Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 54
Found at i:9824716 original size:13 final size:13
Alignment explanation
Indices: 9824698--9824722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9824688 GTTCGAACCG
9824698 AATTTTTAATTTA
1 AATTTTTAATTTA
9824711 AATTTTTAATTT
1 AATTTTTAATTT
9824723 TCGCATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTTTAATTTA
Found at i:9827254 original size:19 final size:21
Alignment explanation
Indices: 9827220--9827261 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
9827210 CGTGGCATAT
9827220 TTTTTAATATTAAAAAATAAA
1 TTTTTAATATTAAAAAATAAA
*
9827241 TTTTTAA-A-TAAAAAATGAA
1 TTTTTAATATTAAAAAATAAA
9827260 TT
1 TT
9827262 AAAATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 1 0.05
21 7 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTTTAATATTAAAAAATAAA
Found at i:9828926 original size:19 final size:18
Alignment explanation
Indices: 9828874--9828926 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
9828864 CCATTAAAAC
*
9828874 ATTTTTTCAT-TTTAATTT
1 ATTTTTT-ATATTAAATTT
9828892 ATTTTTTATATGTAAATTT
1 ATTTTTTATAT-TAAATTT
9828911 ATTTTTTAATATTAAA
1 ATTTTTT-ATATTAAA
9828927 AAATATGACA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 2 0.06
18 8 0.26
19 17 0.55
20 4 0.13
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTTTATATTAAATTT
Found at i:9829910 original size:3 final size:3
Alignment explanation
Indices: 9829890--9829948 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
9829880 ATTGTTGATT
* *
9829890 TTA TTA ATA TTAA TTA TTA TTA TTA TT- TAA TTA TTA TTA TT- TCTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
9829935 TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TT
9829949 TTGTATTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 2 0.04
3 40 0.87
4 4 0.09
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9829918 original size:26 final size:26
Alignment explanation
Indices: 9829887--9829943 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
9829877 GATATTGTTG
*
9829887 ATTTTATTAATATTAATTAT-TATTATT
1 ATTTAATTAATATT-ATT-TCTATTATT
*
9829914 ATTTAATTATTATTATTTCTATTATT
1 ATTTAATTAATATTATTTCTATTATT
9829940 ATTT
1 ATTT
9829944 TTATTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 14 0.52
27 12 0.44
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTAATTAATATTATTTCTATTATT
Found at i:9830301 original size:18 final size:18
Alignment explanation
Indices: 9830278--9830320 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
9830268 ATATAACAAC
9830278 AAGCCACGCCGATCGTCG
1 AAGCCACGCCGATCGTCG
9830296 AAGCCACGCCGATCGTCG
1 AAGCCACGCCGATCGTCG
9830314 AAGCCAC
1 AAGCCAC
9830321 CAATCCAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.26, C:0.40, G:0.26, T:0.09
Consensus pattern (18 bp):
AAGCCACGCCGATCGTCG
Found at i:9831645 original size:24 final size:25
Alignment explanation
Indices: 9831618--9831666 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
9831608 GTCCTATTTG
*
9831618 CATTTTG-TTTTATTTTAATTTTTT
1 CATTTTGCTTTTATGTTAATTTTTT
*
9831642 CATTTTGCTTTTATGTTATTTTTTT
1 CATTTTGCTTTTATGTTAATTTTTT
9831667 ATTCGCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.73
Consensus pattern (25 bp):
CATTTTGCTTTTATGTTAATTTTTT
Found at i:9832360 original size:131 final size:131
Alignment explanation
Indices: 9832146--9832891 Score: 1018
Period size: 131 Copynumber: 5.7 Consensus size: 131
9832136 TAATATATTC
* * *
9832146 TCATTTC-AGTTGGAGTAATAAATGACTGCTTTAAGGCATGAGATGTCATTTATTCTCGATTGGA
1 TCATTTCGA-TTGGAGTAATAAATGACTTCTTTAAGACATGAGAGGTCATTTATTCTCGATTGGA
* * *
9832210 AACAATTAGATATTATCGTTTTCTCTCGAACCAATAATGATATTTAAGACAAAATGGTGATATCT
65 AATAATTAGATATTATCGTTTTCTCTCGAACCAATATTGATATTTAAGACGAAATGGTGATATCT
9832275 CT
130 CT
* * * *
9832277 TCATTTCGGTTGGAGTAATAAACGACTTCTTTAATG-CATGAGAGGTCATTTATTATCGATTGAA
1 TCATTTCGATTGGAGTAATAAATGACTTCTTTAA-GACATGAGAGGTCATTTATTCTCGATTGGA
* * *
9832341 AATAATTAGATATTATCGTTTTCTCTCGAACCAATATTAATTTTTAAGACGAAATGGTGATATAT
65 AATAATTAGATATTATCGTTTTCTCTCGAACCAATATTGATATTTAAGACGAAATGGTGATATCT
9832406 CT
130 CT
* *
9832408 TCATTTCGATTGGAGTAATAAATGA-TTGCTTTAAGACATGATAGGTCATTTATTCTCGATTAGA
1 TCATTTCGATTGGAGTAATAAATGACTT-CTTTAAGACATGAGAGGTCATTTATTCTCGATTGGA
** * * * * * *
9832472 AATAATTAGATATTATTTTTTTCTCTTGAATCAATATTGA-ATTTTAGGATGAAATAGTAATATC
65 AATAATTAGATATTATCGTTTTCTCTCGAACCAATATTGATA-TTTAAGACGAAATGGTGATATC
*
9832536 TTT
129 TCT
* * *
9832539 TCATTTCGGTTGGAGTAATAAATAACTTCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAA
1 TCATTTCGATTGGAGTAATAAATGACTTCTTTAAGACATGAGAGGTCATTTATTCTCGATTGGAA
* * * *
9832604 ATCATTAGATATTATCGTTTTCTCTTGAACCAATATTGATTTTTAAGACAAAATGGTGATATCTC
66 ATAATTAGATATTATCGTTTTCTCTCGAACCAATATTGATATTTAAGACGAAATGGTGATATCTC
9832669 T
131 T
9832670 TCATTTCGATTGGAGTAATAAATGA-TTGCTTTAAGACATGAGAGGTCATTTATTCTCGATTGGA
1 TCATTTCGATTGGAGTAATAAATGACTT-CTTTAAGACATGAGAGGTCATTTATTCTCGATTGGA
* * * * *
9832734 AATAATTAGATATTATTGTTTTCTCTCGAATCAATATT-AAATTTTAAGACGAAATAGTGATGTC
65 AATAATTAGATATTATCGTTTTCTCTCGAACCAATATTGATA-TTTAAGACGAAATGGTGATATC
9832798 TCT
129 TCT
* * * * *
9832801 TCATTTCGATTGGAATAATAAATGACTGCTTTAAGTCATAAGAGGTCATTTATTCTTGATTGGAA
1 TCATTTCGATTGGAGTAATAAATGACTTCTTTAAGACATGAGAGGTCATTTATTCTCGATTGGAA
*
9832866 ATAATTAGATATTATCGCTTTCTCTC
66 ATAATTAGATATTATCGTTTTCTCTC
9832892 TTAAAATTCA
Statistics
Matches: 540, Mismatches: 65, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
130 6 0.01
131 530 0.98
132 4 0.01
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (131 bp):
TCATTTCGATTGGAGTAATAAATGACTTCTTTAAGACATGAGAGGTCATTTATTCTCGATTGGAA
ATAATTAGATATTATCGTTTTCTCTCGAACCAATATTGATATTTAAGACGAAATGGTGATATCTC
T
Found at i:9832613 original size:262 final size:262
Alignment explanation
Indices: 9832121--9832891 Score: 1143
Period size: 262 Copynumber: 2.9 Consensus size: 262
9832111 AATATTGAAC
* * * * *
9832121 TTTAGGACAAAATAGTAATATAT-TCTCATTTC-AGTTGGAGTAATAAATGACTGCTTTAAGGCA
1 TTTAAGACAAAATGGTGATATATCT-TCATTTCGA-TTGGAGTAATAAATGATTGCTTTAAGACA
* * * * *
9832184 TGAGATGTCATTTATTCTCGATTGGAAACAATTAGATATTATCGTTTTCTCTCGAACCAATAATG
64 TGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATTGTTTTCTCTCGAATCAATATTG
* * * *
9832249 -ATATTTAAGACAAAATGGTGATATCTCTTCATTTCGGTTGGAGTAATAAACGACTTCTTTAATG
129 AAT-TTTAAGACGAAATAGTGATATCTCTTCATTTCGGTTGGAGTAATAAATGACTTCTTTAAGG
* *
9832313 CATGAGAGGTCATTTATTATCGATTGAAAATAATTAGATATTATCGTTTTCTCTCGAACCAATAT
193 CATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAACCAATAT
9832378 TAATT
258 TAATT
*
9832383 TTTAAGACGAAATGGTGATATATCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGACATG
1 TTTAAGACAAAATGGTGATATATCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGACATG
* * * *
9832448 ATAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATTTTTTTCTCTTGAATCAATATTGAA
66 AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATTGTTTTCTCTCGAATCAATATTGAA
* * * * *
9832513 TTTTAGGATGAAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATAACTTCTTTAAGGCAT
131 TTTTAAGACGAAATAGTGATATCTCTTCATTTCGGTTGGAGTAATAAATGACTTCTTTAAGGCAT
* * *
9832578 GAGAGGTCATTTATTCTCGATTGGAAATCATTAGATATTATCGTTTTCTCTTGAACCAATATTGA
196 GAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAACCAATATTAA
9832643 TT
261 TT
*
9832645 TTTAAGACAAAATGGTGATATCTCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGACATG
1 TTTAAGACAAAATGGTGATATATCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGACATG
*
9832710 AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATTGTTTTCTCTCGAATCAATATTAAA
66 AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATTGTTTTCTCTCGAATCAATATTGAA
* * * * *
9832775 TTTTAAGACGAAATAGTGATGTCTCTTCATTTCGATTGGAATAATAAATGACTGCTTTAAGTCAT
131 TTTTAAGACGAAATAGTGATATCTCTTCATTTCGGTTGGAGTAATAAATGACTTCTTTAAGGCAT
* * *
9832840 AAGAGGTCATTTATTCTTGATTGGAAATAATTAGATATTATCGCTTTCTCTC
196 GAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTC
9832892 TTAAAATTCA
Statistics
Matches: 455, Mismatches: 51, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
262 451 0.99
263 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (262 bp):
TTTAAGACAAAATGGTGATATATCTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGACATG
AGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATTGTTTTCTCTCGAATCAATATTGAA
TTTTAAGACGAAATAGTGATATCTCTTCATTTCGGTTGGAGTAATAAATGACTTCTTTAAGGCAT
GAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAACCAATATTAA
TT
Found at i:9832833 original size:393 final size:393
Alignment explanation
Indices: 9832103--9832880 Score: 1238
Period size: 393 Copynumber: 2.0 Consensus size: 393
9832093 ATAAGTAACA
*
9832103 CTTGAATTAATATTGAACTTTAGGACAAAATAGTAATATATTCTCATTTCAGTTGGAGTAATAAA
1 CTTGAATCAATATTGAACTTTAGGACAAAATAGTAATATATTCTCATTTCAGTTGGAGTAATAAA
* *
9832168 TGACTGCTTTAAGGCATGAGATGTCATTTATTCTCGATTGGAAACAATTAGATATTATCGTTTTC
66 TAACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAACAATTAGATATTATCGTTTTC
*
9832233 TCTCGAACCAATAATGATATTTAAGACAAAATGGTGATATCTCTTCATTTCGGTTGGAGTAATAA
131 TCTCGAACCAATAATGATATTTAAGACAAAATGGTGATATCTCTTCATTTCGATTGGAGTAATAA
9832298 ACGACTTCTTTAATGCATGAGAGGTCATTTATTATCGATTGAAAATAATTAGATATTATCGTTTT
196 ACGACTTCTTTAATGCATGAGAGGTCATTTATTATCGATTGAAAATAATTAGATATTATCGTTTT
* * *
9832363 CTCTCGAACCAATATTAATTTTTAAGACGAAATGGTGATATATCTTCATTTCGATTGGAGTAATA
261 CTCTCGAACCAATATTAAATTTTAAGACGAAATAGTGATATATCTTCATTTCGATTGGAATAATA
* * *
9832428 AATGATTGCTTTAAGACATGATAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATTTTTT
326 AATGACTGCTTTAAGACATAAGAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATTTTTT
9832493 TCT
391 TCT
* ** * * *
9832496 CTTGAATCAATATTGAATTTTAGGATGAAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAA
1 CTTGAATCAATATTGAACTTTAGGACAAAATAGTAATATATTCTCATTTCAGTTGGAGTAATAAA
*
9832561 TAACTTCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATC-ATTAGATATTATCGTTTT
66 TAACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAA-CAATTAGATATTATCGTTTT
* * *
9832625 CTCTTGAACCAATATTGATTTTTAAGACAAAATGGTGATATCTCTTCATTTCGATTGGAGTAATA
130 CTCTCGAACCAATAATGATATTTAAGACAAAATGGTGATATCTCTTCATTTCGATTGGAGTAATA
* * * *
9832690 AATGA-TTGCTTTAA-GACATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATTGT
195 AACGACTT-CTTTAATG-CATGAGAGGTCATTTATTATCGATTGAAAATAATTAGATATTATCGT
* * *
9832753 TTTCTCTCGAATCAATATTAAATTTTAAGACGAAATAGTGATGTCTCTTCATTTCGATTGGAATA
258 TTTCTCTCGAACCAATATTAAATTTTAAGACGAAATAGTGATATATCTTCATTTCGATTGGAATA
* * *
9832818 ATAAATGACTGCTTTAAGTCATAAGAGGTCATTTATTCTTGATTGGAAATAATTAGATATTAT
323 ATAAATGACTGCTTTAAGACATAAGAGGTCATTTATTCTCGATTAGAAATAATTAGATATTAT
9832881 CGCTTTCTCT
Statistics
Matches: 352, Mismatches: 30, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
392 3 0.01
393 348 0.99
394 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (393 bp):
CTTGAATCAATATTGAACTTTAGGACAAAATAGTAATATATTCTCATTTCAGTTGGAGTAATAAA
TAACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAACAATTAGATATTATCGTTTTC
TCTCGAACCAATAATGATATTTAAGACAAAATGGTGATATCTCTTCATTTCGATTGGAGTAATAA
ACGACTTCTTTAATGCATGAGAGGTCATTTATTATCGATTGAAAATAATTAGATATTATCGTTTT
CTCTCGAACCAATATTAAATTTTAAGACGAAATAGTGATATATCTTCATTTCGATTGGAATAATA
AATGACTGCTTTAAGACATAAGAGGTCATTTATTCTCGATTAGAAATAATTAGATATTATTTTTT
TCT
Found at i:9840629 original size:14 final size:14
Alignment explanation
Indices: 9840610--9840639 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9840600 CAACCACCGT
9840610 CTGGTAAGCGTCCA
1 CTGGTAAGCGTCCA
9840624 CTGGTAAGCGTCCA
1 CTGGTAAGCGTCCA
9840638 CT
1 CT
9840640 AGCCCTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.30, G:0.27, T:0.23
Consensus pattern (14 bp):
CTGGTAAGCGTCCA
Found at i:9841708 original size:29 final size:29
Alignment explanation
Indices: 9841620--9841685 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
9841610 AGTACTTTAT
* *
9841620 TTTATAAA-AAGTTTTACACTTTATTATAA
1 TTTATAAACAA-TTTTGCACTTCATTATAA
9841649 TTTATAAACAATTTTGCACTTCATTATAA
1 TTTATAAACAATTTTGCACTTCATTATAA
9841678 TTTATAAA
1 TTTATAAA
9841686 ACCTTTTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTATAAACAATTTTGCACTTCATTATAA
Found at i:9850641 original size:126 final size:125
Alignment explanation
Indices: 9850355--9850642 Score: 459
Period size: 125 Copynumber: 2.3 Consensus size: 125
9850345 AAGTTGTTAT
* * * *
9850355 ATGTTGGGGCACGACTGAACCCACATCACGTTGAGATGACAAGATTTAGACCAAGGAGGCATTAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATAAAAAGATTTAGACCAAGGAGGCATGAA
* * *
9850420 GAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTTGAAGGCCCGTACTAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGTGGGGGAATTTTGAAGGCCCATACTAGTATAAGATA
* *
9850480 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATAAAAATATTTAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATAAAAAGATTTAGACCAAGGAGGCATGAA
* *
9850545 GAATGATCCTTACAATTTGAGGTGATGGGGGAATTTTGAAGGCCCATACTGGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTG-TGGGGGAATTTTGAAGGCCCATACTAGTATAAGATA
*
9850606 ATGTTGGGGCACGACTGAACCCACATCATATTGAGAT
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGAT
9850643 GGCAGGATAG
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 82 0.55
126 67 0.45
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (125 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATAAAAAGATTTAGACCAAGGAGGCATGAA
GAATGAGCCTTACAATTTGAGGTGTGGGGGAATTTTGAAGGCCCATACTAGTATAAGATA
Found at i:9850657 original size:126 final size:125
Alignment explanation
Indices: 9850355--9850677 Score: 477
Period size: 126 Copynumber: 2.6 Consensus size: 125
9850345 AAGTTGTTAT
*
9850355 ATGTTGGGGCACGACTGAACCCACATCACGTTGAGATGACAAGATTTAGACCAAGGAGGCATTAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTTAGACCAAGGAGGCATTAA
* * *
9850420 GAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTTGAAGGCCCGTACTAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGTGGGGGAATTTTGAAGGCCCATACTAGTATAAGATA
* * * * *
9850480 ATGTTGGGGCATGACTGAACCCACATCATGTTGAGATAAAAATATTTAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTTAGACCAAGGAGGCATTAA
* *
9850545 GAATGATCCTTACAATTTGAGGTGATGGGGGAATTTTGAAGGCCCATACTGGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTG-TGGGGGAATTTTGAAGGCCCATACTAGTATAAGATA
* * * **
9850606 ATGTTGGGGCACGACTGAACCCACATCATATTGAGATGGCAGGATAGAGACCAA-GATGGCATTA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTTAGACCAAGGA-GGCATTA
9850670 AGAATGAG
65 AGAATGAG
9850678 TCTCGCAACT
Statistics
Matches: 174, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
125 84 0.48
126 90 0.52
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (125 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTTAGACCAAGGAGGCATTAA
GAATGAGCCTTACAATTTGAGGTGTGGGGGAATTTTGAAGGCCCATACTAGTATAAGATA
Found at i:9851848 original size:216 final size:216
Alignment explanation
Indices: 9851475--9853374 Score: 2710
Period size: 216 Copynumber: 8.9 Consensus size: 216
9851465 GTGGAGCAAT
* * *
9851475 CATCCATAAAACCTTTGGGTAGGATGTCTTCAAATGAATTTGAAAATG-AAAAAATGATGTTATA
1 CATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTA
* * * *
9851539 AGAAGATGGAATTTTTGAAAACGAAGAATTCGATTTTCAAAATTTCATAATTTATAAGTCTTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* * * * *
9851604 TGTCATGAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTTATCTGTAA-CTCTTTAGAG
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGC-CTTTAGAG
*
9851668 -AAGGATGATGAGTCCTTCGGGC
195 CAA-GATGATAAGTCCTTCGGGC
* * * * *
9851690 CATCCATAAGACCTTCGGG-ACAGATGTTTTCAAATGAATTTGGAAATGAAAAAAATGATGTTTT
1 CATCCATAAAACCTTTGGGTA-GGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTT
* * * *
9851754 AAGAAGATGAAATTTTTGGAAACGAATAATGCGATTTTCAAAATTTTACAATTTGTAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
* *
9851819 AGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTTGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
**
9851884 CAAGATGATAAGTCCTTTAGGC
195 CAAGATGATAAGTCCTTCGGGC
*
9851906 CATCCATAAAA-CTTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATAATGTTTT
1 CATCCATAAAACCTTT-GGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTT
*
9851970 AAGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
* * *
9852035 AGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGTCTTTAGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
9852100 CAAGATGATAAGTCCTTCGGGC
195 CAAGATGATAAGTCCTTCGGGC
* * * *
9852122 CATTCATAAGACCTTTGGG-ACGGATGTTTTCAAATGAATTTGGAAATGAAAAAAAATGATGTTT
1 CATCCATAAAACCTTTGGGTA-GGATGTTTTCACATGAATTTGAAAATG-AAAAAAATGATGTTT
* *
9852186 TAAGAAGATGAAATTTTTGGAAACGAATAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTT
64 TAAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTT
* * * *
9852251 CGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTTGA
129 CGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
9852316 GCAAGATGATAAGTCCTTCGGGC
194 GCAAGATGATAAGTCCTTCGGGC
* *
9852339 CATCCATAAAACTTTTGGGTAGGATGTTTTCACATGAATTTGAAAATG-AAAAAATAATGTTTTA
1 CATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTA
*
9852403 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* ** *
9852468 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATTTTTCGGGTCATCTGT-AGGCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
9852532 AAGATGATAAGTCCTTCGGGC
196 AAGATGATAAGTCCTTCGGGC
* * *
9852553 CATCCATAAAACCTTTTGGGTAAGAAGTTTTCACATGAATTTGAAAATGAAAAAAATGGTGTTTT
1 CATCCATAAAACC-TTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTT
* * * *
9852618 AAGAAGATGGATTTTTTGAAAACGAAGAATGCGATTTTCACAATTTCAAAATTTATAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
* *
9852683 GGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTATAAGCCTTTAGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
9852748 CAAGATGATAAGTCCTTCGGGC
195 CAAGATGATAAGTCCTTCGGGC
* *
9852770 CATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATGAAAAAAATGATG--TT-
1 CATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTA
* * * *
9852832 ----G--G-AATTTTTGAAGACGAAGAATGCGATTTTCAAAATTTCACAATGTATAAGTCCCTCA
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* **
9852890 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCAAGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
*
9852955 AAGATGATAAGTCCTTCAGGC
196 AAGATGATAAGTCCTTCGGGC
* * * *
9852976 TATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG-AAAAAATGATG--TT-
1 CATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTA
* * * * *
9853037 ----G--GAAA-TTTTGAAGACGAAGAAAGCGATTTTCAAATTTTCACAATGTATAAGTCCCTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* * *
9853095 GGCCATCAGTAAATCTTTCGAGCATGATGTTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
9853160 AAGATGATAAGTCCTTCGGGC
196 AAGATGATAAGTCCTTCGGGC
*
9853181 CATCCATAAGACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAACA--ATGTTTT
1 CATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAA-ATGATGTTTT
* * * *
9853244 GAGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTTAAAATTTCACAATTTATAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTC
** * * *
9853309 GGGCCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATTTGTAAGTCTTTCGAG
130 GGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAG
9853374 C
195 C
9853375 GCAATGATTA
Statistics
Matches: 1534, Mismatches: 125, Indels: 52
0.90 0.07 0.03
Matches are distributed among these distances:
205 196 0.13
206 184 0.12
207 4 0.00
209 1 0.00
212 1 0.00
214 50 0.03
215 303 0.20
216 541 0.35
217 253 0.16
218 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (216 bp):
CATCCATAAAACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
GGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
AAGATGATAAGTCCTTCGGGC
Found at i:9852354 original size:41 final size:42
Alignment explanation
Indices: 9852241--9852355 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 42
9852231 TTCACAATTT
* *
9852241 ATAAGTCCTTCGGGTCAT-CAGTAAGTCTTTTGAGCATGATGC
1 ATAAGTCCTTCGGGTCATCCA-TAAGACTTTTGAGCAAGATGC
* * * ** *
9852283 TTAAATCCTTCAGGTCATCTGTAAGCCTTTTGAGCAAGATG-
1 ATAAGTCCTTCGGGTCATCCATAAGACTTTTGAGCAAGATGC
* *
9852324 ATAAGTCCTTCGGGCCATCCATAAAACTTTTG
1 ATAAGTCCTTCGGGTCATCCATAAGACTTTTG
9852356 GGTAGGATGT
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
41 24 0.42
42 33 0.58
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (42 bp):
ATAAGTCCTTCGGGTCATCCATAAGACTTTTGAGCAAGATGC
Found at i:9852749 original size:42 final size:40
Alignment explanation
Indices: 9852672--9852778 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 40
9852662 TTCAAAATTT
* * * *
9852672 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCA-TAAGCCTTTAGAGCAAGATG
* *
9852713 TTTAAATCCTTCGGGTCATCTATAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATC-ATAAGCCTTTAGAGCAAGATG
*
9852755 ATAAGTCCTTCGGGCCATCCATAA
1 ATAAATCCTTCGGGCCAT-CATAA
9852779 AACCTTCGGG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 19 0.35
42 34 0.63
43 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (40 bp):
ATAAATCCTTCGGGCCATCATAAGCCTTTAGAGCAAGATG
Found at i:9852984 original size:206 final size:206
Alignment explanation
Indices: 9852409--9853374 Score: 1353
Period size: 205 Copynumber: 4.6 Consensus size: 206
9852399 TTTAAGAAGA
9852409 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCAT
** *
9852474 CAGTAAGTCTTTCGAGCATGATGTTTAAATTTTTCGGGTCATCTGT-AGGCTTTAGAGCAAGATG
66 CAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* * *
9852538 ATAAGTCCTTCGGGCCATCCATAAAACCTTTTGGGTAAGAAGTTTTCACATGAATTTGAAAATGA
131 ATAAGTCCTTCGGGCCATCCATAAAACC-TTCGGGTAGGATGTTTTCACATGAATTTGAAAATGA
*
9852603 AAAAAATGGTGTTT
195 AAAAAATGATG--T
* *
9852617 TAAGAAGATGGATTTTTTGAAAACGAAGAATGCGATTTTCACAATTTCAAAATTTATAAGTCCTT
1 T--G--GA---A-TTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTT
*
9852682 CGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTATAAGCCTTTAGA
58 CGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
9852747 GCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTG
123 GCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTG
*
9852812 AGAATGAAAAAAATGATGT
188 AAAATGAAAAAAATGATGT
* * * *
9852831 TGGAATTTTTGAAGACGAAGAATGCGATTTTCAAAATTTCACAATGTATAAGTCCCTCAGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCAT
**
9852896 CAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCAAGTCATCTGTAAGCCTTTAGAGCAAGATG
66 CAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* * * *
9852961 ATAAGTCCTTCAGGCTATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAGAATG-A
131 ATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAA
9853025 AAAAATGATGT
196 AAAAATGATGT
* * * * * *
9853036 TGGAAATTTTGAAGACGAAGAAAGCGATTTTCAAATTTTCACAATGTATAAGTCCCTCGGGCCAT
1 TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCAT
* *
9853101 CAGTAAATCTTTCGAGCATGATGTTTAAATCCTTCGAGTCATCTGTAAGCCTTTAGAGCAAGATG
66 CAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
* *
9853166 ATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAATGAA
131 ATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATG-A
*
9853231 AAAACAATG-TTT
195 AAAA-AATGATGT
* * *
9853243 TGAGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTTAAAATTTCACAATTTATAAGTCCTT
1 T-----G--G-AATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTT
** * * * *
9853308 CGGGCCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATTTGTAAGTCTTTCGA
58 CGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGA
9853373 GC
123 GC
9853375 GCAATGATTA
Statistics
Matches: 687, Mismatches: 51, Indels: 33
0.89 0.07 0.04
Matches are distributed among these distances:
205 195 0.28
206 176 0.26
207 8 0.01
208 5 0.01
210 3 0.00
212 4 0.01
214 3 0.00
215 105 0.15
216 143 0.21
217 45 0.07
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (206 bp):
TGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCAT
CAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
ATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAATGAA
AAAAATGATGT
Found at i:9853196 original size:42 final size:43
Alignment explanation
Indices: 9853079--9853196 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 43
9853069 AATTTTCACA
* * * *
9853079 ATGTATAAGTCCCTCGGGCCAT-CAGTAA-ATCTTTCGAGCATG
1 ATGTATAAGTCCTTCGGGCCATCCA-TAAGACCTTTAGAGCAAG
* * * * **
9853121 ATGTTTAAATCCTTCGAGTCATCTGTAAG-CCTTTAGAGCAAG
1 ATGTATAAGTCCTTCGGGCCATCCATAAGACCTTTAGAGCAAG
9853163 ATG-ATAAGTCCTTCGGGCCATCCATAAGACCTTT
1 ATGTATAAGTCCTTCGGGCCATCCATAAGACCTTT
9853197 GGGTAGGATG
Statistics
Matches: 57, Mismatches: 16, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
41 19 0.33
42 38 0.67
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
ATGTATAAGTCCTTCGGGCCATCCATAAGACCTTTAGAGCAAG
Found at i:9858766 original size:18 final size:19
Alignment explanation
Indices: 9858743--9858797 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
9858733 ACTTCGCCTG
*
9858743 AAGAAATAAAAATGAA-AA
1 AAGAAATAAAAATAAAGAA
*
9858761 AAGAAAGAAAAATAAAGAA
1 AAGAAATAAAAATAAAGAA
*
9858780 AACAAATGAAAAAATAAA
1 AAGAAAT--AAAAATAAA
9858798 AATAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 14 0.47
19 7 0.23
21 9 0.30
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (19 bp):
AAGAAATAAAAATAAAGAA
Found at i:9858788 original size:31 final size:32
Alignment explanation
Indices: 9858743--9858807 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
9858733 ACTTCGCCTG
9858743 AAGAAATAAAAATGAAAAAAGAAAGAA-AAATA
1 AAGAAATAAAAATGAAAAAAGAAA-AATAAATA
* *
9858775 AAGAAA-ACAAATGAAAAAATAAAAATAAATA
1 AAGAAATAAAAATGAAAAAAGAAAAATAAATA
9858806 AA
1 AA
9858808 AGAGGGTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 22 0.73
32 6 0.20
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (32 bp):
AAGAAATAAAAATGAAAAAAGAAAAATAAATA
Found at i:9860325 original size:89 final size:92
Alignment explanation
Indices: 9860160--9860354 Score: 252
Period size: 89 Copynumber: 2.1 Consensus size: 92
9860150 CAAATCTGAT
* * ** ** *
9860160 TTTCCCTCAAGAAGCAGTGGAGTGGATCCCTTGTTTTTTTTATAGATTTGATCTTCCCTAAGAAA
1 TTTCCCTGAAGAAGCAGCGGAGCAGATCCCTTGTTTTTTCCATAGATTTGATATTCCCTAAGAAA
*
9860225 CAGTGAAACAAGTTTGTCTCGATTCAA
66 CAGTGAAACAAGTCTGTCTCGATTCAA
* *
9860252 TTTCCCTGAAGAAGCAGCGGAGCAGATCCCTTG-TTTTTCCA-A-ATTTGATATTCCCTGAGGAA
1 TTTCCCTGAAGAAGCAGCGGAGCAGATCCCTTGTTTTTTCCATAGATTTGATATTCCCTAAGAAA
**
9860314 CAGTGGGACAAGTCTGTCTCGATTCAA
66 CAGTGAAACAAGTCTGTCTCGATTCAA
9860341 TCTTCCCTGAAGAA
1 T-TTCCCTGAAGAA
9860355 CAGTGGAATG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 42 0.47
90 13 0.14
91 6 0.07
92 29 0.32
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (92 bp):
TTTCCCTGAAGAAGCAGCGGAGCAGATCCCTTGTTTTTTCCATAGATTTGATATTCCCTAAGAAA
CAGTGAAACAAGTCTGTCTCGATTCAA
Found at i:9860451 original size:133 final size:133
Alignment explanation
Indices: 9860251--9860535 Score: 401
Period size: 133 Copynumber: 2.1 Consensus size: 133
9860241 TCTCGATTCA
* * * * *
9860251 ATTTCCCTGAAGAAGCAGCGGAGCAGATCCCTTGTTTTTCCAAATTTGATATTCCCTGAGGAACA
1 ATTTCCCTGAAGAAGCAACAGAACAGATCCC-TCTCTTTCCAAATTTGATATTCCCTGAGGAACA
* * *
9860316 GTGGGACAAGTCTGTCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCTCCAGA
65 GTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGAAATGAATCAACGTCTCCAGA
*
9860381 TTTG
130 TCTG
* * *
9860385 AGTTTCCCTGAAGAAGCAACAGAACAGATCCC-CTCTTTCCAGATTTGATCTTCCCTGAGTAACA
1 A-TTTCCCTGAAGAAGCAACAGAACAGATCCCTCTCTTTCCAAATTTGATATTCCCTGAGGAACA
* *
9860449 GTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGAAATGAATCAACGTTTCCATA
65 GTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGAAATGAATCAACGTCTCCAGA
9860514 TCTG
130 TCTG
*
9860518 ATCTACCCTGAAGAAGCA
1 AT-TTCCCTGAAGAAGCA
9860536 GCGGAGTAGA
Statistics
Matches: 134, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
132 1 0.01
133 105 0.78
134 1 0.01
135 27 0.20
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (133 bp):
ATTTCCCTGAAGAAGCAACAGAACAGATCCCTCTCTTTCCAAATTTGATATTCCCTGAGGAACAG
TGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGAAATGAATCAACGTCTCCAGAT
CTG
Found at i:9860770 original size:3 final size:3
Alignment explanation
Indices: 9860750--9860840 Score: 70
Period size: 3 Copynumber: 31.7 Consensus size: 3
9860740 CTTGTTGATT
* *
9860750 TTA TTA ATA TTAA TTA TTA TTA TT- TAA TTA TTA TTA TT- TCTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
9860795 TTA TTT TTA TT- TT- TTA TT- TT- TTA TT- TATA TTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
9860836 TTA TT
1 TTA TT
9860841 TCTGCATGCC
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
2 11 0.15
3 56 0.78
4 5 0.07
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:9860805 original size:32 final size:32
Alignment explanation
Indices: 9860750--9860840 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 32
9860740 CTTGTTGATT
*
9860750 TTATTAATATTAATTATTATTATTTAATTA-TTA
1 TTATTTATATT-ATTATTATTATTT-ATTATTTA
* * * *
9860783 TTATTTCTATTATTATTTTTATTTTTTATTTT
1 TTATTTATATTATTATTATTATTTATTATTTA
9860815 TTATTTATATTATTATTATT-TTTATT
1 TTATTTATATTATTATTATTATTTATT
9860841 TCTGCATGCC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 8 0.16
32 32 0.65
33 9 0.18
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (32 bp):
TTATTTATATTATTATTATTATTTATTATTTA
Found at i:9860819 original size:35 final size:35
Alignment explanation
Indices: 9860747--9860841 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 35
9860737 GATCTTGTTG
* * *
9860747 ATTT-TATTAATATTAATTATTATTATTTAATTATT
1 ATTTATATTATTATT-ATTTTTATTTTTTAATTATT
* * *
9860782 A-TTATTTCTATTATTATTTTTATTTTTTATTTTTT
1 ATTTATAT-TATTATTATTTTTATTTTTTAATTATT
9860817 ATTTATATTATTATTATTTTTATTT
1 ATTTATATTATTATTATTTTTATTT
9860842 CTGCATGCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 2 0.04
35 37 0.74
36 11 0.22
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (35 bp):
ATTTATATTATTATTATTTTTATTTTTTAATTATT
Found at i:9862204 original size:26 final size:26
Alignment explanation
Indices: 9862175--9862230 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
9862165 AGAAAATTTG
9862175 TGTAAGGTACAAACATTAAGTAATTA
1 TGTAAGGTACAAACATTAAGTAATTA
*
9862201 TGTAAGGTACAAACATTAAGTAATTG
1 TGTAAGGTACAAACATTAAGTAATTA
9862227 TGTA
1 TGTA
9862231 CCTTCTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (26 bp):
TGTAAGGTACAAACATTAAGTAATTA
Found at i:9863372 original size:2 final size:2
Alignment explanation
Indices: 9863365--9863400 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9863355 GATCCACTCA
9863365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9863401 TTTGTATTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9865930 original size:2 final size:2
Alignment explanation
Indices: 9865923--9865963 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9865913 GGATTTCACA
9865923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9865964 CAAATATGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9877250 original size:28 final size:25
Alignment explanation
Indices: 9877208--9877265 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 25
9877198 TTTATATAAG
9877208 TTTTTTTTTATAATAGTAGTAACTA
1 TTTTTTTTTATAATAGTAGTAACTA
*
9877233 TTTTTTTTGGTATAAATAGTAGTCACTA
1 TTTTTTTT--TAT-AATAGTAGTAACTA
*
9877261 GTTTT
1 TTTTT
9877266 ATTAAAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
27 3 0.11
28 17 0.61
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (25 bp):
TTTTTTTTTATAATAGTAGTAACTA
Found at i:9883704 original size:32 final size:32
Alignment explanation
Indices: 9883632--9883749 Score: 145
Period size: 32 Copynumber: 3.8 Consensus size: 32
9883622 GAATGACCAA
*
9883632 TCCATATGT-TCCGAAGAACATAGGTAA--CTG
1 TCCATATGTCT-CGAAGGACATAGGTAATCCTG
*
9883662 TCCATATGTCTCAAAGGACATAGGTAATCCTG
1 TCCATATGTCTCGAAGGACATAGGTAATCCTG
* *
9883694 CCCATATGTCTCGAAGGACATAGGTAATCTTG
1 TCCATATGTCTCGAAGGACATAGGTAATCCTG
*
9883726 TCCATATATC-CTGAAGGACATAGG
1 TCCATATGTCTC-GAAGGACATAGG
9883750 AAACCCTCGA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
30 23 0.30
31 2 0.03
32 52 0.68
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (32 bp):
TCCATATGTCTCGAAGGACATAGGTAATCCTG
Found at i:9887372 original size:19 final size:20
Alignment explanation
Indices: 9887348--9887395 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
9887338 AACGATTTTC
*
9887348 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
9887367 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
9887387 TTTTGAAAA
1 TTTTGAAAA
9887396 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:9899922 original size:20 final size:20
Alignment explanation
Indices: 9899899--9899970 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
9899889 TATTATTTTT
9899899 ACAGTATCGATATCGCATTA
1 ACAGTATCGATATCGCATTA
* ** *
9899919 ACAGTATCGATATTGTTTTT
1 ACAGTATCGATATCGCATTA
* * *
9899939 GCATTATCGATATCGCATGA
1 ACAGTATCGATATCGCATTA
9899959 ACAGTATCGATA
1 ACAGTATCGATA
9899971 CTATTATTGC
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (20 bp):
ACAGTATCGATATCGCATTA
Found at i:9899947 original size:40 final size:40
Alignment explanation
Indices: 9899887--9899975 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
9899877 AAGCAACACT
*
9899887 GATATTATTTTTACAGTATCGATATCGCATTAACAGTATC
1 GATATTATTTTTACAGTATCGATATCGCATGAACAGTATC
* * *
9899927 GATATTGTTTTTGCATTATCGATATCGCATGAACAGTATC
1 GATATTATTTTTACAGTATCGATATCGCATGAACAGTATC
*
9899967 GATACTATT
1 GATATTATT
9899976 ATTGCAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (40 bp):
GATATTATTTTTACAGTATCGATATCGCATGAACAGTATC
Found at i:9899981 original size:40 final size:40
Alignment explanation
Indices: 9899903--9899992 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
9899893 ATTTTTACAG
* * * * *
9899903 TATCGATATCGCATTAACAGTATCGATATTGTTTTTGCAT
1 TATCGATATCGCATGAACAGTATCGATACTATTATTGCAA
9899943 TATCGATATCGCATGAACAGTATCGATACTATTATTGCAA
1 TATCGATATCGCATGAACAGTATCGATACTATTATTGCAA
*
9899983 TATCAATATC
1 TATCGATATC
9899993 AAAGGTAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (40 bp):
TATCGATATCGCATGAACAGTATCGATACTATTATTGCAA
Found at i:9902193 original size:7 final size:7
Alignment explanation
Indices: 9902168--9902240 Score: 59
Period size: 7 Copynumber: 11.1 Consensus size: 7
9902158 ACCTAATATG
9902168 TACTATA
1 TACTATA
*
9902175 TTCTA-A
1 TACTATA
9902181 -ACTATA
1 TACTATA
9902187 TACTATA
1 TACTATA
*
9902194 TAATATGA
1 TACTAT-A
9902202 T-C-ATA
1 TACTATA
*
9902207 TACTACA
1 TACTATA
9902214 TACTATA
1 TACTATA
*
9902221 TAATATA
1 TACTATA
9902228 TA--ATA
1 TACTATA
9902233 TACTATA
1 TACTATA
9902240 T
1 T
9902241 GTATATTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
5 10 0.19
6 5 0.10
7 35 0.67
8 2 0.04
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.41
Consensus pattern (7 bp):
TACTATA
Found at i:9905500 original size:23 final size:23
Alignment explanation
Indices: 9905430--9905487 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
9905420 CGGTCGACGA
* *
9905430 TGACCGATGACGAAAATCAATGG
1 TGACCGACGATGAAAATCAATGG
9905453 TGACCGACGATGAAAATCAATGG
1 TGACCGACGATGAAAATCAATGG
9905476 TGACCGACGATG
1 TGACCGACGATG
9905488 GTGATGAGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (23 bp):
TGACCGACGATGAAAATCAATGG
Found at i:9906316 original size:29 final size:29
Alignment explanation
Indices: 9906284--9906339 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9906274 TTGAAAATAC
9906284 TAAAAATTTATTAGAATAATATAATATGG
1 TAAAAATTTATTAGAATAATATAATATGG
*
9906313 TAAAAATTTATTATAATAATATAATAT
1 TAAAAATTTATTAGAATAATATAATAT
9906340 AGTATATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (29 bp):
TAAAAATTTATTAGAATAATATAATATGG
Found at i:9909571 original size:27 final size:27
Alignment explanation
Indices: 9909526--9909578 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
9909516 GAGGGGACTT
9909526 AGTTGATTCCAAATATTTTTATTGTGG
1 AGTTGATTCCAAATATTTTTATTGTGG
*
9909553 AGTT-ATTCCAAGTATTTTTATTGTGG
1 AGTTGATTCCAAATATTTTTATTGTGG
9909579 GTATTCGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.49
Consensus pattern (27 bp):
AGTTGATTCCAAATATTTTTATTGTGG
Found at i:9912537 original size:2 final size:2
Alignment explanation
Indices: 9912532--9912681 Score: 131
Period size: 2 Copynumber: 78.5 Consensus size: 2
9912522 ATGTATTTGA
*
9912532 AT AT AT AT AT AT AT AT AT AT AT A- AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
9912573 AT AT AT AA AT AT AT A- AT TT TT GA- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
*
9912614 AT AT AT -T AT A- AT -T A- AT AT AT AT TT GA- AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
* * *
9912651 AT AT -T AT AT AGT AT AT TT AA AC AT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A
9912682 GTTTTTATGG
Statistics
Matches: 123, Mismatches: 12, Indels: 26
0.76 0.07 0.16
Matches are distributed among these distances:
1 10 0.08
2 111 0.90
3 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9912677 original size:108 final size:106
Alignment explanation
Indices: 9912489--9912681 Score: 255
Period size: 108 Copynumber: 1.8 Consensus size: 106
9912479 ATAGTATATT
* *
9912489 AATATATATATATATATATATTCTTAAAAAAAGATGTATTTGAATATATATATATATATATATAT
1 AATATATATATATATATATATTATTAAAAAAAGATATATTTGAATATATATATATATATATATAT
* *
9912554 AAAATATATATATATATATATATATAAATATATAATTTTTG
66 AAAATATAAACATATATATATATATAAATATATAATTTTTG
** *
9912595 AATATATATATATATATATATATATTATAATTAATATATATTTGAATATATATAT-TATAT-TAT
1 AATATATATATATATATATAT-TATTA-AAAAAAGATATATTTGAATATATATATATATATATAT
* *
9912658 ATAGTATATTTAAACATATATATA
64 ATA--AAATATAAACATATATATA
9912682 GTTTTTATGG
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
106 27 0.36
107 9 0.12
108 38 0.51
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (106 bp):
AATATATATATATATATATATTATTAAAAAAAGATATATTTGAATATATATATATATATATATAT
AAAATATAAACATATATATATATATAAATATATAATTTTTG
Found at i:9913907 original size:3 final size:3
Alignment explanation
Indices: 9913899--9913924 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9913889 TTTAATTACT
9913899 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9913925 CCTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9927251 original size:20 final size:21
Alignment explanation
Indices: 9927213--9927251 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9927203 CATCAAGGTC
9927213 TTTGTTGAGGCCATGAAATCT
1 TTTGTTGAGGCCATGAAATCT
9927234 TTTGTTGAGGCCAT-AAAT
1 TTTGTTGAGGCCATGAAAT
9927252 TCCTGCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (21 bp):
TTTGTTGAGGCCATGAAATCT
Found at i:9932704 original size:2 final size:2
Alignment explanation
Indices: 9932692--9932738 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
9932682 TTTGAATACA
9932692 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9932733 AT AT AT
1 AT AT AT
9932739 GATGTGTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9937360 original size:2 final size:2
Alignment explanation
Indices: 9937353--9937382 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9937343 TTTGAATGCA
9937353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9937383 GATGTGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9938519 original size:2 final size:2
Alignment explanation
Indices: 9938429--9938503 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
9938419 TCGATACAAT
9938429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9938471 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9938504 CTTTAGCTGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9940291 original size:21 final size:21
Alignment explanation
Indices: 9940265--9940317 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
9940255 GTTTCCAGAT
*
9940265 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
* *
9940286 TCGCAATGCAAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
9940307 TCACAATGCGA
1 TCGCAATGCGA
9940318 TTTACATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:9940356 original size:21 final size:21
Alignment explanation
Indices: 9940325--9940599 Score: 174
Period size: 21 Copynumber: 13.3 Consensus size: 21
9940315 CGATTTACAT
*
9940325 ATTCGCATTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
*
9940346 GTTCGCGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
* ** *
9940367 TTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCGAA
* ** *
9940388 ATTCTCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCGAA
9940409 ATT--CGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
* * * *
9940428 GTTCGCGTTGCGGTTTATTCCAA
1 ATTCGCGTTGC-G-ATAGTCGAA
*
9940451 ATT--CATTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
* ** *
9940470 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATAGTCGAA
9940491 ATT--CGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
* * * *
9940510 GTTCGCGTTGTGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCGAA
9940533 ATT--CGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCGAA
* * *
9940552 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA--TAGTCGAA
*
9940575 ATT--CGTTGCGATAGTCCAA
1 ATTCGCGTTGCGATAGTCGAA
*
9940594 AATCGC
1 ATTCGC
9940600 AACGACTGGT
Statistics
Matches: 195, Mismatches: 43, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
19 55 0.28
20 1 0.01
21 114 0.58
22 1 0.01
23 24 0.12
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (21 bp):
ATTCGCGTTGCGATAGTCGAA
Found at i:9940378 original size:42 final size:40
Alignment explanation
Indices: 9940332--9940590 Score: 329
Period size: 42 Copynumber: 6.3 Consensus size: 40
9940322 CATATTCGCA
* * *
9940332 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAATTTCGCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATT--CG
** * * * *
9940374 TTGCGATTTTCCAAATTCTCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATTCG
* *
9940414 TTGCGATAGTCGAAGTTCGCGTTGCGGTTTATTCCAAATTCA
1 TTGCGATAGTCGAAGTTCGCGTTGC-G-ATATTCCAAATTCG
*
9940456 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATTCG
*
9940496 TTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA--TATTCCAAATTCG
9940538 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA--TATTCCAAATTCG
9940580 TTGCGATAGTC
1 TTGCGATAGTC
9940591 CAAAATCGCA
Statistics
Matches: 190, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
40 59 0.31
41 2 0.01
42 129 0.68
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATTCG
Found at i:9940426 original size:82 final size:80
Alignment explanation
Indices: 9940332--9940590 Score: 347
Period size: 82 Copynumber: 3.1 Consensus size: 80
9940322 CATATTCGCA
* * * ** * * *
9940332 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAATTTCGCGTTGCGATTTTCCAAATTCTCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATT--CGTTGCGATAGTCGAAGTTCGCGTT
9940397 GCGATTTTCCAAATTCG
64 GCGATTTTCCAAATTCG
* *
9940414 TTGCGATAGTCGAAGTTCGCGTTGCGGTTTATTCCAAATTCATTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGC-G-ATATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
9940479 GCGATTTTCCAAATTCG
64 GCGATTTTCCAAATTCG
*
9940496 TTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGA--TATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
9940561 GCGATTTATTCCAAATTCG
64 GCGA-TT-TTCCAAATTCG
9940580 TTGCGATAGTC
1 TTGCGATAGTC
9940591 CAAAATCGCA
Statistics
Matches: 158, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
81 1 0.01
82 124 0.78
83 3 0.02
84 30 0.19
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (80 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGC
GATTTTCCAAATTCG
Found at i:9940550 original size:124 final size:123
Alignment explanation
Indices: 9940330--9940590 Score: 380
Period size: 124 Copynumber: 2.1 Consensus size: 123
9940320 TACATATTCG
* * ** *
9940330 CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAATTTCGCGTTGCGATTTTCCAAATTCTCG
1 CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAATTCGCG
*
9940395 TTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGGTTTATTCCAAATT
65 TTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
** * *
9940454 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT-CGTTGCGATAGTCGAAGTTCGCGT
1 CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAATTCCGTTGCGATAGTCCAAATTCGCGT
*
9940518 TGTGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
66 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
9940578 CGTTGCGATAGTC
1 CATTGCGATAGTC
9940591 CAAAATCGCA
Statistics
Matches: 123, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
122 23 0.19
123 2 0.02
124 98 0.80
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (123 bp):
CATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAATTCCGTTGCGATAGTCCAAATTCGCGT
TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:9941223 original size:6 final size:6
Alignment explanation
Indices: 9941204--9941234 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9941194 TCATCTCGGT
*
9941204 TCGTGG TCGCGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
9941235 AATACGTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.48, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:9941418 original size:21 final size:20
Alignment explanation
Indices: 9941324--9941467 Score: 96
Period size: 21 Copynumber: 7.0 Consensus size: 20
9941314 CGTTGCGATT
*
9941324 TTGGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
9941343 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
*
9941366 TTGGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
*
9941385 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
* * *
9941408 TTCGACTATCGCAA-TGAAT
1 TTGGACTATCGCAAGCGAAC
** *
9941427 TTGGAAAATCACAACGCGAAC
1 TTGGACTATCGCAA-GCGAAC
*
9941448 TTCGACTATCGCAATGCGAA
1 TTGGACTATCGCAA-GCGAA
9941468 TATGTAAATC
Statistics
Matches: 94, Mismatches: 21, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
19 29 0.31
21 46 0.49
23 19 0.20
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:9941463 original size:40 final size:42
Alignment explanation
Indices: 9941327--9941461 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 42
9941317 TGCGATTTTG
* *
9941327 GACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
9941369 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
9941411 GACTATCGCAATGAATTTGG-A-AAATCACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
9941451 GACTATCGCAA
1 GACTATCGCAA
9941462 TGCGAATATG
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 29 0.33
41 1 0.01
42 59 0.66
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:9950126 original size:16 final size:16
Alignment explanation
Indices: 9950105--9950136 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9950095 CTTAAAGAAC
9950105 AATCATCTTCAAGTTA
1 AATCATCTTCAAGTTA
*
9950121 AATCATCTTCGAGTTA
1 AATCATCTTCAAGTTA
9950137 GATTTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (16 bp):
AATCATCTTCAAGTTA
Found at i:9951950 original size:522 final size:518
Alignment explanation
Indices: 9950968--9952006 Score: 1677
Period size: 522 Copynumber: 2.0 Consensus size: 518
9950958 TAAAACGACA
*
9950968 CGTGAAAGCCATGCAACGATGAAAGTAGCCTCACACACTGAATCAAAATGTTTCTAATGGTTTCA
1 CGTGAAAGCCATGCAACGATGAAAGTAGCCTCACACACTGAATCAAAATGTTTCGAATGGTTTCA
* * * *
9951033 GGGGAAAACCTTTCCTAACATATAGAATCGGAAAAAAAATAAGCACCAAGCAATCATGAGAATCA
66 GGGGAAAACATTTCCAAACATATAGAATCGAAAAAAAAATAAGCACCAAGCAATCACGAGAATCA
* *
9951098 ACCCAAGAAACATGCAATAGCCAACCCATAACAAATCAACGCGTAAAAGGCATAAGGCGAAAATT
131 AACCAAGAAACATGCAATAGCCAACCCAAAACAAATCAACGCGTAAAAGGCATAAGGCGAAAATT
* * * *
9951163 GCAAGAGAATCGAAAGCATATAAATGAAAAAGGCAAATCCCCTTGACAGAGCCATTGAAGAAGAT
196 GCAAGAGAATCAAAAGCATATAAATGAAAAAGGAAAATCCCATTGACAGAGCCATTGAAAAAGAT
*
9951228 GAATCTCGTCAAAGAAGGAAATAAGTGACCCTTTTCGCACTATCAAGTTACCTGCAAAAACAAAA
261 GAATCTCGTCAAAGAAGGAAATAAGTGACCCTTTTCGCACTATAAAGTTACCTGCAAAAACAAAA
*
9951293 ATGGGGTTAAGTTTGGACACTTTCAAATACCAAAAAAACATAACGAAACAAAGGGGGAGAGACGA
326 ATGGGGTTAAGTTTGGACACTTTCAAATACCAAAAAAACATAAAGAAACAAAGGGGGAGAGACGA
* * *
9951358 GGAGCACTCAACTTTTTTATCGAGATGTAGTCGATCATCGGAGCATAAAAGTTTGCCAGAGAAGT
391 GGAGCACTCAACTTTTTTATCGAGATGTAGTCGATCATCGGAGCACAAAAGTTTACCAGAGAAAT
* * *
9951423 CAAAACATCACCGAAAAAGGTGAGAAAGTCGAAAGGTTTTTGCTATATCTACGTCACGGGGCG
456 CAAAACATCACCGAAAAAGGTGAGAAAGTAGAAAGGTTTTCGCTAGATCTACGTCACGGGGCG
* *
9951486 CGTGAAAGCCATGCACCGATGAAAGTAGCCTCACACACTGAATCAGAATGTTTCGAATGGTTTC-
1 CGTGAAAGCCATGCAACGATGAAAGTAGCCTCACACACTGAATCAAAATGTTTCGAATGGTTTCA
*
9951550 GGGGAAAAATATTTCCAAACATATAGAATCAGAAAAAAAAAAATAAGCACCAAGCAATCACGAGA
66 GGGG-AAAACATTTCCAAACATATAGAATC-G--AAAAAAAAATAAGCACCAAGCAATCACGAGA
* * * *
9951615 ATCAAATCAAGAAACATGTAATAGCGAACCCAAAACAAATCAACGCGTATAAGGCATAAGGC-AA
127 ATCAAACCAAGAAACATGCAATAGCCAACCCAAAACAAATCAACGCGTAAAAGGCATAAGGCGAA
* * *
9951679 CAATTTCAGGAGAATCAAAAGCATATAAATGAAAAAGGTAAAATCCCATTGACAGAGGCATTGAA
192 -AATTGCAAGAGAATCAAAAGCATATAAATGAAAAAGG-AAAATCCCATTGACAGAGCCATTGAA
*
9951744 AAAGATGAATCTCGTCAAAGAAGGAAATAAGTGACCCTTTTCGCACTATAAAGTTGCCTGCAAAA
255 AAAGATGAATCTCGTCAAAGAAGGAAATAAGTGACCCTTTTCGCACTATAAAGTTACCTGCAAAA
*
9951809 ACGAAAATGGGGTTAAGTTTGGACACTTTCAAATACCAAAAAAACATAAAGAAACAAAGGGGGAG
320 ACAAAAATGGGGTTAAGTTTGGACACTTTCAAATACCAAAAAAACATAAAGAAACAAAGGGGGAG
* *
9951874 AGACGAGGAGCACTCAGCTTTTTTATCGAGGTGTAGTCGATCATCGGAGCACAAAAGTTTACCAG
385 AGACGAGGAGCACTCAACTTTTTTATCGAGATGTAGTCGATCATCGGAGCACAAAAGTTTACCAG
* * * *
9951939 AGAAATCAAAACATCACCGAAAAAGGTGAGAATGTAGAAATGTTTTCGTTAGATCTACGTCATGG
450 AGAAATCAAAACATCACCGAAAAAGGTGAGAAAGTAGAAAGGTTTTCGCTAGATCTACGTCACGG
9952004 GGC
515 GGC
9952007 TCGTTGCATA
Statistics
Matches: 478, Mismatches: 37, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
517 4 0.01
518 83 0.17
519 1 0.00
520 2 0.00
521 119 0.25
522 269 0.56
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (518 bp):
CGTGAAAGCCATGCAACGATGAAAGTAGCCTCACACACTGAATCAAAATGTTTCGAATGGTTTCA
GGGGAAAACATTTCCAAACATATAGAATCGAAAAAAAAATAAGCACCAAGCAATCACGAGAATCA
AACCAAGAAACATGCAATAGCCAACCCAAAACAAATCAACGCGTAAAAGGCATAAGGCGAAAATT
GCAAGAGAATCAAAAGCATATAAATGAAAAAGGAAAATCCCATTGACAGAGCCATTGAAAAAGAT
GAATCTCGTCAAAGAAGGAAATAAGTGACCCTTTTCGCACTATAAAGTTACCTGCAAAAACAAAA
ATGGGGTTAAGTTTGGACACTTTCAAATACCAAAAAAACATAAAGAAACAAAGGGGGAGAGACGA
GGAGCACTCAACTTTTTTATCGAGATGTAGTCGATCATCGGAGCACAAAAGTTTACCAGAGAAAT
CAAAACATCACCGAAAAAGGTGAGAAAGTAGAAAGGTTTTCGCTAGATCTACGTCACGGGGCG
Found at i:9952559 original size:18 final size:18
Alignment explanation
Indices: 9952536--9952570 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9952526 CTGATCAAAC
9952536 TTAAATTTAAATTTTTAT
1 TTAAATTTAAATTTTTAT
*
9952554 TTAAATTTCAATTTTTA
1 TTAAATTTAAATTTTTA
9952571 CGATTAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATTTAAATTTTTAT
Found at i:9969164 original size:13 final size:13
Alignment explanation
Indices: 9969146--9969171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9969136 AAATAATAGA
9969146 TAAATACATAAAT
1 TAAATACATAAAT
9969159 TAAATACATAAAT
1 TAAATACATAAAT
9969172 ACTAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAATACATAAAT
Found at i:9970152 original size:21 final size:20
Alignment explanation
Indices: 9970078--9970163 Score: 57
Period size: 21 Copynumber: 4.0 Consensus size: 20
9970068 ACAACTCGTA
*
9970078 ATTTGTACCGAAGTGCCACAT
1 ATTTGTCCCGAA-TGCCACAT
* * *
9970099 AATTATCCCGAATGAC-CAT
1 ATTTGTCCCGAATGCCACAT
* *
9970118 GTTTTTTGCACCGAAGTGCCACAT
1 -ATTTGT-C-CCGAA-TGCCACAT
9970142 ATTTGTCCCGAATGACCACAT
1 ATTTGTCCCGAATG-CCACAT
9970163 A
1 A
9970164 GACCCTCGAC
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.06
20 8 0.16
21 22 0.45
22 6 0.12
23 7 0.14
24 3 0.06
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
ATTTGTCCCGAATGCCACAT
Found at i:9978362 original size:24 final size:24
Alignment explanation
Indices: 9978230--9978348 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
9978220 TTCGATTTGA
*
9978230 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
9978254 ATTCTGATATGATATCTT-ACATGG
1 ATTCTGATATGATA-CTTGACATGG
* *
9978278 ATTCTGATTTGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* *
9978302 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
9978326 ATTTTGATATGATACTTGACATG
1 ATTCTGATATGATACTTGACATG
9978349 AATTATGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.04
24 79 0.93
25 3 0.04
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:9978530 original size:43 final size:43
Alignment explanation
Indices: 9978464--9978558 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
9978454 GGGCCTCACT
* *
9978464 TGGTGTGTTGGTGAGTGTATGGTTCTGGGGAACCTACACATTA
1 TGGTGTGTTGGTGAGTGTATGGTTATGGGAAACCTACACATTA
* *
9978507 TGGTATGTTGGTGGGTGTATGGTTATGGGAAACCTACACATTA
1 TGGTGTGTTGGTGAGTGTATGGTTATGGGAAACCTACACATTA
9978550 TGGTGTGTT
1 TGGTGTGTT
9978559 CGGTTGGAGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.19, C:0.09, G:0.35, T:0.37
Consensus pattern (43 bp):
TGGTGTGTTGGTGAGTGTATGGTTATGGGAAACCTACACATTA
Found at i:9980711 original size:18 final size:17
Alignment explanation
Indices: 9980688--9980746 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
9980678 ACCGGTCACA
9980688 ACCCGACCCGACTCGTTG
1 ACCCGACCCGAC-CGTTG
9980706 ACCCGACCC-A---TTG
1 ACCCGACCCGACCGTTG
* *
9980719 ACCCAACCCGACCCGTTT
1 ACCCGACCCGA-CCGTTG
9980737 ACCCGACCCG
1 ACCCGACCCG
9980747 TTTACCCGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 11 0.33
14 1 0.03
17 1 0.03
18 20 0.61
ACGTcount: A:0.20, C:0.49, G:0.17, T:0.14
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:9980740 original size:13 final size:13
Alignment explanation
Indices: 9980724--9980754 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
9980714 CATTGACCCA
9980724 ACCCGACCCGTTT
1 ACCCGACCCGTTT
9980737 ACCCGACCCGTTT
1 ACCCGACCCGTTT
9980750 ACCCG
1 ACCCG
9980755 TTGACCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.48, G:0.16, T:0.19
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:9983313 original size:12 final size:12
Alignment explanation
Indices: 9983276--9983338 Score: 62
Period size: 12 Copynumber: 5.2 Consensus size: 12
9983266 ATCTGATACT
9983276 TGACATGGATTC
1 TGACATGGATTC
9983288 TGATC-T-GATATC
1 TGA-CATGGAT-TC
9983300 TGACATGGATTC
1 TGACATGGATTC
9983312 TGATC-T-GATATC
1 TGA-CATGGAT-TC
9983324 TGACATGGATTC
1 TGACATGGATTC
9983336 TGA
1 TGA
9983339 TCTGATACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
11 8 0.19
12 27 0.63
13 8 0.19
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:9983416 original size:24 final size:24
Alignment explanation
Indices: 9983260--9983402 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
9983250 TTCGATTTGA
9983260 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
9983284 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
9983308 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
9983332 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
*
9983356 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACATGG
* *
9983380 ATTTTGATATGATACTTGACATG
1 ATTCTGATCTGATACTTGACATG
9983403 AATTATGTTT
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
23 1 0.01
24 110 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:9983579 original size:43 final size:43
Alignment explanation
Indices: 9983518--9983612 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
9983508 GGGCCTTACT
* *
9983518 TGGTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATAA
1 TGGTGTGTTGGTGGGTGTATGGTTATGGGAAACCTACACATAA
*
9983561 TGGTGTGTTGGTGGGTGTATGGTTATGGGAAACCTACACATTA
1 TGGTGTGTTGGTGGGTGTATGGTTATGGGAAACCTACACATAA
9983604 TGGTGTGTT
1 TGGTGTGTT
9983613 CGGTTGGAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.18, C:0.09, G:0.37, T:0.36
Consensus pattern (43 bp):
TGGTGTGTTGGTGGGTGTATGGTTATGGGAAACCTACACATAA
Found at i:9985763 original size:18 final size:17
Alignment explanation
Indices: 9985740--9985798 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
9985730 ACCGGTCACA
9985740 ACCCGACCCGACTCGTTG
1 ACCCGACCCGAC-CGTTG
9985758 ACCCGACCC-A---TTG
1 ACCCGACCCGACCGTTG
*
9985771 ACCCAACCCGACCCGTTG
1 ACCCGACCCGA-CCGTTG
9985789 ACCCGACCCG
1 ACCCGACCCG
9985799 TTTACCCGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.32
14 1 0.03
17 1 0.03
18 21 0.62
ACGTcount: A:0.20, C:0.49, G:0.19, T:0.12
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:9985792 original size:13 final size:13
Alignment explanation
Indices: 9985744--9985820 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 13
9985734 GTCACAACCC
*
9985744 GACCCGACTCGTT
1 GACCCGACCCGTT
*
9985757 GACCCGACCCATT
1 GACCCGACCCGTT
9985770 GACCCAACCCGACCCGTT
1 G-----ACCCGACCCGTT
9985788 GACCCGACCCGTT
1 GACCCGACCCGTT
*
9985801 TACCCGTTGACCCGTT
1 GACCC---GACCCGTT
9985817 GACC
1 GACC
9985821 GGCGTTGACC
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
13 28 0.55
16 11 0.22
18 12 0.24
ACGTcount: A:0.18, C:0.44, G:0.19, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:9985828 original size:10 final size:8
Alignment explanation
Indices: 9985780--9985840 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
9985770 GACCCAACCC
9985780 GACCCGTT
1 GACCCGTT
9985788 GACCC---
1 GACCCGTT
9985793 GACCCGTT
1 GACCCGTT
*
9985801 TACCCGTT
1 GACCCGTT
9985809 GACCCGTT
1 GACCCGTT
9985817 GACCGGCGTT
1 GACC--CGTT
9985827 GACCACTGTT
1 GACC-C-GTT
9985837 GACC
1 GACC
9985841 AACACTTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
5 5 0.11
8 23 0.52
9 1 0.02
10 15 0.34
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:9988324 original size:24 final size:24
Alignment explanation
Indices: 9988292--9988370 Score: 113
Period size: 24 Copynumber: 3.3 Consensus size: 24
9988282 TTGGATTCTG
9988292 TGACATGGATTCTGATCTGATACT
1 TGACATGGATTCTGATCTGATACT
* *
9988316 TGACTTGGATTCTGATCTGATACG
1 TGACATGGATTCTGATCTGATACT
* * *
9988340 TGACCTGGATTTTGATATGATACT
1 TGACATGGATTCTGATCTGATACT
9988364 TGACATG
1 TGACATG
9988371 AATTATGTCT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (24 bp):
TGACATGGATTCTGATCTGATACT
Found at i:9988329 original size:19 final size:19
Alignment explanation
Indices: 9988271--9988331 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
9988261 AATTCTGATA
9988271 TGATACTTGACTTGGATTC
1 TGATACTTGACTTGGATTC
* *
9988290 TG-TGACATGGA-TTCTGA-TC
1 TGAT-AC-TTGACTT-GGATTC
9988309 TGATACTTGACTTGGATTC
1 TGATACTTGACTTGGATTC
9988328 TGAT
1 TGAT
9988332 CTGATACGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
18 6 0.19
19 20 0.62
20 6 0.19
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (19 bp):
TGATACTTGACTTGGATTC
Found at i:9988546 original size:43 final size:43
Alignment explanation
Indices: 9988485--9988580 Score: 156
Period size: 43 Copynumber: 2.2 Consensus size: 43
9988475 GGGGCCTTAC
* *
9988485 TTGGTGTGTTGGTGGGTGTATGGTTCTGGGGAACCTACACATT
1 TTGGTGTGTTGGTGGGTGTATAGTTCTGGGAAACCTACACATT
*
9988528 TTGGTGTGTTGGTGGGTGTATATTTCTGGGAAACCTACACATT
1 TTGGTGTGTTGGTGGGTGTATAGTTCTGGGAAACCTACACATT
*
9988571 ATGGTGTGTT
1 TTGGTGTGTT
9988581 CGGTTGAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.16, C:0.10, G:0.34, T:0.40
Consensus pattern (43 bp):
TTGGTGTGTTGGTGGGTGTATAGTTCTGGGAAACCTACACATT
Found at i:9989398 original size:2 final size:2
Alignment explanation
Indices: 9989391--9989424 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9989381 TTCATAATCT
9989391 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9989425 ACTAAAGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9990053 original size:91 final size:91
Alignment explanation
Indices: 9989927--9990096 Score: 322
Period size: 91 Copynumber: 1.9 Consensus size: 91
9989917 TATTATATAG
*
9989927 ATTATGAATCTACTATCAATTAGATTTTTATAGTATATATTTGTTATAGACAAGTGGTACGTTTA
1 ATTATGAATCTACTATCAATTAGATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTA
9989992 AAATTTTTAATGTACTTGTTATACAT
66 AAATTTTTAATGTACTTGTTATACAT
*
9990018 ATTATGAATCTACTATCAGTTAGATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTA
1 ATTATGAATCTACTATCAATTAGATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTA
9990083 AAATTTTTAATGTA
66 AAATTTTTAATGTA
9990097 ATCGAAAGGT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (91 bp):
ATTATGAATCTACTATCAATTAGATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTA
AAATTTTTAATGTACTTGTTATACAT
Found at i:9990091 original size:44 final size:44
Alignment explanation
Indices: 9989950--9990091 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 44
9989940 TATCAATTAG
*
9989950 ATTTTTATAGTATATATTTGTTATAGACAAGTGGTACGTTTAAA
1 ATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTAAA
* * ** ** *
9989994 ATTTTTA-ATGTACT-TGTTATACATATTATGA-ATCTACTATCAG-TT-AG
1 ATTTTTATA-GTA-TATATT-T-GATA-TA-GACAAGTGGTA-C-GTTTAAA
9990041 ATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTAAA
1 ATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTAAA
9990085 ATTTTTA
1 ATTTTTA
9990092 ATGTAATCGA
Statistics
Matches: 70, Mismatches: 15, Indels: 26
0.63 0.14 0.23
Matches are distributed among these distances:
42 1 0.01
43 6 0.09
44 27 0.39
45 5 0.07
46 4 0.06
47 20 0.29
48 6 0.09
49 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.46
Consensus pattern (44 bp):
ATTTTTATAGTATATATTTGATATAGACAAGTGGTACGTTTAAA
Found at i:9990924 original size:2 final size:2
Alignment explanation
Indices: 9990915--9990998 Score: 104
Period size: 2 Copynumber: 43.5 Consensus size: 2
9990905 TATTTCACAC
9990915 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
9990955 AA AT -T AT -T AA AT TT CAT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
9990996 AT A
1 AT A
9990999 ATTATAGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
1 4 0.06
2 66 0.93
3 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9991187 original size:2 final size:2
Alignment explanation
Indices: 9991180--9991209 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9991170 CTGTAATTTA
9991180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9991210 GAAATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9991383 original size:8 final size:9
Alignment explanation
Indices: 9991372--9991428 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
9991362 TGGTCCTTGG
9991372 ATTAAAAT-
1 ATTAAAATA
9991380 ATTAAAATTA
1 ATTAAAA-TA
*
9991390 ATTAAATTA
1 ATTAAAATA
9991399 ATTAAAAT-
1 ATTAAAATA
9991407 ATTAAAATTA
1 ATTAAAA-TA
*
9991417 ATTAAATTA
1 ATTAAAATA
9991426 ATT
1 ATT
9991429 CTCCAATCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 14 0.33
9 16 0.38
10 12 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATTAAAATA
Found at i:9991395 original size:18 final size:20
Alignment explanation
Indices: 9991372--9991428 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 20
9991362 TGGTCCTTGG
9991372 ATTAAAA-T-ATTAAAATTA
1 ATTAAAATTAATTAAAATTA
9991390 ATT-AAATTAATTAAAA-T-
1 ATTAAAATTAATTAAAATTA
9991407 ATTAAAATTAATT-AAATTA
1 ATTAAAATTAATTAAAATTA
9991426 ATT
1 ATT
9991429 CTCCAATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.26
18 15 0.44
19 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAAAATTAATTAAAATTA
Found at i:9991398 original size:9 final size:9
Alignment explanation
Indices: 9991384--9991428 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
9991374 TAAAATATTA
9991384 AAATTAATT
1 AAATTAATT
9991393 AAATTAATT
1 AAATTAATT
*
9991402 AAAAT-ATT
1 AAATTAATT
9991410 AAAATTAATT
1 -AAATTAATT
9991420 AAATTAATT
1 AAATTAATT
9991429 CTCCAATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 3 0.09
9 26 0.81
10 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAATTAATT
Found at i:9991410 original size:27 final size:27
Alignment explanation
Indices: 9991372--9991428 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
9991362 TGGTCCTTGG
9991372 ATTAAAATATTAAAATTAATTAAATTA
1 ATTAAAATATTAAAATTAATTAAATTA
9991399 ATTAAAATATTAAAATTAATTAAATTA
1 ATTAAAATATTAAAATTAATTAAATTA
9991426 ATT
1 ATT
9991429 CTCCAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTAAAATATTAAAATTAATTAAATTA
Found at i:9994630 original size:21 final size:21
Alignment explanation
Indices: 9994601--9994640 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9994591 TTTTTATTAT
* *
9994601 TTTATTAAAAGAATTGGTATG
1 TTTAGTAAAACAATTGGTATG
*
9994622 TTTAGTAAAACACTTGGTA
1 TTTAGTAAAACAATTGGTA
9994641 CATTTAGACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGTAAAACAATTGGTATG
Found at i:9995865 original size:17 final size:17
Alignment explanation
Indices: 9995843--9995875 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9995833 CGGATGTTAT
9995843 TTCTTTCTAAGT-TACCC
1 TTCTTTC-AAGTGTACCC
9995860 TTCTTTCAAGTGTACC
1 TTCTTTCAAGTGTACC
9995876 ATCTTCCCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (17 bp):
TTCTTTCAAGTGTACCC
Found at i:10000566 original size:111 final size:111
Alignment explanation
Indices: 10000430--10000729 Score: 537
Period size: 111 Copynumber: 2.7 Consensus size: 111
10000420 GCTGATACGG
* *
10000430 TAACATTTTAATTTAATTTAAATTATTAGTAATATTTAGTTGATTTATTTAATGCATGATTATTA
1 TAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTAATGCATGATTATTA
10000495 GATTAAGAATTAAATATCTCAACACTTTGCTGATACGGTAACATTT
66 GATTAAGAATTAAATATCTCAACACTTTGCTGATACGGTAACATTT
*
10000541 TAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAATTGATTTATTTAATGCATGATTATTA
1 TAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTAATGCATGATTATTA
* * *
10000606 TATTAAGAATTAAATATCTCGACACTTTGCTGGTACGGTAACATTT
66 GATTAAGAATTAAATATCTCAACACTTTGCTGATACGGTAACATTT
10000652 TAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTAATGCATGATTATTA
1 TAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTAATGCATGATTATTA
*
10000717 GAGTAAGAATTAA
66 GATTAAGAATTAA
10000730 TTTTTGTAAT
Statistics
Matches: 180, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 180 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (111 bp):
TAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGTTGATTTATTTAATGCATGATTATTA
GATTAAGAATTAAATATCTCAACACTTTGCTGATACGGTAACATTT
Found at i:10002602 original size:3 final size:3
Alignment explanation
Indices: 10002588--10002652 Score: 67
Period size: 3 Copynumber: 21.7 Consensus size: 3
10002578 ACCTGCTCAG
* * * * **
10002588 GAC GAT GAC GAC GAC GAC GAC GAC GAT GAC GAC GAT GAC GAT GGT GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
*
10002636 GAC GAA GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GA
10002653 TGATGACAGC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.23, G:0.35, T:0.08
Consensus pattern (3 bp):
GAC
Found at i:10004393 original size:3 final size:3
Alignment explanation
Indices: 10004387--10004501 Score: 126
Period size: 3 Copynumber: 38.0 Consensus size: 3
10004377 TTCATTTAAA
** * * *
10004387 ATT ATT ATT ATT AAA ATT ATT ATT ATT AGT ATT ATT ATT AGT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
10004435 ATT ATT ATT ATT A-T AAT ATA ATT ATT ATT A-T ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
10004479 ATT ATT ATAT ATAT ATT ATT ATT
1 ATT ATT AT-T AT-T ATT ATT ATT
10004502 TAATAATAAT
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
2 4 0.04
3 81 0.85
4 10 0.11
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:10004460 original size:14 final size:14
Alignment explanation
Indices: 10004389--10004506 Score: 98
Period size: 14 Copynumber: 8.1 Consensus size: 14
10004379 CATTTAAAAT
*
10004389 TATTATTATTAAAA
1 TATTATTATTATAA
10004403 TTATTATTATTAGTATTA
1 -TATTATTATTA-TA--A
* *
10004421 TTATTAGTATTAGTAT
1 -TATTATTATTA-TAA
10004437 TATTATTATTATAA
1 TATTATTATTATAA
* *
10004451 TATAATTATTATTA
1 TATTATTATTATAA
*
10004465 TATTATTATT-TAT
1 TATTATTATTATAA
10004478 TATTATTA-TATATA
1 TATTATTATTATA-A
10004492 TATTATTATT-TAA
1 TATTATTATTATAA
10004505 TA
1 TA
10004507 ATAATTACAA
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
12 1 0.01
13 14 0.16
14 33 0.38
15 22 0.26
16 1 0.01
18 15 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATTATTATTATAA
Found at i:10004478 original size:38 final size:37
Alignment explanation
Indices: 10004402--10004501 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 37
10004392 TATTATTAAA
10004402 ATTATTATTAT-TAGT-ATTATTATTAGTATTAGTATT
1 ATTATTATTATATA-TAATTATTATTAGTATTAGTATT
*
10004438 ATTATTATTATAATATAATTATTATTA-TATTATTATTT
1 ATTATTATTAT-ATATAATTATTATTAGTATTAGTA-TT
10004476 ATTATTATTATATATATATTATTATT
1 ATTATTATTATATATA-ATTATTATT
10004502 TAATAATAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
36 11 0.19
37 13 0.22
38 34 0.59
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (37 bp):
ATTATTATTATATATAATTATTATTAGTATTAGTATT
Found at i:10004976 original size:81 final size:80
Alignment explanation
Indices: 10004837--10005005 Score: 311
Period size: 81 Copynumber: 2.1 Consensus size: 80
10004827 TATGGTGAGT
10004837 CACCACCATAGCTATGGTGACTCACCGGGCCTTCATCTCTGGAACCGGTCCAACGAGAGCCTCGG
1 CACC-CCATAGCTATGGTGACTCACCGGGCCTTCATCTCTGGAACCGGTCCAACGAGAGCCTCGG
10004902 TGGTGGCTATAAAAGC
65 TGGTGGCTATAAAAGC
*
10004918 CCCCCCATAGCTATGGTGACTCACCGGGCCTTTCATCTCTGGAACCGGTCCAACGAGAGCCTCGG
1 CACCCCATAGCTATGGTGACTCACCGGGCC-TTCATCTCTGGAACCGGTCCAACGAGAGCCTCGG
10004983 TGGTGGCTATAAAAGC
65 TGGTGGCTATAAAAGC
10004999 CACCCCA
1 CACCCCA
10005006 CCTGCAAGAA
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
80 26 0.31
81 59 0.69
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.20
Consensus pattern (80 bp):
CACCCCATAGCTATGGTGACTCACCGGGCCTTCATCTCTGGAACCGGTCCAACGAGAGCCTCGGT
GGTGGCTATAAAAGC
Found at i:10011328 original size:2 final size:2
Alignment explanation
Indices: 10011321--10011346 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10011311 TTATCCTTTA
10011321 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10011347 CCTTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10011793 original size:131 final size:131
Alignment explanation
Indices: 10011647--10011908 Score: 508
Period size: 131 Copynumber: 2.0 Consensus size: 131
10011637 AAAAAAAAAA
10011647 AAAAAAGGGGAAATTGAAATCAAGA-GGGTGACTTATTGAGCCTCAAGTTACAAGGTTGATCAAG
1 AAAAAAGGGGAAATTG-AATCAAGATGGGTGACTTATTGAGCCTCAAGTTACAAGGTTGATCAAG
10011711 TACAAACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCA
65 TACAAACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCA
10011776 GT
130 GT
10011778 AAAAAAGGGGAAATTGAATCAAGATGGGTGACTTATTGAGCCTCAAGTTACAAGGTTGATCAAGT
1 AAAAAAGGGGAAATTGAATCAAGATGGGTGACTTATTGAGCCTCAAGTTACAAGGTTGATCAAGT
10011843 ACAAACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCAG
66 ACAAACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCAG
10011908 T
131 T
10011909 CTAGAGGGAT
Statistics
Matches: 130, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
130 8 0.06
131 122 0.94
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (131 bp):
AAAAAAGGGGAAATTGAATCAAGATGGGTGACTTATTGAGCCTCAAGTTACAAGGTTGATCAAGT
ACAAACAAGAAGAGCAAGAAATGCTGGAGATATGAGAAAATGGAAATGAATCCAAAATTTGGCAG
T
Found at i:10014073 original size:83 final size:82
Alignment explanation
Indices: 10013934--10014195 Score: 402
Period size: 83 Copynumber: 3.2 Consensus size: 82
10013924 AACATTAACT
10013934 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACA
1 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTG-ACA
10013999 GAACCAATCATTGAATTC
65 GAACCAATCATTGAATTC
* * *
10014017 AGAAGATAAATTTGCCAATATCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCA
1 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGACA
*
10014082 GAACCAATCATTGAATTT
65 GAACCAATCATTGAATTC
10014100 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACA
1 AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGACA
* *
10014165 -AAGTCAATCATTGGATT-
65 GAA-CCAATCATTGAATTC
*
10014182 TGAAAGATGAATTT
1 AG-AAGATGAATTT
10014196 TGCTCATAGT
Statistics
Matches: 166, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
82 3 0.02
83 160 0.96
84 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (82 bp):
AGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGACAG
AACCAATCATTGAATTC
Found at i:10017267 original size:76 final size:76
Alignment explanation
Indices: 10017141--10017850 Score: 1309
Period size: 76 Copynumber: 9.4 Consensus size: 76
10017131 ATTTCCCACG
*
10017141 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10017206 CCTTCGGGTCA
66 CCTTCGGGTCA
*
10017217 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10017282 CCTTCGGGTCA
66 CCTTCGGGTCA
10017293 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10017358 CCTTCGGGTCA
66 CCTTCGGGTCA
10017369 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10017434 CCTTCGGGTCA
66 CCTTCGGGTCA
*
10017445 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAA
*
10017510 ACCTTCGGGTCA
65 GCCTTCGGGTCA
10017522 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10017586 CCTTCGGGTCA
66 CCTTCGGGTCA
* *
10017597 TCTGTAAGTCCTTCAGTGCATGATTTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10017662 CCTTCGGGTCA
66 CCTTCGGGTCA
* *
10017673 CCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
10017737 CCTTCGGGTCA
66 CCTTCGGGTCA
10017748 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAAG
1 TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
*
10017812 CCTTCGGGTAA
66 CCTTCGGGTCA
10017823 TCTGTAAGTCCTTCAGTGCATGATGTTT
1 TCTGTAAGTCCTTCAGTGCATGATGTTT
10017851 TCAACGTTTC
Statistics
Matches: 617, Mismatches: 14, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
74 8 0.01
75 178 0.29
76 362 0.59
77 69 0.11
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (76 bp):
TCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
CCTTCGGGTCA
Found at i:10017985 original size:3 final size:3
Alignment explanation
Indices: 10017979--10018095 Score: 150
Period size: 3 Copynumber: 39.3 Consensus size: 3
10017969 TTTTTTAAAA
* * * * *
10017979 TAT TAT TAT TAA AAT TAT TAT TAT TAG TAT TAT TAT TAG TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10018027 TAT TAT TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
10018071 TAT TA- TAT TAT ATAT TAT TAT TAT T
1 TAT TAT TAT TAT -TAT TAT TAT TAT T
10018096 TAATAAATAA
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
2 6 0.06
3 87 0.88
4 6 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10018108 original size:18 final size:18
Alignment explanation
Indices: 10018035--10018108 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 18
10018025 ATTATTATTA
* *
10018035 TATTATATTAT-TATTAT
1 TATTATATTATAAATAAT
** *
10018052 TATTATTATTATTTATTAT
1 TATTA-TATTATAAATAAT
* *
10018071 TATTATATTATATATTAT
1 TATTATATTATAAATAAT
10018089 TATTAT-TTAATAAATAAT
1 TATTATATT-ATAAATAAT
10018107 TA
1 TA
10018109 CAAAACTGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
17 7 0.14
18 33 0.65
19 11 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATATTATAAATAAT
Found at i:10018108 original size:28 final size:27
Alignment explanation
Indices: 10017991--10018108 Score: 78
Period size: 28 Copynumber: 4.2 Consensus size: 27
10017981 TTATTATTAA
* * * *
10017991 AATTATTATTATTAGTATTATTATTAGT
1 AATTATTATTATTATTATT-TAATAAAT
* *
10018019 -ATTAGTATTATTATTATATT-ATATTAT
1 AATTATTATTATTATTAT-TTAATA-AAT
* * *
10018046 TATTATTATTATTATTATTTATTATTATT
1 AATTATTATTATTATTATTTA--ATAAAT
10018075 ATATTATATATTATTATTATTTAATAAAT
1 A-ATTAT-TATTATTATTATTTAATAAAT
10018104 AATTA
1 AATTA
10018109 CAAAACTGGA
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
26 2 0.03
27 19 0.27
28 21 0.30
29 6 0.09
30 7 0.10
31 15 0.21
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (27 bp):
AATTATTATTATTATTATTTAATAAAT
Found at i:10022466 original size:13 final size:13
Alignment explanation
Indices: 10022448--10022473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10022438 ACGTGGCGCC
10022448 AAATCAGCGTATA
1 AAATCAGCGTATA
10022461 AAATCAGCGTATA
1 AAATCAGCGTATA
10022474 GCGCGATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
AAATCAGCGTATA
Found at i:10022934 original size:30 final size:29
Alignment explanation
Indices: 10022898--10023006 Score: 114
Period size: 30 Copynumber: 3.7 Consensus size: 29
10022888 TAAAAGCATT
* *
10022898 TTTTATTTTCATCTTAACTTATTAAATATA
1 TTTTATTTTTATCTTAA-TTATAAAATATA
* * *
10022928 TTTTATTTTTTTCTCAACCTATAAAATATA
1 TTTTATTTTTATCTTAA-TTATAAAATATA
10022958 TTTTATTTTTAT-TTCAATGTA-AAAATATA
1 TTTTATTTTTATCTT-AAT-TATAAAATATA
10022987 TTTTTATTTTTATCTTAATT
1 -TTTTATTTTTATCTTAATT
10023007 TTTAAAAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
29 10 0.15
30 55 0.82
31 2 0.03
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTTATTTTTATCTTAATTATAAAATATA
Found at i:10023030 original size:14 final size:13
Alignment explanation
Indices: 10023004--10023046 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 13
10022994 TTTTATCTTA
10023004 ATTTTTAAAAATAT
1 ATTTTT-AAAATAT
10023018 ATATTTTAAAATAT
1 AT-TTTTAAAATAT
10023032 ATTTACTTAAAATAT
1 ATTT--TTAAAATAT
10023047 TTTATTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.08
14 11 0.42
15 13 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTTAAAATAT
Found at i:10023041 original size:15 final size:14
Alignment explanation
Indices: 10023011--10023053 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
10023001 TTAATTTTTA
10023011 AAAATATATATT-TT
1 AAAATATAT-TTATT
10023025 AAAATATATTTACTT
1 AAAATATATTTA-TT
10023040 AAAATAT-TTTATT
1 AAAATATATTTATT
10023053 A
1 A
10023054 TTTTTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.19
14 13 0.48
15 9 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AAAATATATTTATT
Found at i:10024033 original size:29 final size:29
Alignment explanation
Indices: 10024000--10024070 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
10023990 TGCTAGTTAG
10024000 ATTATAAATGAATAACTTGATTTTAAAAA
1 ATTATAAATGAATAACTTGATTTTAAAAA
*
10024029 ATTATAAATGAATAACTTGATTTTGAAAA
1 ATTATAAATGAATAACTTGATTTTAAAAA
10024058 ATTATAAATGAAT
1 ATTATAAATGAAT
10024071 CAATAAGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (29 bp):
ATTATAAATGAATAACTTGATTTTAAAAA
Found at i:10024949 original size:25 final size:25
Alignment explanation
Indices: 10024899--10024949 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
10024889 TAAAATTTAT
**
10024899 AAAATTTTAGAGAAAATAAACTTAA
1 AAAATTTTAGAGAAAATAAAAATAA
*
10024924 AAAATTTTATAGAAAA-AGAAAATAA
1 AAAATTTTAGAGAAAATA-AAAATAA
10024949 A
1 A
10024950 TTACCTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (25 bp):
AAAATTTTAGAGAAAATAAAAATAA
Found at i:10034407 original size:2 final size:2
Alignment explanation
Indices: 10034400--10034471 Score: 103
Period size: 2 Copynumber: 37.0 Consensus size: 2
10034390 AAGACGGATC
10034400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
10034442 -T CT -T CT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10034472 CTTCTTTATG
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 64 0.97
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10039671 original size:23 final size:22
Alignment explanation
Indices: 10039644--10039690 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
10039634 TTTATTCAAG
* *
10039644 AAGAGAAATAAGGAGAAGATAGA
1 AAGAGAAAGAAGAAGAAGA-AGA
*
10039667 AAGAGAAGGAAGAAGAAGAAGA
1 AAGAGAAAGAAGAAGAAGAAGA
10039689 AA
1 AA
10039691 AAAATGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (22 bp):
AAGAGAAAGAAGAAGAAGAAGA
Found at i:10040762 original size:2 final size:2
Alignment explanation
Indices: 10040757--10040792 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10040747 GAAAAAAATA
10040757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10040793 GATTAGAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10047898 original size:24 final size:24
Alignment explanation
Indices: 10047870--10047918 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10047860 TTTAAATTTA
10047870 AATTAC-AAATAACTTAAAATAAAT
1 AATTACTAAAT-ACTTAAAATAAAT
* *
10047894 AATTACTAAATATTTAATATAAAT
1 AATTACTAAATACTTAAAATAAAT
10047918 A
1 A
10047919 TTATTAATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTACTAAATACTTAAAATAAAT
Found at i:10049452 original size:3 final size:3
Alignment explanation
Indices: 10049446--10049516 Score: 60
Period size: 3 Copynumber: 23.7 Consensus size: 3
10049436 TAATATTATT
* *
10049446 TAA TAA TAA T-A TAT TAA TAA TAA TAA T-A TATA TAA TAA TAA T-G
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
10049489 TATA TAAA TAA TAA T-A TATA TAA TAA TA
1 TA-A T-AA TAA TAA TAA TA-A TAA TAA TA
10049517 TAAACAGACA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
2 7 0.12
3 39 0.70
4 9 0.16
5 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:10049502 original size:31 final size:32
Alignment explanation
Indices: 10049436--10049516 Score: 112
Period size: 31 Copynumber: 2.5 Consensus size: 32
10049426 TGGTATTTTG
*
10049436 TAATATTATTTAATAATAATATATTAATAATAA
1 TAATA-TATATAATAATAATATATTAATAATAA
*
10049469 TAATATATATAATAATAATGTA-T-ATAAATAA
1 TAATATATATAATAATAATATATTAAT-AATAA
10049500 TAATATATATAATAATA
1 TAATATATATAATAATA
10049517 TAAACAGACA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 2 0.04
31 23 0.51
32 15 0.33
33 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
TAATATATATAATAATAATATATTAATAATAA
Found at i:10049789 original size:41 final size:41
Alignment explanation
Indices: 10049734--10049843 Score: 105
Period size: 41 Copynumber: 2.7 Consensus size: 41
10049724 CCCAAAGGTT
* * ** * *
10049734 TGACAGACGGCCCTAAGGACTTATTATCTTTCTC-AAAGGAC
1 TGACAGATGACCCTAAGGACTTAAAATCATACTCGAAA-GAC
*
10049775 TGACAGATGACCCTAAGGATTTAAAATCATACTCGAAAGAC
1 TGACAGATGACCCTAAGGACTTAAAATCATACTCGAAAGAC
* * *
10049816 TGACAAATGACCCGAAGGATTTACAAAT
1 TGACAGATGACCCTAAGGACTTA-AAAT
10049844 TCGTGGGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 51 0.88
42 7 0.12
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (41 bp):
TGACAGATGACCCTAAGGACTTAAAATCATACTCGAAAGAC
Found at i:10050057 original size:42 final size:42
Alignment explanation
Indices: 10050006--10050096 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
10049996 AAGGACTTAT
* * *
10050006 CATCTTGCTCGAAAGACTAATAGATGATCCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAA
*
10050048 CATCATGCTCGAAAGACTAACAGATGACCCGAATGATTTAAA
1 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAA
10050090 CATCATG
1 CATCATG
10050097 AGAAATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAA
Found at i:10050097 original size:23 final size:23
Alignment explanation
Indices: 10050029--10050097 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 23
10050019 AGACTAATAG
* *
10050029 ATGATCCGAAGGATTTAAACATC
1 ATGACCCGAAAGATTTAAACATC
* * *
10050052 ATG-CTCGAAAGA-CT-AACA-G
1 ATGACCCGAAAGATTTAAACATC
*
10050071 ATGACCCGAATGATTTAAACATC
1 ATGACCCGAAAGATTTAAACATC
10050094 ATGA
1 ATGA
10050098 GAAATAATTT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 3 0.09
20 11 0.33
21 2 0.06
22 10 0.30
23 7 0.21
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (23 bp):
ATGACCCGAAAGATTTAAACATC
Found at i:10057591 original size:95 final size:95
Alignment explanation
Indices: 10057470--10057643 Score: 240
Period size: 95 Copynumber: 1.8 Consensus size: 95
10057460 TTAGTACTAT
** * * * * * * **
10057470 AATTAATCCTATAGTAATAATTAATGATTAATATACAAAATATTAAAATTACTTAACCTAATTTG
1 AATTAATAATATAATAATAATTAATGATTAAAACACAAAATAATAAAACTAATTAACCTAATTCA
*
10057535 AAATATTATTAAAACTAAATTCTAATAGTA
66 AAATACTATTAAAACTAAATTCTAATAGTA
*
10057565 AATTAATAATATAATAATAATTAATGATTAAAACATAAAATAATAAAACTAATTAACCTAATTCA
1 AATTAATAATATAATAATAATTAATGATTAAAACACAAAATAATAAAACTAATTAACCTAATTCA
10057630 AAATACTATTAAAA
66 AAATACTATTAAAA
10057644 TTATGTGCTA
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 67 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (95 bp):
AATTAATAATATAATAATAATTAATGATTAAAACACAAAATAATAAAACTAATTAACCTAATTCA
AAATACTATTAAAACTAAATTCTAATAGTA
Found at i:10058798 original size:37 final size:37
Alignment explanation
Indices: 10058748--10058829 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
10058738 ATATGGGTTC
10058748 TGGGCTTCTTGGGTCATCTGGGTCTGGATCTGCTCGT
1 TGGGCTTCTTGGGTCATCTGGGTCTGGATCTGCTCGT
10058785 TGGGCTTCTTGGGTCATCTGGGTCTGGATCTGCTCGT
1 TGGGCTTCTTGGGTCATCTGGGTCTGGATCTGCTCGT
10058822 TGGGCTTC
1 TGGGCTTC
10058830 CGTGTGTGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.05, C:0.22, G:0.35, T:0.38
Consensus pattern (37 bp):
TGGGCTTCTTGGGTCATCTGGGTCTGGATCTGCTCGT
Found at i:10058938 original size:15 final size:15
Alignment explanation
Indices: 10058909--10058957 Score: 73
Period size: 15 Copynumber: 3.2 Consensus size: 15
10058899 TGGTATTTTG
10058909 TAATATTATTTAATAA
1 TAATATTA-TTAATAA
10058925 TAATATTATTAATAA
1 TAATATTATTAATAA
10058940 TAATA-TATATAATAA
1 TAATATTAT-TAATAA
10058955 TAA
1 TAA
10058958 CGTATACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.09
15 21 0.66
16 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATTATTAATAA
Found at i:10058939 original size:12 final size:14
Alignment explanation
Indices: 10058921--10058989 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 14
10058911 ATATTATTTA
10058921 ATAATAATAT-TAT
1 ATAATAATATATAT
10058934 -TAATAATAATATAT
1 ATAATAAT-ATATAT
10058948 ATAATAATA-ACGTAT
1 ATAATAATATA--TAT
*
10058963 ACAATTAATAATATAT
1 ATAA-TAAT-ATATAT
10058979 ATAATAATATA
1 ATAATAATATA
10058990 AACGGACAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
12 7 0.15
13 3 0.07
14 7 0.15
15 17 0.37
16 10 0.22
17 1 0.02
18 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (14 bp):
ATAATAATATATAT
Found at i:10060454 original size:13 final size:13
Alignment explanation
Indices: 10060436--10060460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10060426 AAAATTATTT
10060436 AAAGAATCAAATC
1 AAAGAATCAAATC
10060449 AAAGAATCAAAT
1 AAAGAATCAAAT
10060461 TAATTAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAGAATCAAATC
Found at i:10060708 original size:22 final size:22
Alignment explanation
Indices: 10060683--10060757 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 22
10060673 AAACAAAACT
10060683 AATAAATGATAATAACTAAAAG
1 AATAAATGATAATAACTAAAAG
* *
10060705 AATAAATTATACATATACAATATATAG
1 AATAAATGATA-ATA-AC--TA-AAAG
10060732 TTAATAAATGATAATAACTAAAAG
1 --AATAAATGATAATAACTAAAAG
10060756 AA
1 AA
10060758 AACATCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 12 0.29
23 3 0.07
24 5 0.12
25 2 0.05
26 2 0.05
27 5 0.12
28 3 0.07
29 10 0.24
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (22 bp):
AATAAATGATAATAACTAAAAG
Found at i:10061325 original size:18 final size:18
Alignment explanation
Indices: 10061298--10061342 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
10061288 GAATGGATTC
10061298 CTCAGACTTGAACTTAAA
1 CTCAGACTTGAACTTAAA
*
10061316 CTCTGACTTGAACTTAAA
1 CTCAGACTTGAACTTAAA
10061334 CTCAGACTT
1 CTCAGACTT
10061343 AGATTTGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (18 bp):
CTCAGACTTGAACTTAAA
Found at i:10061450 original size:47 final size:47
Alignment explanation
Indices: 10061399--10061504 Score: 146
Period size: 47 Copynumber: 2.3 Consensus size: 47
10061389 TATATTATAT
*
10061399 TATAATATGATATA-TATATATTTTAAAAAAC-TATATATTTTCAAATA
1 TATAATAT-ATATACTATATATATTAAAAAACATATATATTTTCAAA-A
*
10061446 TATAATATATATACTATATATATTAAAAAGCTATATATATTTTCAAAA
1 TATAATATATATACTATATATATTAAAAAAC-ATATATATTTTCAAAA
10061494 -ATAATATATAT
1 TATAATATATAT
10061505 TACATAATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
46 5 0.09
47 34 0.63
48 1 0.02
49 14 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (47 bp):
TATAATATATATACTATATATATTAAAAAACATATATATTTTCAAAA
Found at i:10061484 original size:19 final size:17
Alignment explanation
Indices: 10061410--10061506 Score: 55
Period size: 17 Copynumber: 5.8 Consensus size: 17
10061400 ATAATATGAT
*
10061410 ATATATATATTTTAAAA
1 ATATATATATATTAAAA
**
10061427 A-ACTATATAT-TTTCAA
1 ATA-TATATATATTAAAA
*
10061443 ATATATA-ATA-T--AT
1 ATATATATATATTAAAA
10061456 ATACTATATATATTAAAA
1 ATA-TATATATATTAAAA
*
10061474 AGCTATATATATTTTCAAAA
1 A--TATATATATATT-AAAA
10061494 ATA-ATATATATTA
1 ATATATATATATTA
10061507 CATAATACAC
Statistics
Matches: 63, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
13 4 0.06
14 4 0.06
15 6 0.10
16 12 0.19
17 17 0.27
18 4 0.06
19 9 0.14
20 7 0.11
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (17 bp):
ATATATATATATTAAAA
Done.