Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011098.1 Kokia drynarioides strain JFW-HI SEQ_126071, whole genome shotgun sequence
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: 44650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:919 original size:17 final size:15
Alignment explanation
Indices: 868--920 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
858 GAGTTACATG
868 AAAAATTACATTACA
1 AAAAATTACATTACA
* *
883 AAAAATAAACAATTGCA
1 AAAAAT-TAC-ATTACA
900 AAAAATTACATTACA
1 AAAAATTACATTACA
*
915 TAAAAT
1 AAAAAT
921 GTTTAGACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 16 0.52
16 4 0.13
17 11 0.35
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.25
Consensus pattern (15 bp):
AAAAATTACATTACA
Found at i:13418 original size:148 final size:149
Alignment explanation
Indices: 13148--13434 Score: 416
Period size: 148 Copynumber: 1.9 Consensus size: 149
13138 GGGACATTGG
* * *
13148 GATCTACTTCGTTATTTTAATCCGACTCACTGCAACTTCAAGGGTATAGGATTCGATATTATAAC
1 GATCTACTTCATTATTTTAATCCGACCCACTGCAACTTCAAGGGTATAAGATTCGATATTATAAC
* * *
13213 TTCACTCCATTCCACTGTAACCTTAGGGACATTGAGATCTGTTACTTGTTTTGATCCACTTCACT
66 TTCACTCCATTCCACTGTAACCATAGGGACACTAAGATCTGTTACTTGTTTTGATCCACTTCACT
*
13278 GTAATCTCAAGGACGTTAA
131 GTAACCTCAAGGACGTTAA
* * * * * *
13297 GATCTACTTCATTGTTTTAATCCGACCCACTGCAAC-TCAGGGGTATAAGATTTGGTGTTGTAAC
1 GATCTACTTCATTATTTTAATCCGACCCACTGCAACTTCAAGGGTATAAGATTCGATATTATAAC
* *
13361 TTCACTCCATTCCACTGTAACCATAGGGATACTAAGATCTGTTA-TCTGTTTTTATCCACTTCAC
66 TTCACTCCATTCCACTGTAACCATAGGGACACTAAGATCTGTTACT-TGTTTTGATCCACTTCAC
13425 TGTAACCTCA
130 TGTAACCTCA
13435 GCAAGATAGG
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
147 1 0.01
148 88 0.72
149 33 0.27
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (149 bp):
GATCTACTTCATTATTTTAATCCGACCCACTGCAACTTCAAGGGTATAAGATTCGATATTATAAC
TTCACTCCATTCCACTGTAACCATAGGGACACTAAGATCTGTTACTTGTTTTGATCCACTTCACT
GTAACCTCAAGGACGTTAA
Found at i:13507 original size:93 final size:93
Alignment explanation
Indices: 13267--13621 Score: 236
Period size: 93 Copynumber: 3.8 Consensus size: 93
13257 CTTGTTTTGA
* * * * *
13267 TCCACTTCACTGTAATCTCAAGGACGTTAAGATCTACTTCATTGTTTTAATC-CGACCCACTGCA
1 TCCACTCCACTATAACCTCAAGGACGTTGAGATCTACTTTATTGTTTTAATCTC-ACCCACTGCA
** *
13331 ACTCAGGGGTATAAGATTTGGTGTTGTAACTTCAC
65 ACTCAGAAGTATAAGA-TT--TGATG--A-TTCAC
* * * *** * * * *
13366 TCCATTCCACTGTAACCAT-AGGGATACTAAGATCT--GTTATCTGTTTTTATC-CACTTCACTG
1 TCCACTCCACTATAACC-TCAAGGACGTTGAGATCTACTTTAT-TGTTTTAATCTCAC-CCACTG
* * *
13427 TAACCTCAGCAAG-ATAGGATTTGATGCTTCAC
63 CAA-CTCAG-AAGTATAAGATTTGATGATTCAC
* * * * *
13459 TCCACTCTACTGTAACCTCAGGGACGTTGAGATCTACTTTATTGTTTTAATCTGACCCATTGCAA
1 TCCACTCCACTATAACCTCAAGGACGTTGAGATCTACTTTATTGTTTTAATCTCACCCACTGCAA
** *
13524 CTCAGGGGTATAAGATTTGGTGATTCAC
66 CTCAGAAGTATAAGATTTGATGATTCAC
* * * * * * *
13552 TCCACTCCACTATAACCTCAAGGACGTTGAGATCCACCTAATTGCTTTAATCTGACCCATTGTAA
1 TCCACTCCACTATAACCTCAAGGACGTTGAGATCTACTTTATTGTTTTAATCTCACCCACTGCAA
13617 CTCAG
66 CTCAG
13622 GGGTATAGGA
Statistics
Matches: 204, Mismatches: 42, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
92 2 0.01
93 115 0.56
94 15 0.07
95 6 0.03
96 4 0.02
97 5 0.02
98 19 0.09
99 36 0.18
100 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (93 bp):
TCCACTCCACTATAACCTCAAGGACGTTGAGATCTACTTTATTGTTTTAATCTCACCCACTGCAA
CTCAGAAGTATAAGATTTGATGATTCAC
Found at i:13622 original size:93 final size:93
Alignment explanation
Indices: 13440--13927 Score: 405
Period size: 93 Copynumber: 5.2 Consensus size: 93
13430 CCTCAGCAAG
* * * * * *
13440 ATAGGATTTGATGCTTCACTCCACTCTACTGTAACCTCAGGGACGTTGAGATCTACTTTATTGTT
1 ATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACATTGAGATCCACTTCATTGCT
*
13505 TTAATCTGACCCATTGCAACTCAGGGGT
66 TTAATCTGACCCATTGTAACTCAGGGGT
* * * * * * *
13533 ATAAGATTTGGTGATTCACTCCACTCCACTATAACCTCAAGGACGTTGAGATCCACCTAATTGCT
1 ATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACATTGAGATCCACTTCATTGCT
13598 TTAATCTGACCCATTGTAACTCAGGGGT
66 TTAATCTGACCCATTGTAACTCAGGGGT
* * * * *
13626 ATAGGATTTAGTGTTGTAGCTTCTA-TCCATTCCATTATAACCTTAGGGACATTGAAATCCGTTA
1 ATAGGA-TT--TG--GT-GCTTC-ACTCCACTCCACTGTAACCTCAGGGACATTGAGATCC---A
* * * * * * * *
13690 C-TCATT--TTGATTC-GATCCACTCTAAATTCAAGGAT
56 CTTCATTGCTTTAATCTGACCCATTGT-AACTCAGGGGT
* * * * * * * * * *** *
13725 ATATGATCTGGTGCTTTATTCTAGTTCACTGTAACCTTAAGGACATTGAGATTTGCTTCATCGCT
1 ATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACATTGAGATCCACTTCATTGCT
* * *
13790 TTAATCTGACCCA--CTACACTTAGGGTT
66 TTAATCTGACCCATTGTA-ACTCAGGGGT
* *
13817 ATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGATATTGAGATCCACTTCATTTCT
1 ATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACATTGAGATCCACTTCATTGCT
13882 TTAATCTGACCCATTGTAACTCAGGGGT
66 TTAATCTGACCCATTGTAACTCAGGGGT
*
13910 ATAGGATTTGGTGTTTCA
1 ATAGGATTTGGTGCTTCA
13928 ACTCGGTCCA
Statistics
Matches: 308, Mismatches: 68, Indels: 38
0.74 0.16 0.09
Matches are distributed among these distances:
90 1 0.00
91 5 0.02
92 72 0.23
93 147 0.48
94 11 0.04
96 4 0.01
98 10 0.03
99 51 0.17
100 1 0.00
101 4 0.01
102 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (93 bp):
ATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGGGACATTGAGATCCACTTCATTGCT
TTAATCTGACCCATTGTAACTCAGGGGT
Found at i:20298 original size:14 final size:15
Alignment explanation
Indices: 20267--20300 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20257 AATTACATGT
*
20267 CCAATTACCCTAAGC
1 CCAATTAACCTAAGC
20282 CCAATTAACCT-AGC
1 CCAATTAACCTAAGC
20296 CCAAT
1 CCAAT
20301 ATATTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.38, G:0.06, T:0.21
Consensus pattern (15 bp):
CCAATTAACCTAAGC
Found at i:21681 original size:59 final size:58
Alignment explanation
Indices: 21594--21806 Score: 212
Period size: 59 Copynumber: 3.6 Consensus size: 58
21584 GATTTATTTG
* ** *
21594 AAAATTACATTTTGACCCTCGCACTTTTCCAAAATTACATTTTGATGCCTAAACTTTTCT
1 AAAATTACATTTT-AGCCTCAAACTTTTCCAAAATTACATTTTGA-CCCTAAACTTTTCT
* * * ** *
21654 AAAATTCCATTTTAGCCTCAAACTTTTCTAAAATTGCATTTTGACCCTTGATTTTTCT
1 AAAATTACATTTTAGCCTCAAACTTTTCCAAAATTACATTTTGACCCTAAACTTTTCT
* * * * * * *
21712 AAAATTTCATTTTAACCCCCAAACTTTTCCAAAATCACATTTTAACCCTAAAC-TTCCC
1 AAAATTACATTTT-AGCCTCAAACTTTTCCAAAATTACATTTTGACCCTAAACTTTTCT
* *
21770 AAAATTACATTTTTAGCCTTAAACTTTTCTAAAATTA
1 AAAATTACA-TTTTAGCCTCAAACTTTTCCAAAATTA
21807 GTTTTTTAAC
Statistics
Matches: 123, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
58 51 0.41
59 60 0.49
60 12 0.10
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (58 bp):
AAAATTACATTTTAGCCTCAAACTTTTCCAAAATTACATTTTGACCCTAAACTTTTCT
Found at i:21684 original size:29 final size:30
Alignment explanation
Indices: 21594--21806 Score: 184
Period size: 30 Copynumber: 7.2 Consensus size: 30
21584 GATTTATTTG
* ** *
21594 AAAATTACATTTTGACCCTCGCACTTTTCC
1 AAAATTACATTTTGAGCCTCAAACTTTTCT
21624 AAAATTACATTTTGATGCCT-AAACTTTTCT
1 AAAATTACATTTTGA-GCCTCAAACTTTTCT
*
21654 AAAATTCCATTTT-AGCCTCAAACTTTTCT
1 AAAATTACATTTTGAGCCTCAAACTTTTCT
* * ** *
21683 AAAATTGCATTTTGACCCT-TGATTTTTCT
1 AAAATTACATTTTGAGCCTCAAACTTTTCT
* * * * *
21712 AAAATTTCATTTTAACCCCCAAACTTTTCC
1 AAAATTACATTTTGAGCCTCAAACTTTTCT
* * * * *
21742 AAAATCACATTTTAACCCT-AAAC-TTCCC
1 AAAATTACATTTTGAGCCTCAAACTTTTCT
* *
21770 AAAATTACATTTTTAGCCTTAAACTTTTCT
1 AAAATTACATTTTGAGCCTCAAACTTTTCT
21800 AAAATTA
1 AAAATTA
21807 GTTTTTTAAC
Statistics
Matches: 151, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
28 24 0.16
29 54 0.36
30 70 0.46
31 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (30 bp):
AAAATTACATTTTGAGCCTCAAACTTTTCT
Found at i:21811 original size:29 final size:29
Alignment explanation
Indices: 21616--21812 Score: 107
Period size: 29 Copynumber: 6.7 Consensus size: 29
21606 TGACCCTCGC
* *
21616 ACTTTTCCAAAATTACATTTTGATGCC-TAA
1 ACTTTTCTAAAATTA-ATTTTTA-GCCTTAA
* *
21646 ACTTTTCTAAAATTCCA-TTTTAGCCTCAA
1 ACTTTTCTAAAATT-AATTTTTAGCCTTAA
* * * *
21675 ACTTTTCTAAAATTGCATTTTGACCCTT-G
1 ACTTTTCTAAAATT-AATTTTTAGCCTTAA
* * * * **
21704 ATTTTTCTAAAATTTCATTTTAACCCCCAA
1 ACTTTTCTAAAA-TTAATTTTTAGCCTTAA
* * * *
21734 ACTTTTCCAAAATCACA-TTTTAACCCTAA
1 ACTTTTCTAAAATTA-ATTTTTAGCCTTAA
* *
21763 AC-TTCCCAAAATTACATTTTTAGCCTTAA
1 ACTTTTCTAAAATTA-ATTTTTAGCCTTAA
*
21792 ACTTTTCTAAAATTAGTTTTT
1 ACTTTTCTAAAATTAATTTTT
21813 TAACCCCGAA
Statistics
Matches: 131, Mismatches: 28, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
28 15 0.11
29 72 0.55
30 44 0.34
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (29 bp):
ACTTTTCTAAAATTAATTTTTAGCCTTAA
Found at i:28725 original size:39 final size:39
Alignment explanation
Indices: 28670--28746 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
28660 TATTTTGCCT
* * *
28670 AAAAAATGGATTGAGATGAAAACCCGTAAAGGGCGTCTA
1 AAAAAAAGGATCGAGATGAAAACCCGCAAAGGGCGTCTA
28709 AAAAAAAGGATCGAGATGAAAACCCGCAAAGGGCGTCT
1 AAAAAAAGGATCGAGATGAAAACCCGCAAAGGGCGTCT
28747 TGAAATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.26, T:0.14
Consensus pattern (39 bp):
AAAAAAAGGATCGAGATGAAAACCCGCAAAGGGCGTCTA
Found at i:29555 original size:49 final size:50
Alignment explanation
Indices: 29494--30157 Score: 230
Period size: 50 Copynumber: 13.4 Consensus size: 50
29484 GGGAAGATTG
* * *
29494 AGGCAGCAACGGCAAATCTAATACCCT-GGAGATATGAAGGGAAAGGTTA
1 AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATGAAGGGAAAGGTTA
* * * *
29543 AGGCCGCAACGGCAAACCTGATACCTTAGAAGATATGATGGGAAAGGTTG
1 AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATGAAGGGAAAGGTTA
* * ** * * * * *
29593 AGGCCGCAACAGTAAACAC-GGTACCAT-GAGGATTTGAAAGG-AAGGATTG
1 AGGCCGCAACGGCAAAC-CTAATACCCTAGAAGATATGAAGGGAAAGG-TTA
* * ** * ** * * * *
29642 AGGCCGCGACAGTGAATCTGGTACCTTAAAAGATGTGATA-GGAAAGGTTG
1 AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATGA-AGGGAAAGGTTA
* ** * * * * * *
29692 AGGCCGCAACGGTAAACCTGGTAACAT-GAAGATTTAAAGGG-AAGGACTG
1 AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATGAAGGGAAAGG-TTA
* * * * * * * * *
29741 AGGCCGCGACGACGAA-TTCGATACCTTAGAAGATGTGATGGGAAAGGTTG
1 AGGCCGCAACGGCAAACCT-AATACCCTAGAAGATATGAAGGGAAAGGTTA
* * ** * *
29791 AGGTCGCAACGGCGAA-CTCGGTACCAT-GAAGATATGAAGGGAAAGGTTG
1 AGGCCGCAACGGCAAACCT-AATACCCTAGAAGATATGAAGGGAAAGGTTA
* * * * * * *
29840 AGGCCACCACAGCGAACCTAGTACCTTAGAA-A-ATGTAATGGGAAAGGTTG
1 AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATG-AA-GGGAAAGGTTA
* * * *** * * *
29890 AGGCCGCAATGACGAACCCGGTACCAT-GAAGATAAGAAGGGAAAGGTTG
1 AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATGAAGGGAAAGGTTA
* * * ** * * *
29939 AGGCTGCAATAGG-GAACCCGATA-CCTAAGAAGATGTGATGGGAAAGGTTG
1 AGGCCGCAA-CGGCAAACCTAATACCCT-AGAAGATATGAAGGGAAAGGTTA
* * * ** *
29989 AGGCCACAACGGCAAACCCAATA-CCTAAAAAGATATGATTGGAAAGGTTG
1 AGGCCGCAACGGCAAACCTAATACCCT-AGAAGATATGAAGGGAAAGGTTA
** * * * *
30039 AGGCCGCAACGGCAAACCCGATACCAT-GGAGATATGAAAGGAAAGGTTG
1 AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATGAAGGGAAAGGTTA
* * * * * * *
30088 AGGCTGCAACGGTAAAACCT-ATACCTTAGAAGATGTAAAGGGGAAGGTTG
1 AGGCCGCAACGG-CAAACCTAATACCCTAGAAGATATGAAGGGAAAGGTTA
* *
30138 AGGCCGCTACGGCGAACCTA
1 AGGCCGCAACGGCAAACCTA
30158 GCACCTTAGA
Statistics
Matches: 486, Mismatches: 103, Indels: 51
0.76 0.16 0.08
Matches are distributed among these distances:
48 16 0.03
49 199 0.41
50 257 0.53
51 14 0.03
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (50 bp):
AGGCCGCAACGGCAAACCTAATACCCTAGAAGATATGAAGGGAAAGGTTA
Found at i:29991 original size:149 final size:149
Alignment explanation
Indices: 29523--30202 Score: 465
Period size: 149 Copynumber: 4.6 Consensus size: 149
29513 AATACCCTGG
* * * * *
29523 AGATATGAAGGGAAAGGTTAAGGCCGCAACGGCAAACCT-GATACCTTAGAAGATATG-ATGGGA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTAG-TACCTTAGAA-ACATGTATGGGA
* * * * ** * *
29586 AAGGTTGAGGCCGCAA-CA-GTAAACACGGTACCATGAGGATTTGAAAGG-AAGGATTGAGGCCG
64 AAGGTTGAGGCCGCAATGACG--AACCCGATACCATGAAGATAAGAAGGGAAAGG-TTGAGGCTG
* * * * * *
29648 CGACAGTGAATCTGGTACCTTAA-A
126 CAACGGCGAACCCGATACC-TAAGA
* ** * * * * * *
29672 AGATGTGATA-GGAAAGGTTGAGGCCGCAACGGTAAACCTGGTAACAT-G-AAGATTTAAAGGG-
1 AGATGTGA-AGGGAAAGGTTGAGGCCACAACGGCGAACCTAGTACCTTAGAAACATGT-ATGGGA
* * * ** * ** *
29733 AAGGACTGAGGCCGCGACGACGAATTCGATACCTTAGAAGATGTGATGGGAAAGGTTGAGG-TCG
64 AAGG-TTGAGGCCGCAATGACGAACCCGATACCAT-GAAGATAAGAAGGGAAAGGTTGAGGCT-G
* * *
29797 CAACGGCGAACTCGGTACC-ATGA
126 CAACGGCGAACCCGATACCTAAGA
* * *
29820 AGATATGAAGGGAAAGGTTGAGGCCACCACAGCGAACCTAGTACCTTAGAAA-ATGTAATGGGAA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTAGTACCTTAGAAACATGT-ATGGGAA
*
29884 AGGTTGAGGCCGCAATGACGAACCCGGTACCATGAAGATAAGAAGGGAAAGGTTGAGGCTGCAAT
65 AGGTTGAGGCCGCAATGACGAACCCGATACCATGAAGATAAGAAGGGAAAGGTTGAGGCTGCAA-
*
29949 AGG-GAACCCGATACCTAAGA
129 CGGCGAACCCGATACCTAAGA
* * * * * * * *
29969 AGATGTGATGGGAAAGGTTGAGGCCACAACGGCAAACCCAATACC-TAAAAAGATATGATTGGAA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTAGTACCTTAGAAACATGT-ATGGGAA
* * * * * *
30033 AGGTTGAGGCCGCAACGGCAAACCCGATACCATGGAGATATGAAAGGAAAGGTTGAGGCTGCAAC
65 AGGTTGAGGCCGCAATGACGAACCCGATACCATGAAGATAAGAAGGGAAAGGTTGAGGCTGCAAC
** * * *
30098 GGTAAAACCTATACCTTAGA
130 GGCGAACCCGATACCTAAGA
* * * * *
30118 AGATGTAAAGGGGAAGGTTGAGGCCGCTACGGCGAACCTAGCACCTTAGAAACATG-ATGGGAAA
1 AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTAGTACCTTAGAAACATGTATGGGAAA
* * **
30182 GATTGAAGCCAAAATGACGAA
66 GGTTGAGGCCGCAATGACGAA
30203 TCTTATACCC
Statistics
Matches: 415, Mismatches: 95, Indels: 43
0.75 0.17 0.08
Matches are distributed among these distances:
146 3 0.01
147 7 0.02
148 125 0.30
149 260 0.63
150 20 0.05
ACGTcount: A:0.36, C:0.17, G:0.30, T:0.17
Consensus pattern (149 bp):
AGATGTGAAGGGAAAGGTTGAGGCCACAACGGCGAACCTAGTACCTTAGAAACATGTATGGGAAA
GGTTGAGGCCGCAATGACGAACCCGATACCATGAAGATAAGAAGGGAAAGGTTGAGGCTGCAACG
GCGAACCCGATACCTAAGA
Found at i:30181 original size:99 final size:98
Alignment explanation
Indices: 29523--30187 Score: 503
Period size: 99 Copynumber: 6.7 Consensus size: 98
29513 AATACCCTGG
* * *
29523 AGATATGAAGGGAAAGGTTAAGGCCGCAACGGCAAACCT-GATACCTTAGAAGATATGATGGGAA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGATACCTTAGAA-ATATGATGGGAA
*
29587 AGGTTGAGGCCGCAACAGTAAACACGGTACCATGA
65 AGGTTGAGGCCGCAACGGTAAAC-CGGTACCATGA
* * * * * * * * * *
29622 GGATTTGAAA-GG-AAGGATTGAGGCCGCGACAGTGAATCT-GGTACCTTAAAAGATGTGATAGG
1 AGATAT-AAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCTCGATACCTTAGAA-ATATGATGGG
*
29684 AAAGGTTGAGGCCGCAACGGTAAACCTGGTAACATGA
63 AAAGGTTGAGGCCGCAACGGTAAACC-GGTACCATGA
* * * * * *
29721 AGATTTAAAGGG-AAGGACTGAGGCCGCGACGACGAA-TTCGATACCTTAGAAGATGTGATGGGA
1 AGATATAAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCTCGATACCTTAGAA-ATATGATGGGA
* **
29784 AAGGTTGAGGTCGCAACGGCGAACTCGGTACCATGA
64 AAGGTTGAGGCCGCAACGGTAAAC-CGGTACCATGA
* * * * *
29820 AGATATGAAGGGAAAGGTTGAGGCCACCACAGCGAACCTAG-TACCTTAGAAA-ATGTAATGGGA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGATACCTTAGAAATATG--ATGGGA
* *
29883 AAGGTTGAGGCCGCAATGACG-AACCCGGTACCATGA
64 AAGGTTGAGGCCGCAACG--GTAAACCGGTACCATGA
* * * *
29919 AGATA-AGAAGGGAAAGGTTGAGGCTGCAATAGG-GAACC-CGATACCTAAGAAGATGTGATGGG
1 AGATATA-AAGGGAAAGGTTGAGGCCGCAA-CGGCGAACCTCGATACCTTAGAA-ATATGATGGG
* * ** **
29981 AAAGGTTGAGGCCACAACGGCAAACCCAATACCTAAAA
63 AAAGGTTGAGGCCGCAACGGTAAA-CCGGTACC-ATGA
* ** * * * * **
30019 AGATATGATTGGAAAGGTTGAGGCCGCAACGGCAAACC-CGATACCATGGAGATATGAAAGGAAA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGATACCTTAGAAATATGATGGGAAA
* ** *
30083 GGTTGAGGCTGCAACGGTAAAACCTATACCTTAGA
66 GGTTGAGGCCGCAACGGT-AAACCGGTACCAT-GA
* * * * * *
30118 AGATGTAAAGGGGAAGGTTGAGGCCGCTACGGCGAACCTAG-CACCTTAGAAACATGATGGGAAA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGATACCTTAGAAATATGATGGGAAA
*
30182 GATTGA
66 GGTTGA
30188 AGCCAAAATG
Statistics
Matches: 447, Mismatches: 94, Indels: 50
0.76 0.16 0.08
Matches are distributed among these distances:
97 3 0.01
98 13 0.03
99 372 0.83
100 56 0.13
101 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (98 bp):
AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTCGATACCTTAGAAATATGATGGGAAA
GGTTGAGGCCGCAACGGTAAACCGGTACCATGA
Found at i:30716 original size:14 final size:15
Alignment explanation
Indices: 30685--30718 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
30675 AATTACATGT
*
30685 CCAATTACCCTAAGC
1 CCAATTAACCTAAGC
30700 CCAATTAACCT-AGC
1 CCAATTAACCTAAGC
30714 CCAAT
1 CCAAT
30719 ACATTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.38, G:0.06, T:0.21
Consensus pattern (15 bp):
CCAATTAACCTAAGC
Found at i:31487 original size:35 final size:36
Alignment explanation
Indices: 31422--31489 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
31412 GAAATAACAC
* **
31422 AAAAAATATTATTAAAACAGATTATATAAAAAATGA
1 AAAAAATATTATTAAAAAAGAAGATATAAAAAATGA
31458 AAAAAATATT-TTAAAAAAGTAAGAT-TAAAAAA
1 AAAAAATATTATTAAAAAAG-AAGATATAAAAAA
31490 ATCCAAACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
35 15 0.54
36 13 0.46
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.26
Consensus pattern (36 bp):
AAAAAATATTATTAAAAAAGAAGATATAAAAAATGA
Found at i:32257 original size:30 final size:30
Alignment explanation
Indices: 32216--32415 Score: 230
Period size: 30 Copynumber: 6.7 Consensus size: 30
32206 ATTTTCTTTG
*
32216 AAAATTGCATTTTAACCCTTAAACTTTTCT
1 AAAATTACATTTTAACCCTTAAACTTTTCT
*
32246 AAAATTACATTTTGACTCC-TAAACTTTTCT
1 AAAATTACATTTTAAC-CCTTAAACTTTTCT
* * *
32276 AAAATAACATTTTAACCCTTAAATTTTTCC
1 AAAATTACATTTTAACCCTTAAACTTTTCT
* * * * *
32306 AAAATTACACTTTGACCCCTAAACTTCTAT
1 AAAATTACATTTTAACCCTTAAACTTTTCT
*
32336 AAAATCACATTTTAACCC-TAAAC-TTTCTT
1 AAAATTACATTTTAACCCTTAAACTTTTC-T
*
32365 AAAA-TACATTTTTA-CCTCTAAACTTTTCT
1 AAAATTACATTTTAACCCT-TAAACTTTTCT
32394 AAAATTACATTTTAACCCTTAA
1 AAAATTACATTTTAACCCTTAA
32416 TTCTTTGAAA
Statistics
Matches: 140, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
27 2 0.01
28 10 0.07
29 22 0.16
30 101 0.72
31 5 0.04
ACGTcount: A:0.37, C:0.21, G:0.01, T:0.40
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTTAAACTTTTCT
Found at i:32287 original size:60 final size:59
Alignment explanation
Indices: 32223--32415 Score: 257
Period size: 60 Copynumber: 3.3 Consensus size: 59
32213 TTGAAAATTG
32223 CATTTTAACCCTTAAACTTTTCTAAAATTACATTTTGACTCCTAAACTTTTCTAAAATAA
1 CATTTTAACCCTTAAACTTTTCTAAAATTACATTTTGAC-CCTAAACTTTTCTAAAATAA
* * * * * *
32283 CATTTTAACCCTTAAATTTTTCCAAAATTACACTTTGACCCCTAAACTTCTATAAAATCA
1 CATTTTAACCCTTAAACTTTTCTAAAATTACATTTTGA-CCCTAAACTTTTCTAAAATAA
* *
32343 CATTTTAACCC-TAAAC-TTTCTTAAAA-TACATTTTTACCTCTAAACTTTTCTAAAATTA
1 CATTTTAACCCTTAAACTTTTC-TAAAATTACATTTTGACC-CTAAACTTTTCTAAAATAA
32401 CATTTTAACCCTTAA
1 CATTTTAACCCTTAA
32416 TTCTTTGAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
57 2 0.02
58 39 0.34
59 11 0.09
60 63 0.54
61 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.01, T:0.40
Consensus pattern (59 bp):
CATTTTAACCCTTAAACTTTTCTAAAATTACATTTTGACCCTAAACTTTTCTAAAATAA
Found at i:32433 original size:58 final size:56
Alignment explanation
Indices: 32223--32442 Score: 226
Period size: 60 Copynumber: 3.7 Consensus size: 56
32213 TTGAAAATTG
*
32223 CATTTTAACCCTTAAACTTTTCTAAAATTACATTTTGACTCCTAAACTTTTCTAAAATAA
1 CATTTTAACCCTT-AA-TTTT-TAAAA-TACATTTTGACCCCTAAACTTTTCTAAAATAA
* * * *
32283 CATTTTAACCCTTAAATTTTTCCAAAATTACACTTTGACCCCTAAACTTCTATAAAATCA
1 CATTTTAACCCTT-AATTTTT--AAAA-TACATTTTGACCCCTAAACTTTTCTAAAATAA
* * * *
32343 CATTTTAACCCTAAACTTTCTTAAAATACATTTTTACCTCTAAACTTTTCTAAAATTA
1 CATTTTAACCCTTAA-TTT-TTAAAATACATTTTGACCCCTAAACTTTTCTAAAATAA
32401 CATTTTAACCCTTAATTCTTTGAAACAT-CATTTTCGACCCCT
1 CATTTTAACCCTTAATT-TTT-AAA-ATACATTTT-GACCCCT
32443 TTTTTTTTCT
Statistics
Matches: 137, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
57 4 0.03
58 51 0.37
59 17 0.12
60 63 0.46
61 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (56 bp):
CATTTTAACCCTTAATTTTTAAAATACATTTTGACCCCTAAACTTTTCTAAAATAA
Found at i:36108 original size:41 final size:41
Alignment explanation
Indices: 36044--36370 Score: 293
Period size: 41 Copynumber: 8.0 Consensus size: 41
36034 TACATAAACG
* * *
36044 CCGCAAAAGGT-AGAGCAATAGCGGTGCTTTTAGGAAAGCA
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAGGAAAGCA
* * * *
36084 CCGTTAAAGGTCAAAGCAATAGCGGCGCTTTTA-GAAAGGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAGGAAA-GCA
* * * * *
36125 CCGCTAAAGTTTAGAGCAATGGCGGCGCTTAT-GTGCAAGCA
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAG-GAAAGCA
* * * * * * *
36166 CAGCTAAAAGTCAGAGTAATAGTGGTGCTTCTAGGTAAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAGGAAAGCA
** *
36207 CCGCTAAAGGTCAGAGCAATAGTAGCGCTT-TTGAGAAAGCA
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAG-GAAAGCA
* * * *
36248 CCGCTAAAGGTCAGAGCAATAACGGCGCTTCTGGGTAAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAGGAAAGCA
* ** * * * *
36289 TCGCTAAAGGTCAGAATAATAGCGACGCTTATGGGAAAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAGGAAAGCA
*
36330 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTGGGAAAGCA
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAGGAAAGCA
36371 AATATAACAA
Statistics
Matches: 229, Mismatches: 51, Indels: 13
0.78 0.17 0.04
Matches are distributed among these distances:
40 15 0.07
41 208 0.91
42 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.19
Consensus pattern (41 bp):
CCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTAGGAAAGCA
Found at i:36187 original size:82 final size:81
Alignment explanation
Indices: 36004--36359 Score: 331
Period size: 82 Copynumber: 4.4 Consensus size: 81
35994 ATAGAAAATG
* * * * * * *
36004 CCGCAAAAGGT-AAAGCAATAGCAGCGGTTTTACATAAACGCCGCAAAAGGT-AGAGCAATAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTA-GTAAGCGCCGCTAAAGGTCAGAGCAATAGCG
* *
36067 GTGCTT-TTAGGAAAGCA
65 GCGCTTATGA-GAAAGCA
* * * * * *
36084 CCGTTAAAGGTCAAAGCAATAGCGGCGCTTTTAGAAAGGCGCCGCTAAAGTTTAGAGCAATGGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTAGTAA-GCGCCGCTAAAGGTCAGAGCAATAGCG
* *
36149 GCGCTTATGTGCAAGCA
65 GCGCTTATGAGAAAGCA
* * * * * * **
36166 CAGCTAAAAGTCAGAGTAATAGTGGTGCTTCTAGGTAAGCGCCGCTAAAGGTCAGAGCAATAGTA
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTA-GTAAGCGCCGCTAAAGGTCAGAGCAATAGCG
*
36231 GCGCTTTTGAGAAAGCA
65 GCGCTTATGAGAAAGCA
* ** * **
36248 CCGCTAAAGGTCAGAGCAATAACGGCGCTTCTGGGTAAGCGTCGCTAAAGGTCAGAATAATAGCG
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTT-TTAGTAAGCGCCGCTAAAGGTCAGAGCAATAGCG
* * *
36313 ACGCTTATGGGAAAGCG
65 GCGCTTATGAGAAAGCA
36330 CCGCTAAAGGTCAGAGCAATAGCGGCGCTT
1 CCGCTAAAGGTCAGAGCAATAGCGGCGCTT
36360 CTGGGAAAGC
Statistics
Matches: 220, Mismatches: 50, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
80 11 0.05
81 30 0.14
82 175 0.80
83 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (81 bp):
CCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTAGTAAGCGCCGCTAAAGGTCAGAGCAATAGCGG
CGCTTATGAGAAAGCA
Found at i:36215 original size:123 final size:123
Alignment explanation
Indices: 36055--36370 Score: 366
Period size: 123 Copynumber: 2.6 Consensus size: 123
36045 CGCAAAAGGT
* * * * *
36055 AGAGCAATAGCGGTGCTTTTAGGAAAGCACCGTTAAAGGTCAAAGCAATAGCGGCGCTTTT-AGA
1 AGAGTAATAGCGGTGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTGAGA
* * * ** *
36119 AAGGCGCCGCTAAAGTTTAGAGCAATGGCGGCGCTTATGTGCAAGC-ACAGCTAAAAGTC
66 AA-GCACCGCTAAAGGTCAGAGCAATAACGGCGCTTATGGGCAAGCGAC-GCTAAAAGTC
* * * **
36178 AGAGTAATAGTGGTGCTTCTAGGTAAGCGCCGCTAAAGGTCAGAGCAATAGTAGCGCTTTTGAGA
1 AGAGTAATAGCGGTGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTGAGA
* * * *
36243 AAGCACCGCTAAAGGTCAGAGCAATAACGGCGCTTCTGGGTAAGCGTCGCTAAAGGTC
66 AAGCACCGCTAAAGGTCAGAGCAATAACGGCGCTTATGGGCAAGCGACGCTAAAAGTC
* ** * * *
36301 AGAATAATAGCGACGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTCTGGGA
1 AGAGTAATAGCGGTGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTGAGA
36366 AAGCA
66 AAGCA
36371 AATATAACAA
Statistics
Matches: 161, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
123 155 0.96
124 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.20
Consensus pattern (123 bp):
AGAGTAATAGCGGTGCTTATAGGAAAGCGCCGCTAAAGGTCAGAGCAATAGCGGCGCTTTTGAGA
AAGCACCGCTAAAGGTCAGAGCAATAACGGCGCTTATGGGCAAGCGACGCTAAAAGTC
Found at i:36360 original size:82 final size:82
Alignment explanation
Indices: 36042--36369 Score: 338
Period size: 82 Copynumber: 4.0 Consensus size: 82
36032 TTTACATAAA
* ** * * * *
36042 CGCCGCAAAAGGT-AGAGCAATAGCGGTGCTTTTAGGAAAGCACCGTTAAAGGTCAAAGCAATAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGGGAAAGCACCGCTAAAGGTCAGAGCAATAG
**
36106 CGGCGCTT-TTAGAAAGG
66 CGGCGCTTCTGGGAAA-G
* * * * * * * * *
36123 CGCCGCTAAAGTTTAGAGCAATGGCGGCGCTTATGTGCAAGCACAGCTAAAAGTCAGAGTAATAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGGGAAAGCACCGCTAAAGGTCAGAGCAATAG
* * * *
36188 TGGTGCTTCTAGGTAAG
66 CGGCGCTTCTGGGAAAG
* * *
36205 CGCCGCTAAAGGTCAGAGCAATAG-TAGCGCTTTTGAGAAAGCACCGCTAAAGGTCAGAGCAATA
1 CGCCGCTAAAGGTCAGAGCAATAGCGA-CGCTTATGGGAAAGCACCGCTAAAGGTCAGAGCAATA
* *
36269 ACGGCGCTTCTGGGTAAG
65 GCGGCGCTTCTGGGAAAG
* ** *
36287 CGTCGCTAAAGGTCAGAATAATAGCGACGCTTATGGGAAAGCGCCGCTAAAGGTCAGAGCAATAG
1 CGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGGGAAAGCACCGCTAAAGGTCAGAGCAATAG
36352 CGGCGCTTCTGGGAAAG
66 CGGCGCTTCTGGGAAAG
36369 C
1 C
36370 AAATATAACA
Statistics
Matches: 201, Mismatches: 42, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
81 11 0.05
82 185 0.92
83 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.19
Consensus pattern (82 bp):
CGCCGCTAAAGGTCAGAGCAATAGCGACGCTTATGGGAAAGCACCGCTAAAGGTCAGAGCAATAG
CGGCGCTTCTGGGAAAG
Found at i:42398 original size:43 final size:42
Alignment explanation
Indices: 42350--42722 Score: 280
Period size: 43 Copynumber: 8.3 Consensus size: 42
42340 ATCTGTTAAT
* *
42350 TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGACTATGTTC
1 TTTAGCGGCGTTTGTG-GATAAGCGCCGCTAAAGACCATGTTC
** *
42393 TTTAGCGGCGTTTGTGGTATAAGCGTTGTTAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGG-ATAAGCGCCGCTAAAGACCATGTTC
* * * *
42436 TTTAGCGGTGTTTTTGGGGTAAGCGTCGCTAAAGACCATGTTC
1 TTTAGCGGCGTTTGT-GGATAAGCGCCGCTAAAGACCATGTTC
* * *
42479 TTTAGCGACGTTTGTAGGGTAAGCGCCGCTAAAAACCATGTTC
1 TTTAGCGGCGTTTGT-GGATAAGCGCCGCTAAAGACCATGTTC
* *
42522 TTTAGCGGTAACGGCGCTTGTGGTATAAGCGCCGTTAAAGACCATGTT-
1 TTTA---G---CGGCGTTTGTGG-ATAAGCGCCGCTAAAGACCATGTTC
** * *
42570 TTTAGCGGTATTTTTGGGGTAAGCGCCGCTAAAGACCATGTTCTTTAGC
1 TTTAGCGGCGTTTGT-GGATAAGCGCCGCTAAAGACCATG----TT--C
* * *
42619 TTTAGCGGCGTTTGTGGGAGAAGTGCCGTTAAAGACCATGTTCTTTAGC
1 TTTAGCGGCGTTTGT-GGATAAGCGCCGCTAAAGACCATG----TT--C
* * * * *
42668 TTTAGCGGCGTTTATGTAAAAGCGCCACTAATGACCATGTTC
1 TTTAGCGGCGTTTGTGGATAAGCGCCGCTAAAGACCATGTTC
42710 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
42723 TTCCTCATAA
Statistics
Matches: 272, Mismatches: 41, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
42 41 0.15
43 114 0.42
44 4 0.01
45 1 0.00
46 3 0.01
48 24 0.09
49 85 0.31
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGATAAGCGCCGCTAAAGACCATGTTC
Found at i:42597 original size:91 final size:92
Alignment explanation
Indices: 42355--42667 Score: 291
Period size: 91 Copynumber: 3.5 Consensus size: 92
42345 TTAATTTTAG
* * * * * * * * *
42355 CGGCGTTTGTGAGAAAAGCGCCGCTAAAGACTATGTTCTTTAGCGGCGTTTGT-GGTATAAGCGT
1 CGGCGCTTGTGGGATAAGCGCCGTTAAAGACCATGTTCTTTAGCGACATTTGTAGG-GTAAGCGC
* * *
42419 TGTTAAAGACCATGTTCTTTAGCGGT--
65 CGCTAAAAACCATGTTCTTTAGCGGTAA
* * * * * *
42445 ----GTTTTTGGGGTAAGCGTCGCTAAAGACCATGTTCTTTAGCGACGTTTGTAGGGTAAGCGCC
1 CGGCGCTTGTGGGATAAGCGCCGTTAAAGACCATGTTCTTTAGCGACATTTGTAGGGTAAGCGCC
42506 GCTAAAAACCATGTTCTTTAGCGGTAA
66 GCTAAAAACCATGTTCTTTAGCGGTAA
* ** * *
42533 CGGCGCTTGTGGTATAAGCGCCGTTAAAGACCATGTT-TTTAGCGGTATTTTTGGGGTAAGCGCC
1 CGGCGCTTGTGGGATAAGCGCCGTTAAAGACCATGTTCTTTAGCGACATTTGTAGGGTAAGCGCC
* ** *
42597 GCTAAAGACCATGTTCTTTAGCTTTAG
66 GCTAAAAACCATGTTCTTTAGCGGTAA
* * *
42624 CGGCGTTTGTGGGAGAAGTGCCGTTAAAGACCATGTTCTTTAGC
1 CGGCGCTTGTGGGATAAGCGCCGTTAAAGACCATGTTCTTTAGC
42668 TTTAGCGGCG
Statistics
Matches: 184, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
86 71 0.39
87 2 0.01
91 78 0.42
92 33 0.18
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (92 bp):
CGGCGCTTGTGGGATAAGCGCCGTTAAAGACCATGTTCTTTAGCGACATTTGTAGGGTAAGCGCC
GCTAAAAACCATGTTCTTTAGCGGTAA
Found at i:42653 original size:49 final size:48
Alignment explanation
Indices: 42590--42715 Score: 180
Period size: 49 Copynumber: 2.6 Consensus size: 48
42580 TTTTTGGGGT
* *
42590 AAGCGCCGCTAAAGACCATGTTCTTTAGCTTTAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAGACCATGTTCTTTAGCTTTAGCGGCGTTTAT-GGAA
* * *
42639 AAGTGCCGTTAAAGACCATGTTCTTTAGCTTTAGCGGCGTTTATGTAA
1 AAGCGCCGCTAAAGACCATGTTCTTTAGCTTTAGCGGCGTTTATGGAA
* *
42687 AAGCGCCACTAATGACCATGTTCTTTAGC
1 AAGCGCCGCTAAAGACCATGTTCTTTAGC
42716 GGCGTTTTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
48 27 0.40
49 41 0.60
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (48 bp):
AAGCGCCGCTAAAGACCATGTTCTTTAGCTTTAGCGGCGTTTATGGAA
Done.