAAAATTATTATAATTTAA
60970741 T
1 T
60970742 TTACAATTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
19 3 0.09
20 14 0.44
21 12 0.38
22 3 0.09
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAAATTATTATAATTTAA
Found at i:60990528 original size:36 final size:36
Alignment explanation
Indices: 60990488--60990560 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
60990478 AACGAATCCT
60990488 ATATACTTGACATTGCAAAATCTCCACATCCAGATC
1 ATATACTTGACATTGCAAAATCTCCACATCCAGATC
60990524 ATATACTTGACATTGCAAAATCTCCACATCCAGATC
1 ATATACTTGACATTGCAAAATCTCCACATCCAGATC
60990560 A
1 A
60990561 CAATGTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (36 bp):
ATATACTTGACATTGCAAAATCTCCACATCCAGATC
Found at i:60996688 original size:53 final size:51
Alignment explanation
Indices: 60996631--60996795 Score: 147
Period size: 52 Copynumber: 3.2 Consensus size: 51
60996621 AATTTATAAT
60996631 AAAAAATTGGATGTTGTGACACTGATGACTGACACCCTTATACCAGATTAAA
1 AAAAAATTGGATGTTG-GACACTGATGACTGACACCCTTATACCAGATTAAA
* * * * *
60996683 AAAAAATTGGGTGCTAGAACACTGATGACCGGCACTCC--AGTACCAGATTTAAA
1 AAAAAATTGGATG-TTGGACACTGATGACTGACAC-CCTTA-TACCAGA-TTAAA
* * * * * *
60996736 AAAAAAAT-GAGTGCTGGAACACTGATGGCTGACACCCTTGTACTAGATTTAA
1 AAAAAATTGGA-TGTTGG-ACACTGATGACTGACACCCTTATACCAGATTAAA
60996788 AAAAAATT
1 AAAAAATT
60996796 TAGTTGTTAG
Statistics
Matches: 88, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
51 1 0.01
52 49 0.56
53 38 0.43
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (51 bp):
AAAAAATTGGATGTTGGACACTGATGACTGACACCCTTATACCAGATTAAA
Found at i:60996705 original size:52 final size:52
Alignment explanation
Indices: 60996649--60996795 Score: 172
Period size: 53 Copynumber: 2.8 Consensus size: 52
60996639 GGATGTTGTG
*
60996649 ACACTGATGACTGACACCCTTATACCAGATTAAAAAAAAATTGGGTGCTAGA
1 ACACTGATGACTGACACCCTTATACCAGATTAAAAAAAAATTGAGTGCTAGA
* * * *
60996701 ACACTGATGACCGGCACTCC--AGTACCAGATTTAAAAAAAAAATGAGTGCTGGA
1 ACACTGATGACTGACAC-CCTTA-TACCAGA-TTAAAAAAAAATTGAGTGCTAGA
* * * *
60996754 ACACTGATGGCTGACACCCTTGTACTAGATTTAAAAAAAATT
1 ACACTGATGACTGACACCCTTATACCAGATTAAAAAAAAATT
60996796 TAGTTGTTAG
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
51 1 0.01
52 35 0.45
53 42 0.54
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (52 bp):
ACACTGATGACTGACACCCTTATACCAGATTAAAAAAAAATTGAGTGCTAGA
Found at i:60996925 original size:53 final size:54
Alignment explanation
Indices: 60996844--60996956 Score: 158
Period size: 53 Copynumber: 2.1 Consensus size: 54
60996834 GATTTTTAAA
*
60996844 AAAAAAAATTTGGGTGCTGAGACACTGATGGTCGGCA-CCTCAGTACCAAATTTG
1 AAAAAAAATTTGGGTGCTGAGACACTGATGGTCAGCACCCT-AGTACCAAATTTG
* * * *
60996898 AAAAAAAA-TTGGGTGCTGGGACACTGATTGTCAGCACCCTTGTACCAAATTTT
1 AAAAAAAATTTGGGTGCTGAGACACTGATGGTCAGCACCCTAGTACCAAATTTG
60996951 AAAAAA
1 AAAAAA
60996957 TAATAAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
53 42 0.79
54 11 0.21
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
AAAAAAAATTTGGGTGCTGAGACACTGATGGTCAGCACCCTAGTACCAAATTTG
Found at i:61004571 original size:3 final size:3
Alignment explanation
Indices: 61004551--61004598 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
61004541 AAAAAAAAAC
* * *
61004551 AAT AAC AAT AATT AAT AAT AAC AAT AATT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
61004598 A
1 A
61004599 TGAAATTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:61004572 original size:16 final size:16
Alignment explanation
Indices: 61004551--61004598 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
61004541 AAAAAAAAAC
61004551 AATAACAATAATTAAT
1 AATAACAATAATTAAT
61004567 AATAACAATAATTAAT
1 AATAACAATAATTAAT
61004583 AATAACAATAA-TAAT
1 AATAACAATAATTAAT
61004598 A
1 A
61004599 TGAAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 5 0.16
16 27 0.84
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAACAATAATTAAT
Found at i:61005019 original size:11 final size:11
Alignment explanation
Indices: 61005003--61005031 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
61004993 GTACCCCTAT
61005003 AAATTTCAAAA
1 AAATTTCAAAA
61005014 AAATTTC-AAA
1 AAATTTCAAAA
61005024 AAATTTCA
1 AAATTTCA
61005032 TTTTCCTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTTCAAAA
Found at i:61005956 original size:55 final size:55
Alignment explanation
Indices: 61005873--61006165 Score: 233
Period size: 55 Copynumber: 5.4 Consensus size: 55
61005863 TAGACTAAGG
* * *
61005873 GGGTGCCGGCTATCAGTGTCCCAGCACCCAATTTTTTTTAAAAAATTTGGTACAA
1 GGGTGCCGGCCATCAGTGTCCCAACACCCAATTTTTTTTAAAAAATCTGGTACAA
** * ** * *
61005928 GGGTGTTGGTCATCAGTGTCTTAACACCCAATTTTTTTAAAAAAATCTGGTACTA
1 GGGTGCCGGCCATCAGTGTCCCAACACCCAATTTTTTTTAAAAAATCTGGTACAA
** * *
61005983 GGGTGCCGGCCATCAGTGTCCCAACACCCTAATTTTTTTT-TTAAATTTGATA-AA
1 GGGTGCCGGCCATCAGTGTCCCAACACCC-AATTTTTTTTAAAAAATCTGGTACAA
* * * **
61006037 TGGGTGTCGGCCATTAGTGTCCCAGCACCCAAAATGTTTTTTT--TTAATCTGGTACAA
1 -GGGTGCCGGCCATCAGTGTCCCAACACCC--AAT-TTTTTTTAAAAAATCTGGTACAA
* * * * * * * **
61006094 GGGTGTCAGCCATCATTGTTCCAAAATCCAATTTTTTTT----AATATGGTACCG
1 GGGTGCCGGCCATCAGTGTCCCAACACCCAATTTTTTTTAAAAAATCTGGTACAA
61006145 GGGTGCCGGCCATCAGTGTCC
1 GGGTGCCGGCCATCAGTGTCC
61006166 TAGTGTCACG
Statistics
Matches: 191, Mismatches: 42, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
51 26 0.14
53 7 0.04
54 4 0.02
55 103 0.54
56 42 0.22
57 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (55 bp):
GGGTGCCGGCCATCAGTGTCCCAACACCCAATTTTTTTTAAAAAATCTGGTACAA
Found at i:61018670 original size:18 final size:17
Alignment explanation
Indices: 61018639--61018693 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
61018629 GGTGGGGGGC
*
61018639 AGAAGGAGAGGGAAAGAA
1 AGAAAGAGA-GGAAAGAA
61018657 AGAAATGAGAGGAAAGAA
1 AGAAA-GAGAGGAAAGAA
*
61018675 AGAAAAAGAAGGAAAGAA
1 AGAAAGAG-AGGAAAGAA
61018693 A
1 A
61018694 AGGAAAGGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 2 0.06
18 27 0.82
19 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (17 bp):
AGAAAGAGAGGAAAGAA
Found at i:61018747 original size:38 final size:40
Alignment explanation
Indices: 61018669--61018787 Score: 109
Period size: 39 Copynumber: 2.9 Consensus size: 40
61018659 AAATGAGAGG
61018669 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGATAAGAGAAAAAAA
1 AAAGAAAG--AAAGAAGGAAAGAAAAGG--A--A-AAGAGAAAAAAA
* ** *
61018716 AAATAAAG-AAGAA-GAACTAAAAGGAAAAGAG-AAGAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAAGAGAAAAAAA
*
61018753 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAAGAGAA
61018788 GAAGAGGGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
37 12 0.20
38 10 0.16
39 16 0.26
40 1 0.02
41 1 0.02
43 9 0.15
44 5 0.08
47 7 0.11
ACGTcount: A:0.71, C:0.01, G:0.26, T:0.03
Consensus pattern (40 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGGAAAAGAGAAAAAAA
Found at i:61018774 original size:43 final size:41
Alignment explanation
Indices: 61018669--61018789 Score: 115
Period size: 41 Copynumber: 2.9 Consensus size: 41
61018659 AAATGAGAGG
*
61018669 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGATAAGAGAAAA
1 AAAGAAAG--AAAGAAGGAAAGAAAA-GAAAGGAAAAGAGAAAA
* *
61018713 AAA-AAATAAAGAA-G-AAGAACTA-AAAGGAAAAGAGAAGAAA
1 AAAGAAAGAAAGAAGGAAAGAA-AAGAAAGGAAAAGAG-A-AAA
*
61018753 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGA
1 AAAGAAAGAAAGAAGGAAAGAAAA-GAAAGGAAAAGA
61018790 AGAGGGAAGG
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
38 11 0.17
39 6 0.10
40 8 0.13
41 15 0.24
42 2 0.03
43 8 0.13
44 13 0.21
ACGTcount: A:0.70, C:0.01, G:0.26, T:0.02
Consensus pattern (41 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGAAAGGAAAAGAGAAAA
Found at i:61018789 original size:16 final size:15
Alignment explanation
Indices: 61018765--61018807 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
61018755 AGAAAGAAAG
61018765 AAGGAAAGAAAAGGA
1 AAGGAAAGAAAAGGA
* *
61018780 AAGGAGAAGAAGAGGG
1 AAGGA-AAGAAAAGGA
*
61018796 AAGGAAGGAAAA
1 AAGGAAAGAAAA
61018808 AAAAAAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
AAGGAAAGAAAAGGA
Found at i:61018849 original size:18 final size:19
Alignment explanation
Indices: 61018826--61018870 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
61018816 AAAAAAAAGG
61018826 TAATTTTATT-TATAAATT
1 TAATTTTATTGTATAAATT
*
61018844 TAATTTTTTTTGTATAAATT
1 TAA-TTTTATTGTATAAATT
61018864 TAATTTT
1 TAATTTT
61018871 TTTTGTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TAATTTTATTGTATAAATT
Found at i:61018871 original size:21 final size:20
Alignment explanation
Indices: 61018836--61018877 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
61018826 TAATTTTATT
61018836 TATAAATTTAATTTTTTTTG
1 TATAAATTTAATTTTTTTTG
61018856 TATAAATTTAATTTTTTTTG
1 TATAAATTTAATTTTTTTTG
61018876 TA
1 TA
61018878 ACATTTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TATAAATTTAATTTTTTTTG
Found at i:61022478 original size:3 final size:3
Alignment explanation
Indices: 61022470--61022501 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
61022460 TCTTAATACT
*
61022470 AAC AAC AAC AAC AAC AAT AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
61022502 TAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:61022493 original size:15 final size:15
Alignment explanation
Indices: 61022473--61022504 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61022463 TAATACTAAC
61022473 AACAACAACAACAAT
1 AACAACAACAACAAT
61022488 AACAACAACAACAAT
1 AACAACAACAACAAT
61022503 AA
1 AA
61022505 TAATAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.25, G:0.00, T:0.06
Consensus pattern (15 bp):
AACAACAACAACAAT
Found at i:61022648 original size:10 final size:11
Alignment explanation
Indices: 61022631--61022659 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
61022621 AAAAAAATAC
61022631 CTTCTTTTTCT
1 CTTCTTTTTCT
61022642 C-TCTTTTTCT
1 CTTCTTTTTCT
61022652 CTTCTTTT
1 CTTCTTTT
61022660 CCGCAGCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:61022832 original size:27 final size:27
Alignment explanation
Indices: 61022749--61022833 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
61022739 CCAATGAGTA
61022749 TGGCACCATTGGTGCCGCCAATGACAT
1 TGGCACCATTGGTGCCGCCAATGACAT
* ***
61022776 TGACACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGACAT
* *
61022803 TGGCACCTTTGGTGCCGCCAATGCCAT
1 TGGCACCATTGGTGCCGCCAATGACAT
61022830 TGGC
1 TGGC
61022834 GTGACAAATG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGACAT
Found at i:61022914 original size:28 final size:28
Alignment explanation
Indices: 61022883--61022958 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
61022873 AGTTTTTTTT
61022883 TTTATTATATATTTTGGTAAAT-AAAAAA
1 TTTA-TATATATTTTGGTAAATAAAAAAA
*
61022911 TTTATATCTATTTTGGTAAATAAAAAAA
1 TTTATATATATTTTGGTAAATAAAAAAA
* *
61022939 GTTATA-ATATTTTGATAAAT
1 TTTATATATATTTTGGTAAAT
61022959 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 28 0.65
28 15 0.35
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (28 bp):
TTTATATATATTTTGGTAAATAAAAAAA
Found at i:61022967 original size:16 final size:17
Alignment explanation
Indices: 61022946--61022979 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61022936 AAAGTTATAA
61022946 TATTTTGATAA-ATTTT
1 TATTTTGATAATATTTT
*
61022962 TATTTTTATAATATTTT
1 TATTTTGATAATATTTT
61022979 T
1 T
61022980 GTAAAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TATTTTGATAATATTTT
Found at i:61023803 original size:23 final size:22
Alignment explanation
Indices: 61023769--61023811 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
61023759 AATTTAAGAG
*
61023769 TTTTTTAGAAAAAAATAATTAA
1 TTTTTTAAAAAAAAATAATTAA
61023791 TTTTTTAAAAAAAATATAATT
1 TTTTTTAAAAAAAA-ATAATT
61023812 TTAAATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTTTTTAAAAAAAAATAATTAA
Found at i:61027325 original size:27 final size:26
Alignment explanation
Indices: 61027295--61027359 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
61027285 TTTAACAGTA
* *
61027295 ACAGTACAGTGTGGGCCTTAGCCCAAT
1 ACAGTACAGTGT-GACCTAAGCCCAAT
*
61027322 ACAGAAACAGTGTGACCTAAGCCCAAT
1 ACAG-TACAGTGTGACCTAAGCCCAAT
61027349 ACAGTATCAGT
1 ACAGTA-CAGT
61027360 ATGGTGCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 24 0.75
28 7 0.22
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (26 bp):
ACAGTACAGTGTGACCTAAGCCCAAT
Found at i:61027335 original size:28 final size:27
Alignment explanation
Indices: 61027300--61027352 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
61027290 CAGTAACAGT
* *
61027300 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGT-GACCTAAGCCCAATACAGAA
61027328 ACAGTGTGACCTAAGCCCAATACAG
1 ACAGTGTGACCTAAGCCCAATACAG
61027353 TATCAGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (27 bp):
ACAGTGTGACCTAAGCCCAATACAGAA
Found at i:61027614 original size:32 final size:32
Alignment explanation
Indices: 61027572--61027746 Score: 154
Period size: 32 Copynumber: 5.5 Consensus size: 32
61027562 TATGATTGGC
* *
61027572 ACAAAGCCATCAGTAGCAATGATATGACCGGT
1 ACAAAGCCATCAGTAACAATAATATGACCGGT
** *
61027604 ACACAA-CCATCAGTAACGGTAATATGATCGGT
1 ACA-AAGCCATCAGTAACAATAATATGACCGGT
*** * *
61027636 ACAAAGCCATCAGTAATGGTAATATGATCGGC
1 ACAAAGCCATCAGTAACAATAATATGACCGGT
* * ** ***
61027668 ACAAAGCTATAAGTAACGGTAATATGATTAGT
1 ACAAAGCCATCAGTAACAATAATATGACCGGT
* * *
61027700 ACAAAGCCATCAGTAACGATAATATGATCGGC
1 ACAAAGCCATCAGTAACAATAATATGACCGGT
61027732 ACAAAGCCATCAGTA
1 ACAAAGCCATCAGTA
61027747 GCATCCCAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
31 2 0.02
32 118 0.97
33 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (32 bp):
ACAAAGCCATCAGTAACAATAATATGACCGGT
Found at i:61027683 original size:64 final size:64
Alignment explanation
Indices: 61027572--61027738 Score: 219
Period size: 64 Copynumber: 2.6 Consensus size: 64
61027562 TATGATTGGC
* * * * * * * *
61027572 ACAAAGCCATCAGTAGCAATGATATGACCGGTACACAA-CCATCAGTAACGGTAATATGATCGGT
1 ACAAAGCCATCAGTAACGATAATATGATCGGCACA-AAGCTATAAGTAACGGTAATATGATCAGT
* * *
61027636 ACAAAGCCATCAGTAATGGTAATATGATCGGCACAAAGCTATAAGTAACGGTAATATGATTAGT
1 ACAAAGCCATCAGTAACGATAATATGATCGGCACAAAGCTATAAGTAACGGTAATATGATCAGT
61027700 ACAAAGCCATCAGTAACGATAATATGATCGGCACAAAGC
1 ACAAAGCCATCAGTAACGATAATATGATCGGCACAAAGC
61027739 CATCAGTAGC
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 2 0.02
64 87 0.98
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (64 bp):
ACAAAGCCATCAGTAACGATAATATGATCGGCACAAAGCTATAAGTAACGGTAATATGATCAGT
Found at i:61027945 original size:24 final size:23
Alignment explanation
Indices: 61027918--61027999 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
61027908 CCATGCTCAG
*
61027918 AATCAGTCATTCAAATCACAGACA
1 AATCAATCATTCAAA-CACAGACA
* *
61027942 AATCAATCATACCAAACACAGACG
1 AATCAATCAT-TCAAACACAGACA
* * * *
61027966 AATCAGTCATTTAACCACAGGCA
1 AATCAATCATTCAAACACAGACA
61027989 AATCAATCATT
1 AATCAATCATT
61028000 TGACCTCGAG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
23 18 0.38
24 25 0.53
25 4 0.09
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.21
Consensus pattern (23 bp):
AATCAATCATTCAAACACAGACA
Found at i:61028071 original size:27 final size:27
Alignment explanation
Indices: 61028039--61028216 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
61028029 TCACTAGGGC
* * *
61028039 ATTACGATCATTTTACCTTACATAGGT
1 ATTACGGTCATTTTACCCTACAGAGGT
* *
61028066 ATTACGGTCATTCTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGAGGT
* * * *
61028093 ATTACGATTATTTTACCTTATAGAGGT
1 ATTACGGTCATTTTACCCTACAGAGGT
* *
61028120 ATTATGGTTATTTTACCCTACA-AGGGT
1 ATTACGGTCATTTTACCCTACAGA-GGT
* **
61028147 AATACGGTCATTTTACCCTACAGAGAC
1 ATTACGGTCATTTTACCCTACAGAGGT
61028174 ATTACGGTCATTTTACCCTACA-AGGGT
1 ATTACGGTCATTTTACCCTACAGA-GGT
**
61028201 ATTATAGTCATTTTAC
1 ATTACGGTCATTTTAC
61028217 AACCTTTTCA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.02
27 120 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGAGGT
Found at i:61028099 original size:54 final size:54
Alignment explanation
Indices: 61028034--61028204 Score: 225
Period size: 54 Copynumber: 3.2 Consensus size: 54
61028024 TTTACTCACT
* * *
61028034 AGGGCATTACGATCATTTTACCTTACATAGGTATTACGGTCATTCTACCCTACA
1 AGGGTATTACGATCATTTTACCTTACAGAGGTATTACGGTCATTTTACCCTACA
* * * * *
61028088 GGGGTATTACGATTATTTTACCTTATAGAGGTATTATGGTTATTTTACCCTACA
1 AGGGTATTACGATCATTTTACCTTACAGAGGTATTACGGTCATTTTACCCTACA
* * * **
61028142 AGGGTAATACGGTCATTTTACCCTACAGAGACATTACGGTCATTTTACCCTACA
1 AGGGTATTACGATCATTTTACCTTACAGAGGTATTACGGTCATTTTACCCTACA
61028196 AGGGTATTA
1 AGGGTATTA
61028205 TAGTCATTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 98 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (54 bp):
AGGGTATTACGATCATTTTACCTTACAGAGGTATTACGGTCATTTTACCCTACA
Found at i:61028187 original size:81 final size:81
Alignment explanation
Indices: 61028046--61028216 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
61028036 GGCATTACGA
* * * ** * *
61028046 TCATTTTACCTTACATAGGTATTACGGTCATTCTACCCTACAGGGGTATTACGATTATTTTACCT
1 TCATTTTACCCTACATAGGTAATACGGTCATTCTACCCTACAGAGACATTACGATCATTTTACCC
* *
61028111 TA-TAGAGGTATTATGG
66 TACAAG-GGTATTATAG
* * *
61028127 TTATTTTACCCTACA-AGGGTAATACGGTCATTTTACCCTACAGAGACATTACGGTCATTTTACC
1 TCATTTTACCCTACATA-GGTAATACGGTCATTCTACCCTACAGAGACATTACGATCATTTTACC
61028191 CTACAAGGGTATTATAG
65 CTACAAGGGTATTATAG
61028208 TCATTTTAC
1 TCATTTTAC
61028217 AACCTTTTCA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 72 0.96
82 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (81 bp):
TCATTTTACCCTACATAGGTAATACGGTCATTCTACCCTACAGAGACATTACGATCATTTTACCC
TACAAGGGTATTATAG
Found at i:61030168 original size:25 final size:25
Alignment explanation
Indices: 61030140--61030187 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
61030130 AGACACACTA
*
61030140 CAGCTCGT-ATAAGCTTACTGATTTG
1 CAGCTCGTGA-AAGCTTACCGATTTG
61030165 CAGCTCGTGAAAGCTTACCGATT
1 CAGCTCGTGAAAGCTTACCGATT
61030188 ATGAGTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
CAGCTCGTGAAAGCTTACCGATTTG
Found at i:61039329 original size:18 final size:18
Alignment explanation
Indices: 61039308--61039345 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61039298 CTTCTATCCT
61039308 TTCCCCTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
*
61039326 TTCCCTTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
61039344 TT
1 TT
61039346 GAATTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCCCCTTTCCCTTCCCC
Found at i:61039439 original size:25 final size:25
Alignment explanation
Indices: 61039405--61039454 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
61039395 CAGGTAAGGC
*
61039405 TCCTTCTTCTTCTTCCGTTTTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
61039430 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
61039455 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.30, G:0.04, T:0.62
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:61042689 original size:15 final size:15
Alignment explanation
Indices: 61042650--61042702 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
61042640 GAACATTTGG
61042650 AATTTAATTAGATAAAA
1 AATTT-ATTA-ATAAAA
61042667 AACTTTTATTAATAAAA
1 AA--TTTATTAATAAAA
*
61042684 AATTTATTTATAAATA
1 AATTTATTAATAAA-A
61042700 AAT
1 AAT
61042703 CATTGCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 10 0.31
18 4 0.12
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTATTAATAAAA
Found at i:61042776 original size:22 final size:20
Alignment explanation
Indices: 61042733--61042771 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
61042723 TAATTTAAAA
61042733 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
61042753 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
61042772 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:61042895 original size:20 final size:20
Alignment explanation
Indices: 61042870--61042909 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61042860 AATATTTTCC
*
61042870 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
61042890 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
61042910 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:61042915 original size:34 final size:35
Alignment explanation
Indices: 61042858--61042924 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
61042848 CAAACACTAG
*
61042858 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
61042893 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
61042925 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:61042916 original size:14 final size:14
Alignment explanation
Indices: 61042893--61042932 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
61042883 ACAGAAAAGT
*
61042893 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
61042907 AAATCATTTTACGG
1 AAAACATTTTACAG
61042921 AAAACATTTTAC
1 AAAACATTTTAC
61042933 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:61047024 original size:18 final size:18
Alignment explanation
Indices: 61046974--61047024 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
61046964 CAATTAATTA
*
61046974 AATTTTAAATAAATTTTAT
1 AATTTTTAA-AAATTTTAT
**
61046993 AACTTTTT-TGAATTTTAT
1 AA-TTTTTAAAAATTTTAT
61047011 AATTTTTAAAAATT
1 AATTTTTAAAAATT
61047025 AATTATTATC
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 2 0.08
20 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
AATTTTTAAAAATTTTAT
Found at i:61050782 original size:12 final size:12
Alignment explanation
Indices: 61050765--61050789 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61050755 AAATTTGATG
61050765 TTGTTATTATTA
1 TTGTTATTATTA
61050777 TTGTTATTATTA
1 TTGTTATTATTA
61050789 T
1 T
61050790 AATTGCTCTT
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTGTTATTATTA
Found at i:61052835 original size:109 final size:109
Alignment explanation
Indices: 61052622--61053052 Score: 643
Period size: 109 Copynumber: 4.0 Consensus size: 109
61052612 AAGGAAAATT
* * * * *
61052622 TTTCTAAATGAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGTCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
61052687 CGATTTTTCTCATTCAACCAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTTTAAAAA
* * *
61052731 TTTCAAAATAAGACAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * * *
61052796 TGATTTTTCTCGTTCAACCAAATAGCTAAGTATCCTTTTAAAAA
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTTTAAAAA
* *
61052840 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGTCCTAATGTGTTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
61052905 CGATTTTTCTCATTTAACCAAATAGCCAAATATCCTTTCAAAAA
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTTTAAAAA
*
61052949 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * *
61053013 CGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTCTTAAA
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTTTAAA
61053053 TTTTAATCCA
Statistics
Matches: 297, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
106 34 0.11
108 25 0.08
109 238 0.80
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:61055680 original size:5 final size:5
Alignment explanation
Indices: 61055670--61055694 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61055660 TAAAATTTAA
61055670 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
61055695 TATAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:61057103 original size:2 final size:2
Alignment explanation
Indices: 61057098--61057123 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61057088 TGTGTGTTTG
61057098 TA TA 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
61057124 GTTTTGATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61068449 original size:25 final size:25
Alignment explanation
Indices: 61068398--61068449 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
61068388 ATAATGATAT
* * * *
61068398 ATCCTGATAATGAAATGTTATTTTG
1 ATCCTGATAATCAAATATAATTCTG
61068423 ATCCTGATAATCAAATATAATTCTG
1 ATCCTGATAATCAAATATAATTCTG
61068448 AT
1 AT
61068450 TTTGATCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (25 bp):
ATCCTGATAATCAAATATAATTCTG
Found at i:61076139 original size:8 final size:9
Alignment explanation
Indices: 61076114--61076138 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
61076104 CTAAAATAAT
61076114 TTTTTTTTA
1 TTTTTTTTA
61076123 TTTTTTTTA
1 TTTTTTTTA
61076132 TTTTTTT
1 TTTTTTT
61076139 AAAATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:61078424 original size:41 final size:41
Alignment explanation
Indices: 61078348--61078482 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 41
61078338 AATTTAACAT
* ** * *
61078348 ATTCAGATCACCGGCACTTAGCCTGTTAGGTTTATAACCTG
1 ATTCAGATCACCGACACTTAGCCTACTAGGCTTATAGCCTG
* * *
61078389 ATTCATATCACCGACATTTGGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGACACTTAGCCTACTAGGCTTATAGCCTG
* * *
61078430 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTA
1 ATTCAGATCACCGACACTTAGCCTACTAGGCTTATAGCCTG
61078471 ATTCAGATCACC
1 ATTCAGATCACC
61078483 AATTTCAAAC
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGACACTTAGCCTACTAGGCTTATAGCCTG
Found at i:61078698 original size:41 final size:41
Alignment explanation
Indices: 61078653--61078747 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
61078643 TTCGTTCCTT
61078653 TGATTCAGATCACCGGCACTTAGCCTGCTAAGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAAGCTTATAGCC
*
61078694 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAAGCTTATAGCC
61078735 TGATTCAGATCAC
1 TGATTCAGATCAC
61078748 AAATTTCAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAAGCTTATAGCC
Found at i:61078968 original size:12 final size:12
Alignment explanation
Indices: 61078947--61078981 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
61078937 ACTTAACATA
61078947 TATATATATATT
1 TATATATATATT
*
61078959 TATATTTATATT
1 TATATATATATT
61078971 TATATATATAT
1 TATATATATAT
61078982 CCACCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATATATATT
Found at i:61080409 original size:43 final size:43
Alignment explanation
Indices: 61080286--61080412 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
61080276 CGAAGGAAAT
* *
61080286 ATATTGGCACACATAGTGCATCATC-GAATAAACCAAAACAATC
1 ATATTGGCACACATAGTGCATCATCAG-ATAAACCGAAGCAATC
* * *
61080329 ATACTAGCACACATAGTGCATCTTCAGATAAACCGAAGCAATC
1 ATATTGGCACACATAGTGCATCATCAGATAAACCGAAGCAATC
* *
61080372 ATATTGGCACACATAGTGTATCATCAGATAAATCGAAGCAA
1 ATATTGGCACACATAGTGCATCATCAGATAAACCGAAGCAA
61080413 ATAAATTGAC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 72 0.99
44 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (43 bp):
ATATTGGCACACATAGTGCATCATCAGATAAACCGAAGCAATC
Found at i:61083381 original size:22 final size:22
Alignment explanation
Indices: 61083350--61083393 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61083340 TACACCAAAA
* * *
61083350 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAACGGCACTTTTT
61083372 TAGGCCTTTAACGGCACTTTTT
1 TAGGCCTTTAACGGCACTTTTT
61083394 AGCGCCACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAACGGCACTTTTT
Found at i:61083543 original size:43 final size:43
Alignment explanation
Indices: 61083491--61083757 Score: 358
Period size: 43 Copynumber: 6.2 Consensus size: 43
61083481 TTCTAGAAAT
*
61083491 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
* *
61083534 GCCGCTAAAGACCACGACCTTTAGCGGCACTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
*
61083577 GCCGCTAAAGACAAAGACCTTTAGCGGCGCTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
* * *
61083620 GCCGCTAAAAACCAAGACTTTTAGCGGCGCTAT-TTCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TCTCCCACAAAC
* * * *
61083663 GCCACTATAGACCATGACCTTTAGCGGCGCTTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTCTCCCACAAAC
* * ** *
61083707 GCCGCTAAAGAACAA-ACCTTTAGCGACGCTTCTAGCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
61083749 GCCGCTAAA
1 GCCGCTAAA
61083758 AACATAATCT
Statistics
Matches: 196, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
42 18 0.09
43 156 0.80
44 22 0.11
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTCTCCCACAAAC
Found at i:61087346 original size:84 final size:84
Alignment explanation
Indices: 61087187--61087346 Score: 178
Period size: 84 Copynumber: 1.9 Consensus size: 84
61087177 AAGTTAGAAT
* ** * ** * ** * *
61087187 TATCTAAATTAAATAATTACCTATATATCCATATCATTTTTATCTCATTTTTATTTTTGTATTTT
1 TATCCAAATTAAATAATTACCTATATATCCATATCAAATATATCAAATGTTTATGATTGAATATT
***
61087252 TTTTCTTATAATTTGGTCC
66 TTTAAATATAATTTGGTCC
61087271 TATCCAAATTAAATAATTACCTATATATCCATATCAAATATATCAAATGGTTTA-GATTGAATAT
1 TATCCAAATTAAATAATTACCTATATATCCATATCAAATATATCAAAT-GTTTATGATTGAATAT
61087335 TTTTAAATATAA
65 TTTTAAATATAA
61087347 AAGTATTAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
84 57 0.93
85 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (84 bp):
TATCCAAATTAAATAATTACCTATATATCCATATCAAATATATCAAATGTTTATGATTGAATATT
TTTAAATATAATTTGGTCC
Found at i:61087655 original size:14 final size:14
Alignment explanation
Indices: 61087619--61087677 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
61087609 CCTAAATCAC
*
61087619 TAACTCTTAACCCA
1 TAACTCTTAACCCT
*
61087633 TAACTCTTAACTCT
1 TAACTCTTAACCCT
* *
61087647 TAACCCTTAAACCT
1 TAACTCTTAACCCT
* **
61087661 TAAATCCCAACCCT
1 TAACTCTTAACCCT
61087675 TAA
1 TAA
61087678 ACCATAATCC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.36, C:0.34, G:0.00, T:0.31
Consensus pattern (14 bp):
TAACTCTTAACCCT
Found at i:61087662 original size:21 final size:21
Alignment explanation
Indices: 61087619--61087680 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
61087609 CCTAAATCAC
*
61087619 TAACTCTTAACCCAT-AACTCT
1 TAACTCTTAACCCTTAAAC-CT
61087640 TAACTCTTAACCCTTAAACCT
1 TAACTCTTAACCCTTAAACCT
* **
61087661 TAAATCCCAACCCTTAAACC
1 TAACTCTTAACCCTTAAACC
61087681 ATAATCCCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 33 0.92
22 3 0.08
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (21 bp):
TAACTCTTAACCCTTAAACCT
Found at i:61087691 original size:21 final size:21
Alignment explanation
Indices: 61087648--61087688 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
61087638 CTTAACTCTT
*
61087648 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCATAAATCCC
61087669 AACCCTTAAACCAT-AATCCC
1 AACCCTTAAACCATAAATCCC
61087689 CAAATCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTTAAACCATAAATCCC
Found at i:61087929 original size:16 final size:16
Alignment explanation
Indices: 61087901--61087933 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61087891 TCTCTTTTTC
61087901 AATTATATAATAAATT
1 AATTATATAATAAATT
61087917 AATTA-ATATATAAATT
1 AATTATATA-ATAAATT
61087933 A
1 A
61087934 GAAAACACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTATATAATAAATT
Found at i:61087979 original size:20 final size:21
Alignment explanation
Indices: 61087951--61087990 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61087941 CTAGTTAATC
*
61087951 TAAATCCT-AAACCATAAACT
1 TAAACCCTAAAACCATAAACT
61087971 TAAACCCTAAAACCATAAAC
1 TAAACCCTAAAACCATAAAC
61087991 CCTTAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAACT
Found at i:61088020 original size:15 final size:14
Alignment explanation
Indices: 61087958--61088062 Score: 54
Period size: 14 Copynumber: 7.4 Consensus size: 14
61087948 ATCTAAATCC
* *
61087958 TAAACCATAAA-CT
1 TAAACCCTAAACCA
61087971 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
*
61087986 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
61088001 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
61088015 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
* *
61088029 TAAATCATAAACCA
1 TAAACCCTAAACCA
* *
61088043 TAAACCGTATACCA
1 TAAACCCTAAACCA
61088057 TAAACC
1 TAAACC
61088063 ATAACCTCTA
Statistics
Matches: 70, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
13 10 0.14
14 36 0.51
15 24 0.34
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:61088081 original size:78 final size:78
Alignment explanation
Indices: 61087951--61088096 Score: 181
Period size: 78 Copynumber: 1.9 Consensus size: 78
61087941 CTAGTTAATC
* * * * *
61087951 TAAATCCTAAACCATAAACTTAAACCCTAAAACCATAAACCCTTAACACATAA-CCTCTAAACCT
1 TAAATCATAAACCATAAACGTAAACCATAAAACCATAAACCCTAAACACATAATCCAC-AAACCT
61088015 TAAACCCCAGCCTT
65 TAAACCCCAGCCTT
* *
61088029 TAAATCATAAACCATAAACCGTATACCAT-AAACCAT-AACCTCTAAACCCATAATCCACAAACC
1 TAAATCATAAACCATAAA-CGTAAACCATAAAACCATAAACC-CTAAACACATAATCCACAAACC
61088092 TTAAA
64 TTAAA
61088097 ATGGTAACAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
77 4 0.07
78 44 0.76
79 10 0.17
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (78 bp):
TAAATCATAAACCATAAACGTAAACCATAAAACCATAAACCCTAAACACATAATCCACAAACCTT
AAACCCCAGCCTT
Found at i:61088440 original size:41 final size:41
Alignment explanation
Indices: 61088300--61088471 Score: 204
Period size: 41 Copynumber: 4.2 Consensus size: 41
61088290 TAAATTATTT
* ***
61088300 TAAATCCCTGAGCATTAGCGGCGCTTTTTAAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
** * **
61088341 TAAA--AATAGAGCATTCGCGGCGCTTTATCAAAAACGCCGC
1 TAAAGCCCT-GAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
*
61088381 TAAAAGCCCTGAGCATTAGCGGCGCTATCCCAAAAACGCCGC
1 T-AAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
* *
61088423 TAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAAAGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
61088464 TAAAGCCC
1 TAAAGCCC
61088472 CGAAAGCTCA
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 30 0.27
41 52 0.46
42 29 0.26
43 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.18
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCCCAAAAACGCCGC
Found at i:61088575 original size:39 final size:39
Alignment explanation
Indices: 61088526--61088644 Score: 121
Period size: 40 Copynumber: 3.0 Consensus size: 39
61088516 CGCTTTCTGA
* * *
61088526 AAAACTCCACTAATGCTTGTTTTTAGCGGCGTTTTTTAT
1 AAAACGCCACTAATGCTAGTCTTTAGCGGCGTTTTTTAT
* * * * *
61088565 AAAGCGCCACTAATACTCAATCTTTAGCGGCGTTTTTCAA
1 AAAACGCCACTAATGCT-AGTCTTTAGCGGCGTTTTTTAT
* * *
61088605 AAAACGCCGCTAATGCTCGATCTTTAACGGCGTTTTTTAT
1 AAAACGCCACTAATGCTAG-TCTTTAGCGGCGTTTTTTAT
61088645 CCAAACGTCG
Statistics
Matches: 62, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
39 14 0.23
40 48 0.77
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (39 bp):
AAAACGCCACTAATGCTAGTCTTTAGCGGCGTTTTTTAT
Found at i:61088595 original size:40 final size:40
Alignment explanation
Indices: 61088547--61088644 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
61088537 AATGCTTGTT
*
61088547 TTTAGCGGCGTTTTTTATAAAGCGCCACTAATACTCAATC
1 TTTAGCGGCGTTTTTTATAAAACGCCACTAATACTCAATC
* * * * *
61088587 TTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCTCGATC
1 TTTAGCGGCGTTTTTTATAAAACGCCACTAATACTCAATC
*
61088627 TTTAACGGCGTTTTTTAT
1 TTTAGCGGCGTTTTTTAT
61088645 CCAAACGTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTTATAAAACGCCACTAATACTCAATC
Found at i:61088657 original size:41 final size:39
Alignment explanation
Indices: 61088547--61088658 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 39
61088537 AATGCTTGTT
*
61088547 TTTAGCGGCGTTTTTTATAAAGCGCCACTAATACTCAATC
1 TTTAGCGGCGTTTTTTATAAA-CGCCGCTAATACTCAATC
* * * *
61088587 TTTAGCGGCGTTTTTCAAAAAACGCCGCTAATGCTCGATC
1 TTTAGCGGCGTTTTT-TATAAACGCCGCTAATACTCAATC
* *
61088627 TTTAACGGCGTTTTTTATCCAAACGTCGCTAA
1 TTTAGCGGCGTTTTTTAT--AAACGCCGCTAA
61088659 AAATGCCGCT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 44 0.73
41 15 0.25
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (39 bp):
TTTAGCGGCGTTTTTTATAAACGCCGCTAATACTCAATC
Found at i:61090364 original size:28 final size:29
Alignment explanation
Indices: 61090309--61090367 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
61090299 CTAATATTAA
61090309 TAAGATTAAATTTTTAAAAAATAAATAAT
1 TAAGATTAAATTTTTAAAAAATAAATAAT
**
61090338 TAAGATT-AA-TTTTATCAAATAACATAAT
1 TAAGATTAAATTTTTAAAAAATAA-ATAAT
61090366 TA
1 TA
61090368 CATTCCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 11 0.41
28 9 0.33
29 7 0.26
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAGATTAAATTTTTAAAAAATAAATAAT
Found at i:61095586 original size:11 final size:11
Alignment explanation
Indices: 61095572--61095597 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
61095562 TATTTTTTAA
61095572 TTTTAAAATAC
1 TTTTAAAATAC
61095583 TTTTAAAATAC
1 TTTTAAAATAC
61095594 TTTT
1 TTTT
61095598 TTTAAAATTT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:61095608 original size:11 final size:11
Alignment explanation
Indices: 61095594--61095664 Score: 55
Period size: 11 Copynumber: 6.8 Consensus size: 11
61095584 TTTAAAATAC
61095594 TTTTTTTAAAA
1 TTTTTTTAAAA
61095605 TTTTTTT--AA
1 TTTTTTTAAAA
61095614 ---TTTTAAAA
1 TTTTTTTAAAA
*
61095622 TATTTTTAAAA
1 TTTTTTTAAAA
*
61095633 TATTTTTAAAA
1 TTTTTTTAAAA
*
61095644 TGCTTTTTT-AAT
1 T--TTTTTTAAAA
61095656 TTTTTTTAA
1 TTTTTTTAA
61095665 TTTTAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
6 4 0.08
8 2 0.04
9 2 0.04
10 6 0.12
11 28 0.56
12 3 0.06
13 5 0.10
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (11 bp):
TTTTTTTAAAA
Found at i:61095611 original size:42 final size:41
Alignment explanation
Indices: 61095564--61095713 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 41
61095554 ATTTTTTTTA
*
61095564 TTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAAT
1 TTTTTTAATTTTAAAATAATTTTAAAATA-TTTTTTTAAAAT
*
61095606 TTTTTTAATTTTAAAATATTTTTAAAATA--TTTTTAAAAT
1 TTTTTTAATTTTAAAATAATTTTAAAATATTTTTTTAAAAT
*** **
61095645 GCTTTTTTAATTTT-TTTTAATTTTAAAATATTTTTAAAATAATT
1 --TTTTTTAATTTTAAAATAATTTTAAAATATTTTTTTAA-AA-T
61095689 TTTTTTAATTTTTAAAATAAATTTT
1 TTTTTTAA-TTTTAAAAT-AATTTT
61095714 TGGTATTTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
39 10 0.11
40 12 0.13
41 12 0.13
42 41 0.46
43 6 0.07
44 2 0.02
45 6 0.07
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (41 bp):
TTTTTTAATTTTAAAATAATTTTAAAATATTTTTTTAAAAT
Found at i:61095660 original size:51 final size:53
Alignment explanation
Indices: 61095572--61095691 Score: 190
Period size: 51 Copynumber: 2.3 Consensus size: 53
61095562 TATTTTTTAA
*
61095572 TTTTAAAATACTTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATAT
* *
61095625 TTTTAAAATATTTTTAAAATGC-TTTTTT-AATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATAT
61095676 TTTTAAAATAATTTTT
1 TTTTAAAAT-ATTTTT
61095692 TTTAATTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 31 0.49
52 12 0.19
53 20 0.32
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (53 bp):
TTTTAAAATATTTTTAAAATACTTTTTTTAAAATTTTTTTAATTTTAAAATAT
Found at i:61095679 original size:11 final size:12
Alignment explanation
Indices: 61095665--61095714 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
61095655 TTTTTTTTAA
61095665 TTTTAAAAT-AT
1 TTTTAAAATAAT
61095676 TTTTAAAATAAT
1 TTTTAAAATAAT
**
61095688 TTTT--TTTAAT
1 TTTTAAAATAAT
61095698 TTTTAAAATAAAT
1 TTTTAAAAT-AAT
61095711 TTTT
1 TTTT
61095715 GGTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
10 8 0.26
11 9 0.29
12 7 0.23
13 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:61095721 original size:22 final size:21
Alignment explanation
Indices: 61095673--61095721 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
61095663 AATTTTAAAA
**
61095673 TATTTTTAAAATAATTTTTTT
1 TATTTTTAAAATAATTTTTGG
61095694 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTTGG
61095717 TATTT
1 TATTT
61095722 ATTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:61096103 original size:27 final size:28
Alignment explanation
Indices: 61096067--61096123 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
61096057 ACTAAAATGT
*
61096067 TATAACTTTTTTTATTTATGAAAAAATA
1 TATAACTTTTTTTATTTATCAAAAAATA
*
61096095 TATAA-TTTTTTTATTTATCAAAATATA
1 TATAACTTTTTTTATTTATCAAAAAATA
61096122 TA
1 TA
61096124 AAAAAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (28 bp):
TATAACTTTTTTTATTTATCAAAAAATA
Found at i:61096136 original size:8 final size:8
Alignment explanation
Indices: 61096123--61096171 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
61096113 CAAAATATAT
61096123 AAAAAAAC
1 AAAAAAAC
61096131 AAAAAAAC
1 AAAAAAAC
*
61096139 AAAAAAAA
1 AAAAAAAC
*
61096147 ATAGAAAAAG
1 A-A-AAAAAC
*
61096157 AAAAAAAG
1 AAAAAAAC
61096165 AAAAAAA
1 AAAAAAA
61096172 AACCTGGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
8 29 0.78
9 2 0.05
10 6 0.16
ACGTcount: A:0.88, C:0.04, G:0.06, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:61096160 original size:14 final size:13
Alignment explanation
Indices: 61096123--61096173 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 13
61096113 CAAAATATAT
61096123 AAAAAAACAAAAA-
1 AAAAAAA-AAAAAG
61096136 AACAAAAAAAAATAG
1 AA-AAAAAAAAA-AG
61096151 AAAAAGAAAAAAAG
1 AAAAA-AAAAAAAG
61096165 AAAAAAAAA
1 AAAAAAAAA
61096174 CCTGGACTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.29
14 16 0.47
15 8 0.24
ACGTcount: A:0.88, C:0.04, G:0.06, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:61096244 original size:27 final size:27
Alignment explanation
Indices: 61096214--61096280 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
61096204 AGGGAAGCAG
61096214 GTTGGCGGCACCAAACAAGGGAACCCT
1 GTTGGCGGCACCAAACAAGGGAACCCT
*
61096241 GTTGGCGGCACCAAACAAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGGAACCCT
61096268 GTTGGCGGCACCA
1 GTTGGCGGCACCA
61096281 CCCTTGAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.30, G:0.31, T:0.13
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGAACCCT
Found at i:61096350 original size:18 final size:17
Alignment explanation
Indices: 61096327--61096503 Score: 89
Period size: 18 Copynumber: 10.0 Consensus size: 17
61096317 GAATGAGAGT
61096327 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
61096345 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
61096362 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
61096378 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
61096396 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
61096416 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
61096434 GGAAAGAAAAGGAAAAGAGAA
1 GG-AAG-AAA-GAAAA-AGAA
61096455 GAGAA-AAA-AAAAAGAA
1 G-GAAGAAAGAAAAAGAA
* **
61096471 CGAAG-AAGAAGAGGGAA
1 GGAAGAAAGAA-AAAGAA
*
61096488 GGAAGGAA-AAAAAGAA
1 GGAAGAAAGAAAAAGAA
61096504 AATAAGGTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
15 14 0.11
16 14 0.11
17 18 0.14
18 30 0.24
19 26 0.21
20 17 0.13
21 6 0.05
22 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:61096360 original size:10 final size:10
Alignment explanation
Indices: 61096329--61096400 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
61096319 ATGAGAGTGG
*
61096329 AAGAAGAAGA
1 AAGAAAAAGA
61096339 AAGAAAGGAAGA
1 AAGAAA--AAGA
61096351 AAGAAAAAGA
1 AAGAAAAAGA
* *
61096361 AGGAAAAGGA
1 AAGAAAAAGA
61096371 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
61096385 AAGAAAAAGA
1 AAGAAAAAGA
*
61096395 AGGAAA
1 AAGAAA
61096401 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:61096360 original size:22 final size:23
Alignment explanation
Indices: 61096329--61096430 Score: 73
Period size: 24 Copynumber: 4.3 Consensus size: 23
61096319 ATGAGAGTGG
*
61096329 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
61096351 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
61096373 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* ***
61096399 AAGAAAAGGAAAGGGGAGGAAAGA
1 AAGAAAAAGAAAGAAAAGG-AAGA
61096423 AAGAAAAA
1 AAGAAAAA
61096431 TAAGGAAAGA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
22 12 0.20
23 10 0.17
24 32 0.53
25 5 0.08
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:61096366 original size:14 final size:13
Alignment explanation
Indices: 61096332--61096405 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
61096322 AGAGTGGAAG
61096332 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
61096344 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
61096357 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
61096373 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
61096391 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
61096405 A
1 A
61096406 GGAAAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:61096383 original size:38 final size:38
Alignment explanation
Indices: 61096347--61096505 Score: 170
Period size: 38 Copynumber: 4.3 Consensus size: 38
61096337 GAAAGAAAGG
61096347 AAGAAAGAAAAAGAA-G---GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
*
61096381 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* * *
61096419 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAAGAGAAGA
1 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
* * *
61096457 GAA-AAA-AAAAAGAACGAAGAAGAAGAGGGAAGGA-AGGA
1 -AAGAAAGAAAAAGAA-GGA-AAGAAAAGGAAAGGAGAGGA
*
61096495 AAAAAAGAAAA
1 AAGAAAGAAAA
61096506 TAAGGTAATT
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
34 15 0.14
35 1 0.01
37 9 0.09
38 62 0.59
39 18 0.17
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.01
Consensus pattern (38 bp):
AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAGGA
Found at i:61096387 original size:28 final size:28
Alignment explanation
Indices: 61096332--61096411 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
61096322 AGAGTGGAAG
61096332 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
61096357 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
61096391 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGGAAAGAAAAGGAAAG
61096412 GGGAGGAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 3 0.07
28 8 0.17
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.13
34 17 0.37
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:61096407 original size:10 final size:10
Alignment explanation
Indices: 61096349--61096448 Score: 77
Period size: 10 Copynumber: 10.4 Consensus size: 10
61096339 AAGAAAGGAA
*
61096349 GAAAGAAAAA
1 GAAAGAAAAG
*
61096359 GAAGGAAAAG
1 GAAAGAAAAG
* *
61096369 GAAAGGAGAG
1 GAAAGAAAAG
61096379 GAAAG-AAA-
1 GAAAGAAAAG
61096387 GAAA-AAGAAG
1 GAAAGAA-AAG
61096397 GAAAGAAAAG
1 GAAAGAAAAG
***
61096407 GAAAGGGGAG
1 GAAAGAAAAG
61096417 GAAAG-AAA-
1 GAAAGAAAAG
61096425 GAAA-AATAAG
1 GAAAGAA-AAG
61096435 GAAAGAAAAG
1 GAAAGAAAAG
61096445 GAAA
1 GAAA
61096449 AGAGAAGAGA
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
8 10 0.14
9 7 0.10
10 50 0.70
11 4 0.06
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:61096780 original size:59 final size:59
Alignment explanation
Indices: 61096688--61096805 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
61096678 TTTATGAAAT
61096688 TGACTTAGGATGTTGAAATTAGTTTTGTTAGGAAAATGACATTAAAAGTAAAATCATAA
1 TGACTTAGGATGTTGAAATTAGTTTTGTTAGGAAAATGACATTAAAAGTAAAATCATAA
61096747 TGACTTAGGATGTTGAAATTAGTTTTGTTAGGAAAATGACATTAAAAGTAAAATCATAA
1 TGACTTAGGATGTTGAAATTAGTTTTGTTAGGAAAATGACATTAAAAGTAAAATCATAA
61096806 AGAAATATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (59 bp):
TGACTTAGGATGTTGAAATTAGTTTTGTTAGGAAAATGACATTAAAAGTAAAATCATAA
Found at i:61097268 original size:19 final size:19
Alignment explanation
Indices: 61097244--61097295 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
61097234 AAAATATATA
*
61097244 TAATATTTT-TGTATTTTTT
1 TAATATTTTAT-TATTTTTG
61097263 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
61097282 TAATGTTTTATTAT
1 TAATATTTTATTAT
61097296 GGGTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.97
20 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:61097381 original size:27 final size:27
Alignment explanation
Indices: 61097333--61097398 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
61097323 ATAAAAAATA
61097333 ACCAAAATAT-TATAACTTTTTTATTT
1 ACCAAAATATATATAACTTTTTTATTT
*
61097359 ACCAAAATATATATAATTTTTTTATTT
1 ACCAAAATATATATAACTTTTTTATTT
61097386 ACCAAAATATATA
1 ACCAAAATATATA
61097399 AAAAAAAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 10 0.26
27 28 0.74
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
ACCAAAATATATATAACTTTTTTATTT
Found at i:61102162 original size:18 final size:18
Alignment explanation
Indices: 61102136--61102171 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
61102126 ATCCCAATGA
* *
61102136 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
61102154 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
61102172 CACCACCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.44, G:0.06, T:0.33
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:61102916 original size:3 final size:3
Alignment explanation
Indices: 61102908--61102936 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61102898 AGTAACATCT
61102908 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
61102937 CTATAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61103317 original size:27 final size:27
Alignment explanation
Indices: 61103241--61103307 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
61103231 TTGGCAGGAC
*
61103241 TGGTGCCGCCAACAGGGATCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
61103268 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
61103295 TGGTGCCGCCAAC
1 TGGTGCCGCCAAC
61103308 CTGCTTCCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.13, C:0.31, G:0.30, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:61103393 original size:18 final size:18
Alignment explanation
Indices: 61103357--61103394 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
61103347 GTTTTTTTTC
*
61103357 TGTTTTTTTCTATTTTTT
1 TGTTTTTTTCTATTATTT
61103375 TGTTTTTTT-TATATATTT
1 TGTTTTTTTCTAT-TATTT
61103393 TG
1 TG
61103395 ATAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.79
Consensus pattern (18 bp):
TGTTTTTTTCTATTATTT
Found at i:61103439 original size:26 final size:25
Alignment explanation
Indices: 61103382--61103451 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 25
61103372 TTTTGTTTTT
*
61103382 TTTATATATTTTGATAAATAAAAAA
1 TTTATATATTTTGGTAAATAAAAAA
61103407 TTATATATATTTTGGTAAATAAAAAAA
1 TT-TATATATTTTGGTAAAT-AAAAAA
*
61103434 TTTATAACATTTTGGTAA
1 TTTAT-ATATTTTGGTAA
61103452 TTTTTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 2 0.05
26 19 0.47
27 19 0.47
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (25 bp):
TTTATATATTTTGGTAAATAAAAAA
Found at i:61108503 original size:26 final size:26
Alignment explanation
Indices: 61108454--61108505 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
61108444 TTTAAAAATA
*
61108454 TTTAAAATTATTAAAATATTATATTT
1 TTTAAAATTATTAAAATATCATATTT
*
61108480 TTTAATATTATTAAACATA-CATATTT
1 TTTAAAATTATTAAA-ATATCATATTT
61108506 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTAAAATTATTAAAATATCATATTT
Found at i:61108598 original size:19 final size:19
Alignment explanation
Indices: 61108576--61108612 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61108566 TAATAAATTA
*
61108576 TTTAATATTTAAATTTTAT
1 TTTAATAGTTAAATTTTAT
61108595 TTTAATAGTTAAATTTTA
1 TTTAATAGTTAAATTTTA
61108613 AAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTAATAGTTAAATTTTAT
Found at i:61115555 original size:46 final size:47
Alignment explanation
Indices: 61115491--61115687 Score: 191
Period size: 47 Copynumber: 4.1 Consensus size: 47
61115481 ACATACCAAG
** *
61115491 GCCATAGCCCAGCCATGGTCTTATACGG-ATCACATATCACACTGAT
1 GCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCACACTGAT
* * * *
61115537 GCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACACCGAT
1 GCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCACACTGAT
* * * *
61115584 GCCATATCCCGGATATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
1 GCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCACA---CT--GAT
* * * *
61115636 GCCATAGCCCAGCTATGGTCTTATACGGAAATCACATTTCACA-TGCT
1 GCCATAGCCCAGATATGGTCTTATACGG-AAGCACATATCACACTGAT
61115683 GCCAT
1 GCCAT
61115688 GGTCCAACCA
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
46 24 0.19
47 60 0.48
49 1 0.01
50 1 0.01
52 27 0.22
53 11 0.09
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
GCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCACACTGAT
Found at i:61115588 original size:47 final size:47
Alignment explanation
Indices: 61115455--61115661 Score: 175
Period size: 47 Copynumber: 4.3 Consensus size: 47
61115445 ATAGTAAAAT
** * * *
61115455 TATGGTCTTGCACA-TAGTCACATATCACATACCAAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * *
61115504 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
61115550 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
61115597 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
61115649 TATGGTCTTATAC
1 TATGGTCTTATAC
61115662 GGAAATCACA
Statistics
Matches: 129, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
46 26 0.20
47 55 0.43
48 10 0.08
49 11 0.09
52 27 0.21
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:61122679 original size:13 final size:15
Alignment explanation
Indices: 61122656--61122687 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
61122646 AATATTAAAA
61122656 AAATGAATATTTTT-
1 AAATGAATATTTTTG
61122670 AAAT-AATATTTTTG
1 AAATGAATATTTTTG
61122684 AAAT
1 AAAT
61122688 TTTTAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
AAATGAATATTTTTG
Found at i:61125251 original size:12 final size:12
Alignment explanation
Indices: 61125234--61125278 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
61125224 TTTATATTTT
61125234 TATTTTAATAAA
1 TATTTTAATAAA
*
61125246 TATTTTTATAGAA
1 TATTTTAATA-AA
*
61125259 TATTTTAATAAT
1 TATTTTAATAAA
61125271 TATTTTAA
1 TATTTTAA
61125279 AGTAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATTTTAATAAA
Found at i:61125252 original size:13 final size:13
Alignment explanation
Indices: 61125236--61125276 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
61125226 TATATTTTTA
61125236 TTTTAATAAATAT
1 TTTTAATAAATAT
61125249 TTTT-ATAGAATA-
1 TTTTAATA-AATAT
*
61125261 TTTTAATAATTAT
1 TTTTAATAAATAT
61125274 TTT
1 TTT
61125277 AAAGTAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTAATAAATAT
Found at i:61126306 original size:16 final size:17
Alignment explanation
Indices: 61126285--61126316 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
61126275 GCAACTAAAA
61126285 CTATCATT-CAACAACC
1 CTATCATTCCAACAACC
61126301 CTATCATTCCAACAAC
1 CTATCATTCCAACAAC
61126317 TTCCTACGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (17 bp):
CTATCATTCCAACAACC
Found at i:61126900 original size:100 final size:101
Alignment explanation
Indices: 61126727--61126934 Score: 391
Period size: 100 Copynumber: 2.1 Consensus size: 101
61126717 GCAATAAAAC
61126727 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
61126792 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTA-
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
**
61126827 TTTAAAAGAATGTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
61126892 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
61126928 TTTAAAA
1 TTTAAAA
61126935 AATCTTCATT
Statistics
Matches: 105, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 98 0.93
101 7 0.07
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (101 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
Found at i:61129465 original size:44 final size:44
Alignment explanation
Indices: 61129366--61129955 Score: 272
Period size: 44 Copynumber: 13.6 Consensus size: 44
61129356 CTTAGTCTTA
* ****
61129366 CTCCATTACAACTTCAGGGAGATAAGA-CT-AG-TCGCGATCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGATTTTAATCTG
* * ** *
61129407 CT-CTCTGCAACTTCAGAAAGATAAGATCTGAGATTTTAATCCG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGATTTTAATCTG
* **
61129450 CTCCACTACAACTTCAGGGAGAT-AGAAT-TGTCGGCTTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAG-ATCTG-AGATTTTAATCTG
* * * ** *
61129494 CTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGAT-TTTAATCTG
** * ****
61129539 C-CTCACTGTAACTTCAGGGAAATAAGA-CT-AGA-TGCGGTCTG
1 CTC-CACTACAACTTCAGGGAGATAAGATCTGAGATTTTAATCTG
* * * *
61129580 CT-CTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGATTTTAATCTG
* * **
61129623 CTCCACTGCAACTTCAGGGAGAT-AGAAT-TGTCGGCTTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAG-ATCTG-AGATTTTAATCTG
* * * ** *
61129667 CTCCGCTACAACTTCAGGAAGATAAGATTTGCCATTTTTAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGA-TTTTAATCTG
* * * * *
61129712 CCCCACTGCAACTTCA-GGAGGATAAGACCT-A-CTTACTTAGTCTG
1 CTCCACTACAACTTCAGGGA-GATAAGATCTGAGATT--TTAATCTG
* *** *
61129756 CTCCACTACAACTTTAGGGAGATAAGA-CT-AGA-TGCGATCTA
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGATTTTAATCTG
* * * **
61129797 CT-CTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCA
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGATTTTAATCTG
* * * * **
61129840 CTCCACTGCAACTTTAGGGAAATAAGAT-TGTCGGCTTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTG-AGATTTTAATCTG
* ** * ** *
61129884 CTCCGCTGTAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGAGAT-TTTAATCTG
*
61129929 -TCTCACTGCAACTTCA-GGAGGATAAGA
1 CTC-CACTACAACTTCAGGGA-GATAAGA
61129956 CTCGATCTGT
Statistics
Matches: 414, Mismatches: 101, Indels: 64
0.72 0.17 0.11
Matches are distributed among these distances:
40 59 0.14
41 20 0.05
42 8 0.02
43 35 0.08
44 194 0.47
45 98 0.24
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTACAACTTCAGGGAGATAAGATCTGAGATTTTAATCTG
Found at i:61129555 original size:173 final size:173
Alignment explanation
Indices: 61129374--61129739 Score: 601
Period size: 173 Copynumber: 2.1 Consensus size: 173
61129364 TACTCCATTA
*
61129374 CAACTTCAGGGAGATAAGACTAG-TCGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGA
1 CAACTTCAGGGAGATAAGACTAGAT-GCGATCTGCTCTCTACAACTTCAGAAAGATAAGATCTGA
*
61129438 GATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCGCTGC
65 GATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCGCTAC
* *
61129503 AACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTG
130 AACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTGCCCCACTG
* * * *
61129547 TAACTTCAGGGAAATAAGACTAGATGCGGTCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAG
1 CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAAAGATAAGATCTGAG
* *
61129612 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCGCTACA
66 ATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCGCTACA
*
61129677 ACTTCAGGAAGATAAGATTTGCCATTTTTAGTCTGCCCCACTG
131 ACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTGCCCCACTG
61129720 CAACTTCA-GGAGGATAAGAC
1 CAACTTCAGGGA-GATAAGAC
61129740 CTACTTACTT
Statistics
Matches: 178, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
172 3 0.02
173 174 0.98
174 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (173 bp):
CAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAAAGATAAGATCTGAG
ATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCGCTACA
ACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTGCCCCACTG
Found at i:61129680 original size:217 final size:217
Alignment explanation
Indices: 61129441--61129956 Score: 702
Period size: 217 Copynumber: 2.4 Consensus size: 217
61129431 GATCTGAGAT
* * * * ** * *
61129441 TTTAATCCGCTCCACTACAACTTCAGGGAGAT-AGAATTGTCGGCTTTAATCTGCTCCGCTGCAA
1 TTTAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCTCCACTGCAA
** * **
61129505 CTTCAGG-GAGATAAGATTTGCCAT-CTTTAGTCTGC-CTCACTGTAACTTCAGGGAAATAAGAC
66 CTTCAGGAG-GATAAGACCT-ACATAC-TTAGTCTGCTC-CACTACAACTTCAGGGAAATAAGAC
* * *
61129567 TAGATGCGGTCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGC
127 TAGATGCGATCTACTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGC
*
61129632 AACTTCAGGGAGAT-AGAATTGTCGGC
192 AACTTCAGGGAAATAAG-ATTGTCGGC
* * *
61129658 TTTAATCTGCTCCGCTACAACTTCAGGAAGATAAGATTTGCCATTTTTAGTCTGCCCCACTGCAA
1 TTTAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCTCCACTGCAA
* * *
61129723 CTTCAGGAGGATAAGACCTACTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAGACCTACATACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGA
61129788 TGCGATCTACTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACT
131 TGCGATCTACTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACT
*
61129853 TTAGGGAAATAAGATTGTCGGC
196 TCAGGGAAATAAGATTGTCGGC
**
61129875 TTTAATCTGCTCCGCTGTAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTG-TCTCACTGCA
1 TTTAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCTC-CACTGCA
61129939 ACTTCAGGAGGATAAGAC
65 ACTTCAGGAGGATAAGAC
61129957 TCGATCTGTC
Statistics
Matches: 264, Mismatches: 29, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
216 1 0.00
217 219 0.83
218 43 0.16
219 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
TTTAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCTCCACTGCAA
CTTCAGGAGGATAAGACCTACATACTTAGTCTGCTCCACTACAACTTCAGGGAAATAAGACTAGA
TGCGATCTACTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACT
TCAGGGAAATAAGATTGTCGGC
Found at i:61129837 original size:173 final size:173
Alignment explanation
Indices: 61129403--61129910 Score: 487
Period size: 173 Copynumber: 2.9 Consensus size: 173
61129393 CTAGTCGCGA
* * * ** *
61129403 TCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGA-GATTTTAATCCGCTCCACTACAACTTCAG
1 TCTGCTCACTACAACTTCAGAGAGATAAGATCTGAGGA-TGCAATCCACTCCACTACAACTTCAG
*
61129467 GGAGATAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTT
65 GGAGATAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGAAGATAAGATTTGCCATCTT
* * * * *
61129532 TAGTCTGCCTCACTGTAACTTCAGGGAAATAAGACTAGATGCGG
130 TAGTCTGCCCCACTGCAACTTCAGGGAAATAAGACTACATACAG
* * ** * *
61129576 TCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGG
1 TCTGCTCACTACAACTTCAGAGAGATAAGATCTGAGGATGCAATCCACTCCACTACAACTTCAGG
* *
61129641 GAGATAGAATTGTCGGCTTTAATCTGCTCCGCTACAACTTCAGGAAGATAAGATTTGCCATTTTT
66 GAGATAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGAAGATAAGATTTGCCATCTTT
* *
61129706 AGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACCTACTTACTTAG
131 AGTCTGCCCCACTGCAACTTCAGGGA-AATAAGA-CTACATAC--AG
* * * * *
61129752 TCTGCTCCACTACAACTTTAGGGAGATAAGA-CT-A-GATGCGATCTACT-CTCTACAACTTCAG
1 TCTGCT-CACTACAACTTCAGAGAGATAAGATCTGAGGATGCAATCCACTCCACTACAACTTCAG
* * * ** * * * **
61129813 AGAGATA-AGATCTG-AGGTTTTAATCCACTCCACTGCAACTTTAGGGAA-ATAAGA-TTGTCGG
65 GGAGATAGA-AT-TGTCGGCTTTAATCTGCTCCGCTGCAACTTCA-GGAAGATAAGATTTGCCAT
* * * * *
61129874 CTTTAATCTGCTCCGCTGTAACTTCAGGGAGATAAGA
127 CTTTAGTCTGCCCCACTGCAACTTCAGGGAAATAAGA
61129911 TTTGCCATCT
Statistics
Matches: 284, Mismatches: 41, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
172 36 0.13
173 198 0.70
174 19 0.07
175 1 0.00
176 9 0.03
177 21 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (173 bp):
TCTGCTCACTACAACTTCAGAGAGATAAGATCTGAGGATGCAATCCACTCCACTACAACTTCAGG
GAGATAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGAAGATAAGATTTGCCATCTTT
AGTCTGCCCCACTGCAACTTCAGGGAAATAAGACTACATACAG
Found at i:61141585 original size:100 final size:101
Alignment explanation
Indices: 61141412--61141619 Score: 409
Period size: 100 Copynumber: 2.1 Consensus size: 101
61141402 GCAATAAAAC
61141412 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
61141477 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTA-
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
61141512 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
61141577 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
61141613 TTTAAAA
1 TTTAAAA
61141620 AATCTTCATT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 100 0.93
101 7 0.07
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (101 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
Found at i:61143159 original size:15 final size:15
Alignment explanation
Indices: 61143141--61143170 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61143131 ACACATAATG
61143141 ATAAAAAAACATAAA
1 ATAAAAAAACATAAA
*
61143156 ATAAAAAAATATAAA
1 ATAAAAAAACATAAA
61143171 TATCAACCTT
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:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
ATAAAAAAACATAAA
Found at i:61145634 original size:82 final size:82
Alignment explanation
Indices: 61145543--61145707 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
61145533 CATTTGTTTT
* *
61145543 GAAATTTAGATGTTTTTCATAGTATGAAGTTTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
61145608 TGAGTCCTTTGTTAAAA
66 TGAGTCCTTTGTTAAAA
61145625 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
61145690 TGAGTCCTTTGTTAAAA
66 TGAGTCCTTTGTTAAAA
61145707 G
1 G
61145708 GTATGAGACT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (82 bp):
GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
TGAGTCCTTTGTTAAAA
Found at i:61146751 original size:37 final size:37
Alignment explanation
Indices: 61146710--61146850 Score: 115
Period size: 37 Copynumber: 3.8 Consensus size: 37
61146700 ATTTTTAACT
*
61146710 CATTGCCATTGAGGTGAATTGTGGTTTTT-CTTCAACC
1 CATTGCCATT-AGGTGAATTGTGGTTTTTGTTTCAACC
* *
61146747 CATTGTCATTAGGGTGAATTGTGATTTTTGTTTCAACC
1 CATTGCCATTA-GGTGAATTGTGGTTTTTGTTTCAACC
* * * * * * *
61146785 AACTACCACTAGGAT-TATTGGGGTTTTTGTTTCGACC
1 CATTGCCATTAGG-TGAATTGTGGTTTTTGTTTCAACC
* * *
61146822 CATTGGCATTGGGGTTAATTGTGGTTTTT
1 CATTGCCATT-AGGTGAATTGTGGTTTTT
61146851 TACATTTTTC
Statistics
Matches: 79, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
36 1 0.01
37 51 0.65
38 27 0.34
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (37 bp):
CATTGCCATTAGGTGAATTGTGGTTTTTGTTTCAACC
Found at i:61147605 original size:28 final size:28
Alignment explanation
Indices: 61147560--61147634 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
61147550 TTTATATCAG
* *
61147560 ATTTATATTAAATGATAATGCAAAAT-T
1 ATTTATATTAAATAATAATGAAAAATAT
*
61147587 ATGTTATATTAAATAATAATTAAAAATAT
1 AT-TTATATTAAATAATAATGAAAAATAT
61147616 ATTTA-ATCTAAATAATAAT
1 ATTTATAT-TAAATAATAAT
61147635 AACAATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.10
28 35 0.83
29 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (28 bp):
ATTTATATTAAATAATAATGAAAAATAT
Found at i:61149226 original size:17 final size:17
Alignment explanation
Indices: 61149204--61149239 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
61149194 GTATTCAAAT
61149204 AATTATAAAAATTATTA
1 AATTATAAAAATTATTA
*
61149221 AATTATTAAAATTATTA
1 AATTATAAAAATTATTA
61149238 AA
1 AA
61149240 AACAAATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTATAAAAATTATTA
Found at i:61149423 original size:21 final size:23
Alignment explanation
Indices: 61149383--61149424 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
61149373 GAATTATAAG
61149383 ATATTATAAATAATTATTAAATA
1 ATATTATAAATAATTATTAAATA
*
61149406 ATATTTTAAA-AA-TATTAAA
1 ATATTATAAATAATTATTAAA
61149425 AACTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAAATAATTATTAAATA
Found at i:61153664 original size:48 final size:48
Alignment explanation
Indices: 61153596--61153693 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
61153586 ATCTTTAACT
61153596 TTATTTTCTTAATCTTACGTGTACATAAGGATTAAGAACCTTATCAAC
1 TTATTTTCTTAATCTTACGTGTACATAAGGATTAAGAACCTTATCAAC
*
61153644 TTATTTTCTTAATCTTACGTGTACATAAGGATTAAGAACTTTATCAAC
1 TTATTTTCTTAATCTTACGTGTACATAAGGATTAAGAACCTTATCAAC
61153692 TT
1 TT
61153694 GCTGAATGCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (48 bp):
TTATTTTCTTAATCTTACGTGTACATAAGGATTAAGAACCTTATCAAC
Found at i:61154207 original size:54 final size:54
Alignment explanation
Indices: 61153974--61154469 Score: 403
Period size: 54 Copynumber: 9.2 Consensus size: 54
61153964 TTTTAACCAC
* * * ** *
61153974 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGG-CTCACTAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTC-GA
** ** *
61154028 TTTAAGATCTTAGTCTTATACTTGA-AA-ATTTTTCGAATCTCGCGGTTTGTCGA
1 TTTAAGATCGCAACCTTATACTT-ACAAGATTTTTCGAATCTTGCGGTTTGTCGA
* * * * * * * * *
61154081 TTTAAGATTGCAATCTTATACTTTCAAGATATTTC-AATCTTGGGGCTCGCCTA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTCGA
* * * *
61154134 TTTAAGATTGCAACATTATACTTACAGGATTTTTCGAATCTTGCGGTTTGTGGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTCGA
* * ** *
61154188 TTTAAGATCACAACCTTATACTTACATGATTTTT-GAAATCTTATGGTTTTTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCG-AATCTTGCGGTTTGTCGA
* ** * **
61154242 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATCTTGAAGCTTAACGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTCGA
* ***
61154296 TTTAAGATC-CTAACCTTATACTTACAAGATTTTTTGAATCTTTTAGTTTGTCGA
1 TTTAAGATCGC-AACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTCGA
* * * * * * * **
61154350 TTTAAGATCACATCCTTATACTTTCGAGATTTTTTGAATCATGCGGCTTGTTAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTCGA
* * * * * * * *
61154404 TTTAATATCCCAGCCATATACTTACAAGATTTCTAGAATCTTGCAG-TTGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTCGA
61154457 TTTAAGATCGCAA
1 TTTAAGATCGCAA
61154470 ATTTCTCATG
Statistics
Matches: 349, Mismatches: 84, Indels: 19
0.77 0.19 0.04
Matches are distributed among these distances:
53 95 0.27
54 252 0.72
55 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (54 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGTTTGTCGA
Found at i:61154923 original size:15 final size:16
Alignment explanation
Indices: 61154904--61154941 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
61154894 GATGAAATTG
61154904 AAAAGATG-AAATAAT
1 AAAAGATGAAAATAAT
*
61154919 TAAAGATGATAAATAAT
1 AAAAGATGA-AAATAAT
61154936 AAAAGA
1 AAAAGA
61154942 AAAGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.37
17 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (16 bp):
AAAAGATGAAAATAAT
Found at i:61155460 original size:5 final size:5
Alignment explanation
Indices: 61155450--61155483 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
61155440 GCCAAAGATG
*
61155450 TGAAT TGAAT TGAAT TGCAT TGAAT ATGAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TGA
61155484 TCTTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:61162726 original size:25 final size:25
Alignment explanation
Indices: 61162697--61162760 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
61162687 ATTGACTCTT
*
61162697 ATGAGCTTCCCGTTATACAGCTCAA
1 ATGAGCTTCCCGTTACACAGCTCAA
* ** *
61162722 ATGAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCGTTACACAGCTCAA
61162747 ATGAGCTTCCCGTT
1 ATGAGCTTCCCGTT
61162761 TATGTACTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACACAGCTCAA
Found at i:61172063 original size:7 final size:7
Alignment explanation
Indices: 61172053--61172085 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
61172043 TATATATTTT
61172053 TATAAAA
1 TATAAAA
61172060 TATAAAA
1 TATAAAA
61172067 TATAAAA
1 TATAAAA
61172074 TATAAACA
1 TATAAA-A
61172082 TATA
1 TATA
61172086 TTTTAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (7 bp):
TATAAAA
Found at i:61174521 original size:31 final size:31
Alignment explanation
Indices: 61174484--61174552 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
61174474 TTAACAGCTT
* * *
61174484 AGTGACTTTAAT-AAGAAATTTTGAATAGTTC
1 AGTGACTTAAATGAA-AAATGTTGAATAATTC
61174515 AGTGACTTAAATGAAAAATGTTGAATAATTC
1 AGTGACTTAAATGAAAAATGTTGAATAATTC
*
61174546 AATGACT
1 AGTGACT
61174553 GTAACTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATGAAAAATGTTGAATAATTC
Found at i:61175116 original size:21 final size:21
Alignment explanation
Indices: 61175087--61175130 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
61175077 CTTTGATTTT
* * *
61175087 ATTTTATTGTTACAGTATTCA
1 ATTTCATTGCTACAGTAATCA
*
61175108 ATTTCATTGCTATAGTAATCA
1 ATTTCATTGCTACAGTAATCA
61175129 AT
1 AT
61175131 GCTGTTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (21 bp):
ATTTCATTGCTACAGTAATCA
Found at i:61196171 original size:3 final size:3
Alignment explanation
Indices: 61196163--61196232 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
61196153 GAAGATGGCA
61196163 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
61196211 AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG A
61196233 GGGTGAAGAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Done.