Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 38 of 253
Found at i:9797983 original size:15 final size:15
Alignment explanation
Indices: 9797963--9798029 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
9797953 TTCTGATACT
9797963 ATTATTATTTATCTA
1 ATTATTATTTATCTA
9797978 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* * * *
9797993 TTTA-TATTTCTATT
1 ATTATTATTTATCTA
9798007 ATTATTATATT-TCTA
1 ATTATTAT-TTATCTA
*
9798022 TTTATTAT
1 ATTATTAT
9798030 ATTTTTATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.24
15 30 0.71
16 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:9797994 original size:8 final size:7
Alignment explanation
Indices: 9797964--9798039 Score: 50
Period size: 8 Copynumber: 10.3 Consensus size: 7
9797954 TCTGATACTA
9797964 TTATTAT
1 TTATTAT
*
9797971 TTATCTAA
1 TTAT-TAT
9797979 TTATTAT
1 TTATTAT
9797986 TTATCTAT
1 TTAT-TAT
9797994 TTA-TATT
1 TTATTA-T
9798001 TCTATTA-
1 T-TATTAT
9798008 TTATTAT
1 TTATTAT
9798015 ATT-TCTAT
1 -TTAT-TAT
9798023 TTATTAT
1 TTATTAT
*
9798030 ATTTTTAT
1 -TTATTAT
9798038 TT
1 TT
9798040 CTATTTATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
6 7 0.12
7 21 0.38
8 26 0.46
9 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (7 bp):
TTATTAT
Found at i:9798014 original size:17 final size:16
Alignment explanation
Indices: 9797994--9798049 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 16
9797984 ATTTATCTAT
9797994 TTATATTTCTATTATTA
1 TTATATTTCTATT-TTA
9798011 TTATATTTCTA-TTTA
1 TTATATTTCTATTTTA
*
9798026 TTATATTTTTATTTCTA
1 TTATATTTCTATTT-TA
9798043 TTTATAT
1 -TTATAT
9798050 ACTAATATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 13 0.37
16 3 0.09
17 13 0.37
18 6 0.17
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATTTCTATTTTA
Found at i:9798038 original size:21 final size:19
Alignment explanation
Indices: 9797983--9798047 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 19
9797973 ATCTAATTAT
9797983 TATTTATCTATTTATATTTC
1 TATTTAT-TATTTATATTTC
9798003 TA-TTATTA-TTATATTTC
1 TATTTATTATTTATATTTC
*
9798020 TATTTATTATATTTTTATTTC
1 TATTTA-T-TATTTATATTTC
9798041 TATTTAT
1 TATTTAT
9798048 ATACTAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
17 11 0.28
18 5 0.12
19 5 0.12
20 5 0.12
21 14 0.35
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTATTATTTATATTTC
Found at i:9798038 original size:29 final size:29
Alignment explanation
Indices: 9797910--9798026 Score: 84
Period size: 29 Copynumber: 4.0 Consensus size: 29
9797900 TTTAATACAT
* *
9797910 TATTCCTATTATTTTTATGTT-TCTATTTA
1 TATTTCTATTATTATTAT-TTATCTATTTA
*
9797939 TA-TT-TATT-TTGTTATTCTGATACTA-TTA
1 TATTTCTATTATTATTATT-T-AT-CTATTTA
* * *
9797967 TTATTTATCTAATTATTATTTATCTATTTA
1 -TATTTCTATTATTATTATTTATCTATTTA
9797997 TATTTCTATTATTATTATATT-TCTATTTA
1 TATTTCTATTATTATTAT-TTATCTATTTA
9798026 T
1 T
9798027 TATATTTTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
25 1 0.01
26 7 0.10
27 4 0.06
28 5 0.07
29 34 0.49
30 9 0.13
31 3 0.04
32 7 0.10
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (29 bp):
TATTTCTATTATTATTATTTATCTATTTA
Found at i:9798039 original size:44 final size:43
Alignment explanation
Indices: 9797962--9798078 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
9797952 ATTCTGATAC
* *
9797962 TATTATTATTTATCTAATTATTAT-TTATCTATTTATATTTCTAT-
1 TATTATTATTT-TCT-ATTATTATATT-TTTATTTATATTTATATA
*
9798006 TATTATTATATTTCTATTTATTATATTTTTATTTCTATTTATATA
1 TATTATTAT-TTTCTA-TTATTATATTTTTATTTATATTTATATA
* *
9798051 CTAATATTATTTTC-ATTATTACATTTTT
1 -TATTATTATTTTCTATTATTATATTTTT
9798079 CCTTATATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
43 13 0.21
44 34 0.54
45 8 0.13
46 8 0.13
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (43 bp):
TATTATTATTTTCTATTATTATATTTTTATTTATATTTATATA
Found at i:9800734 original size:20 final size:20
Alignment explanation
Indices: 9800706--9800744 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9800696 GGACAATGCA
9800706 AGGGAAAAGAAAGAGAGAAG
1 AGGGAAAAGAAAGAGAGAAG
* *
9800726 AGGGGAAAGAAATAGAGAA
1 AGGGAAAAGAAAGAGAGAA
9800745 TTTAGGGTTT
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:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (20 bp):
AGGGAAAAGAAAGAGAGAAG
Found at i:9807603 original size:31 final size:31
Alignment explanation
Indices: 9807563--9807628 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
9807553 TATTTTTTGA
* * *
9807563 ATATGTATAATTTG-ATCAAAATCAAAATTTC
1 ATATATATAA-TTGAATCAAAATAAAAATTCC
9807594 ATATATATAATTGAATCAAAATAAAAATTCC
1 ATATATATAATTGAATCAAAATAAAAATTCC
9807625 ATAT
1 ATAT
9807629 GTATCAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (31 bp):
ATATATATAATTGAATCAAAATAAAAATTCC
Found at i:9814797 original size:20 final size:20
Alignment explanation
Indices: 9814774--9814811 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9814764 GTTGGATTTT
*
9814774 GTCTGTGTTTGTTTTTTGTG
1 GTCTGTGTTTGGTTTTTGTG
9814794 GTCTGTGTTTGGTTTTTG
1 GTCTGTGTTTGGTTTTTG
9814812 GTTTTTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.05, G:0.32, T:0.63
Consensus pattern (20 bp):
GTCTGTGTTTGGTTTTTGTG
Found at i:9815131 original size:18 final size:17
Alignment explanation
Indices: 9815103--9815148 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
9815093 AACATTTCAC
9815103 TTTATATATTTTTGTAAAT
1 TTTA-ATATTTTT-TAAAT
*
9815122 TTTAATATTTTTTATAT
1 TTTAATATTTTTTAAAT
9815139 TTATAATATT
1 TT-TAATATT
9815149 ATAGTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTAATATTTTTTAAAT
Found at i:9815199 original size:33 final size:33
Alignment explanation
Indices: 9815121--9815203 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 33
9815111 TTTTTGTAAA
* *
9815121 TTTTA-ATATTTTTTATATTTATAATATTATAG
1 TTTTATATAATTTTTATATATATAATATTATAG
9815153 TTTTATATAATTTTCTATATATAT-ATATTAT-G
1 TTTTATATAATTTT-TATATATATAATATTATAG
* *
9815185 TTTTTGTATGATTTTTATA
1 -TTTTATATAATTTTTATA
9815204 ATTCTTTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
32 10 0.23
33 26 0.59
34 8 0.18
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (33 bp):
TTTTATATAATTTTTATATATATAATATTATAG
Found at i:9818625 original size:11 final size:12
Alignment explanation
Indices: 9818595--9818628 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
9818585 TAGCCCGCCC
9818595 ATATTAATTTTT
1 ATATTAATTTTT
9818607 ATATTAATTTTT
1 ATATTAATTTTT
9818619 ATA-TAATTTT
1 ATATTAATTTT
9818629 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:9819472 original size:43 final size:45
Alignment explanation
Indices: 9819424--9819511 Score: 128
Period size: 43 Copynumber: 2.0 Consensus size: 45
9819414 TTGAAGTAAA
9819424 ATAGAAGTTGTGATAATTA-TAT-ATTTAAAATA-ATTATAATTTG
1 ATAGAAGTTGTGATAATTATTATAATTTAAAA-ACATTATAATTTG
*
9819467 ATAGAATTTGTGATAATTATTATACATTTAAAAACATTATAATTT
1 ATAGAAGTTGTGATAATTATTATA-ATTTAAAAACATTATAATTT
9819512 AATTTACAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
43 18 0.45
44 3 0.08
45 1 0.03
46 18 0.45
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (45 bp):
ATAGAAGTTGTGATAATTATTATAATTTAAAAACATTATAATTTG
Found at i:9819791 original size:39 final size:39
Alignment explanation
Indices: 9819748--9819825 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
9819738 ACATTAGAAG
9819748 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
1 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
*
9819787 TTAGTATATTGAAATGGGTAAATAAGAAAGTTAATTTCT
1 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
9819826 AAAATACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (39 bp):
TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
Found at i:9821026 original size:19 final size:19
Alignment explanation
Indices: 9821002--9821092 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
9820992 ATAATCTTCA
9821002 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9821021 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9821040 ATGATAT--AATCTTACAT
1 ATGATATGCAATCTTAGAT
9821057 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9821075 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
9821093 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
16 1 0.01
17 14 0.21
18 14 0.21
19 38 0.57
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9821071 original size:54 final size:53
Alignment explanation
Indices: 9820990--9821092 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 53
9820980 TCATATGGAA
9820990 ATATAATCTTCAATGATATGCAATCTTAGATATGATATGCAATCTTAGATATG
1 ATATAATCTTCAATGATATGCAATCTTAGATATGATATGCAATCTTAGATATG
9821043 ATATAATCTTACATATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA
1 ATATAATCTT-CA-ATGATATGCAATCTTAGATATGATATGCAATCTTAGA
9821093 AGATATGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
53 10 0.21
54 33 0.69
55 5 0.10
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (53 bp):
ATATAATCTTCAATGATATGCAATCTTAGATATGATATGCAATCTTAGATATG
Found at i:9821073 original size:35 final size:37
Alignment explanation
Indices: 9821002--9821090 Score: 137
Period size: 35 Copynumber: 2.4 Consensus size: 37
9820992 ATAATCTTCA
*
9821002 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATAT-CAATCTTACATATGATATGCAATCTTAGAT
9821040 ATGATAT-AATCTTACATATGAT-TGCAATCTTAGAT
1 ATGATATCAATCTTACATATGATATGCAATCTTAGAT
9821075 ATGATATGCAATCTTA
1 ATGATAT-CAATCTTA
9821091 GAAGATATGA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 20 0.42
36 14 0.29
37 7 0.15
38 7 0.15
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (37 bp):
ATGATATCAATCTTACATATGATATGCAATCTTAGAT
Found at i:9821118 original size:22 final size:22
Alignment explanation
Indices: 9821071--9821115 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
9821061 TTGCAATCTT
*
9821071 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
9821093 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
9821116 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:9830681 original size:220 final size:219
Alignment explanation
Indices: 9830299--9830796 Score: 852
Period size: 220 Copynumber: 2.3 Consensus size: 219
9830289 CAGAGAATAG
* *
9830299 ATTTGGCATCTCCATATTCGACGGAGAGCAGATTGAAGGCATAGCAGATCTAACCTTCGGATGCC
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGA-TAAAGACATAGCAGATCTAACCTTCGGATGCC
9830364 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACA
65 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACA
*
9830429 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACT
130 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACT
*
9830494 GTCAGAGAACAAATCGAAGAAACAT
195 GTCAGAGAACAAATCGAAGAAACAA
* *
9830519 ATTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGACATAGCAGATCTAACCTTCGGATGTC
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGAT-AAAGACATAGCAGATCTAACCTTCGGATGCC
*
9830584 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACA
65 TTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACA
*
9830649 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGTAGATCTAAGATGATTTGGCATCTCTATACT
130 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACT
*
9830714 GTCAGAGAACAAATTGAAGAAACAA
195 GTCAGAGAACAAATCGAAGAAACAA
** * *
9830739 ATTTCACATCTCCATATTCGACGGAGAGCAGATAGAAGACATAACAGATCTGACCTTC
1 ATTTGGCATCTCCATATTCGACGGAGAGCAGATA-AAGACATAGCAGATCTAACCTTC
9830797 ATTGAAGCAG
Statistics
Matches: 262, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
219 2 0.01
220 260 0.99
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (219 bp):
ATTTGGCATCTCCATATTCGACGGAGAGCAGATAAAGACATAGCAGATCTAACCTTCGGATGCCT
TCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCATTGACAAGGAGCAGATCGAAGACAT
AGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACTG
TCAGAGAACAAATCGAAGAAACAA
Found at i:9830966 original size:78 final size:78
Alignment explanation
Indices: 9830753--9831031 Score: 393
Period size: 78 Copynumber: 3.6 Consensus size: 78
9830743 CACATCTCCA
* *
9830753 TATTCGACGGAGAGCAGAT-AGAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATG
1 TATTAGACGGGGAGCAGATCA-AAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATG
9830817 ATTTGGCATCTCTG
65 ATTTGGCATCTCTG
* * *
9830831 TATT-GAAGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGTAGCAGATCCAAGATGA
1 TATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
9830895 TTTGGCATCTCTG
66 TTTGGCATCTCTG
* * * *
9830908 TATTAGACGAGGAGCAGATTAAAGACATAACAGAT-TGGACCTTTATTGAAGCAAATCCAAGATG
1 TATTAGACGGGGAGCAGATCAAAGACATAACAGATCT-GACCTTCATTGAAGCAGATCCAAGATG
9830972 ATTTGGCATCTCTG
65 ATTTGGCATCTCTG
* * * **
9830986 CATTAGACGGGGAGTAGATCGAAGACATAGTAGATCTGACCTTCAT
1 TATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCAT
9831032 GTTTTTACAT
Statistics
Matches: 178, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
77 72 0.40
78 105 0.59
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
TATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGA
TTTGGCATCTCTG
Found at i:9831169 original size:89 final size:89
Alignment explanation
Indices: 9831060--9831227 Score: 273
Period size: 89 Copynumber: 1.9 Consensus size: 89
9831050 ATCCAAGATG
* * *
9831060 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGGTAATAGATTTGGCATCTCTGTA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTA
*
9831125 TTAGAGGGGGAGCAGATTGAAGAA
66 TTAGACGGGGAGCAGATTGAAGAA
* * *
9831149 ACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
1 ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTA
9831214 TTAGACGGGGAGCA
66 TTAGACGGGGAGCA
9831228 AATCAAAGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.26
Consensus pattern (89 bp):
ACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTA
TTAGACGGGGAGCAGATTGAAGAA
Found at i:9831237 original size:45 final size:45
Alignment explanation
Indices: 9831045--9831244 Score: 276
Period size: 45 Copynumber: 4.5 Consensus size: 45
9831035 TTTACATTGA
* *
9831045 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * * * *
9831090 AGCAAATCGGAGGTAATAGATTTGGCATCTCTGTATTAGAGGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
9831135 AGCAGATTGAAGA-AACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
*
9831179 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
9831224 AGCAAATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
9831245 ATCACCTTCC
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 40 0.29
45 96 0.71
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:9831618 original size:19 final size:19
Alignment explanation
Indices: 9831594--9831684 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
9831584 ATAATCTTCA
9831594 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9831613 ATGATAT--AATCTTATAT
1 ATGATATGCAATCTTAGAT
9831630 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9831648 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9831667 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
9831685 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
16 1 0.01
17 14 0.21
18 14 0.21
19 38 0.57
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9831704 original size:42 final size:37
Alignment explanation
Indices: 9831594--9831707 Score: 133
Period size: 35 Copynumber: 3.0 Consensus size: 37
9831584 ATAATCTTCA
*
9831594 ATGATATGCAATCTTAGATATGATA--TAATCTTATAT
1 ATGAT-TGCAATCTTAGATATGATATGTAATCTTAGAT
*
9831630 ATGATTGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATGTAATCTTAGAT
*
9831667 ATGATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 ATGAT-TGCAATCTT---AGATATGA-TATGTAATCTTAGA
9831708 GATTTAATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
35 19 0.28
36 5 0.07
37 14 0.21
38 9 0.13
41 8 0.12
42 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (37 bp):
ATGATTGCAATCTTAGATATGATATGTAATCTTAGAT
Found at i:9831710 original size:22 final size:22
Alignment explanation
Indices: 9831594--9831707 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
9831584 ATAATCTTCA
9831594 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
9831613 ATGATAT--AATCTTAT---AT
1 ATGATATGCAATCTTAGAAGAT
9831630 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
9831648 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
9831667 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
9831689 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
9831708 GATTTAATTT
Statistics
Matches: 82, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
16 1 0.01
17 13 0.16
18 13 0.16
19 35 0.43
22 8 0.10
23 12 0.15
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:9834782 original size:41 final size:41
Alignment explanation
Indices: 9834705--9834902 Score: 220
Period size: 41 Copynumber: 4.8 Consensus size: 41
9834695 CCGGGTTTTA
* * *** *
9834705 AGCCTAGCAGGCTTCGAGCCGGTGTACCATAACAGGCCTTG
1 AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
* *
9834746 AGCCTAGCAAGCTTCGTGCTGGTGCATTGTATCAGGCCTTG
1 AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
* * * *
9834787 AGCCTAGCAGGCTTCATGCTGGTATATTGTATTAGGCCGTG
1 AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
** *
9834828 AGTTTAGCAGGCTTCGTG-TCGGTGTATTATATCAGGCCTTG
1 AGCCTAGCAGGCTTCGTGCT-GGTGTATTGTATCAGGCCTTG
*
9834869 AGCCTAGCAGGCTTCGTG-TCGATGTATTGTATCA
1 AGCCTAGCAGGCTTCGTGCT-GGTGTATTGTATCA
9834903 AGTAATTTGT
Statistics
Matches: 131, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
40 1 0.01
41 130 0.99
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (41 bp):
AGCCTAGCAGGCTTCGTGCTGGTGTATTGTATCAGGCCTTG
Found at i:9841398 original size:15 final size:15
Alignment explanation
Indices: 9841378--9841416 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
9841368 CTGTTACCTG
9841378 AATGGGCTTAGGCCC
1 AATGGGCTTAGGCCC
9841393 AATGGGCTTAGGCCC
1 AATGGGCTTAGGCCC
9841408 AATGGGCTT
1 AATGGGCTT
9841417 GAGCTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (15 bp):
AATGGGCTTAGGCCC
Found at i:9842624 original size:12 final size:12
Alignment explanation
Indices: 9842607--9842637 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
9842597 ACTCGGGGAA
9842607 GAGGCCGTGGTC
1 GAGGCCGTGGTC
9842619 GAGGCCGTGGTC
1 GAGGCCGTGGTC
9842631 GAGGCCG
1 GAGGCCG
9842638 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:9848113 original size:40 final size:40
Alignment explanation
Indices: 9848063--9848207 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
9848053 CTTGCACAAG
*
9848063 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAGAT
*
9848103 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCAC-GAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAG-AT
* * * * *
9848143 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAGAT
* *
9848184 GCCTTCGGGACTTAGCTCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
9848208 CATTCGAATA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.02
40 58 0.67
41 27 0.31
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAGAT
Found at i:9848198 original size:81 final size:79
Alignment explanation
Indices: 9848027--9848207 Score: 211
Period size: 81 Copynumber: 2.3 Consensus size: 79
9848017 CTCAAGTAAT
* * * * * *
9848027 CTTCGGGATTTAG-CTGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
* *
9848091 ACTAGCACAGATGC
66 ACTAGCACAAAAGC
* * * * *
9848105 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGT
9848170 CACCTAGCACAAAAGC
65 CA-CTAGCACAAAAGC
*
9848186 CTTCGGGACTTAGCTCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
9848208 CATTCGAATA
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
78 11 0.13
79 16 0.19
80 27 0.32
81 31 0.36
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
ACTAGCACAAAAGC
Found at i:9848852 original size:37 final size:38
Alignment explanation
Indices: 9848802--9848890 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
9848792 TGCTTACCTA
9848802 TGGCCGAACATACACAT-AACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
9848839 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
9848877 TGGCCGAACATACA
1 TGGCCGAACATACA
9848891 TGTCTATGTT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 17 0.33
38 34 0.67
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:9856257 original size:78 final size:81
Alignment explanation
Indices: 9856161--9856343 Score: 241
Period size: 78 Copynumber: 2.3 Consensus size: 81
9856151 CTTGCACAAG
*
9856161 GCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCAC-AATGCCTTCGGGA-CTTAG-CCCGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACGAATGCCTTC-GGATCTTAGTCCCGATA
* *
9856222 TAATC-GCTAGCACAAAT
64 TAATCACCTAGCACAAAA
* * *
9856239 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATA
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACGAATGCCTTCGGATCTTAGTCCCGATATA
*
9856304 GTCACCTAGCACAAAA
66 ATCACCTAGCACAAAA
*
9856320 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
9856344 CATTCGAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 35 0.38
79 14 0.15
80 9 0.10
81 33 0.36
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACGAATGCCTTCGGATCTTAGTCCCGATATA
ATCACCTAGCACAAAA
Found at i:9856280 original size:40 final size:38
Alignment explanation
Indices: 9856127--9856343 Score: 208
Period size: 39 Copynumber: 5.6 Consensus size: 38
9856117 CTCAAGTAAT
* * *
9856127 CTTC-GGT-TTAG-CCGGATATAACTACTTGCACAAGGC
1 CTTCGGGTCTTAGCCCGGATATAGC-ACTAGCACAATGC
*
9856163 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAATGC
1 CTTCGGGTCTTAGCCCGGATATAG-CACTAGCACAATGC
* * *
9856202 CTTCGGGACTTAGCCC-GATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCACTAGCAC-AATGC
*
9856241 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGC-ACTAGCAC-AATGC
* * * *
9856281 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAG-CA-CTAGCAC-AATGC
*
9856322 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
9856344 CATTCGAATA
Statistics
Matches: 148, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
36 4 0.03
37 3 0.02
38 17 0.11
39 56 0.38
40 39 0.26
41 29 0.20
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
CTTCGGGTCTTAGCCCGGATATAGCACTAGCACAATGC
Found at i:9856981 original size:38 final size:38
Alignment explanation
Indices: 9856939--9857028 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
9856929 TGCTTACCTA
9856939 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
*
9856977 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATAAACTTATGTACTCATTCATG
9857015 TGGCCGAACATACA
1 TGGCCGAACATACA
9857029 TGTCTATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATAAACTTATGTACTCATTCATG
Found at i:9858990 original size:26 final size:26
Alignment explanation
Indices: 9858961--9859016 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
9858951 GATAAAAAAT
9858961 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9858987 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
9859013 TGAT
1 TGAT
9859017 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:9860530 original size:26 final size:26
Alignment explanation
Indices: 9860501--9860553 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9860491 TTTACAGTTT
9860501 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
9860527 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
9860553 T
1 T
9860554 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:9864644 original size:17 final size:18
Alignment explanation
Indices: 9864610--9864645 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9864600 TGAATTTCTA
9864610 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
9864628 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
9864645 T
1 T
9864646 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:9865533 original size:36 final size:36
Alignment explanation
Indices: 9865492--9865564 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
9865482 TTGTACACAT
9865492 ATATTTTTGTACATTTGTACAATATCAATACCATAC
1 ATATTTTTGTACATTTGTACAATATCAATACCATAC
*
9865528 ATATTTTTGTACATTTGTACAATATCAATTCCATAC
1 ATATTTTTGTACATTTGTACAATATCAATACCATAC
9865564 A
1 A
9865565 ATTGTCATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (36 bp):
ATATTTTTGTACATTTGTACAATATCAATACCATAC
Found at i:9865904 original size:23 final size:24
Alignment explanation
Indices: 9865878--9865936 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
9865868 TTTATTTCCT
9865878 TTAATATAATATCT-TAA-TTTTAA
1 TTAATATAATAT-TATAAGTTTTAA
9865901 TTAATATAAT-TTATAATGTTTTAA
1 TTAATATAATATTATAA-GTTTTAA
9865925 TTAA-ATAATATT
1 TTAATATAATATT
9865937 TTTATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.12
23 15 0.47
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATATAATATTATAAGTTTTAA
Found at i:9873584 original size:24 final size:24
Alignment explanation
Indices: 9873544--9873625 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
9873534 ACTAGAGGCC
9873544 TAAGCCTCTTTTAATAACTGGGGCA
1 TAAGCC-CTTTTAATAACTGGGGCA
* * *
9873569 AAAGCCCTTTTTATAATTGGGGCA
1 TAAGCCCTTTTAATAACTGGGGCA
* *
9873593 TAAG-CCTTATCATAACTGGGGCA
1 TAAGCCCTTTTAATAACTGGGGCA
9873616 TAAGCCCTTT
1 TAAGCCCTTT
9873626 CATGTAAACG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
23 20 0.42
24 23 0.48
25 5 0.10
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (24 bp):
TAAGCCCTTTTAATAACTGGGGCA
Found at i:9873628 original size:23 final size:23
Alignment explanation
Indices: 9873557--9873628 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
9873547 GCCTCTTTTA
* *
9873557 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCC-TTTC
*
9873581 ATAATTGGGGCATAAG-CCTTATC
1 ATAACTGGGGCATAAGCCCTT-TC
9873604 ATAACTGGGGCATAAGCCCTTTC
1 ATAACTGGGGCATAAGCCCTTTC
9873627 AT
1 AT
9873629 GTAAACGGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 2 0.05
23 22 0.52
24 18 0.43
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTC
Found at i:9873861 original size:25 final size:24
Alignment explanation
Indices: 9873833--9874007 Score: 216
Period size: 25 Copynumber: 7.4 Consensus size: 24
9873823 CTAGAGGCCT
*
9873833 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
* *
9873858 AGCCCTTTTTATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
9873882 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
* * *
9873907 AGCCCTTCATCATAACTAGGGCATA
1 AGCCCTT-TTAATAACTGGGGCATA
*
9873932 AGCCC---TCATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
9873953 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
9873976 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
9873999 AGCCCTTTT
1 AGCCCTTTT
9874008 GCACTTCCTC
Statistics
Matches: 136, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
21 20 0.15
23 43 0.32
24 28 0.21
25 45 0.33
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:9873880 original size:287 final size:280
Alignment explanation
Indices: 9873350--9873913 Score: 999
Period size: 287 Copynumber: 2.0 Consensus size: 280
9873340 AAGCCTTTAC
9873350 TGTAAACGGTATGGCCATAGGCCATTTAATATCACATATAATGTCAATGAAAGAATGCAAGCCCA
1 TGTAAACGGTATGGCCATAGGCCATTTAATATCACATATAATGTCAATGAAAGAATGCAAGCCCA
9873415 ATTGGGGAGATACTCAACCCATCATCCGCTACTCTCACCCGTACCAACCAACACACTATGTGGGA
66 ATTGGGGAGATACTCAACCCATCATCCGCTACTCTCACCCGTACCAACCAACACACTATGTGGGA
9873480 TTAACTCGACCCCACCCCATAACACTCCACTGGCAGCAGCTGCTTTATCATATAACTAGAGGCCT
131 TTAACTCGACCCCACCCCATAACACTCCACTGGCAGCAGCTGCTTTATCATATAACTAGAGGCCT
9873545 AAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAATTGGGGCATAAG-CC-TTATCATAA
196 AAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAATTGGGGCATAAGCCCTTTATCATAA
9873608 CTGGGGCATAAGCCCTTTCA
261 CTGGGGCATAAGCCCTTTCA
9873628 TGTAAACGGTATGGCCCATAGGCCCATTTCAATATCACATATAATGTCAATGAAAGAATGCAAGC
1 TGTAAACGGTATGG-CCATAGG-CCATTT-AATATCACATATAATGTCAATGAAAGAATGCAAGC
9873693 CCAATTGGGGAGACTACTCAACCCATCATCCGCTACTCTCCACCCGTACCAACCAACACACTATG
63 CCAATTGGGGAGA-TACTCAACCCATCATCCGCTACTCT-CACCCGTACCAACCAACACACTATG
* *
9873758 TGGGGATTAACTCGACCCACCCCGCCATAACTCTCCACTGGCAGCATAGCTGCTTTATCATATAA
126 T-GGGATTAACTCGACCC-CACC-CCATAACACTCCACTGGCAGC--AGCTGCTTTATCATATAA
9873823 CTAGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAATTGGGGCATAAGCCC
186 CTAGAGGCCTAAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAATTGGGGCATAAGCCC
9873887 TTTATCATAACTGGGGCATAAGCCCTT
251 TTTATCATAACTGGGGCATAAGCCCTT
9873914 CATCATAACT
Statistics
Matches: 272, Mismatches: 2, Indels: 13
0.95 0.01 0.05
Matches are distributed among these distances:
278 14 0.05
279 7 0.03
280 6 0.02
281 48 0.18
282 25 0.09
283 26 0.10
284 16 0.06
285 3 0.01
286 20 0.07
287 51 0.19
288 30 0.11
289 26 0.10
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (280 bp):
TGTAAACGGTATGGCCATAGGCCATTTAATATCACATATAATGTCAATGAAAGAATGCAAGCCCA
ATTGGGGAGATACTCAACCCATCATCCGCTACTCTCACCCGTACCAACCAACACACTATGTGGGA
TTAACTCGACCCCACCCCATAACACTCCACTGGCAGCAGCTGCTTTATCATATAACTAGAGGCCT
AAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAATTGGGGCATAAGCCCTTTATCATAA
CTGGGGCATAAGCCCTTTCA
Found at i:9873969 original size:23 final size:23
Alignment explanation
Indices: 9873840--9874006 Score: 221
Period size: 23 Copynumber: 7.1 Consensus size: 23
9873830 CCTAGCCTCT
*
9873840 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
9873863 TTTTTATAATTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
9873887 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
* *
9873912 TTCATCATAACTAGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
*
9873937 --TCATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9873958 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9873981 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
9874004 TTT
1 TTT
9874007 TGCACTTCCT
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
21 20 0.16
23 49 0.38
24 20 0.16
25 38 0.30
27 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:9874082 original size:20 final size:20
Alignment explanation
Indices: 9874053--9874123 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
9874043 GCATTTACGA
*
9874053 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
9874073 ACATACCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
9874093 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
9874113 ACATATCATGT
1 ACATATCATGT
9874124 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:9875318 original size:26 final size:26
Alignment explanation
Indices: 9875289--9875338 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
9875279 ATTCGTCATT
9875289 TTACCATACAGGGG-TATTACGGTCAC
1 TTACCATACAGGGGCT-TTACGGTCAC
*
9875315 TTACCCTACAGGGGCTTTACGGTC
1 TTACCATACAGGGGCTTTACGGTC
9875339 TTTTTACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (26 bp):
TTACCATACAGGGGCTTTACGGTCAC
Found at i:9875348 original size:26 final size:25
Alignment explanation
Indices: 9875287--9875359 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
9875277 ATATTCGTCA
9875287 TTTTACCATACAGGGGTATTACGGTC
1 TTTTACC-TACAGGGGTATTACGGTC
**
9875313 ACTTACCCTACAGGGGCT-TTACGGTC
1 TTTTA-CCTACAGGGG-TATTACGGTC
*
9875339 TTTTTACCTAATAGGGGTATT
1 -TTTTACCT-ACAGGGGTATT
9875360 TTAGTCATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (25 bp):
TTTTACCTACAGGGGTATTACGGTC
Found at i:9875513 original size:27 final size:27
Alignment explanation
Indices: 9875377--9875678 Score: 197
Period size: 27 Copynumber: 11.3 Consensus size: 27
9875367 TTTCATCCTA
* * * *
9875377 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** ** *
9875404 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
9875431 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* **
9875460 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
9875487 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * *
9875514 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
9875540 CCAGTGGTATTTTGGTAA-TTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* *
9875567 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
9875594 TGAGGGTATTTTTGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
9875620 C--GGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * **
9875644 CTAGGGTATTCTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
9875671 CGAGGGTA
1 CAAGGGTA
9875679 AAACAATAAT
Statistics
Matches: 220, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
24 21 0.10
26 41 0.19
27 130 0.59
28 13 0.06
29 15 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:9875559 original size:110 final size:107
Alignment explanation
Indices: 9875377--9875620 Score: 240
Period size: 110 Copynumber: 2.3 Consensus size: 107
9875367 TTTCATCCTA
* * * ***
9875377 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
* **
9875442 CTATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT
66 CTATAA--TTTACAAA-TCAAGGGTATTT-TGGTAACTTTACAAAT
*** * *
9875487 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
* * * *
9875552 -TGGTAATTTACAAATTAGGGGTATTTTGGTAATTTTACAAAT
66 CT-ATAATTTACAAATCAAGGGTATTTTGGTAACTTTACAAAT
** *
9875594 TGAGGGTATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
9875621 GGGTATTTTA
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
106 1 0.01
107 44 0.40
108 7 0.06
109 1 0.01
110 57 0.52
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (107 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
CTATAATTTACAAATCAAGGGTATTTTGGTAACTTTACAAAT
Found at i:9875583 original size:53 final size:54
Alignment explanation
Indices: 9875483--9875619 Score: 181
Period size: 53 Copynumber: 2.6 Consensus size: 54
9875473 GTAACTTTGT
*
9875483 AAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAC
1 AAATCCAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAC
* *
9875537 AAA-CCAGTGGTATTTTGGTAA-TTTACAAATT-AGGGGTATTTTGGTAATTTTAC
1 AAATCCAG-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCAC
** *
9875590 AAATTGAGGGTATTTTTGTAATTTTACAAA
1 AAATCCAGGGTATTTTGGTAATTTTACAAA
9875620 CGGGTATTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
52 1 0.01
53 46 0.63
54 26 0.36
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
AAATCCAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAC
Found at i:9875732 original size:27 final size:26
Alignment explanation
Indices: 9875702--9875800 Score: 90
Period size: 27 Copynumber: 3.7 Consensus size: 26
9875692 GTAAATTTGG
**
9875702 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTACTTCAGTAATTTTACAA-TCGAA
*
9875729 GGTACTTCAGTAATTTTACAATCGAG
1 GGTACTTCAGTAATTTTACAATCGAA
* * * *
9875755 GGTATTTCAAGTATTTTTACAAACTAA
1 GGTACTTC-AGTAATTTTACAATCGAA
* *
9875782 GCGTATTTCGGTAATTTTA
1 G-GTACTTCAGTAATTTTA
9875801 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 11 0.18
27 42 0.70
28 7 0.12
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (26 bp):
GGTACTTCAGTAATTTTACAATCGAA
Found at i:9878748 original size:25 final size:24
Alignment explanation
Indices: 9878672--9878829 Score: 165
Period size: 25 Copynumber: 6.8 Consensus size: 24
9878662 CTGCTTTATC
* *
9878672 ATATAACTGAGGCCT-AGCCTCTTT
1 ATATAACTGGGGCATAAGCC-CTTT
9878696 -TAATAACTGGGGCA-AAG-CCTTT
1 AT-ATAACTGGGGCATAAGCCCTTT
* *
9878718 TTATAATTGGGGCATAAGCCCTTT
1 ATATAACTGGGGCATAAGCCCTTT
*
9878742 ATCATAACTGGGGCATAAGCCCTTC
1 AT-ATAACTGGGGCATAAGCCCTTT
9878767 ATCATAACTGGGGCATAAGCCC-TT
1 AT-ATAACTGGGGCATAAGCCCTTT
9878791 -TAT-A-TGGGGCATAAG-CCTTT
1 ATATAACTGGGGCATAAGCCCTTT
9878811 A-ATAACTGGGGCATAAGCC
1 ATATAACTGGGGCATAAGCC
9878830 TTTTGCACTT
Statistics
Matches: 116, Mismatches: 7, Indels: 23
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.02
20 15 0.13
21 2 0.02
22 28 0.24
23 8 0.07
24 19 0.16
25 42 0.36
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATATAACTGGGGCATAAGCCCTTT
Found at i:9878902 original size:21 final size:21
Alignment explanation
Indices: 9878873--9878940 Score: 90
Period size: 19 Copynumber: 3.4 Consensus size: 21
9878863 GCATTTACGA
9878873 ATTCATGTGCATATCA-ACAT
1 ATTCATGTGCATATCATACAT
9878893 ATTCAATGTGCATATCATACAT
1 ATTC-ATGTGCATATCATACAT
*
9878915 -GT-ATGTGCATATCATACAT
1 ATTCATGTGCATATCATACAT
9878934 A-TCATGT
1 ATTCATGT
9878941 TTATCAAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
19 18 0.42
20 8 0.19
21 13 0.30
22 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (21 bp):
ATTCATGTGCATATCATACAT
Found at i:9879000 original size:25 final size:25
Alignment explanation
Indices: 9878972--9879020 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9878962 TCATATATAA
* * *
9878972 ACCTAGGGGTATAATGGTCATTTTT
1 ACCTAGGGGCAAAACGGTCATTTTT
9878997 ACCTAGGGGCAAAACGGTCATTTT
1 ACCTAGGGGCAAAACGGTCATTTT
9879021 CATATTATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
ACCTAGGGGCAAAACGGTCATTTTT
Found at i:9879066 original size:24 final size:24
Alignment explanation
Indices: 9879039--9879107 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
9879029 GCATTTACGA
*
9879039 ACATCTCATGTGCATATCATACAT
1 ACATATCATGTGCATATCATACAT
9879063 ACATATCATGTGC--AT-AT-CAT
1 ACATATCATGTGCATATCATACAT
*
9879083 ACATGTCATGTGCATATCATACAT
1 ACATATCATGTGCATATCATACAT
9879107 A
1 A
9879108 TCATGTTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 15 0.38
21 2 0.05
22 4 0.10
23 2 0.05
24 16 0.41
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (24 bp):
ACATATCATGTGCATATCATACAT
Found at i:9879085 original size:20 final size:20
Alignment explanation
Indices: 9879056--9879113 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
9879046 ATGTGCATAT
9879056 CATA-CATACATATCATGTG
1 CATATCATACATATCATGTG
*
9879075 CATATCATACATGTCATGTG
1 CATATCATACATATCATGTG
9879095 CATATCATACATATCATGT
1 CATATCATACATATCATGT
9879114 TATCAAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 4 0.11
20 32 0.89
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
CATATCATACATATCATGTG
Found at i:9879176 original size:176 final size:166
Alignment explanation
Indices: 9878862--9879204 Score: 564
Period size: 176 Copynumber: 2.0 Consensus size: 166
9878852 AAAAACCCAC
9878862 TGCATTTACGAATTCATGTGCATATCAACATATTCAATGTGCATATCATACATGTATGTGCATAT
1 TGCATTTACGAATTCATGTGCATATCAACATATTCAATGTGCATATCATACATGTATGTGCATAT
9878927 CATACATATCATGTTTATCAAATCCATGCATTAGTTCATATATAAACCTAGGGGTATAATGGTCA
66 CATACATATCATGTTTATCAAATCCATGCATTAGTTCATATATAAACCTAGGGGTATAATGGTCA
9878992 TTTTTACCTAGGGGCAAAACGGTCATTTTCATATTA
131 TTTTTACCTAGGGGCAAAACGGTCATTTTCATATTA
9879028 TGCATTTACGAACATCTCATGTGCATATCATACATACATATC-ATGTGCATATCATACATGTCAT
1 TGCATTTACG-A-AT-TCATGTGCATATCA-ACAT--AT-TCAATGTGCATATCATACATGT-AT
9879092 GTGCATATCATACATATCATG-TTATCAAAATCCCATGCATTAAGTTCATATATAAACACTAGGG
58 GTGCATATCATACATATCATGTTTATC-AAAT-CCATGCATT-AGTTCATATATAAAC-CTAGGG
9879156 GTATAATGGTCATTTTTACCTAGGGGCAAAACGGTCATTTTCATATTA
119 GTATAATGGTCATTTTTACCTAGGGGCAAAACGGTCATTTTCATATTA
9879204 T
1 T
9879205 AAGGGTAATT
Statistics
Matches: 165, Mismatches: 0, Indels: 14
0.92 0.00 0.08
Matches are distributed among these distances:
166 10 0.06
167 1 0.01
168 2 0.01
169 14 0.08
170 4 0.02
172 26 0.16
173 29 0.18
174 9 0.05
175 15 0.09
176 55 0.33
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (166 bp):
TGCATTTACGAATTCATGTGCATATCAACATATTCAATGTGCATATCATACATGTATGTGCATAT
CATACATATCATGTTTATCAAATCCATGCATTAGTTCATATATAAACCTAGGGGTATAATGGTCA
TTTTTACCTAGGGGCAAAACGGTCATTTTCATATTA
Found at i:9880504 original size:27 final size:27
Alignment explanation
Indices: 9880471--9880887 Score: 208
Period size: 27 Copynumber: 15.4 Consensus size: 27
9880461 TTGTTAAATC
9880471 TACAAACTAAGGGTATTTCAGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
** * *
9880498 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACTAAGGGTATTTC-AGTAA-TTT
* ** *
9880526 TAGAATGTCAAGGGTATTTCTGTAACTTT
1 TACAAACT-AAGGGTATTTCAGTAA-TTT
* * **
9880555 GTA-AATC-AGGGGTATTTTGGTAATTT
1 -TACAAACTAAGGGTATTTCAGTAATTT
* * *
9880581 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* * **
9880608 CACAAAC-CAGTGGTATTTTGGTAATTT
1 TACAAACTAAG-GGTATTTCAGTAATTT
* **
9880635 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* * *
9880662 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
* * *
9880689 TACAAACCAAGGGTATTTTAGCAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
*
9880716 TACAGACT-AGGGTA-TTCTAGTAATTT
1 TACAAACTAAGGGTATTTC-AGTAATTT
** * ***
9880742 TGTAAA-TCGAGGGTAAAACAGTAATTCT
1 TACAAACT-AAGGGTATTTCAGTAATT-T
* * ** *
9880770 T-TAAATTGGGGGTACTTT-GGTAATTT
1 TACAAACTAAGGGTA-TTTCAGTAATTT
* * *
9880796 TACAAGTCGAA-GGTACTTCAGTAATTT
1 TACAA-ACTAAGGGTATTTCAGTAATTT
* *
9880823 TACAAA-TCGAGGGTATTTCAGTATTTT
1 TACAAACT-AAGGGTATTTCAGTAATTT
* *
9880850 TACAAACTAAGCGTATTTCGGTAATTT
1 TACAAACTAAGGGTATTTCAGTAATTT
*
9880877 TAGTAAACTAA
1 TA-CAAACTAA
9880888 AGTATTCTAA
Statistics
Matches: 296, Mismatches: 71, Indels: 45
0.72 0.17 0.11
Matches are distributed among these distances:
25 5 0.02
26 28 0.09
27 222 0.75
28 20 0.07
29 19 0.06
30 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
TACAAACTAAGGGTATTTCAGTAATTT
Found at i:9880707 original size:54 final size:54
Alignment explanation
Indices: 9880453--9880878 Score: 238
Period size: 54 Copynumber: 7.9 Consensus size: 54
9880443 TCATCCTACA
* * * * ** ***
9880453 AGGGTGTTTTGTTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATTG
* * * ** * * ** *
9880507 ATGGTATTTCT-ATAATTTTTAGAATGTCAAGGGTATTTCTGTAACTTTGTAAA-TC
1 AGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTACAAATTG
* * * * **
9880562 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CC
1 A-GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATTG
* **
9880616 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATTG
* * * * *
9880671 AGGGTATTTCT-GTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACT-
1 AGGGTATTT-TGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATTG
* * ** * *** *
9880724 AGGGTATTCTAGTAATTTTGTAAA-TCGAGGGTAAAACAGTAATTCTT-TAAATTG
1 AGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCAGTAATT-TTACAAATTG
* * * * * *
9880778 GGGGTACTTTGGTAATTTTACAAGTCGAA-GGTACTTCAGTAATTTTACAAATCG
1 AGGGTATTTTGGTAATTTTACAA-ACTAAGGGTATTTCAGTAATTTTACAAATTG
** * * *
9880832 AGGGTATTTCAGTATTTTTACAAACTAAGCGTATTTCGGTAATTTTA
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTA
9880879 GTAAACTAAA
Statistics
Matches: 282, Mismatches: 74, Indels: 32
0.73 0.19 0.08
Matches are distributed among these distances:
52 1 0.00
53 40 0.14
54 187 0.66
55 21 0.07
56 33 0.12
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTACAAATTG
Found at i:9880873 original size:81 final size:80
Alignment explanation
Indices: 9880574--9880878 Score: 285
Period size: 81 Copynumber: 3.8 Consensus size: 80
9880564 GGGTATTTTG
* * * *
9880574 GTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC-CAGTGGTATTTTGGTAATTTTAC
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAG-GGTATTTTGGTAATTTTAC
**
9880638 AA-ACTAGGGGTATTTTG
65 AAGACTA-GGGTA-TTCA
* * * * *
9880655 GTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTAC-
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACA
9880719 AGACTAGGGTATTCTA
66 AGACTAGGGTATTC-A
** *** * * ** *
9880735 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTT-TAAATTGGGGGTACTTTGGTAATTTTAC
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATT-TTACAAACTAAGGGTATTTTGGTAATTTTAC
* * *
9880799 AAGTCGAAGGTACTTCA
65 AAGACTAGGGTA-TTCA
* * *
9880816 GTAATTTTACAAATCGAGGGTATTTCAGTATTTTTACAAACTAAGCGTATTTCGGTAATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTA
9880879 GTAAACTAAA
Statistics
Matches: 179, Mismatches: 38, Indels: 14
0.77 0.16 0.06
Matches are distributed among these distances:
79 2 0.01
80 54 0.30
81 118 0.66
82 5 0.03
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (80 bp):
GTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACA
AGACTAGGGTATTCA
Found at i:9888498 original size:18 final size:18
Alignment explanation
Indices: 9888475--9888540 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
9888465 AAAATGTGAG
*
9888475 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
9888493 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
9888511 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
9888529 AAATGATGTTCA
1 AAATGATGTTCA
9888541 AATTGATGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:9889065 original size:72 final size:71
Alignment explanation
Indices: 9888968--9889306 Score: 378
Period size: 72 Copynumber: 4.7 Consensus size: 71
9888958 AACAATGTTA
* * *
9888968 AACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGACATTAAATTTATGCTCTACTTATTT
1 AACTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTT
9889033 ATTTGT
66 ATTTGT
* * *
9889039 AATCTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATT
1 AA-CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATT
*
9889104 TATGTGT
65 TATTTGT
* * * * *
9889111 AACCTTGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGGTCTACTTATT
1 AA-CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATT
9889176 TATGCTTAG-
65 TAT--TT-GT
* * * * *
9889185 GACTAGTTTTATCAATAATTGATTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTTTTT
1 AACTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTT
* *
9889250 ATACT-A
66 AT-TTGT
* * * * * *
9889256 AATTAGTTTTACCAATAGTTGTTTATATAT-GATTTTGGATATAAAATTTAT
1 AACTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTAT
9889307 TCACAGGTGA
Statistics
Matches: 226, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
70 18 0.08
71 25 0.11
72 124 0.55
73 56 0.25
74 2 0.01
75 1 0.00
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (71 bp):
AACTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTT
ATTTGT
Found at i:9889251 original size:145 final size:144
Alignment explanation
Indices: 9888973--9889251 Score: 391
Period size: 145 Copynumber: 1.9 Consensus size: 144
9888963 TGTTAAACTA
*
9888973 GTTTTATCAATAGTTATTTATGTTTGGTTTTTGGACATTAAATTTATGCTCTACTTATTTATTTG
1 GTTTTATCAATAGTTATTTATGTTTGGTCTTTGGACATTAAATTTATGCTCTACTTATTTATTTG
** * * *
9889038 TAATCTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTAT
66 TAATCTAGTTTTATCAATAACTGATTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTAT
9889103 TTATGTGTAACCTT
131 TTATGTGTAACCTT
* * * * *
9889117 GTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGGTCTACTTATTTATGCT
1 GTTTTATCAATAGTTATTTATGTTTGGTCTTTGGACATTAAATTTATGCTCTACTTATTTAT--T
* *
9889182 TAG-GA-CTAGTTTTATCAATAATTGATTATGTTTGATTTTTGGATATTAAATTTATGTTCTACT
64 T-GTAATCTAGTTTTATCAATAACTGATTATGTTTGATTTTTGGATATTAAATTTATGTTCTACT
*
9889245 TTTTTAT
128 TATTTAT
9889252 ACTAAATTAG
Statistics
Matches: 118, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
144 56 0.47
145 58 0.49
146 3 0.03
147 1 0.01
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.54
Consensus pattern (144 bp):
GTTTTATCAATAGTTATTTATGTTTGGTCTTTGGACATTAAATTTATGCTCTACTTATTTATTTG
TAATCTAGTTTTATCAATAACTGATTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTAT
TTATGTGTAACCTT
Found at i:9892274 original size:26 final size:26
Alignment explanation
Indices: 9892245--9892296 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9892235 AAAATTAATG
9892245 CTAATTAAACTAAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
* *
9892271 CTAATTAAATTGAAATATTGAATGTT
1 CTAATTAAACTAAAATATTGAATGTT
9892297 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
CTAATTAAACTAAAATATTGAATGTT
Found at i:9894825 original size:93 final size:93
Alignment explanation
Indices: 9894666--9894836 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
9894656 GCCCATAAGC
* *
9894666 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAGGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
9894731 CGAGTTCGGATGCGTAGTTACATTTCAT
66 CGAGTTCGGATGCGTAGTTACATTTCAT
* *
9894759 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
9894823 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
9894837 CCAAATATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCGTAGTTACATTTCAT
Found at i:9894833 original size:46 final size:45
Alignment explanation
Indices: 9894658--9894832 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
9894648 TGTAACCCGC
* * *
9894658 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* * * *
9894704 CCATAGGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGCGTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCA--T
* *
9894750 ACATTTCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
9894797 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
9894833 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
44 4 0.04
45 4 0.04
46 62 0.58
47 31 0.29
48 1 0.01
49 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:9897580 original size:46 final size:45
Alignment explanation
Indices: 9897416--9897588 Score: 147
Period size: 46 Copynumber: 3.8 Consensus size: 45
9897406 TGTAACCCGC
* * *
9897416 CCATAAGCGAAATCGGACTCAACTCAATGAGCTCAGGCGA-TCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCA-GC-ATTCGCAT
* * * * *
9897462 CCATAGGTGAACTCGGACTCAACTCAAAGAGTTC-GGATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGCATTCGC-A--T
* *
9897508 ACAATACA-CGAACTCGAACTCAACTCAACGAGTTCAGACATTCGCAT
1 -CCATA-AGCGAACTCGGACTCAACTCAACGAGTTCAG-CATTCGCAT
*
9897555 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
9897589 GGATGCCCAA
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 1 0.01
46 59 0.59
47 29 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGCATTCGCAT
Found at i:9897590 original size:93 final size:93
Alignment explanation
Indices: 9897423--9897595 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
9897413 CGCCCATAAG
* * * *
9897423 CGAAATCGGACTCAACTCAATGAGCTCAGGCGATCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAAATCGAACTCAACTCAACGAGCTCAGACGATCGCATCCATAAGTGAACTCGGACTCAACTCA
9897488 AAGAGTTCGGATGCCTAGTTACAATACA
66 AAGAGTTCGGATGCCTAGTTACAATACA
* *
9897516 CGAACTCGAACTCAACTCAACGAGTTCAGAC-ATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAAATCGAACTCAACTCAACGAGCTCAGACGA-TCGCATCCATAAGTGAACTCGGACTCAACTC
*
9897580 AACGAGTTCGGATGCC
65 AAAGAGTTCGGATGCC
9897596 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAAATCGAACTCAACTCAACGAGCTCAGACGATCGCATCCATAAGTGAACTCGGACTCAACTCA
AAGAGTTCGGATGCCTAGTTACAATACA
Found at i:9899926 original size:26 final size:26
Alignment explanation
Indices: 9899897--9899946 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9899887 AATTAATGCT
9899897 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
9899923 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
9899947 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:9902042 original size:26 final size:26
Alignment explanation
Indices: 9902013--9902062 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9902003 AATTAATGCT
9902013 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
9902039 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
9902063 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:9906280 original size:25 final size:25
Alignment explanation
Indices: 9906221--9906269 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
9906211 AATTAATGCT
*
9906221 AATTAAACTGAAATATTGAATGTTA
1 AATTAAATTGAAATATTGAATGTTA
9906246 AATTAAATTGAAATATTGAATGTT
1 AATTAAATTGAAATATTGAATGTT
9906270 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (25 bp):
AATTAAATTGAAATATTGAATGTTA
Found at i:9908388 original size:25 final size:25
Alignment explanation
Indices: 9908329--9908377 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
9908319 AATTAATGCT
*
9908329 AATTAAACTGAAATATTGAATGTTA
1 AATTAAATTGAAATATTGAATGTTA
9908354 AATTAAATTGAAATATTGAATGTT
1 AATTAAATTGAAATATTGAATGTT
9908378 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (25 bp):
AATTAAATTGAAATATTGAATGTTA
Found at i:9910461 original size:26 final size:26
Alignment explanation
Indices: 9910432--9910481 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9910422 AATTAATGCT
9910432 AATTAAACTGAAATATTGAATGTTAG
1 AATTAAACTGAAATATTGAATGTTAG
*
9910458 AATTAAATTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
9910482 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTAG
Found at i:9912580 original size:26 final size:26
Alignment explanation
Indices: 9912543--9912593 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9912533 AATTAATGCT
9912543 AATTAAACTGAAATATTGAAAGTTAG
1 AATTAAACTGAAATATTGAAAGTTAG
* *
9912569 AATTAAATTGAAATATTGAATGTTA
1 AATTAAACTGAAATATTGAAAGTTA
9912594 TCTTTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAAAGTTAG
Found at i:9913784 original size:26 final size:26
Alignment explanation
Indices: 9913755--9913806 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9913745 AAAATTAATG
9913755 CTAATTAAATTGAAATATTGAATGTT
1 CTAATTAAATTGAAATATTGAATGTT
*
9913781 CTAATTACATTGAAATATTGAATGTT
1 CTAATTAAATTGAAATATTGAATGTT
9913807 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (26 bp):
CTAATTAAATTGAAATATTGAATGTT
Found at i:9915827 original size:27 final size:26
Alignment explanation
Indices: 9915787--9915898 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
9915777 AGCATGGCTG
* *
9915787 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
9915813 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
9915841 CCAGAACAGAAATATGTGGCGGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
9915868 CCAGATCAGTTAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
9915895 CCAG
1 CCAG
9915899 GACGCTTCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:9915894 original size:54 final size:54
Alignment explanation
Indices: 9915787--9915898 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
9915777 AGCATGGCTG
* * *
9915787 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * * *
9915841 CCAGAACAGAAATATGTGGCGGAGCCACCAGAT-CAGTTAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
9915895 CCAG
1 CCAG
9915899 GACGCTTCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:9918467 original size:26 final size:25
Alignment explanation
Indices: 9918429--9918512 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
9918419 TGATACAAAT
*
9918429 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
9918455 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATG-GTTAGGTAAATGTTTCA
9918481 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
9918507 TGATAA
1 TGATAA
9918513 GAATTTCATG
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
25 1 0.02
26 53 0.96
27 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:9920026 original size:26 final size:26
Alignment explanation
Indices: 9919997--9920049 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9919987 TTTACAGTTT
*
9919997 TACCCCTAGGAGATAAATT-ACTTAAA
1 TACCCCTAGG-GATAAATTGACCTAAA
*
9920023 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCTAAA
9920049 T
1 T
9920050 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCTAAA
Found at i:9922292 original size:26 final size:26
Alignment explanation
Indices: 9922263--9922312 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
9922253 AATTAATGCT
9922263 AATTAAACTAAAATATTGAATGTTAG
1 AATTAAACTAAAATATTGAATGTTAG
*
9922289 AATTAAATTAAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
9922313 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTAG
Found at i:9922358 original size:453 final size:451
Alignment explanation
Indices: 9921514--9922405 Score: 1421
Period size: 453 Copynumber: 2.0 Consensus size: 451
9921504 CAACTTCAAA
* *
9921514 AAATTAGAAAAATAGGATGGCACGCATAACGAATATGTGTGCCTGTCATACACGTGTACTATATC
1 AAATTAGAAAAATAGGATGGCACGCATAACGAATATGTGTGCCTGTCATACAAGTGTACTATAGC
* *
9921579 CCATATTGCTTTTTCCATATGTTTTTTCTCCATATTACGGTCCAAGTGTTTGTTTGGAGTGGACG
66 CCAAATTGCTTTTTCCATATGTTTTTTCTCCATATTACCGTCCAAGTGTTTGTTTGGAGTGGACG
*
9921644 TAATAGTTCAATCCTAATTTCAACGTAGAAACACATGTACGACATAATCATCTTTATTGAACCTT
131 TAATAGTTCAATCCTAATTTCAACGCAGAAACACATGTACGACATAATCATCTTTATTGAACCTT
* * * *
9921709 AGTTAAGTGATCCGTTTATTTCCATTTAAGAATTATAAAGGGAAGTATAAATGTGTGTCTTTTAA
196 AGTTAAGTGATCCCTTTAATGCCATTTAAGAATTATAAAGGGAAGTATAAATGTGTGTCTTTGAA
* ** * **
9921774 TTAATATTTAGATTTGTAGCAACTAAAAGTAATGCTAATTAAACTGAAATATTGAACGTTCTAAA
261 TTAACATACAGATTTGTAGCAACTAAAAGTAATGCTAATTAAACTAAAATATTGAACGTTAGAAA
* * *
9921839 TAAATTGAAATATTGAATGTTTTCTTTTATTGTAACGTATTCTATTCTAAAGTGGTTATAACACT
326 TAAATTAAAATATTGAATGTTTTCTTTTATTGTAACGTATTCTAGTCTAAAGCGGTTATAACACT
* *
9921904 TCCTATAAATGCTAGTTTTTTCC-CTTGCAAATCTCGTTCGAAATTAATTGTACGAACTAAG
391 TCCTATAAATGCCAGTTTTTTCCTC-TGAAAATCTCGTTCGAAATTAATTGTACGAACTAAG
*
9921965 AAATTAGAAAAATAGGATGGCACGCATAACGAATATGTGTGCCTGTCATGCAAGTGTACTATAGC
1 AAATTAGAAAAATAGGATGGCACGCATAACGAATATGTGTGCCTGTCATACAAGTGTACTATAGC
* *
9922030 CCAAATTGCTTTTTCCATATGTTTTTTCTCCATATTACCGTCTAGGTGTTTGTTTGGAGTGGACG
66 CCAAATTGCTTTTTCCATATGTTTTTTCTCCATATTACCGTCCAAGTGTTTGTTTGGAGTGGACG
* * *
9922095 TAATAGTTCAATCCTAGTTTCAACGCAGAAAAACACATGTACGACATACTGATCTTTATTGAACC
131 TAATAGTTCAATCCTAATTTCAACGCAG--AAACACATGTACGACATAATCATCTTTATTGAACC
*
9922160 TTATTTAAGTGATCCCTTTAATGCCATTTAAGAATTATAAAGGGAAGTATAAATGTGTGTCTTTG
194 TTAGTTAAGTGATCCCTTTAATGCCATTTAAGAATTATAAAGGGAAGTATAAATGTGTGTCTTTG
* *
9922225 AATTAACATACAGATTTGTAAG-AA-TAAAAATTAATGCTAATTAAACTAAAATATTGAATGTTA
259 AATTAACATACAGATTTGT-AGCAACT-AAAAGTAATGCTAATTAAACTAAAATATTGAACGTTA
* * *
9922288 GAATTAAATTAAAATATTGAATGTTTTCTTTTATTGTAACGTATTCTAGTCTAATGCGGTTATCA
322 GAAATAAATTAAAATATTGAATGTTTTCTTTTATTGTAACGTATTCTAGTCTAAAGCGGTTATAA
*
9922353 CACTTCCTATAAATGCCAGTTTTTTCCTCTGAAAATCTCGTTCGGAATTAATT
387 CACTTCCTATAAATGCCAGTTTTTTCCTCTGAAAATCTCGTTCGAAATTAATT
9922406 TTACAAACCA
Statistics
Matches: 403, Mismatches: 33, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
451 149 0.37
452 1 0.00
453 250 0.62
454 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (451 bp):
AAATTAGAAAAATAGGATGGCACGCATAACGAATATGTGTGCCTGTCATACAAGTGTACTATAGC
CCAAATTGCTTTTTCCATATGTTTTTTCTCCATATTACCGTCCAAGTGTTTGTTTGGAGTGGACG
TAATAGTTCAATCCTAATTTCAACGCAGAAACACATGTACGACATAATCATCTTTATTGAACCTT
AGTTAAGTGATCCCTTTAATGCCATTTAAGAATTATAAAGGGAAGTATAAATGTGTGTCTTTGAA
TTAACATACAGATTTGTAGCAACTAAAAGTAATGCTAATTAAACTAAAATATTGAACGTTAGAAA
TAAATTAAAATATTGAATGTTTTCTTTTATTGTAACGTATTCTAGTCTAAAGCGGTTATAACACT
TCCTATAAATGCCAGTTTTTTCCTCTGAAAATCTCGTTCGAAATTAATTGTACGAACTAAG
Found at i:9925984 original size:283 final size:281
Alignment explanation
Indices: 9925468--9926038 Score: 919
Period size: 283 Copynumber: 2.0 Consensus size: 281
9925458 AACTTGATTT
* * ** *
9925468 CCTTATTCTTCTTCCTTTAAATTACTTGTTTTTATCAAGATCGAGAATGAAACTCCAAATATGTT
1 CCTTATTCTTCTTCCTTTAAATCACTTGTTTTTATAAAGATAAAGAATGAAACTCCAAATATGTG
* * *
9925533 AGCGACGTACGTGCACATTCTCCTTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCTATT
66 AGCGACGTACGTCCACATCCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCTATT
*
9925598 CATTATTTGGGCAATACCTACTAGAGTTATAAAAATGTAACGTCATTTGTTGTTTCCAATTTCAC
131 CATTATTTGGGCAATACCTACGAGAGTTATAAAAATGTAACGTCATTTGTTGTTTCCAATTTCAC
* *
9925663 TCTCTAAGAGAATTTTTCATTTTCCAAGATCTATTACTTATTCCACAAAAAGCTTCCATTCATAT
196 TCTCTAAGAGAATTTTTCATTTTCCAAGATCCATTACTTATTCCACAAAAAGCTTCCACTCATAT
*
9925728 TTTAGTAAAATTAGGCCAGAA
261 TTAAGTAAAATTAGGCCAGAA
*
9925749 CGCTTATTCTTCTTCCTTTGAATCACTTGTTTTTATAAAGATAAAGAATGAAACTCCAAATATGT
1 C-CTTATTCTTCTTCCTTTAAATCACTTGTTTTTATAAAGATAAAGAATGAAACTCCAAATATGT
* * *
9925814 CGA-CGATGTACGTCCCACATCCTCCCTGTTAAAAAAGGTTCAATTTATATAAAAATCAAATCCT
65 -GAGCGACGTACGT-CCACATCCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCT
*
9925878 ATTCATTATTTGGTCAATACCTACGAGAGTTATAAAAATGTAACGTCATTTGTTGTTTCCAATTT
128 ATTCATTATTTGGGCAATACCTACGAGAGTTATAAAAATGTAACGTCATTTGTTGTTTCCAATTT
* **
9925943 CACTCTCTAAGAGAATTTTTCATTTTCCAAGTTCCATTACTTATTCCATTAAAAGCTTCCACTCA
193 CACTCTCTAAGAGAATTTTTCATTTTCCAAGATCCATTACTTATTCCACAAAAAGCTTCCACTCA
*
9926008 TATTTAAGTAAAATTTGGCCAGAA
258 TATTTAAGTAAAATTAGGCCAGAA
9926032 CCTTATT
1 CCTTATT
9926039 TAAGTGATAC
Statistics
Matches: 266, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
281 1 0.00
282 73 0.27
283 192 0.72
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (281 bp):
CCTTATTCTTCTTCCTTTAAATCACTTGTTTTTATAAAGATAAAGAATGAAACTCCAAATATGTG
AGCGACGTACGTCCACATCCTCCCTATTAAAAAAGGTTCAATTTATATAAAAACCAAATCCTATT
CATTATTTGGGCAATACCTACGAGAGTTATAAAAATGTAACGTCATTTGTTGTTTCCAATTTCAC
TCTCTAAGAGAATTTTTCATTTTCCAAGATCCATTACTTATTCCACAAAAAGCTTCCACTCATAT
TTAAGTAAAATTAGGCCAGAA
Found at i:9926167 original size:26 final size:26
Alignment explanation
Indices: 9926136--9926186 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9926126 AAATTAATGT
9926136 TAATTAAACTAAAATATTCAATGTTC
1 TAATTAAACTAAAATATTCAATGTTC
* * *
9926162 TAATTAAATTGAAATATTGAATGTT
1 TAATTAAACTAAAATATTCAATGTT
9926187 TTATTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (26 bp):
TAATTAAACTAAAATATTCAATGTTC
Found at i:9929094 original size:27 final size:26
Alignment explanation
Indices: 9929046--9929096 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
9929036 AAATAGTACA
9929046 TATTATTTTTTTATTATCTATTATAT
1 TATTATTTTTTTATTATCTATTATAT
* *
9929072 TATTATATTTTTTATTTTTTATTAT
1 TATTAT-TTTTTTATTATCTATTAT
9929097 TATATCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (26 bp):
TATTATTTTTTTATTATCTATTATAT
Found at i:9929214 original size:15 final size:16
Alignment explanation
Indices: 9929179--9929226 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
9929169 TAAAAAGTAC
* *
9929179 TTATTATATTATTATTA
1 TTATTATATCA-TATTT
*
9929196 TTATTTTA-CATATTT
1 TTATTATATCATATTT
9929211 TTATTATATCATATTT
1 TTATTATATCATATTT
9929227 CATTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 11 0.42
16 8 0.31
17 7 0.27
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATATCATATTT
Found at i:9929234 original size:26 final size:24
Alignment explanation
Indices: 9929134--9929249 Score: 91
Period size: 23 Copynumber: 4.9 Consensus size: 24
9929124 CTATGTGGTG
*
9929134 TATATTTTTATTATATATA-TTAC
1 TATATTTTTATTATATATATTTAT
* * *
9929157 TATATTTTTATATAAAAAGTACTTAT
1 TATATTTTTAT-TATATA-TATTTAT
*
9929183 TATATTATTATTAT-TAT-TTTA-
1 TATATTTTTATTATATATATTTAT
*
9929204 CATATTTTTATTATATCATATTTCAT
1 TATATTTTTATTATAT-ATATTT-AT
*
9929230 TATA-TTTTATT-TATGTATTT
1 TATATTTTTATTATATATATTT
9929250 TTACCACATA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
21 12 0.16
22 4 0.05
23 19 0.26
24 11 0.15
25 12 0.16
26 16 0.22
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TATATTTTTATTATATATATTTAT
Found at i:9929315 original size:5 final size:5
Alignment explanation
Indices: 9929300--9929396 Score: 58
Period size: 5 Copynumber: 19.0 Consensus size: 5
9929290 TATATCTTTC
* *
9929300 TTATA -TATA TTATA TTATA -TAGA TTTTA TTATA -TATA TTTATA TTATTTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TTATA TTA--TA
* * * *
9929350 TTATA TGAT- TTATA TTACTA TATATT TTATT TGTAAA TTATA TTATA
1 TTATA TTATA TTATA TTA-TA T-TATA TTATA T-TATA TTATA TTATA
9929397 CACTTTATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
4 14 0.19
5 39 0.54
6 12 0.17
7 7 0.10
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:9929319 original size:14 final size:14
Alignment explanation
Indices: 9929300--9929366 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
9929290 TATATCTTTC
9929300 TTATATATATTATA
1 TTATATATATTATA
* *
9929314 TTATATAGATTTTA
1 TTATATATATTATA
9929328 TTATATATATTTATA
1 TTATATATA-TTATA
9929343 TTAT-T-TATTATA
1 TTATATATATTATA
* *
9929355 TGATTTATATTA
1 TTATATATATTA
9929367 CTATATATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.18
13 3 0.07
14 26 0.58
15 8 0.18
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (14 bp):
TTATATATATTATA
Found at i:9929381 original size:21 final size:21
Alignment explanation
Indices: 9929303--9929381 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
9929293 ATCTTTCTTA
* *
9929303 TATATATTATATTATATAGAT
1 TATATATTATATTATTTATAT
9929324 T-T-TATTATATATATTTATAT
1 TATATATTATAT-TATTTATAT
* *
9929344 TATTTATTATATGATTTATAT
1 TATATATTATATTATTTATAT
*
9929365 TACTATA-TATTTTATTT
1 TA-TATATTATATTATTT
9929382 GTAAATTATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 8 0.17
20 9 0.19
21 20 0.42
22 11 0.23
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
TATATATTATATTATTTATAT
Found at i:9933463 original size:15 final size:15
Alignment explanation
Indices: 9933434--9933476 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
9933424 CTTTTTGTAT
9933434 TCATGCATTTGCATC
1 TCATGCATTTGCATC
9933449 TCATAGCATTT-CATC
1 TCAT-GCATTTGCATC
*
9933464 GCAT-CATTTGCAT
1 TCATGCATTTGCAT
9933477 TCAAAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 3 0.12
15 11 0.44
16 6 0.24
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.40
Consensus pattern (15 bp):
TCATGCATTTGCATC
Found at i:9941541 original size:88 final size:86
Alignment explanation
Indices: 9941430--9941908 Score: 250
Period size: 88 Copynumber: 5.5 Consensus size: 86
9941420 AAAACAAAGT
* *
9941430 AGATCTGACTTTCAGATGTTTTCACATCAATGCAGATCCAAGATAACAGATTTGGCATCTCCATT
1 AGATCTAACCTTCAGATG-TTTCACATCAA-GCAGATCCAAGATAACAGATTTGGCATCTCCATT
*
9941495 TCGATGGAGAGCAGATACATAGC
64 TCGAAGGAGAGCAGATACATAGC
* * * ***
9941518 AGATCTAACCTTCAGATGATTTCAC-TGAAGTAGATCCAAGAT----GATTTGGTATTCTTGTGT
1 AGATCTAACCTTCAGATG-TTTCACATCAAGCAGATCCAAGATAACAGATTTGGCA-TC-TCCAT
* * * *
9941578 TTAC-AAGGAACAAATCAAAGACATAGC
63 TT-CGAAGG---AGAGCAGATACATAGC
* * * * *
9941605 AGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATT
1 AGATCTAACCTTCAGATGTT-TCACATC-AAGCAGATCCAAGATAACAGATTTGGCATCTCCATT
* * *
9941670 TCGACGGAGAGTAGATACATAGT
64 TCGAAGGAGAGCAGATACATAGC
* * * ***
9941693 AGATCTAACCTTCAGATGTTT-ATACTGAAGTAGATCCAAGAT----GATTTGGCATTCTTGTGT
1 AGATCTAACCTTCAGATGTTTCACA-TCAAGCAGATCCAAGATAACAGATTTGGCA-TC-TCCAT
* * * * *
9941753 TTAC-AACGAACAAATCAAAGACATAGC
63 TT-CGAA-G--GAGAGCAGATACATAGC
* * * ** * * * * *
9941780 AGATTTGACTTTTGGATGTTCTCACACCAAAACAGATCCAAGATAAGAGATCTAGCATCTCCATT
1 AGATCTAACCTTCAGATGTT-TCACATC-AAGCAGATCCAAGATAACAGATTTGGCATCTCCATT
*
9941845 TCGACGGAGAGCAGATACATAGC
64 TCGAAGGAGAGCAGATACATAGC
* *
9941868 -GTATCTAACCTTCAGATGATTT-AC-TGAAGCAGATCCGAGAT
1 AG-ATCTAACCTTCAGATG-TTTCACATCAAGCAGATCCAAGAT
9941909 GATTTGGCAT
Statistics
Matches: 279, Mismatches: 81, Indels: 65
0.66 0.19 0.15
Matches are distributed among these distances:
82 16 0.06
83 4 0.01
84 12 0.04
85 16 0.06
86 30 0.11
87 63 0.23
88 74 0.27
89 31 0.11
90 3 0.01
91 12 0.04
92 4 0.01
93 14 0.05
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (86 bp):
AGATCTAACCTTCAGATGTTTCACATCAAGCAGATCCAAGATAACAGATTTGGCATCTCCATTTC
GAAGGAGAGCAGATACATAGC
Found at i:9941619 original size:87 final size:87
Alignment explanation
Indices: 9941511--9941783 Score: 254
Period size: 87 Copynumber: 3.1 Consensus size: 87
9941501 GAGAGCAGAT
*
9941511 ACATAGCAGATCTAACCTTCAGATGATTT-CACTGAAGTAGATCCAAGATGATTTGGTATTCTTG
1 ACATAGCAGATCTAACCTTCAGATG-TTTACACTGAAGTAGATCCAAGATGATTTGGCATTCTTG
9941575 TGTTTACAAGGAACAAATCAAAG
65 TGTTTACAAGGAACAAATCAAAG
* * * ** * *
9941598 ACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCA-
1 ACATAGCAGATCTAACCTTCAGATGTT-T-ACACTGAAGTAGATCCAAGAT----GATTTGGCAT
*** * * * * *
9941662 TC-TCCATTT-CGACGG-A-GAGT-AGAT
60 TCTTGTGTTTAC-AAGGAACAAATCAAAG
* *
9941686 ACATAGTAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGTAGATCCAAGATGATTTGGCATTCTTGT
*
9941751 GTTTACAACGAACAAATCAAAG
66 GTTTACAAGGAACAAATCAAAG
9941773 ACATAGCAGAT
1 ACATAGCAGAT
9941784 TTGACTTTTG
Statistics
Matches: 137, Mismatches: 35, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
82 8 0.06
83 2 0.01
84 6 0.04
85 2 0.01
86 21 0.15
87 36 0.26
88 25 0.18
89 19 0.14
90 2 0.01
91 7 0.05
92 2 0.01
93 7 0.05
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (87 bp):
ACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGTAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAACAAATCAAAG
Found at i:9941663 original size:175 final size:174
Alignment explanation
Indices: 9941372--9941967 Score: 854
Period size: 175 Copynumber: 3.4 Consensus size: 174
9941362 TACAGGTTAT
* * * * * * *
9941372 GTAGATCAAATATAATTTGGCATTCTTGTGTTTACAAGGAACAAACTGAAA-ACAAAGTAGATCT
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAA-TCAAAGACATAGCAGATTT
* * * * *
9941436 GACTTTCAGATGTTTTCACATCAATGCAGATCCAAGATAACAGATTTGGCATCTCCATTTCGATG
65 GACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACG
9941501 GAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAA
130 GAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT-ACTGAA
*
9941547 GTAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCAAAGACATAGCAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAAGACATAGCAGATTTG
9941612 ACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGG
66 ACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGG
* * *
9941677 AGAGTAGATACATAGTAGATCTAACCTTCAGATGTTTATACTGAA
131 AGAGCAGATACATAGCAGATCTAACCTTCAGATGATT-TACTGAA
*
9941722 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAACGAACAAATCAAAGACATAGCAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAAGACATAGCAGATTTG
** * * *
9941787 ACTTTTGGATGTTCTCACACCAAAACAGATCCAAGATAAGAGATCTAGCATCTCCATTTCGACGG
66 ACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGG
9941852 AGAGCAGATACATAGC-GTATCTAACCTTCAGATGATTTACTGAA
131 AGAGCAGATACATAGCAG-ATCTAACCTTCAGATGATTTACTGAA
* * * * * * * * *
9941896 GCAGATCCGAGATGATTTGGCATCCTTGTGTTCATAAGGAGCAAATCGAAGACACAACAGATTTG
1 GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAAGACATAGCAGATTTG
*
9941961 GCTTTCA
66 ACTTTCA
9941968 CGTGTTTACG
Statistics
Matches: 379, Mismatches: 39, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
174 71 0.19
175 307 0.81
176 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (174 bp):
GTAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCAAAGACATAGCAGATTTG
ACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGG
AGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTACTGAA
Found at i:9943125 original size:11 final size:12
Alignment explanation
Indices: 9943097--9943129 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
9943087 TTAGTTTTTT
*
9943097 TTTTAAAACTGG
1 TTTTAAAACTGA
9943109 TTTTAAAA-TGA
1 TTTTAAAACTGA
9943120 TTTTAAAACT
1 TTTTAAAACT
9943130 CAGAATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (12 bp):
TTTTAAAACTGA
Found at i:9943655 original size:22 final size:22
Alignment explanation
Indices: 9943610--9943664 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
9943600 TTATTATCTA
* *
9943610 TTTTATTATTATATTTTTTATG
1 TTTTATTATTATATCTATTATG
*
9943632 TTTTATTATTATATCTATTCTG
1 TTTTATTATTATATCTATTATG
*
9943654 TTATATATATT
1 TTTTAT-TATT
9943665 TTACTATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTATTATTATATCTATTATG
Found at i:9943771 original size:3 final size:3
Alignment explanation
Indices: 9943724--9943754 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9943714 AAAAAAGTAC
9943724 TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9943755 TTACATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9943873 original size:14 final size:14
Alignment explanation
Indices: 9943854--9943952 Score: 93
Period size: 14 Copynumber: 7.4 Consensus size: 14
9943844 TATATCTTTC
9943854 TTATATATATTATA
1 TTATATATATTATA
* *
9943868 TTATATAGATTTTA
1 TTATATATATTATA
9943882 TTATATATATT-T-
1 TTATATATATTATA
9943894 TTATAT-TATT-TA
1 TTATATATATTATA
9943906 TTATATGAT-TTATA
1 TTATAT-ATATTATA
*
9943920 TTACTATATATTTTA
1 TTA-TATATATTATA
* *
9943935 TT-TGTAAATTATA
1 TTATATATATTATA
9943948 TTATA
1 TTATA
9943953 CACTTTATTT
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
11 5 0.07
12 12 0.17
13 13 0.19
14 31 0.44
15 9 0.13
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (14 bp):
TTATATATATTATA
Found at i:9943874 original size:12 final size:12
Alignment explanation
Indices: 9943857--9943952 Score: 55
Period size: 11 Copynumber: 8.3 Consensus size: 12
9943847 ATCTTTCTTA
9943857 TATATATTATAT
1 TATATATTATAT
*
9943869 TATATAGATTTTAT
1 TATAT--ATTATAT
9943883 TATATA-TAT-T
1 TATATATTATAT
*
9943893 TTTATATTAT-T
1 TATATATTATAT
9943904 TAT-TA-TATGAT
1 TATATATTAT-AT
9943915 T-TATATTACTA-
1 TATATATTA-TAT
*
9943926 TATATTTTAT-T
1 TATATATTATAT
* *
9943937 TGTAAATTATAT
1 TATATATTATAT
9943949 TATA
1 TATA
9943953 CACTTTATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 22
0.67 0.09 0.23
Matches are distributed among these distances:
9 3 0.05
10 9 0.14
11 21 0.33
12 19 0.30
13 1 0.02
14 11 0.17
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (12 bp):
TATATATTATAT
Found at i:9943897 original size:15 final size:15
Alignment explanation
Indices: 9943724--9943897 Score: 63
Period size: 14 Copynumber: 12.3 Consensus size: 15
9943714 AAAAAAGTAC
*
9943724 TTATTAT-TATATTA
1 TTATTATATATATTT
*
9943738 TTA-T-TAT-TATTA
1 TTATTATATATATTT
* *
9943750 TTATTTTACATATTT
1 TTATTATATATATTT
9943765 TTATTATATCATA---
1 TTATTATAT-ATATTT
*
9943778 TT-TCAT-TATA-TT
1 TTATTATATATATTT
*
9943790 TTATT-TATGTATTT
1 TTATTATATATATTT
** *
9943804 TTACCACATACTATATT
1 TTATTATATA-TAT-TT
* *
9943821 TTATTATCTATTATTCC
1 TTATTATATA-TATT-T
*
9943838 TTA-TA-ATATATCT
1 TTATTATATATATTT
*
9943851 TTCTTATATATA-TT
1 TTATTATATATATTT
* *
9943865 ATATTATATAGA-TT
1 TTATTATATATATTT
9943879 TTATTATATATATTT
1 TTATTATATATATTT
9943894 TTAT
1 TTAT
9943898 ATTATTTATT
Statistics
Matches: 116, Mismatches: 27, Indels: 33
0.66 0.15 0.19
Matches are distributed among these distances:
10 3 0.03
11 1 0.01
12 15 0.13
13 11 0.09
14 37 0.32
15 26 0.22
16 9 0.08
17 14 0.12
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (15 bp):
TTATTATATATATTT
Found at i:9943898 original size:24 final size:26
Alignment explanation
Indices: 9943857--9943952 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 26
9943847 ATCTTTCTTA
9943857 TATATATTATATTATATAGAT-TTTAT
1 TATATATTATATTATATA-ATATTTAT
* *
9943883 TATATA-TAT-TTTTATATTATTTAT
1 TATATATTATATTATATAATATTTAT
9943907 TATATGATTTATATTACTAT-ATATTTTATT
1 TATAT-A-TTATATTA-TATAATA-TTTA-T
* *
9943937 TGTAAATTATATTATA
1 TATATATTATATTATA
9943953 CACTTTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
23 1 0.02
24 16 0.29
25 4 0.07
26 6 0.11
27 5 0.09
28 12 0.21
29 8 0.14
30 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (26 bp):
TATATATTATATTATATAATATTTAT
Found at i:9943900 original size:8 final size:9
Alignment explanation
Indices: 9943854--9943922 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
9943844 TATATCTTTC
*
9943854 TTATATATA
1 TTATTTATA
9943863 TTATATTATA
1 TTAT-TTATA
*
9943873 TAGATTT-TA
1 T-TATTTATA
*
9943882 TTATATATA
1 TTATTTATA
9943891 TT-TTTATA
1 TTATTTATA
9943899 TTATTTATTA
1 TTATTTA-TA
9943909 TATGATTTATA
1 T-T-ATTTATA
9943920 TTA
1 TTA
9943923 CTATATATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 10 0.21
9 16 0.33
10 11 0.23
11 6 0.12
12 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TTATTTATA
Found at i:9943906 original size:21 final size:21
Alignment explanation
Indices: 9943854--9943930 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
9943844 TATATCTTTC
9943854 TTATATATATTATATTATATAGAT
1 TTATAT-TATTATA-TATAT-GAT
9943878 TT-TATTA-TATATAT-T--T
1 TTATATTATTATATATATGAT
9943894 TTATATTATT-TATTATATGAT
1 TTATATTATTATA-TATATGAT
*
9943915 TTATATTACTATATAT
1 TTATATTATTATATAT
9943931 TTTATTTGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 17
0.71 0.02 0.27
Matches are distributed among these distances:
16 3 0.07
17 7 0.16
18 4 0.09
19 2 0.04
20 3 0.07
21 17 0.38
22 4 0.09
23 3 0.07
24 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (21 bp):
TTATATTATTATATATATGAT
Found at i:9943934 original size:29 final size:28
Alignment explanation
Indices: 9943725--9943952 Score: 119
Period size: 28 Copynumber: 8.2 Consensus size: 28
9943715 AAAAAGTACT
9943725 TATTAT-TATATTATTATTAT-TATTATTA
1 TATTATATATATT-TTATTATATA-TATTA
* *
9943753 TTTTACATAT-TTTTATTATATCATATT-
1 TATTATATATATTTTATTATAT-ATATTA
*
9943780 TCATTATAT-TTTATTTATGTAT-T-T-TTA
1 T-ATTATATATAT-TTTAT-TATATATATTA
* * *
9943807 CCA-CATACTATATTTTATTATCTATTATT-
1 -TATTATA-TATATTTTATTATATA-TATTA
** *
9943836 CCTTATAATATATCTTTCTTATATATATTA
1 TATTAT-ATATAT-TTTATTATATATATTA
*
9943866 TATTATATAGATTTTATTATATATATT-
1 TATTATATATATTTTATTATATATATTA
9943893 T-TTATAT-TA-TTTATTATATGAT-TTA
1 TATTATATATATTTTATTATAT-ATATTA
* *
9943918 TATTACTATATATTTTATT-TGTAAATTA
1 TATTA-TATATATTTTATTATATATATTA
9943946 TATTATA
1 TATTATA
9943953 CACTTTATTT
Statistics
Matches: 156, Mismatches: 18, Indels: 53
0.69 0.08 0.23
Matches are distributed among these distances:
24 12 0.08
25 4 0.03
26 17 0.11
27 25 0.16
28 46 0.29
29 33 0.21
30 19 0.12
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (28 bp):
TATTATATATATTTTATTATATATATTA
Found at i:9945945 original size:26 final size:26
Alignment explanation
Indices: 9945915--9945966 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
9945905 AAAATTAATG
9945915 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
9945941 CTAATTAAACTGAAATATTGAATGTT
1 CTAATTAAACTGAAATATTGAATGTT
9945967 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
CTAATTAAACTGAAATATTGAATGTT
Found at i:9947179 original size:14 final size:14
Alignment explanation
Indices: 9947160--9947187 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9947150 ATCGAGAATA
9947160 AAACTCCAAATATG
1 AAACTCCAAATATG
9947174 AAACTCCAAATATG
1 AAACTCCAAATATG
9947188 TCAGCGAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AAACTCCAAATATG
Found at i:9947395 original size:24 final size:25
Alignment explanation
Indices: 9947350--9947396 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
9947340 ATTTTCCAAG
*
9947350 TTCAATTACTTATTCCACTAAAAGC
1 TTCAATTACATATTCCACTAAAAGC
* *
9947375 TTCAATT-CATATTTCAGTAAAA
1 TTCAATTACATATTCCACTAAAA
9947397 TTGGGCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (25 bp):
TTCAATTACATATTCCACTAAAAGC
Found at i:9948550 original size:20 final size:20
Alignment explanation
Indices: 9948527--9948600 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
9948517 TATGGCATAG
* *
9948527 AGCCATGAGTAGCGGCACGA
1 AGCCATCAGTAGCGGCACAA
* *
9948547 AGCCATCAGTAGCAGCATAA
1 AGCCATCAGTAGCGGCACAA
* *
9948567 AGCCATCAATAGTGGCACAA
1 AGCCATCAGTAGCGGCACAA
*
9948587 AGCCATCAATAGCG
1 AGCCATCAGTAGCG
9948601 CAGCAGTGCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (20 bp):
AGCCATCAGTAGCGGCACAA
Found at i:9948584 original size:40 final size:40
Alignment explanation
Indices: 9948521--9948599 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
9948511 TCAATATATG
* * * * *
9948521 GCATAGAGCCATGAGTAGCGGCACGAAGCCATCAGTAGCA
1 GCATAAAGCCATCAATAGCGGCACAAAGCCATCAATAGCA
*
9948561 GCATAAAGCCATCAATAGTGGCACAAAGCCATCAATAGC
1 GCATAAAGCCATCAATAGCGGCACAAAGCCATCAATAGC
9948600 GCAGCAGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.24, T:0.14
Consensus pattern (40 bp):
GCATAAAGCCATCAATAGCGGCACAAAGCCATCAATAGCA
Found at i:9952005 original size:39 final size:40
Alignment explanation
Indices: 9951951--9952088 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
9951941 AAACCAAGTA
* *
9951951 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
9951990 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
9952030 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
9952070 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
9952089 TTACCATCCG
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 15 0.16
40 77 0.84
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:9959976 original size:39 final size:40
Alignment explanation
Indices: 9959922--9960153 Score: 227
Period size: 40 Copynumber: 5.5 Consensus size: 40
9959912 AAACCAAGTA
* * *
9959922 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
9959961 CCTTCGGGACTTAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
9960001 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
9960041 CCTTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCG-------G-----GA--CTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
9960095 CCTTCGAGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
9960135 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
9960154 TTACCATCCG
Statistics
Matches: 165, Mismatches: 11, Indels: 33
0.79 0.05 0.16
Matches are distributed among these distances:
39 15 0.09
40 110 0.67
42 1 0.01
47 1 0.01
52 1 0.01
54 37 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:9960049 original size:14 final size:14
Alignment explanation
Indices: 9960030--9960060 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9960020 ATATAGTAAC
9960030 TCGCACAAATGCCT
1 TCGCACAAATGCCT
9960044 TCGCACAAATGCCT
1 TCGCACAAATGCCT
9960058 TCG
1 TCG
9960061 GGACTTAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (14 bp):
TCGCACAAATGCCT
Found at i:9960072 original size:54 final size:54
Alignment explanation
Indices: 9959990--9960100 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
9959980 ATATAGTAAC
9959990 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
9960044 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
1 TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
9960098 TCG
1 TCG
9960101 AGACTTAGCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (54 bp):
TCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
Found at i:9960130 original size:94 final size:94
Alignment explanation
Indices: 9959955--9960140 Score: 320
Period size: 94 Copynumber: 2.0 Consensus size: 94
9959945 GCTACTCACT
* *
9959955 CAAATGCCTTCGGGACTTAGCCCGTATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
*
9960020 ATATAGTAACTCGCACAAATGCCTTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGCA
9960049 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
*
9960114 A-ATTAGTCACTAGCACAAATGCCTTCG
66 ATA-TAGTAACTAGCACAAATGCCTTCG
9960141 GGACTTAGCC
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.01
94 86 0.99
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (94 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
ATATAGTAACTAGCACAAATGCCTTCGCA
Found at i:9965024 original size:21 final size:21
Alignment explanation
Indices: 9965000--9965041 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9964990 AATCCCCACA
* *
9965000 TGGTGTGTTGGTTGGTTTGGG
1 TGGTATGTTGGTTGGATTGGG
9965021 TGGTATGTTGGTTGGATTGGG
1 TGGTATGTTGGTTGGATTGGG
9965042 ATAGGTTGCA
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:0.05, C:0.00, G:0.50, T:0.45
Consensus pattern (21 bp):
TGGTATGTTGGTTGGATTGGG
Found at i:9970002 original size:18 final size:18
Alignment explanation
Indices: 9969980--9970044 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
9969970 CCGGCACTCT
*
9969980 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATGCA
* *
9969998 GTAACAGT-AATTTATTCA
1 ATAACAGTCAA-TTATGCA
* *
9970016 ATAACAGTCAATTATTCC
1 ATAACAGTCAATTATGCA
*
9970034 ATAGCAGTCAA
1 ATAACAGTCAA
9970045 CCTTTAATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.03
18 36 0.92
19 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (18 bp):
ATAACAGTCAATTATGCA
Found at i:9978119 original size:31 final size:31
Alignment explanation
Indices: 9978081--9978144 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
9978071 CCTTTTCATA
9978081 TTTCATATTTCACAACACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
* **
9978112 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
9978143 TT
1 TT
9978145 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCACAACACTGGGCCGAAGCCT
Found at i:9978409 original size:24 final size:24
Alignment explanation
Indices: 9978338--9978409 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
9978328 GCTTTATCAT
* *
9978338 ATAACTGGAGGCCTAA-CCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
9978363 ATAAATGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
9978387 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
9978410 TCACTTCCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 31 0.77
25 9 0.22
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:9978484 original size:20 final size:20
Alignment explanation
Indices: 9978459--9978525 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
9978449 TTATGATTAC
*
9978459 ATCATGTGCATATCAAACAT
1 ATCATGTGCATATCATACAT
*
9978479 ATCATGTGCACATCATACAT
1 ATCATGTGCATATCATACAT
*
9978499 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
9978519 ACCATGT
1 ATCATGT
9978526 TTATCAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:9978540 original size:17 final size:18
Alignment explanation
Indices: 9978509--9978542 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9978499 GTCATGTGCA
9978509 TATCATACATACCATGTT
1 TATCATACATACCATGTT
*
9978527 TATCA-ACATCCCATGT
1 TATCATACATACCATGT
9978543 ATTAAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (18 bp):
TATCATACATACCATGTT
Found at i:9986175 original size:31 final size:31
Alignment explanation
Indices: 9986137--9986200 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
9986127 CCTTTTCATA
9986137 TTTCATATTTCACAACACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
* **
9986168 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
9986199 TT
1 TT
9986201 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCACAACACTGGGCCGAAGCCT
Done.