Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 210 of 433
Found at i:65789092 original size:30 final size:31
Alignment explanation
Indices: 65789058--65789139 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
65789048 TTTGAAAAGT
*
65789058 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
65789088 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
65789118 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
65789140 TAAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:65790576 original size:30 final size:30
Alignment explanation
Indices: 65790542--65790638 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65790532 AGCTCACTCC
65790542 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
65790572 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
65790602 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
65790632 TAGCTCA
1 TAGCTCA
65790639 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:65793063 original size:30 final size:31
Alignment explanation
Indices: 65793029--65793125 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65793019 AGCTCACTCC
*
65793029 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
65793059 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
65793089 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
65793119 TAGCTCA
1 TAGCTCA
65793126 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:65794015 original size:22 final size:20
Alignment explanation
Indices: 65793983--65794031 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
65793973 GCCAAATTTA
65793983 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
65794006 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
65794026 TGAACA
1 TGAACA
65794032 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:65795635 original size:21 final size:20
Alignment explanation
Indices: 65795601--65795666 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
65795591 ACATTTTTGT
65795601 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
65795622 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
*
65795643 AAAGAAAACAAAATAAAAAGAA
1 AAAGAAAA-ACAA-AAAAAGAA
65795665 AA
1 AA
65795667 GAGAGGCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 20 0.53
22 10 0.26
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:65795636 original size:6 final size:5
Alignment explanation
Indices: 65795612--65795668 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
65795602 AAGAGAAAAC
* * *
65795612 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACA AAATAA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AAA-GA
65795659 AAAGA AAAGA
1 AAAGA AAAGA
65795669 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 26 0.60
6 14 0.33
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:65795661 original size:25 final size:25
Alignment explanation
Indices: 65795616--65795664 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
65795606 GAAAACAAAG
*
65795616 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAACAAAAA-CAAAAGAAGA
65795642 AAAAGAAAACAAAATA-AAAAGAA
1 AAAAGAAAACAAAA-ACAAAAGAA
65795665 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAGAAAACAAAAACAAAAGAAGA
Found at i:65795747 original size:11 final size:12
Alignment explanation
Indices: 65795716--65795746 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65795706 TTGAGAGAAC
65795716 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65795728 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65795740 TTGAAAA
1 TTGAAAA
65795747 GAAAAAAGAA
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:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:65795757 original size:12 final size:12
Alignment explanation
Indices: 65795749--65795773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65795739 TTTGAAAAGA
65795749 AAAAAGAAAATG
1 AAAAAGAAAATG
65795761 AAAAAGAAAATG
1 AAAAAGAAAATG
65795773 A
1 A
65795774 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:65795783 original size:30 final size:31
Alignment explanation
Indices: 65795749--65795830 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
65795739 TTTGAAAAGA
*
65795749 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
65795779 AAAAAGAGAACG-AAAAGAAATCTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
65795809 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
65795831 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:65797752 original size:12 final size:12
Alignment explanation
Indices: 65797737--65797770 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65797727 CTTGAAAGAG
*
65797737 ATTGAGAAAGTC
1 ATTGAAAAAGTC
65797749 ATTGAAAAAGTC
1 ATTGAAAAAGTC
*
65797761 GTTGAAAAAG
1 ATTGAAAAAG
65797771 AAAAAGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.24
Consensus pattern (12 bp):
ATTGAAAAAGTC
Found at i:65797902 original size:30 final size:28
Alignment explanation
Indices: 65797866--65797921 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
65797856 AAGCAAAAAA
* *
65797866 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
65797896 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
65797922 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:65801252 original size:29 final size:29
Alignment explanation
Indices: 65801186--65801242 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
65801176 GATTCAAAGA
*
65801186 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
65801215 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
65801243 GTTTGGTTAT
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:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:65802257 original size:14 final size:14
Alignment explanation
Indices: 65802215--65802259 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
65802205 TTAAAGAAGC
65802215 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
65802229 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
65802242 AACTCATTTAATTA
1 AACTCATTAAATTA
65802256 AACT
1 AACT
65802260 AAGATGAGTT
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:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65802758 original size:29 final size:29
Alignment explanation
Indices: 65802725--65802784 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65802715 ATAACCAAAC
*
65802725 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
65802754 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
65802783 CT
1 CT
65802785 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:65802777 original size:15 final size:15
Alignment explanation
Indices: 65802731--65802778 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65802721 AAACCTACAA
*
65802731 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
65802746 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
65802760 AAACTTCATATCCAT
1 AAACTTCATATCCAT
65802775 AAAC
1 AAAC
65802779 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:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:65803426 original size:30 final size:30
Alignment explanation
Indices: 65803351--65803428 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
65803341 TAAGCTAAGC
* *
65803351 TTTAGCTCGTGAGCTAAAGTTGAGCTGAGG
1 TTTAGCTCGTGAGCTGAAGTTGACCTGAGG
* * * * *
65803381 CTAAACTCCTAAGCTGAAGTTGACCTGAGG
1 TTTAGCTCGTGAGCTGAAGTTGACCTGAGG
65803411 TTTAGCTCGTGAGCTGAA
1 TTTAGCTCGTGAGCTGAA
65803429 TATGAGCTAG
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (30 bp):
TTTAGCTCGTGAGCTGAAGTTGACCTGAGG
Found at i:65805579 original size:30 final size:30
Alignment explanation
Indices: 65805509--65805590 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
65805499 TTTTGTTTCA
* *
65805509 ATTTCTTTTTCATCTTCTTTTTCACTCTCAG
1 ATTTCTTTTTCTTC-TCTTTTTCAATCTCAG
65805540 ATTTC-TTTTCGTTCTCTTTTTCAATCTCA-
1 ATTTCTTTTTC-TTCTCTTTTTCAATCTCAG
* *
65805569 TTTTCTTTTTCATTTTCTTTTT
1 ATTTCTTTTTC-TTCTCTTTTT
65805591 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.09
30 33 0.75
31 7 0.16
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (30 bp):
ATTTCTTTTTCTTCTCTTTTTCAATCTCAG
Found at i:65805590 original size:18 final size:18
Alignment explanation
Indices: 65805541--65805596 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
65805531 CACTCTCAGA
* *
65805541 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
65805558 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
65805576 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
65805595 TT
1 TT
65805597 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:65805597 original size:12 final size:12
Alignment explanation
Indices: 65805566--65805590 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65805556 TTTTTCAATC
65805566 TCATTTTCTTTT
1 TCATTTTCTTTT
65805578 TCATTTTCTTTT
1 TCATTTTCTTTT
65805590 T
1 T
65805591 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:65805669 original size:5 final size:5
Alignment explanation
Indices: 65805659--65805715 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65805649 CTCTTGCCTC
*
65805659 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
65805706 TCTTT TCTTT
1 TCTTT TCTTT
65805716 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:65805699 original size:15 final size:14
Alignment explanation
Indices: 65805659--65805715 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65805649 CTCTTGCCTC
*
65805659 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
65805674 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
65805689 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
65805706 TCTTTTCTTT
1 TCTTTTCTTT
65805716 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:65805716 original size:21 final size:21
Alignment explanation
Indices: 65805659--65805726 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
65805649 CTCTTGCCTC
* *
65805659 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
65805680 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
65805701 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
65805721 CTCTTT
1 -TCTTT
65805727 ACAAAAATGT
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:65808191 original size:20 final size:20
Alignment explanation
Indices: 65808145--65808192 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
65808135 AGTAAGCTCG
65808145 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** * *
65808165 AACGAGCTTAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
65808185 GTTGAGCT
1 GTTGAGCT
65808193 GGACAGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:65808221 original size:20 final size:20
Alignment explanation
Indices: 65808174--65808222 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
65808164 AAACGAGCTT
65808174 AAATGAGCTGAGTTGAGCTGG
1 AAATGAGCTGAG-TGAGCTGG
*
65808195 ACA-GAGCTCGAG-GAGCTGG
1 AAATGAGCT-GAGTGAGCTGG
65808214 AAATGAGCT
1 AAATGAGCT
65808223 AGGATCAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.37, T:0.18
Consensus pattern (20 bp):
AAATGAGCTGAGTGAGCTGG
Found at i:65809803 original size:18 final size:19
Alignment explanation
Indices: 65809780--65809818 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
65809770 TTTATCTCAA
*
65809780 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
65809798 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
65809817 TT
1 TT
65809819 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:65809857 original size:18 final size:18
Alignment explanation
Indices: 65809836--65809882 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
65809826 AAACTCTTTT
65809836 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
65809854 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
65809872 TCA-TCTCTTTT
1 TCATTCTCTTTT
65809883 CTTTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:65809900 original size:20 final size:21
Alignment explanation
Indices: 65809851--65809901 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
65809841 CTCTTTTTCA
65809851 ATCTCATTTTCTTTTTCACTCTC
1 ATCTC-TTTTCTTTTT-ACTCTC
*
65809874 ATCTCTTTTCTTTTT-CTTTC
1 ATCTCTTTTCTTTTTACTCTC
*
65809894 ATTTCTTT
1 ATCTCTTT
65809902 GTTTCTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
22 10 0.38
23 5 0.19
ACGTcount: A:0.10, C:0.25, G:0.00, T:0.65
Consensus pattern (21 bp):
ATCTCTTTTCTTTTTACTCTC
Found at i:65809944 original size:42 final size:42
Alignment explanation
Indices: 65809887--65809983 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
65809877 TCTTTTCTTT
* * *
65809887 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
65809928 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
65809970 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
65809984 CTCATAATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 7 0.14
42 44 0.86
ACGTcount: A:0.14, C:0.24, G:0.05, T:0.57
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:65809961 original size:21 final size:21
Alignment explanation
Indices: 65809894--65809961 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
65809884 TTTTTCTTTC
*
65809894 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
* *****
65809915 ATTTCATTCAAGATTCTCTC-
1 ATTTCTTTGTTTCTTCTCTCG
65809935 ATTTTCTTTGTTTCTTCTCTCG
1 A-TTTCTTTGTTTCTTCTCTCG
65809957 ATTTC
1 ATTTC
65809962 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.12, C:0.22, G:0.07, T:0.59
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCG
Found at i:65812413 original size:19 final size:19
Alignment explanation
Indices: 65812369--65812414 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
65812359 AGTAAGCTCG
65812369 GTTGAGCTAAACGAGCTGA
1 GTTGAGCTAAACGAGCTGA
*** *
65812388 AACGAGCTAAATGAGCTGA
1 GTTGAGCTAAACGAGCTGA
65812407 GTTGAGCT
1 GTTGAGCT
65812415 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (19 bp):
GTTGAGCTAAACGAGCTGA
Found at i:65814069 original size:12 final size:12
Alignment explanation
Indices: 65814052--65814108 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
65814042 CTCTCTCAAA
65814052 CTCTTTTTCATT
1 CTCTTTTTCATT
*
65814064 CTCTTTTTCAAT
1 CTCTTTTTCATT
* *
65814076 CTCATTTTCTTT
1 CTCTTTTTCATT
* ** *
65814088 TTCACTCTCATT
1 CTCTTTTTCATT
65814100 CTCTTTTTC
1 CTCTTTTTC
65814109 TTTTTCTTTC
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.11, C:0.28, G:0.00, T:0.61
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:65814080 original size:18 final size:18
Alignment explanation
Indices: 65814059--65814108 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
65814049 AAACTCTTTT
65814059 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
65814077 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
65814095 TCATTCTCTTTTTC
1 TCATTCTCTTTTTC
65814109 TTTTTCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:65814143 original size:21 final size:21
Alignment explanation
Indices: 65814119--65814186 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
65814109 TTTTTCTTTC
*
65814119 ATTTCTTTGTTTCTTTTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
* *****
65814140 ATTTCATTCAAGATTCTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
*
65814161 TTTTCTTTGTTTCTTCTCTCG
1 ATTTCTTTGTTTCTTCTCTCG
65814182 ATTTC
1 ATTTC
65814187 ATTCAAAATC
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.10, C:0.22, G:0.09, T:0.59
Consensus pattern (21 bp):
ATTTCTTTGTTTCTTCTCTCG
Found at i:65814207 original size:42 final size:42
Alignment explanation
Indices: 65814120--65814208 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
65814110 TTTTCTTTCA
* * * *
65814120 TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGATTCTCTCGT
1 TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
*
65814162 TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTTAT
1 TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
65814204 TTTCT
1 TTTCT
65814209 CTCATAATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.13, C:0.22, G:0.07, T:0.57
Consensus pattern (42 bp):
TTTCTTTGTTTCTTCTCTCGATTTCATTCAAAATCCTCTCAT
Found at i:65814810 original size:30 final size:30
Alignment explanation
Indices: 65814776--65814876 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 30
65814766 AGCTCACTCC
*
65814776 TAGCTCATTTTCAACTCACGAGCTAAACCT
1 TAGCTCATTTTCAGCTCACGAGCTAAACCT
** * * * * *
65814806 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCATTTTCAGCTCACGAGCTAAACCT
* * *
65814836 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTC-ATTTTCAGCTCACGAGCTAAACCT
65814866 TAGCTCATTTT
1 TAGCTCATTTT
65814877 AGTTTAAACT
Statistics
Matches: 51, Mismatches: 19, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
29 4 0.08
30 44 0.86
31 3 0.06
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
TAGCTCATTTTCAGCTCACGAGCTAAACCT
Found at i:65822083 original size:20 final size:20
Alignment explanation
Indices: 65822037--65822084 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
65822027 AGTAAGCTCG
65822037 GTTGAGCTCAAACCAGCTGA
1 GTTGAGCTCAAACCAGCTGA
*** **
65822057 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACCAGCTGA
65822077 GTTGAGCT
1 GTTGAGCT
65822085 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACCAGCTGA
Found at i:65822904 original size:22 final size:21
Alignment explanation
Indices: 65822871--65822912 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
65822861 TCAAACCTAC
65822871 ACAAGCATGCAAAATTTACACA
1 ACAAGCATGCAAAA-TTACACA
*
65822893 ACAAGGCA-GCAACATTACAC
1 ACAA-GCATGCAAAATTACAC
65822913 CACCATCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 9 0.50
23 3 0.17
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (21 bp):
ACAAGCATGCAAAATTACACA
Found at i:65826769 original size:30 final size:30
Alignment explanation
Indices: 65826735--65826831 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
65826725 AGCTCACTCC
65826735 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
65826765 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
65826795 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
65826825 TAGCTCA
1 TAGCTCA
65826832 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:65829353 original size:5 final size:5
Alignment explanation
Indices: 65829332--65829393 Score: 81
Period size: 5 Copynumber: 12.0 Consensus size: 5
65829322 ACATTCTTAT
*
65829332 AAAGA AAAAA CAAAGA AAAGA AAAGA AAAGA AAAGAA AAAGA AAAGA AATA-A
1 AAAGA AAAGA -AAAGA AAAGA AAAGA AAAGA AAAG-A AAAGA AAAGA AA-AGA
65829384 AAAGA AAAGA
1 AAAGA AAAGA
65829394 GAGGCAAGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
4 1 0.02
5 40 0.78
6 10 0.20
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:65829361 original size:15 final size:15
Alignment explanation
Indices: 65829332--65829393 Score: 81
Period size: 16 Copynumber: 4.0 Consensus size: 15
65829322 ACATTCTTAT
*
65829332 AAAGAAAAAACAAAGA
1 AAAGAAAAGA-AAAGA
65829348 AAAGAAAAGAAAAGA
1 AAAGAAAAGAAAAGA
65829363 AAAGAAAAAGAAAAGA
1 AAAG-AAAAGAAAAGA
65829379 AATA-AAAAGAAAAGA
1 AA-AGAAAAGAAAAGA
65829394 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
15 20 0.47
16 22 0.51
17 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAAGA
Found at i:65829372 original size:26 final size:27
Alignment explanation
Indices: 65829332--65829393 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
65829322 ACATTCTTAT
65829332 AAAGAAAA-AACAAAGAAAAGAAA-AGA
1 AAAGAAAAGAACAAAGAAAAGAAATA-A
65829358 AAAGAAAAGAA-AAAGAAAAGAAATAA
1 AAAGAAAAGAACAAAGAAAAGAAATAA
65829384 AAAGAAAAGA
1 AAAGAAAAGA
65829394 GAGGCAAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 31 0.91
27 3 0.09
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (27 bp):
AAAGAAAAGAACAAAGAAAAGAAATAA
Found at i:65829494 original size:24 final size:24
Alignment explanation
Indices: 65829467--65829529 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
65829457 AAAACAAAAA
*
65829467 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAAGGAGATT
* * *
65829491 GAAAAAGAGAATGAAAAGGAGTTT
1 GAAAAAGAAAAAGAAAAGGAGATT
* *
65829515 GAGAGAGAAAAAGAA
1 GAAAAAGAAAAAGAA
65829530 TGTGAACAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.27, T:0.11
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAAGGAGATT
Found at i:65831091 original size:286 final size:286
Alignment explanation
Indices: 65830573--65831144 Score: 1036
Period size: 286 Copynumber: 2.0 Consensus size: 286
65830563 TAAGCACTTT
* *
65830573 TGATGAGATCCGGCCCGGGTAGATGAGTCAAATTCACGTAGTTGCCCGATCGTAGTTCGAGAGAG
1 TGATGAGATCCGGCCCGGGTAGATGAATCAAATTCACATAGTTGCCCGATCGTAGTTCGAGAGAG
65830638 TCATTCGTGCCTCGAATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
66 TCATTCGTGCCTCGAATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
*
65830703 AGAAGGGTAAGTTTAGTAATAGGTTCGGTTATGTGTAGAAAAGATGGGTGATGGATAAATGGGTC
131 AGAAGGGTAAGTTTAGTAATAGGTTCGGTTATGTGTAGAAAAGATAGGTGATGGATAAATGGGTC
*
65830768 GGTTTGGTTACAAGAAGGAAAGTTGAAAGATGGGGGATAGAAAAATGAACTCAACGTCAAGAATG
196 GGTTTGGTTACAAGAAGGAAAGTTGAAAGATGGGGGATAGAAAAACGAACTCAACGTCAAGAATG
65830833 ATTCAACACTAAGAAGTGTCACCCCG
261 ATTCAACACTAAGAAGTGTCACCCCG
* *
65830859 TGATGTGATCCGGCCCGGGTAGATGAATCGAATTCACATAGTTGCCCGATCGTAGTTCGAGAGAG
1 TGATGAGATCCGGCCCGGGTAGATGAATCAAATTCACATAGTTGCCCGATCGTAGTTCGAGAGAG
*
65830924 TCATTCGTGCCTCGGATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
66 TCATTCGTGCCTCGAATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
*
65830989 AGAAGGGTAAGTTTAGTAATAGGTTCGGTTATGTGTAGCAAAGATAGGTGATGGATAAATGGGTC
131 AGAAGGGTAAGTTTAGTAATAGGTTCGGTTATGTGTAGAAAAGATAGGTGATGGATAAATGGGTC
* * * *
65831054 GGTTTGGTTACAAGTAGGAAAGTTGAAAGATGGGGGATGGAAAAACGAACTCAATGTCAGGAATG
196 GGTTTGGTTACAAGAAGGAAAGTTGAAAGATGGGGGATAGAAAAACGAACTCAACGTCAAGAATG
65831119 ATTCAACACTAAGAAGTGTCACCCCG
261 ATTCAACACTAAGAAGTGTCACCCCG
65831145 GTTCCTATAT
Statistics
Matches: 274, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
286 274 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (286 bp):
TGATGAGATCCGGCCCGGGTAGATGAATCAAATTCACATAGTTGCCCGATCGTAGTTCGAGAGAG
TCATTCGTGCCTCGAATTTTAGTAATAAAAGTAAAATAATGGATTAGAATAAGCGGAAGGTTTCA
AGAAGGGTAAGTTTAGTAATAGGTTCGGTTATGTGTAGAAAAGATAGGTGATGGATAAATGGGTC
GGTTTGGTTACAAGAAGGAAAGTTGAAAGATGGGGGATAGAAAAACGAACTCAACGTCAAGAATG
ATTCAACACTAAGAAGTGTCACCCCG
Found at i:65832254 original size:20 final size:20
Alignment explanation
Indices: 65832208--65832255 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
65832198 AGTAAGCTCG
65832208 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** * *
65832228 AACGAGCTTAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
65832248 GTTGAGCT
1 GTTGAGCT
65832256 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:65833520 original size:11 final size:12
Alignment explanation
Indices: 65833488--65833520 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65833478 GAGCTGTAGC
65833488 AAACTTAATTAT
1 AAACTTAATTAT
*
65833500 AAACTGAATTA-
1 AAACTTAATTAT
65833511 AAACTTAATT
1 AAACTTAATT
65833521 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:65833554 original size:10 final size:10
Alignment explanation
Indices: 65833541--65833586 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
65833531 AAAAAGAAAT
65833541 GAGCTGAATC
1 GAGCTGAATC
65833551 GAGCTGAATTC
1 GAGCTGAA-TC
* * *
65833562 TAGCTCAAAC
1 GAGCTGAATC
65833572 GAGCTGAATC
1 GAGCTGAATC
65833582 GAGCT
1 GAGCT
65833587 CAAGTGAGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (10 bp):
GAGCTGAATC
Found at i:65833588 original size:20 final size:21
Alignment explanation
Indices: 65833541--65833598 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
65833531 AAAAAGAAAT
* *
65833541 GAGCTGAATCGAGCTGAATTC
1 GAGCTCAAACGAGCTGAATTC
*
65833562 TAGCTCAAACGAGCTGAA-TC
1 GAGCTCAAACGAGCTGAATTC
**
65833582 GAGCTCAAGTGAGCTGA
1 GAGCTCAAACGAGCTGA
65833599 TGGGAGCTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (21 bp):
GAGCTCAAACGAGCTGAATTC
Found at i:65834958 original size:30 final size:30
Alignment explanation
Indices: 65834863--65834959 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65834853 AGCTCACTCC
* * *
65834863 TAGCTC-ACTTTCAACTCATGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
65834893 TAGCTCAATTTTAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
65834923 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
65834953 TAGCTCA
1 TAGCTCA
65834960 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.82
31 7 0.14
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:65839234 original size:29 final size:29
Alignment explanation
Indices: 65839188--65839244 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
65839178 TTGAGAGAAA
*
65839188 AAGAAAAGAAAAGTGAGA-AAAAGAAAAC
1 AAGAAAAGAAAAGAGAGAGAAAAGAAAAC
* *
65839216 AAGAATAGCAAAAGAGAGAGAAAATAAAA
1 AAGAAAAG-AAAAGAGAGAGAAAAGAAAA
65839245 TGAGAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.29
29 9 0.38
30 8 0.33
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.05
Consensus pattern (29 bp):
AAGAAAAGAAAAGAGAGAGAAAAGAAAAC
Found at i:65841676 original size:30 final size:30
Alignment explanation
Indices: 65841642--65841718 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
65841632 TAAACTAAAA
*
65841642 TGAGCTAAGCTTTAGCTCATGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCATAAGCTAAAGT
* * * * *
65841672 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCATAAGCTAAAGT
65841702 TGAGCTAAG-TTTAGCTC
1 TGAGCTAAGCTTTAGCTC
65841719 GTGAATTGAA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
29 7 0.19
30 26 0.72
31 3 0.08
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCATAAGCTAAAGT
Found at i:65843822 original size:248 final size:248
Alignment explanation
Indices: 65843382--65843874 Score: 790
Period size: 248 Copynumber: 2.0 Consensus size: 248
65843372 AAAAAAGTTC
* * *
65843382 TTGTAACACCCCTTACCAATACCCGAGGCCGGGATAAGGTACGAGGTGTTACTGGACAAACATAC
1 TTGTAACACCCCTTACCAATACCCGACGCCGGGATAAGGTACGAGGTGCTACCGGACAAACATAC
*
65843447 AAACATTAAACTAAAATACGGGCCATAAAATTTCATTCATATTTCAAAACGTTCATTCACTTACA
66 AAACATTAAACTAAAATACGGGCCATAAAATTTCATTCATATTTCAAAACATTCATTCACTTACA
* * * * *
65843512 CTTAGTCCCTTATTTGAGTCTATGAAGCCCAAAACATACTTTAGAAAGTGTTCGGGACTAAACCG
131 CATAGTCCCTTATTTGAGTCTACGAAGCCCAAAACATACTTTAGAAAGGGTTCAGAACTAAACCG
* *
65843577 AGAACTTACAAAAATCTTGGAAATTTCATGCTTTAAGGCTCCACACGCCCGTG
196 AGAACTTAAAAAAATCTTGGAAATTTCATACTTTAAGGCTCCACACGCCCGTG
** *
65843630 TTGTAACACCCCTTACCCGTACCCGACGCTGGGATAAGGTACGAGGCT-CTACCGGACAAACATA
1 TTGTAACACCCCTTACCAATACCCGACGCCGGGATAAGGTACGAGG-TGCTACCGGACAAACATA
* *
65843694 CAAATATTAAACTAAAATACGGGCCATAAAATTTCATTCATATTTCAAAGCATTCATTCACTTAC
65 CAAACATTAAACTAAAATACGGGCCATAAAATTTCATTCATATTTCAAAACATTCATTCACTTAC
* * *
65843759 ACATAGTCCTTTATTTGAGTTTACGGAGCCCAAAACATACTTTAGAAAGGGTTCAGAACTAAACC
130 ACATAGTCCCTTATTTGAGTCTACGAAGCCCAAAACATACTTTAGAAAGGGTTCAGAACTAAACC
*
65843824 GAGAACTTAAAAAAATCTTGGAAATTTCATACTTTATGGCTCCACACGCCC
195 GAGAACTTAAAAAAATCTTGGAAATTTCATACTTTAAGGCTCCACACGCCC
65843875 ATGTCCCAAA
Statistics
Matches: 224, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
248 223 1.00
249 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (248 bp):
TTGTAACACCCCTTACCAATACCCGACGCCGGGATAAGGTACGAGGTGCTACCGGACAAACATAC
AAACATTAAACTAAAATACGGGCCATAAAATTTCATTCATATTTCAAAACATTCATTCACTTACA
CATAGTCCCTTATTTGAGTCTACGAAGCCCAAAACATACTTTAGAAAGGGTTCAGAACTAAACCG
AGAACTTAAAAAAATCTTGGAAATTTCATACTTTAAGGCTCCACACGCCCGTG
Found at i:65850732 original size:30 final size:30
Alignment explanation
Indices: 65850698--65850758 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65850688 TCCTTAACTC
65850698 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65850728 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65850758 A
1 A
65850759 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65853912 original size:106 final size:106
Alignment explanation
Indices: 65853786--65854007 Score: 435
Period size: 106 Copynumber: 2.1 Consensus size: 106
65853776 TCCCATGGCG
65853786 TTTTTGCTGAAGAAAAATGATGATATCTCTAGATTTTTCAAATTTGTCTTGTTTTTATATGTTTA
1 TTTTTGCTGAAGAAAAATGATGATATCTCTAGATTTTTCAAATTTGTCTTGTTTTTATATGTTTA
65853851 ATTTGCAAAATTTCCCATTTTGCCCTTGTTTCTCCTTGTCT
66 ATTTGCAAAATTTCCCATTTTGCCCTTGTTTCTCCTTGTCT
65853892 TTTTTGCTGAAGAAAAATGATGATATCTCTAGATTTTTCAAATTTGTCTTGTTTTTATATGTTTA
1 TTTTTGCTGAAGAAAAATGATGATATCTCTAGATTTTTCAAATTTGTCTTGTTTTTATATGTTTA
*
65853957 ATTTGTAAAATTTCCCATTTTGCCCTTGTTTCTCCTTGTCT
66 ATTTGCAAAATTTCCCATTTTGCCCTTGTTTCTCCTTGTCT
65853998 TTTTTGCTGA
1 TTTTTGCTGA
65854008 TTTTCTTGTC
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 115 1.00
ACGTcount: A:0.22, C:0.14, G:0.13, T:0.51
Consensus pattern (106 bp):
TTTTTGCTGAAGAAAAATGATGATATCTCTAGATTTTTCAAATTTGTCTTGTTTTTATATGTTTA
ATTTGCAAAATTTCCCATTTTGCCCTTGTTTCTCCTTGTCT
Found at i:65858351 original size:30 final size:30
Alignment explanation
Indices: 65858317--65858413 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
65858307 TAAACTAAAA
65858317 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65858347 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
65858377 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65858407 TGAGCTA
1 TGAGCTA
65858414 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:65860613 original size:12 final size:12
Alignment explanation
Indices: 65860598--65860628 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65860588 TTCTTTTTGC
65860598 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65860610 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65860622 TTTTCAA
1 TTTTCAA
65860629 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:65860686 original size:5 final size:5
Alignment explanation
Indices: 65860676--65860743 Score: 59
Period size: 5 Copynumber: 13.0 Consensus size: 5
65860666 CTCTTGCCTC
*
65860676 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
*
65860723 TCTTT TCTTT GTTTTT TCTTT
1 TCTTT TCTTT -TCTTT TCTTT
65860744 ACAAGAATGT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
4 4 0.08
5 33 0.63
6 10 0.19
7 5 0.10
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:65860716 original size:15 final size:14
Alignment explanation
Indices: 65860676--65860732 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65860666 CTCTTGCCTC
*
65860676 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
65860691 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
65860706 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
65860723 TCTTTTCTTT
1 TCTTTTCTTT
65860733 GTTTTTTCTT
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:65860733 original size:21 final size:21
Alignment explanation
Indices: 65860676--65860743 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
65860666 CTCTTGCCTC
* *
65860676 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
65860697 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
*
65860718 TCTTTTCTTTTCTTTGTTTTT
1 TCTTTTCTTTTCTTTGCTTTT
65860739 TCTTT
1 TCTTT
65860744 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.08
21 31 0.79
22 5 0.13
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:65863370 original size:30 final size:31
Alignment explanation
Indices: 65863276--65863372 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65863266 TAAACTAGAA
*
65863276 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAAGT
* * * * * *
65863306 TGAGCTGAGGCTAAACTCCTAAGCTG-AAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAAGT
*
65863336 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAAGT
65863366 TGAGCTA
1 TGAGCTA
65863373 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 48 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (31 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAAGT
Found at i:65863813 original size:30 final size:30
Alignment explanation
Indices: 65863779--65863839 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65863769 TTCTTAACTC
65863779 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
65863809 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
65863839 A
1 A
65863840 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:65866161 original size:30 final size:30
Alignment explanation
Indices: 65866089--65866163 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
65866079 TCAACTCACA
*
65866089 AGCTAAACCTTAGCTCAACTTCAGCTTAGG
1 AGCTAAACCTTAGCTCAACTTCAGCTAAGG
* * *
65866119 AGTTTAACCTTAGCTCAACTTTAGCTCAAGG
1 AGCTAAACCTTAGCTCAACTTCAGCT-AAGG
*
65866150 -GCTAAAGCTTAGCT
1 AGCTAAACCTTAGCT
65866164 AGCTCATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 34 0.92
31 3 0.08
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (30 bp):
AGCTAAACCTTAGCTCAACTTCAGCTAAGG
Found at i:65871682 original size:15 final size:15
Alignment explanation
Indices: 65871662--65871709 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65871652 TCAAAGATGG
65871662 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
65871677 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
65871691 GTTTATGGATATAAA
1 GTTTATGGATATGAA
65871706 GTTT
1 GTTT
65871710 TTGTAGGTTT
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:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:65871689 original size:29 final size:29
Alignment explanation
Indices: 65871656--65871715 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
65871646 AAGGATTCAA
*
65871656 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
65871685 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
65871714 AG
1 AG
65871716 GTTTGGAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:65871696 original size:14 final size:14
Alignment explanation
Indices: 65871656--65871699 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
65871646 AAGGATTCAA
65871656 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
65871670 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
65871685 AGATGGGTTTATGG
1 AGATGGGTTTATGG
65871699 A
1 A
65871700 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:65879662 original size:9 final size:10
Alignment explanation
Indices: 65879655--65879711 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
65879645 AAGAGAAAAC
65879655 AAAGAAAAGA
1 AAAGAAAAGA
65879665 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
65879677 AAAGAAGA-A
1 AAAGAAAAGA
65879686 AAAGAAAATGA
1 AAAGAAAA-GA
65879697 AATA-AAAAGA
1 AA-AGAAAAGA
65879707 AAAGA
1 AAAGA
65879712 GCGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:65879678 original size:21 final size:20
Alignment explanation
Indices: 65879644--65879711 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
65879634 ACATTCTTGT
65879644 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
65879665 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
65879686 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
65879707 AAAGA
1 AAAGA
65879712 GCGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:65879679 original size:6 final size:5
Alignment explanation
Indices: 65879655--65879711 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65879645 AAGAGAAAAC
*
65879655 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
65879702 AAAGA AAAGA
1 AAAGA AAAGA
65879712 GCGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:65879686 original size:15 final size:14
Alignment explanation
Indices: 65879655--65879711 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65879645 AAGAGAAAAC
65879655 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
65879671 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
65879686 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
65879702 AAAGAAAAGA
1 AAAGAAAAGA
65879712 GCGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:65880015 original size:30 final size:31
Alignment explanation
Indices: 65879981--65880077 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65879971 AGCTCACTCC
*
65879981 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
65880011 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
65880041 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
65880071 TAGCTCA
1 TAGCTCA
65880078 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:65881536 original size:30 final size:30
Alignment explanation
Indices: 65881493--65881549 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
65881483 TATCAGAAAA
*
65881493 TGAGATTGAAAAAG-AGAATGAAAAAGAGTT
1 TGAGAGTGAAAAAGAAG-ATGAAAAAGAGTT
*
65881523 TGAGAGTGGAAAAGAAGATGAAAAAGA
1 TGAGAGTGAAAAAGAAGATGAAAAAGA
65881550 AATCGAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.30, T:0.16
Consensus pattern (30 bp):
TGAGAGTGAAAAAGAAGATGAAAAAGAGTT
Found at i:65884138 original size:13 final size:13
Alignment explanation
Indices: 65884120--65884144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65884110 GTATTGATCA
65884120 TGTGTTCACACCT
1 TGTGTTCACACCT
65884133 TGTGTTCACACC
1 TGTGTTCACACC
65884145 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:65891411 original size:68 final size:67
Alignment explanation
Indices: 65891339--65891488 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
65891329 CATCATGTGT
* * * *
65891339 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
65891401 ATGTAG
62 ATGTAG
** * *
65891407 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
65891472 AG
66 AG
65891474 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
65891489 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:65891444 original size:64 final size:64
Alignment explanation
Indices: 65891363--65891546 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
65891353 AGACATTATG
* *
65891363 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
65891427 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
65891492 AA
63 AA
* * * *
65891494 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
65891547 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:65892759 original size:14 final size:14
Alignment explanation
Indices: 65892737--65892781 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
65892727 TTAAAGAAGC
65892737 AACTCATTAAATTA
1 AACTCATTAAATTA
*
65892751 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
65892764 AACTCATTTAATTA
1 AACTCATTAAATTA
65892778 AACT
1 AACT
65892782 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:65895927 original size:42 final size:42
Alignment explanation
Indices: 65895868--65896015 Score: 278
Period size: 42 Copynumber: 3.5 Consensus size: 42
65895858 CATTTAAGCC
65895868 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
*
65895910 TCTTAATTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
65895952 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
65895994 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
65896016 TATTTAATGA
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
42 93 0.90
43 10 0.10
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:65896017 original size:14 final size:14
Alignment explanation
Indices: 65895998--65896042 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
65895988 AACTCATCTT
*
65895998 AGTTTAATTAAATG
1 AGTTTAATTTAATG
65896012 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
65896025 AATTTAATTTAATG
1 AGTTTAATTTAATG
65896039 AGTT
1 AGTT
65896043 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:65897059 original size:29 final size:29
Alignment explanation
Indices: 65897026--65897085 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
65897016 ATAACCAAAC
* *
65897026 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
65897055 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
65897084 CT
1 CT
65897086 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:65897078 original size:15 final size:15
Alignment explanation
Indices: 65897032--65897079 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
65897022 AAACCTACAA
*
65897032 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
65897047 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
65897061 AAACTTCATATCCAT
1 AAACTTCATATCCAT
65897076 AAAC
1 AAAC
65897080 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:65898333 original size:30 final size:30
Alignment explanation
Indices: 65898237--65898321 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
65898227 TAAACTAAAA
*
65898237 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
65898267 TGAGCTGAGGCTAAACTCCTAAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
65898297 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGGTTTAGCTCGTGAGCT
65898322 GAATATGAGC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:65901424 original size:9 final size:10
Alignment explanation
Indices: 65901417--65901473 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
65901407 AAGAGAAAAT
65901417 AAAGAAAAGA
1 AAAGAAAAGA
65901427 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
65901439 AAAGAAGA-A
1 AAAGAAAAGA
65901448 AAAGAAAATGA
1 AAAGAAAA-GA
65901459 AATA-AAAAGA
1 AA-AGAAAAGA
65901469 AAAGA
1 AAAGA
65901474 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:65901441 original size:6 final size:5
Alignment explanation
Indices: 65901417--65901473 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65901407 AAGAGAAAAT
*
65901417 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
65901464 AAAGA AAAGA
1 AAAGA AAAGA
65901474 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:65901448 original size:15 final size:14
Alignment explanation
Indices: 65901417--65901473 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65901407 AAGAGAAAAT
65901417 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
65901433 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
65901448 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
65901464 AAAGAAAAGA
1 AAAGAAAAGA
65901474 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:65901553 original size:11 final size:12
Alignment explanation
Indices: 65901521--65901551 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65901511 TTGAGAGAAC
65901521 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65901533 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65901545 TTGAAAA
1 TTGAAAA
65901552 GCAAAAAGAA
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:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:65903680 original size:30 final size:31
Alignment explanation
Indices: 65903646--65903742 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65903636 AGCTCACTCC
*
65903646 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
65903676 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
65903706 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
65903736 TAGCTCA
1 TAGCTCA
65903743 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:65906100 original size:30 final size:30
Alignment explanation
Indices: 65906066--65906162 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
65906056 TAAACTAAAA
* *
65906066 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTAAGCTAAAGT
* * * * *
65906096 TGAGCTGAGGTTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTAAGCTAAAGT
* *
65906126 TGAGCTGAGGTTTAGCTCGTAAGTTGAAAG-
1 TGAGCTAAGGTTTAGCTCGTAAGCT-AAAGT
65906156 TGAGCTA
1 TGAGCTA
65906163 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 50 0.94
31 3 0.06
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTAAGCTAAAGT
Found at i:65908256 original size:14 final size:14
Alignment explanation
Indices: 65908233--65908275 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
65908223 ATGGAGAGAT
65908233 CAAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
*
65908247 CAAAATAAAAAGAATG
1 CAAAAGAAAAAG-A-G
65908263 -AAAAGAAAAAGAG
1 CAAAAGAAAAAGAG
65908276 TGGGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 11 0.44
16 1 0.04
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (14 bp):
CAAAAGAAAAAGAG
Found at i:65909923 original size:30 final size:31
Alignment explanation
Indices: 65909889--65909985 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
65909879 AGCTCACTCC
*
65909889 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
65909919 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
65909949 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
65909979 TAGCTCA
1 TAGCTCA
65909986 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:65911677 original size:13 final size:13
Alignment explanation
Indices: 65911659--65911706 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
65911649 TATACAAGTC
65911659 AAAAAAAAATTTG
1 AAAAAAAAATTTG
*
65911672 AAAAAAAAA-TTC
1 AAAAAAAAATTTG
*
65911684 AAAAAAAAATTCG
1 AAAAAAAAATTTG
65911697 AAAAGAAAAA
1 AAAA-AAAAA
65911707 AATCTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.37
13 14 0.47
14 5 0.17
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAAAAAATTTG
Found at i:65911685 original size:25 final size:26
Alignment explanation
Indices: 65911657--65911706 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
65911647 GTTATACAAG
*
65911657 TCAAAAAAAAATTTGAAAA-AAAAAT
1 TCAAAAAAAAATTCGAAAAGAAAAAT
65911682 TCAAAAAAAAATTCGAAAAGAAAAA
1 TCAAAAAAAAATTCGAAAAGAAAAA
65911707 AATCTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (26 bp):
TCAAAAAAAAATTCGAAAAGAAAAAT
Found at i:65911719 original size:13 final size:12
Alignment explanation
Indices: 65911659--65911706 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
65911649 TATACAAGTC
65911659 AAAAAAAAATTTG
1 AAAAAAAAA-TTG
*
65911672 AAAAAAAAATTC
1 AAAAAAAAATTG
65911684 AAAAAAAAATTCG
1 AAAAAAAAATT-G
65911697 AAAAGAAAAA
1 AAAA-AAAAA
65911707 AATCTGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
12 13 0.42
13 13 0.42
14 5 0.16
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:65912639 original size:9 final size:10
Alignment explanation
Indices: 65912632--65912688 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
65912622 AAGAGAAAAC
65912632 AAAGAAAAGA
1 AAAGAAAAGA
65912642 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
65912654 AAAGAAGA-A
1 AAAGAAAAGA
65912663 AAAGAAAATGA
1 AAAGAAAA-GA
65912674 AATA-AAAAGA
1 AA-AGAAAAGA
65912684 AAAGA
1 AAAGA
65912689 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:65912655 original size:21 final size:20
Alignment explanation
Indices: 65912621--65912688 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
65912611 ACATTCTTGT
65912621 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
65912642 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
65912663 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
65912684 AAAGA
1 AAAGA
65912689 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:65912656 original size:6 final size:5
Alignment explanation
Indices: 65912632--65912688 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65912622 AAGAGAAAAC
*
65912632 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
65912679 AAAGA AAAGA
1 AAAGA AAAGA
65912689 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:65912663 original size:15 final size:14
Alignment explanation
Indices: 65912632--65912688 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65912622 AAGAGAAAAC
65912632 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
65912648 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
65912663 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
65912679 AAAGAAAAGA
1 AAAGAAAAGA
65912689 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:65912768 original size:11 final size:12
Alignment explanation
Indices: 65912736--65912766 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65912726 TTGAGAGAAC
65912736 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65912748 TTGAAAAAGCCT
1 TTGAAAAAGCCT
65912760 TTGAAAA
1 TTGAAAA
65912767 GCAAAATGAA
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:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:65912800 original size:18 final size:18
Alignment explanation
Indices: 65912763--65912818 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
65912753 AAAGCCTTTG
65912763 AAAAGCAAAATGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
65912782 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
* *
65912800 AAAAGAGAACGAAAA-GA
1 AAAAGAAAATGAAAATGA
65912817 AA
1 AA
65912819 TTTGAGAGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.68, C:0.04, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:65912814 original size:30 final size:31
Alignment explanation
Indices: 65912780--65912850 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
65912770 AAATGAAAAT
*
65912780 GAAAAAGAAA-ATGAGATTGAAAAAG-AGAAC
1 GAAAAAGAAATATGAGAGTGAAAAAGAAG-AC
* *
65912810 G-AAAAGAAATTTGAGAGTGAAAAAGAAGAT
1 GAAAAAGAAATATGAGAGTGAAAAAGAAGAC
65912840 GAAAAAGAAAT
1 GAAAAAGAAAT
65912851 TGAAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 8 0.23
30 16 0.46
31 11 0.31
ACGTcount: A:0.62, C:0.01, G:0.24, T:0.13
Consensus pattern (31 bp):
GAAAAAGAAATATGAGAGTGAAAAAGAAGAC
Found at i:65914502 original size:19 final size:19
Alignment explanation
Indices: 65914478--65914517 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65914468 AGCTCCCATG
65914478 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
65914497 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
65914516 TA
1 TA
65914518 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:65915779 original size:14 final size:14
Alignment explanation
Indices: 65915757--65915804 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
65915747 ACCTAAACTG
* *
65915757 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
65915771 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
65915785 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
65915799 ACCATT
1 ACCATT
65915805 CCATTTGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:65916887 original size:30 final size:30
Alignment explanation
Indices: 65916792--65916888 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
65916782 AGCTTACTCC
*
65916792 TAGCTC-ACTTTCATCTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * * *
65916822 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
65916852 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
65916882 TAGCTCA
1 TAGCTCA
65916889 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 46 0.92
31 4 0.08
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:65918534 original size:10 final size:10
Alignment explanation
Indices: 65918519--65918545 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65918509 TAAGTTGAAG
65918519 TTGAGCTGAT
1 TTGAGCTGAT
65918529 TTGAGCTGAT
1 TTGAGCTGAT
65918539 TTGAGCT
1 TTGAGCT
65918546 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:65923679 original size:12 final size:14
Alignment explanation
Indices: 65923662--65923697 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
65923652 CATAAATCAC
65923662 TTTTTTTTTC-G-A
1 TTTTTTTTTCGGAA
65923674 TTTTTTTTTCGGAA
1 TTTTTTTTTCGGAA
65923688 TTTTTTTTTC
1 TTTTTTTTTC
65923698 AAACTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 11 0.50
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.75
Consensus pattern (14 bp):
TTTTTTTTTCGGAA
Found at i:65925322 original size:10 final size:10
Alignment explanation
Indices: 65925307--65925333 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65925297 TAAGTTGAAG
65925307 TTGAGCTGAT
1 TTGAGCTGAT
65925317 TTGAGCTGAT
1 TTGAGCTGAT
65925327 TTGAGCT
1 TTGAGCT
65925334 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:65935481 original size:30 final size:30
Alignment explanation
Indices: 65935387--65935482 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
65935377 AGCTCACTCC
*
65935387 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * *
65935417 TAGCTCAAC-TTAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
65935446 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
65935476 TAGCTCA
1 TAGCTCA
65935483 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
29 20 0.40
30 28 0.56
31 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:65936369 original size:22 final size:20
Alignment explanation
Indices: 65936337--65936385 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
65936327 GCCGAATTTA
65936337 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
65936360 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
65936380 TGAACA
1 TGAACA
65936386 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:65937875 original size:13 final size:13
Alignment explanation
Indices: 65937857--65937881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65937847 TGGTCATCAT
65937857 GGTGTGAACACAA
1 GGTGTGAACACAA
65937870 GGTGTGAACACA
1 GGTGTGAACACA
65937882 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:65941975 original size:30 final size:30
Alignment explanation
Indices: 65941941--65942037 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
65941931 TAAACTAAAA
65941941 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
65941971 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
65942001 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65942031 TGAGCTA
1 TGAGCTA
65942038 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:65944208 original size:28 final size:29
Alignment explanation
Indices: 65944138--65944220 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
65944128 TTCTTTTGTT
*
65944138 TCAATTTCTTTTTCA-TCTTCTTTTTCACTC
1 TCAATTTC-TTTTCATTC-TCTTTTTCAATC
*
65944168 TCAAATTTCTTTTCGTTCTCTTTTTCAATC
1 TC-AATTTCTTTTCATTCTCTTTTTCAATC
* *
65944198 TC-ATTTTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTCATTCTCTTTTT
65944221 GCTTTTCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
28 18 0.39
30 20 0.43
31 8 0.17
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (29 bp):
TCAATTTCTTTTCATTCTCTTTTTCAATC
Found at i:65944238 original size:12 final size:12
Alignment explanation
Indices: 65944223--65944253 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
65944213 TTCTTTTTGC
65944223 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65944235 TTTTCAAAGGCT
1 TTTTCAAAGGCT
65944247 TTTTCAA
1 TTTTCAA
65944254 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:65944311 original size:5 final size:5
Alignment explanation
Indices: 65944301--65944357 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65944291 CTCTTGCCTC
*
65944301 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
65944348 TCTTT TCTTT
1 TCTTT TCTTT
65944358 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:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:65944341 original size:15 final size:14
Alignment explanation
Indices: 65944301--65944357 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65944291 CTCTTGCCTC
*
65944301 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
65944316 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
65944331 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
65944348 TCTTTTCTTT
1 TCTTTTCTTT
65944358 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:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:65944358 original size:21 final size:21
Alignment explanation
Indices: 65944301--65944368 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
65944291 CTCTTGCCTC
* *
65944301 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
65944322 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
65944343 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
65944363 CTCTTT
1 -TCTTT
65944369 ACAAGAATGT
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:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:65945292 original size:18 final size:17
Alignment explanation
Indices: 65945265--65945303 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
65945255 CATTAAACAC
*
65945265 TTTTTTTTCAGATTTTT
1 TTTTTTTTCAAATTTTT
65945282 TTTTCTTTTCAAATTTTT
1 TTTT-TTTTCAAATTTTT
65945300 TTTT
1 TTTT
65945304 GAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCAAATTTTT
Found at i:65945298 original size:17 final size:17
Alignment explanation
Indices: 65945265--65945303 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
65945255 CATTAAACAC
*
65945265 TTTTTTTTCAGATTTTT
1 TTTTTTTTCAGAATTTT
65945282 TTTTCTTTTCA-AATTTT
1 TTTT-TTTTCAGAATTTT
65945299 TTTTT
1 TTTTT
65945304 GAATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCAGAATTTT
Found at i:65947019 original size:30 final size:30
Alignment explanation
Indices: 65946985--65947081 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
65946975 TAAACTAAAA
65946985 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * * *
65947015 TGAGCCGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAG-CTAAGCTTTAGCTCGTGAGCTAAAGT
* *
65947045 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
65947075 TGAGCTA
1 TGAGCTA
65947082 GGAGTGAGCT
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 3 0.06
30 38 0.79
31 7 0.15
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:65947360 original size:5 final size:5
Alignment explanation
Indices: 65947350--65947406 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
65947340 CTCTTGCCGC
*
65947350 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
65947397 TCTTT TCTTT
1 TCTTT TCTTT
65947407 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:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:65947390 original size:15 final size:14
Alignment explanation
Indices: 65947350--65947406 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
65947340 CTCTTGCCGC
*
65947350 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
65947365 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
65947380 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
65947397 TCTTTTCTTT
1 TCTTTTCTTT
65947407 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:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:65947407 original size:21 final size:21
Alignment explanation
Indices: 65947350--65947417 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
65947340 CTCTTGCCGC
* *
65947350 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
65947371 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
65947392 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
65947412 CTCTTT
1 -TCTTT
65947418 ACAAGAATGT
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:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:65949392 original size:13 final size:13
Alignment explanation
Indices: 65949374--65949398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65949364 TGGTCATCAT
65949374 GGTGTGAACACAA
1 GGTGTGAACACAA
65949387 GGTGTGAACACA
1 GGTGTGAACACA
65949399 TGATCAATAC
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Done.