Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 177 of 345
Found at i:60231843 original size:23 final size:22
Alignment explanation
Indices: 60231791--60231843 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
60231781 TCCACGTCTT
*
60231791 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
60231813 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
60231836 TTTCTTTT
1 TTTCTTTT
60231844 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:60244465 original size:13 final size:13
Alignment explanation
Indices: 60244447--60244471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60244437 TAACCTACAA
60244447 AATTAAATAACAT
1 AATTAAATAACAT
60244460 AATTAAATAACA
1 AATTAAATAACA
60244472 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:60244719 original size:21 final size:21
Alignment explanation
Indices: 60244695--60244734 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
60244685 GAAAAAGGAA
*
60244695 TGAGCTGAAACGAGCTAAATT
1 TGAGCTCAAACGAGCTAAATT
60244716 TGAGCTCAAACGAGCTAAA
1 TGAGCTCAAACGAGCTAAA
60244735 ACGAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
TGAGCTCAAACGAGCTAAATT
Found at i:60248082 original size:30 final size:30
Alignment explanation
Indices: 60248048--60248144 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
60248038 TAAACTAAAA
60248048 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
60248078 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
60248108 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
60248138 TGAGCTA
1 TGAGCTA
60248145 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:60250503 original size:29 final size:29
Alignment explanation
Indices: 60250470--60250529 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
60250460 ATAACCAAAC
* *
60250470 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
60250499 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
60250528 CT
1 CT
60250530 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:60250522 original size:15 final size:15
Alignment explanation
Indices: 60250476--60250523 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
60250466 AAACCTACAA
*
60250476 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
60250491 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
60250505 AAACTTCATATCCAT
1 AAACTTCATATCCAT
60250520 AAAC
1 AAAC
60250524 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:60252047 original size:30 final size:30
Alignment explanation
Indices: 60251976--60252058 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
60251966 CTTTTGTTTC
* *
60251976 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
60252007 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
60252036 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
60252059 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:60252058 original size:18 final size:18
Alignment explanation
Indices: 60252009--60252064 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
60251999 CACTCTCAAA
* *
60252009 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
60252026 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
60252044 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
60252063 TT
1 TT
60252065 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:60252065 original size:12 final size:12
Alignment explanation
Indices: 60252034--60252058 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60252024 TTTTTCAATC
60252034 TCATTTTCTTTT
1 TCATTTTCTTTT
60252046 TCATTTTCTTTT
1 TCATTTTCTTTT
60252058 T
1 T
60252059 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:60252137 original size:5 final size:5
Alignment explanation
Indices: 60252127--60252183 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
60252117 CTCTTGCCTC
*
60252127 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
60252174 TCTTT TCTTT
1 TCTTT TCTTT
60252184 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:60252167 original size:15 final size:14
Alignment explanation
Indices: 60252127--60252183 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
60252117 CTCTTGCCTC
*
60252127 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
60252142 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
60252157 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
60252174 TCTTTTCTTT
1 TCTTTTCTTT
60252184 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:60252193 original size:21 final size:20
Alignment explanation
Indices: 60252125--60252194 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
60252115 GCCTCTTGCC
60252125 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
60252148 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
60252168 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
60252188 TCTCTTT
1 TCTCTTT
60252195 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:60253109 original size:4 final size:4
Alignment explanation
Indices: 60253100--60253131 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
60253090 AAGTTTTATT
60253100 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
60253132 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:60259483 original size:17 final size:17
Alignment explanation
Indices: 60259458--60259496 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
60259448 ATTAAACACC
60259458 TTTTTTTTTAG-ATTTT
1 TTTTTTTTTAGAATTTT
*
60259474 TTTTTCTTTTTGAATTTT
1 TTTTT-TTTTAGAATTTT
60259492 TTTTT
1 TTTTT
60259497 GAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTAGAATTTT
Found at i:60259493 original size:10 final size:10
Alignment explanation
Indices: 60259480--60259518 Score: 60
Period size: 10 Copynumber: 3.7 Consensus size: 10
60259470 TTTTTTTTTC
60259480 TTTTTGAATTTT
1 TTTTTGAA--TT
60259492 TTTTTGAATT
1 TTTTTGAATT
60259502 TTTTTGAATT
1 TTTTTGAATT
60259512 TTTTTGA
1 TTTTTGA
60259519 CTTATATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 19 0.70
12 8 0.30
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (10 bp):
TTTTTGAATT
Found at i:60259495 original size:12 final size:12
Alignment explanation
Indices: 60259475--60259516 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
60259465 TTAGATTTTT
60259475 TTTTCTTTTTGAA
1 TTTT-TTTTTGAA
60259488 TTTTTTTTTGAA
1 TTTTTTTTTGAA
60259500 --TTTTTTTGAA
1 TTTTTTTTTGAA
60259510 TTTTTTT
1 TTTTTTT
60259517 GACTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.37
12 13 0.48
13 4 0.15
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:60261236 original size:30 final size:30
Alignment explanation
Indices: 60261202--60261298 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
60261192 TAAACTAAAA
60261202 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
60261232 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
60261262 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
60261292 TGAGCTA
1 TGAGCTA
60261299 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:60261668 original size:30 final size:29
Alignment explanation
Indices: 60261613--60261676 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
60261603 TTTTTCAATT
* *
60261613 TCTTTTTCACTCTCAAATTTCTTTTCGTTC
1 TCTTTTTCAATCTCAAATCTCTTTTC-TTC
*
60261643 TCTTTTTCAATCTC-AATCTCATTTTCTTT
1 TCTTTTTCAATCTCAAATCTC-TTTTCTTC
60261672 TCTTT
1 TCTTT
60261677 GTTTTTCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (29 bp):
TCTTTTTCAATCTCAAATCTCTTTTCTTC
Found at i:60261691 original size:19 final size:20
Alignment explanation
Indices: 60261667--60261707 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
60261657 AATCTCATTT
60261667 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
60261686 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
60261706 TC
1 TC
60261708 GATTTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:60262767 original size:17 final size:16
Alignment explanation
Indices: 60262732--60262767 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60262722 ATTACAACTT
*
60262732 GAATTTTTTTTAATTC
1 GAATTTTTTTTAATAC
60262748 GAATTTTTTTTAACTAC
1 GAATTTTTTTTAA-TAC
60262765 GAA
1 GAA
60262768 CCTATTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (16 bp):
GAATTTTTTTTAATAC
Found at i:60266640 original size:6 final size:6
Alignment explanation
Indices: 60266621--60266724 Score: 52
Period size: 6 Copynumber: 16.2 Consensus size: 6
60266611 AATCAAACTT
*
60266621 TTTTTC TATTTTC TTTTTC TTGTTCATC TTTTTC TTTTCTC ATTTTC -TTTTC
1 TTTTTC T-TTTTC TTTTTC TT-TT--TC TTTTTC TTTT-TC TTTTTC TTTTTC
* * * *
60266673 TCTCTC TTTTGC TGTTCTT- GTTTTC TTTTTC TCACTTTTC -TTTTC TTTTTC
1 TTTTTC TTTTTC T-TT-TTC TTTTTC TTTTTC T---TTTTC TTTTTC TTTTTC
60266724 T
1 T
60266725 CTCAATTGAT
Statistics
Matches: 76, Mismatches: 9, Indels: 26
0.68 0.08 0.23
Matches are distributed among these distances:
5 12 0.16
6 37 0.49
7 15 0.20
8 3 0.04
9 9 0.12
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.71
Consensus pattern (6 bp):
TTTTTC
Found at i:60266668 original size:13 final size:13
Alignment explanation
Indices: 60266621--60266675 Score: 67
Period size: 13 Copynumber: 4.1 Consensus size: 13
60266611 AATCAAACTT
60266621 TTTTTCTATTT-TC
1 TTTTTCT-TTTCTC
60266634 TTTTTCTTGTTCATC
1 TTTTTCTT-TTC-TC
60266649 TTTTTCTTTTCTC
1 TTTTTCTTTTCTC
*
60266662 ATTTTCTTTTCTC
1 TTTTTCTTTTCTC
60266675 T
1 T
60266676 CTCTTTTGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 1 0.03
13 23 0.62
14 3 0.08
15 10 0.27
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:60266681 original size:30 final size:29
Alignment explanation
Indices: 60266621--60266718 Score: 85
Period size: 28 Copynumber: 3.4 Consensus size: 29
60266611 AATCAAACTT
* * *
60266621 TTTTTCTATTT-TCTTTTTCTTGTTC-ATC
1 TTTTTCT-TTTCTCATTTTCTTTTTCTCTC
60266649 TTTTTCTTTTCTCATTTTCTTTTCTCTCTC
1 TTTTTCTTTTCTCATTTTCTTTT-TCTCTC
* * ** *
60266679 TTTTGCTGTTCTTGTTTTCTTTTTCTCAC
1 TTTTTCTTTTCTCATTTTCTTTTTCTCTC
60266708 -TTTTCTTTTCT
1 TTTTTCTTTTCT
60266719 TTTTCTCTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.05
28 26 0.46
29 7 0.12
30 21 0.37
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (29 bp):
TTTTTCTTTTCTCATTTTCTTTTTCTCTC
Found at i:60268767 original size:30 final size:29
Alignment explanation
Indices: 60268679--60268778 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 29
60268669 AGTTAAACTA
60268679 AAATGAGCT-AGGCTTTAGCTCGTGAGCT-
1 AAATGAGCTAAGG-TTTAGCTCGTGAGCTG
* * * * * *
60268707 AAAGTTGAGCTGAGATTAAACTCCTAAGCTG
1 AAA--TGAGCTAAGGTTTAGCTCGTGAGCTG
60268738 AAACTGAGCTAAGGTTTAGCTCGTGAGCTG
1 AAA-TGAGCTAAGGTTTAGCTCGTGAGCTG
60268768 AATATGAGCTA
1 AA-ATGAGCTA
60268779 GGGGTGAGCT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 3 0.05
30 46 0.84
31 6 0.11
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (29 bp):
AAATGAGCTAAGGTTTAGCTCGTGAGCTG
Found at i:60268789 original size:30 final size:30
Alignment explanation
Indices: 60268733--60268789 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
60268723 TAAACTCCTA
* *
60268733 AGCTGAAACTGAGCTAAGGTTTAGCTCGTG
1 AGCTGAAACTGAGCTAAGGGTGAGCTCGTG
*
60268763 AGCTGAATA-TGAGCTAGGGGTGAGCTC
1 AGCTGAA-ACTGAGCTAAGGGTGAGCTC
60268790 AGTTTAGCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 22 0.96
31 1 0.04
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (30 bp):
AGCTGAAACTGAGCTAAGGGTGAGCTCGTG
Found at i:60271043 original size:30 final size:30
Alignment explanation
Indices: 60270957--60271054 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
60270947 TTAAACTAAA
* * *
60270957 ATGAGCTACGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
60270987 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
60271017 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
60271047 ATGAGCTA
1 ATGAGCTA
60271055 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:60272786 original size:48 final size:48
Alignment explanation
Indices: 60272734--60272839 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
60272724 TTGTCTTTTC
* *
60272734 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCCCA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
60272782 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
60272830 TTTCTTTTTC
1 TTTCTTTTTC
60272840 CATGACACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
48 39 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.13, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:60273413 original size:24 final size:23
Alignment explanation
Indices: 60273359--60273436 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
60273349 GGATAATTAA
**
60273359 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
60273382 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
60273406 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
60273427 GAAATAGTAT
1 GAAATGGTAT
60273437 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:60273421 original size:21 final size:21
Alignment explanation
Indices: 60273395--60273461 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
60273385 TTGGTATTTG
60273395 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
60273416 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
60273437 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
60273460 GG
1 GG
60273462 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:60275796 original size:11 final size:12
Alignment explanation
Indices: 60275780--60275809 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
60275770 CAACTCAAAA
60275780 TTTTTTTGA-TT
1 TTTTTTTGACTT
60275791 TTTTTTTGACTT
1 TTTTTTTGACTT
60275803 TTTTTTT
1 TTTTTTT
60275810 ACATTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTGACTT
Found at i:60277229 original size:20 final size:20
Alignment explanation
Indices: 60277206--60277252 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
60277196 GGGTTAAGAT
*
60277206 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
60277226 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
60277246 TGAGCTG
1 TGAGCTG
60277253 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:60278978 original size:48 final size:48
Alignment explanation
Indices: 60278923--60279028 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
60278913 TTGTCTTTTC
*
60278923 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
60278971 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
60279019 TTTCTTTTTC
1 TTTCTTTTTC
60279029 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:60280124 original size:40 final size:38
Alignment explanation
Indices: 60280051--60280124 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 38
60280041 GCAAGACTTT
*
60280051 TCACTTTTTTTTTCTTTTTTTTAACTTGATTTTTTTTG
1 TCACTTTTTTTTTCTTTTTTTTAAATTGATTTTTTTTG
60280089 TCACTTCTTTTTTTCCTTTTTTTTAAATT--TTTTTTT
1 TCACTT-TTTTTTT-CTTTTTTTTAAATTGATTTTTTT
60280125 CTGAATTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
38 13 0.39
39 7 0.21
40 13 0.39
ACGTcount: A:0.11, C:0.12, G:0.03, T:0.74
Consensus pattern (38 bp):
TCACTTTTTTTTTCTTTTTTTTAAATTGATTTTTTTTG
Found at i:60281658 original size:20 final size:20
Alignment explanation
Indices: 60281635--60281691 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
60281625 GGGTTAAGAT
*
60281635 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
60281655 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
*
60281675 TGAGCTGGAAATGAGCT
1 TGAGCT-GAATTGAGCT
60281692 AAACGGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:60282132 original size:30 final size:31
Alignment explanation
Indices: 60282061--60282143 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
60282051 CTTTTGTTTC
*
60282061 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATCTTCTTTTTCAATCTCA
*
60282092 AATTTC-TTTTCGTTCTT-TTTTTCAATCTC-
1 AATTTCTTTTTC-ATCTTCTTTTTCAATCTCA
* * *
60282121 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTCATCTTCTTTTT
60282144 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
29 9 0.20
30 26 0.58
31 10 0.22
ACGTcount: A:0.12, C:0.20, G:0.01, T:0.66
Consensus pattern (31 bp):
AATTTCTTTTTCATCTTCTTTTTCAATCTCA
Found at i:60282161 original size:12 final size:12
Alignment explanation
Indices: 60282146--60282176 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
60282136 TTCTTTTTGC
60282146 TTTTCAAAGGCT
1 TTTTCAAAGGCT
60282158 TTTTCAAAGGCT
1 TTTTCAAAGGCT
60282170 TTTTCAA
1 TTTTCAA
60282177 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:60282234 original size:5 final size:5
Alignment explanation
Indices: 60282224--60282280 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
60282214 CTCTTGCCTC
*
60282224 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
60282271 TCTTT TCTTT
1 TCTTT TCTTT
60282281 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:60282264 original size:15 final size:14
Alignment explanation
Indices: 60282224--60282280 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
60282214 CTCTTGCCTC
*
60282224 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
60282239 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
60282254 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
60282271 TCTTTTCTTT
1 TCTTTTCTTT
60282281 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:60282281 original size:21 final size:21
Alignment explanation
Indices: 60282224--60282291 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
60282214 CTCTTGCCTC
* *
60282224 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
60282245 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
60282266 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
60282286 CTCTTT
1 -TCTTT
60282292 ACAAGGATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:60284988 original size:30 final size:30
Alignment explanation
Indices: 60284902--60284999 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
60284892 TTAAACTAAA
* *
60284902 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
60284932 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
60284962 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
60284992 ATGAGCTA
1 ATGAGCTA
60285000 GAAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:60286632 original size:30 final size:31
Alignment explanation
Indices: 60286583--60286642 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
60286573 ATAGAAAAAG
* *
60286583 AAACGAGCTGGAAAAAAGCTAAATTGAGCTC
1 AAACAAGCTGGAAAAAAGCTAAAGTGAGCTC
* *
60286614 AAACAAGCT-GAAACAAGCTCAAGTGAGCT
1 AAACAAGCTGGAAAAAAGCTAAAGTGAGCT
60286643 GATTGGAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (31 bp):
AAACAAGCTGGAAAAAAGCTAAAGTGAGCTC
Found at i:60289333 original size:21 final size:21
Alignment explanation
Indices: 60289288--60289350 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
60289278 TTTGAACCAT
* *
60289288 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
60289310 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
60289331 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
60289351 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:60289943 original size:30 final size:30
Alignment explanation
Indices: 60289909--60289991 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
60289899 TAAACTAAAA
60289909 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
60289939 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
60289969 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGCTTTAGCTCGTGAG
60289992 TTGAAAGTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 34 0.87
31 3 0.08
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:60299364 original size:13 final size:13
Alignment explanation
Indices: 60299346--60299375 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
60299336 GAATGGTCAT
60299346 CATGGTGTGAACA
1 CATGGTGTGAACA
60299359 CATGGTGTGAACA
1 CATGGTGTGAACA
60299372 CATG
1 CATG
60299376 ATCAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (13 bp):
CATGGTGTGAACA
Found at i:60300104 original size:14 final size:14
Alignment explanation
Indices: 60300085--60300129 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60300075 AACTCATCTT
*
60300085 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
60300099 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
60300112 AATTTAATTTAATG
1 AGTTTAATTTAATG
60300126 AGTT
1 AGTT
60300130 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:60301216 original size:29 final size:29
Alignment explanation
Indices: 60301183--60301239 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
60301173 ATAACCAAAC
*
60301183 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
60301212 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
60301240 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:60301472 original size:9 final size:9
Alignment explanation
Indices: 60301458--60301491 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
60301448 AGTAAGTTTA
60301458 AAAAAAACG
1 AAAAAAACG
*
60301467 AAAAAAACA
1 AAAAAAACG
60301476 AAAAAAACG
1 AAAAAAACG
60301485 AAAAAAA
1 AAAAAAA
60301492 ATTTCAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (9 bp):
AAAAAAACG
Found at i:60301480 original size:18 final size:18
Alignment explanation
Indices: 60301457--60301491 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
60301447 AAGTAAGTTT
60301457 AAAAAAAACGAAAAAAAC
1 AAAAAAAACGAAAAAAAC
60301475 AAAAAAAACGAAAAAAA
1 AAAAAAAACGAAAAAAA
60301492 ATTTCAAACA
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:0.86, C:0.09, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAAAACGAAAAAAAC
Found at i:60303060 original size:20 final size:20
Alignment explanation
Indices: 60303037--60303083 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
60303027 AGGTTAAGAT
*
60303037 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
60303057 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
60303077 TGAGCTG
1 TGAGCTG
60303084 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:60304806 original size:48 final size:48
Alignment explanation
Indices: 60304751--60304856 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
60304741 TTGTCTTTTC
*
60304751 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
60304799 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
60304847 TTTCTTTTTC
1 TTTCTTTTTC
60304857 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:60305919 original size:23 final size:24
Alignment explanation
Indices: 60305873--60305919 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
60305863 ACTCGCAATA
*
60305873 CTTTTCACTTTTTTTTGTTCTTTT
1 CTTTTCACTTTTTTTTCTTCTTTT
*
60305897 CTTTT-ACTTTTTTTTCTTTTTTT
1 CTTTTCACTTTTTTTTCTTCTTTT
60305920 GCTCACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (24 bp):
CTTTTCACTTTTTTTTCTTCTTTT
Found at i:60308493 original size:12 final size:12
Alignment explanation
Indices: 60308478--60308539 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
60308468 GAAAGACAAA
60308478 GAAAAAGAGATT
1 GAAAAAGAGATT
** * **
60308490 GAAAGTGAAAAA
1 GAAAAAGAGATT
*
60308502 GAAAATGAGATT
1 GAAAAAGAGATT
*
60308514 GAAAAAGAGAAT
1 GAAAAAGAGATT
*
60308526 GAAAAAGAGTTT
1 GAAAAAGAGATT
60308538 GA
1 GA
60308540 GAGAGAGAAA
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (12 bp):
GAAAAAGAGATT
Found at i:60308501 original size:18 final size:18
Alignment explanation
Indices: 60308478--60308529 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
60308468 GAAAGACAAA
*
60308478 GAAAAAGAGATTGAAAGT
1 GAAAAAGAGAATGAAAGT
* * *
60308496 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAAAGT
60308514 GAAAAAGAGAATGAAA
1 GAAAAAGAGAATGAAA
60308530 AAGAGTTTGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.13
Consensus pattern (18 bp):
GAAAAAGAGAATGAAAGT
Found at i:60308529 original size:24 final size:24
Alignment explanation
Indices: 60308469--60308552 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
60308459 CAAAGAAATG
*
60308469 AAAGACAAAGAAAAAGAGATTGAA
1 AAAGAGAAAGAAAAAGAGATTGAA
** * *
60308493 AGTGAAAAAGAAAATGAGATTGAA
1 AAAGAGAAAGAAAAAGAGATTGAA
* * *
60308517 AAAGAGAATGAAAAAGAGTTTGAG
1 AAAGAGAAAGAAAAAGAGATTGAA
*
60308541 AGAGAGAAAGAA
1 AAAGAGAAAGAA
60308553 TGTGAAAAAG
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.61, C:0.01, G:0.26, T:0.12
Consensus pattern (24 bp):
AAAGAGAAAGAAAAAGAGATTGAA
Found at i:60310993 original size:14 final size:14
Alignment explanation
Indices: 60310974--60311018 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
60310964 AACTCATCTT
*
60310974 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
60310988 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
60311001 AATTTAATTTAATG
1 AGTTTAATTTAATG
60311015 AGTT
1 AGTT
60311019 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:60314782 original size:30 final size:30
Alignment explanation
Indices: 60314696--60314793 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
60314686 TTAAACTAAT
* *
60314696 ATGAGCTAAGCTTTAGCTCGTAAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
* * * * *
60314726 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
* * * *
60314756 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
60314786 ATGAGCTA
1 ATGAGCTA
60314794 GAAGTGAGCT
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTAAGCTGAAG
Found at i:60316963 original size:30 final size:30
Alignment explanation
Indices: 60316892--60316974 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 30
60316882 CTTTTGTTTC
* *
60316892 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
*
60316923 AATTT-ATTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
60316952 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
60316975 GATTTTCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 4 0.09
30 32 0.74
31 7 0.16
ACGTcount: A:0.14, C:0.20, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:60316965 original size:12 final size:12
Alignment explanation
Indices: 60316950--60316981 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60316940 TTTTTCAATC
60316950 TCATTTTCTTTT
1 TCATTTTCTTTT
60316962 TCATTTTCTTTT
1 TCATTTTCTTTT
*
60316974 TGATTTTC
1 TCATTTTC
60316982 AAAGGCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.16, G:0.03, T:0.72
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:60317065 original size:6 final size:5
Alignment explanation
Indices: 60317043--60317094 Score: 54
Period size: 5 Copynumber: 10.0 Consensus size: 5
60317033 CTCTTGCCTC
60317043 TCTTT TCTTT T-TATT TCATTT TCTTT T-TTT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
60317090 TCTTT
1 TCTTT
60317095 GTTTTCTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
4 5 0.12
5 25 0.61
6 6 0.15
7 5 0.12
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:60317066 original size:16 final size:14
Alignment explanation
Indices: 60317043--60317101 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 14
60317033 CTCTTGCCTC
60317043 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
60317058 TCATTTTCTTTTTTT
1 TC-TTTTCTTTTTTT
60317073 TCTTTTGC---TTTT
1 TCTTTT-CTTTTTTT
*
60317085 TCTTTTCTTTGTTT
1 TCTTTTCTTTTTTT
60317099 TCT
1 TCT
60317102 CTTTACAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
11 1 0.03
12 10 0.26
14 10 0.26
15 7 0.18
16 10 0.26
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:60317069 original size:21 final size:22
Alignment explanation
Indices: 60317043--60317094 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
60317033 CTCTTGCCTC
60317043 TCTTTTCTTTT-TATTT-CATTT
1 TCTTTTCTTTTCT-TTTGCATTT
*
60317064 TCTTTT-TTTTCTTTTGCTTTT
1 TCTTTTCTTTTCTTTTGCATTT
60317085 TCTTTTCTTT
1 TCTTTTCTTT
60317095 GTTTTCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 7 0.26
21 17 0.63
22 3 0.11
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (22 bp):
TCTTTTCTTTTCTTTTGCATTT
Found at i:60317074 original size:15 final size:15
Alignment explanation
Indices: 60317043--60317085 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
60317033 CTCTTGCCTC
60317043 TCTTTTCTTTTTATT
1 TCTTTTCTTTTTATT
60317058 TCATTTTCTTTTT-TT
1 TC-TTTTCTTTTTATT
60317073 TCTTTTGCTTTTT
1 TCTTTT-CTTTTT
60317086 CTTTTCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 12 0.46
16 10 0.38
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (15 bp):
TCTTTTCTTTTTATT
Found at i:60318026 original size:12 final size:12
Alignment explanation
Indices: 60318009--60318050 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
60317999 CATTAAACAC
*
60318009 TTTTTTTTCAAA
1 TTTTTTTTCGAA
60318021 TTTTTTTTCGAA
1 TTTTTTTTCGAA
60318033 TTTTTTTT-GAA
1 TTTTTTTTCGAA
60318044 TTTTTTT
1 TTTTTTT
60318051 ATATACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:60318036 original size:10 final size:11
Alignment explanation
Indices: 60318010--60318050 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
60318000 ATTAAACACT
*
60318010 TTTTTTTCAAA
1 TTTTTTTCGAA
60318021 TTTTTTTTCGAA
1 -TTTTTTTCGAA
*
60318033 TTTTTTTTGAA
1 TTTTTTTCGAA
60318044 TTTTTTT
1 TTTTTTT
60318051 ATATACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:60319775 original size:30 final size:30
Alignment explanation
Indices: 60319689--60319786 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
60319679 TTAAACTAAA
* *
60319689 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
60319719 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
60319749 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
60319779 ATGAGCTA
1 ATGAGCTA
60319787 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:60320709 original size:21 final size:20
Alignment explanation
Indices: 60320675--60320729 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
60320665 ACATTCTTGT
60320675 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
60320696 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
60320717 AAAG-AAAACAAAA
1 AAAGAAAAACAAAA
60320730 TAAAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 5 0.16
20 12 0.39
21 14 0.45
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:60320717 original size:15 final size:14
Alignment explanation
Indices: 60320686--60320724 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
60320676 AAGAGAAAAC
60320686 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
60320702 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
60320717 AAAGAAAA
1 AAAGAAAA
60320725 CAAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 4 0.18
17 5 0.23
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:60322146 original size:22 final size:21
Alignment explanation
Indices: 60322115--60322165 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
60322105 GTCCTTTTGA
*
60322115 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCAATTCATACC-AAT
*
60322138 ACCATACCATTTCATACCAAT
1 ACCATACCAATTCATACCAAT
*
60322159 TCCATAC
1 ACCATAC
60322166 TATTTCGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 12 0.48
23 4 0.16
ACGTcount: A:0.37, C:0.33, G:0.02, T:0.27
Consensus pattern (21 bp):
ACCATACCAATTCATACCAAT
Found at i:60322165 original size:21 final size:21
Alignment explanation
Indices: 60322120--60322182 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
60322110 TTTGAACCAT
* * *
60322120 TACCAATTCGTACCAAATACCA
1 TACCATTTCATACC-AATTCCA
60322142 TACCATTTCATACCAATTCCA
1 TACCATTTCATACCAATTCCA
*
60322163 TACTATTTCGA-ACCAATTCC
1 TACCATTTC-ATACCAATTCC
60322183 CAAATACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 23 0.64
22 13 0.36
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCATACCAATTCCA
Found at i:60322467 original size:30 final size:29
Alignment explanation
Indices: 60322433--60322513 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
60322423 TTTGGAAAAC
*
60322433 AAAAAGGAAATGAAAAAGAAAATGAGATTG
1 AAAAA-GAAATGAAAAAGAAAATGAGAGTG
***
60322463 AAAAAGAGAATGAAAAAGAGTTTGAGAGTG
1 AAAAAGA-AATGAAAAAGAAAATGAGAGTG
60322493 AAAAAGAAGATGAAAAAGAAA
1 AAAAAGAA-ATGAAAAAGAAA
60322514 TTGAAACAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
29 3 0.07
30 40 0.93
ACGTcount: A:0.63, C:0.00, G:0.25, T:0.12
Consensus pattern (29 bp):
AAAAAGAAATGAAAAAGAAAATGAGAGTG
Found at i:60324865 original size:13 final size:13
Alignment explanation
Indices: 60324847--60324871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60324837 TAACCTACAA
60324847 AATTAAATAACAT
1 AATTAAATAACAT
60324860 AATTAAATAACA
1 AATTAAATAACA
60324872 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:60325129 original size:10 final size:10
Alignment explanation
Indices: 60325096--60325144 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
60325086 AAAAAGGAAT
*
60325096 GAGCTGAAAC
1 GAGCTCAAAC
60325106 GAGCT-AAATTC
1 GAGCTCAAA--C
60325117 GAGCTCAAAC
1 GAGCTCAAAC
*
60325127 GAGCTAAAAC
1 GAGCTCAAAC
60325137 GAGCTCAA
1 GAGCTCAA
60325145 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:60325151 original size:20 final size:21
Alignment explanation
Indices: 60325096--60325144 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
60325086 AAAAAGGAAT
* *
60325096 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
60325117 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
60325137 GAGCTCAA
1 GAGCTCAA
60325145 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:60326374 original size:30 final size:30
Alignment explanation
Indices: 60326340--60326427 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
60326330 CTAGCTTATA
60326340 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * *
60326370 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTCACGAGCTA-AACCTTAGCTCAAC
* * *
60326400 TTTAGCTCATGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
60326428 TTTAGTTTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:60326852 original size:13 final size:13
Alignment explanation
Indices: 60326834--60326858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60326824 GTATTGATCA
60326834 TGTGTTCACACCT
1 TGTGTTCACACCT
60326847 TGTGTTCACACC
1 TGTGTTCACACC
60326859 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:60327355 original size:30 final size:30
Alignment explanation
Indices: 60327312--60327408 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
60327302 AGCTCACTCC
*
60327312 TAGCTCATA-TTCAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * * *
60327342 TAGCTCCACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
60327372 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
60327402 TAGCTCA
1 TAGCTCA
60327409 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:60329430 original size:11 final size:12
Alignment explanation
Indices: 60329414--60329504 Score: 57
Period size: 12 Copynumber: 7.5 Consensus size: 12
60329404 TTGGAGTAAC
60329414 AAAAAAATC-AA
1 AAAAAAATCGAA
*
60329425 AAAAAATTCGAA
1 AAAAAAATCGAA
*
60329437 AAAAAAATTGATTGA
1 AAAAAAATCGA---A
60329452 AAAAAAATTC-AA
1 AAAAAAA-TCGAA
60329464 AAAAAAAGT-G--
1 AAAAAAA-TCGAA
60329474 AAAAAAATCGAGA
1 AAAAAAATCGA-A
**
60329487 AAAAAAAAAGAA
1 AAAAAAATCGAA
60329499 AAAAAA
1 AAAAAA
60329505 GGGTGAGCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
9 1 0.02
10 8 0.13
11 8 0.13
12 27 0.43
13 9 0.14
15 9 0.14
16 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (12 bp):
AAAAAAATCGAA
Found at i:60329439 original size:13 final size:12
Alignment explanation
Indices: 60329423--60329480 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
60329413 CAAAAAAATC
60329423 AAAAAAAATTCGA
1 AAAAAAAATT-GA
60329436 AAAAAAAATTGA
1 AAAAAAAATTGA
*
60329448 TTGAAAAAAAATTCA
1 ---AAAAAAAATTGA
*
60329463 AAAAAAAAGTGA
1 AAAAAAAATTGA
60329475 AAAAAA
1 AAAAAA
60329481 TCGAGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 18 0.46
13 10 0.26
15 11 0.28
ACGTcount: A:0.72, C:0.03, G:0.09, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTGA
Found at i:60346718 original size:15 final size:15
Alignment explanation
Indices: 60346666--60346718 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
60346656 ACTCTCCTCA
60346666 TTCTTTTCTT-TCTTT
1 TTCTTTT-TTCTCTTT
**
60346681 TTCTTTTCACTCTTT
1 TTCTTTTTTCTCTTT
*
60346696 TTGTTTTTTCTCTTT
1 TTCTTTTTTCTCTTT
60346711 TTCTTTTT
1 TTCTTTTT
60346719 CTCGATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (15 bp):
TTCTTTTTTCTCTTT
Found at i:60348250 original size:20 final size:20
Alignment explanation
Indices: 60348227--60348273 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
60348217 GGGTTAAGAT
*
60348227 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
60348247 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
60348267 TGAGCTG
1 TGAGCTG
60348274 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:60351098 original size:10 final size:9
Alignment explanation
Indices: 60351085--60351119 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
60351075 TTTTCACTTT
60351085 TTTTTTGTTC
1 TTTTTT-TTC
60351095 TTTTTTTTAC
1 TTTTTTTT-C
60351105 TTTTTTTTC
1 TTTTTTTTC
60351114 TTTTTT
1 TTTTTT
60351120 GCTCACTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:60351127 original size:21 final size:19
Alignment explanation
Indices: 60351085--60351134 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 19
60351075 TTTTCACTTT
*
60351085 TTTTTTGTTCTTTTTTTTAC
1 TTTTTT-TTCTTTTTTTCAC
60351105 TTTTTTTTCTTTTTTGCTCAC
1 TTTTTTTTCTTTTTT--TCAC
60351126 TTCTTTTTT
1 TT-TTTTTT
60351135 TGTGATACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 5 0.19
22 6 0.23
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTCAC
Found at i:60354463 original size:12 final size:12
Alignment explanation
Indices: 60354432--60354456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60354422 TTTTTCAACC
60354432 TCATTTTCTTTT
1 TCATTTTCTTTT
60354444 TCATTTTCTTTT
1 TCATTTTCTTTT
60354456 T
1 T
60354457 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:60354535 original size:5 final size:5
Alignment explanation
Indices: 60354525--60354600 Score: 61
Period size: 5 Copynumber: 15.0 Consensus size: 5
60354515 CTCTTGCCTC
*
60354525 TCTTT TCTTT T-TAT TCATTT TCTTTTT TCTTT TCATTT TCATTT TC--T
1 TCTTT TCTTT TCTTT TC-TTT TC--TTT TCTTT TC-TTT TC-TTT TCTTT
*
60354572 TCTTT GCTTT TC-TT TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
60354601 GTTTTCTCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.05
4 7 0.12
5 29 0.49
6 15 0.25
7 5 0.08
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:60354570 original size:24 final size:22
Alignment explanation
Indices: 60354538--60354596 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 22
60354528 TTTCTTTTTA
*
60354538 TTCATTTTCTTTTTTCTTTTCATT
1 TTCATTTTCTTTTTGCTTTTC--T
60354562 TTCATTTTCTTCTTTGCTTTTCT
1 TTCATTTTCTT-TTTGCTTTTCT
60354585 TTC-TTTTCTTTT
1 TTCATTTTCTTTT
60354597 CTTTGTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 2 0.06
22 7 0.21
23 4 0.12
24 11 0.33
25 9 0.27
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.75
Consensus pattern (22 bp):
TTCATTTTCTTTTTGCTTTTCT
Found at i:60354607 original size:14 final size:12
Alignment explanation
Indices: 60354525--60354600 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 12
60354515 CTCTTGCCTC
60354525 TCTTTTCTTTTTAT
1 TCTTTTC-TTTT-T
60354539 TCATTTTCTTTTT
1 TC-TTTTCTTTTT
*
60354552 TCTTTTC-ATTT
1 TCTTTTCTTTTT
60354563 TCATTTTCTTCTTT
1 TC-TTTTCTT-TTT
*
60354577 GCTTTTCTTTCTTT
1 TCTTTTC-TT-TTT
60354591 TCTTTTCTTT
1 TCTTTTCTTT
60354601 GTTTTCTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
11 5 0.09
12 11 0.21
13 10 0.19
14 22 0.42
15 5 0.09
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.75
Consensus pattern (12 bp):
TCTTTTCTTTTT
Found at i:60357060 original size:20 final size:20
Alignment explanation
Indices: 60357014--60357060 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
60357004 AGCTCGTTTC
*
60357014 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
60357034 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
60357054 CAGCTCA
1 CAGCTCA
60357061 ATCTTACCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:60361876 original size:30 final size:30
Alignment explanation
Indices: 60361842--60361938 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
60361832 TAAACTAAAA
*
60361842 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
* * * * * *
60361872 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATGAGCTAAAGT
* *
60361902 TGAGCTAAGGTTTAGCTCATGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCATGAGCT-AAAGT
60361932 TGAGCTA
1 TGAGCTA
60361939 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
Found at i:60370006 original size:17 final size:17
Alignment explanation
Indices: 60369984--60370025 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
60369974 TCTTTTGGAG
60369984 GGTGCATGGACAGCT-AA
1 GGTGCATGGACA-CTCAA
60370001 GGTGCATGGACACTCAA
1 GGTGCATGGACACTCAA
*
60370018 GATGCATG
1 GGTGCATG
60370026 AATCGGTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.29, C:0.19, G:0.33, T:0.19
Consensus pattern (17 bp):
GGTGCATGGACACTCAA
Found at i:60373525 original size:40 final size:40
Alignment explanation
Indices: 60373481--60373705 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 40
60373471 GCTCCTCGTT
*
60373481 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
60373521 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
60373561 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
60373601 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCA
* * * * *
60373641 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
60373682 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
60373706 ACATCATTCA
Statistics
Matches: 161, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
39 4 0.02
40 144 0.89
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:60373582 original size:80 final size:79
Alignment explanation
Indices: 60373475--60373706 Score: 281
Period size: 80 Copynumber: 2.9 Consensus size: 79
60373465 GATATAGCTC
* *
60373475 CTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTA
*
60373540 ACCCGGATTTAGTAA
65 GCCCGGATTTAGTAA
* *
60373555 CTCGTACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTT
1 CTCGTACAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTT
* *
60373619 AGTCCGGATTTAGTAT
64 AGCCCGGATTTAGTAA
* * * * *
60373635 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACT
1 CTCGTACAAATGCCTTCGGGA-CTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACT
60373698 TAGCCCGGA
63 TAGCCCGGA
60373707 CATCATTCAA
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
79 7 0.05
80 112 0.85
81 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CTCGTACAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAG
CCCGGATTTAGTAA
Found at i:60373690 original size:120 final size:120
Alignment explanation
Indices: 60373481--60373706 Score: 298
Period size: 120 Copynumber: 1.9 Consensus size: 120
60373471 GCTCCTCGTT
60373481 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
60373546 ATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
60373601 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
60373663 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
60373707 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
119 6 0.07
120 77 0.84
121 9 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:60380088 original size:38 final size:38
Alignment explanation
Indices: 60380045--60380338 Score: 212
Period size: 38 Copynumber: 7.0 Consensus size: 38
60380035 TTTCAAATTA
*
60380045 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
60380083 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
60380121 A-ATGAATCAATACATGTAACCATGGCATATCCACTTAGCACCACGTT
1 ACATG------T--A--TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
60380168 ACATGTTTAACTGTGGTATATCCACTTAGCACCACATTAAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCAC-GT--T
* * *
60380209 GAATCAATATATGTAACTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
*
60380253 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
60380301 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
60380339 TTTTTTCATT
Statistics
Matches: 208, Mismatches: 20, Indels: 56
0.73 0.07 0.20
Matches are distributed among these distances:
37 3 0.01
38 92 0.44
39 1 0.00
40 2 0.01
41 2 0.01
42 4 0.02
43 2 0.01
44 2 0.01
45 3 0.01
46 3 0.01
47 57 0.27
48 37 0.18
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:60380147 original size:85 final size:85
Alignment explanation
Indices: 60380052--60380258 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
60380042 TTAACATGTA
60380052 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
60380117 CGTTAATGAATCAATACATG
66 CATTAATGAATCAATACATG
* *
60380137 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
60380202 CATTAATGAATCAATATATG
66 CATTAATGAATCAATACATG
*
60380222 TAACTGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
60380259 ATCAATATGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CATTAATGAATCAATACATG
Found at i:60380153 original size:47 final size:48
Alignment explanation
Indices: 60380090--60380303 Score: 254
Period size: 47 Copynumber: 4.7 Consensus size: 48
60380080 GTTACATGTT
*
60380090 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATACATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* *
60380137 TAACCATGGCATATCCACTTAGCACCACGTTACATG--------T-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* *
60380175 TAACTGTGGTATATCCACTTAGCACCACATTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
60380222 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
*
60380270 TAATCGTGGTATATCCACTTAGCACCACGTTACA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACA
60380304 CGTATAACCG
Statistics
Matches: 141, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
37 3 0.02
38 28 0.20
39 1 0.01
45 1 0.01
46 1 0.01
47 60 0.43
48 47 0.33
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:60380284 original size:48 final size:48
Alignment explanation
Indices: 60380175--60380308 Score: 200
Period size: 48 Copynumber: 2.8 Consensus size: 48
60380165 GTTACATGTT
* *
60380175 TAACTGTGGTATATCCACTTAGCACCACATTA-ATGAATCAATATATG
1 TAACTGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
60380222 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACTGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
*
60380270 TAA-TCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 TAACT-GTGGTATATCCACTTAGCACCACGTTACATGTAT
60380309 AACCGTGGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
47 31 0.39
48 48 0.61
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (48 bp):
TAACTGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:60380294 original size:133 final size:132
Alignment explanation
Indices: 60380090--60380335 Score: 384
Period size: 133 Copynumber: 1.9 Consensus size: 132
60380080 GTTACATGTT
*
60380090 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATACATGTAACCATGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATACATGTAACCATGGCATATCCAC
* * *
60380155 TTAGCACCACGTTACATGTTTAACTGTGGTATATCCACTTAGCACCACATTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATA
60380220 TG
131 TG
* * ** * * *
60380222 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATACATGTAACCATGGCATATCCA
60380287 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCAC
65 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCAC
60380336 GTTTTTTTTC
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
132 30 0.29
133 72 0.71
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATACATGTAACCATGGCATATCCAC
TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATA
TG
Found at i:60383064 original size:15 final size:15
Alignment explanation
Indices: 60383041--60383082 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
60383031 GAAGCCCAGA
60383041 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
60383056 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
60383071 ATAAGGAAATCC
1 ATAAGGAAATCC
60383083 CATTTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:60384152 original size:25 final size:25
Alignment explanation
Indices: 60384116--60384163 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
60384106 TATATGTTAT
*
60384116 AAGTGTCTAATTGTCATGAAATTAG
1 AAGTGTCAAATTGTCATGAAATTAG
60384141 AAGTGTCAAATTGTCATGAAATT
1 AAGTGTCAAATTGTCATGAAATT
60384164 TTAAATAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (25 bp):
AAGTGTCAAATTGTCATGAAATTAG
Found at i:60389623 original size:42 final size:42
Alignment explanation
Indices: 60389577--60389710 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
60389567 TGGCCCTTAT
*
60389577 GCCCATTTCAATATCACATGTAATGTCAAT-AGTTGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGA-ATGTATGCAA
60389619 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
60389661 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
60389703 GCCCATTT
1 GCCCATTT
60389711 GGGGAGACTA
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
42 89 0.99
43 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:60390732 original size:27 final size:27
Alignment explanation
Indices: 60390702--60390766 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
60390692 GGGCATATTC
60390702 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
60390729 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
60390756 GTCTTTTTACC
1 GTCATTTTACC
60390767 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:60390850 original size:27 final size:27
Alignment explanation
Indices: 60390820--60391061 Score: 132
Period size: 27 Copynumber: 8.9 Consensus size: 27
60390810 GTAAATCTAC
*
60390820 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * * *
60390847 AAACTAATGGTATTTCTA-TGATTTTTAG
1 AAACCAAGGGTATTTC-AGT-AATTTTAT
* *
60390875 AAAGTCAAGGGTATTTCTA-TAATTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
* * * ** *
60390903 AAATCAGGGGTGTTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** * *
60390930 AAATTAAGGGTATTTCAGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
60390957 AAACC-AGTGGTATTTCGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTAT
* * **
60390984 AAACTAGGGGTATTTTGGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* ** *
60391011 AAACTAAGGGTATTTTGGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
60391038 CCTA-CATGGGTATTTCAGTAATTT
1 -AAACCAAGGGTATTTCAGTAATTT
60391062 CACAATCGAG
Statistics
Matches: 168, Mismatches: 40, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
26 2 0.01
27 134 0.80
28 19 0.11
29 13 0.08
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:60390953 original size:54 final size:54
Alignment explanation
Indices: 60390798--60391061 Score: 196
Period size: 54 Copynumber: 4.9 Consensus size: 54
60390788 TTCATCCTAC
* * * *
60390798 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAACT
* * * * * *
60390852 AATGGTATTTCT-ATGATTTTTAGAAAGTCAAGGGTATTTCTA-TAATTTTGTAAA-T
1 AAGGGTATTT-TGGT-AATTTTACAAA-CCAAGGGTATTTC-AGTAATTTTATAAACT
* * ** * *
60390907 CAGGGGTGTTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAAC-
1 -AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAACT
* * * * **
60390961 CAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAACT
* ** *
60391016 AAGGGTATTTTGGTAATTCTATCCTA-CATGGGTATTTCAGTAATTT
1 AAGGGTATTTTGGTAATTTTA-CAAACCAAGGGTATTTCAGTAATTT
60391062 CACAATCGAG
Statistics
Matches: 162, Mismatches: 37, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
53 2 0.01
54 104 0.64
55 23 0.14
56 32 0.20
57 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTATAAACT
Found at i:60391050 original size:81 final size:81
Alignment explanation
Indices: 60390908--60391102 Score: 191
Period size: 81 Copynumber: 2.4 Consensus size: 81
60390898 TTTGTAAATC
* * *
60390908 AGGGGTGTTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTC
1 AGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTC
* * *
60390973 GGTAATTTTACAAACT
66 AGTAATTTCACAAACG
** **
60390989 AGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTGGTAA-TTCTATCCTA-CA-TGGGTAT
1 AGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTCAGTAATTTC-A-CAAACCAGT-GGTAT
*
60391051 TTCAGTAATTTCACAATCG
63 TTCAGTAATTTCACAAACG
*** * *
60391070 A-GGGTAAAATGGTAATTTTTTAAACTGAGGGTA
1 AGGGGTATTTTGGTAATTTTATAAACTAAGGGTA
60391103 AAATGGTAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
80 31 0.33
81 62 0.65
82 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTC
AGTAATTTCACAAACG
Found at i:60391102 original size:27 final size:27
Alignment explanation
Indices: 60391065--60391262 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
60391055 GTAATTTCAC
* *
60391065 AATCGAGGGTAAAATGGTAATTTTTTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
60391092 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTATA
*
60391119 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
60391146 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
60391173 AATCAAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
60391200 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
60391227 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
60391254 AATCGAGGG
1 AATCGAGGG
60391263 CATTTTAGTA
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:60391182 original size:81 final size:81
Alignment explanation
Indices: 60391065--60391262 Score: 317
Period size: 81 Copynumber: 2.4 Consensus size: 81
60391055 GTAATTTCAC
* * *
60391065 AATCGAGGGTAAAATGGTAATTTTTTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATAGTAATTTTGTAAATCGAGGGT
60391129 AAAACGGTAATTCTATA
65 AAAACGGTAATTCTATA
* *
60391146 AATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
60391211 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
* *
60391227 AATCAAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
60391263 CATTTTAGTA
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
81 107 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:60394167 original size:38 final size:40
Alignment explanation
Indices: 60394116--60394371 Score: 166
Period size: 38 Copynumber: 6.0 Consensus size: 40
60394106 TTTCAAATTA
60394116 ACATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
* *
60394154 ACATGT-T-TAACCGTGGTATATCCACTTAGCACCACATT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
60394192 A-ATGAATCAACACATGTAACCGTGGCATATCCACTTAGCACCACGTTAAT
1 ACATG--T------ATGTAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
60394242 GAATCAATATATGTAATCGTGGCATATCCACTTAGCACCATGTT
1 --A-C-ATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
* * *
60394286 ACATGTATCAATATGTGTAATCGTGGTATATCTACTTAGCACCACGTT
1 ACATG------TA--TGTAACCGTGGCATATCCACTTAGCACCACGTT
* *
60394334 ACACGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
60394372 TTTTTCATTC
Statistics
Matches: 177, Mismatches: 14, Indels: 54
0.72 0.06 0.22
Matches are distributed among these distances:
37 3 0.02
38 65 0.37
39 1 0.01
40 2 0.01
41 1 0.01
42 3 0.02
44 1 0.01
46 4 0.02
47 57 0.32
48 35 0.20
50 1 0.01
52 1 0.01
53 1 0.01
55 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (40 bp):
ACATGTATGTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:60394336 original size:48 final size:47
Alignment explanation
Indices: 60394161--60394334 Score: 240
Period size: 47 Copynumber: 3.7 Consensus size: 47
60394151 GTTACATGTT
* * * *
60394161 TAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAACACATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
60394208 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
60394255 TAATCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* * *
60394303 TAATCGTGGTATATCTACTTAGCACCACGTTA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA
60394335 CACGTATAAC
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
47 73 0.63
48 42 0.37
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (47 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:60397755 original size:46 final size:46
Alignment explanation
Indices: 60397703--60398113 Score: 556
Period size: 46 Copynumber: 9.0 Consensus size: 46
60397693 GCTCTCTGAA
* *
60397703 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
60397749 ATGAAATGTGTAAGACCATGGTTGAAAGATTCCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
60397795 ATGAAATGTGTAAGACCATGGTTGAAATATTCCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
60397841 ATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
60397887 ATGAAA-GAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
60397932 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
60397978 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
60398024 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
60398070 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
60398114 TCAAAGATAA
Statistics
Matches: 334, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 40 0.12
46 294 0.88
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:60398021 original size:183 final size:184
Alignment explanation
Indices: 60397713--60398113 Score: 545
Period size: 183 Copynumber: 2.2 Consensus size: 184
60397703 ATGAAATGTG
* * **
60397713 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGA
* * * ** * * *
60397778 TTCCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAATATTCCATGGCAACATGATAT
66 TACCATGGCAACATGACATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
* ** * * *
60397843 GAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAGCGTGACATG-AAA-GAA
131 GAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
60397896 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGA
* *
60397961 TACCATGGCAGCGTGACATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
66 TACCATGGCAACATGACATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
* *
60398026 GAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAG
131 GAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * * *
60398080 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
60398114 TCAAAGATAA
Statistics
Matches: 190, Mismatches: 26, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
182 1 0.01
183 157 0.83
184 32 0.17
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (184 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
GAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:60400295 original size:26 final size:26
Alignment explanation
Indices: 60400266--60400347 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
60400256 TGATACAAAT
*
60400266 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60400292 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60400318 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60400344 TGAT
1 TGAT
60400348 TGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60412595 original size:10 final size:10
Alignment explanation
Indices: 60412582--60412616 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
60412572 AAGCTTGGTT
60412582 GAGCTCAAAC
1 GAGCTCAAAC
*
60412592 GAGCTGAAAC
1 GAGCTCAAAC
*
60412602 GAGCTCAAAT
1 GAGCTCAAAC
60412612 GAGCT
1 GAGCT
60412617 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:60412625 original size:20 final size:20
Alignment explanation
Indices: 60412579--60412626 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
60412569 AGTAAGCTTG
60412579 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
60412599 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
60412619 GTTGAGCT
1 GTTGAGCT
60412627 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:60425063 original size:27 final size:27
Alignment explanation
Indices: 60425006--60425065 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
60424996 ATACATCTCA
* *
60425006 TAGGGGCATATCAGTCATTTTACCATG
1 TAGGGGCATATCAATCATTTTACAATG
*
60425033 TAGGGGCATTTCAATCATTTTATCAAT-
1 TAGGGGCATATCAATCATTTTA-CAATG
60425060 TAGGGG
1 TAGGGG
60425066 GTCTAGGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.90
28 3 0.10
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (27 bp):
TAGGGGCATATCAATCATTTTACAATG
Found at i:60425193 original size:17 final size:17
Alignment explanation
Indices: 60425171--60425203 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60425161 CCATTTTGTG
*
60425171 GCCCATGTGGGCCACAC
1 GCCCATGTGGCCCACAC
60425188 GCCCATGTGGCCCACA
1 GCCCATGTGGCCCACA
60425204 AAGCCCATAG
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:0.18, C:0.42, G:0.27, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:60427083 original size:44 final size:42
Alignment explanation
Indices: 60426991--60427096 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 42
60426981 GATGCCCTTA
* *
60426991 TCCCAGACAGGGTCTTACACAAAATCAAATACGATGTCAATC
1 TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAATC
* *
60427033 TCCCAGACATGGTCTTACACATAAATCACAGGT-CGATGCCAATG
1 TCCCAGACATGGTCTTACACA-AAATCA-A-ATACGATGCCAATC
*
60427077 TCCCAGACGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
60427097 GAAAGCACAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 20 0.36
43 6 0.11
44 29 0.52
45 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAATC
Found at i:60438705 original size:57 final size:57
Alignment explanation
Indices: 60438579--60438731 Score: 161
Period size: 57 Copynumber: 2.7 Consensus size: 57
60438569 CCACATATCA
* * *
60438579 TATAACAGGATTACTTGTCCAAGCTAAATCCTAT-TTTCAACATATGCTTACAAGAGCT
1 TATATCAGGATTACTAGTCCAAGCTAAATCCTATCTGT--ACATATGCTTACAAGAGCT
* * * *
60438637 TA-ATCAAGATTACTCGTCTAGGCTAAATCCTATCTGTACATATG-TT-CAAGAGGGCT
1 TATATCAGGATTACTAGTCCAAGCTAAATCCTATCTGTACATATGCTTACAAGA--GCT
* *
60438693 TATATCAGGATTACTAGTCCAAGCTAAATCTTTTCTGTA
1 TATATCAGGATTACTAGTCCAAGCTAAATCCTATCTGTA
60438732 ATGAGGTCAA
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
54 5 0.06
55 2 0.03
56 12 0.15
57 56 0.71
58 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (57 bp):
TATATCAGGATTACTAGTCCAAGCTAAATCCTATCTGTACATATGCTTACAAGAGCT
Found at i:60438961 original size:7 final size:7
Alignment explanation
Indices: 60438949--60438975 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
60438939 AAGTAACATT
60438949 TTTATCA
1 TTTATCA
60438956 TTTATCA
1 TTTATCA
60438963 TTTATCA
1 TTTATCA
60438970 TTTATC
1 TTTATC
60438976 GAGCATTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:60440175 original size:8 final size:8
Alignment explanation
Indices: 60440162--60440187 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
60440152 AAAAATTCAG
60440162 AATAATAA
1 AATAATAA
60440170 AATAATAA
1 AATAATAA
60440178 AATAATAA
1 AATAATAA
60440186 AA
1 AA
60440188 GCCTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:60450045 original size:15 final size:15
Alignment explanation
Indices: 60450027--60450055 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
60450017 AAAAAAAAGG
60450027 AAAAAAAAATTGCAA
1 AAAAAAAAATTGCAA
60450042 AAAAAAAAATTGCA
1 AAAAAAAAATTGCA
60450056 TACGGTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
AAAAAAAAATTGCAA
Done.