Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 91 of 322
Found at i:29574922 original size:27 final size:27
Alignment explanation
Indices: 29574738--29574921 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
29574728 ATTACCAAAG
* *
29574738 TACCCCCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
29574765 TACCCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
29574792 TAACCC-CGATTTACATAATTACCGTTT
1 T-ACCCTCGATTTACAGAATTACCGTTT
*
29574819 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
29574846 TACCCTCGACTTACAGAAGTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
29574873 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
29574900 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
29574922 TAGAATACCT
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 130 0.94
28 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:29575006 original size:27 final size:27
Alignment explanation
Indices: 29574972--29575071 Score: 155
Period size: 27 Copynumber: 3.7 Consensus size: 27
29574962 TGTAGGGTAG
*
29574972 AATTACCAAAATACCCCTAGTTTGTAC
1 AATTACCAAAATACCCCTAGTTTGTAA
29574999 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** *
29575026 AATTACCGAAATACCTTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
29575053 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
29575072 ATTTACAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:29575050 original size:54 final size:54
Alignment explanation
Indices: 29574972--29575095 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
29574962 TGTAGGGTAG
* * * * **
29574972 AATTACCAAAATACCCCTAGTTTGTACAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
**
29575026 AATTACCGAAATACCTTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
* *
29575080 AGTTACAGAAATACCC
1 AATTACCGAAATACCC
29575096 TTGACTTTCT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (54 bp):
AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
Found at i:29575085 original size:27 final size:27
Alignment explanation
Indices: 29574972--29575095 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 27
29574962 TGTAGGGTAG
* ** *
29574972 AATTACCAAAATACCCCTAGTTTGTAC
1 AATTACCAAAATACCCCTAATTTACAA
* **
29574999 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTACAA
* ** **
29575026 AATTACCGAAATACCTTTAATTTGTAA
1 AATTACCAAAATACCCCTAATTTACAA
29575053 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTACAA
*
29575080 AGTTA-CAGAAATACCC
1 AATTACCA-AAATACCC
29575096 TTGACTTTCT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 83 0.98
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTACAA
Found at i:29575146 original size:27 final size:27
Alignment explanation
Indices: 29575107--29575158 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
29575097 TGACTTTCTA
29575107 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
29575134 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
29575159 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:29575242 original size:27 final size:27
Alignment explanation
Indices: 29575212--29575303 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
29575202 ACCCCTATTA
* *
29575212 GGTAAAAAGACTGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
29575239 GGTAAAGTGACCGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
29575266 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
29575293 GGTAAAATGAC
1 GGTAAAATGAC
29575304 GAATATGCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:29576557 original size:9 final size:9
Alignment explanation
Indices: 29576545--29576601 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29576535 TTTGATAAAC
29576545 ATGATATGT
1 ATGATATGT
*
29576554 ATGATATGCAC
1 ATGATATG--T
*
29576565 ATGACATGT
1 ATGATATGT
*
29576574 ATGATATGCAC
1 ATGATATG--T
29576585 ATGATATGT
1 ATGATATGT
29576594 ATGATATG
1 ATGATATG
29576602 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:29576568 original size:20 final size:20
Alignment explanation
Indices: 29576543--29576613 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
29576533 ATTTTGATAA
29576543 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29576563 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29576583 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29576603 ACATGAGATGT
1 ACATGATATGT
29576614 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29576590 original size:11 final size:11
Alignment explanation
Indices: 29576554--29576608 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29576544 CATGATATGT
29576554 ATGATATGCAC
1 ATGATATGCAC
* *
29576565 ATGACATG--T
1 ATGATATGCAC
29576574 ATGATATGCAC
1 ATGATATGCAC
*
29576585 ATGATATG--T
1 ATGATATGCAC
29576594 ATGATATGCAC
1 ATGATATGCAC
29576605 ATGA
1 ATGA
29576609 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29576785 original size:25 final size:23
Alignment explanation
Indices: 29576660--29576876 Score: 290
Period size: 23 Copynumber: 9.1 Consensus size: 23
29576650 AGGAAGTGCA
29576660 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29576683 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29576706 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29576729 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29576752 AAAGGGCTTATGCCCCAATTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
29576777 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
* *
29576802 GAAGGGCTTATGCCCCAGTTACGAT
1 AAAGGGCTTATGCCCCAGTTA--TT
* * *
29576827 AAATGGCTTATGCACCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
29576851 AAAGGGCTTTTGCCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTATT
29576874 AAA
1 AAA
29576877 AGAGGCTAGG
Statistics
Matches: 173, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
23 91 0.53
24 18 0.10
25 64 0.37
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:29577126 original size:31 final size:31
Alignment explanation
Indices: 29577088--29577146 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
29577078 TACGTTTACA
29577088 GTAAAGGCTTCGGCCCAGTAATATGAAATAT
1 GTAAAGGCTTCGGCCCAGTAATATGAAATAT
**
29577119 GTAAAGGCTTCGGCCCAGTGTTATGAAA
1 GTAAAGGCTTCGGCCCAGTAATATGAAA
29577147 AATGAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTAATATGAAATAT
Found at i:29584281 original size:15 final size:15
Alignment explanation
Indices: 29584238--29584282 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
29584228 GGTATTGTAA
**
29584238 CTTGGATTTCTGAAT
1 CTTGGATTTCTTTAT
29584253 CTTGGGAGTTTCTTTAT
1 CTT-GGA-TTTCTTTAT
29584270 CTTGGATTTCTTT
1 CTTGGATTTCTTT
29584283 GTCTCGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 10 0.38
16 6 0.23
17 10 0.38
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.53
Consensus pattern (15 bp):
CTTGGATTTCTTTAT
Found at i:29597020 original size:23 final size:23
Alignment explanation
Indices: 29596978--29597090 Score: 97
Period size: 23 Copynumber: 4.8 Consensus size: 23
29596968 CAGCTTGTAA
* *
29596978 GAGCTTACTATTTTTAGCTCATTG
1 GAGCTTACT-GTTTCAGCTCATTG
* *
29597002 GAGTTTACTGTTTCAGCTCGTAT-
1 GAGCTTACTGTTTCAGCTCAT-TG
29597025 GAGCTTACTG-TTCAGCTCGA-TG
1 GAGCTTACTGTTTCAGCTC-ATTG
* * *
29597047 GAGCTTACCGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCATTG
29597070 GAGCTTACTGTTCATCAGCTC
1 GAGCTTACTGTT--TCAGCTC
29597091 GAGAGGAGCC
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.01
22 18 0.25
23 38 0.52
24 9 0.12
25 7 0.10
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCATTG
Found at i:29597041 original size:22 final size:23
Alignment explanation
Indices: 29597006--29597092 Score: 106
Period size: 23 Copynumber: 3.7 Consensus size: 23
29596996 TCATTGGAGT
29597006 TTACTGTTTCAGCTCG-TATGAGC
1 TTACTGTTTCAGCTCGATA-GAGC
*
29597029 TTACTG-TTCAGCTCGATGGAGC
1 TTACTGTTTCAGCTCGATAGAGC
* *
29597051 TTACCGTTTCAGCTCAATAGAGC
1 TTACTGTTTCAGCTCGATAGAGC
29597074 TTACTGTTCATCAGCTCGA
1 TTACTGTT--TCAGCTCGA
29597093 GAGGAGCCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.33
23 28 0.52
25 8 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (23 bp):
TTACTGTTTCAGCTCGATAGAGC
Found at i:29597060 original size:45 final size:45
Alignment explanation
Indices: 29596942--29597083 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 45
29596932 AGACTCACCA
* * *
29596942 CAGCTCG-TAGGAGCTTACCGATATATCAGCTTGTAAGAGCTTACTATTTT
1 CAGCTCGAT-GGAGCTTACCG-T-T-TCAGCTCGTATGAGCTTAC--TGTT
* * *
29596992 TAGCTC-ATTGGAGTTTACTGTTTCAGCTCGTATGAGCTTACTGTT
1 CAGCTCGA-TGGAGCTTACCGTTTCAGCTCGTATGAGCTTACTGTT
*
29597037 CAGCTCGATGGAGCTTACCGTTTCAGCTC-AATAGAGCTTACTGTT
1 CAGCTCGATGGAGCTTACCGTTTCAGCTCGTAT-GAGCTTACTGTT
29597082 CA
1 CA
29597084 TCAGCTCGAG
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
44 2 0.03
45 41 0.53
46 1 0.01
47 17 0.22
48 1 0.01
49 1 0.01
50 14 0.18
51 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (45 bp):
CAGCTCGATGGAGCTTACCGTTTCAGCTCGTATGAGCTTACTGTT
Found at i:29599724 original size:14 final size:14
Alignment explanation
Indices: 29599705--29599734 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29599695 CATTCCGAAG
*
29599705 TATATATATATACA
1 TATATACATATACA
29599719 TATATACATATACA
1 TATATACATATACA
29599733 TA
1 TA
29599735 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATATACA
Found at i:29600251 original size:28 final size:28
Alignment explanation
Indices: 29600183--29600448 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
29600173 CATGAGATTG
* * * *
29600183 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
29600212 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29600240 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29600268 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29600296 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29600324 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
29600352 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29600380 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
29600408 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
29600435 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
29600449 GACTTAATAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.11
28 186 0.82
29 18 0.08
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:29601473 original size:19 final size:19
Alignment explanation
Indices: 29601435--29601473 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
29601425 TAAAATGTTG
* *
29601435 AAATTTTTCTAAGTTTCCA
1 AAATTTTTATAAGTTACCA
*
29601454 AAATTTTTATATGTTACCA
1 AAATTTTTATAAGTTACCA
29601473 A
1 A
29601474 TTTAGTCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (19 bp):
AAATTTTTATAAGTTACCA
Found at i:29602601 original size:29 final size:28
Alignment explanation
Indices: 29602562--29602627 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
29602552 CTTCAGATCC
*
29602562 TGCCACGAAGGCATT-CATTTTAACAGAGTT
1 TGCCAC-AAGGCATTCCA--TTAACAGAGAT
29602592 TGCCACAAGGCATTCCATTAACAGAGAT
1 TGCCACAAGGCATTCCATTAACAGAGAT
*
29602620 GGCCACAA
1 TGCCACAA
29602628 AGACATCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 17 0.52
29 8 0.24
30 8 0.24
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (28 bp):
TGCCACAAGGCATTCCATTAACAGAGAT
Found at i:29602617 original size:28 final size:28
Alignment explanation
Indices: 29602562--29602845 Score: 88
Period size: 29 Copynumber: 9.8 Consensus size: 28
29602552 CTTCAGATCC
*
29602562 TGCCACGAAGGCATTCATTTTAACAGAGTT
1 TGCCAC-AAGGCATTCA-TTTAACAGAGAT
29602592 TGCCACAAGGCATTCCA-TTAACAGAGAT
1 TGCCACAAGGCATT-CATTTAACAGAGAT
* * * * * *
29602620 GGCCACAAAGACATCCTTTTAACACAAAT
1 TGCCAC-AAGGCATTCATTTAACAGAGAT
* * * **
29602649 AGCCATAAAGACATTCATTTAATTGAGAT
1 TGCCA-CAAGGCATTCATTTAACAGAGAT
* * * * *
29602678 AGCCACAAAGGCATCCTTTTAACAAAAAT
1 TGCCAC-AAGGCATTCATTTAACAGAGAT
* * ** ***
29602707 CGCCAGAAAATCATTCATTTAATTTAGAT
1 TGCCA-CAAGGCATTCATTTAACAGAGAT
*** * * *
29602736 AATCACAAAGGCATACATTCAATAGAGAT
1 TGCCAC-AAGGCATTCATTTAACAGAGAT
* * * *
29602765 CGCTAAAAAGGCATTCATATAACTA-AGAT
1 TGC-CACAAGGCATTCATTTAAC-AGAGAT
* *
29602794 AGCCACAAAGGC-TTCCTTATAACAGAGAT
1 TGCCAC-AAGGCATTCATT-TAACAGAGAT
**
29602823 CACCACAAAGGCATTCATTTAAC
1 TGCCAC-AAGGCATTCATTTAAC
29602846 TAAGATTTCC
Statistics
Matches: 181, Mismatches: 60, Indels: 27
0.68 0.22 0.10
Matches are distributed among these distances:
28 22 0.12
29 144 0.80
30 15 0.08
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (28 bp):
TGCCACAAGGCATTCATTTAACAGAGAT
Found at i:29602653 original size:29 final size:29
Alignment explanation
Indices: 29602621--29602711 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
29602611 AACAGAGATG
*
29602621 GCCACAAAGACATCCTTTTAACACAAATA
1 GCCACAAAGACATCCTTTTAACAAAAATA
* * * *** *
29602650 GCCATAAAGACATTCATTTAATTGAGATA
1 GCCACAAAGACATCCTTTTAACAAAAATA
* *
29602679 GCCACAAAGGCATCCTTTTAACAAAAATC
1 GCCACAAAGACATCCTTTTAACAAAAATA
29602708 GCCA
1 GCCA
29602712 GAAAATCATT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (29 bp):
GCCACAAAGACATCCTTTTAACAAAAATA
Found at i:29602729 original size:58 final size:57
Alignment explanation
Indices: 29602615--29602844 Score: 208
Period size: 58 Copynumber: 4.0 Consensus size: 57
29602605 TCCATTAACA
* * * * *
29602615 GAGATGGCCACAAAGACATCCTTTTAACACAAATAGCCATAAAGACATTCATTTAATT
1 GAGATAGCCACAAAGGCATCCTTTTAACAGAAATCGCCAAAAAG-CATTCATTTAATT
* *
29602673 GAGATAGCCACAAAGGCATCCTTTTAACAAAAATCGCCAGAAAATCATTCATTTAATT
1 GAGATAGCCACAAAGGCATCCTTTTAACAGAAATCGCCA-AAAAGCATTCATTTAATT
* ** * * * * * * * *
29602731 TAGATAATCACAAAGGCATACATTCAATAGAGATCGCTAAAAAGGCATTCATATAACT
1 GAGATAGCCACAAAGGCATCCTTTTAACAGAAATCGCCAAAAA-GCATTCATTTAATT
* * * * * *
29602789 AAGATAGCCACAAAGGCTTCCTTATAACAGAGATCACCACAAAGGCATTCATTTAA
1 GAGATAGCCACAAAGGCATCCTTTTAACAGAAATCGCCA-AAAAGCATTCATTTAA
29602845 CTAAGATTTC
Statistics
Matches: 137, Mismatches: 32, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
57 4 0.03
58 127 0.93
59 6 0.04
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.24
Consensus pattern (57 bp):
GAGATAGCCACAAAGGCATCCTTTTAACAGAAATCGCCAAAAAGCATTCATTTAATT
Found at i:29602793 original size:29 final size:29
Alignment explanation
Indices: 29602739--29602883 Score: 102
Period size: 29 Copynumber: 5.0 Consensus size: 29
29602729 TTTAGATAAT
*
29602739 CACAAAGGCATACAT-TCAA-TAGAGATCGC
1 CACAAAGGCATTCATAT-AACTA-AGATCGC
* * *
29602768 TAAAAAGGCATTCATATAACTAAGATAGC
1 CACAAAGGCATTCATATAACTAAGATCGC
* *
29602797 CACAAAGGC-TTCCTTATAAC-AGAGATCAC
1 CACAAAGGCATT-CATATAACTA-AGATCGC
* **
29602826 CACAAAGGCATTCATTTAACTAAGATTTC
1 CACAAAGGCATTCATATAACTAAGATCGC
* * *
29602855 CATAAAGGC-TTCGTTATAACTGAGATCGC
1 CACAAAGGCATTC-ATATAACTAAGATCGC
29602884 TATATATGCT
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
28 6 0.07
29 78 0.87
30 6 0.07
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (29 bp):
CACAAAGGCATTCATATAACTAAGATCGC
Found at i:29602846 original size:58 final size:58
Alignment explanation
Indices: 29602594--29602881 Score: 190
Period size: 58 Copynumber: 5.0 Consensus size: 58
29602584 ACAGAGTTTG
* * * * * *
29602594 CCAC-AAGGCATTCCA-TTAAC-AGAGATGGCCACAAAGACATCCTTTTAACACAAAT-A
1 CCACAAAGGCATT-CATTTAACTA-AGATAGCCACAAAGGCTTCCTTATAACAGAGATCA
* * * * * * * * *
29602650 GCCATAAAGACATTCATTTAATTGAGATAGCCACAAAGGCATCCTTTTAACAAAAATCG
1 -CCACAAAGGCATTCATTTAACTAAGATAGCCACAAAGGCTTCCTTATAACAGAGATCA
* ** * * ** * * * * *
29602709 CCAGAAAATCATTCATTTAATTTAGATAATCACAAAGGCATACATT-CAATAGAGATCG
1 CCACAAAGGCATTCATTTAACTAAGATAGCCACAAAGGC-TTCCTTATAACAGAGATCA
* * *
29602767 CTAAAAAGGCATTCATATAACTAAGATAGCCACAAAGGCTTCCTTATAACAGAGATCA
1 CCACAAAGGCATTCATTTAACTAAGATAGCCACAAAGGCTTCCTTATAACAGAGATCA
** * * *
29602825 CCACAAAGGCATTCATTTAACTAAGATTTCCATAAAGGCTTCGTTATAACTGAGATC
1 CCACAAAGGCATTCATTTAACTAAGATAGCCACAAAGGCTTCCTTATAACAGAGATC
29602882 GCTATATATG
Statistics
Matches: 182, Mismatches: 43, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
57 9 0.05
58 170 0.93
59 3 0.02
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (58 bp):
CCACAAAGGCATTCATTTAACTAAGATAGCCACAAAGGCTTCCTTATAACAGAGATCA
Found at i:29602923 original size:29 final size:29
Alignment explanation
Indices: 29602771--29602923 Score: 100
Period size: 29 Copynumber: 5.3 Consensus size: 29
29602761 AGATCGCTAA
* *
29602771 AAAGGCATTCATATAACTA-AGATAGCCAC
1 AAAGGCTTTCTTATAAC-AGAGATAGCCAC
*
29602800 AAAGGCTTCCTTATAACAGAGATCA-CCAC
1 AAAGGCTTTCTTATAACAGAGAT-AGCCAC
* ** *
29602829 AAAGGCATTCATT-TAACTA-AGATTTCCAT
1 AAAGGCTTTC-TTATAAC-AGAGATAGCCAC
* * * *
29602858 AAAGGC-TTCGTTATAACTGAGATCGCTAT
1 AAAGGCTTTC-TTATAACAGAGATAGCCAC
* * *
29602887 ATATGCTTTCTTATAACAGAGATAGCGAC
1 AAAGGCTTTCTTATAACAGAGATAGCCAC
29602916 AAAGGCTT
1 AAAGGCTT
29602924 ACATATGCAA
Statistics
Matches: 96, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
28 6 0.06
29 83 0.86
30 7 0.07
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (29 bp):
AAAGGCTTTCTTATAACAGAGATAGCCAC
Found at i:29608026 original size:40 final size:40
Alignment explanation
Indices: 29607881--29608026 Score: 161
Period size: 40 Copynumber: 3.6 Consensus size: 40
29607871 GCTACTCGTT
* *
29607881 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
29607921 CAAATGCCTTTGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * * *
29607961 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
29608002 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29608027 CATCATTCGA
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 73 0.85
41 10 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:29609843 original size:48 final size:48
Alignment explanation
Indices: 29609719--29609903 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
29609709 ACACATCGCC
*
29609719 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
29609767 TATATATATTGCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATAT-TT-CACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
29609817 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
29609865 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
29609904 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
48 81 0.63
49 6 0.05
50 41 0.32
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:29609908 original size:98 final size:98
Alignment explanation
Indices: 29609719--29609902 Score: 320
Period size: 98 Copynumber: 1.9 Consensus size: 98
29609709 ACACATCGCC
*
29609719 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTGCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTGCACATT
29609784 GACCATTCGGCTTTACCACATATGCATATCTCA
66 GACCATTCGGCTTTACCACATATGCATATCTCA
*
29609817 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT-TT-CACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTGCACATT
29609880 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCGGCTTTACCACATAT
29609903 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (98 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATATTGCACATT
GACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:29609952 original size:47 final size:47
Alignment explanation
Indices: 29609873--29610066 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
29609863 CATACATATT
* * * *
29609873 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
29609920 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
29609967 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
29610014 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
29610061 TCACAT
1 TCACAT
29610067 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:29609993 original size:22 final size:22
Alignment explanation
Indices: 29609966--29610037 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
29609956 GCTCACATTC
29609966 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
29609988 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
29610012 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
29610035 ATC
1 ATC
29610038 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:29609994 original size:94 final size:94
Alignment explanation
Indices: 29609826--29610066 Score: 290
Period size: 94 Copynumber: 2.6 Consensus size: 94
29609816 ATACATATTT
* * * *
29609826 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* *
29609888 GGCTTTACCACATATATGCATGTTCATATTCAC
62 GGCCTTACCACATATATGCATGTTCACATTCAC
* ** *
29609921 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
* *
29609986 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * *
29610015 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
29610067 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.73
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCAC
Found at i:29613367 original size:25 final size:25
Alignment explanation
Indices: 29613329--29613395 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
29613319 TCCTGTACAT
*
29613329 GTATGCTCATATGAGCTATGAATTG
1 GTATGCTCATATGAGCTATGAATCG
*
29613354 GTATGCTC-TCATGAGCTGTGAATCG
1 GTATGCTCAT-ATGAGCTATGAATCG
*
29613379 GTAAGCTCATATGAGCT
1 GTATGCTCATATGAGCT
29613396 GTGGTGTGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (25 bp):
GTATGCTCATATGAGCTATGAATCG
Found at i:29618447 original size:25 final size:25
Alignment explanation
Indices: 29618418--29618465 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29618408 TTATAACATG
* *
29618418 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
*
29618443 AAAATGACCATTTTACCCTTAGG
1 AAAATGACCATTTTACCCCTAGG
29618466 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:29618568 original size:20 final size:20
Alignment explanation
Indices: 29618502--29618562 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
29618492 ATTTTGATAA
*
29618502 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29618522 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29618542 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
29618562 A
1 A
29618563 TGTGATGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29618645 original size:24 final size:24
Alignment explanation
Indices: 29618618--29618720 Score: 161
Period size: 24 Copynumber: 4.3 Consensus size: 24
29618608 GAGGAAGTGC
*
29618618 AAAAGGGCTTATGCCCTAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATA
* *
29618642 AAAAGAGCGTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATA
*
29618666 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATA
*
29618690 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATA
29618714 AAAAGGG
1 AAAAGGG
29618721 GCTAGGCCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATA
Found at i:29618734 original size:25 final size:24
Alignment explanation
Indices: 29618618--29618737 Score: 125
Period size: 24 Copynumber: 5.0 Consensus size: 24
29618608 GAGGAAGTGC
* * *
29618618 AAAAGGGCTTATGCCCTAGTTATA
1 AAAAGGGCTTAGGCCCCAGTTATT
* * * *
29618642 AAAAGAGCGTATGCCCCAGTTATA
1 AAAAGGGCTTAGGCCCCAGTTATT
*
29618666 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
*
29618690 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
*
29618714 AAAAGGGGC-TAGGCCTTCAGTTAT
1 AAAA-GGGCTTAGGCC-CCAGTTAT
29618738 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
24 75 0.87
25 11 0.13
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:29621474 original size:23 final size:22
Alignment explanation
Indices: 29621422--29621474 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
29621412 TCCACGTCTT
*
29621422 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
29621444 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
29621467 TTTCTTTT
1 TTTCTTTT
29621475 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:29626964 original size:50 final size:50
Alignment explanation
Indices: 29626901--29627274 Score: 345
Period size: 50 Copynumber: 7.4 Consensus size: 50
29626891 TCAGTTCAAG
29626901 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * * * * * *
29626951 TGTGTAGTACTAAGTGCAGGCTACTATGAGTACCCGATAGTTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCACA
* * * ** * * *
29627002 TGTGTAGTATTAAGTGCAGGCTAATAAGTGTAATAGATGGTTAGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * * * ** * **
29627052 TGTGTAGTACTAAGTTCAAGCCACAACGTGTACTGGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * ** * * * * *
29627102 TGTGTTGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTTAGGTCACA
* * * * *
29627153 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * *
29627203 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
29627253 TGTGTAGTACTAAGTGCAGGCT
1 TGTGTAGTACTAAGTGCAGGCT
29627275 GCTATACGTA
Statistics
Matches: 253, Mismatches: 67, Indels: 8
0.77 0.20 0.02
Matches are distributed among these distances:
49 2 0.01
50 177 0.70
51 73 0.29
52 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
Found at i:29627033 original size:101 final size:101
Alignment explanation
Indices: 29626854--29627289 Score: 351
Period size: 101 Copynumber: 4.3 Consensus size: 101
29626844 GAACACGTGC
* *** * * * *
29626854 AGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTCAGTTCAAGTGTGTAGTACTAAGTGCA
1 AGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATAC-GTTCACGTGTGTAGTACTAAGTGCA
* *
29626919 GGCTACTACGTGTACCAGATTGTTAGGTCACATGTGT
65 GGCTACTAAGTGTACCAGATTGTTAGATCACATGTGT
* * * * * *
29626956 AGTACTAAGTGCAGGCTACTATGAGTACCCGATAGTTTCGATCACGTGTGTAGTATTAAGTGCAG
1 AGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATACGTTCACGTGTGTAGTACTAAGTGCAG
* ** * *
29627021 GCTAATAAGTGTAATAGATGGTTAGATCACGTGTGT
66 GCTACTAAGTGTACCAGATTGTTAGATCACATGTGT
* * * * * ** * * *
29627057 AGTACTAAGTTCAAGCCACAACGTGTACTGGATTGATAGGTTGCA--TGTGTTGTACTAAGTGCA
1 AGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATACGTT-CACGTGTGTAGTACTAAGTGCA
* ** * * * *
29627120 GGCTACTATGCATACCCG-TTAACTTCGATCACGTGTGT
65 GGCTACTAAGTGTACCAGATT--GTTAGATCACATGTGT
* * * * *
29627158 AGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAG-TCACCTGTGTAGTACTAAGTGCAG
1 AGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATACGTTCACGTGTGTAGTACTAAGTGCAG
* * *
29627222 GCTACTACA-TGTACCAGATTGATAGGTCGCATGTGT
66 GCTACTA-AGTGTACCAGATTGTTAGATCACATGTGT
* **
29627258 AGTACTAAGTGCAGGCTGCTATACGTACCAGA
1 AGTACTAAGTGCAGGCTACTATGTGTACCAGA
29627290 GAGCTTTGGT
Statistics
Matches: 260, Mismatches: 67, Indels: 16
0.76 0.20 0.05
Matches are distributed among these distances:
99 3 0.01
100 65 0.25
101 156 0.60
102 36 0.14
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (101 bp):
AGTACTAAGTGCAGGCTACTATGTGTACCAGATAGATACGTTCACGTGTGTAGTACTAAGTGCAG
GCTACTAAGTGTACCAGATTGTTAGATCACATGTGT
Found at i:29627121 original size:151 final size:151
Alignment explanation
Indices: 29626900--29627279 Score: 532
Period size: 151 Copynumber: 2.5 Consensus size: 151
29626890 TTCAGTTCAA
* *
29626900 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAG
** *
29626965 TGCAGGCTACTATG-AGTACCCGATAGTTTCGATCACGTGTGTAGTATTAAGTGCAGGCTAATAA
66 TGCAGGCTACTATGCA-TACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAATAA
*
29627029 GTGTAAT-AGATGG-TTAGATCAC
130 GTGT-ATCAGATGGATAAG-TCAC
* * * * ** * *
29627051 GTGTGTAGTACTAAGTTCAAGCCACAACGTGTACTGGATTGATAGGTTGCATGTGTTGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAG
* * *
29627116 TGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACG
66 TGCAGGCTACTATGCATACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAATAAG
29627181 TGTATCAGATGGATAAGTCAC
131 TGTATCAGATGGATAAGTCAC
* *
29627202 CTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAG
*
29627267 TGCAGGCTGCTAT
66 TGCAGGCTACTAT
29627280 ACGTACCAGA
Statistics
Matches: 198, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
150 2 0.01
151 192 0.97
152 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (151 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAG
TGCAGGCTACTATGCATACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTAATAAG
TGTATCAGATGGATAAGTCAC
Found at i:29628166 original size:179 final size:179
Alignment explanation
Indices: 29627854--29628179 Score: 485
Period size: 179 Copynumber: 1.8 Consensus size: 179
29627844 CCGAGATCTG
* *
29627854 TACCATGAGATAAATAATTTTTAGTGAAGAAAGTCGGAACTATCGGACAATGAAATAGGTGTATC
1 TACCATGAGATAAATAATTTTTAGTGAAGAAAGTCAGAACTATCGGACAATGAAATAGGTGTAAC
* *
29627919 TTTAATGAAGAAACTGTACTAATTGACTAAACCAAAAATTATAAAAAAACTTATGGTAAGAATAT
66 TTTAATGAAGAAAATGTACTAATTGACTAAACAAAAAATTATAAAAAAACTTATGGTAAGAATAT
29627984 ATGTGAGTCTAGTTTCTGGGAAAATTATTGGCTCTTAAGTTGGAGTCCC
131 ATGTGAGTCTAGTTTCTGGGAAAATTATTGGCTCTTAAGTTGGAGTCCC
* * * * *
29628033 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTTGGATAGTGAAATAGGTGTAA
1 TACCATGAGATAAATAATTTTTAGTGAAGA-AAGTCAGAACTATCGGACAATGAAATAGGTGTAA
* * * * **
29628098 CTTTAATGAATAAAATGTACTAATTGGA-TAAATAAAAAATTCT-GAAAATTTTATGGTAAGAAT
65 CTTTAATGAAGAAAATGTACTAATT-GACTAAACAAAAAATTATAAAAAAACTTATGGTAAGAAT
29628161 ATATGTGAGTCTAGTTTCT
129 ATATGTGAGTCTAGTTTCT
29628180 AAAAAAATTA
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
179 66 0.51
180 62 0.48
181 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (179 bp):
TACCATGAGATAAATAATTTTTAGTGAAGAAAGTCAGAACTATCGGACAATGAAATAGGTGTAAC
TTTAATGAAGAAAATGTACTAATTGACTAAACAAAAAATTATAAAAAAACTTATGGTAAGAATAT
ATGTGAGTCTAGTTTCTGGGAAAATTATTGGCTCTTAAGTTGGAGTCCC
Found at i:29632135 original size:46 final size:46
Alignment explanation
Indices: 29631968--29632146 Score: 184
Period size: 46 Copynumber: 3.9 Consensus size: 46
29631958 TGTAACCCGC
* * * * * *
29631968 CCATAAGCGAACTTGGACTCAACACAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCTCTCAT
29632014 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CT-AGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCTCA--T
* *** * *
29632060 ACATCTCTTGAACTCGAACTCAACTCAACGAGTTCGGATGCTCTCAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCTCAT
*
29632107 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC
29632147 CCAAATATCC
Statistics
Matches: 110, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 68 0.62
47 35 0.32
48 2 0.02
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCTCAT
Found at i:29632162 original size:46 final size:45
Alignment explanation
Indices: 29632019--29632162 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
29632009 CGCATCCATA
* * * *
29632019 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATCCC
* * * *
29632067 -TTGAACTCGAACTCAACTCAACGAGTTCGGATGCTC--TCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAT-ATCC--C
29632112 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
29632158 AGTGA
1 AGTGA
29632163 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
43 3 0.04
46 38 0.49
47 31 0.40
48 4 0.05
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:29644622 original size:22 final size:23
Alignment explanation
Indices: 29644597--29644639 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
29644587 TATCCACACA
*
29644597 TGGAGTGTAG-GGCTGGACGGAG
1 TGGAGTGTAGAGGATGGACGGAG
29644619 TGGAGTGTAGAGGATGGACGG
1 TGGAGTGTAGAGGATGGACGG
29644640 GTAGGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.07, G:0.53, T:0.19
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGACGGAG
Found at i:29661413 original size:46 final size:45
Alignment explanation
Indices: 29661346--29661515 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
29661336 CCCGCCCCAA
*
29661346 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATT
* * * * *
29661392 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAG-TTACATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA-TT
* * *
29661439 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATT
29661485 AGTGAACTCGGACTCAACTCAACGAGTTCGG
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG
29661516 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 63 0.62
47 34 0.33
48 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCATT
Found at i:29661512 original size:93 final size:93
Alignment explanation
Indices: 29661349--29661519 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
29661339 GCCCCAAAGT
* * *
29661349 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATTAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29661414 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
29661442 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29661507 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29661520 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:29661535 original size:46 final size:45
Alignment explanation
Indices: 29661346--29661535 Score: 147
Period size: 46 Copynumber: 4.1 Consensus size: 45
29661336 CCCGCCCCAA
* * * * *
29661346 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-T
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCT
* *
29661392 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGC-CTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
29661439 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCT
29661485 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
29661531 AGTGA
1 AGTGA
29661536 CATGTCACTT
Statistics
Matches: 116, Mismatches: 15, Indels: 26
0.74 0.10 0.17
Matches are distributed among these distances:
43 1 0.01
44 12 0.10
45 3 0.03
46 63 0.54
47 31 0.27
48 1 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:29664231 original size:43 final size:42
Alignment explanation
Indices: 29664106--29664262 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
29664096 TGTGTTATCG
* * *
29664106 TGTAAGACCACGTCTGGGAC-GTTGGCATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCATC-AATTATGATTT-CA
* * * *
29664150 TGTAAGACCATGTCTGGGACATTGGCATC-GTATATGATTTCT
1 TGTAAGACCACGTCTGGGACAGTGGCATCAAT-TATGATTTCA
** * *
29664192 TGTAAGACCTTGTCTGGGACAGTGGCATCAATGTTTGATTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCAAT-TATGATTTCA
*
29664235 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACAGTGGCAT
29664263 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.31
43 40 0.42
44 26 0.27
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCAATTATGATTTCA
Found at i:29686074 original size:43 final size:42
Alignment explanation
Indices: 29686004--29686122 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
29685994 CACACAGTAC
* * *
29686004 CGTACCAATGCCATAACCCAGAGATGGTCTTATATGTAA-TCT
1 CGTATCAATGCCATAACCCAGATATGGTCTTACATG-AAGTCT
* *
29686046 CGTATCAATGCCAATAACCTAGCTATGGTCTTACATGAAGTCT
1 CGTATCAATGCC-ATAACCCAGATATGGTCTTACATGAAGTCT
* *
29686089 CGTATCGATGCCATATCCCAGATATGGTCTTACA
1 CGTATCAATGCCATAACCCAGATATGGTCTTACA
29686123 CATAATCTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
CGTATCAATGCCATAACCCAGATATGGTCTTACATGAAGTCT
Found at i:29686193 original size:16 final size:16
Alignment explanation
Indices: 29686168--29686213 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
29686158 ACTGGAATAG
29686168 AATAGGGCTGTAATGA
1 AATAGGGCTGTAATGA
* *
29686184 AATAGAGCTGTAATGG
1 AATAGGGCTGTAATGA
29686200 AATAGGGCTGTAAT
1 AATAGGGCTGTAAT
29686214 CAGTAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.26
Consensus pattern (16 bp):
AATAGGGCTGTAATGA
Found at i:29691459 original size:27 final size:27
Alignment explanation
Indices: 29691423--29691568 Score: 161
Period size: 27 Copynumber: 5.4 Consensus size: 27
29691413 ACATAGGACG
* * *
29691423 AAACAATCATCTTACCATATAAGGGCA
1 AAACAGTCATTTTACCACATAAGGGCA
* * *
29691450 AAATAGTCATTTTACCA-ATGAGGGTA
1 AAACAGTCATTTTACCACATAAGGGCA
*
29691476 AAACAATCATTTTACCACATAAGGGCA
1 AAACAGTCATTTTACCACATAAGGGCA
* * *
29691503 AAATAGTCATTTTACCTTC-TGAGGGCA
1 AAACAGTCATTTTACC-ACATAAGGGCA
* *
29691530 AAACAGTCATTTTACCCCATAAGGGAA
1 AAACAGTCATTTTACCACATAAGGGCA
29691557 AAACAGTCATTT
1 AAACAGTCATTT
29691569 CATTAAATTG
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.23
27 75 0.76
28 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
AAACAGTCATTTTACCACATAAGGGCA
Found at i:29691503 original size:53 final size:54
Alignment explanation
Indices: 29691423--29691568 Score: 204
Period size: 54 Copynumber: 2.7 Consensus size: 54
29691413 ACATAGGACG
* * *
29691423 AAACAATCATCTTACCATATAAGGGCAAAATAGTCATTTTACC-AATGAGGGTA
1 AAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGGCA
**
29691476 AAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTTCTGAGGGCA
1 AAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGGCA
* * * *
29691530 AAACAGTCATTTTACCCCATAAGGGAAAAACAGTCATTT
1 AAACAATCATTTTACCACATAAGGGCAAAATAGTCATTT
29691569 CATTAAATTG
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 41 0.49
54 42 0.51
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (54 bp):
AAACAATCATTTTACCACATAAGGGCAAAATAGTCATTTTACCTAATGAGGGCA
Found at i:29707341 original size:27 final size:26
Alignment explanation
Indices: 29707302--29707416 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
29707292 CCCGCATTGC
* *
29707302 AAAATTAACGAAATACCCTCGATTTCA
1 AAAATTATCGAAATACCC-CGATTTAA
* *
29707329 AAAATTATTGAAATACCCCTAGTTTAA
1 AAAATTATCGAAATACCCCGA-TTTAA
* *
29707356 AAAATTATCGAAATACCCCTGGTTTGA
1 AAAATTATCGAAATACCCC-GATTTAA
* * *
29707383 AAAATTATCAAAATACCCCCAATTTAG
1 AAAATTATCGAAATA-CCCCGATTTAA
29707410 AAAATTA
1 AAAATTA
29707417 CCAAAATAGC
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.03
27 66 0.92
28 4 0.06
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAATTATCGAAATACCCCGATTTAA
Found at i:29707371 original size:54 final size:54
Alignment explanation
Indices: 29707302--29707453 Score: 148
Period size: 54 Copynumber: 2.8 Consensus size: 54
29707292 CCCGCATTGC
** * *
29707302 AAAATTAACGAAATA-CCCTCGATTTCAAAAATTATTGAAATACCCCTAGTTTAA
1 AAAATTAACGAAATACCCCT-GATTTCAAAAATTATCAAAATACCCCCAATTTAA
* * * *
29707356 AAAATTATCGAAATACCCCTGGTTTGAAAAATTATCAAAATACCCCCAATTTAG
1 AAAATTAACGAAATACCCCTGATTTCAAAAATTATCAAAATACCCCCAATTTAA
* * * *
29707410 AAAATTACCAAAATAGCCCTG-GTTCATAAAATTA-CTAAAATACC
1 AAAATTAACGAAATACCCCTGATTTCA-AAAATTATC-AAAATACC
29707454 TTGGTAGTGT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 4 0.05
54 74 0.90
55 4 0.05
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.28
Consensus pattern (54 bp):
AAAATTAACGAAATACCCCTGATTTCAAAAATTATCAAAATACCCCCAATTTAA
Found at i:29707421 original size:27 final size:27
Alignment explanation
Indices: 29707329--29707453 Score: 110
Period size: 27 Copynumber: 4.6 Consensus size: 27
29707319 CTCGATTTCA
** *
29707329 AAAATTATTGAAATACCCCTAGTTTAA
1 AAAATTATCAAAATACCCCTAGTTTAG
* *
29707356 AAAATTATCGAAATACCCCTGGTTT-G
1 AAAATTATCAAAATACCCCTAGTTTAG
* *
29707382 AAAAATTATCAAAATACCCCCAATTTAG
1 -AAAATTATCAAAATACCCCTAGTTTAG
* * * * *
29707410 AAAATTACCAAAATAGCCCTGGTTCAT
1 AAAATTATCAAAATACCCCTAGTTTAG
29707437 AAAATTA-CTAAAATACC
1 AAAATTATC-AAAATACC
29707454 TTGGTAGTGT
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATTATCAAAATACCCCTAGTTTAG
Found at i:29707482 original size:27 final size:27
Alignment explanation
Indices: 29707448--29707530 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
29707438 AAATTACTAA
29707448 AATA-CCTTGGTAGTGTAAAA-GACCGT
1 AATACCCTT-GTAGTGTAAAATGACCGT
*
29707474 AATACCCTTGTA-TGGTAAAATGACCAT
1 AATACCCTTGTAGT-GTAAAATGACCGT
* *
29707501 AATACCCCTGTAGGGTAAAATGACCGT
1 AATACCCTTGTAGTGTAAAATGACCGT
29707528 AAT
1 AAT
29707531 GCTCCTATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
25 1 0.02
26 13 0.27
27 35 0.71
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATACCCTTGTAGTGTAAAATGACCGT
Found at i:29707544 original size:27 final size:26
Alignment explanation
Indices: 29707462--29707551 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 26
29707452 CCTTGGTAGT
29707462 GTAAAA-GACCGTAATACCCTTGTATG
1 GTAAAATGACCGTAATACCC-TGTATG
* *
29707488 GTAAAATGACCATAATACCCCTGTAGG
1 GTAAAATGACCGTAATA-CCCTGTATG
* *
29707515 GTAAAATGACCGTAATGCTCCTATATG
1 GTAAAATGACCGTAATAC-CCTGTATG
*
29707542 GTAGAATGAC
1 GTAAAATGAC
29707552 GATTATGCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 7 0.13
27 44 0.81
28 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (26 bp):
GTAAAATGACCGTAATACCCTGTATG
Found at i:29713844 original size:40 final size:40
Alignment explanation
Indices: 29713799--29714023 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
29713789 CTTGCACAAG
* * * * *
29713799 GCCTTCGAGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
29713839 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
29713879 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
29713919 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * ** * *
29713959 GCCTTCGGATCTTAGTCCGCTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
29714000 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
29714024 CATTCGAATA
Statistics
Matches: 156, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:29713897 original size:80 final size:80
Alignment explanation
Indices: 29713763--29714023 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
29713753 CTCAAGTAAT
* * * * * * * *
29713763 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGAGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
29713826 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
29713841 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
29713905 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * **
29713921 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGCTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
29713986 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
29714002 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
29714024 CATTCGAATA
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 92 0.60
81 33 0.22
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:29713984 original size:120 final size:120
Alignment explanation
Indices: 29713763--29714023 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 120
29713753 CTCAAGTAAT
* * *
29713763 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGAGTCTTAGCCCGGATGTGGTC
1 CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTC
* * * *
29713827 ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGCATATAGTCACCTAGCACAAAAGC
* * * *
29713881 CTTCGGGTTTTAGCCCGGATATAA-TCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGATTTAGCCCGGATATAACT-ACTAGCAC-AAGGCCTTCGAGTCTTAGCCCGGATATAG
* * * *
29713945 -CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGCTTATAGTCACCTAGCACAAAAGC
64 TC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGCATATAGTCACCTAGCACAAAAGC
*
29714002 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGATTTAGCCCGGATAT
29714024 CATTCGAATA
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 13 0.11
119 20 0.17
120 55 0.46
121 32 0.27
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (120 bp):
CTTCGGGATTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGAGTCTTAGCCCGGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAGCCCGCATATAGTCACCTAGCACAAAAGC
Found at i:29719481 original size:44 final size:44
Alignment explanation
Indices: 29719418--29719576 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 44
29719408 TATGTGTTAT
* *
29719418 CGTGTAAGACCACGTCTGGGACGTTAGCATCGACT-TGTGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATATGATTTA
* *
29719462 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTTA
* ** * * *
29719504 CTTGTAAGACCTTGTCTGGGACAG-TGGCATCAATGTTTGA-TTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATATGATTTA
* *
29719547 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
29719577 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 30 0.31
43 37 0.39
44 29 0.30
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTTA
Found at i:29719779 original size:19 final size:19
Alignment explanation
Indices: 29719757--29719794 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
29719747 TATGACAACG
29719757 AATGATATGA-ATGTATATA
1 AATGA-ATGATATGTATATA
*
29719776 AATGAATGATGTGTATATA
1 AATGAATGATATGTATATA
29719795 TGCTCGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (19 bp):
AATGAATGATATGTATATA
Found at i:29728584 original size:40 final size:40
Alignment explanation
Indices: 29728515--29728723 Score: 170
Period size: 41 Copynumber: 5.2 Consensus size: 40
29728505 CGGGGTTTAG
** * * *
29728515 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
* * * *
29728554 TCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
* * * **
29728594 CCGGATATAGTCGCTAGCACAAATGCTTTC-AGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAAC
* * * * * *
29728634 CCAGATGTAGTCGCTTAGAACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAAC
* * *
29728675 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAAC
29728716 CCGGATAT
1 CCGGATAT
29728724 CATTCTAGTA
Statistics
Matches: 140, Mismatches: 26, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
39 16 0.11
40 58 0.41
41 64 0.46
42 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAAC
Found at i:29728673 original size:41 final size:41
Alignment explanation
Indices: 29728538--29728723 Score: 216
Period size: 41 Copynumber: 4.6 Consensus size: 41
29728528 CTCGCACAAG
* * * * * * *
29728538 GCCTTCGGGTCTTAACTCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
29728578 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * * * * *
29728618 GCTTTC-AGATCTTAGTCCAGATGTAGTCGCTTAGAACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
29728659 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
29728700 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
29728724 CATTCTAGTA
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 56 0.45
41 64 0.52
42 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:29733048 original size:125 final size:125
Alignment explanation
Indices: 29732851--29733096 Score: 350
Period size: 125 Copynumber: 2.0 Consensus size: 125
29732841 ACATATTTCT
* * * *
29732851 GAGCCAACATTGAGGATATTACAGCTGCCAACCCATCCAAGTCCGTAGACTCAACTCGGATTACT
1 GAGCCAACATCGAGGATATTACAGCTGCCAACCCATCCAAGTCAGTAGACTCAACTCGAATCACT
* *
29732916 TCGTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATCATGC
66 TCATTATTTGCACACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATCATGC
* * * *
29732976 GAGCCAACATCGATGATATTACAGCTGGCGACCCATTCAAGTCAGTAGACTCAACTCGAATCA-T
1 GAGCCAACATCGAGGATATTACAGCTGCCAACCCATCCAAGTCAGTAGACTCAACTCGAATCACT
* * * *
29733040 CTCATTATTTGCACACCTCAAATCGATAGTTTTTCTTTTGCAATTCACAACTGCATC
66 -TCATTATTTGCACACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATC
29733097 GTGAACAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
124 1 0.01
125 105 0.99
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (125 bp):
GAGCCAACATCGAGGATATTACAGCTGCCAACCCATCCAAGTCAGTAGACTCAACTCGAATCACT
TCATTATTTGCACACCTCAAATCAATAGTCTTGCTTTTGCAATTCACAACCGCATCATGC
Found at i:29733176 original size:98 final size:98
Alignment explanation
Indices: 29733006--29733194 Score: 272
Period size: 98 Copynumber: 1.9 Consensus size: 98
29732996 ACAGCTGGCG
* * *
29733006 ACCCATTCAAGTCAGTAGACTCAACTCGAATCATCTCATTATTTGCACACCTCAAATCGATAGTT
1 ACCCATCCAAGTCAGTAGACTCAACTCGAATCATCTCATTATTTGCACACCTCAAATCAATAGTC
* *
29733071 TTTCTTTTGCAATTCACAACTGCATCGTGAACA
66 TTGCTTTTGCAATTCACAACCGCATCGTGAACA
* * * * *
29733104 ACCCATCCAAGTCCGTAGACTCAACTCGGATTA-CTTCGTTATTTGCGCACCTCAAATCAATAGT
1 ACCCATCCAAGTCAGTAGACTCAACTCGAATCATC-TCATTATTTGCACACCTCAAATCAATAGT
29733168 CTTGCTTTTGCAATTCACAACCGCATC
65 CTTGCTTTTGCAATTCACAACCGCATC
29733195 ATGCACGGTC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 1 0.01
98 79 0.99
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (98 bp):
ACCCATCCAAGTCAGTAGACTCAACTCGAATCATCTCATTATTTGCACACCTCAAATCAATAGTC
TTGCTTTTGCAATTCACAACCGCATCGTGAACA
Found at i:29733592 original size:109 final size:109
Alignment explanation
Indices: 29733401--29733617 Score: 389
Period size: 109 Copynumber: 2.0 Consensus size: 109
29733391 GTTGCTAAGG
29733401 TTTCACATATATAAGAATGAGTAGAACCAGGGTCAATCAAAGCAATCACATTAGTATCAAAGAGA
1 TTTCACATATATAAGAATGAGTAGAACCAGGGTCAATCAAAGCAATCACATTAGTATCAAAGAGA
* *
29733466 GTGAAAGTACCGGTAATACCATCAGGCGAAGAAGCATCCTCGCC
66 GTAAAAGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCC
* * *
29733510 TTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGA
1 TTTCACATATATAAGAATGAGTAGAACCAGGGTCAATCAAAGCAATCACATTAGTATCAAAGAGA
29733575 GTAAAAGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGC
66 GTAAAAGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGC
29733618 GGGCACGTAT
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (109 bp):
TTTCACATATATAAGAATGAGTAGAACCAGGGTCAATCAAAGCAATCACATTAGTATCAAAGAGA
GTAAAAGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCC
Found at i:29742558 original size:74 final size:74
Alignment explanation
Indices: 29742471--29742619 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
29742461 TCTAAAACAT
29742471 ATATTTCATATTTCATCATCAAAAAACAAAAATCACAAGCTCTCAACAATGGCATAACTCAAAAT
1 ATATTTCATATTTCATCATCAAAAAACAAAAATCACAAGCTCTCAACAATGGCATAACTCAAAAT
29742536 ATTCACCAA
66 ATTCACCAA
29742545 ATATTTCATATTTCATCATCAAAAAACAAAAATCACAAGCTCTCAACAATGGCATAACTCAAAAT
1 ATATTTCATATTTCATCATCAAAAAACAAAAATCACAAGCTCTCAACAATGGCATAACTCAAAAT
29742610 ATTCACCAA
66 ATTCACCAA
29742619 A
1 A
29742620 ATAAAAAAGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.48, C:0.23, G:0.04, T:0.26
Consensus pattern (74 bp):
ATATTTCATATTTCATCATCAAAAAACAAAAATCACAAGCTCTCAACAATGGCATAACTCAAAAT
ATTCACCAA
Found at i:29749363 original size:43 final size:42
Alignment explanation
Indices: 29749315--29749413 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
29749305 TCCTATACGT
* *
29749315 GGTCTTACATGTAATCAAATATCGGTGCC-ACTATCCCAGGCAG
1 GGTCTTACATGTAATCAAATAT-GATGCCGA-TATCCCAGACAG
* * * * *
29749358 GGTCTTAAATGAAATTAAATATGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATATGATGCCGATATCCCAGACAG
29749400 GGTCTTACATGTAA
1 GGTCTTACATGTAA
29749414 ATCATAAGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATATGATGCCGATATCCCAGACAG
Found at i:29752053 original size:43 final size:42
Alignment explanation
Indices: 29751983--29752101 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
29751973 CACACAGTAC
* * *
29751983 CGTACCAATGCCATAACCCAGAGATGGTCTTATATGTAA-TCT
1 CGTATCAATGCCATAACCCAGATATGGTCTTACATG-AAGTCT
* *
29752025 CGTATCAATGCCAATAACCTAGCTATGGTCTTACATGAAGTCT
1 CGTATCAATGCC-ATAACCCAGATATGGTCTTACATGAAGTCT
* *
29752068 CGTATCGATGCCATATCCCAGATATGGTCTTACA
1 CGTATCAATGCCATAACCCAGATATGGTCTTACA
29752102 CATAATCTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (42 bp):
CGTATCAATGCCATAACCCAGATATGGTCTTACATGAAGTCT
Found at i:29752172 original size:16 final size:16
Alignment explanation
Indices: 29752147--29752192 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
29752137 ACTGGAATAG
29752147 AATAGGGCTGTAATGA
1 AATAGGGCTGTAATGA
* *
29752163 AATAGAGCTGTAATGG
1 AATAGGGCTGTAATGA
29752179 AATAGGGCTGTAAT
1 AATAGGGCTGTAAT
29752193 TAGTAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.26
Consensus pattern (16 bp):
AATAGGGCTGTAATGA
Found at i:29757121 original size:18 final size:18
Alignment explanation
Indices: 29757098--29757143 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
29757088 TGCCCATTGT
*
29757098 AGTAACAGTAAACAGTGC
1 AGTAACAGTAAACAGTAC
*
29757116 AGTAACAGTAATCAGTAC
1 AGTAACAGTAAACAGTAC
*
29757134 AGTAATAGTA
1 AGTAACAGTA
29757144 CAGATATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.22
Consensus pattern (18 bp):
AGTAACAGTAAACAGTAC
Found at i:29757535 original size:27 final size:27
Alignment explanation
Indices: 29757496--29757653 Score: 201
Period size: 27 Copynumber: 5.9 Consensus size: 27
29757486 ATCTATACAT
* * * *
29757496 CACAT-AGGACAAAACAATCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
29757522 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
29757549 CACATGAGGGTAAAATAGTCGTTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
29757576 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
29757603 CTCATGAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
29757630 CCCATAAGGGCAAAATAGTCATTT
1 CACATAAGGGCAAAATAGTCATTT
29757654 CATTAAATTA
Statistics
Matches: 113, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 4 0.04
27 109 0.96
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:29757583 original size:54 final size:54
Alignment explanation
Indices: 29757496--29757653 Score: 228
Period size: 54 Copynumber: 2.9 Consensus size: 54
29757486 ATCTATACAT
* * * *
29757496 CACAT-AGGACAAAACAATCATCTTACCATATAAGGGCAAAATAGTCATTTTAC
1 CACATGAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAC
* * *
29757549 CACATGAGGGTAAAATAGTCGTTTTACCACATAAGGGCAAAATAGTCATTTTAC
1 CACATGAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAC
* *
29757603 CTCATGAGGGCAAAACAGTCATTTTACCCCATAAGGGCAAAATAGTCATTT
1 CACATGAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTT
29757654 CATTAAATTA
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 5 0.05
54 87 0.95
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (54 bp):
CACATGAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTCATTTTAC
Found at i:29758358 original size:18 final size:17
Alignment explanation
Indices: 29758320--29758359 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
29758310 ACCCCCGAGA
*
29758320 ATTTTCTAAACATGGTT
1 ATTTTCTAAACATGATT
29758337 ATTTTCTAAACATGCATT
1 ATTTTCTAAACATG-ATT
29758355 ATTTT
1 ATTTT
29758360 ACCTAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (17 bp):
ATTTTCTAAACATGATT
Found at i:29764421 original size:27 final size:26
Alignment explanation
Indices: 29764391--29764477 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 26
29764381 CCTCGATTTC
29764391 AAAAATTTCTGAAATACCCCTAGTTTA
1 AAAAATTTC-GAAATACCCCTAGTTTA
* *
29764418 AAAAATTATCGAAATACCCCTGGTTTG
1 AAAAATT-TCGAAATACCCCTAGTTTA
* *
29764445 AAAAATTACAGAAATACCCC-AATTTA
1 AAAAATTTC-GAAATACCCCTAGTTTA
*
29764471 GAAAATT
1 AAAAATT
29764478 ACCAAAATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.20
27 39 0.76
28 2 0.04
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAAATTTCGAAATACCCCTAGTTTA
Found at i:29764449 original size:54 final size:53
Alignment explanation
Indices: 29764365--29764515 Score: 146
Period size: 53 Copynumber: 2.8 Consensus size: 53
29764355 CCCGCATTCC
* * * *
29764365 AAAATTAACGAAA-AACCCTCGATTTCAAAAATTTCTGAAATACCCCTAGTTTAA
1 AAAATTAACGAAATAACCCT-GGTTTCAAAAATTACAGAAATACCCC-AATTTAA
* * * *
29764419 AAAATTATCGAAATACCCCTGGTTTGAAAAATTACAGAAATACCCCAATTTAG
1 AAAATTAACGAAATAACCCTGGTTTCAAAAATTACAGAAATACCCCAATTTAA
* * *
29764472 AAAATTACCAAAATAGCCCTGG-TTCATAAAATTACTA-AAATACC
1 AAAATTAACGAAATAACCCTGGTTTCA-AAAATTAC-AGAAATACC
29764516 TTGGTAGTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 3 0.04
53 39 0.48
54 35 0.43
55 5 0.06
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (53 bp):
AAAATTAACGAAATAACCCTGGTTTCAAAAATTACAGAAATACCCCAATTTAA
Found at i:29764485 original size:26 final size:26
Alignment explanation
Indices: 29764402--29764515 Score: 97
Period size: 27 Copynumber: 4.3 Consensus size: 26
29764392 AAAATTTCTG
* *
29764402 AAATACCCCTAGTTTAAAAAATTATCG
1 AAATACCCCTAGTTTAGAAAATTA-CA
*
29764429 AAATACCCCTGGTTT-GAAAAATTACA
1 AAATACCCCTAGTTTAG-AAAATTACA
*
29764455 GAAATACCCC-AATTTAGAAAATTACCA
1 -AAATACCCCTAGTTTAGAAAATTA-CA
* * * *
29764482 AAATAGCCCTGGTTCATAAAATTACTA
1 AAATACCCCTAGTTTAGAAAATTAC-A
29764509 AAATACC
1 AAATACC
29764516 TTGGTAGTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
26 20 0.29
27 50 0.71
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (26 bp):
AAATACCCCTAGTTTAGAAAATTACA
Found at i:29764503 original size:53 final size:54
Alignment explanation
Indices: 29764387--29764515 Score: 147
Period size: 53 Copynumber: 2.4 Consensus size: 54
29764377 AAACCCTCGA
* * * * *
29764387 TTTCAAAAATTTCTGAAATACCCCTAGTTTAAAAAATTATCGAAATACCCCTGG
1 TTTCAAAAATTACAGAAATACCCCTAATTTAAAAAATTACCAAAATACCCCTGG
* * *
29764441 TTTGAAAAATTACAGAAATACCCC-AATTTAGAAAATTACCAAAATAGCCCTGG
1 TTTCAAAAATTACAGAAATACCCCTAATTTAAAAAATTACCAAAATACCCCTGG
29764494 -TTCATAAAATTACTA-AAATACC
1 TTTCA-AAAATTAC-AGAAATACC
29764516 TTGGTAGTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.05
53 39 0.61
54 22 0.34
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (54 bp):
TTTCAAAAATTACAGAAATACCCCTAATTTAAAAAATTACCAAAATACCCCTGG
Found at i:29764540 original size:27 final size:26
Alignment explanation
Indices: 29764510--29764569 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
29764500 AAATTACTAA
*
29764510 AATACCTTGGTA-GTGTAAAAAGGCCGT
1 AATACCTT-GTATG-GTAAAAAGACCGT
*
29764537 AATACCCTTGTATGGTAAAATGACCGT
1 AATA-CCTTGTATGGTAAAAAGACCGT
29764564 AATACC
1 AATACC
29764570 CCTATAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 22 0.76
28 5 0.17
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (26 bp):
AATACCTTGTATGGTAAAAAGACCGT
Found at i:29764570 original size:27 final size:27
Alignment explanation
Indices: 29764524--29764607 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
29764514 CCTTGGTAGT
* * * * *
29764524 GTAAAAAGGCCGTAATACCCTTGTATG
1 GTAAAATGACCGTAATACCCCTATAGG
29764551 GTAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATACCCCTATAGG
* * * *
29764578 GTAAAATGACTGTAATGCTCCTATATG
1 GTAAAATGACCGTAATACCCCTATAGG
29764605 GTA
1 GTA
29764608 GAAAGACGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTATAGG
Found at i:29765115 original size:33 final size:33
Alignment explanation
Indices: 29765045--29765115 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
29765035 TTAGGTCCAC
** *
29765045 CTGATTTTGTTAATGGGCTAAGCCCAACTAGTA
1 CTGATTTTGAGAATGGGCTAAGCCCAACTAATA
* * *
29765078 CTGATTTTGAGAATGGGCTAGGCCCAATTAATT
1 CTGATTTTGAGAATGGGCTAAGCCCAACTAATA
29765111 CTGAT
1 CTGAT
29765116 GAGGGCTGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (33 bp):
CTGATTTTGAGAATGGGCTAAGCCCAACTAATA
Found at i:29770484 original size:232 final size:232
Alignment explanation
Indices: 29770078--29770544 Score: 889
Period size: 232 Copynumber: 2.0 Consensus size: 232
29770068 CAATGAAAAT
29770078 TTTGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAATAGGGGAAACCTTAAGAAAAA
1 TTTGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAATAGGGGAAACCTTAAGAAAAA
29770143 TCTGGTATTGATTGGCCAAACCTAAAATTCTGGAAATTTTATGGATGGAAGATATACGAGTCTAT
66 TCTGGTATTGATTGGCCAAACCTAAAATTCTGGAAATTTTATGGATGGAAGATATACGAGTCTAT
*
29770208 ATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTTTTGTACCTCCAGTTATAAATAATTTAGTGA
131 ATTCAGGGAAAATTAACGGCAAGTGATTTGAAGTTTTGTACCTCCAGTTATAAATAATTTAGTGA
*
29770273 CTATTGCTCAGGAAAACAGCTCATAGTGAATATGTGA
196 CTATTGCTCAGGAAAACAGCTCATAGTGAATATGTAA
29770310 TTTGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAATAGGGGAAACCTTAAGAAAAA
1 TTTGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAATAGGGGAAACCTTAAGAAAAA
*
29770375 TCTGGTATTGATTGGCCACACCTAAAATTCTGGAAATTTTATGGATGGAAGATATACGAGTCTAT
66 TCTGGTATTGATTGGCCAAACCTAAAATTCTGGAAATTTTATGGATGGAAGATATACGAGTCTAT
*
29770440 ATTCAGGGAAAATTAACGGGAAGTGATTTGAAGTTTTGTACCTCCAGTTATAAATAATTTAGTGA
131 ATTCAGGGAAAATTAACGGCAAGTGATTTGAAGTTTTGTACCTCCAGTTATAAATAATTTAGTGA
*
29770505 CTATTGCTCAGGAAAACAGCTCGTAGTGAATATGTAA
196 CTATTGCTCAGGAAAACAGCTCATAGTGAATATGTAA
29770542 TTT
1 TTT
29770545 TGTTGTAAAC
Statistics
Matches: 230, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
232 230 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (232 bp):
TTTGATTCGTAGTGAAGAGTGGTCAGATTAGTCAAACAGTGAAATAGGGGAAACCTTAAGAAAAA
TCTGGTATTGATTGGCCAAACCTAAAATTCTGGAAATTTTATGGATGGAAGATATACGAGTCTAT
ATTCAGGGAAAATTAACGGCAAGTGATTTGAAGTTTTGTACCTCCAGTTATAAATAATTTAGTGA
CTATTGCTCAGGAAAACAGCTCATAGTGAATATGTAA
Found at i:29770941 original size:47 final size:47
Alignment explanation
Indices: 29770872--29771043 Score: 301
Period size: 47 Copynumber: 3.7 Consensus size: 47
29770862 TTTTATGTGT
*
29770872 ATATATGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
*
29770919 ATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
* *
29770966 ATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29771013 ATATATGTGATAAGGCCGAATGGCC-ATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
29771044 AATATGTATG
Statistics
Matches: 121, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 6 0.05
47 115 0.95
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.25
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
Found at i:29771104 original size:48 final size:48
Alignment explanation
Indices: 29771014--29771341 Score: 525
Period size: 48 Copynumber: 6.8 Consensus size: 48
29771004 TGAACATGCA
* * *
29771014 TATATGTGATAAGGCCGAATGGC-CATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
29771061 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
29771109 TATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
29771157 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
29771205 CATATGTGGTAAAGCCGAATCGGC-AATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAAT-GGCTAATGTG-AA-ATATGTATGAGATATG
* *
29771255 TAAATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
29771303 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
29771342 GGCGATGTGC
Statistics
Matches: 262, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
47 21 0.08
48 193 0.74
49 10 0.04
50 38 0.15
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:29771301 original size:146 final size:144
Alignment explanation
Indices: 29771014--29771341 Score: 525
Period size: 146 Copynumber: 2.3 Consensus size: 144
29771004 TGAACATGCA
* * * *
29771014 TATATGTGATAAGGCCGAATGGC-CATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
* * *
29771078 AATGGCTAATGTGAAATATGCATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAAT
66 AATGGCTAATGTGAAATATACATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29771143 ATGTATGAGATATG
131 ATGTATGAGATATG
29771157 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
* *
29771222 AATCGGC-AATGTGAAATATATATATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAGTGTGA
66 AAT-GGCTAATGTG-AA-ATATACATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGA
29771286 AATATGTATGAGATATG
128 AATATGTATGAGATATG
*
29771303 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
29771342 GGCGATGTGC
Statistics
Matches: 171, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
143 21 0.12
144 48 0.28
145 5 0.03
146 97 0.57
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (144 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
AATGGCTAATGTGAAATATACATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAAT
ATGTATGAGATATG
Found at i:29771545 original size:37 final size:38
Alignment explanation
Indices: 29771491--29771595 Score: 162
Period size: 37 Copynumber: 2.8 Consensus size: 38
29771481 AATATATTCT
29771491 GGGT-AAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
29771528 GGG-AAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
29771565 GGGTAAA-ACCCGATAACTTCGTGTGGAGATT
1 GGGTAAAGACCCGATGACTACGTGTGGAGATT
29771596 TCGTCTGAGC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
37 60 0.95
38 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (38 bp):
GGGTAAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:29772922 original size:40 final size:40
Alignment explanation
Indices: 29772865--29773293 Score: 606
Period size: 40 Copynumber: 10.7 Consensus size: 40
29772855 GAGAATTGAG
* * *
29772865 AGTGATATATCCGGGCTAAGTCCCGTAGGGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29772905 AGTGATATATCCAGGCTAAGTCCCGAAGGGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
29772945 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
29772985 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29773025 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29773065 AGTGATTTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29773105 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29773145 AGTGATTTATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
29773185 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
29773225 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
29773265 GGTGTTATATCCGGGCTAGGTCCCGAAGA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGA
29773294 ACAATCATGC
Statistics
Matches: 346, Mismatches: 43, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 346 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:29773513 original size:25 final size:25
Alignment explanation
Indices: 29773472--29773522 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
29773462 GTGTAATAAC
29773472 GAATGAATAAGAGCACTATGTGTGT
1 GAATGAATAAGAGCACTATGTGTGT
* *
29773497 GAATG-ATTAGAGACACTGTGTGTGT
1 GAATGAATAAGAG-CACTATGTGTGT
29773522 G
1 G
29773523 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (25 bp):
GAATGAATAAGAGCACTATGTGTGT
Found at i:29777424 original size:47 final size:47
Alignment explanation
Indices: 29777355--29777762 Score: 762
Period size: 47 Copynumber: 8.7 Consensus size: 47
29777345 TTTTATGTGT
* *
29777355 ATATATGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29777402 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29777449 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29777496 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29777543 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29777590 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29777637 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
29777684 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
* * * *
29777731 GTATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATATGTGTTAAGGCCGAATGGCCAATGTGA
29777763 AATATGTATG
Statistics
Matches: 355, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 355 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (47 bp):
ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
Found at i:29777797 original size:48 final size:48
Alignment explanation
Indices: 29777731--29777964 Score: 364
Period size: 48 Copynumber: 4.8 Consensus size: 48
29777721 ATGAACATGC
29777731 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
*
29777779 GGATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
*
29777827 -TCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATAT
1 GT-ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATAT
* *
29777877 GTAAATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
* *
29777925 GTATCTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
29777965 GGCGATGTGC
Statistics
Matches: 172, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 126 0.73
49 4 0.02
50 39 0.23
51 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
Found at i:29777863 original size:141 final size:136
Alignment explanation
Indices: 29777355--29777816 Score: 606
Period size: 141 Copynumber: 3.3 Consensus size: 136
29777345 TTTTATGTGT
* * *
29777355 ATATATGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGTTAAGGCCG
1 ATATATGTGGTAAAGCCGAATGGCCAATGTGA-GAATATGAACAT-CATATATGTGTTAAGGCCG
* *
29777420 AATGGCCAATGTGATGAATATGAACATGCATATATGTGTTAAGGCCGAATGGCCAATGTGATGAA
64 AATGGCCAATGTGA-GAATATGAACATGCATATATGTGGTAAAGCCGAATGGCCAATGTGA-GAA
29777485 TATGAACATGC
127 TATGAACAT-C
* *
29777496 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGTTAAGGCCG
1 ATATATGTGGTAAAGCCGAATGGCCAATGTGA-GAATATGAACAT-CATATATGTGTTAAGGCCG
* *
29777561 AATGGCCAATGTGATGAATATGAACATGCATATATGTGTTAAGGCCGAATGGCCAATGTGATGAA
64 AATGGCCAATGTGA-GAATATGAACATGCATATATGTGGTAAAGCCGAATGGCCAATGTGA-GAA
29777626 TATGAACATGC
127 TATGAACAT-C
* *
29777637 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGTTAAGGCCG
1 ATATATGTGGTAAAGCCGAATGGCCAATGTGA-GAATATGAACAT-CATATATGTGTTAAGGCCG
* *
29777702 AATGGCCAATGTGATGAATATGAACATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGA-AAT
64 AATGGCCAATGTGA-GAATATGAACATGCATATATGTGGTAAAGCCGAATGGCCAATGTGAGAAT
*
29777766 ATGTATGAGAT-
128 ATG-A--ACATC
*
29777777 ATGGATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATG
1 AT--ATATGTGGTAAAGCCGAATGGCCAATGTGAGAATATG
29777817 TATGAGATAT
Statistics
Matches: 306, Mismatches: 10, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
139 6 0.02
140 9 0.03
141 261 0.85
142 30 0.10
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.27
Consensus pattern (136 bp):
ATATATGTGGTAAAGCCGAATGGCCAATGTGAGAATATGAACATCATATATGTGTTAAGGCCGAA
TGGCCAATGTGAGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCCAATGTGAGAATATG
AACATC
Found at i:29777902 original size:98 final size:98
Alignment explanation
Indices: 29777731--29777961 Score: 362
Period size: 98 Copynumber: 2.4 Consensus size: 98
29777721 ATGAACATGC
* *
29777731 GTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGGATATGTGGTAAAG
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGGAAATGTGGTAAAG
29777794 CCGAATGGCTAATGTGAAATATGTATGAGATAT
66 CCGAATGGCTAATGTGAAATATGTATGAGATAT
*
29777827 -TCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTAAATGTGGTAA
1 GT-ATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATGAGATATGGAAATGTGGTAA
*
29777890 AGCCGAATGGCTAGTGTGAAATATGTATGAGATAT
64 AGCCGAATGGCTAATGTGAAATATGTATGAGATAT
* *
29777925 GTATCTGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
29777962 GTAGGCGATG
Statistics
Matches: 123, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
95 2 0.02
96 27 0.22
97 2 0.02
98 90 0.73
99 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (98 bp):
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGGAAATGTGGTAAAG
CCGAATGGCTAATGTGAAATATGTATGAGATAT
Found at i:29778219 original size:37 final size:37
Alignment explanation
Indices: 29778111--29778219 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
29778101 GGAAATATAT
*
29778111 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
29778148 TCCGGGAAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29778185 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
29778220 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29779323 original size:27 final size:27
Alignment explanation
Indices: 29779293--29779497 Score: 148
Period size: 27 Copynumber: 7.6 Consensus size: 27
29779283 CCCAGATTGT
*
29779293 AAAATTACTGAAATACCCCCGATTTGA
1 AAAATTACCGAAATACCCCCGATTTGA
** * *
29779320 AAAATTGTCGAAATACTCCCAGA-TTGT
1 AAAATTACCGAAATAC-CCCCGATTTGA
* ** * * * *
29779347 AAAAGTATTGAAAGACCCTCGGTTTGG
1 AAAATTACCGAAATACCCCCGATTTGA
29779374 AAAATTACCGAAATA-CCCCGATTT-A
1 AAAATTACCGAAATACCCCCGATTTGA
* * *
29779399 GAAAGTTATCGAAATACCCCC-AGTTTAA
1 -AAAATTACCGAAATACCCCCGA-TTTGA
* * * *
29779427 AAAATTACCAAAATACCCCTGGTTTGG
1 AAAATTACCGAAATACCCCCGATTTGA
* * * *
29779454 AAAATTACCAAAATACCTCCAATTTGG
1 AAAATTACCGAAATACCCCCGATTTGA
29779481 AAAATTACCGAAATACC
1 AAAATTACCGAAATACC
29779498 TTGGTAGTGT
Statistics
Matches: 137, Mismatches: 34, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
26 24 0.18
27 107 0.78
28 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCCGATTTGA
Found at i:29779378 original size:54 final size:53
Alignment explanation
Indices: 29779281--29779497 Score: 163
Period size: 54 Copynumber: 4.1 Consensus size: 53
29779271 GGTCGTTAAG
* * **
29779281 ACCCCAGATTGTAAAATTACTGAAATACCCCCGATTTGAAAAATTGTCGAAAT
1 ACCCCAGATTGTAAAAGTACTGAAAGACCCCCGATTTGAAAAATTACCGAAAT
* * * *
29779334 ACTCCCAGATTGTAAAAGTATTGAAAGACCCTCGGTTTGGAAAATTACCGAAAT
1 AC-CCCAGATTGTAAAAGTACTGAAAGACCCCCGATTTGAAAAATTACCGAAAT
* * *
29779388 ACCCC-GATT-TAGAAAGTTA-TCGAAATACCCCC-AGTTTAAAAAATTACCAAAAT
1 ACCCCAGATTGTA-AAAG-TACT-GAAAGACCCCCGA-TTTGAAAAATTACCGAAAT
* * * * ** * * * *
29779441 ACCCCTGGTTTGGAAAATTACCAAAATACCTCCAATTTGGAAAATTACCGAAAT
1 ACCCC-AGATTGTAAAAGTACTGAAAGACCCCCGATTTGAAAAATTACCGAAAT
29779495 ACC
1 ACC
29779498 TTGGTAGTGT
Statistics
Matches: 131, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
51 2 0.02
52 9 0.07
53 37 0.28
54 75 0.57
55 7 0.05
56 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (53 bp):
ACCCCAGATTGTAAAAGTACTGAAAGACCCCCGATTTGAAAAATTACCGAAAT
Found at i:29780383 original size:38 final size:38
Alignment explanation
Indices: 29780341--29780416 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
29780331 TTCATCCTTT
29780341 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
* *
29780379 TTCATTTCTTTTGGCCGAAAATTCTAAGGAGGGAGGAA
1 TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
29780417 GGAGTTCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCAAAAATTCTAAGGAAGGAGGAA
Found at i:29781705 original size:40 final size:40
Alignment explanation
Indices: 29781604--29781748 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
29781594 TACTCGAATG
* *
29781604 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * * *
29781645 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGGTAGCAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
29781685 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
29781725 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
29781749 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.68
41 26 0.30
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:29785400 original size:22 final size:22
Alignment explanation
Indices: 29785358--29785401 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
29785348 AAAATGTGCA
* *
29785358 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
29785380 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
29785402 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:29794005 original size:46 final size:46
Alignment explanation
Indices: 29793933--29794022 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
29793923 GTGATGCATC
* *
29793933 ACTGTAGACAATGAATTCTTTTCCAGACTCTGGCTGTGTCAAGATA
1 ACTGTAGACAATGAATTCTTTCCCAGACTCTGGCTGTATCAAGATA
29793979 ACTGTAGACAATG-ATCTCTTTCCCAGACTCTGGCTGTATCAAGA
1 ACTGTAGACAATGAAT-TCTTTCCCAGACTCTGGCTGTATCAAGA
29794023 CAAGGGCCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 2 0.05
46 39 0.95
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (46 bp):
ACTGTAGACAATGAATTCTTTCCCAGACTCTGGCTGTATCAAGATA
Found at i:29798115 original size:46 final size:44
Alignment explanation
Indices: 29798048--29798221 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 44
29798038 TGTAACCCGC
29798048 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TT-GCAT
* *
29798094 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CTTGCAT
* *** * * *
29798140 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTGCAT
* *
29798186 CCATAAGTGAACTCGGACTTAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
29798222 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 28 0.26
46 46 0.43
47 28 0.26
48 2 0.02
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTGCAT
Found at i:29798214 original size:92 final size:93
Alignment explanation
Indices: 29798056--29798225 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
29798046 GCCCATAAGT
* *
29798056 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29798121 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
29798149 GAACTCGGACTCAACTCAACGAGTTCGGACATT-TCATCCATAAGTGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29798213 CGAGTTCGGATGC
66 CGAGCTCGGATGC
29798226 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 41 0.58
93 30 0.42
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:29802646 original size:13 final size:13
Alignment explanation
Indices: 29802608--29802647 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
29802598 AACAAAGTAA
* *
29802608 GACACGGCCGTGC
1 GACACGGTCGTGT
29802621 GACACGGTCGTGT
1 GACACGGTCGTGT
29802634 GACACGGTCGTGT
1 GACACGGTCGTGT
29802647 G
1 G
29802648 CACCAACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.28, G:0.40, T:0.17
Consensus pattern (13 bp):
GACACGGTCGTGT
Found at i:29802906 original size:19 final size:18
Alignment explanation
Indices: 29802871--29802906 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
29802861 CTTCATTTTT
*
29802871 CTCCCCTCTCTCTCCCTC
1 CTCCCCTCTCTCACCCTC
29802889 CTCCCCTCTTCTCACCCT
1 CTCCCCTC-TCTCACCCT
29802907 TGCGCACCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.03, C:0.64, G:0.00, T:0.33
Consensus pattern (18 bp):
CTCCCCTCTCTCACCCTC
Found at i:29806998 original size:21 final size:21
Alignment explanation
Indices: 29806972--29807024 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
29806962 AGTGATGACG
* *
29806972 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAACA
29806993 GTGAGATTAGATACTGTAACA
1 GTGAGATTAGATACTGTAACA
29807014 GTGAGATTAGA
1 GTGAGATTAGA
29807025 AACAATAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAACA
Found at i:29807327 original size:14 final size:13
Alignment explanation
Indices: 29807296--29807333 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
29807286 TAGTAAAATA
*
29807296 ATAAATATTTGAT
1 ATAAATATTTTAT
29807309 A-AAATATTTTATT
1 ATAAATATTTTA-T
29807322 ATAAATATTTTA
1 ATAAATATTTTA
29807334 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 9 0.41
13 3 0.14
14 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATAAATATTTTAT
Found at i:29809552 original size:21 final size:21
Alignment explanation
Indices: 29809507--29809553 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
29809497 GAATTGTGAG
* *
29809507 TTCTACTGATACAACTCTGGG
1 TTCTACTGATACAACTCCGGC
29809528 TTCTACTGATACAAC-CCGGAC
1 TTCTACTGATACAACTCCGG-C
29809549 TTCTA
1 TTCTA
29809554 TCGATAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (21 bp):
TTCTACTGATACAACTCCGGC
Found at i:29811727 original size:37 final size:37
Alignment explanation
Indices: 29811625--29811763 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
29811615 CGAATAGTCC
* * *
29811625 CCACACGTAGTTATTGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
29811662 CCACACGTAGTCATC-GGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
29811698 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
29811735 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
29811764 ATATATTTCC
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 35 0.36
37 63 0.64
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:29811744 original size:73 final size:74
Alignment explanation
Indices: 29811625--29811763 Score: 244
Period size: 73 Copynumber: 1.9 Consensus size: 74
29811615 CGAATAGTCC
* *
29811625 CCACACGTAGTTATTGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATC-GGTCTTACCCGG
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
29811689 ACATAATCT
66 ACATAATCT
*
29811698 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
29811763 A
66 A
29811764 ATATATTTCC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
73 49 0.79
74 13 0.21
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (74 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
ACATAATCT
Found at i:29811965 original size:48 final size:48
Alignment explanation
Indices: 29811904--29812424 Score: 898
Period size: 48 Copynumber: 10.9 Consensus size: 48
29811894 ATATACACAC
* * *
29811904 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
29811952 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
29812000 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
29812048 ATGTCATATATATTTCACATTAGCCATTCGGCTTTACGACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
29812096 ATCTCATACATATTTCACATTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
29812144 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATACACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
29812192 ATCTCATATATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
29812240 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
29812288 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
29812336 ATCACATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
29812384 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
29812425 CACATATATA
Statistics
Matches: 449, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 449 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:29815112 original size:9 final size:9
Alignment explanation
Indices: 29815098--29815183 Score: 91
Period size: 9 Copynumber: 9.6 Consensus size: 9
29815088 ATAAGTATAA
*
29815098 AATTAACTG
1 AATTAACCG
29815107 AATTAACCG
1 AATTAACCG
*
29815116 AATTAATCG
1 AATTAACCG
29815125 AATTAACCG
1 AATTAACCG
* *
29815134 AATCACCCG
1 AATTAACCG
* *
29815143 AATTACCCA
1 AATTAACCG
**
29815152 AATTAATTG
1 AATTAACCG
*
29815161 AATTAACCA
1 AATTAACCG
29815170 AATTAACCG
1 AATTAACCG
29815179 AATTA
1 AATTA
29815184 TTTGTATAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:29815218 original size:5 final size:6
Alignment explanation
Indices: 29815203--29815243 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
29815193 AATTATATGT
*
29815203 TTTTTA TTTTTA TTTTTAA TTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTT-A TTTT-TA TTTTTA TTTTTA TTT
29815244 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:29821859 original size:47 final size:47
Alignment explanation
Indices: 29821695--29821901 Score: 179
Period size: 47 Copynumber: 4.4 Consensus size: 47
29821685 TGATTTTTAC
* ** * *
29821695 GCCAGTGTAAGACATGTCTGGGACAT-GCTTTGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCATACTATGAGA
* * * * * *
29821741 CCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCCAAACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCATAC-TATGAGA
* * *
29821789 GCTAGTGTAAGACATGTCAGGGACAT-GCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCATACTATGAGA
* ** * *
29821835 GCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACA-AAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGC-CATACTATGAGA
29821883 GCCAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCT
29821902 AAGACATGCA
Statistics
Matches: 126, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
46 30 0.24
47 53 0.42
48 41 0.33
49 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCATACTATGAGA
Found at i:29821890 original size:94 final size:94
Alignment explanation
Indices: 29821695--29821913 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 94
29821685 TGATTTTTAC
* * ** *
29821695 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGACCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCAGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
* *
29821760 TGGGACATGGCATCGACATCCAAACGAGG
66 TGGGACATGGCATCGACATCAAAACAAGG
* * * * *
29821789 GCTAGTGTAAGACATGTCAGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATTTC
1 GCCAGTGTAAGACATGTCAGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
* *
29821854 TGGGACATGGCATC-AGCA-CAAAGATAAGT
66 TGGGACATGGCATCGA-CATCAAA-ACAAGG
*
29821883 GCCAGTGTAAGACATGTCTA-AGACATGCATC
1 GCCAGTGTAAGACATGTC-AGGGACATGCATC
29821914 GGCCTCGACA
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 4 0.04
94 101 0.95
95 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCAGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATCAAAACAAGG
Found at i:29829468 original size:94 final size:94
Alignment explanation
Indices: 29829307--29829942 Score: 493
Period size: 94 Copynumber: 6.8 Consensus size: 94
29829297 TTTTTACGCC
* * * * * * * *
29829307 AGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGACCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
29829372 GACATGGCATC-GACATCCAAACGAGGGCT
66 GACATGGCATCAG-CATCCAAACGAGGGCT
*
29829401 AGTGTAAGACATGTCAGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
* ** * *
29829466 GACATGGCATCAGCA-CAAAGATAAGTGCC
66 GACATGGCATCAGCATCCAA-ACGAGGGCT
* * *
29829495 AGTGTAAGACATGTCTA-AGACATGCATCGGCC-TCGAC-A-GAGTTAGACAGTGTAAGA-CGTG
1 AGTGTAAGACATGTC-AGGGACATGCATCGGCCAT--ACTATGA--TAGCCAGTGTAAGACCAT-
* *
29829555 TT-TGGGACA-CGCATCAGC-T---AA-GAGTTGTGTT
60 TTCTGGGACATGGCATCAGCATCCAAACGAG--G-GCT
* * * * * *
29829586 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
29829651 GACATGGCATC-GACATCCAAACGAGGGCT
66 GACATGGCATCAG-CATCCAAACGAGGGCT
*
29829680 AGTGTAAGACATGTCAGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
* ** * *
29829745 GACATGGCATCAGCA-CAAAGATAAGTGCC
66 GACATGGCATCAGCATCCAA-ACGAGGGCT
* * *
29829774 AGTGTAAGACATGTCTA-AGACATGCATCGGCC-TCGAC-A-GAGTTAGACAGTGTAAGA-CGTG
1 AGTGTAAGACATGTC-AGGGACATGCATCGGCCAT--ACTATGA--TAGCCAGTGTAAGACCAT-
* *
29829834 TT-TGGGACA-CGCATCAGC-T---AA-GAGTTGTGTT
60 TTCTGGGACATGGCATCAGCATCCAAACGAG--G-GCT
* * * * * *
29829865 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
29829930 GACAT-GCATCAGC
66 GACATGGCATCAGC
29829943 CATACTATGG
Statistics
Matches: 434, Mismatches: 64, Indels: 91
0.74 0.11 0.15
Matches are distributed among these distances:
88 4 0.01
89 2 0.00
90 30 0.07
91 87 0.20
92 10 0.02
93 29 0.07
94 228 0.53
95 39 0.09
96 2 0.00
97 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
GACATGGCATCAGCATCCAAACGAGGGCT
Found at i:29829748 original size:185 final size:184
Alignment explanation
Indices: 29829307--29830036 Score: 516
Period size: 185 Copynumber: 3.9 Consensus size: 184
29829297 TTTTTACGCC
* * * * * * * *
29829307 AGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGACCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
* * ** * * * *
29829372 GACATGGCATC-GACATCCAA-ACGAGGGCTAGTGTAAGACATGTCAGGGACATGCATCAGCCAT
66 GACA-CGCATCAG-CA-CAAAGATAAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC
* * * *
29829435 ACTATGATAGCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCA-CAAAGATAAGTGCC
128 A-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCAAAG---AGGGCT
* * *
29829495 AGTGTAAGACATGTCTA-AGACATGCATCGGCC-TCGAC-A-GAGTTAGACAGTGTAAGA-CGTG
1 AGTGTAAGACATGTC-AGGGACATGCATCGGCCAT--ACTATGA--TAGCCAGTGTAAGACCAT-
* * * *
29829555 TT-TGGGACACGCATCAG--CTAAGAGT-TGTGTTAGTGTAAGACATGTCTGGGACATGCTTCGG
60 TTCTGGGACACGCATCAGCACAAAGA-TAAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG
29829616 CCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCCAAACGAGGGCT
124 CCACA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CAT-CAAA-GAGGGCT
*
29829680 AGTGTAAGACATGTCAGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
* * ** *
29829745 GACATGGCATCAGCACAAAGATAAGTGCCAGTGTAAGACATGTCTAAGACATGCATCGGCCTCGA
66 GACA-CGCATCAGCACAAAGATAAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A
* * * * * *
29829810 CA-GAGTTAGACAGTGTAAGA-CGTGTTTGGGACA-CGCATCAGC-T--AAGAGTTGTGTT
129 TATGAG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCAAAGAG--G-GCT
* * * * * *
29829865 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
* * * * * * *
29829930 GACATGCATCAGC-CATA-CTATGGTAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAC
66 GACACGCATCAGCACAAAGATA-AGT-GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C
* * * * *
29829993 AAAGATGAGTGCCAGTGTAAGA-CATGTCTAGGTCAT-GCATCAGC
126 ACATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
29830037 CCCGACAGAG
Statistics
Matches: 436, Mismatches: 69, Indels: 77
0.75 0.12 0.13
Matches are distributed among these distances:
182 5 0.01
183 7 0.02
184 43 0.10
185 219 0.50
186 21 0.05
187 25 0.06
188 90 0.21
189 26 0.06
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (184 bp):
AGTGTAAGACATGTCAGGGACATGCATCGGCCATACTATGATAGCCAGTGTAAGACCATTTCTGG
GACACGCATCAGCACAAAGATAAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATA
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCAAAGAGGGCT
Found at i:29829779 original size:232 final size:231
Alignment explanation
Indices: 29829586--29830174 Score: 616
Period size: 232 Copynumber: 2.5 Consensus size: 231
29829576 GAGTTGTGTT
* * * *
29829586 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTA-TGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACACGCATCAGCCA-A-GAGT-AGAGCCAGTGTAAGA-CATGTCTG
* *
29829650 GGACATGGCATCGA-CATCCA-AACGAGGGCTAGTGTAAGA-CATGTCAGGGACATGCATCAGCC
62 GGACAT-GCATCGACCA--CATAACGAGAGCCAGTGTAAGACCATGTCAGGGACATGCATCAGCC
*
29829712 ATACTATGATAGCCAGTGTAAGACCAT-TTCTGGGACATGGCATCAGCACAAAGATAAGTGCCAG
124 ATACTATGATAGCCAGTGTAAGACCATGTT-TGGAACATGGCATCAGCACAAAGATAAGTGCCAG
* *
29829776 TGTAAGACATGTCTAAGACATGCATCGGCCTCGACAGAGTTAGAC
188 TGTAAGACATGTCTAAGACACGCATCAGCCTC-ACAGAGTTAGAC
* * * * * **
29829821 AGTGTAAGACGTGTTTGGGACACGCATCAGCTAAGAGTTGTGTTAGTGTAAGACATGTCTGGGAC
1 AGTGTAAGACATGTCTGGGACACGCATCAGCCAAGAGTAGAGCCAGTGTAAGACATGTCTGGGAC
* * * * *
29829886 ATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCATACTAT
66 ATGCATCGACCACATAACGAGAGCCAGTGTAAGACCATGTCAGGGACATGCATCAGCCATACTAT
* * *
29829951 GGTAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCACAAAGATGAGTGCCAGTGTAAGAC
131 GATAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCACAAAGATAAGTGCCAGTGTAAGAC
* * * * *
29830016 ATGTCTAGGTCATGCATCAGCCCCGACAGAGTTAGCC
196 ATGTCTAAGACACGCATCAGCCTC-ACAGAGTTAGAC
* * * * * * * * *
29830053 AGTGTAAGA-AGTGTTTAGGACACGCATCGGCTAAGAGTTGTGCTAATGTAAAACATGTCTGGGA
1 AGTGTAAGACA-TGTCTGGGACACGCATCAGCCAAGAGTAGAGCCAGTGTAAGACATGTCTGGGA
* * * *
29830117 CATGCATCAGTA-CGCGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
65 CATGCATC-G-ACCACATA-ACGAGAGCCAGTGTAAGACCATGTCAGGGACAT-GCATC
29830175 GGCAATATAT
Statistics
Matches: 306, Mismatches: 38, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
230 2 0.01
231 20 0.07
232 199 0.65
233 18 0.06
234 35 0.11
235 32 0.10
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (231 bp):
AGTGTAAGACATGTCTGGGACACGCATCAGCCAAGAGTAGAGCCAGTGTAAGACATGTCTGGGAC
ATGCATCGACCACATAACGAGAGCCAGTGTAAGACCATGTCAGGGACATGCATCAGCCATACTAT
GATAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCACAAAGATAAGTGCCAGTGTAAGAC
ATGTCTAAGACACGCATCAGCCTCACAGAGTTAGAC
Found at i:29829807 original size:279 final size:279
Alignment explanation
Indices: 29829307--29829939 Score: 1241
Period size: 279 Copynumber: 2.3 Consensus size: 279
29829297 TTTTTACGCC
* *
29829307 AGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGACCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
29829372 GACATGGCATCGACATCCAAACGAGGGCTAGTGTAAGACATGTCAGGGACATGCATCAGCCATAC
66 GACATGGCATCGACATCCAAACGAGGGCTAGTGTAAGACATGTCAGGGACATGCATCAGCCATAC
29829437 TATGATAGCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGTGCCAGTGTAA
131 TATGATAGCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGTGCCAGTGTAA
29829502 GACATGTCTAAGACATGCATCGGCCTCGACAGAGTTAGACAGTGTAAGACGTGTTTGGGACACGC
196 GACATGTCTAAGACATGCATCGGCCTCGACAGAGTTAGACAGTGTAAGACGTGTTTGGGACACGC
29829567 ATCAGCTAAGAGTTGTGTT
261 ATCAGCTAAGAGTTGTGTT
29829586 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
29829651 GACATGGCATCGACATCCAAACGAGGGCTAGTGTAAGACATGTCAGGGACATGCATCAGCCATAC
66 GACATGGCATCGACATCCAAACGAGGGCTAGTGTAAGACATGTCAGGGACATGCATCAGCCATAC
29829716 TATGATAGCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGTGCCAGTGTAA
131 TATGATAGCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGTGCCAGTGTAA
29829781 GACATGTCTAAGACATGCATCGGCCTCGACAGAGTTAGACAGTGTAAGACGTGTTTGGGACACGC
196 GACATGTCTAAGACATGCATCGGCCTCGACAGAGTTAGACAGTGTAAGACGTGTTTGGGACACGC
29829846 ATCAGCTAAGAGTTGTGTT
261 ATCAGCTAAGAGTTGTGTT
29829865 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
29829930 GACAT-GCATC
66 GACATGGCATC
29829940 AGCCATACTA
Statistics
Matches: 352, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
278 5 0.01
279 347 0.99
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (279 bp):
AGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCCAAACGAGGGCTAGTGTAAGACATGTCAGGGACATGCATCAGCCATAC
TATGATAGCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGTGCCAGTGTAA
GACATGTCTAAGACATGCATCGGCCTCGACAGAGTTAGACAGTGTAAGACGTGTTTGGGACACGC
ATCAGCTAAGAGTTGTGTT
Found at i:29830057 original size:47 final size:47
Alignment explanation
Indices: 29829304--29830174 Score: 354
Period size: 47 Copynumber: 18.7 Consensus size: 47
29829294 TGATTTTTAC
* ** * *
29829304 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCAC-ATTATGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGA-CATGAGTA
* * * * *
29829350 CCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCC-AAACGAG-G
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CCCGACATGAGTA
* * **
29829398 GCTAGTGTAAGACATGTCAGGGACATGCATCAG-CCATACTATGA-TA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGAC-ATGAGTA
* * ** * *
29829444 GCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCCCGACATGAGTA
** * *
29829492 GCCAGTGTAAGACATGTCTAAGACATGCATCGGCCTCGACA-GAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGACATGAG-TA
* * * * *** * *
29829539 GACAGTGTAAGACGTGTTTGGGACACGCATCAGCTAAGA-GT-TGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGACATGAGTA
** * * * *
29829583 GTTAGTGTAAGACATGTCTGGGACATGCTTCGGCCAC-ATTATGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGA-CATGAGTA
* * * *
29829629 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCC-AAACGAG-G
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CCCGACATGAGTA
* * **
29829677 GCTAGTGTAAGACATGTCAGGGACATGCATCAG-CCATACTATGA-TA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGAC-ATGAGTA
* * ** * *
29829723 GCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCCCGACATGAGTA
** * *
29829771 GCCAGTGTAAGACATGTCTAAGACATGCATCGGCCTCGACA-GAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGACATGAG-TA
* * * * *** * *
29829818 GACAGTGTAAGACGTGTTTGGGACACGCATCAGCTAAGA-GT-TGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGACATGAGTA
** * * * *
29829862 GTTAGTGTAAGACATGTCTGGGACATGCTTCGGCCAC-ATTATGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGA-CATGAGTA
**
29829908 GCCAGTGTAAGACCATGTCTGGGACATGCATCAG-CCATACTATG-GTA
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCAGCCCCGAC-ATGAGTA
* * * * ** *
29829955 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCACAAAGATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCCCGACATGAGTA
* *
29830003 GCCAGTGTAAGACATGTCTAGGTCATGCATCAGCCCCGACA-GAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGACATGAG-TA
* * * * *** * *
29830050 GCCAGTGTAAGA-AGTGTTTAGGACACGCATCGGCTAAGA-GT-TGT-
1 GCCAGTGTAAGACA-TGTCTGGGACATGCATCAGCCCCGACATGAGTA
* * * * * *
29830094 GCTAATGTAAAACATGTCTGGGACATGCATCAGTACGCGTATATGAG-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CCCCG-ACATGAGTA
29830142 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
29830175 GGCAATATAT
Statistics
Matches: 610, Mismatches: 158, Indels: 110
0.69 0.18 0.13
Matches are distributed among these distances:
43 2 0.00
44 82 0.13
45 16 0.03
46 109 0.18
47 252 0.41
48 113 0.19
49 31 0.05
50 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCCCGACATGAGTA
Found at i:29835898 original size:13 final size:13
Alignment explanation
Indices: 29835880--29835904 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29835870 ATATATTTTA
29835880 TTTTTAATTAATG
1 TTTTTAATTAATG
29835893 TTTTTAATTAAT
1 TTTTTAATTAAT
29835905 AAATATGTTG
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Done.