Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 2 of 35
Found at i:187959 original size:31 final size:30
Alignment explanation
Indices: 187913--188001 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 30
187903 CCGAAACCAA
* *
187913 CAGCTTGAGCTTCTTCTAGCTTCCACACTAG
1 CAGCTCGAGCCTCTTCTAGCTTCCACA-TAG
*
187944 CAGCTCGAGCCTCTTCCAGCTTCCACGATAG
1 CAGCTCGAGCCTCTTCTAGCTTCCAC-ATAG
*
187975 CAGCTCGAGCCTCTTCTAGCTTTCACA
1 CAGCTCGAGCCTCTTCTAGCTTCCACA
188002 AACACAGCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
30 1 0.02
31 50 0.96
32 1 0.02
ACGTcount: A:0.19, C:0.36, G:0.17, T:0.28
Consensus pattern (30 bp):
CAGCTCGAGCCTCTTCTAGCTTCCACATAG
Found at i:188946 original size:13 final size:13
Alignment explanation
Indices: 188922--188966 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
188912 AAGTAAAATT
188922 TAAAAAAT-ATAA
1 TAAAAAATAATAA
188934 TAAAAAATAATAA
1 TAAAAAATAATAA
*
188947 CAAAATAA-AATAA
1 TAAAA-AATAATAA
188960 TAAAAAA
1 TAAAAAA
188967 ATTCTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 10 0.34
13 17 0.59
14 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAAATAATAA
Found at i:188958 original size:16 final size:16
Alignment explanation
Indices: 188937--188968 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
188927 AATATAATAA
*
188937 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
188953 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
188969 TCTTTTCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:202949 original size:52 final size:52
Alignment explanation
Indices: 202864--202988 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
202854 ATATGAAAAG
* *
202864 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
202916 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
202968 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
202989 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:203001 original size:52 final size:51
Alignment explanation
Indices: 202864--203008 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
202854 ATATGAAAAG
*
202864 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
202916 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
202968 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
203009 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:203015 original size:13 final size:13
Alignment explanation
Indices: 202997--203021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
202987 CAAAGATCAG
202997 TGTATCGATACAA
1 TGTATCGATACAA
203010 TGTATCGATACA
1 TGTATCGATACA
203022 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:203105 original size:13 final size:13
Alignment explanation
Indices: 203087--203111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
203077 CAAAAAAATA
203087 TGTATCGATACAT
1 TGTATCGATACAT
203100 TGTATCGATACA
1 TGTATCGATACA
203112 ACATTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:203107 original size:33 final size:33
Alignment explanation
Indices: 203065--203131 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
203055 AGTAGCTTAA
203065 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
203098 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
203131 A
1 A
203132 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:212150 original size:42 final size:42
Alignment explanation
Indices: 210885--212283 Score: 1121
Period size: 42 Copynumber: 33.4 Consensus size: 42
210875 TAAAGACTTT
* * *
210885 CCTGTCGGCTTTCACCCTAGAGACTTTTCTTCCCTTAGTCTT
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* ** * * *
210927 CCTATCGATTTTGACCCTAGAGACTTTCCTTCTCTTAGTTTT
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * ** * * * * * *
210969 TCTATTGATTTTAACCTTGGAAACTTTCCTTTCCTTAGTTTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * * *
211011 CTTATCGGCTTTGACCTTGGAGACTTTCCTTCCCTTAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * *
211053 CCTGTCGGCTTTCACCCT-GAAGACTTTTCTTCCCTAAGTCTG
1 CCTGTCGGCTTTGACCCTAG-AGACTTTCCTTCCCTTAGTCTG
* ** *
211095 CCTATCCACTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * *
211137 CCTATCGACTTTGACCCTGGAGACTTTCCTTCCCTTAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * *
211179 CGTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTAGTCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * *
211221 CCTGTCGACTTTGACCTTGGAGACTTTCCTTCCCTTAGTCTT
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * *
211263 CCTGTCAGCTTCGACCTTTA-AGACTTTCCTTCCCTTAGTCT-
1 CCTGTCGGCTTTGACC-CTAGAGACTTTCCTTCCCTTAGTCTG
* * * * *
211304 ACTATCGACTTTGACCCTTGAGACTTTCCTTCCCTTAGTTTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * * * *
211346 CCTATCGACTTTCACCCTAGAGACTTTTCTTCCTTTAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * *
211388 CTTGTCTGCTTTGACCCTAGAGACTTTCTTTCCCTTAGCCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
*
211430 CCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAGTCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
*
211472 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTTCCTTAGTCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * *
211514 CTTGTCGGCTTTGACCCTAGAGACTTTTCTTCCCTTAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * *
211556 CTTATCGGCTTTGACCTTGGAGACTTTCCTTCCCTTAGTCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * *
211598 CCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCCTTAATCTT
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* ** * *
211640 CCTGTCGGCTTTGA-CCTTGAAGACTTTCCAACCCTTACTCTT
1 CCTGTCGGCTTTGACCCTAG-AGACTTTCCTTCCCTTAGTCTG
* * * * *
211682 CCTTTCAGCTTTGACCCTAGAGATTTTCCTTTCCTTAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * *** * *
211724 CTTATTAACTTGGACCCTGGAGACTTT-CTTACCCTTAGTCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTT-CCCTTAGTCTG
* * * *
211766 CTTGTCGGCTTTGACCTTGGAGACTTTCCTTCCCTCAGTCT-
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * * * * * *
211807 ACTCGTCGGC-TGGACCTTGGAGACTTTTCTGCCCTTAGTTTT
1 CCT-GTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
** * * * *
211849 CCTGTTAGCTTTGACCTTAGAGACTTTTCTACCCTTAGTTTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
** * * * * * *
211891 CCTGTTAGCTTTGACCTTGGAGACTTTTCTACCTTTAGCCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * * * *
211933 CCTATCGG-TCTTGACCCTGGAGACTTT-TTTATCCTCAGTCTA
1 CCTGTCGGCT-TTGACCCTAGAGACTTTCCTT-CCCTTAGTCTG
* * * *
211975 CCTGTCGGCTTTGATCCTGGGGACTTTCCTTCCCTTAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
** * * * *
212017 ATTGTCAGCTTTGACCTTGGAGACTTTTCTTCCCTTAGTCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * * *
212059 CCTGTCGGCTTTTACCTTAGAGACTTT-CTTATCTTTAGTTTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTT-CCCTTAGTCTG
* * *
212101 CCTATCGGCTTTGACCCTAGAGACTTTCCTTCCCTCAGTCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
** * * * * * * * * * *
212143 CCCATCGGC-TGGACCTTGGTGAATTTTCTACCTTTAATCTA
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* ** * * * * *
212184 CTTGTTAGCTTTGACCCTGGAGACTTTTCTACCTTTAGCCTG
1 CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
* * * * * * * *
212226 CTTATC-GATCTTGACCCTGGAGACTTTTCTACCATCAGTCTG
1 CCTGTCGGCT-TTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
212268 CCTGTCGGCTTTGACC
1 CCTGTCGGCTTTGACC
212284 TTGAAGACTG
Statistics
Matches: 1110, Mismatches: 226, Indels: 42
0.81 0.16 0.03
Matches are distributed among these distances:
40 1 0.00
41 103 0.09
42 988 0.89
43 18 0.02
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.39
Consensus pattern (42 bp):
CCTGTCGGCTTTGACCCTAGAGACTTTCCTTCCCTTAGTCTG
Found at i:212998 original size:31 final size:31
Alignment explanation
Indices: 212960--213023 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
212950 CATGCAAGGT
*
212960 AATGTAGCATGCAATCATGGGAGACACATGC
1 AATGTAGCATGCAATCATGGGAGACACAAGC
*
212991 AATGTAGCATGCAATCATGGGGGACACAAGC
1 AATGTAGCATGCAATCATGGGAGACACAAGC
213022 AA
1 AA
213024 ACAGAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.19, G:0.27, T:0.17
Consensus pattern (31 bp):
AATGTAGCATGCAATCATGGGAGACACAAGC
Found at i:213614 original size:31 final size:30
Alignment explanation
Indices: 213568--213656 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 30
213558 CCGAAACCAA
* * *
213568 CAGCTTGAGCTTCTTCTAGCTTCCACACTAG
1 CAGCTCGAGCCTCTTCCAGCTTCCACA-TAG
213599 CAGCTCGAGCCTCTTCCAGCTTCCACGATAG
1 CAGCTCGAGCCTCTTCCAGCTTCCAC-ATAG
*
213630 CAGCTCGAGCCTCTTCCAGCTTTCACA
1 CAGCTCGAGCCTCTTCCAGCTTCCACA
213657 AACACAGCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
30 1 0.02
31 51 0.96
32 1 0.02
ACGTcount: A:0.19, C:0.37, G:0.17, T:0.27
Consensus pattern (30 bp):
CAGCTCGAGCCTCTTCCAGCTTCCACATAG
Found at i:214601 original size:13 final size:13
Alignment explanation
Indices: 214577--214621 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
214567 AAGTAAAATT
214577 TAAAAAAT-ATAA
1 TAAAAAATAATAA
214589 TAAAAAATAATAA
1 TAAAAAATAATAA
*
214602 CAAAATAA-AATAA
1 TAAAA-AATAATAA
214615 TAAAAAA
1 TAAAAAA
214622 ATTCTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 10 0.34
13 17 0.59
14 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAAATAATAA
Found at i:214613 original size:16 final size:16
Alignment explanation
Indices: 214592--214623 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
214582 AATATAATAA
*
214592 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
214608 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
214624 TCTTTTCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:228601 original size:52 final size:52
Alignment explanation
Indices: 228516--228640 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
228506 ATATGAAAAG
* *
228516 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
228568 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
228620 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
228641 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:228653 original size:52 final size:51
Alignment explanation
Indices: 228516--228660 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
228506 ATATGAAAAG
*
228516 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
228568 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
228620 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
228661 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:228667 original size:13 final size:13
Alignment explanation
Indices: 228649--228673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
228639 CAAAGATCAG
228649 TGTATCGATACAA
1 TGTATCGATACAA
228662 TGTATCGATACA
1 TGTATCGATACA
228674 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:228757 original size:13 final size:13
Alignment explanation
Indices: 228739--228763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
228729 CAAAAAAATA
228739 TGTATCGATACAT
1 TGTATCGATACAT
228752 TGTATCGATACA
1 TGTATCGATACA
228764 ACATTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:228759 original size:33 final size:33
Alignment explanation
Indices: 228717--228783 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
228707 AGTAGCTTAA
228717 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
228750 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
228783 A
1 A
228784 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:234326 original size:36 final size:37
Alignment explanation
Indices: 234248--234404 Score: 199
Period size: 37 Copynumber: 4.2 Consensus size: 37
234238 ATGTTGGTCT
* * *
234248 TTTTTTTTATCATGGACTGGAGGCTACTAGAAGCTGG
1 TTTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
* * * *
234285 TTTTTTTAATTGTGGGCTGGAGGCTGTTGGAAGCTGG
1 TTTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
* *
234322 TTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGTTGG
1 --TTTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
*
234361 -TTTTTTTATCGTGGACTAGAGGCTGCTGGAAGCTGG
1 TTTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
234397 TTTTTTTT
1 TTTTTTTT
234405 CCTTTGAGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
36 33 0.33
37 37 0.37
39 31 0.31
ACGTcount: A:0.16, C:0.11, G:0.31, T:0.43
Consensus pattern (37 bp):
TTTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
Found at i:234328 original size:39 final size:36
Alignment explanation
Indices: 234249--234403 Score: 193
Period size: 36 Copynumber: 4.2 Consensus size: 36
234239 TGTTGGTCTT
* * *
234249 TTTTTTTATCATGGACTGGAGGCTACTAGAAGCTGG
1 TTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
* * *
234285 TTTTTTTAATTGTGGGCTGGAGGCTGTTGGAAGCTGG
1 TTTTTTT-ATCGTGGACTGGAGGCTGCTGGAAGCTGG
* *
234322 TTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGTTGG
1 ---TTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
*
234361 TTTTTTTATCGTGGACTAGAGGCTGCTGGAAGCTGG
1 TTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
234397 TTTTTTT
1 TTTTTTT
234404 TCCTTTGAGT
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
36 47 0.47
37 23 0.23
39 24 0.24
40 7 0.07
ACGTcount: A:0.16, C:0.11, G:0.31, T:0.42
Consensus pattern (36 bp):
TTTTTTTATCGTGGACTGGAGGCTGCTGGAAGCTGG
Found at i:234334 original size:76 final size:75
Alignment explanation
Indices: 234242--234404 Score: 245
Period size: 76 Copynumber: 2.1 Consensus size: 75
234232 CTGCCAATGT
* * *
234242 TGGTCTTTTTTTTTATCATGGACTGGAGGCTACTAGAAGCTGGTTTTTTTAATTGTGGGCTGGAG
1 TGGT-TTTTTTTTTATCATGGACTGGAGGCTACTAGAAGCTGGTTTTTTT-ATCGTGGACTAGAG
*
234307 GCTGTTGGAAGC
64 GCTGCTGGAAGC
* * *
234319 TGGTTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGTTGGTTTTTTTATCGTGGACTAGAGGC
1 TGGTTTTTTTTTTATCATGGACTGGAGGCTACTAGAAGCTGGTTTTTTTATCGTGGACTAGAGGC
234384 TGCTGGAAGC
66 TGCTGGAAGC
234394 TGGTTTTTTTT
1 TGGTTTTTTTT
234405 CCTTTGAGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
75 33 0.42
76 42 0.53
77 4 0.05
ACGTcount: A:0.15, C:0.11, G:0.31, T:0.43
Consensus pattern (75 bp):
TGGTTTTTTTTTTATCATGGACTGGAGGCTACTAGAAGCTGGTTTTTTTATCGTGGACTAGAGGC
TGCTGGAAGC
Found at i:234404 original size:39 final size:39
Alignment explanation
Indices: 234242--234404 Score: 192
Period size: 39 Copynumber: 4.3 Consensus size: 39
234232 CTGCCAATGT
* *
234242 TGGTCTTTTTTTTTATCATGGACTGGAGGCTACTAGAAGC
1 TGGT-TTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGC
* * * * *
234282 TGG--TTTTTTTAATTGTGGGCTGGAGGCTGTTGGAAGC
1 TGGTTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGC
*
234319 TGGTTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGT
1 TGGTTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGC
* *
234358 TGG---TTTTTTTATCGTGGACTAGAGGCTGCTGGAAGC
1 TGGTTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGC
234394 TGGTTTTTTTT
1 TGGTTTTTTTT
234405 CCTTTGAGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
36 33 0.32
37 30 0.29
39 36 0.35
40 3 0.03
ACGTcount: A:0.15, C:0.11, G:0.31, T:0.43
Consensus pattern (39 bp):
TGGTTTTTTTTTTATCGTGGACTGGAGGCTGCTAGAAGC
Found at i:235264 original size:17 final size:17
Alignment explanation
Indices: 235242--235282 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
235232 TCTTTCACAT
*
235242 TTTTTTTATTT-TTTGAA
1 TTTTTTTATTTCTCTG-A
235259 TTTTTTTATTTCTCTGA
1 TTTTTTTATTTCTCTGA
235276 TTTTTTT
1 TTTTTTT
235283 TTGGATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTTATTTCTCTGA
Found at i:239040 original size:16 final size:17
Alignment explanation
Indices: 239021--239052 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
239011 CGTCCTTCTC
239021 AAAAAG-CAAAAAAAAT
1 AAAAAGCCAAAAAAAAT
239037 AAAAAGCCAAAAAAAA
1 AAAAAGCCAAAAAAAA
239053 AGAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.09, G:0.06, T:0.03
Consensus pattern (17 bp):
AAAAAGCCAAAAAAAAT
Found at i:239067 original size:19 final size:19
Alignment explanation
Indices: 239029--239086 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
239019 TCAAAAAGCA
239029 AAAAAAATAAAAAGCCAAAAA-
1 AAAAAAA-AAAAA--CAAAAAC
*
239050 AAAAGAAAAAAACAAAAAC
1 AAAAAAAAAAAACAAAAAC
* *
239069 CAAAAAAAAATACAAAAA
1 AAAAAAAAAAAACAAAAA
239087 GGGAAGGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.19
19 15 0.47
20 5 0.16
21 6 0.19
ACGTcount: A:0.83, C:0.10, G:0.03, T:0.03
Consensus pattern (19 bp):
AAAAAAAAAAAACAAAAAC
Found at i:239086 original size:26 final size:26
Alignment explanation
Indices: 239029--239078 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
239019 TCAAAAAGCA
*
239029 AAAAAAATAAAAAGCCAAAAAAAAAG
1 AAAAAAACAAAAAGCCAAAAAAAAAG
239055 AAAAAAACAAAAA-CCAAAAAAAAA
1 AAAAAAACAAAAAGCCAAAAAAAAA
239079 TACAAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (26 bp):
AAAAAAACAAAAAGCCAAAAAAAAAG
Found at i:240423 original size:28 final size:28
Alignment explanation
Indices: 240381--240879 Score: 542
Period size: 28 Copynumber: 17.6 Consensus size: 28
240371 CAATACGACA
240381 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTT-AAAGCCCACAAGTCAGTGGCAT
* * * *
240410 CCTTTTAGAGCCCACAAGTCAATGCCAAC
1 CCTTTTAAAGCCCACAAGTCAGTGGC-AT
*
240439 CCTTTTCAAAGCCTACAAG-CTAGTGGCA-
1 CCTTTT-AAAGCCCACAAGTC-AGTGGCAT
* * * *
240467 CCTTCTAAAGCCCATAAGTTAGTGGCAC
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
*
240495 CCTTTCAAAGCCCACAAGTCAGTGGCA-
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
*
240522 CGTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTT-AAAGCCCACAAGTCAGTGGCAT
240551 CCTTTTAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
* * *
240579 CCTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
* *
240607 CCATTCAAAGCCCACAAGTCAGTGGCA-
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
**
240634 CCTTTTCAAAGCCCGTAAGTCAGTGGCA-
1 CCTTTT-AAAGCCCACAAGTCAGTGGCAT
*
240662 CCTTTTCAAAGCCCACAAGTCGGTGGCAT
1 CCTTTT-AAAGCCCACAAGTCAGTGGCAT
* * *
240691 CCTTTAAAAGCCCACAAGTTAATGGCAT
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
*
240719 CCTTTTCAAGCCCACAAGTCAGTGGCAT
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
* * *
240747 CCTTTCAAAGCCCATAAGTCAGTGGCAC
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
* *
240775 CCTTTCAAAACCCACAAGTCAGTGGCA-
1 CCTTTTAAAGCCCACAAGTCAGTGGCAT
* * *
240802 CCTTTTCAAAGCCCACGAGTAAGTGGCAA
1 CCTTTT-AAAGCCCACAAGTCAGTGGCAT
*
240831 CCTCTTCTAAAGCCCACACAAGTCAGTGGCAAC
1 CCT-TT-TAAAG-CC-CACAAGTCAGTGGC-AT
*
240864 CCTTCTAAAGCCCACA
1 CCTTTTAAAGCCCACA
240880 CAAGTTAGTG
Statistics
Matches: 401, Mismatches: 53, Indels: 32
0.83 0.11 0.07
Matches are distributed among these distances:
27 30 0.07
28 292 0.73
29 32 0.08
30 22 0.05
31 8 0.02
32 13 0.03
33 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
CCTTTTAAAGCCCACAAGTCAGTGGCAT
Found at i:240914 original size:63 final size:61
Alignment explanation
Indices: 240394--240935 Score: 292
Period size: 56 Copynumber: 9.4 Consensus size: 61
240384 TTTCAAAGCC
* * * * *
240394 CACAAGTCAGTGGC-ATCCTTTTAGAGCCCACAAGTCAA-TGCCAACC-CTTTTCAAAG-CC-
1 CACAAGTCAGTGGCAACCCTTCTAAAGCCCACAAGT-AAGTGGCAACCTCTTCT-AAAGCCCA
* * * *
240452 TACAAG-CTAGTGGC-A-CCTTCTAAAGCCCATAAGTTAGTGGCACCCT-TTC-AAAG-CC-
1 CACAAGTC-AGTGGCAACCCTTCTAAAGCCCACAAGTAAGTGGCAACCTCTTCTAAAGCCCA
* * * *
240507 CACAAGTCAGTGGC-A-CGTTTTCAAAGCCCACAAGTCAGTGGCATCCT-TT-TAAAG-CC-
1 CACAAGTCAGTGGCAACCCTTCT-AAAGCCCACAAGTAAGTGGCAACCTCTTCTAAAGCCCA
* * *
240563 CACAAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTTAGTGGC-ACC-CATTC-AAAG-CC-
1 CACAAGTCAGTGGCAACCCTTCTAAAGCCCACAAGTAAGTGGCAACCTC-TTCTAAAGCCCA
* ** * *
240619 CACAAGTCAGTGGC-A-CCTTTTCAAAGCCCGTAAGTCAGTGGC-ACCTTTTC-AAAG-CC-
1 CACAAGTCAGTGGCAACCCTTCT-AAAGCCCACAAGTAAGTGGCAACCTCTTCTAAAGCCCA
* * * *
240675 CACAAGTCGGTGGC-ATCCTT-TAAAAGCCCACAAGTTAA-TGGCATCCT-TT-TCAAG-CC-
1 CACAAGTCAGTGGCAACCCTTCT-AAAGCCCACAAG-TAAGTGGCAACCTCTTCTAAAGCCCA
* * * * * *
240731 CACAAGTCAGTGGCATCCTTTC-AAAGCCCATAAGTCAGTGGCACCCT-TTC-AAA-ACC-
1 CACAAGTCAGTGGCAACCCTTCTAAAGCCCACAAGTAAGTGGCAACCTCTTCTAAAGCCCA
* *
240787 CACAAGTCAGTGGC-A-CCTTTTCAAAGCCCACGAGTAAGTGGCAACCTCTTCTAAAGCCCA
1 CACAAGTCAGTGGCAACCCTTCT-AAAGCCCACAAGTAAGTGGCAACCTCTTCTAAAGCCCA
* * * **
240847 CACAAGTCAGTGGCAACCCTTCTAAAGCCCACACAAGTTAGTGGTAACCT-TCTCTATAGCCTG
1 CACAAGTCAGTGGCAACCCTTCTAAAG-CC-CACAAGTAAGTGGCAACCTCT-TCTAAAGCCCA
** *
240910 CACAAGTTGGTAGCAACCCTTCTAAA
1 CACAAGTCAGTGGCAACCCTTCTAAA
240936 CCTAATGTCG
Statistics
Matches: 391, Mismatches: 59, Indels: 63
0.76 0.12 0.12
Matches are distributed among these distances:
54 6 0.02
55 26 0.07
56 225 0.58
57 40 0.10
58 18 0.05
59 2 0.01
60 14 0.04
61 5 0.01
62 8 0.02
63 47 0.12
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (61 bp):
CACAAGTCAGTGGCAACCCTTCTAAAGCCCACAAGTAAGTGGCAACCTCTTCTAAAGCCCA
Found at i:242810 original size:20 final size:22
Alignment explanation
Indices: 242770--242810 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
242760 TAGCCTTTGA
*
242770 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
242792 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
242811 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:245409 original size:50 final size:50
Alignment explanation
Indices: 245334--245449 Score: 187
Period size: 50 Copynumber: 2.3 Consensus size: 50
245324 TTTTCATAAT
*
245334 TTGTATCGATACATTTTGGGTTTTACCCAGATGTATCGATACATTCCTCA
1 TTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTCCTCA
* *
245384 TTGTATCGATACATTCTGGTTTTTACCCAGATGTATCGATACATTTCTCA
1 TTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTCCTCA
* *
245434 ATATATCGATACATTC
1 TTGTATCGATACATTC
245450 AAGCATTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (50 bp):
TTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTCCTCA
Found at i:249346 original size:18 final size:18
Alignment explanation
Indices: 249315--249349 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
249305 TTCGTACCCA
*
249315 AAAAATAAAAAAACAAAT
1 AAAAACAAAAAAACAAAT
*
249333 AAAAACAAACAAACAAA
1 AAAAACAAAAAAACAAA
249350 AAAGAAAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (18 bp):
AAAAACAAAAAAACAAAT
Found at i:250653 original size:28 final size:28
Alignment explanation
Indices: 250622--251070 Score: 403
Period size: 28 Copynumber: 15.6 Consensus size: 28
250612 TCAATACGAC
*
250622 CCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
250650 CCTTTTTCAAAGCCCACAAGTCAGTTGCA
1 CC-TTTTCAAAGCCCACAAGTCAGTGGCA
* *
250679 CCCTTTT-AAAGCCCACAAATCAATGGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
250707 TCC-TTTCAAAGCTACACAAGTCACTGGCA
1 -CCTTTTCAAAGC-CCACAAGTCAGTGGCA
* *
250736 TCC-TTTCAAAGCCCATAAGTCGGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
250764 TCC-TTTCAAAGCCCACATGTCAGTGGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
250792 TCTTTTCAAAGCCCACATGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
*
250820 -TTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCT-TTTCAAAGCCCACAAGTCAGTGGCA
*
250848 TCC-TTTCAAAGCCCACAAGTCAGTCGCA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCA
* **
250876 CCCCTTT--AAGCCCACACAAGTTGGTGGCAA
1 -CCTTTTCAAAG-CC-CACAAGTCAGTGGC-A
* *
250906 CCTCTCTCAAAGCCCATAAGTCAGTGGCA
1 CCT-TTTCAAAGCCCACAAGTCAGTGGCA
*
250935 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
250963 CCCTTTCAAAGCCCACAAGTTAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCA
* **
250991 CCCTTTCAAAGCCCGCACAAGTTGGTGGCAA
1 CCTTTTCAAAG-CC-CACAAGTCAGTGGC-A
* * *
251022 CCTTCTCTAAAACCTACACAGGTCAGTGGCAA
1 CCTTTTC-AAAGCC--CACAAGTCAGTGGC-A
251054 CCCTTTT-AAAGCCCACA
1 -CCTTTTCAAAGCCCACA
251071 CAAATTGGTG
Statistics
Matches: 356, Mismatches: 44, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
27 8 0.02
28 202 0.57
29 78 0.22
30 29 0.08
31 15 0.04
32 19 0.05
33 5 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (28 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:250725 original size:57 final size:56
Alignment explanation
Indices: 250620--251070 Score: 465
Period size: 56 Copynumber: 7.8 Consensus size: 56
250610 CATCAATACG
* * *
250620 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTTGC
1 ACCC-TTTCAAAGCCCACAAGTCAGTGGCACC-CTTTCAAAGCCCACAAGTCAGTGGC
* * * * * *
250678 ACCCTTTTAAAGCCCACAAATCAATGGCATCCTTTCAAAGCTACACAAGTCACTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC-CCACAAGTCAGTGGC
* * * * *
250735 ATCCTTTCAAAGCCCATAAGTCGGTGGCATCCTTTCAAAGCCCACATGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
* * * **
250791 ATCTTTTCAAAGCCCACATGTCAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
* * **
250847 ATCCTTTCAAAGCCCACAAGTCAGTCGCACCCCTTT--AAGCCCACACAAGTTGGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAG-CC-CACAAGTCAGTGGC
* *
250904 AACCTCTCTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
1 -ACC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
* **
250962 ACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCGCACAAGTTGGTGGC
1 ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC
* * * *
251020 AACCTTCTCTAAAACCTACACAGGTCAGTGGCAACCCTTTTAAAGCCCACA
1 ACCCTT-TC-AAAGCC--CACAAGTCAGTGGC-ACCCTTTCAAAGCCCACA
251071 CAAATTGGTG
Statistics
Matches: 331, Mismatches: 47, Indels: 27
0.82 0.12 0.07
Matches are distributed among these distances:
55 3 0.01
56 133 0.40
57 90 0.27
58 41 0.12
59 27 0.08
60 8 0.02
61 4 0.01
62 14 0.04
63 11 0.03
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (56 bp):
ACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC
Found at i:252577 original size:20 final size:19
Alignment explanation
Indices: 252552--252624 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
252542 ACATACCAGA
*
252552 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
252572 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* *
252591 TGTATCGATACATAGATAAT
1 TGTATCGATACAT-GTTCAT
252611 TGTATCGATACATG
1 TGTATCGATACATG
252625 AAATCGGCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.33
20 31 0.65
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:254307 original size:3 final size:3
Alignment explanation
Indices: 254292--254328 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
254282 TGACAAGAAA
*
254292 GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
254329 GTGACTTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:258800 original size:20 final size:20
Alignment explanation
Indices: 258775--258826 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
258765 AAAACCCAGA
258775 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
258795 TGTATCGATACAACATTCCT
1 TGTATCGATACAACATTCCT
258815 TGTATCGATACA
1 TGTATCGATACA
258827 TGGGTTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACATTCCT
Found at i:261392 original size:19 final size:19
Alignment explanation
Indices: 261349--261421 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
261339 CATACCCAGA
*
261349 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
261369 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
261388 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
*
261408 TGTATCAATACATG
1 TGTATCGATACATG
261422 AAACTGGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
20 29 0.62
21 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:271595 original size:28 final size:28
Alignment explanation
Indices: 271564--272167 Score: 390
Period size: 28 Copynumber: 21.6 Consensus size: 28
271554 TCAATACGAC
271564 CCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
271592 CCTTCTCAAAGCCCACAAGTCA---G---
1 CCTT-TCAAAGCCCACAAGTCAGTGGCAT
* *
271615 ---TTCAAAGCCTACAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
271640 CCTTTCAAAGCCCAAAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
271668 CTTTTCAAAGCCCACAAGTCA---G---
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
271690 ---TTCAAAGCCTACAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
*
271715 CCTTTCAAAGCCCAAAAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
271743 -CTTTACAAAGCCCACATGTTAGTGGCAT
1 CCTTT-CAAAGCCCACAAGTCAGTGGCAT
* * *
271771 CCTTTTAAAGCCCATATGTC-GTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
271798 CCTCTCAAAGCCTACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
271826 CTTTTCAAAGCCCATAAGTCAGTGACACC
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-T
** *
271855 CCTTT--AAGCCTACACAAGTTGGTGGCAA
1 CCTTTCAAAGCC--CACAAGTCAGTGGCAT
**
271883 CCTCTCTCAAAGCCCACAAGTTGGTGGCA-
1 CCT-T-TCAAAGCCCACAAGTCAGTGGCAT
* *
271912 CCATTTCAAAGCCCACAAGTTAGTGGCAC
1 CC-TTTCAAAGCCCACAAGTCAGTGGCAT
* * *
271941 CCTTTCGAATCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
271969 CCTTTCAAAGCCCACAAGTTAGTAACAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
271997 CCTTTCGAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAT
** ** *
272025 CCTTTTGAAGCCCACATAAGTTGGTGGCAA
1 CCTTTCAAAGCCCAC--AAGTCAGTGGCAT
* *
272055 CCTTCTCTAAAGCCCACACAGGTCAATGGCAAC
1 CCTT-TC-AAAGCCCACA-A-GTCAGTGGC-AT
* * * *
272088 CCTTTTAAAGCCCACACAAGTTATTGGCAA
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCAT
** *
272118 CCTTCTCTAAAGCCCACACAAGTTTGTGGCAA
1 CCTT-TC-AAAG-CC-CACAAGTCAGTGGCAT
272150 CCTTCTCTAAAGCCCACA
1 CCTT-TC-AAAGCCCACA
272168 CAAGTTGGTG
Statistics
Matches: 471, Mismatches: 63, Indels: 82
0.76 0.10 0.13
Matches are distributed among these distances:
19 33 0.07
20 1 0.00
22 2 0.00
25 1 0.00
26 1 0.00
27 30 0.06
28 237 0.50
29 42 0.09
30 42 0.09
31 16 0.03
32 57 0.12
33 9 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:271638 original size:48 final size:47
Alignment explanation
Indices: 271567--271662 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 47
271557 ATACGACCCT
* *
271567 TTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAG
1 TTCAAAGCCCACAAGTCAATGGCATCCTT-TCAAAGCCCAAAAGTCAG
*
271615 TTCAAAGCCTACAAGTCAATGGCATCCTTTCAAAGCCCAAAAGTCAG
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCAAAAGTCAG
271662 T
1 T
271663 GGCATCTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 18 0.40
48 27 0.60
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (47 bp):
TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCAAAAGTCAG
Found at i:271694 original size:47 final size:47
Alignment explanation
Indices: 271643--271737 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
271633 ATGGCATCCT
* * *
271643 TTCAAAGCCCAAAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAG
1 TTCAAAGCCCAAAAGTCAATGGCATCCTTTCAAAGCCCAAAAGTCAG
* *
271690 TTCAAAGCCTACAAGTCAATGGCATCCTTTCAAAGCCCAAAAGTCAG
1 TTCAAAGCCCAAAAGTCAATGGCATCCTTTCAAAGCCCAAAAGTCAG
271737 T
1 T
271738 GGCATCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (47 bp):
TTCAAAGCCCAAAAGTCAATGGCATCCTTTCAAAGCCCAAAAGTCAG
Found at i:271695 original size:19 final size:19
Alignment explanation
Indices: 271671--271707 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
271661 GTGGCATCTT
271671 TTCAAAGCCCACAAGTCAG
1 TTCAAAGCCCACAAGTCAG
*
271690 TTCAAAGCCTACAAGTCA
1 TTCAAAGCCCACAAGTCA
271708 ATGGCATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.19
Consensus pattern (19 bp):
TTCAAAGCCCACAAGTCAG
Found at i:271705 original size:75 final size:75
Alignment explanation
Indices: 271564--271758 Score: 354
Period size: 75 Copynumber: 2.6 Consensus size: 75
271554 TCAATACGAC
* *
271564 CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTTCAAAGCCTACAA
1 CCTTTCAAAGCCCAAAAGTCAGTGGCAT-CTTTTCAAAGCCCACAAGTCAGTTCAAAGCCTACAA
271629 GTCAATGGCAT
65 GTCAATGGCAT
271640 CCTTTCAAAGCCCAAAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTTCAAAGCCTACAAG
1 CCTTTCAAAGCCCAAAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTTCAAAGCCTACAAG
271705 TCAATGGCAT
66 TCAATGGCAT
*
271715 CCTTTCAAAGCCCAAAAGTCAGTGGCATCTTTACAAAGCCCACA
1 CCTTTCAAAGCCCAAAAGTCAGTGGCATCTTTTCAAAGCCCACA
271759 TGTTAGTGGC
Statistics
Matches: 116, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
75 89 0.77
76 27 0.23
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (75 bp):
CCTTTCAAAGCCCAAAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTTCAAAGCCTACAAG
TCAATGGCAT
Found at i:272014 original size:142 final size:138
Alignment explanation
Indices: 271748--272135 Score: 330
Period size: 142 Copynumber: 2.7 Consensus size: 138
271738 GGCATCTTTA
* * * * * * * *
271748 CAAAGCCCACATGTTAGTGGCATCCTTTTAAAGCCCATATGTCGTGGCATCCTCTCAAAGCCTAC
1 CAAAGCCCACAAGTTGGTGGCA-CCTTTCAAAGCCCACAAGTAGTGGCACCCTCTCAAAGCCCAC
* * * * * *
271813 AAGTTAGTGGCATCTTTTCAAAGCCCATAAGTCAGTGACACCCCTTTAAGCCTACACAAGTTGGT
65 AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAACACCCCTTTAAGCC-ACACAAGTTAGT
271878 GGCAACCTCTCT
129 GGC-ACC-CTCT
* * *
271890 CAAAGCCCACAAGTTGGTGGCACCATTTCAAAGCCCACAAGTTAGTGGCACCCTTTCGAATCCCA
1 CAAAGCCCACAAGTTGGTGGCACC-TTTCAAAGCCCACAAG-TAGTGGCACCCTCTCAAAGCCCA
*
271955 CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTAACA-CCCTTTCGAAGCC-CACAAGTTA
64 CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAACACCCCTTT--AAGCCACACAAGTTA
*
272018 GTGGCACCCTTT
127 GTGGCACCCTCT
** * * *
272030 TGAAGCCCACATAAGTTGGTGGCAACCTTCTCTAAAGCCCACACAGGTCAATGGCAACCCTTTTA
1 CAAAGCCCAC--AAGTTGGTGGC-ACCTT-TC-AAAGCCCACA-A-GT-AGTGGC-ACCCTCTCA
* * *
272095 AAGCCCACACAAGTTATTGGCAACCTTCTCTAAAGCCCACA
57 AAG-CC-CACAAGTCAGTGGCACCCTT-TC-AAAGCCCACA
272136 CAAGTTTGTG
Statistics
Matches: 201, Mismatches: 28, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
140 11 0.05
141 5 0.02
142 65 0.32
143 57 0.28
144 15 0.07
145 2 0.01
146 6 0.03
147 9 0.04
148 2 0.01
149 17 0.08
150 2 0.01
151 10 0.05
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (138 bp):
CAAAGCCCACAAGTTGGTGGCACCTTTCAAAGCCCACAAGTAGTGGCACCCTCTCAAAGCCCACA
AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAACACCCCTTTAAGCCACACAAGTTAGTGG
CACCCTCT
Found at i:272147 original size:95 final size:92
Alignment explanation
Indices: 272009--272195 Score: 257
Period size: 95 Copynumber: 2.0 Consensus size: 92
271999 TTTCGAAGCC
* * *
272009 CACAAGTTAGTGGCACCCTTTTGAAGCCCACATAAGTTGGTGGCAACCTTCTCTAAAGCCCACAC
1 CACAAGTTAGTGGCAACCTTTTAAAGCCCACACAAGTTGGTGGCAACCTTCTCTAAAGCCCACAC
* *
272074 AGGTCAATGGCAACCCTTTTAAAGCCCA
66 AAGTCAATGGCAACCCTTCTAAA-CCCA
* *
272102 CACAAGTTATTGGCAACCTTCTCTAAAGCCCACACAAGTTTGTGGCAACCTTCTCTAAAGCCCAC
1 CACAAGTTAGTGGCAACCTT-T-TAAAGCCCACACAAGTTGGTGGCAACCTTCTCTAAAGCCCAC
***
272167 ACAAGTTGGTGGCAACCCTTCTAAACCCA
64 ACAAGTCAATGGCAACCCTTCTAAACCCA
272196 ATGTCACTGG
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
93 18 0.22
94 5 0.06
95 59 0.72
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (92 bp):
CACAAGTTAGTGGCAACCTTTTAAAGCCCACACAAGTTGGTGGCAACCTTCTCTAAAGCCCACAC
AAGTCAATGGCAACCCTTCTAAACCCA
Found at i:275155 original size:20 final size:20
Alignment explanation
Indices: 275112--275162 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
275102 CCACTGTTTG
*
275112 TATCGATACATAGGACATTG
1 TATCGATACATAGGACATTA
*
275132 TATCGATACATGATGA-ATTA
1 TATCGATACAT-AGGACATTA
*
275152 TATCAATACAT
1 TATCGATACAT
275163 TGCTTGGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
TATCGATACATAGGACATTA
Found at i:277224 original size:3 final size:3
Alignment explanation
Indices: 277210--277243 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
277200 CATCAAGGAC
*
277210 GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
277244 GTGACTTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:277454 original size:24 final size:25
Alignment explanation
Indices: 277418--277464 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
277408 TTTGATTGTC
* *
277418 CAAACCTAAAGAAGAAAGGCATGAG
1 CAAACCTAAAGAAAAAAGCCATGAG
277443 CAAACC-AAAGAAAAAAGCCATG
1 CAAACCTAAAGAAAAAAGCCATG
277465 GTAGCCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.55, C:0.19, G:0.19, T:0.06
Consensus pattern (25 bp):
CAAACCTAAAGAAAAAAGCCATGAG
Found at i:281784 original size:13 final size:13
Alignment explanation
Indices: 281766--281791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
281756 ACAATATTCT
281766 CTGTATCGATACA
1 CTGTATCGATACA
281779 CTGTATCGATACA
1 CTGTATCGATACA
281792 TGGCAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:284281 original size:13 final size:13
Alignment explanation
Indices: 284263--284287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
284253 ATAATGCACA
284263 GTATCGATACATT
1 GTATCGATACATT
284276 GTATCGATACAT
1 GTATCGATACAT
284288 GACCATTGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:284636 original size:33 final size:33
Alignment explanation
Indices: 284599--284665 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
284589 TTCAACGATT
284599 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
284632 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
284665 T
1 T
284666 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:284637 original size:13 final size:13
Alignment explanation
Indices: 284619--284643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
284609 CATAAAATGT
284619 TGTATCGATACAA
1 TGTATCGATACAA
284632 TGTATCGATACA
1 TGTATCGATACA
284644 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:284724 original size:13 final size:13
Alignment explanation
Indices: 284706--284730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
284696 ATTACTCAAA
284706 TGTATCGATACAT
1 TGTATCGATACAT
284719 TGTATCGATACA
1 TGTATCGATACA
284731 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:284832 original size:52 final size:52
Alignment explanation
Indices: 284739--284862 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
284729 CACTGATCTT
*
284739 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
284790 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
284842 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
284863 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:289207 original size:20 final size:20
Alignment explanation
Indices: 289184--289222 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
289174 AAGGTTATAA
*
289184 CTTTACCTTAAAGGTAATCC
1 CTTTACCCTAAAGGTAATCC
*
289204 CTTTGCCCTAAAGGTAATC
1 CTTTACCCTAAAGGTAATC
289223 AACTCTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CTTTACCCTAAAGGTAATCC
Found at i:297724 original size:52 final size:52
Alignment explanation
Indices: 297639--297763 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
297629 ATATGAAAAG
* *
297639 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
297691 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
297743 TTGCCTACATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
297764 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:297776 original size:52 final size:52
Alignment explanation
Indices: 297646--297783 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 52
297636 AAGTTGCTTG
* *
297646 CATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTA
*** *
297698 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTA
297750 CATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CATGTATCGATACATAAGAT-AGTGTATCGATACA
297784 ATGTATCGAT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
51 4 0.05
52 73 0.95
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:297790 original size:13 final size:13
Alignment explanation
Indices: 297772--297796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
297762 CAAAGATCAG
297772 TGTATCGATACAA
1 TGTATCGATACAA
297785 TGTATCGATACA
1 TGTATCGATACA
297797 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:297876 original size:13 final size:13
Alignment explanation
Indices: 297858--297882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
297848 ACAAAAAAAA
297858 TGTATCGATACAT
1 TGTATCGATACAT
297871 TGTATCGATACA
1 TGTATCGATACA
297883 ACACTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:302383 original size:20 final size:22
Alignment explanation
Indices: 302349--302389 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
302339 ACAAATTTCC
*
302349 TCATTTTTACTTC-AAATCACT
1 TCATTTTTACATCAAAATCACT
302370 TCATTTTT-CATCAAAATCAC
1 TCATTTTTACATCAAAATCAC
302390 CAGCAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (22 bp):
TCATTTTTACATCAAAATCACT
Found at i:307902 original size:13 final size:13
Alignment explanation
Indices: 307884--307967 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
307874 AGCTTCGTAG
307884 CGATACATTGTAT
1 CGATACATTGTAT
307897 CGATACAAACCTTATGTAT
1 CGATAC--A--TT--GTAT
307916 CGATACATTGTAT
1 CGATACATTGTAT
*
307929 TGATATAACACTTATGTAT
1 CG--AT-ACA--T-TGTAT
307948 CGATACATTGTAT
1 CGATACATTGTAT
307961 CGATACA
1 CGATACA
307968 AATCGTTGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 23 0.40
14 1 0.02
15 5 0.09
16 6 0.11
17 5 0.09
18 1 0.02
19 16 0.28
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:307925 original size:32 final size:33
Alignment explanation
Indices: 307884--307969 Score: 140
Period size: 32 Copynumber: 2.7 Consensus size: 33
307874 AGCTTCGTAG
307884 CGATACATTGTATCGATACAAAC-CTTATGTAT
1 CGATACATTGTATCGATACAAACACTTATGTAT
* *
307916 CGATACATTGTATTGATA-TAACACTTATGTAT
1 CGATACATTGTATCGATACAAACACTTATGTAT
307948 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
307970 TCGTTGAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
31 3 0.06
32 43 0.90
33 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (33 bp):
CGATACATTGTATCGATACAAACACTTATGTAT
Found at i:311653 original size:20 final size:19
Alignment explanation
Indices: 311627--311700 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
311617 ACTGTTAGTT
311627 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
311646 TGCATGTATTGATACAATGA
1 T-CATGTATCGATACAATGA
*
311666 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
311686 TAATGTATCGATACA
1 TCATGTATCGATACA
311701 TCTGGATGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:313725 original size:13 final size:13
Alignment explanation
Indices: 313707--313734 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
313697 ATTACTCAAA
313707 TGTATCGATACAT
1 TGTATCGATACAT
313720 TGTATCGATACAT
1 TGTATCGATACAT
313733 TG
1 TG
313735 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:313784 original size:52 final size:50
Alignment explanation
Indices: 313720--313860 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 50
313710 ATCGATACAT
* *
313720 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAGATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
313772 TGTATCGATACATTATAAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
313824 TGTATCTATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACATTATT--ATGTATCGATACATGCAG
313861 ATAAATTTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
51 2 0.03
52 75 0.97
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:313867 original size:52 final size:52
Alignment explanation
Indices: 313740--313868 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
313730 CATTGATCTT
* * *
313740 TGTATCGATACATGCAGGCAGATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
313792 TGTATCGATACATGCA-AGCAAATTTGCCCAGATGTATCTATACACTATTAAA
1 TGTATCGATACATGCAGA-CAAATTTGCCCAGATGTATCGATACACTATAAAA
*
313844 TGTATCGATACATGCAGATAAATTT
1 TGTATCGATACATGCAGACAAATTT
313869 TCATATTTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 68 0.99
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:319100 original size:13 final size:13
Alignment explanation
Indices: 319082--319106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
319072 ATTACTCAAA
319082 TGTATCGATACAT
1 TGTATCGATACAT
319095 TGTATCGATACA
1 TGTATCGATACA
319107 CCGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:319232 original size:52 final size:52
Alignment explanation
Indices: 319115--319239 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
319105 CACCGATCTT
* *
319115 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACATTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATTATAA
319167 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TATTATAA
*
319219 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
319240 CTTTTTATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 65 0.94
53 4 0.06
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATTATAA
Found at i:324335 original size:10 final size:10
Alignment explanation
Indices: 324320--324347 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
324310 AATCTTTACA
324320 AAAAAAAAAC
1 AAAAAAAAAC
324330 AAAAAAAAAC
1 AAAAAAAAAC
324340 AAAAAAAA
1 AAAAAAAA
324348 GGGAAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:325308 original size:31 final size:31
Alignment explanation
Indices: 325267--325635 Score: 221
Period size: 31 Copynumber: 11.9 Consensus size: 31
325257 CTTCAAATAC
* *
325267 CTTCTTAAAGTCCATGACTCCGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* *
325298 CTTCTCAAAGTCCCCGACTCAGTGGCATCCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCA-CCTT
* **
325330 -TTCTTCAAAGTCCACGACTCAGTGGCAATTT
1 CTTC-TCAAAGTCCACGACTCCGTGGCACCTT
*
325361 CTACTCAAAGTCCACGACTCCGTGGCACCTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * *
325392 CCTT-TCAAAGCCCACAACTTCGTGGCACTCGTT
1 -CTTCTCAAAGTCCACGACTCCGTGGCAC-C-TT
*
325425 -TTCCTTCTAAGTCCACGACTCCGTGGCACCTT
1 CTT-C-TCAAAGTCCACGACTCCGTGGCACCTT
* * * * *
325457 TTTTTCAAAGCCCACAACTCCGTGGCACTTT
1 CTTCTCAAAGTCCACGACTCCGTGGCACCTT
* * *
325488 TTTCATCTTTAAGTCCACAACTCCGTGGCACC--
1 CTTC-TC--AAAGTCCACGACTCCGTGGCACCTT
* * * *
325520 CTT-TTAAAGCCCACAACTTCGTGGCACTCGTT
1 CTTCTCAAAGTCCACGACTCCGTGGCAC-C-TT
* * *
325552 -TTCCTTCTAAGTCCACAACTCTGTGGCACC--
1 CTT-C-TCAAAGTCCACGACTCCGTGGCACCTT
* *
325582 CGTT-T--AAGCCCACAACTCCGTGGCACC--
1 C-TTCTCAAAGTCCACGACTCCGTGGCACCTT
*
325609 CTT-T-TAAGTCCACGACTCCGTGGCACC
1 CTTCTCAAAGTCCACGACTCCGTGGCACC
325636 CTTTTTTCCT
Statistics
Matches: 273, Mismatches: 42, Indels: 50
0.75 0.12 0.14
Matches are distributed among these distances:
26 3 0.01
27 41 0.15
28 19 0.07
29 2 0.01
30 1 0.00
31 103 0.38
32 39 0.14
33 6 0.02
34 59 0.22
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.29
Consensus pattern (31 bp):
CTTCTCAAAGTCCACGACTCCGTGGCACCTT
Found at i:325445 original size:65 final size:63
Alignment explanation
Indices: 325283--325721 Score: 347
Period size: 62 Copynumber: 7.0 Consensus size: 63
325273 AAAGTCCATG
* * * * * *
325283 ACTCCGTGGCAC-CTTCTT-C-TCAAAGTCCCCGACTCAGTGGCATCCTTTTCTTCAAAGTCCAC
1 ACTCCGTGGCACTCTT-TTCCTTCTAAGTCCACGACTCCGTGGCA-CC-TTCCTTTAAAGCCCAC
*
325345 G
63 A
* * * * *
325346 ACTCAGTGGCAAT-TTCTAC-TCAAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGCCCACA
1 ACTCCGTGGCACTCTTTTCCTTCTAAGTCCACGACTCCGTGGCACCTTCCTTT-AAAGCCCACA
* **
325408 ACTTCGTGGCACTCGTTTTCCTTCTAAGTCCACGACTCCGTGGCACCTTTTTTTCAAAGCCCACA
1 ACTCCGTGGCACTC-TTTTCCTTCTAAGTCCACGACTCCGTGGCACCTTCCTTT-AAAGCCCACA
* * *
325473 ACTCCGTGGCACTTTTTTCATCTT-TAAGTCCACAACTCCGTGGCACC--CTTTTAAAGCCCACA
1 ACTCCGTGGCACTCTTTTC--CTTCTAAGTCCACGACTCCGTGGCACCTTCCTTTAAAGCCCACA
* * * *
325535 ACTTCGTGGCACTCGTTTTCCTTCTAAGTCCACAACTCTGTGGCACC--CGTTT-AAGCCCACA
1 ACTCCGTGGCACTC-TTTTCCTTCTAAGTCCACGACTCCGTGGCACCTTCCTTTAAAGCCCACA
*
325596 ACTCCGTGGCA--C----CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCC
1 ACTCCGTGGCACTCTTTTCCTTCTAAGTCCACGACTCCGTGGCA-CC----TTCCTTTAAAGCCC
325655 ACA
61 ACA
* * * * * *
325658 ACTACGTGGCACTCTTTTCCTTTTAAGTCCACAAGTCGGTGGTAACCTT-CTTCTAAAGCCCACA
1 ACTCCGTGGCACTCTTTTCCTTCTAAGTCCACGACTCCGTGG-CACCTTCCTT-TAAAGCCCACA
325722 CAAGTCGGTG
Statistics
Matches: 315, Mismatches: 35, Indels: 51
0.79 0.09 0.13
Matches are distributed among these distances:
54 23 0.07
55 2 0.01
59 1 0.00
61 31 0.10
62 88 0.28
63 46 0.15
64 23 0.07
65 74 0.23
66 3 0.01
68 23 0.07
69 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.15, T:0.29
Consensus pattern (63 bp):
ACTCCGTGGCACTCTTTTCCTTCTAAGTCCACGACTCCGTGGCACCTTCCTTTAAAGCCCACA
Found at i:325477 original size:96 final size:94
Alignment explanation
Indices: 325283--325484 Score: 241
Period size: 96 Copynumber: 2.1 Consensus size: 94
325273 AAAGTCCATG
*
325283 ACTCCGTGGCACCTTCTTCTCAAAGTCCCCGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGAC
1 ACTCCGTGGCACCTTCTTCTCAAAGTCCCCAACTCAGTGGCATCCTTTTCTTCAAAGTCCACGAC
* *
325348 TCAGTGGCAATTTCTACTCAAAGTCCACG
66 TCAGTGGCAATTTCTACTCAAAGCCCACA
* *
325377 ACTCCGTGGCACCTTCCTT-TCAAAG-CCCACAACTTC-GTGGCACTCGTTTTCCTTCTAAGTCC
1 ACTCCGTGGCACCTT-CTTCTCAAAGTCCC-CAAC-TCAGTGGCA-TCCTTTT-CTTCAAAGTCC
* * **
325439 ACGACTCCGTGGCACCTTT-TTTTCAAAGCCCACA
61 ACGACTCAGTGGCA-ATTTCTACTCAAAGCCCACA
325473 ACTCCGTGGCAC
1 ACTCCGTGGCAC
325485 TTTTTTCATC
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
93 3 0.03
94 30 0.32
95 11 0.12
96 46 0.49
97 3 0.03
ACGTcount: A:0.21, C:0.36, G:0.16, T:0.28
Consensus pattern (94 bp):
ACTCCGTGGCACCTTCTTCTCAAAGTCCCCAACTCAGTGGCATCCTTTTCTTCAAAGTCCACGAC
TCAGTGGCAATTTCTACTCAAAGCCCACA
Found at i:325531 original size:127 final size:125
Alignment explanation
Indices: 325305--325689 Score: 398
Period size: 127 Copynumber: 3.1 Consensus size: 125
325295 CTTCTTCTCA
* * * * * * **
325305 AAGTCCCCGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA-ATTTC-TACTCA
1 AAGTCCACGACTCAGTGGCA-CCTTTTTTTCAAAGCCCACAACTCCGTGGCACTTTTCAT-CTTT
*
325368 AAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
64 AAGTCCACGACTCCGTGGCA-C--CCTTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
*
325433 AAGTCCACGACTCCGTGGCACCTTTTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGTCCACGACTCAGTGGCACCTTTTTTTCAAAGCCCACAACTCCGTGGCAC--TTTTCATCTTT
*
325498 AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
64 AAGTCCACGACTCCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
* * ** *
325560 AAGTCCACAACTCTGTGGCACC--CGTTT--AAGCCCACAACTCCGTGGCAC----CCT-TTTAA
1 AAGTCCACGACTCAGTGGCACCTTTTTTTCAAAGCCCACAACTCCGTGGCACTTTTCATCTTTAA
*
325616 GTCCACGACTCCGTGGCACCCTTTTTTCCTTTAAAGCCCACAACTACGTGGCACTC-TTTTCCTT
66 GTCCACGACTCCGTGGCACCC-----T--TTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTT
*
325680 TT
124 CT
325682 AAGTCCAC
1 AAGTCCAC
325690 AAGTCGGTGG
Statistics
Matches: 227, Mismatches: 19, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
116 25 0.11
117 2 0.01
121 1 0.00
122 17 0.07
123 47 0.21
125 3 0.01
127 87 0.38
128 18 0.08
129 1 0.00
130 25 0.11
131 1 0.00
ACGTcount: A:0.21, C:0.35, G:0.15, T:0.30
Consensus pattern (125 bp):
AAGTCCACGACTCAGTGGCACCTTTTTTTCAAAGCCCACAACTCCGTGGCACTTTTCATCTTTAA
GTCCACGACTCCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTCGTTTTCCTTCT
Found at i:325604 original size:89 final size:89
Alignment explanation
Indices: 325495--325669 Score: 239
Period size: 89 Copynumber: 2.0 Consensus size: 89
325485 TTTTTTCATC
* * *
325495 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTTCGTGGCACTC-GTTTTCCTTC
1 TTTAAGCCCACAACTCCGTGGCACCCTTTT-AAGCCCACAACTCCGTGGCACCCTGTTTTCCTT-
*
325559 T-AAGTCCACAACT-CTGTGGCACCCG
64 TAAAGCCCACAACTAC-GTGGCACCCG
* * *
325584 TTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTTCCTTTA
1 TTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTTTCCTTTA
325649 AAGCCCACAACTACGTGGCAC
66 AAGCCCACAACTACGTGGCAC
325670 TCTTTTCCTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 20 0.26
89 55 0.72
90 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.27
Consensus pattern (89 bp):
TTTAAGCCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCCTGTTTTCCTTTA
AAGCCCACAACTACGTGGCACCCG
Found at i:325637 original size:27 final size:27
Alignment explanation
Indices: 325554--325640 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
325544 CACTCGTTTT
* *
325554 CCTTCTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
325581 CCGTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
325608 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
325635 CCTTTT
1 CCTTTT
325641 TTCCTTTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.20, C:0.38, G:0.16, T:0.26
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:325666 original size:35 final size:33
Alignment explanation
Indices: 325608--325691 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 33
325598 TCCGTGGCAC
* * *
325608 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTTT
1 CCTTTTAAGTCCACAACTACGTGGCA--CTCTTTT
* *
325643 CCTTTAAAGCCCACAACTACGTGGCACTCTTTT
1 CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
325676 CCTTTTAAGTCCACAA
1 CCTTTTAAGTCCACAA
325692 GTCGGTGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 20 0.48
35 22 0.52
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTACGTGGCACTCTTTT
Found at i:325753 original size:32 final size:33
Alignment explanation
Indices: 325687--325807 Score: 192
Period size: 33 Copynumber: 3.7 Consensus size: 33
325677 CTTTTAAGTC
*
325687 CACAAGTCGGTGGTAA-CCTTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTC-TCTAAAGCCCA
325720 CACAAGTCGGTGGCAACCCTTCTC-AAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
*
325752 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
*
325785 CACAAGTCGGTGGTAACCCTTCT
1 CACAAGTCGGTGGCAACCCTTCT
325808 AAGCCCAATA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
32 31 0.38
33 46 0.56
34 5 0.06
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (33 bp):
CACAAGTCGGTGGCAACCCTTCTCTAAAGCCCA
Found at i:325762 original size:65 final size:63
Alignment explanation
Indices: 325687--325814 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 63
325677 CTTTTAAGTC
*
325687 CACAAGTCGGTGGTAACC-TTCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCC
1 CACAAGTCGGTGGCAACCATTC-TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT--AAGCCC
325751 A
63 A
*
325752 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGTAACCCTTCTAAGCCCA
1 CACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
325815 ATATAGCTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
63 7 0.12
65 50 0.83
66 3 0.05
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.20
Consensus pattern (63 bp):
CACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAGCCCA
Found at i:325871 original size:49 final size:49
Alignment explanation
Indices: 325807--326979 Score: 1538
Period size: 49 Copynumber: 24.6 Consensus size: 49
325797 GTAACCCTTC
*
325807 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
325856 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
325899 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
325948 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
325991 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
326040 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
326089 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
326138 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
326187 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
326236 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
326285 TAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
326328 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
326377 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
326420 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
326469 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
326518 TAAGTCCAATGTAGCTGGCCTTGACTCACCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
326561 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
326610 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTCACCCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
326659 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
326708 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
326757 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
326806 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* **
326854 TAAGTCCAATGTAGCTCACCTTGAATCAGCATATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
326897 TAAGTCCAATATAGTTGGCCTTGAATCAGCATATTAGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTT
* *
326949 TAAGTTCAATGTAGCTGGCCTTGAATCAGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCA
326980 CATTAACATC
Statistics
Matches: 987, Mismatches: 98, Indels: 75
0.85 0.08 0.06
Matches are distributed among these distances:
43 228 0.23
45 6 0.01
47 5 0.01
48 42 0.04
49 674 0.68
50 1 0.00
52 31 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:325969 original size:92 final size:94
Alignment explanation
Indices: 325807--326983 Score: 1367
Period size: 92 Copynumber: 12.4 Consensus size: 94
325797 GTAACCCTTC
* * *
325807 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
325872 GGCCTTGAATCAGCACATTGGCA-C-CTT
66 GGCCTTGAATCAGCATATTGGCACCTCTT
* * * * *
325899 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTCATATTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
325964 GGCCTTGAATCAGCACATTGGCA-C-CTT
66 GGCCTTGAATCAGCATATTGGCACCTCTT
* *
325991 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
326056 GGCCTTGAATTAGCATATTGGCACCTTCACCTT
66 GGCCTTGAATCAGCATATTGGCACC-T---CTT
* * * *
326089 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
326154 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACC----TCTT
* * * *
326187 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
326252 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCA-C--C-TCTT
* *
326285 TAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
326344 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCA-C--C-TCTT
* *
326377 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
326436 GGCCTTGAATCAGCATATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCA-C--C-TCTT
* * * *
326469 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * *
326534 GGCCTTGACTCACCACATTGGCA-C-CTT
66 GGCCTTGAATCAGCATATTGGCACCTCTT
* *
326561 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* *
326626 GGCCTTGAATTAGCATATTGGCACCTTCACCCT
66 GGCCTTGAATCAGCATATTGGCACC-T---CTT
* * * *
326659 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
326724 GGCCTTGAATCAGCATATTGGCACCTTTATCTT
66 GGCCTTGAATCAGCATATTGGCACC----TCTT
* * * *
326757 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTTCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
326822 GGCCTTGAATCAGCACATTGGCACCTCATCTT
66 GGCCTTGAATCAGCATATTGGCA-C-C-TCTT
* ** * *
326854 TAAGTCCAATGTAGCTCACCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATATAGTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
*
326913 GGCCTTGAATCAGCATATTAGCACATTTTCCATCTT
66 GGCCTTGAATCAGCATATT-G-GCA----CC-TCTT
* *
326949 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATT
326984 AACATCCTTT
Statistics
Matches: 982, Mismatches: 69, Indels: 65
0.88 0.06 0.06
Matches are distributed among these distances:
91 34 0.03
92 431 0.44
93 5 0.01
94 2 0.00
95 37 0.04
96 2 0.00
97 40 0.04
98 425 0.43
99 2 0.00
100 1 0.00
101 3 0.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (94 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACCTCTT
Found at i:326071 original size:141 final size:141
Alignment explanation
Indices: 325802--326983 Score: 1536
Period size: 141 Copynumber: 8.3 Consensus size: 141
325792 CGGTGGTAAC
* * * *
325802 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
* *
325867 TAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATC
59 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
*
325926 AGCATATTGACACCTTCA
124 AGCATATTGGCACCTTCA
** *
325944 TATTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
*
326009 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATAT
66 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
326074 TGGCACCTTCA
131 TGGCACCTTCA
*
326085 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATAT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TTAAGTCCAATAT
* * *
326150 AGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
60 AGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
*
326215 GCACATTGGCACCTTCA
125 GCATATTGGCACCTTCA
* * *
326232 CCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATAT
* * *
326297 AGCTAGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCA
60 AGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
326356 GCATATTGGCACCTTCA
125 GCATATTGGCACCTTCA
* *
326373 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
*
326438 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATAT
66 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
326503 TGGCACCTTCA
131 TGGCACCTTCA
* * *
326514 CCTTTAAGTCCAATGTAGCTGGCCTTGACTCACCACATTGGCACCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
*
326579 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATTAGCATAT
66 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
326644 TGGCACCTTCA
131 TGGCACCTTCA
* *
326655 CCCTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATAT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T-----TTAAGTCCAATAT
* * *
326720 AGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCA
60 AGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
*
326785 GCACATTGGCACCTTCA
125 GCATATTGGCACCTTCA
* * *
326802 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATA
** *
326867 GCTCACCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATATAGTTGGCCTTGAATCAG
61 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* *
326926 CATATTAGCACATTTTCCA
126 CATATTGGCAC--CTT-CA
* *
326945 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT
326984 AACATCCTTT
Statistics
Matches: 937, Mismatches: 65, Indels: 75
0.87 0.06 0.07
Matches are distributed among these distances:
135 78 0.08
137 2 0.00
139 2 0.00
140 38 0.04
141 433 0.46
142 6 0.01
143 41 0.04
146 37 0.04
147 294 0.31
150 1 0.00
151 2 0.00
152 2 0.00
153 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (141 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
TGGCACCTTCA
Found at i:326896 original size:21 final size:21
Alignment explanation
Indices: 326870--326936 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
326860 CAATGTAGCT
326870 CACCTTGAATCAGCATATTGG
1 CACCTTGAATCAGCATATTGG
* **
326891 CACCTTTAAGTCCAATATAGTTGG
1 CACCTTGAA-T-CAGCATA-TTGG
*
326915 --CCTTGAATCAGCATATTAG
1 CACCTTGAATCAGCATATTGG
326934 CAC
1 CAC
326937 ATTTTCCATC
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 10 0.29
22 7 0.21
23 5 0.15
24 4 0.12
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (21 bp):
CACCTTGAATCAGCATATTGG
Found at i:327105 original size:67 final size:68
Alignment explanation
Indices: 326997--327123 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
326987 ATCCTTTTTC
* *
326997 TCATCATTAAGCCCAATATCATTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCATTAAGCCCAATATCATTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
327061 TCT
66 TCT
* * ** * *
327064 TCATCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCATTAAGCCCAATATCATTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
327124 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCATTAAGCCCAATATCATTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:328041 original size:13 final size:13
Alignment explanation
Indices: 328023--328050 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
328013 ATTACTCAAA
328023 TGTATCGATACAT
1 TGTATCGATACAT
328036 TGTATCGATACAT
1 TGTATCGATACAT
328049 TG
1 TG
328051 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:328100 original size:52 final size:50
Alignment explanation
Indices: 328036--328176 Score: 174
Period size: 52 Copynumber: 2.7 Consensus size: 50
328026 ATCGATACAT
* *
328036 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAGATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
328088 TGTATCGATACATTATAAAATGTATCGATACATGCAAGCAAATTTGCCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
328140 TGTATCTATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACATTATT--ATGTATCGATACATGCAG
328177 ATAAATTTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
51 2 0.03
52 75 0.97
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:328183 original size:52 final size:52
Alignment explanation
Indices: 328056--328184 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
328046 CATTGATCTT
* * *
328056 TGTATCGATACATGCAGGCAGATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
328108 TGTATCGATACATGCA-AGCAAATTTGCCCAGATGTATCTATACACTATTAAA
1 TGTATCGATACATGCAGA-CAAATTTGCCCAGATGTATCGATACACTATAAAA
*
328160 TGTATCGATACATGCAGATAAATTT
1 TGTATCGATACATGCAGACAAATTT
328185 TCATATTTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 68 0.99
53 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:329897 original size:142 final size:140
Alignment explanation
Indices: 329622--330106 Score: 503
Period size: 142 Copynumber: 3.4 Consensus size: 140
329612 TTTTAAAAAA
* * ** *
329622 AAAAGGTACCACTAACTTGTGTGGGCTTTG-AAAGGGTGTCACCGACTTGTGGGCTTTAAAAGGG
1 AAAA-GTACCACTAAC-T-TGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGG
* *
329686 TATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGT-AGGCTTTGAAGGGGTACCAC
63 T-T-CCACTAACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGA-GCTTTGAAAGGGTGCCAC
*
329750 TGACTTGTGGGTTTTG
125 TGACTTGTGGGCTTTG
* *
329766 AAATAGTACCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGGACGGGTT
1 AAA-AGTACCACTAACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTT
** * * *
329830 CCACTGATTTGTGTGGGCTTTTAAAGGGTGCTATTGACTTGTGAGCTTTGAAAGGGTGCTACTGA
65 CCACT-AACT-TGTGGGCTTTGAAAGGGTGCCATTGACTTGTGAGCTTTGAAAGGGTGCCACTGA
*
329895 CTTATGGGCTTTG
128 CTTGTGGGCTTTG
* * * * * ***
329908 AAAGGGTGCCACTGATTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGTCTTTTGAAAAAAT
1 AAA-AGTACCACTAACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGC-TTTGAAAGGGT
* * * * * *
329972 GCCACTAAGTTGTGGGCTTTGAAAGGATACCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC
64 TCCACTAACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGAGCTTTGAAAGGGTGCCACTGAC
330037 TTGTGGGCTTTG
129 TTGTGGGCTTTG
* * * * * *
330049 AAAAGGTGCCACTGATTTGTGAGCTTT-AAAAGGATGCCACTGACCTGTGGGCTTTGAA
1 AAAA-GTACCACTAACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAA
330107 GAGATGAACG
Statistics
Matches: 290, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
140 11 0.04
141 112 0.39
142 134 0.46
143 18 0.06
144 14 0.05
145 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (140 bp):
AAAAGTACCACTAACTTGTGGGCTTTGAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTTC
CACTAACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGAGCTTTGAAAGGGTGCCACTGACTT
GTGGGCTTTG
Found at i:330112 original size:28 final size:28
Alignment explanation
Indices: 329641--330106 Score: 509
Period size: 28 Copynumber: 16.5 Consensus size: 28
329631 CACTAACTTG
* *
329641 TGTGGGCTTTGAAAGGGTGTCACCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
329669 TGTGGGCTTTAAAAGGGTATGCCACTAACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
329699 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
329727 TGTAGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * *
329755 TGTGGGTTTTGAAATAGTACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
329783 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
329811 TGTGGGCTTTGGACGGGTTCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* * *
329840 GTGTGGGCTTTTAAAGGGTGCTATTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
329869 TGTGAGCTTTGAAAGGGTGCTACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
329897 TATGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
329925 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *** * *
329953 TGTGGTCTTTTGAAAAAATGCCACTAAGT
1 TGTGGGC-TTTGAAAGGGTGCCACTGACT
* *
329982 TGTGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
330010 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
330038 TGTGGGCTTTGAAAAGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
330066 TGTGAGCTTTAAAAGGATGCCACTGACC
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
330094 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
330107 GAGATGAACG
Statistics
Matches: 366, Mismatches: 67, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
28 296 0.81
29 26 0.07
30 44 0.12
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:331376 original size:18 final size:17
Alignment explanation
Indices: 331362--331443 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 17
331352 CCCTTTTTTG
331362 TTTGTTTATTTTTTTTAT
1 TTTGTTT-TTTTTTTTAT
**
331380 TTTG--TTTTTTTTGCT
1 TTTGTTTTTTTTTTTAT
* *
331395 TTTGGTTTTTTTTCTAT
1 TTTGTTTTTTTTTTTAT
*
331412 TTT-TTTTCTTAGTTTTTTT
1 TTTGTTTT-TT--TTTTTAT
331431 TTTGTTTTTTTTT
1 TTTGTTTTTTTTT
331444 GGTACAAAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
15 12 0.24
16 4 0.08
17 16 0.32
18 4 0.08
19 10 0.20
20 4 0.08
ACGTcount: A:0.05, C:0.04, G:0.09, T:0.83
Consensus pattern (17 bp):
TTTGTTTTTTTTTTTAT
Found at i:331388 original size:15 final size:15
Alignment explanation
Indices: 331370--331443 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 15
331360 TGTTTGTTTA
331370 TTTTTTTTATTTTGT
1 TTTTTTTTATTTTGT
**
331385 TTTTTTTGCTTTTGGT
1 TTTTTTTTATTTT-GT
*
331401 TTTTTTTCTATTTTTTT
1 TTTTTTT-TA-TTTTGT
*
331418 TCTTAGTTTTTTTTTTGT
1 T-TT--TTTTTATTTTGT
331436 TTTTTTTT
1 TTTTTTTT
331444 GGTACAAAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
15 16 0.35
16 9 0.20
17 4 0.09
18 12 0.26
19 1 0.02
20 4 0.09
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.84
Consensus pattern (15 bp):
TTTTTTTTATTTTGT
Found at i:331443 original size:11 final size:11
Alignment explanation
Indices: 331355--331443 Score: 65
Period size: 11 Copynumber: 7.8 Consensus size: 11
331345 TCTGGACCCC
*
331355 TTTTTTGTTTG
1 TTTTTTTTTTG
331366 TTTATTTTTTT-
1 TTT-TTTTTTTG
331377 TATTTTGTTTTT-
1 T-TTTT-TTTTTG
** *
331389 TTTGCTTTTGG
1 TTTTTTTTTTG
* *
331400 TTTTTTTTCTA
1 TTTTTTTTTTG
331411 TTTTTTTTCTTAG
1 TTTTTTTT-TT-G
331424 TTTTTTTTTTG
1 TTTTTTTTTTG
331435 TTTTTTTTT
1 TTTTTTTTT
331444 GGTACAAAGG
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
10 4 0.07
11 32 0.52
12 17 0.28
13 8 0.13
ACGTcount: A:0.04, C:0.03, G:0.09, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:337047 original size:165 final size:167
Alignment explanation
Indices: 336845--337305 Score: 429
Period size: 167 Copynumber: 2.8 Consensus size: 167
336835 ATTTATGAAA
* * *
336845 TAGAAAACTCGATTTTTCGAAAATAGGGAAGTTTCAAAGAAAAAATTCAAAAGTCATG-AAAATA
1 TAGAAAACTCGATTTTTCAAAAAGAGGGAAGTTTCAAAGAAAAAATTCAAAACTCATGAAAAATA
* * * *
336909 AATGAATTTTTCAAAATTGATTTAATAT-GAGTTAAAT-GATGATATTTTATGAA-TTTATAAAT
66 AATGAATTTTTCAAAACTAATTTAATATGGA-TTAAATAG-TGATATTTAATGAATTTTAAAAAT
336971 TAAAAACC-AAGAAAAAGTCCCTCGAAAGCATTTACAGAG
129 TAAAAACCGAA-AAAAAGTCCCTCGAAAGCATTTACAGAG
*
337010 TAGAAAATTCGATTTTTCAAAGAAGAGGGAA-TTTCAAAGAAAAAATTCAAAACTCATGAAAAAT
1 TAGAAAACTCGATTTTTCAAA-AAGAGGGAAGTTTCAAAGAAAAAATTCAAAACTCATGAAAAAT
* * * *
337074 GAATTAATTTTTTAGAACTAATTTAATATGGATTAAATAGTGATATTTAATGAATTTTAAAAATT
65 AAATGAATTTTTCAAAACTAATTTAATATGGATTAAATAGTGATATTTAATGAATTTTAAAAATT
* * ** * **
337139 TAAAACCGAAAAAAATTATCTCAAAAAAATTTAC-GAAG
130 AAAAACCGAAAAAAAGTCCCTCGAAAGCATTTACAG-AG
* * * * * * * * * * *** **
337177 TAAAAAAATTCG-TATTTCGAAAACA-TGAGATTTTCCAGGAAAAAATTAAAAAAAAATTTAAAA
1 T-AGAAAACTCGATTTTTCAAAAAGAGGGA-AGTTTCAAAGAAAAAATTCAAAACTCATGAAAAA
* * * * *
337240 TAAATGAATTTTT-AGAAACTAAATTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAA
64 TAAATGAATTTTTCA-AAACTAATTTAATATGGATTAAATAGTGATATTTAATGAATTTTAAAAA
337304 TT
128 TT
337306 TTGGATTAAT
Statistics
Matches: 245, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
165 47 0.19
166 61 0.25
167 126 0.51
168 11 0.04
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.32
Consensus pattern (167 bp):
TAGAAAACTCGATTTTTCAAAAAGAGGGAAGTTTCAAAGAAAAAATTCAAAACTCATGAAAAATA
AATGAATTTTTCAAAACTAATTTAATATGGATTAAATAGTGATATTTAATGAATTTTAAAAATTA
AAAACCGAAAAAAAGTCCCTCGAAAGCATTTACAGAG
Found at i:338407 original size:20 final size:21
Alignment explanation
Indices: 338382--338439 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
338372 CTGCCCAGGA
338382 AATGTATCGATACATTAGT-C
1 AATGTATCGATACATTAGTAC
***
338402 AATGTATCGATACATGCTTAC
1 AATGTATCGATACATTAGTAC
338423 AATTGTATCGATACATT
1 AA-TGTATCGATACATT
338440 TCTCATTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 16 0.50
21 3 0.09
22 13 0.41
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTAGTAC
Found at i:343980 original size:163 final size:163
Alignment explanation
Indices: 343664--344725 Score: 906
Period size: 163 Copynumber: 6.5 Consensus size: 163
343654 ATTTAAATCT
* * * *
343664 TATTAAATTA-TTTTTAAAAAATTCATTAATTTTCATTAGTTTTT-GATTTTGTT-CTTAAAATT
1 TATTAAATTAGTTTTTAAAAAATTCATTCATTTTCATGAGTTTTTAAATTTT-TTCCTTGAAATT
* * * *
343726 TTCCTATTTTGGAAATAC-GATATTTTTTA-CTCCGT-ATTTTTTTTCGGGAGGATTTTTCTTAG
65 TTCCT-TTTTTGAAAAACGGA-GTTTTCTACCT-CGTAATTTTTTTT--GGA-GATTTTTCTTAG
* * *
343788 TTTATATTTATTTAAAATTCATAAAATATTAT-TTTTTT-A
124 TTTTTAATT-TTTAAAATTCATCAAATATTATATTTTTTCA
*
343827 TATTAAATTAGTTTTTAAAAAATT-ATTTATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTT
1 TATTAAATTAGTTTTTAAAAAATTCATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTT
* * * *
343891 TACTATTTTTGAAAAATGGAGTTTTCTACCTCGTAAATTTTTTTATTGAGATTTTTCTTGGTTTT
66 TCCT-TTTTTGAAAAACGGAGTTTTCTACCTCGT-AATTTTTTT-TGGAGATTTTTCTTAGTTTT
*
343956 TAATTTTTAAAACTCATCAAATATTATCATTTATTTCA
128 TAATTTTTAAAATTCATCAAATATTAT-ATTT-TTTCA
* * * * *
343994 TAATAAATTAG-TTTTGAAAAATTTATTCATTTTCATGAGTTTTTAAA-CTTTTCCTTGAAATTC
1 TATTAAATTAGTTTTTAAAAAATTCATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTT
* * *** ** * * * * *
344057 CCCTGTTCCAAAAAACAAAGTTTTTTACTTTGTAA--TTTTTTGGGGATCTTTCTTAGTTTTTAA
66 TCCTTTTTTGAAAAACGGAGTTTTCTACCTCGTAATTTTTTTTGGAGATTTTTCTTAGTTTTTAA
* * *
344120 TTTTTAAAATTTATCAAATATTATTATTTAATCCA
131 TTTTTAAAATTCATCAAATATTA-TATTT-TTTCA
* * * * *
344155 TATTAAATTA-TTTTTCAAAAATTCACTCATTTTCATGAGTTTTTGAA-TTTTCCCTTGAAATTA
1 TATTAAATTAGTTTTTAAAAAATTCATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTT
** * * * *
344218 T-CTTGTTTCCCAAAAACGGAATTTTCTA-CTC-CATATTTTTTTTGGAGGGATTTTTATTGGTT
66 TCCTT-TTT-TGAAAAACGGAGTTTTCTACCTCGTA-ATTTTTTTTGGA--GATTTTTCTTAGTT
*
344280 TTT-ATTTTTGAAAATTCATCAAATATTATTATTTTTTCC
126 TTTAATTTTT-AAAATTCATCAAATATTA-TATTTTTTCA
* *
344319 TATTAAATCAG-TTTTCAAAAATTCATTCATTTTTCATGAGTTTTTAAATTTTTT-CTTGAAATT
1 TATTAAATTAGTTTTTAAAAAATTCATTCA-TTTTCATGAGTTTTTAAATTTTTTCCTTGAAATT
* * * *
344382 TTACCGTTTTTT--AAAACGGAGTTTTTTTCCCCGTAATTTTTTTTAATGGAGATTTTTCTTAAT
65 TT-CC-TTTTTTGAAAAACGGAGTTTTCTACCTCGTAA-TTTTTTT--TGGAGATTTTTCTTAGT
*
344445 TTTTAATTTTTAAAATTTATCAAATATTATTATTTATTTCA
125 TTTTAATTTTTAAAATTCATCAAATATTA-TATTT-TTTCA
* * * * *
344486 TAATAAATTAG-TTTTGAAAAATTTATTCATTTTCATAAGTTTTTAAA-TTTTTCCTTGAAATTC
1 TATTAAATTAGTTTTTAAAAAATTCATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTT
* * * *** * * *
344549 CCCTGTTTCTAAAAAATAAAGTTTTCTACTTCGTAA-TTTTTTTGGGGATCTTTCTTAGTTTTTA
66 TCCT-TTTTTGAAAAACGGAGTTTTCTACCTCGTAATTTTTTTTGGAGATTTTTCTTAGTTTTTA
* * *
344613 ATTTTTAAAATTTATCAAATATTATTATTTAATCCA
130 ATTTTTAAAATTCATCAAATATTA-TATTT-TTTCA
* * * * *
344649 TCTTAAATTA-TTTTTCAAAAATTCATCCATTTTCATGAG-TTTTGATTTTTTTCC-TGAAATTT
1 TATTAAATTAGTTTTTAAAAAATTCATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTT
344711 T-CTTTTTTCGAAAAA
66 TCCTTTTTT-GAAAAA
344726 TAAAATTTTC
Statistics
Matches: 740, Mismatches: 116, Indels: 88
0.78 0.12 0.09
Matches are distributed among these distances:
160 7 0.01
161 113 0.15
162 32 0.04
163 150 0.20
164 117 0.16
165 112 0.15
166 113 0.15
167 90 0.12
168 6 0.01
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (163 bp):
TATTAAATTAGTTTTTAAAAAATTCATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTT
TCCTTTTTTGAAAAACGGAGTTTTCTACCTCGTAATTTTTTTTGGAGATTTTTCTTAGTTTTTAA
TTTTTAAAATTCATCAAATATTATATTTTTTCA
Found at i:344735 original size:492 final size:490
Alignment explanation
Indices: 343642--344753 Score: 1524
Period size: 492 Copynumber: 2.3 Consensus size: 490
343632 TCAAAGTTCT
* * * ** *
343642 TCAAATATTATCATTTAAAT-CTTATTAAATTATTTTTAAAAAATTCATTAATTTTCATTAGTTT
1 TCAAATATTATTATTT-AATCCATATTAAATTATTTTTCAAAAATTCATCCATTTTCATGAGTTT
* * * * * * * * *
343706 TTGATTTTGTTCTTAAAATTTTCCTATTTTGGAAATACGATATTTTTTACTCCGTATTTTTTTTC
65 TTGATTTTTTTCCTGAAATTTT-CTTTTTTCGAAAAACGAAATTTTCTACTCCATATTTTTTTTC
* * * *
343771 GGGAGGATTTTTCTTAGTTTATATTTATTTAAAATTCATAAAATATTATTTTTTTATATTAAATT
129 GGGAGGATTTTTATTAGTTTATATTTATTGAAAATTCATAAAATATTATTTTTTCATATTAAATC
* *
343836 AGTTTTTAAAAAATTATTTATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTTACTATTTTT
194 AGTTTTTAAAAAATTATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTTACCATTTTT
* * * **
343901 GAAAAATGGAGTTTTCTACCTCGTAAATTTTTTTATTGAGATTTTTCTTGGTTTTTAATTTTTAA
259 GAAAAACGGAGTTTTCTACCCCGTAAATTTTTTTATGGAGATTTTTCTTAATTTTTAATTTTTAA
*
343966 AACTCATCAAATATTATCATTTATTTCATAATAAATTAGTTTTGAAAAATTTATTCATTTTCATG
324 AACTCATCAAATATTATCATTTATTTCATAATAAATTAGTTTTGAAAAATTTATTCATTTTCATA
* *
344031 AGTTTTTAAACTTTTCCTTGAAATTCCCCTGTTCCAAAAAACAAAGTTTTTTACTTTGTAATTTT
389 AGTTTTTAAACTTTTCCTTGAAATTCCCCTGTTCCAAAAAACAAAGTTTTCTACTTCGTAATTTT
344096 TTGGGGATCTTTCTTAGTTTTTAATTTTTAAAATTTA
454 TTGGGGATCTTTCTTAGTTTTTAATTTTTAAAATTTA
344133 TCAAATATTATTATTTAATCCATATTAAATTATTTTTCAAAAATTCA-CTCATTTTCATGAGTTT
1 TCAAATATTATTATTTAATCCATATTAAATTATTTTTCAAAAATTCATC-CATTTTCATGAGTTT
* * * * * *
344197 TTGA-ATTTTCCCTTGAAATTATCTTGTTTCCCAAAAACGGAATTTTCTACTCCATATTTTTTTT
65 TTGATTTTTTTCC-TGAAATTTTCTT-TTTTCGAAAAACGAAATTTTCTACTCCATATTTTTTTT
* * *
344261 --GGAGGGATTTTTATTGGTTTTTATTT-TTGAAAATTCATCAAATATTATTATTTTTTCCTATT
128 CGGGA-GGATTTTTATTAGTTTATATTTATTGAAAATTCAT-AAA-A-TATTATTTTTTCATATT
*
344323 AAATCAG-TTTTCAAAAATTCATTCATTTTTCATGAGTTTTTAAATTTTTT-CTTGAAATTTTAC
189 AAATCAGTTTTTAAAAAATT-ATTCA-TTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTTAC
* * * * *
344386 CGTTTTT-TAAAACGGAGTTTTTTTCCCCGTAATTTTTTTTAATGGAGATTTTTCTTAATTTTTA
252 CATTTTTGAAAAACGGAGTTTTCTACCCCGTAAATTTTTTT-ATGGAGATTTTTCTTAATTTTTA
* * *
344450 ATTTTTAAAATTTATCAAATATTATTATTTATTTCATAATAAATTAGTTTTGAAAAATTTATTCA
316 ATTTTTAAAACTCATCAAATATTATCATTTATTTCATAATAAATTAGTTTTGAAAAATTTATTCA
* * *
344515 TTTTCATAAGTTTTTAAATTTTTCCTTGAAATTCCCCTGTTTCTAAAAAATAAAGTTTTCTACTT
381 TTTTCATAAGTTTTTAAACTTTTCCTTGAAATTCCCCTG-TTCCAAAAAACAAAGTTTTCTACTT
344580 CGTAATTTTTTTGGGGATCTTTCTTAGTTTTTAATTTTTAAAATTTA
445 CGTAA-TTTTTTGGGGATCTTTCTTAGTTTTTAATTTTTAAAATTTA
*
344627 TCAAATATTATTATTTAATCCATCTTAAATTATTTTTCAAAAATTCATCCATTTTCATGAG-TTT
1 TCAAATATTATTATTTAATCCATATTAAATTATTTTTCAAAAATTCATCCATTTTCATGAGTTTT
** * **
344691 TGATTTTTTTCCTGAAATTTTCTTTTTTCGAAAAATAAAATTTTCTTCTCCATAAATTTTTTC
66 TGATTTTTTTCCTGAAATTTTCTTTTTTCGAAAAACGAAATTTTCTACTCCATATTTTTTTTC
344754 AAGGGGATTT
Statistics
Matches: 543, Mismatches: 62, Indels: 30
0.86 0.10 0.05
Matches are distributed among these distances:
489 14 0.03
490 31 0.06
491 133 0.24
492 192 0.35
493 67 0.12
494 105 0.19
495 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.52
Consensus pattern (490 bp):
TCAAATATTATTATTTAATCCATATTAAATTATTTTTCAAAAATTCATCCATTTTCATGAGTTTT
TGATTTTTTTCCTGAAATTTTCTTTTTTCGAAAAACGAAATTTTCTACTCCATATTTTTTTTCGG
GAGGATTTTTATTAGTTTATATTTATTGAAAATTCATAAAATATTATTTTTTCATATTAAATCAG
TTTTTAAAAAATTATTCATTTTCATGAGTTTTTAAATTTTTTCCTTGAAATTTTACCATTTTTGA
AAAACGGAGTTTTCTACCCCGTAAATTTTTTTATGGAGATTTTTCTTAATTTTTAATTTTTAAAA
CTCATCAAATATTATCATTTATTTCATAATAAATTAGTTTTGAAAAATTTATTCATTTTCATAAG
TTTTTAAACTTTTCCTTGAAATTCCCCTGTTCCAAAAAACAAAGTTTTCTACTTCGTAATTTTTT
GGGGATCTTTCTTAGTTTTTAATTTTTAAAATTTA
Found at i:346053 original size:13 final size:13
Alignment explanation
Indices: 346035--346059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
346025 CATTTTATGG
346035 TGTATCGATACAA
1 TGTATCGATACAA
346048 TGTATCGATACA
1 TGTATCGATACA
346060 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:346075 original size:32 final size:33
Alignment explanation
Indices: 346012--346079 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
346002 CGTTACAAGC
**
346012 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
346045 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
346077 CAA
1 CAA
346080 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:348615 original size:13 final size:13
Alignment explanation
Indices: 348597--348632 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
348587 ATAATCCCCC
*
348597 TGTATCGATACAG
1 TGTATCGATACAA
348610 TGTATCGATACAA
1 TGTATCGATACAA
348623 TGTATCGATA
1 TGTATCGATA
348633 TAAAGAATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:351593 original size:13 final size:13
Alignment explanation
Indices: 351575--351600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
351565 TACACCAAGT
351575 ATGTATCGATACA
1 ATGTATCGATACA
351588 ATGTATCGATACA
1 ATGTATCGATACA
351601 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:351598 original size:32 final size:33
Alignment explanation
Indices: 351557--351620 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
351547 TAGCCAAACT
**
351557 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
351589 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
351621 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:353840 original size:21 final size:21
Alignment explanation
Indices: 353807--353851 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
353797 TTGCAAGTTG
*
353807 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
353829 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
353849 AAA
1 AAA
353852 ATGAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:355673 original size:15 final size:15
Alignment explanation
Indices: 355653--355683 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
355643 TAAAAATGTC
*
355653 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
355668 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
355683 C
1 C
355684 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:357777 original size:13 final size:13
Alignment explanation
Indices: 357759--357784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
357749 ACATTTTTCT
357759 TTGTATCGATACA
1 TTGTATCGATACA
357772 TTGTATCGATACA
1 TTGTATCGATACA
357785 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:357948 original size:20 final size:20
Alignment explanation
Indices: 357905--357950 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
357895 AAATCTTTTG
357905 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
357926 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
357946 CAAAA
1 CAAAA
357951 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:360339 original size:12 final size:12
Alignment explanation
Indices: 360322--360346 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
360312 ATCGATAAGT
360322 ATGTATCGATAC
1 ATGTATCGATAC
360334 ATGTATCGATAC
1 ATGTATCGATAC
360346 A
1 A
360347 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:364762 original size:13 final size:13
Alignment explanation
Indices: 364744--364768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
364734 CATTTTATGG
364744 TGTATCGATACAA
1 TGTATCGATACAA
364757 TGTATCGATACA
1 TGTATCGATACA
364769 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:364784 original size:32 final size:33
Alignment explanation
Indices: 364724--364788 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
364714 TACAAGCTAG
**
364724 TGTATCGATACATTTTATGGTGTATCGATACAA
1 TGTATCGATACATACTATGGTGTATCGATACAA
*
364757 TGTATCGATACATACTGT-GTGTATCGATACAA
1 TGTATCGATACATACTATGGTGTATCGATACAA
364789 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATACTATGGTGTATCGATACAA
Found at i:367041 original size:155 final size:154
Alignment explanation
Indices: 366751--367631 Score: 875
Period size: 155 Copynumber: 5.7 Consensus size: 154
366741 AGCATTATCC
* ** **
366751 TAAGTCCTTTAGGGGTA-CTAGGTACTTTTACATTGAAGGTATCCCCTAGGGGCATTTTCATAAT
1 TAAGTCCTTTAGAGGTATC-AGGTACTTTTATGTCAAAGGTATCCCCTAGGGGCATTTTCATAAT
* * ** * * * *
366815 TTTTTAGAATCGAGTCCTATGTTGTCACTAGGTCCCCTTATATG-TCGAAGGTACATGTTTAAGA
65 TTTTTAGAATCGAGTCCTAGGTTGTCACGA-GTCTGCTTTTATGCT-GAAGGTAGATATTTAGGA
* *
366879 TAAGTTTATCTTATCTATTATCCTTTT
128 TAGGTTTATCTCATCTATTATCCTTTT
* * * *
366906 TAAGTCCTTTAGAGGTATCAAGTATTTTTATGTCGAAGGTATCCCTTAGGGGCATTTTCATAATT
1 TAAGTCCTTTAGAGGTATCAGGTACTTTTATGTCAAAGGTATCCCCTAGGGGCATTTTCATAATT
* *
366971 TTCTAGAATCGAGTCCTAGGTTGTCACCGAGTTTGCTTTTATGCTGAAGGTAGATATTTAGGATA
66 TTTTAGAATCGAGTCCTAGGTTGTCA-CGAGTCTGCTTTTATGCTGAAGGTAGATATTTAGGATA
* *
367036 GGTTTATCCCATCTATTATCTTTTT
130 GGTTTATCTCATCTATTATCCTTTT
* * * * *
367061 TAAGTCTTTTAGGGGTA-CTTGGTACTTTTATGTCAAAGGTATCCCCTAAGGGCA-TTTCATAAG
1 TAAGTCCTTTAGAGGTATC-AGGTACTTTTATGTCAAAGGTATCCCCTAGGGGCATTTTCATAAT
* * * *
367124 TTTTTAGAACCGAGTCCTAAGTTGTCACTGGGTTTGCTTTTATGCTGAAGGTAGATATTTAGGAT
65 TTTTTAGAATCGAGTCCTAGGTTGTCAC-GAGTCTGCTTTTATGCTGAAGGTAGATATTTAGGAT
* *
367189 TGGTTTATCTCATCTATTATCTTTTT
129 AGGTTTATCTCATCTATTATCCTTTT
* * * ** **
367215 TTAGTCCTTTAGGGGTATC-GAGTACTTTTACGTCAAAGGTATCCCCTAAAGGCATTTTTGTAAT
1 TAAGTCCTTTAGAGGTATCAG-GTACTTTTATGTCAAAGGTATCCCCTAGGGGCATTTTCATAAT
* * ** ** *
367279 TTTTTAGAATCGAGTCCTAGATTGTCATCGGGTCCACTTTTATGCCAAAGGTAGATATTTAGGAC
65 TTTTTAGAATCGAGTCCTAGGTTGTCA-CGAGTCTGCTTTTATGCTGAAGGTAGATATTTAGGAT
* **
367344 AGGTTTATCTTATCTATTATCAGTTT
129 AGGTTTATCTCATCTATTATCCTTTT
* * * * *
367370 TAAGTCCTTTA-AGGGTATTAGGTACTTTTATGTCAGAGGTATCCCTTAGGAGTATTTTCATAAT
1 TAAGTCCTTTAGA-GGTATCAGGTACTTTTATGTCAAAGGTATCCCCTAGGGGCATTTTCATAAT
* * * * ** *
367434 TTTTCA-AATTCAAGTCATGGGTTGTCATTAGGTCTGCTTTTATGCCGAAGGTAGATA-TTAGGA
65 TTTTTAGAA-TCGAGTCCTAGGTTGTCACGA-GTCTGCTTTTATGCTGAAGGTAGATATTTAGGA
* *
367497 TAGGTTCATCCCATCTATTATCC-TTT
128 TAGGTTTATCTCATCTATTATCCTTTT
* * * * * *
367523 TAAGTTCTTTAG-GAGTATCGGGTGCTTTTTTGTCTAAA-GTATCCCCTAGAGGCATTTTCGTAA
1 TAAGTCCTTTAGAG-GTATCAGGTACTTTTATGTC-AAAGGTATCCCCTAGGGGCATTTTCATAA
* * * * *
367586 TTTTTTAGAATCAACTTCTAAGTTGTCACTATGTCTGCTTTTATGC
64 TTTTTTAGAATCGAGTCCTAGGTTGTCACGA-GTCTGCTTTTATGC
367632 CAAAGGTGGG
Statistics
Matches: 606, Mismatches: 103, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
152 1 0.00
153 86 0.14
154 168 0.28
155 345 0.57
156 6 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (154 bp):
TAAGTCCTTTAGAGGTATCAGGTACTTTTATGTCAAAGGTATCCCCTAGGGGCATTTTCATAATT
TTTTAGAATCGAGTCCTAGGTTGTCACGAGTCTGCTTTTATGCTGAAGGTAGATATTTAGGATAG
GTTTATCTCATCTATTATCCTTTT
Found at i:367321 original size:309 final size:308
Alignment explanation
Indices: 366751--367597 Score: 988
Period size: 309 Copynumber: 2.7 Consensus size: 308
366741 AGCATTATCC
* ** ** *
366751 TAAGTCCTTTAGGGGTACTAGGTACTTTTACATTGAAGGTATCCCCTAGGGGCATTTTCATAATT
1 TAAGTCCTTTAGGGGTACTTGGTACTTTTATGTCAAAGGTATCCCCTAAGGGCATTTTCATAA-T
* ** * * * *
366816 TTTTAGAATCGAGTCCTATGTTGTCACTAGGTCCCCTTATATG-TCGAAGGTACATGTTTAAGAT
65 TTTTAGAATCGAGTCCTAAGTTGTCACTAGGTCTGCTTTTATGCT-GAAGGTAGATATTTAGGAT
* * * * * *
366880 AAGTTTATCTTATCTATTATCCTTTTTAAGTCCTTTAGAGGTATCAAGTATTTTTATGTCGAAGG
129 AGGTTTATCTCATCTATTAT-CTTTTTAAGTCCTTTAGGGGTATCGAGTACTTTTATGTCAAAGG
* * * * * ***
366945 TATCCCTTAGGGGCATTTTCATAATTTTCTAGAATCGAGTCCTAGGTTGTCACCGAGTTTGCTTT
193 TATCCCCTAGAGGCATTTTCGTAATTTTTTAGAATCGAGTCCTAGATTGTCACCGAGTCCACTTT
** * **
367010 TATGCTGAAGGTAGATATTTAGGATAGGTTTATCCCATCTATTATCTTTTT
258 TATGCCAAAGGTAGATATTTAGGACAGGTTTATCCCATCTATTATCAGTTT
*
367061 TAAGTCTTTTAGGGGTACTTGGTACTTTTATGTCAAAGGTATCCCCTAAGGGCA-TTTCATAAGT
1 TAAGTCCTTTAGGGGTACTTGGTACTTTTATGTCAAAGGTATCCCCTAAGGGCATTTTCATAA-T
* * * *
367125 TTTTAGAACCGAGTCCTAAGTTGTCACTGGGTTTGCTTTTATGCTGAAGGTAGATATTTAGGATT
65 TTTTAGAATCGAGTCCTAAGTTGTCACTAGGTCTGCTTTTATGCTGAAGGTAGATATTTAGGATA
* *
367190 GGTTTATCTCATCTATTATCTTTTTTTAGTCCTTTAGGGGTATCGAGTACTTTTACGTCAAAGGT
130 GGTTTATCTCATCTATTATC-TTTTTAAGTCCTTTAGGGGTATCGAGTACTTTTATGTCAAAGGT
* * * *
367255 ATCCCCTAAAGGCATTTTTGTAATTTTTTAGAATCGAGTCCTAGATTGTCATCGGGTCCACTTTT
194 ATCCCCTAGAGGCATTTTCGTAATTTTTTAGAATCGAGTCCTAGATTGTCACCGAGTCCACTTTT
**
367320 ATGCCAAAGGTAGATATTTAGGACAGGTTTATCTTATCTATTATCAGTTT
259 ATGCCAAAGGTAGATATTTAGGACAGGTTTATCCCATCTATTATCAGTTT
* * * *
367370 TAAGTCCTTTAAGGGTA-TTAGGTACTTTTATGTCAGAGGTAT-CCCTTAGGAGTATTTTCATAA
1 TAAGTCCTTTAGGGGTACTT-GGTACTTTTATGTCAAAGGTATCCCCTAAGG-GCATTTTCATAA
* * ** * *
367433 TTTTTCA-AATTCAAGTCATGGGTTGTCATTAGGTCTGCTTTTATGCCGAAGGTAGATA-TTAGG
64 TTTTT-AGAA-TCGAGTCCTAAGTTGTCACTAGGTCTGCTTTTATGCTGAAGGTAGATATTTAGG
* * * * * * * *
367496 ATAGGTTCATCCCATCTATTATCCTTTTAAGTTCTTTAGGAGTATCGGGTGCTTTTTTGTCTAAA
127 ATAGGTTTATCTCATCTATTATCTTTTTAAGTCCTTTAGGGGTATCGAGTACTTTTATGTC-AAA
367561 -GTATCCCCTAGAGGCATTTTCGTAATTTTTTAGAATC
191 GGTATCCCCTAGAGGCATTTTCGTAATTTTTTAGAATC
367598 AACTTCTAAG
Statistics
Matches: 456, Mismatches: 73, Indels: 18
0.83 0.13 0.03
Matches are distributed among these distances:
308 75 0.16
309 285 0.62
310 96 0.21
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (308 bp):
TAAGTCCTTTAGGGGTACTTGGTACTTTTATGTCAAAGGTATCCCCTAAGGGCATTTTCATAATT
TTTAGAATCGAGTCCTAAGTTGTCACTAGGTCTGCTTTTATGCTGAAGGTAGATATTTAGGATAG
GTTTATCTCATCTATTATCTTTTTAAGTCCTTTAGGGGTATCGAGTACTTTTATGTCAAAGGTAT
CCCCTAGAGGCATTTTCGTAATTTTTTAGAATCGAGTCCTAGATTGTCACCGAGTCCACTTTTAT
GCCAAAGGTAGATATTTAGGACAGGTTTATCCCATCTATTATCAGTTT
Found at i:384629 original size:21 final size:21
Alignment explanation
Indices: 384603--384644 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
384593 ACATCCGAAC
* *
384603 ATCCGTGATCGAAAGGAGAGA
1 ATCCGTGACCCAAAGGAGAGA
384624 ATCCGTGACCCAAAGGAGAGA
1 ATCCGTGACCCAAAGGAGAGA
384645 GTGGTATGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.31, T:0.12
Consensus pattern (21 bp):
ATCCGTGACCCAAAGGAGAGA
Found at i:386065 original size:52 final size:52
Alignment explanation
Indices: 385916--386045 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
385906 TCGAAATATG
385916 AAATTTCGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTT-GCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
385969 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
386021 AAATTTGCCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
386046 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 67 0.92
53 6 0.08
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:386072 original size:13 final size:13
Alignment explanation
Indices: 386054--386078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
386044 CAAAGATCAG
386054 TGTATCGATACAA
1 TGTATCGATACAA
386067 TGTATCGATACA
1 TGTATCGATACA
386079 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:390016 original size:22 final size:23
Alignment explanation
Indices: 389961--390028 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
389951 AAATGACAAG
* *
389961 AAAAAGT-CAAAAGTAAAAGTACA
1 AAAAAGTGCAAAAGCAAAA-TAAA
*
389984 AAATA-TG-AAAAG-AAAATAAA
1 AAAAAGTGCAAAAGCAAAATAAA
390004 AAAAAGTGCAAAAGCAAAATAAA
1 AAAAAGTGCAAAAGCAAAATAAA
390027 AA
1 AA
390029 GGGAACAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.18
21 6 0.16
22 11 0.29
23 14 0.37
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.12
Consensus pattern (23 bp):
AAAAAGTGCAAAAGCAAAATAAA
Found at i:391403 original size:28 final size:27
Alignment explanation
Indices: 391330--391941 Score: 712
Period size: 27 Copynumber: 22.4 Consensus size: 27
391320 TTTCTTTTCA
* *
391330 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
391357 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
391384 AAAATCAACAACTCAGTGGCA-CCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* *
391411 CAATGTCCACAACTCCTTGGCATCCTTTT
1 -AA-GTCCACAACTCCGTGGCACCCTTTT
* * * *
391440 ATGTCCACAACTCTGTGGCATCATTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
391467 AAAGTCCACAACTCCGTGGAACCTTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
391495 AAAGTCCACAACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* * *
391523 AAAGTCCACAACACCATGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
391551 AAGTCCACAACTCCGTGGCACCC-TTA
1 AAGTCCACAACTCCGTGGCACCCTTTT
**
391577 AAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
391604 AAAGTCCACAACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
391632 AAGTCCACAACT---TGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
391656 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
391683 AAGTCCACAACTCTGTGGTACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
391710 AAAGTCCACAACTCTGTGGAACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
391738 AAGTCCATAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
391765 AAGTCCACAACTCCGTGGTACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
391792 AAAGTCCACCACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* * * *
391820 AAGTCCATAACTCTGTGACATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
391847 ATGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
391874 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
391901 AAGTCCACAACTCCGTGGTAGCACCCTTTT
1 AAGTCCACAACTCCGT-G--GCACCCTTTT
*
391931 AAAGCCCACAA
1 -AAGTCCACAA
391942 GTCAATGGCA
Statistics
Matches: 511, Mismatches: 59, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
24 24 0.05
26 23 0.05
27 261 0.51
28 179 0.35
29 6 0.01
30 9 0.02
31 9 0.02
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:391450 original size:55 final size:54
Alignment explanation
Indices: 391330--391941 Score: 691
Period size: 55 Copynumber: 11.2 Consensus size: 54
391320 TTTCTTTTCA
* * *
391330 AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCTTGGCACCCTTTT
* * * *
391384 AAAATCAACAACTCAGTGGCA-CCTTTTCAATGTCCACAACTCCTTGGCATCCTTTT
1 -AAGTCCACAACTCTGTGGCACCCTTTT-AA-GTCCACAACTCCTTGGCACCCTTTT
* * * * * *
391440 ATGTCCACAACTCTGTGGCATCATTTTAAAGTCCACAACTCCGTGGAACCTTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCTTGGCACCCTTTT
* * *
391495 AAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACACCATGGCATCCTTTT
1 -AAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCTTGGCACCCTTTT
* *
391551 AAGTCCACAACTCCGTGGCACCC-TTAAAGTCCACAACT-CTATGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCT-TGGCACCCTTTT
391604 AAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAA---CTTGGCACCCTTTT
1 -AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCTTGGCACCCTTTT
* *
391656 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACT-CTGTGGTACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCT-TGGCACCCTTTT
* * *
391710 AAAGTCCACAACTCTGTGGAACCCTTTTAAGTCCATAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCTTGGCACCCTTTT
* * * *
391765 AAGTCCACAACTCCGTGGTACTCTTTTAAAGTCCACCACT-CTGTGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCT-TGGCACCCTTTT
* * * * * *
391820 AAGTCCATAACTCTGTGACATCCTTTTATGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCTTGGCACCCTTTT
* * *
391874 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGTAGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCC-T--TGGCACCCTTTT
*
391931 AAAGCCCACAA
1 -AAGTCCACAA
391942 GTCAATGGCA
Statistics
Matches: 478, Mismatches: 60, Indels: 35
0.83 0.10 0.06
Matches are distributed among these distances:
51 36 0.08
52 13 0.03
53 26 0.05
54 124 0.26
55 181 0.38
56 79 0.17
57 10 0.02
58 9 0.02
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (54 bp):
AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCTTGGCACCCTTTT
Found at i:392034 original size:63 final size:63
Alignment explanation
Indices: 391955--392081 Score: 177
Period size: 63 Copynumber: 2.0 Consensus size: 63
391945 AATGGCATCC
391955 TTTTCAAAGCCCACAAGTCAATGGCATCC-CTTCAAAGCCCACATAAGTCA-GTGGCAACTCTTT
1 TTTTCAAAGCCCACAAGTCAATGGCA-CCTCTTCAAAGCCCACATAAGT-AGGTGGCAACTCTTT
** * * *
392018 TTTTCAAAGCGTACAAGTTAGTGGCACCTTTTCAAAGCCCACATAAGTAGGTGGCAACTCTTT
1 TTTTCAAAGCCCACAAGTCAATGGCACCTCTTCAAAGCCCACATAAGTAGGTGGCAACTCTTT
392081 T
1 T
392082 CATAGCCCGC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 3 0.05
63 54 0.95
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (63 bp):
TTTTCAAAGCCCACAAGTCAATGGCACCTCTTCAAAGCCCACATAAGTAGGTGGCAACTCTTT
Found at i:392089 original size:32 final size:32
Alignment explanation
Indices: 391985--392678 Score: 385
Period size: 32 Copynumber: 22.2 Consensus size: 32
391975 ATGGCATCCC
* *
391985 TTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTC---TT
** **
392020 TTCAAAG--CGTACAAGTTAGTGGC-AC-CTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* *
392048 TTCAAAGCCCACATAAGTAGGTGGCAACTCTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* * * ** * *
392080 TTCATAGCCCGCATAAGTTAGTGGCACCTTTTT
1 TTCAAAGCCCACACAAGTCGGTGGCAAC-TCTT
* ** * *
392113 TTGAAAGCCTGCACAAGTTGGTGGCAACCCATT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTC-TT
* * * *
392146 TT-AAAGCTCACACAAGTCGATGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* * *
392177 TTCAAAG--CTCACAAGTCAGTGGCATC-CTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
*
392206 TTCAAAGCCCACACAAGTCGGTGGCAACTTTTTT
1 TTCAAAGCCCACACAAGTCGGTGGCAAC--TCTT
** *
392240 TTCAAAG-CC-CACAAGTCACTGGCATC-CTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* * *
392269 TGCAAAG-CC-CACAAGTCAGTGGC-A-TCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* *
392297 TTCAAAG-CC-CACAAGTCGGTGGAAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* * *
392327 TTGAAAGCCCACACAAATCGGTGGCAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
*
392359 TTGAAAGCCCACACAAGTCGGTGGCAAC-CTGT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCT-T
* * * *
392391 TTCAAAGCCCACATAAGTCGATGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* *
392423 TTCAAAAG-CC-CACAAGTCAGTGGC-A-TCAT
1 TTC-AAAGCCCACACAAGTCGGTGGCAACTCTT
* * *
392452 TTCAAAGCTCACACAAGTCGGTGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* **
392484 GTCAAAAG-CC-CACAAGTTAGTGGC-A-TCATT
1 TTC-AAAGCCCACACAAGTCGGTGGCAACTC-TT
*
392514 TTCAAAG-CC-CACAAGTCAGTGGCAACTCTTTTTTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTC-----TT
* * * *
392549 TTCAATG-CC-TACAAGTCAGTGGC-AC-CCT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
392577 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
* *** * *
392609 TTCAAAG-CCACATAAGTTAATGGCACCTTTTT
1 TTCAAAGCCCACACAAGTCGGTGGCAAC-TCTT
* * * *
392641 TTAAAAGCCCACGCAAGTCGATGGTAAC-CTTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACTC-TT
392673 TTCAAA
1 TTCAAA
392679 TCACCACTTT
Statistics
Matches: 524, Mismatches: 96, Indels: 81
0.75 0.14 0.12
Matches are distributed among these distances:
28 42 0.08
29 62 0.12
30 67 0.13
31 68 0.13
32 177 0.34
33 67 0.13
34 11 0.02
35 30 0.06
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (32 bp):
TTCAAAGCCCACACAAGTCGGTGGCAACTCTT
Found at i:392222 original size:61 final size:61
Alignment explanation
Indices: 391923--392678 Score: 437
Period size: 61 Copynumber: 12.2 Consensus size: 61
391913 CCGTGGTAGC
* * *
391923 ACCC-TTTTAAAGCCCACAAGTCAATGGCATCCTTTTCAAAG-CC-CACAAGTCAATGGCA
1 ACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGATGGCA
* * ** *
391981 TCCC--TTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTTTTCAAAG--CGTACAAGT-TAGTG
1 ACCCATTTCAAAGCCCAC--AAGTCAGTGGC-A-TC--CTTTTCAAAGCCCACACAAGTCGA-TG
392041 GC-
59 GCA
* * * * * *
392043 A-CCTTTTCAAAGCCCACATAAGT-AGGTGGCAACTCTTTTCATAGCCCGCATAAGT-TAGTGGC
1 ACCCATTTCAAAGCCCAC--AAGTCA-GTGGCATC-CTTTTCAAAGCCCACACAAGTCGA-TGGC
392105 -
61 A
** * ** * *
392105 ACCTTTTTTTGAAAGCCTGCACAAGTTGGTGGCAACCCATTTT-AAAGCTCACACAAGTCGATGG
1 ACC--CATTTCAAAGCC--CACAAGTCAGTGGC-ATCC-TTTTCAAAGCCCACACAAGTCGATGG
392169 CA
60 CA
* *
392171 ACCCATTTCAAAGCTCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGATGGCA
*** * *
392232 ACTTTTTTTTCAAAGCCCACAAGTCACTGGCATCCTTTGCAAAG-CC-CACAAGTC-AGTGGC-
1 AC--CCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGA-TGGCA
* * * * * * * *
392292 A-TCATTTCAAAGCCCACAAGTCGGTGGAAACTCATTTGAAAGCCCACACAAATCGGTGGCA
1 ACCCATTTCAAAGCCCACAAGTCAGTGGCATC-CTTTTCAAAGCCCACACAAGTCGATGGCA
* * * * *
392353 ACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCTGTTTCAAAGCCCACATAAGTCGATGGCA
1 ACCCATTTCAAAG-CC-CACAAGTCAGTGGCATCCT-TTTCAAAGCCCACACAAGTCGATGGCA
* * *
392417 ACCCATTTCAAAAGCCCACAAGTCAGTGGCAT-CATTTCAAAGCTCACACAAGTCGGTGGCA
1 ACCCATTTC-AAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGATGGCA
* * *
392478 ACCCATGTCAAAAGCCCACAAGTTAGTGGCATCATTTTCAAAG-CC-CACAAGTC-AGTGGCA
1 ACCCATTTC-AAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGA-TGGCA
** * * * *
392538 ACTCTTTTTTTTTCAATGCCTACAAGTCAGTGGCA-CCCTTTCAAAGCCCACACAAGTCGGTGGC
1 AC-C----CATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGATGGC
392602 A
61 A
* * * * * * * *
392603 ACTCTTTTCAAAGCCACATAAGTTAATGGCA-CCTTTTTTTAAAAGCCCACGCAAGTCGATGGTA
1 ACCCATTTCAAAGCC-CACAAGTCAGTGGCATCC---TTTTCAAAGCCCACACAAGTCGATGGCA
**
392667 ACCTTTTTCAAA
1 ACCCATTTCAAA
392679 TCACCACTTT
Statistics
Matches: 555, Mismatches: 92, Indels: 96
0.75 0.12 0.13
Matches are distributed among these distances:
57 35 0.06
58 10 0.02
59 12 0.02
60 51 0.09
61 113 0.20
62 52 0.09
63 103 0.19
64 109 0.20
65 57 0.10
66 10 0.02
67 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (61 bp):
ACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGATGGCA
Found at i:392475 original size:125 final size:119
Alignment explanation
Indices: 391923--392639 Score: 508
Period size: 125 Copynumber: 5.8 Consensus size: 119
391913 CCGTGGTAGC
* * * **
391923 ACCC-TTTTAAAGCCCACAAGTCAATGGCATCCTTTTCAAAG-CC-CACAAGTCAATGGC-A-TC
1 ACCCATTTCAAAGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACACAAGTCGGTGGCAACTC
** ** *
391983 CCTTCAAAGCCCACATAAGTCAGTGGCAACTCTTTTTTTCAAAGCGTACAAGTTAGTGGC-
65 ATTTCAAAGCCCAC--AAGTCAGTGGCAAC-C---TTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * **
392043 A-CCTTTTCAAAGCCCACATAAGT-AGGTGGCAACTCTTTTCATAGCCCGCATAAGTTAGTGGCA
1 ACCCATTTCAAAGCCCAC--AAGTCA-GTGGC-A-TCATTTCAAAGCCCACACAAGTCGGTGGCA
* ** * **
392106 CCTTTTTTTGAAAGCCTGCACAAGTTGGTGGCAACCCATTTT-AAAGCTCACACAAGTC-GATGG
61 AC-TCATTTCAAAGCC--CACAAGTCAGTGGCAA-CC-TTTTCAAAGC-C-CACAAGTCAG-TGG
392169 CA
118 CA
* *
392171 ACCCATTTCAAAGCTCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCAACTT
1 ACCCATTTCAAAGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACACAAGTCGGTGGCAAC--
** * * *
392236 TTTTTTCAAAGCCCACAAGTCACTGGCATCCTTTGCAAAGCCCACAAGTCAGTGGC-
63 TCATTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
392292 A-TCATTTCAAAGCCCACAAGTCGGTGGAAACTCATTTGAAAGCCCACACAAATCGGTGGCAACT
1 ACCCATTTCAAAGCCCACAAGTCAGTGG-CA-TCATTTCAAAGCCCACACAAGTCGGTGGCAACT
* *
392356 CATTTGAAAGCCCACACAAGTCGGTGGCAACCTGTTTCAAAGCCCACATAAGTC-GATGGCA
64 CATTTCAAAG-CC-CACAAGTCAGTGGCAACCT-TTTCAAAGCCCAC--AAGTCAG-TGGCA
* *
392417 ACCCATTTCAAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCTCACACAAGTCGGTGGCAACCC
1 ACCCATTTC-AAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTC
* * * *
392482 ATGTCAAAAGCCCACAAGTTAGTGGCATCATTTTCAAAGCCCACAAGTCAGTGGCA
65 ATTTC-AAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCA
** * * * *
392538 ACTCTTTTTTTTTCAATGCCTACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCGGTGGCA
1 AC-C----CATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCA
* * * *
392603 ACTCTTTTCAAAGCCACATAAGTTAATGGC-ACCTTTT
61 ACTCATTTCAAAGCC-CACAAGTCAGTGGCAACCTTTT
392640 TTTAAAAGCC
Statistics
Matches: 482, Mismatches: 72, Indels: 82
0.76 0.11 0.13
Matches are distributed among these distances:
119 10 0.02
120 38 0.08
121 59 0.12
122 35 0.07
123 29 0.06
124 45 0.09
125 129 0.27
126 46 0.10
127 50 0.10
128 23 0.05
129 15 0.03
130 3 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (119 bp):
ACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCA
TTTCAAAGCCCACAAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:392594 original size:30 final size:29
Alignment explanation
Indices: 392559--392635 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
392549 TTCAATGCCT
392559 ACAAGTCAGTGGCACCCTTTCAAAGCCCAC
1 ACAAGTCAGTGGCACCCTTTCAAAG-CCAC
* *
392589 ACAAGTCGGTGGCAACTCTTTTCAAAGCCAC
1 ACAAGTCAGTGGC-AC-CCTTTCAAAGCCAC
* * *
392620 ATAAGTTAATGGCACC
1 ACAAGTCAGTGGCACC
392636 TTTTTTTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 14 0.36
31 15 0.38
32 9 0.23
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (29 bp):
ACAAGTCAGTGGCACCCTTTCAAAGCCAC
Found at i:395471 original size:32 final size:32
Alignment explanation
Indices: 395429--395595 Score: 115
Period size: 32 Copynumber: 5.2 Consensus size: 32
395419 AAAAGTAAAA
* * * *
395429 TGCTTGCCAACCTTAGCCCTTAAAGAGCAGGG
1 TGCTTACCAACCTCAGACCTTAAAGAGCAAGG
*
395461 TGCTTACCAACATCA-ATCCTTAAAGAGCAAGG
1 TGCTTACCAACCTCAGA-CCTTAAAGAGCAAGG
** * * *
395493 CACTTACAAACCTCA-ATCTTCAAAGAGCAAGA
1 TGCTTACCAACCTCAGACCTT-AAAGAGCAAGG
* * *
395525 TGCTTACCAACCTTAG-TCTTCAAAGAGTAAGG
1 TGCTTACCAACCTCAGACCTT-AAAGAGCAAGG
** * * * *
395557 CACTTACCAAACTCAGTCCTTAAAAAGCAAGA
1 TGCTTACCAACCTCAGACCTTAAAGAGCAAGG
395589 TGCTTAC
1 TGCTTAC
395596 TTATTTCAGT
Statistics
Matches: 104, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
31 3 0.03
32 98 0.94
33 3 0.03
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (32 bp):
TGCTTACCAACCTCAGACCTTAAAGAGCAAGG
Done.