Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005876.1 Hibiscus syriacus cultivar Beakdansim tig00013808_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: 777889
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:556716 original size:91 final size:93
Alignment explanation
Indices: 556525--556894 Score: 654
Period size: 90 Copynumber: 4.1 Consensus size: 93
556515 TAGATTGCTT
556525 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG--TTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
556587 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
556615 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAA-ACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
556678 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
556706 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAATGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
556768 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
556796 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
556861 TTTG--TTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
556886 AGTAAATTT
1 AGTAAATTT
556895 ATCCATTCAA
Statistics
Matches: 271, Mismatches: 2, Indels: 14
0.94 0.01 0.05
Matches are distributed among these distances:
90 146 0.54
91 94 0.35
92 21 0.08
93 10 0.04
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:556829 original size:181 final size:180
Alignment explanation
Indices: 556525--556894 Score: 642
Period size: 181 Copynumber: 2.0 Consensus size: 180
556515 TAGATTGCTT
*
556525 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTTCTTAACACTGTGAAATAGTATTT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAATGTGTTCTTAACACTGTGAAATAGTATTT
556590 GTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG
66 GTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG
556655 TATTCTTTAA-ACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TATTCTTTAACACTGTGAAATAGTATTTG--TTTGTTTTGTC-TTTGGTTGAA
556706 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAATGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAATGTG--TTC-TTAACACTGTGAAATAGTA
556768 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
63 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
556833 GTGTATTCTTTAACACTGTGAAATAGTATTTGTTTGTTTTGTCTTTGGTTGAA
128 GTGTATTCTTTAACACTGTGAAATAGTATTTGTTTGTTTTGTCTTTGGTTGAA
556886 AGTAAATTT
1 AGTAAATTT
556895 ATCCATTCAA
Statistics
Matches: 183, Mismatches: 1, Indels: 11
0.94 0.01 0.06
Matches are distributed among these distances:
180 19 0.10
181 130 0.71
182 12 0.07
183 11 0.06
184 11 0.06
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (180 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAATGTGTTCTTAACACTGTGAAATAGTATTT
GTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTG
TATTCTTTAACACTGTGAAATAGTATTTGTTTGTTTTGTCTTTGGTTGAA
Found at i:556961 original size:19 final size:19
Alignment explanation
Indices: 556937--556998 Score: 76
Period size: 17 Copynumber: 3.4 Consensus size: 19
556927 TAGTTTACTT
* *
556937 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACTCAAA
556956 TCGCAACGCGAAAC-CAAA
1 TCGCAACGCGAAACTCAAA
*
556974 TCGCAA-GCGAAA-TGAAA
1 TCGCAACGCGAAACTCAAA
556991 TCGCAACG
1 TCGCAACG
556999 ACAGAATCGC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
17 15 0.39
18 10 0.26
19 13 0.34
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTCAAA
Found at i:556985 original size:17 final size:18
Alignment explanation
Indices: 556937--557031 Score: 85
Period size: 19 Copynumber: 5.4 Consensus size: 18
556927 TAGTTTACTT
* *
556937 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAAC-CAAA
556956 TCGCAACGCGAAACCAAA
1 TCGCAACGCGAAACCAAA
**
556974 TCGCAA-GCGAAATGAAA
1 TCGCAACGCGAAACCAAA
556991 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCA-AA
557005 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACC-AAA
557024 TCGCAACG
1 TCGCAACG
557032 ACAATCGCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
13 1 0.02
14 9 0.14
16 4 0.06
17 15 0.23
18 10 0.16
19 24 0.38
20 1 0.02
ACGTcount: A:0.44, C:0.28, G:0.18, T:0.09
Consensus pattern (18 bp):
TCGCAACGCGAAACCAAA
Found at i:557010 original size:31 final size:28
Alignment explanation
Indices: 556972--557056 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 28
556962 CGCGAAACCA
556972 AATCGCAA-GCGAAATGAAATCGCAACGAC
1 AATCGCAACGCGAAA--AAATCGCAACGAC
557001 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 --AATCGCAACGCG-AA--AAAATCGCAACGAC
557034 AATCGCAACGCGAAAAAATCGCA
1 AATCGCAACGCGAAAAAATCGCA
557057 TTGCGATTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
28 9 0.18
30 2 0.04
31 20 0.40
32 3 0.06
33 15 0.30
35 1 0.02
ACGTcount: A:0.46, C:0.27, G:0.19, T:0.08
Consensus pattern (28 bp):
AATCGCAACGCGAAAAAATCGCAACGAC
Found at i:557106 original size:35 final size:33
Alignment explanation
Indices: 557057--557150 Score: 145
Period size: 35 Copynumber: 2.8 Consensus size: 33
557047 AAAAATCGCA
*
557057 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
557089 TTGCGATTTTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGA--TTTTCATTTCGCGTTGCGATTCTGTCG
557124 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
557151 TTGGTTTCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
32 6 0.11
33 20 0.36
35 30 0.54
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:557146 original size:19 final size:19
Alignment explanation
Indices: 557052--557187 Score: 96
Period size: 19 Copynumber: 7.6 Consensus size: 19
557042 CGCGAAAAAA
*
557052 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
557070 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
557086 T--CGTTGCGATTTTTTCATT
1 TCGCGTTGCGA--TTTTCATT
* *
557105 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
557121 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
557138 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
557157 TCTCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
557177 TCGTGTTGCGA
1 TCGCGTTGCGA
557188 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 15 0.16
16 8 0.09
17 8 0.09
18 13 0.14
19 31 0.33
20 11 0.12
21 7 0.08
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:558803 original size:24 final size:24
Alignment explanation
Indices: 558769--558815 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
558759 TTCTGAAAAC
558769 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
558793 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
558816 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:559511 original size:20 final size:20
Alignment explanation
Indices: 559486--559846 Score: 421
Period size: 20 Copynumber: 18.2 Consensus size: 20
559476 CAGTGTTTGT
* * *
559486 GATTTACAGATTCTCGTTGC
1 GATTTACGGATACGCGTTGC
*
559506 GATTTAC-GATTA-TCGTTGC
1 GATTTACGGA-TACGCGTTGC
* * *
559525 GATTTACAGATTCTCGTTGC
1 GATTTACGGATACGCGTTGC
*
559545 GATTTACGGATTA-TCGTTGC
1 GATTTACGGA-TACGCGTTGC
559565 GATTTACGGATA--CGTTGC
1 GATTTACGGATACGCGTTGC
*
559583 GATTTACGGATTA-TCGTTGC
1 GATTTACGGA-TACGCGTTGC
559603 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCGTTGC
*
559623 GATTTACGGATACGCATTGC
1 GATTTACGGATACGCGTTGC
559643 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCGTTGC
*
559663 GATTTACGGATACACGTTGC
1 GATTTACGGATACGCGTTGC
* *
559683 GGTTTAAGGATACGCGTTGC
1 GATTTACGGATACGCGTTGC
559703 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCGTTGC
* *
559723 GATATACGGATACGCATTGC
1 GATTTACGGATACGCGTTGC
**
559743 GATTTACCCATACGCGTTGC
1 GATTTACGGATACGCGTTGC
*
559763 GATTTACGGATACACGTTGC
1 GATTTACGGATACGCGTTGC
559783 GATTTACGGATACGCGTTGC
1 GATTTACGGATACGCGTTGC
* *
559803 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATACGCGTTGC
* ** *
559823 GATTTTCATATTCGCGTTGC
1 GATTTACGGATACGCGTTGC
559843 GATT
1 GATT
559847 ATGGAAATCG
Statistics
Matches: 303, Mismatches: 29, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
18 16 0.05
19 23 0.08
20 262 0.86
21 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GATTTACGGATACGCGTTGC
Found at i:559905 original size:20 final size:19
Alignment explanation
Indices: 559814--559967 Score: 58
Period size: 20 Copynumber: 7.8 Consensus size: 19
559804 ATTTATGTGT
* *
559814 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTT-AGAA
* *
559834 TCGCGTTGCGATTATGGAAA
1 TCGCGTTGCGATTTTAG-AA
** **
559854 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCG-ATTT-TAGAA
* *
559875 TCGCATCGCGATTTTCAGAA
1 TCGCGTTGCGATTTT-AGAA
* *
559895 TCGCGTTGCGATTCTGGAA
1 TCGCGTTGCGATTTTAGAA
* ** * * *
559914 ACTGATTTGCGATTCTGGGA
1 TC-GCGTTGCGATTTTAGAA
**
559934 TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGA-TTTTAGAA
559953 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
559968 GTTGGTCATT
Statistics
Matches: 99, Mismatches: 29, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
18 4 0.04
19 23 0.23
20 59 0.60
21 12 0.12
22 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGAA
Found at i:562942 original size:153 final size:157
Alignment explanation
Indices: 562722--563032 Score: 585
Period size: 153 Copynumber: 2.0 Consensus size: 157
562712 AAAACTTTAG
562722 CCAGAACGTACGAATCATGTTATGCATGTACAGGAAATATAATATTCATATAGATTTATATATTA
1 CCAGAACGTACGAATCATGTTAT-CATGTACAGGAAATATAATATTCATATAGATTTATATATTA
562787 CTGCAAGCTCCTGTTAAGGGCAGGAAGAACAAGATCTCCATAAGCATCGCTGCACCAGAGCTTGG
65 CTGCAAGCTCCTGTTAAGGGCAGGAAGAACAAGATCTCCATAAGCATCGCTGCACCAGAGCTTGG
562852 AAGTAATG-AGAGCTCGTCTCGAGATTT
130 AAGTAATGAAGAGCTCGTCTCGAGATTT
562879 CCAGAACGTACGAATCATG-T-T-ATGTACAGGAAATATAATATTCATATAGATTTATATATTAC
1 CCAGAACGTACGAATCATGTTATCATGTACAGGAAATATAATATTCATATAGATTTATATATTAC
562941 TGCAAGCTCCTGTTAAGGGCAGGAAGAACAAGATCTCCATAAGCATCGCTGCACCAGAGCTTGGA
66 TGCAAGCTCCTGTTAAGGGCAGGAAGAACAAGATCTCCATAAGCATCGCTGCACCAGAGCTTGGA
563006 AGTAATGAAGAGCTCGTCTCGAGATTT
131 AGTAATGAAGAGCTCGTCTCGAGATTT
563033 AACTAAGCCA
Statistics
Matches: 153, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
153 113 0.74
154 19 0.12
155 1 0.01
156 1 0.01
157 19 0.12
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (157 bp):
CCAGAACGTACGAATCATGTTATCATGTACAGGAAATATAATATTCATATAGATTTATATATTAC
TGCAAGCTCCTGTTAAGGGCAGGAAGAACAAGATCTCCATAAGCATCGCTGCACCAGAGCTTGGA
AGTAATGAAGAGCTCGTCTCGAGATTT
Found at i:566799 original size:15 final size:15
Alignment explanation
Indices: 566781--566816 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
566771 ATGTAACGAT
566781 ATAAATGAATAATTA
1 ATAAATGAATAATTA
566796 ATAAATGAATAATTA
1 ATAAATGAATAATTA
*
566811 ACAAAT
1 ATAAAT
566817 AAAACAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (15 bp):
ATAAATGAATAATTA
Found at i:566892 original size:17 final size:17
Alignment explanation
Indices: 566854--566885 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
566844 TTTTTAAAGA
566854 TATTTATATTAAATTTC
1 TATTTATATTAAATTTC
566871 TATTTAT-TTAAATTT
1 TATTTATATTAAATTT
566886 TTAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTATATTAAATTTC
Found at i:567646 original size:158 final size:154
Alignment explanation
Indices: 567461--567952 Score: 638
Period size: 151 Copynumber: 3.2 Consensus size: 154
567451 TTGAACCACG
*
567461 TGCTCCTAAACCATAGTAGAATACATGTTTACTTTCAATTCCTCTTTTTGATAACAAATTTTTAT
1 TGCTCCTAAACCATAATAGAATACATGTTTACTTTCAATTCCTCTTTTTGATAACAAATTTTTAT
* *
567526 TTTTCAATTTAGTCCTTCAATTTTTCACAATCTCCTTATTTCTTCAATTCGTCATTTATTTTAAG
66 TTTTCAATTTAGT-CTTCAATTTTTCATAATCTCCTTATTTCTTCAATTCATCATTTATTTTAA-
567591 TATGTTTTTTTATCAAATTTGAGTAGCA
129 TATG-TTTTTTA-CAAATTTGAGTAGCA
* * *
567619 TGCTCCTAAACCATAATAGAATACATGTGTGCTTTCAATCCCTCTTTTTGATAACAAAATTTTTA
1 TGCTCCTAAACCATAATAGAATACATGTTTACTTTCAATTCCTCTTTTTGATAAC-AAATTTTTA
*
567684 TTTTTCAATTTAGTTCTTCAATTTTTCATAATCTTCTTATTTCTTCAATTCATCATTTA-TTT-A
65 TTTTTCAATTTAG-TCTTCAATTTTTCATAATCTCCTTATTTCTTCAATTCATCATTTATTTTAA
* *
567747 -A-GTTTTTCACCAACTTTGAG--GCA
129 TATGTTTTTTA-CAAATTTGAGTAGCA
* * ** *
567770 TGCTCCTAAACCTTAGTAGAATACATGTTTACTACCAATTCATCTTTTTGATAACAAATTTTATA
1 TGCTCCTAAACCATAATAGAATACATGTTTACTTTCAATTCCTCTTTTTGATAACAAATTTT-TA
* * *
567835 TTTTTCAATTTAGTCTTCAATTTTTCATAATCTCCTTATTACTTCAATTTATGATTTATTTTAAA
65 TTTTTCAATTTAGTCTTCAATTTTTCATAATCTCCTTATTTCTTCAATTCATCATTTATTTT-AA
* * *
567900 TCTGTTTTTTACAAAATTCGAACTA-CA
129 TATGTTTTTTAC-AAATTTG-AGTAGCA
* *
567927 TGCTCATATACCATAATAGAATACAT
1 TGCTCCTAAACCATAATAGAATACAT
567953 ATGTAACTTC
Statistics
Matches: 291, Mismatches: 31, Indels: 25
0.84 0.09 0.07
Matches are distributed among these distances:
150 48 0.16
151 68 0.23
153 16 0.05
154 2 0.01
155 13 0.04
156 1 0.00
157 25 0.09
158 54 0.19
159 63 0.22
160 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.46
Consensus pattern (154 bp):
TGCTCCTAAACCATAATAGAATACATGTTTACTTTCAATTCCTCTTTTTGATAACAAATTTTTAT
TTTTCAATTTAGTCTTCAATTTTTCATAATCTCCTTATTTCTTCAATTCATCATTTATTTTAATA
TGTTTTTTACAAATTTGAGTAGCA
Found at i:568779 original size:23 final size:22
Alignment explanation
Indices: 568753--568812 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
568743 GTTTGCAAAT
*
568753 ATGTTCATTTAACGTTCGTCAAC
1 ATGTTCGTTTAACGTTCGTC-AC
**
568776 ATGTTCGTTTATATATTCGTCAC
1 ATGTTCGTTTA-ACGTTCGTCAC
*
568799 ATGTTTGTTTAACG
1 ATGTTCGTTTAACG
568813 ACCATGACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 1 0.03
23 22 0.73
24 7 0.23
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (22 bp):
ATGTTCGTTTAACGTTCGTCAC
Found at i:570152 original size:43 final size:43
Alignment explanation
Indices: 570105--570186 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
570095 TTTATATAAC
*
570105 ATTATGGAAATATTCCATAATCAAAATTAAATCATACTTTAAT
1 ATTATAGAAATATTCCATAATCAAAATTAAATCATACTTTAAT
*
570148 ATTATAGAAATATTCGATAATCAAAATTAAATCATACTT
1 ATTATAGAAATATTCCATAATCAAAATTAAATCATACTT
570187 CGAATATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.37
Consensus pattern (43 bp):
ATTATAGAAATATTCCATAATCAAAATTAAATCATACTTTAAT
Found at i:579523 original size:37 final size:37
Alignment explanation
Indices: 579481--579687 Score: 124
Period size: 39 Copynumber: 5.5 Consensus size: 37
579471 GACTCAAGAT
579481 TGTTTT-TCTCAAAACAAGATTTGTCTCGCTGGAGACA
1 TGTTTTAT-TCAAAACAAGATTTGTCTCGCTGGAGACA
* * ** *
579518 TGTTTTATTCAAAACAAGACATTT-TATTTGACTCAAGA-T
1 TGTTTTATTCAAAACAAG--ATTTGT-CTCG-CTGGAGACA
* * *
579557 TGTTTT-TCTAAAAACAAGATTTGTCTAGCTAGAGACA
1 TGTTTTAT-TCAAAACAAGATTTGTCTCGCTGGAGACA
* * * * * *
579594 TGTTTTATTC-AAACAATACATTTTATTTCACTGAAGATTA
1 TGTTTTATTCAAAAC-A-AGA-TTTGTCTCGCTGGAGA-CA
*
579634 T-TTTT-TTCAAAACAATATTTGTCTCGCTGGAGAC-
1 TGTTTTATTCAAAACAAGATTTGTCTCGCTGGAGACA
*
579668 TGTTTTATTTAAAACAAGAT
1 TGTTTTATTCAAAACAAGAT
579688 ATTTATTTGA
Statistics
Matches: 126, Mismatches: 28, Indels: 33
0.67 0.15 0.18
Matches are distributed among these distances:
34 1 0.01
35 4 0.03
36 32 0.25
37 32 0.25
38 11 0.09
39 39 0.31
40 7 0.06
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (37 bp):
TGTTTTATTCAAAACAAGATTTGTCTCGCTGGAGACA
Found at i:579556 original size:76 final size:75
Alignment explanation
Indices: 579402--579713 Score: 398
Period size: 75 Copynumber: 4.2 Consensus size: 75
579392 ATCTAACTGG
* * * * * *
579402 AGATTATTTTTCTTAAAACAA-ACTTTGTCTCACTTGAGACTGTTTTACTT-GAAAGAAGACATT
1 AGATTGTTTTTCTCAAAACAAGA-TTTGTCTCGCTGGAGACTGTTTTA-TTCAAAACAAGACATT
*
579465 TCATTTGACTCA
64 TTATTTGACTCA
579477 AGATTGTTTTTCTCAAAACAAGATTTGTCTCGCTGGAGACATGTTTTATTCAAAACAAGACATTT
1 AGATTGTTTTTCTCAAAACAAGATTTGTCTCGCTGGAGAC-TGTTTTATTCAAAACAAGACATTT
579542 TATTTGACTCA
65 TATTTGACTCA
* * * *
579553 AGATTGTTTTTCTAAAAACAAGATTTGTCTAGCTAGAGACATGTTTTATTC-AAACAATACATTT
1 AGATTGTTTTTCTCAAAACAAGATTTGTCTCGCTGGAGAC-TGTTTTATTCAAAACAAGACATTT
* *
579617 TATTTCACTGA
65 TATTTGACTCA
* * * * *
579628 AGATTATTTTTTTCAAAACAATATTTGTCTCGCTGGAGACTGTTTTATTTAAAACAAGATA-TTT
1 AGATTGTTTTTCTCAAAACAAGATTTGTCTCGCTGGAGACTGTTTTATTCAAAACAAGACATTTT
579692 ATTTGACTCA
66 ATTTGACTCA
579702 AGATTGTTTTTC
1 AGATTGTTTTTC
579714 CTTGAAACAG
Statistics
Matches: 207, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
74 30 0.14
75 99 0.48
76 78 0.38
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (75 bp):
AGATTGTTTTTCTCAAAACAAGATTTGTCTCGCTGGAGACTGTTTTATTCAAAACAAGACATTTT
ATTTGACTCA
Found at i:579571 original size:39 final size:39
Alignment explanation
Indices: 579457--579575 Score: 113
Period size: 39 Copynumber: 3.1 Consensus size: 39
579447 TACTTGAAAG
*
579457 AAGACATTTCATTTGACTCAAGATTGTTTTTCTCAAAAC
1 AAGACATTTTATTTGACTCAAGATTGTTTTTCTCAAAAC
* * ** *
579496 AAG--ATTTGT-CTCG-CTGGAGACATGTTTTAT-TCAAAAC
1 AAGACATTT-TATTTGACTCAAGA-TTGTTTT-TCTCAAAAC
*
579533 AAGACATTTTATTTGACTCAAGATTGTTTTTCTAAAAAC
1 AAGACATTTTATTTGACTCAAGATTGTTTTTCTCAAAAC
579572 AAGA
1 AAGA
579576 TTTGTCTAGC
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
36 5 0.08
37 22 0.37
38 3 0.05
39 25 0.42
40 5 0.08
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (39 bp):
AAGACATTTTATTTGACTCAAGATTGTTTTTCTCAAAAC
Found at i:579615 original size:151 final size:149
Alignment explanation
Indices: 579402--579713 Score: 432
Period size: 151 Copynumber: 2.1 Consensus size: 149
579392 ATCTAACTGG
* * * * *
579402 AGATTATTTTTCTTAAAACAAACTTTGTCTCACTTGAGACTGTTTTACTTGAAAGAAGACATTTC
1 AGATTGTTTTTCTAAAAACAAACTTTGTCTCACTAGAGACTGTTTTACTTCAAACAAGACATTTC
* *
579467 ATTTGACTCAAGATTGTTTTTCTCAAAACAAGATTTGTCTCGCTGGAGACATGTTTTATTCAAAA
66 ATTTCACTCAAGATTATTTTTCTCAAAACAAGATTTGTCTCGCTGGAGAC-TGTTTTATTCAAAA
579532 CAAGACATTTTATTTGACTCA
130 CAAGACA-TTTATTTGACTCA
*
579553 AGATTGTTTTTCTAAAAACAAGA-TTTGTCT-AGCTAGAGACATGTTTTA-TTCAAACAATACAT
1 AGATTGTTTTTCTAAAAACAA-ACTTTGTCTCA-CTAGAGAC-TGTTTTACTTCAAACAAGACAT
* * * * *
579615 TTTATTTCACTGAAGATTATTTTTTTCAAAACAATATTTGTCTCGCTGGAGACTGTTTTATTTAA
63 TTCATTTCACTCAAGATTATTTTTCTCAAAACAAGATTTGTCTCGCTGGAGACTGTTTTATTCAA
*
579680 AACAAGATATTTATTTGACTCA
128 AACAAGACATTTATTTGACTCA
579702 AGATTGTTTTTC
1 AGATTGTTTTTC
579714 CTTGAAACAG
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
149 25 0.17
150 20 0.14
151 91 0.63
152 8 0.06
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (149 bp):
AGATTGTTTTTCTAAAAACAAACTTTGTCTCACTAGAGACTGTTTTACTTCAAACAAGACATTTC
ATTTCACTCAAGATTATTTTTCTCAAAACAAGATTTGTCTCGCTGGAGACTGTTTTATTCAAAAC
AAGACATTTATTTGACTCA
Found at i:579741 original size:40 final size:40
Alignment explanation
Indices: 579683--580015 Score: 490
Period size: 40 Copynumber: 8.3 Consensus size: 40
579673 TATTTAAAAC
* *
579683 AAGATATTTATTTGACTCAAGATTGTTTTTCCTTGAAACAG
1 AAGAT-TTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
*
579724 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAATCAG
1 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
**
579764 AAGATTTTATCTCGTTCAAGATTGTTTTTCCTTGAAACAG
1 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
*
579804 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAT
1 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
* *
579844 AAGATTTCATCTCATTCAAGATTGTTTTTCCTTGAAACAG
1 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
* *
579884 AAGATTTTATCTCACTCAAGTTTGTTTTTCCTTGAAATAG
1 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
** *
579924 AAGATTTTATCTCGTTCAAGATTGTTTTTCCTTGAAACAA
1 AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
* **
579964 AAGATTTTATCTCGCTTGAGATTG--TTTCACTTGAAACAG
1 AAGATTTTATCTCACTCAAGATTGTTTTTC-CTTGAAACAG
580003 AAGATTTTATCTC
1 AAGATTTTATCTC
580016 GCTTGAGATA
Statistics
Matches: 266, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
38 4 0.02
39 22 0.08
40 235 0.88
41 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (40 bp):
AAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAG
Found at i:580049 original size:39 final size:39
Alignment explanation
Indices: 579957--580049 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 39
579947 GTTTTTCCTT
* * *
579957 GAAACAAAAGATTTTATCTCGCTTGAGATTGTTTCACTT
1 GAAACACAAGATTTTATCTCGCTTGAGATAGTTTCACTC
*
579996 GAAACAGAAGATTTTATCTCGCTTGAGATAGTTT-AGCTC
1 GAAACACAAGATTTTATCTCGCTTGAGATAGTTTCA-CTC
* *
580035 GAAACCCAATATTTT
1 GAAACACAAGATTTT
580050 TAGAAACTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.02
39 46 0.98
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
GAAACACAAGATTTTATCTCGCTTGAGATAGTTTCACTC
Found at i:580135 original size:43 final size:43
Alignment explanation
Indices: 580070--580298 Score: 266
Period size: 43 Copynumber: 5.3 Consensus size: 43
580060 GCCTGATTTT
* *
580070 TAGGGGTTTCTTGAAGAAAAGCTTG-AGAGACCATCGTGATATG
1 TAGGGGTTTCTTGAGGACAAGCTTGAAG-GACCATCGTGATATG
580113 TAGGGGTTTCTTGAGGACAAGCTTGAAGGACCATCGTGATATG
1 TAGGGGTTTCTTGAGGACAAGCTTGAAGGACCATCGTGATATG
* * * * *
580156 TAGGAGTTCCTTGATGACAAGCTTGAAGGTCCATCATGATATG
1 TAGGGGTTTCTTGAGGACAAGCTTGAAGGACCATCGTGATATG
* * *
580199 TAGGGG-TTCTTTGATGAAAAGCTTG-AGAGACAATCGTGATATG
1 TAGGGGTTTC-TTGAGGACAAGCTTGAAG-GACCATCGTGATATG
* * * *
580242 CAAGGGTTTCTTGAGGACAAGTTTGAAGGACCATAGTGATATG
1 TAGGGGTTTCTTGAGGACAAGCTTGAAGGACCATCGTGATATG
* *
580285 TAGAGGTTCCTTGA
1 TAGGGGTTTCTTGA
580299 TGATAAACTT
Statistics
Matches: 157, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
42 4 0.03
43 146 0.93
44 7 0.04
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (43 bp):
TAGGGGTTTCTTGAGGACAAGCTTGAAGGACCATCGTGATATG
Found at i:580249 original size:129 final size:129
Alignment explanation
Indices: 580070--580310 Score: 378
Period size: 129 Copynumber: 1.9 Consensus size: 129
580060 GCCTGATTTT
* * *
580070 TAGGGGTTTCTTGAAGAAAAGCTTGAGAGACCATCGTGATATGTAGGGGTTTCTTGAGGACAAGC
1 TAGGGGTTTCTTGAAGAAAAGCTTGAGAGACAATCGTGATATGCAAGGGTTTCTTGAGGACAAGC
* *
580135 TTGAAGGACCATCGTGATATGTAG-GAGTTCCTTGATGACAAGCTTGAAGGTCCATCATGATATG
66 TTGAAGGACCATAGTGATATGTAGAG-GTTCCTTGATGACAAACTTGAAGGTCCATCATGATATG
*
580199 TAGGGG-TTCTTTGATGAAAAGCTTGAGAGACAATCGTGATATGCAAGGGTTTCTTGAGGACAAG
1 TAGGGGTTTC-TTGAAGAAAAGCTTGAGAGACAATCGTGATATGCAAGGGTTTCTTGAGGACAAG
* *
580263 TTTGAAGGACCATAGTGATATGTAGAGGTTCCTTGATGATAAACTTGA
65 CTTGAAGGACCATAGTGATATGTAGAGGTTCCTTGATGACAAACTTGA
580311 TGAACACTTG
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
128 3 0.03
129 98 0.96
130 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (129 bp):
TAGGGGTTTCTTGAAGAAAAGCTTGAGAGACAATCGTGATATGCAAGGGTTTCTTGAGGACAAGC
TTGAAGGACCATAGTGATATGTAGAGGTTCCTTGATGACAAACTTGAAGGTCCATCATGATATG
Found at i:580548 original size:90 final size:90
Alignment explanation
Indices: 580362--580680 Score: 484
Period size: 90 Copynumber: 3.6 Consensus size: 90
580352 GTGACAATTA
* *
580362 AGAAACTGAGCCTTCGGGGGTTTCTTGATTTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCAG
1 AGAAACTAAGCCTTCGGGGGTTTCTTGA-TTTCTAAGTCCTTCGGGTCATCCATAAGACCTTCAG
* **
580427 TACAACATGTTTTCAAATGAAATTTT
65 TGCAGGATGTTTTCAAATGAAATTTT
*
580453 AGAAACTAAGCCTTCGGGGGTTTCTTGAGTTTCTAAGTCCTTC-GGTCATCCATAAGACCTTCAA
1 AGAAACTAAGCCTTCGGGGGTTTCTTGA-TTTCTAAGTCCTTCGGGTCATCCATAAGACCTTCAG
580517 TGCAGGATGTTTTCAAATGAAATTTT
65 TGCAGGATGTTTTCAAATGAAATTTT
* *
580543 AGAAACTAAGCCTTCGGGGTTTTCTTGATTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGT
1 AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGTCATCCATAAGACCTTCAGT
*
580608 GCAGGATGTTTTCAAATGAGATTTT
66 GCAGGATGTTTTCAAATGAAATTTT
* *
580633 AAGAAACTAAGCCTTC-GGGGTTTC-TGATTT-TAAATCCTTCAGGTCATC
1 -AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGTCATC
580681 TGTAAGCATT
Statistics
Matches: 212, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
88 16 0.08
89 19 0.09
90 121 0.57
91 56 0.26
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (90 bp):
AGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGTCATCCATAAGACCTTCAGT
GCAGGATGTTTTCAAATGAAATTTT
Found at i:581585 original size:102 final size:100
Alignment explanation
Indices: 581389--581590 Score: 386
Period size: 102 Copynumber: 2.0 Consensus size: 100
581379 CTTTTTTCTT
581389 TGCTTCATTTGTATTAATAATTCTAAAATTAATGAAAATCCTAAAATATGAAAATAGGAGTAGTA
1 TGCTTCATTTGTATTAATAATTCTAAAATTAATGAAAATCCTAAAATATGAAAATAGGAGTAGTA
581454 CCTTCGGGTATGGCTTTGTTGCTGAATAAAATCAA
66 CCTTCGGGTATGGCTTTGTTGCTGAATAAAATCAA
581489 TGCTTCATTTGTATTAATAATTCTAAAATTAAATGAAAATCCTAAAATATGAAAATAGGAGTAGG
1 TGCTTCATTTGTATTAATAATTCTAAAATT-AATGAAAATCCTAAAATATGAAAATAGGAGTA-G
581554 TACCTTCGGGTATGGCTTTGTTGCTGAATAAAATCAA
64 TACCTTCGGGTATGGCTTTGTTGCTGAATAAAATCAA
581591 ATCATAGACT
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
100 30 0.30
101 32 0.32
102 38 0.38
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (100 bp):
TGCTTCATTTGTATTAATAATTCTAAAATTAATGAAAATCCTAAAATATGAAAATAGGAGTAGTA
CCTTCGGGTATGGCTTTGTTGCTGAATAAAATCAA
Found at i:584741 original size:175 final size:173
Alignment explanation
Indices: 584452--584800 Score: 664
Period size: 175 Copynumber: 2.0 Consensus size: 173
584442 ATCGGTCATA
584452 TATAAGCATTTTTTCCATGTATAAAATTTATATGTCCGTAATTATAAATATAAGATAAATTATAA
1 TATAAGCATTTTTTCCATGTATAAAATTTATATGTCCGTAATTATAAATATAAGATAAATTATAA
584517 TGTAGTAACTAAAATTTTAGGACATAAGTGTCAAATTTTAATTTTGATTTTAAGTACATCACCGG
66 TGTAGTAACTAAAATTTTAGGACATAAGTGTCAAATTTTAATTTTGATTTTAAGTACATCACCGG
584582 GAAATTCAATACAGTAAGGGAAGTTACCATGTTAATCTTATTT
131 GAAATTCAATACAGTAAGGGAAGTTACCATGTTAATCTTATTT
584625 TATAAGCATTTTTTCCATGTATAAAATTTATTATGTCCGTAATTATAAATATAAGAATAAATTAT
1 TATAAGCATTTTTTCCATGTATAAAATTTA-TATGTCCGTAATTATAAATATAAG-ATAAATTAT
584690 AATGTTAGTAACT-AAATTTTAGGACATAAGTGTCAAATTTTAATTTTGATTTTAAGTACATCAC
64 AATG-TAGTAACTAAAATTTTAGGACATAAGTGTCAAATTTTAATTTTGATTTTAAGTACATCAC
584754 CGGGAAATTCAATACAGTAAGGGAAGTTACCATGTTAATCTTATTT
128 CGGGAAATTCAATACAGTAAGGGAAGTTACCATGTTAATCTTATTT
584800 T
1 T
584801 GGATGGTAAG
Statistics
Matches: 173, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
173 30 0.17
174 24 0.14
175 111 0.64
176 8 0.05
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (173 bp):
TATAAGCATTTTTTCCATGTATAAAATTTATATGTCCGTAATTATAAATATAAGATAAATTATAA
TGTAGTAACTAAAATTTTAGGACATAAGTGTCAAATTTTAATTTTGATTTTAAGTACATCACCGG
GAAATTCAATACAGTAAGGGAAGTTACCATGTTAATCTTATTT
Found at i:588316 original size:23 final size:23
Alignment explanation
Indices: 588259--588363 Score: 102
Period size: 23 Copynumber: 4.5 Consensus size: 23
588249 CATTTAAATG
* *
588259 ATAAACGAACACAAATGAACGAAC
1 ATAAACGAACAC-AATAAATGAAC
* * *
588283 ATAAGCAAACACTATAAATGAAC
1 ATAAACGAACACAATAAATGAAC
* * * *
588306 ATAAACTAACACAAATGAACGAGC
1 ATAAACGAACAC-AATAAATGAAC
*
588330 GTAAACGAACACAATAAATGAAC
1 ATAAACGAACACAATAAATGAAC
588353 ATAAACGAACA
1 ATAAACGAACA
588364 TAAATAGCAC
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
23 36 0.57
24 27 0.43
ACGTcount: A:0.57, C:0.19, G:0.11, T:0.12
Consensus pattern (23 bp):
ATAAACGAACACAATAAATGAAC
Found at i:588319 original size:47 final size:47
Alignment explanation
Indices: 588259--588368 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 47
588249 CATTTAAATG
* *
588259 ATAAACGAACACAAATGAACGAACATAAGCAAACACTATAAATGAAC
1 ATAAACGAACACAAATGAACGAACATAAACAAACACAATAAATGAAC
* * * *
588306 ATAAACTAACACAAATGAACGAGCGTAAACGAACACAATAAATGAAC
1 ATAAACGAACACAAATGAACGAACATAAACAAACACAATAAATGAAC
*
588353 ATAAACGAACATAAAT
1 ATAAACGAACACAAAT
588369 AGCACTAGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.14
Consensus pattern (47 bp):
ATAAACGAACACAAATGAACGAACATAAACAAACACAATAAATGAAC
Found at i:588632 original size:10 final size:10
Alignment explanation
Indices: 588617--588673 Score: 69
Period size: 10 Copynumber: 5.3 Consensus size: 10
588607 TAAATGAACG
588617 AACATAAACA
1 AACATAAACA
588627 AACATAAACA
1 AACATAAACA
*
588637 AACGAAAGTAAACG
1 AAC---A-TAAACA
588651 AACATAAACA
1 AACATAAACA
588661 AACATAAACA
1 AACATAAACA
588671 AAC
1 AAC
588674 GAAAGTAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 31 0.76
11 1 0.02
13 1 0.02
14 8 0.20
ACGTcount: A:0.67, C:0.19, G:0.05, T:0.09
Consensus pattern (10 bp):
AACATAAACA
Found at i:588634 original size:24 final size:24
Alignment explanation
Indices: 588602--588663 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
588592 AGATTAGGCT
**
588602 AAACATAAATGAACGAACA-TAAAC
1 AAACATAAACAAACGAA-AGTAAAC
588626 AAACATAAACAAACGAAAGTAAAC
1 AAACATAAACAAACGAAAGTAAAC
*
588650 GAACATAAACAAAC
1 AAACATAAACAAAC
588664 ATAAACAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.65, C:0.18, G:0.08, T:0.10
Consensus pattern (24 bp):
AAACATAAACAAACGAAAGTAAAC
Found at i:588652 original size:34 final size:34
Alignment explanation
Indices: 588613--588693 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
588603 AACATAAATG
588613 AACGAACATAAACAAACATAAACAAACGAAAGTA
1 AACGAACATAAACAAACATAAACAAACGAAAGTA
588647 AACGAACATAAACAAACATAAACAAACGAAAGTA
1 AACGAACATAAACAAACATAAACAAACGAAAGTA
588681 AACGAACATAAAC
1 AACGAACATAAAC
588694 GAACCAACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.64, C:0.19, G:0.09, T:0.09
Consensus pattern (34 bp):
AACGAACATAAACAAACATAAACAAACGAAAGTA
Found at i:588673 original size:24 final size:24
Alignment explanation
Indices: 588622--588704 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
588612 GAACGAACAT
* **
588622 AAACAAACATAAACAAACGA-AAGT
1 AAACGAACATAAACAAAC-ATAAAC
588646 AAACGAACATAAACAAACATAAAC
1 AAACGAACATAAACAAACATAAAC
*
588670 AAACGAA-AGTAAACGAACATAAAC
1 AAACGAACA-TAAACAAACATAAAC
* *
588694 GAACCAACATA
1 AAACGAACATA
588705 TTATCGAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.04
24 47 0.94
25 1 0.02
ACGTcount: A:0.64, C:0.19, G:0.08, T:0.08
Consensus pattern (24 bp):
AAACGAACATAAACAAACATAAAC
Found at i:588683 original size:10 final size:10
Alignment explanation
Indices: 588613--588697 Score: 62
Period size: 10 Copynumber: 7.7 Consensus size: 10
588603 AACATAAATG
588613 AACGAACATA
1 AACGAACATA
*
588623 AACAAACATA
1 AACGAACATA
*
588633 AACAAACGAAAGTA
1 AACGAAC---A-TA
588647 AACGAACATA
1 AACGAACATA
*
588657 AACAAACATA
1 AACGAACATA
*
588667 AACAAACGAAAGTA
1 AACGAAC---A-TA
588681 AACGAACATA
1 AACGAACATA
588691 AACGAAC
1 AACGAAC
588698 CAACATATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
10 43 0.68
11 2 0.03
13 2 0.03
14 16 0.25
ACGTcount: A:0.64, C:0.19, G:0.09, T:0.08
Consensus pattern (10 bp):
AACGAACATA
Found at i:595260 original size:31 final size:31
Alignment explanation
Indices: 595224--595283 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
595214 AACTTAAAAG
* *
595224 AGTTTTGCAATACAGAGATTTAAATAATTTT
1 AGTTTTACAATACAGAAATTTAAATAATTTT
*
595255 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACAGAAATTTAAATAATT
595284 CATACAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACAGAAATTTAAATAATTTT
Found at i:595771 original size:16 final size:17
Alignment explanation
Indices: 595750--595794 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
595740 AATTAAAATA
595750 AATATAAAATTTTA-AT
1 AATATAAAATTTTATAT
*
595766 AATATAAAAAATTTATAT
1 AATAT-AAAATTTTATAT
*
595784 GATATAAAATT
1 AATATAAAATT
595795 AAATATCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 5 0.21
17 13 0.54
18 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AATATAAAATTTTATAT
Found at i:595778 original size:18 final size:17
Alignment explanation
Indices: 595750--595792 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
595740 AATTAAAATA
*
595750 AATAT-AAAATTTTAAT
1 AATATAAAAAATTTAAT
595766 AATATAAAAAATTTATAT
1 AATATAAAAAATTTA-AT
*
595784 GATATAAAA
1 AATATAAAA
595793 TTAAATATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 5 0.22
17 8 0.35
18 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
AATATAAAAAATTTAAT
Found at i:595820 original size:28 final size:26
Alignment explanation
Indices: 595789--595869 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 26
595779 TATATGATAT
595789 AAAATTAAATATCTATAATATAATATTAA
1 AAAATTAAATAT-T-TAAT-TAATATTAA
* *
595818 AAAATT-AATATTTAATTTAT-TTTA
1 AAAATTAAATATTTAATTAATATTAA
* *
595842 AAAATT-AATATTAATATTAAAATTAA
1 AAAATTAAATATTTA-ATTAATATTAA
595868 AA
1 AA
595870 TCATATAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
24 16 0.36
25 7 0.16
26 9 0.20
27 1 0.02
28 5 0.11
29 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTAAATATTTAATTAATATTAA
Found at i:601426 original size:37 final size:37
Alignment explanation
Indices: 601379--601451 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
601369 GCCAACTTTA
601379 TCACCTAGTTTATTGCTCTCACTGTTGTTTCAACTTC
1 TCACCTAGTTTATTGCTCTCACTGTTGTTTCAACTTC
* *
601416 TCACTTAGTTTATTGCTCTCGCTGTTGTTTCAACTT
1 TCACCTAGTTTATTGCTCTCACTGTTGTTTCAACTT
601452 TATTCATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.15, C:0.25, G:0.12, T:0.48
Consensus pattern (37 bp):
TCACCTAGTTTATTGCTCTCACTGTTGTTTCAACTTC
Found at i:602083 original size:3 final size:3
Alignment explanation
Indices: 602077--602131 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
602067 AACACACTGG
*
602077 AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
602125 AAT AAT A
1 AAT AAT A
602132 TTTGTTGCTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:604646 original size:41 final size:42
Alignment explanation
Indices: 604601--604733 Score: 111
Period size: 42 Copynumber: 3.2 Consensus size: 42
604591 TGGAGCATCA
604601 TTAATT-AATTACTTGATCAATCCACTGGCAGGTTAGTTTGT
1 TTAATTAAATTACTTGATCAATCCACTGGCAGGTTAGTTTGT
* * * * *
604642 TTAATTAAATAAAATATTTG-CCTAT-TA-TGG--GGTTTAG--GGT
1 TTAATTAAAT----TACTTGATCAATCCACTGGCAGG-TTAGTTTGT
604682 TTAATTAAATTACTTGATCAATCCACTGGCAGGTTAGTTTGT
1 TTAATTAAATTACTTGATCAATCCACTGGCAGGTTAGTTTGT
*
604724 TTAATGAAAT
1 TTAATTAAAT
604734 AATACATTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 25
0.65 0.11 0.24
Matches are distributed among these distances:
36 5 0.07
37 3 0.04
38 1 0.01
39 3 0.04
40 16 0.24
41 10 0.15
42 18 0.26
43 3 0.04
44 1 0.01
45 3 0.04
46 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (42 bp):
TTAATTAAATTACTTGATCAATCCACTGGCAGGTTAGTTTGT
Found at i:608442 original size:31 final size:31
Alignment explanation
Indices: 608407--608481 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 31
608397 TCAAAAAACA
608407 TAAGATATAGTCACTTTCATTTTTATTTAAT
1 TAAGATATAGTCACTTTCATTTTTATTTAAT
608438 TAAGATAT-GATCACTTTCATTTTTATTTAAT
1 TAAGATATAG-TCACTTTCATTTTTATTTAAT
*
608469 TAAGATGTAGTCA
1 TAAGATATAGTCA
608482 TCATAGGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 1 0.02
31 39 0.95
32 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (31 bp):
TAAGATATAGTCACTTTCATTTTTATTTAAT
Found at i:608632 original size:27 final size:27
Alignment explanation
Indices: 608602--608664 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
608592 AAATTTTAAC
*
608602 ATAAAATATTTTTAAATGAAAATAAAA
1 ATAAAATATTTTAAAATGAAAATAAAA
* * ** *
608629 ATAAAAGATTTTAAAATTAAGTTAATA
1 ATAAAATATTTTAAAATGAAAATAAAA
608656 ATAAAATAT
1 ATAAAATAT
608665 ATTCAATAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (27 bp):
ATAAAATATTTTAAAATGAAAATAAAA
Found at i:612148 original size:29 final size:29
Alignment explanation
Indices: 612106--612215 Score: 114
Period size: 29 Copynumber: 3.8 Consensus size: 29
612096 TCCTGGATGG
*
612106 AGATATAATCTCATGCAGAATCAACACGA
1 AGATATAATCTCATGCAGAATCAAGACGA
* **
612135 AGATATAATCTCATGCATAATCAAGGTGA
1 AGATATAATCTCATGCAGAATCAAGACGA
* *
612164 GGATATAATCTCATGCA-ATATCAGGACGA
1 AGATATAATCTCATGCAGA-ATCAAGACGA
* * * *
612193 GGTTATAATCTCGTGTAGAATCA
1 AGATATAATCTCATGCAGAATCA
612216 TAAATGCGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.01
29 66 0.97
30 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (29 bp):
AGATATAATCTCATGCAGAATCAAGACGA
Found at i:612813 original size:13 final size:13
Alignment explanation
Indices: 612795--612819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
612785 GAATAAAAGA
612795 GTCAAAGTCAATG
1 GTCAAAGTCAATG
612808 GTCAAAGTCAAT
1 GTCAAAGTCAAT
612820 ATTTAACGGT
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:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (13 bp):
GTCAAAGTCAATG
Found at i:615719 original size:22 final size:23
Alignment explanation
Indices: 615685--615735 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
615675 CAACTGACAA
615685 CAAAGAAAGGTAACCGCTTCAGAG
1 CAAA-AAAGGTAACCGCTTCAGAG
* *
615709 CAAAAAA-GTAACTGCTTTAGAG
1 CAAAAAAGGTAACCGCTTCAGAG
615731 CAAAA
1 CAAAA
615736 GGCTTGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 18 0.72
23 3 0.12
24 4 0.16
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (23 bp):
CAAAAAAGGTAACCGCTTCAGAG
Found at i:617497 original size:18 final size:18
Alignment explanation
Indices: 617474--617513 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
617464 TGCCGGTTTC
* *
617474 GGCGACATGTCTATGCCG
1 GGCGACATGGCCATGCCG
617492 GGCGACATGGCCATGCCG
1 GGCGACATGGCCATGCCG
617510 GGCG
1 GGCG
617514 TGTGGTCGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.40, T:0.15
Consensus pattern (18 bp):
GGCGACATGGCCATGCCG
Found at i:620074 original size:35 final size:35
Alignment explanation
Indices: 620028--620103 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
620018 AAAACAGTCC
* *
620028 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
620063 TCAATTTCATTCTAAACTCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
620098 TCAATT
1 TCAATT
620104 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:620652 original size:130 final size:130
Alignment explanation
Indices: 620500--620747 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
620490 TAATTATATA
* **
620500 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
620565 TTAGCACATGATCATGACATGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
620630 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
620695 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTA
620748 GAAGAAAATT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACATATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:620778 original size:130 final size:129
Alignment explanation
Indices: 620514--620778 Score: 318
Period size: 130 Copynumber: 2.0 Consensus size: 129
620504 ATTTGGTCCT
* ** *
620514 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
620579 TGACATGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACATATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
620644 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * *
620709 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACATATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
620773 -A
128 CA
620774 AAATT
1 AAATT
620779 TGGGTCTTGG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 101 0.89
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACATATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:621208 original size:76 final size:74
Alignment explanation
Indices: 621111--621268 Score: 178
Period size: 76 Copynumber: 2.1 Consensus size: 74
621101 TTGTGTTTTT
* *
621111 TATTATTATAGTTTGTAAAAATGTTTTTGACAA-A-ATATAATATATAATTTTCAGAAAATGATT
1 TATTA-TATAGTTTGTAAAAATATTTTT-A-AATATATATAATATATAATTTT--GAAAA-CATT
621174 TTCGAAA-ATTTATA
60 TTCGAAACATTTATA
* * * *
621188 TATTATATAGTTTTTGAAAATATTTTTAAATATATATAATATATAGTTTTGAAAACATTTTGGAA
1 TATTATATAGTTTGTAAAAATATTTTTAAATATATATAATATATAATTTTGAAAACATTTTCGAA
*
621253 ACGTTTATA
66 ACATTTATA
621262 TATTATA
1 TATTATA
621269 GTTTTTAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
73 9 0.13
74 20 0.28
75 2 0.03
76 35 0.49
77 5 0.07
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (74 bp):
TATTATATAGTTTGTAAAAATATTTTTAAATATATATAATATATAATTTTGAAAACATTTTCGAA
ACATTTATA
Found at i:621231 original size:36 final size:37
Alignment explanation
Indices: 621145--621248 Score: 113
Period size: 36 Copynumber: 2.8 Consensus size: 37
621135 TTTTGACAAA
* * *
621145 ATATAATATATAATTTTCAGAAAATGATTTTCGAAAATTT
1 ATATAATATATAGTTTT-TGAAAAT-ATTTTC-AAAATAT
* *
621185 ATATATTATATAGTTTTTGAAAATATTTT-TAAATAT
1 ATATAATATATAGTTTTTGAAAATATTTTCAAAATAT
*
621221 ATATAATATATAG-TTTTGAAAACATTTT
1 ATATAATATATAGTTTTTGAAAATATTTT
621249 GGAAACGTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
35 14 0.25
36 17 0.30
38 5 0.09
39 6 0.11
40 15 0.26
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (37 bp):
ATATAATATATAGTTTTTGAAAATATTTTCAAAATAT
Found at i:621269 original size:36 final size:34
Alignment explanation
Indices: 621179--621513 Score: 164
Period size: 36 Copynumber: 9.6 Consensus size: 34
621169 TGATTTTCGA
* *
621179 AAATTTATATATTATATAGTTTTTGAAAATATTTTT
1 AAATTTATATA-TATATAG-TTTTGAAAACATTTTG
*
621215 AAATATATATAATATATAGTTTTGAAAACATTTTGG
1 AAATTTATAT-ATATATAGTTTTGAAAACATTTT-G
*
621251 AAACGTTTATATAT-TATAGTTTTTAAAAC------
1 AAA--TTTATATATATATAGTTTTGAAAACATTTTG
621280 --A-TTATATATATATAGTTTTGAAAACATTTTG
1 AAATTTATATATATATAGTTTTGAAAACATTTTG
*
621311 AAAACGTTTATAT-TATTATAGTTTT-AAAACACTTTG
1 -AAA--TTTATATATA-TATAGTTTTGAAAACATTTTG
** *
621347 AAAACATATATAGTATATAGTTTTAAAAACATTTTTTGTG
1 -AAATTTATATA-TATATAGTTTTGAAAACA---TTT-TG
* *
621387 AAA-TTATATAATATATAATTTTAAAAACATTTTTG
1 AAATTTATAT-ATATATAGTTTTGAAAACA-TTTTG
* * *
621422 AAAACTTATATA-AT-T--TTTTTAAAACGTTTTG
1 -AAATTTATATATATATAGTTTTGAAAACATTTTG
** * *
621453 AAAACTATGTAATATATAGTTTTCTAAAACGTATTTTTG
1 AAATTTATAT-ATATATAGTTTT-GAAAAC--A-TTTTG
*
621492 AAATATATATATTATATAGTTT
1 AAATTTATATA-TATATAGTTT
621514 ATATCATATT
Statistics
Matches: 240, Mismatches: 21, Indels: 73
0.72 0.06 0.22
Matches are distributed among these distances:
24 8 0.03
25 14 0.06
27 1 0.00
30 7 0.03
31 6 0.03
32 11 0.05
33 1 0.00
34 7 0.03
35 31 0.13
36 71 0.30
37 24 0.10
38 29 0.12
39 28 0.12
40 2 0.01
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.46
Consensus pattern (34 bp):
AAATTTATATATATATAGTTTTGAAAACATTTTG
Found at i:621288 original size:24 final size:25
Alignment explanation
Indices: 621257--621307 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
621247 TTGGAAACGT
*
621257 TTATATAT-TATAGTTTTTAAAACA
1 TTATATATATATAGTTTTGAAAACA
621281 TTATATATATATAGTTTTGAAAACA
1 TTATATATATATAGTTTTGAAAACA
621306 TT
1 TT
621308 TTGAAAACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (25 bp):
TTATATATATATAGTTTTGAAAACA
Found at i:621291 original size:61 final size:62
Alignment explanation
Indices: 621220--621341 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 62
621210 TTTTTAAATA
*
621220 TATATAATATATAGTTTTGAAAACATTTTGGAAACGTTTATA-TATTATAGTTTTTAAAACAT
1 TATATAATATATAGTTTTGAAAACATTTTGAAAACGTTTATATTATTATAG-TTTTAAAACAT
621282 TATAT-ATATATAGTTTTGAAAACATTTTGAAAACGTTTATATTATTATAGTTTTAAAACA
1 TATATAATATATAGTTTTGAAAACATTTTGAAAACGTTTATATTATTATAGTTTTAAAACA
621342 CTTTGAAAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
61 45 0.78
62 13 0.22
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (62 bp):
TATATAATATATAGTTTTGAAAACATTTTGAAAACGTTTATATTATTATAGTTTTAAAACAT
Found at i:621431 original size:37 final size:36
Alignment explanation
Indices: 621270--621513 Score: 192
Period size: 36 Copynumber: 6.8 Consensus size: 36
621260 TATATTATAG
621270 TTTTT-AAAACATTATAT-ATATATAGTTTTGAAAACA
1 TTTTTGAAAAC-TTATATAATATATAGTTTT-AAAACA
*
621306 -TTTTGAAAACGTT-TATATTATTATAGTTTTAAAACA
1 TTTTTGAAAAC-TTATATAATA-TATAGTTTTAAAACA
* * *
621342 -CTTTGAAAACATATATAGTATATAGTTTTAAAAACA
1 TTTTTGAAAACTTATATAATATATAGTTTT-AAAACA
* *
621378 TTTTTTGTGAAA-TTATATAATATATAATTTTAAAAACA
1 -TTTTTG-AAAACTTATATAATATATAGTTTT-AAAACA
621416 TTTTTGAAAACTTATATAAT-T-T--TTTTAAAAC-
1 TTTTTGAAAACTTATATAATATATAGTTTTAAAACA
* *
621447 GTTTTGAAAAC-TATGTAATATATAGTTTTCTAAAACGTA
1 TTTTTGAAAACTTATATAATATATAG-TTT-TAAAAC--A
*
621486 TTTTTG-AAA-TATATATATTATATAGTTT
1 TTTTTGAAAACT-TATATAATATATAGTTT
621514 ATATCATATT
Statistics
Matches: 172, Mismatches: 16, Indels: 38
0.76 0.07 0.17
Matches are distributed among these distances:
30 7 0.04
31 11 0.06
32 6 0.03
33 4 0.02
35 21 0.12
36 46 0.27
37 24 0.14
38 33 0.19
39 20 0.12
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTTGAAAACTTATATAATATATAGTTTTAAAACA
Found at i:621446 original size:32 final size:29
Alignment explanation
Indices: 621398--621458 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
621388 AATTATATAA
*
621398 TATATAATTTTAAAAACATTTTTGAAAACT
1 TATATAATTTTAAAAAC-GTTTTGAAAACT
*
621428 TATATAATTTTTTTAAAACGTTTTGAAAACT
1 TATATAA--TTTTAAAAACGTTTTGAAAACT
621459 ATGTAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 11 0.41
32 9 0.33
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.46
Consensus pattern (29 bp):
TATATAATTTTAAAAACGTTTTGAAAACT
Found at i:621544 original size:19 final size:19
Alignment explanation
Indices: 621522--621570 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
621512 TTATATCATA
*
621522 TTATTTATTTTATTTTATT
1 TTATTTATTTTATTTAATT
* *
621541 TTATTAATTTAATTTAATT
1 TTATTTATTTTATTTAATT
* *
621560 TCATATATTTT
1 TTATTTATTTT
621571 TTTCTCCAGG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTTATTTTATTTAATT
Found at i:622846 original size:13 final size:14
Alignment explanation
Indices: 622830--622859 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
622820 TTTCATCTAT
622830 TTTTATTATT-TTA
1 TTTTATTATTATTA
622843 TTTTATTATTATTA
1 TTTTATTATTATTA
622857 TTT
1 TTT
622860 CTTTCCCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:623496 original size:28 final size:27
Alignment explanation
Indices: 623465--623527 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
623455 ACGACAACAA
*
623465 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
623493 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
623521 ATATTTT
1 ATATTTT
623528 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:623628 original size:16 final size:18
Alignment explanation
Indices: 623607--623640 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
623597 ATTTCTTATT
623607 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
623623 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
623641 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:632847 original size:24 final size:25
Alignment explanation
Indices: 632815--632861 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
632805 CTATTCTTTC
632815 ACTTCAATCAAGC-TCGAATTTTAG
1 ACTTCAATCAAGCTTCGAATTTTAG
* *
632839 ACTTCAATCGAGCTTCTAATTTT
1 ACTTCAATCAAGCTTCGAATTTT
632862 TTTTGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (25 bp):
ACTTCAATCAAGCTTCGAATTTTAG
Found at i:637250 original size:103 final size:103
Alignment explanation
Indices: 636923--637242 Score: 554
Period size: 103 Copynumber: 3.1 Consensus size: 103
636913 AGTCGAGGGT
*
636923 ATATGTGGTCCTTCGGGAC--ATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
* *
636986 CTTGATCATTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTAGCATATGTATATGATTCTTAAGGAATG
637024 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
637089 CTTGATCCTTAGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTAGCATATGTATATGATTCTTAAGGAATG
*
637127 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
* * * *
637192 CTTGATCCCTAGTATATGTATATGAATCTTGAGGAATG
66 CTTGATCCTTAGCATATGTATATGATTCTTAAGGAATG
637230 ATATGTGGTCCTT
1 ATATGTGGTCCTT
637243 ATGGACATTA
Statistics
Matches: 209, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
101 19 0.09
103 190 0.91
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
CTTGATCCTTAGCATATGTATATGATTCTTAAGGAATG
Found at i:637292 original size:23 final size:23
Alignment explanation
Indices: 637259--637316 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
637249 ATTATTATAT
637259 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
637282 GGCACTGCGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
*
637305 GGCACTTCGGTG
1 GGCACTACGGTG
637317 TATTTATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:637326 original size:23 final size:23
Alignment explanation
Indices: 637249--637326 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
637239 CCTTATGGAC
* *
637249 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTGCGGTGCA
* * *
637273 ATTCTACGCGGCACTGCGGTGCA
1 ATTATATGTGGCACTGCGGTGCA
* * *
637296 ATTCTATGTGGCACTTCGGTGTA
1 ATTATATGTGGCACTGCGGTGCA
*
637319 TTTATATG
1 ATTATATG
637327 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTGCGGTGCA
Found at i:640525 original size:21 final size:21
Alignment explanation
Indices: 640499--640542 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
640489 ATTTATGGGA
* *
640499 AAGGGGAATCGGTACCCATTC
1 AAGGGGAACCGATACCCATTC
*
640520 AAGGGGAACCGATACCCCTTC
1 AAGGGGAACCGATACCCATTC
640541 AA
1 AA
640543 ACGAACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (21 bp):
AAGGGGAACCGATACCCATTC
Found at i:642245 original size:103 final size:103
Alignment explanation
Indices: 642066--642387 Score: 590
Period size: 103 Copynumber: 3.1 Consensus size: 103
642056 AGTCGAGGGT
*
642066 ATATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
*
642131 CTTGACCCTTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
*
642169 ATATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
642234 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
*
642272 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACACA
1 ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
* *
642337 CTTGATCCTTAGTATATGTATATGATTCTTAAGGAATG
66 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
642375 ATATGTGGTCCTT
1 ATATGTGGTCCTT
642388 ATGGACATTA
Statistics
Matches: 212, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
ATATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
Found at i:642437 original size:23 final size:23
Alignment explanation
Indices: 642404--642460 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
642394 ATTATTATAT
642404 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
642427 GGCACTGCGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
*
642450 GGCACTTCGGT
1 GGCACTACGGT
642461 TCATTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:642471 original size:23 final size:23
Alignment explanation
Indices: 642394--642471 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
642384 CCTTATGGAC
* *
642394 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTGCGGTGCA
* * *
642418 ATTCTACGCGGCACTGCGGTGCA
1 ATTATATGTGGCACTGCGGTGCA
* * *
642441 ATTCTATGTGGCACTTCGGTTCA
1 ATTATATGTGGCACTGCGGTGCA
*
642464 TTTATATG
1 ATTATATG
642472 AGCTGTGGTA
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTGCGGTGCA
Found at i:647403 original size:103 final size:102
Alignment explanation
Indices: 647224--647464 Score: 446
Period size: 103 Copynumber: 2.3 Consensus size: 102
647214 AGTCGAGGGT
*
647224 ATATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 ATATGTGGTCCTTC-GGGCATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
647289 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
65 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
647327 ATATGTGGTCCTTCGGGCTATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
1 ATATGTGGTCCTTCGGGC-ATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
647392 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
65 CTTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
647430 ATATGTGGTCCTTCGGGACATATATGTATTCTTTG
1 ATATGTGGTCCTTCGGG-CATATATGTATTCTTTG
647465 CTTAAGGAAT
Statistics
Matches: 135, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
102 3 0.02
103 131 0.97
104 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (102 bp):
ATATGTGGTCCTTCGGGCATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATG
Found at i:647454 original size:21 final size:21
Alignment explanation
Indices: 647430--647502 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
647420 TTAAGGAATG
647430 ATATGTGGTCCTTCGGGACAT
1 ATATGTGGTCCTTCGGGACAT
** **
647451 ATATGTATTCTTTGCTTAAGGA-AT
1 ATATGTGGTC----CTTCGGGACAT
647475 GATATGTGGTCCTTCGGGACAT
1 -ATATGTGGTCCTTCGGGACAT
647497 ATATGT
1 ATATGT
647503 ATTCTTTGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
21 20 0.53
22 2 0.05
24 2 0.05
25 14 0.37
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (21 bp):
ATATGTGGTCCTTCGGGACAT
Found at i:647469 original size:46 final size:46
Alignment explanation
Indices: 647419--647510 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
647409 GTATATGATT
647419 CTTAAGGAATGATATGTGGTCCTTCGGGACATATATGTATTCTTTG
1 CTTAAGGAATGATATGTGGTCCTTCGGGACATATATGTATTCTTTG
647465 CTTAAGGAATGATATGTGGTCCTTCGGGACATATATGTATTCTTTG
1 CTTAAGGAATGATATGTGGTCCTTCGGGACATATATGTATTCTTTG
647511 GAACATGTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (46 bp):
CTTAAGGAATGATATGTGGTCCTTCGGGACATATATGTATTCTTTG
Found at i:647572 original size:149 final size:149
Alignment explanation
Indices: 647316--647591 Score: 509
Period size: 149 Copynumber: 1.9 Consensus size: 149
647306 GTATATGATT
647316 CTTAAGGAATGATATGTGGTCCTTCGGGCTATATATGTATTCTTTGGAACATGTGTGAAGTCTGG
1 CTTAAGGAATGATATGTGGTCCTTCGGGCTATATATGTATTCTTTGGAACATGTGTGAAGTCTGG
* *
647381 TGAGACACATACTTGATCCTTGGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGG
66 TGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGG
647446 GACATATATGTATTCTTTG
131 GACATATATGTATTCTTTG
647465 CTTAAGGAATGATATGTGGTCCTTCGGGAC-ATATATGTATTCTTTGGAACATGTGTGAAGTCTG
1 CTTAAGGAATGATATGTGGTCCTTCGGG-CTATATATGTATTCTTTGGAACATGTGTGAAGTCTG
*
647529 GTGAGACACATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTT
65 GTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTT
647592 ATGGACATTA
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
149 122 0.99
150 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (149 bp):
CTTAAGGAATGATATGTGGTCCTTCGGGCTATATATGTATTCTTTGGAACATGTGTGAAGTCTGG
TGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGG
GACATATATGTATTCTTTG
Found at i:650334 original size:13 final size:12
Alignment explanation
Indices: 650316--650372 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
650306 ATTTATAATG
650316 TAAAATGTTATTA
1 TAAAAT-TTATTA
* * *
650329 TAAAATATAATG
1 TAAAATTTATTA
650341 TAAAATATTATTA
1 TAAAAT-TTATTA
* *
650354 TAAAATATAATA
1 TAAAATTTATTA
650366 TAAAATT
1 TAAAATT
650373 ATGTGATTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
12 19 0.56
13 15 0.44
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (12 bp):
TAAAATTTATTA
Found at i:650343 original size:25 final size:25
Alignment explanation
Indices: 650309--650371 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
650299 TGGAGACATT
*
650309 TATAATGTAAAATGTTATTATAAAA
1 TATAATGTAAAATATTATTATAAAA
650334 TATAATGTAAAATATTATTATAAAA
1 TATAATGTAAAATATTATTATAAAA
*
650359 TATAATATAAAAT
1 TATAATGTAAAAT
650372 TATGTGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (25 bp):
TATAATGTAAAATATTATTATAAAA
Found at i:650346 original size:12 final size:12
Alignment explanation
Indices: 650327--650371 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
650317 AAAATGTTAT
650327 TATAAAATATAA
1 TATAAAATATAA
* *
650339 TGTAAAATATTAT
1 TATAAAATA-TAA
650352 TATAAAATATAA
1 TATAAAATATAA
650364 TATAAAAT
1 TATAAAAT
650372 TATGTGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
TATAAAATATAA
Found at i:651497 original size:30 final size:30
Alignment explanation
Indices: 651461--651683 Score: 392
Period size: 30 Copynumber: 7.4 Consensus size: 30
651451 CCCGAAGGAC
651461 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
651491 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
651521 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
651551 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
651581 ATATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
651611 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
651641 CTATCCAGAGGTCATAAAAATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
651671 CTGTCCATAGGTC
1 CTATCCAGAGGTC
651684 CCGAAGAACC
Statistics
Matches: 184, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 184 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:652423 original size:64 final size:62
Alignment explanation
Indices: 652349--652509 Score: 164
Period size: 64 Copynumber: 2.5 Consensus size: 62
652339 TCTTTAGCAT
* * *
652349 GTGCATCGATGCAGTACCCGTA-CATCGATGCACAAATCACATTCGATGTTTTCATTTTAAGGG
1 GTGCATCGATGCACT--CCGTAGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAG
* * * ** *
652412 GATGCATCGATGCACTCCTTATGCATTGATGCACCAATTGCATTCGATGTTTCCATTTTAATAG
1 G-TGCATCGATGCACTCCGTA-GCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAG
*
652476 GTGCATCGATGCACTTCCTGT-GCATCGATACACA
1 GTGCATCGATGCAC-TCC-GTAGCATCGATGCACA
652510 CTGAACAATT
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
62 4 0.05
63 24 0.30
64 51 0.64
65 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (62 bp):
GTGCATCGATGCACTCCGTAGCATCGATGCACAAATCACATTCGATGTTTCCATTTTAAGAG
Found at i:654958 original size:30 final size:30
Alignment explanation
Indices: 654922--655084 Score: 245
Period size: 30 Copynumber: 5.4 Consensus size: 30
654912 CCCGAAGGAC
* *
654922 CTATCCAGAGGTCATAAAGATCTTCTGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
654952 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
654982 CTATCTATAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
655012 TTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
655042 CTATCCAGAGGTCATAAAAATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
655072 CTGTCCATAGGTC
1 CTATCCAGAGGTC
655085 CCGAAGAACC
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 121 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:655158 original size:31 final size:30
Alignment explanation
Indices: 655067--655162 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
655057 AAAAATCCTC
* * *
655067 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
655097 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
655128 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
655159 GGTA
1 GGTA
655163 GTTCTTTAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:655767 original size:20 final size:20
Alignment explanation
Indices: 655705--655761 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
655695 TTTCCCTTGA
*
655705 AGTGCATCGATGCATTCAAC
1 AGTGCATCGATGCATTCAAT
*
655725 AGTGCATTGATGCATTCAAT
1 AGTGCATCGATGCATTCAAT
655745 AGTGCATCGATGCATTC
1 AGTGCATCGATGCATTC
655762 TTTAGTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (20 bp):
AGTGCATCGATGCATTCAAT
Found at i:657272 original size:9 final size:9
Alignment explanation
Indices: 657260--657316 Score: 59
Period size: 9 Copynumber: 6.7 Consensus size: 9
657250 AAAATTTAAA
657260 AATTATATT
1 AATTATATT
657269 AATTAT-TT
1 AATTATATT
657277 -ATTATATT
1 AATTATATT
**
657285 AAAAATATT
1 AATTATATT
657294 -A-TATTATT
1 AATTA-TATT
657302 AATTATATT
1 AATTATATT
657311 AATTAT
1 AATTAT
657317 TTATTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
7 6 0.15
8 9 0.22
9 23 0.57
10 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
AATTATATT
Found at i:657282 original size:16 final size:16
Alignment explanation
Indices: 657261--657322 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
657251 AAATTTAAAA
657261 ATTATATTAATTATTT
1 ATTATATTAATTATTT
**
657277 ATTATATTAA--AAAT
1 ATTATATTAATTATTT
657291 ATTATATT-ATTA---
1 ATTATATTAATTATTT
657303 ATTATATTAATTATTT
1 ATTATATTAATTATTT
657319 ATTA
1 ATTA
657323 AAATAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
12 8 0.21
13 5 0.13
14 10 0.26
15 1 0.03
16 14 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATATTAATTATTT
Found at i:657285 original size:42 final size:42
Alignment explanation
Indices: 657229--657333 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
657219 ACACTTAGAC
* *
657229 TATTATATTTTATTAAAATTAAAA-ATTTAAAAATTATATTAAT
1 TATT-TATTATATTAAAAATAAAATA-TTAAAAATTATATTAAT
** **
657272 TATTTATTATATTAAAAATATTATATTATTAATTATATTAAT
1 TATTTATTATATTAAAAATAAAATATTAAAAATTATATTAAT
* *
657314 TATTTATTAAAATAAAAATA
1 TATTTATTATATTAAAAATA
657334 TTATTATAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 48 0.91
43 5 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (42 bp):
TATTTATTATATTAAAAATAAAATATTAAAAATTATATTAAT
Found at i:657306 original size:26 final size:25
Alignment explanation
Indices: 657264--657312 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
657254 TTTAAAAATT
*
657264 ATATTAATTATTTATTATATTAAAA
1 ATATTAATTATTAATTATATTAAAA
657289 ATATTATATTATTAATTATATTAA
1 ATATTA-ATTATTAATTATATTAA
657313 TTATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATTAATTATTAATTATATTAAAA
Found at i:657334 original size:25 final size:26
Alignment explanation
Indices: 657306--657368 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
657296 ATTATTAATT
*
657306 ATATTAATTAT-TTATTAAAATAAAA
1 ATATTAATTATAATATTAAAATAAAA
*
657331 ATATT-ATTATAATATTAAAATTAAA
1 ATATTAATTATAATATTAAAATAAAA
*
657356 ATTTTAAATTATA
1 ATATT-AATTATA
657369 TTCTGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 5 0.16
25 21 0.66
27 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATTAATTATAATATTAAAATAAAA
Found at i:663826 original size:2 final size:2
Alignment explanation
Indices: 663819--663846 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
663809 ACGTGTATGC
663819 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
663847 CCCTCTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:664719 original size:21 final size:21
Alignment explanation
Indices: 664695--664740 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
664685 CTCGTTCATA
664695 ATTCACCTTCTCACCATGTAT
1 ATTCACCTTCTCACCATGTAT
**
664716 ATTCTTCTTCTCACCATGTAT
1 ATTCACCTTCTCACCATGTAT
664737 ATTC
1 ATTC
664741 TTCCCCGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.04, T:0.43
Consensus pattern (21 bp):
ATTCACCTTCTCACCATGTAT
Found at i:664741 original size:21 final size:21
Alignment explanation
Indices: 664701--664743 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
664691 CATAATTCAC
664701 CTTCTCACCATGTATATTCTT
1 CTTCTCACCATGTATATTCTT
664722 CTTCTCACCATGTATATTCTT
1 CTTCTCACCATGTATATTCTT
664743 C
1 C
664744 CCCGTAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.05, T:0.47
Consensus pattern (21 bp):
CTTCTCACCATGTATATTCTT
Found at i:672064 original size:177 final size:177
Alignment explanation
Indices: 671768--672121 Score: 681
Period size: 177 Copynumber: 2.0 Consensus size: 177
671758 GTACTGAAAT
671768 TCGGATTGGAATGGAGCTTAGACTACTTGATATCAGTTTAGGGCAAAATGAGTAAGTACTAGTTT
1 TCGGATTGGAATGGAGCTTAGACTACTTGATATCAGTTTAGGGCAAAATGAGTAAGTACTAGTTT
* *
671833 TATTTATGTGTTTGTTGCTTATGTATAACTTAAGTTTGCTGTCAAGCGGGTCTAGCCGGGTACAT
66 AATTTATGTGTTTGTTGCTTATGTATAACTTAAGTTTGCTGTCAAGCGGGTCTAGCCAGGTACAT
*
671898 CTCTAGTTGGATAGTGGGTGTGGGGATGGATTTGAGAATGTACCCGC
131 CTCTAGTTGGATAATGGGTGTGGGGATGGATTTGAGAATGTACCCGC
671945 TCGGATTGGAATGGAGCTTAGACTACTTGATATCAGTTTAGGGCAAAATGAGTAAGTACTAGTTT
1 TCGGATTGGAATGGAGCTTAGACTACTTGATATCAGTTTAGGGCAAAATGAGTAAGTACTAGTTT
672010 AATTTATGTGTTTGTTGCTTATGTATAACTTAAGTTTGCTGTCAAGCGGGTCTAGCCAGGTACAT
66 AATTTATGTGTTTGTTGCTTATGTATAACTTAAGTTTGCTGTCAAGCGGGTCTAGCCAGGTACAT
672075 CTCTAGTTGGATAATGGGTGTGGGGATGGATTTGAGAATGTACCCGC
131 CTCTAGTTGGATAATGGGTGTGGGGATGGATTTGAGAATGTACCCGC
672122 GTGGGCGGGT
Statistics
Matches: 174, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
177 174 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (177 bp):
TCGGATTGGAATGGAGCTTAGACTACTTGATATCAGTTTAGGGCAAAATGAGTAAGTACTAGTTT
AATTTATGTGTTTGTTGCTTATGTATAACTTAAGTTTGCTGTCAAGCGGGTCTAGCCAGGTACAT
CTCTAGTTGGATAATGGGTGTGGGGATGGATTTGAGAATGTACCCGC
Found at i:675021 original size:19 final size:20
Alignment explanation
Indices: 674994--675033 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
674984 ACCGAAAATA
674994 TAAAAAAAAAT-TAATGTTT
1 TAAAAAAAAATATAATGTTT
*
675013 TAAATAAAAATAATAATGTTT
1 TAAAAAAAAAT-ATAATGTTT
675034 AAAGTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAAAAAATATAATGTTT
Found at i:675601 original size:11 final size:11
Alignment explanation
Indices: 675587--675625 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
675577 TTTTGGTACG
675587 TTTTT-TTAGTT
1 TTTTTATTA-TT
675598 TTTTTATTATT
1 TTTTTATTATT
675609 TTTTTATTATT
1 TTTTTATTATT
675620 TTTTTA
1 TTTTTA
675626 AGGTTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 24 0.89
12 3 0.11
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:678226 original size:2 final size:2
Alignment explanation
Indices: 678219--678264 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
678209 ATGTGATTAG
678219 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
678261 TA TA
1 TA TA
678265 GTTTGGGATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:689580 original size:31 final size:30
Alignment explanation
Indices: 689508--689626 Score: 121
Period size: 31 Copynumber: 3.8 Consensus size: 30
689498 TTTTGAAAAA
* *
689508 TAAAAAATATATTTTATTCTTATTTTAACCAAAG
1 TAAAAAATATATTTTATTCTTATCTTAA-C---T
*
689542 TAAAAAATATATTTTAGTCTTATCTTAACTT
1 TAAAAAATATATTTTATTCTTATCTTAAC-T
* *
689573 TAAAAAATATATTTTATTTTTACCTTAACT
1 TAAAAAATATATTTTATTCTTATCTTAACT
**
689603 TAAATATTTATATTTTATTCTTAT
1 TAAA-AAATATATTTTATTCTTAT
689627 AATATTCTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
30 5 0.07
31 41 0.56
33 1 0.01
34 26 0.36
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.50
Consensus pattern (30 bp):
TAAAAAATATATTTTATTCTTATCTTAACT
Found at i:689708 original size:24 final size:25
Alignment explanation
Indices: 689675--689725 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
689665 TGTTGTTAGG
689675 TTAAAATAAAAATAAAAA-ATATAT
1 TTAAAATAAAAATAAAAATATATAT
* * *
689699 TTAAATTAAAAGTAAAAATGTATAT
1 TTAAAATAAAAATAAAAATATATAT
689724 TT
1 TT
689726 TTAAGTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TTAAAATAAAAATAAAAATATATAT
Found at i:689709 original size:23 final size:25
Alignment explanation
Indices: 689678--689725 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
689668 TGTTAGGTTA
689678 AAATAAAAA-TAAAAA-ATATATTT
1 AAATAAAAAGTAAAAATATATATTT
* *
689701 AAATTAAAAGTAAAAATGTATATTT
1 AAATAAAAAGTAAAAATATATATTT
689726 TTAAGTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 6 0.29
25 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
AAATAAAAAGTAAAAATATATATTT
Found at i:689900 original size:118 final size:119
Alignment explanation
Indices: 689729--690036 Score: 315
Period size: 118 Copynumber: 2.6 Consensus size: 119
689719 TATATTTTTA
* * * *
689729 AGTTAAGATAAGAATAAAAATATATTT--TAAGTTAAAATAAAAATAA-ATAATATTTAATAATT
1 AGTTAAAATAAGAAT-AAAATATATTTAATAAGTTAAGATAAAAACAATAT-ATATTT-TTAATT
* * * *
689791 TAAGATGAAAATAAAATATATTTAATAATTTAAGTTAAGA-ATATAATATATGTA-AT
63 TAAGATGAAAATAAAATAAATTTAATAAGTTAAGATAAGATATA-AATATATATATAT
* * * * *
689847 ATGTTAATATAA-AATAAATTATTTTTAA-AAGTTAAGATAAGAACAATATATATTTTTTAAGTT
1 A-GTTAAAATAAGAATAAAATATATTTAATAAGTTAAGATAAAAACAATATATA-TTTTTAATTT
* ** * * *
689910 AAGGTGAAAATAAAATAAATTTTTTAAGTTAAGATAAGATTTAAATATATATTTTT
64 AAGATGAAAATAAAATAAATTTAATAAGTTAAGATAAGATATAAATATATATATAT
*
689966 AGTTAAAATAAGAATAAAATATATTTAATAAGTTAAGATAAAAACAAAATATAATTTTTAAATTT
1 AGTTAAAATAAGAATAAAATATATTTAATAAGTTAAGATAAAAACAATATAT-ATTTTT-AATTT
690031 AAGATG
64 AAGATG
690037 TGAATTTAAT
Statistics
Matches: 154, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
117 9 0.06
118 77 0.50
119 32 0.21
120 26 0.17
121 10 0.06
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (119 bp):
AGTTAAAATAAGAATAAAATATATTTAATAAGTTAAGATAAAAACAATATATATTTTTAATTTAA
GATGAAAATAAAATAAATTTAATAAGTTAAGATAAGATATAAATATATATATAT
Found at i:689956 original size:148 final size:145
Alignment explanation
Indices: 689721--690008 Score: 321
Period size: 148 Copynumber: 2.0 Consensus size: 145
689711 TAAAAATGTA
*
689721 TATTTTTAAGTTAAGATAAGAATAAAAATATATTTTAAGTTAAAATAAAAATAAATAATATTTAA
1 TATTTTTAAGTTAAGATAAGAACAAAAATATATTTTAAGTTAAAATAAAAATAAATAATATTTAA
* * ** * *
689786 TAATTTAAGATGAAAATAAAATATAT-TTAATAATTTAAGTTAAGAATATAATATATGTAATATG
66 TAAGTTAAGATGAAAATAAAATATATATT-ATAAGTTAAAATAAGAATAAAATATATGTAATAAG
*
689850 TTAATATAAAATAAAT
130 TTAAGATAAAATAAAT
* * ** *
689866 TATTTTTAAAAGTTAAGATAAGAACAATATATATTTTTTAAGTTAAGGTGAAAATAAAATAA-AT
1 TATTTTT--AAGTTAAGATAAGAACAA-AAATATATTTTAAGTTAAAATAAAAAT-AAATAATAT
** * * * * *
689930 TTTTTAAGTTAAGAT-AAGATTTAAATATATATTTTTAGTTAAAATAAGAATAAAATATATTTAA
62 TTAATAAGTTAAGATGAA-AATAAAATATATATTATAAGTTAAAATAAGAATAAAATATATGTAA
689994 TAAGTTAAGATAAAA
126 TAAGTTAAGATAAAA
690009 ACAAAATATA
Statistics
Matches: 117, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
145 7 0.06
147 19 0.16
148 83 0.71
149 8 0.07
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.39
Consensus pattern (145 bp):
TATTTTTAAGTTAAGATAAGAACAAAAATATATTTTAAGTTAAAATAAAAATAAATAATATTTAA
TAAGTTAAGATGAAAATAAAATATATATTATAAGTTAAAATAAGAATAAAATATATGTAATAAGT
TAAGATAAAATAAAT
Found at i:690015 original size:30 final size:30
Alignment explanation
Indices: 689719--690018 Score: 238
Period size: 30 Copynumber: 10.1 Consensus size: 30
689709 AGTAAAAATG
* *
689719 TATATTT-TTAAGTTAAGATAAGAATAAAAA
1 TATATTTAATAAGTTAAGATAAAAAT-AAAA
*
689749 TATATTT--TAAGTTAAAATAAAAAT-AAA
1 TATATTTAATAAGTTAAGATAAAAATAAAA
* *
689776 TAATATTTAATAATTTAAGATGAAAATAAAA
1 T-ATATTTAATAAGTTAAGATAAAAATAAAA
* * * *
689807 TATATTTAATAATTTAAGTTAAGAATATAA
1 TATATTTAATAAGTTAAGATAAAAATAAAA
* * * *
689837 TATATGTAATATGTTAATAT-AAAATAAAT
1 TATATTTAATAAGTTAAGATAAAAATAAAA
* * * *
689866 TATTTTTAA-AAGTTAAGATAAGAACAATA
1 TATATTTAATAAGTTAAGATAAAAATAAAA
** * *
689895 TATATTTTTTAAGTTAAGGTGAAAATAAAA
1 TATATTTAATAAGTTAAGATAAAAATAAAA
* ** **
689925 TAAATTTTTTAAGTTAAGATAAGATTTAAATA
1 TATATTTAATAAGTTAAGATAA-AAATAAA-A
* * *
689957 TATATTT--TTAGTTAAAATAAGAATAAAA
1 TATATTTAATAAGTTAAGATAAAAATAAAA
*
689985 TATATTTAATAAGTTAAGATAAAAACAAAA
1 TATATTTAATAAGTTAAGATAAAAATAAAA
690015 TATA
1 TATA
690019 ATTTTTAAAT
Statistics
Matches: 212, Mismatches: 48, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
27 4 0.02
28 22 0.10
29 43 0.20
30 127 0.60
31 9 0.04
32 7 0.03
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (30 bp):
TATATTTAATAAGTTAAGATAAAAATAAAA
Found at i:690049 original size:18 final size:18
Alignment explanation
Indices: 690026--690071 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
690016 ATAATTTTTA
690026 AATTTAAGATGTGAATTT
1 AATTTAAGATGTGAATTT
*
690044 AATTTAATATGTGAATTT
1 AATTTAAGATGTGAATTT
*
690062 AAGTTAAGAT
1 AATTTAAGAT
690072 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.43
Consensus pattern (18 bp):
AATTTAAGATGTGAATTT
Found at i:692995 original size:11 final size:11
Alignment explanation
Indices: 692981--693010 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
692971 ATTTGATACA
692981 TATAATTTTAT
1 TATAATTTTAT
692992 TATAATTTTAT
1 TATAATTTTAT
693003 TAT-ATTTT
1 TATAATTTT
693011 CATTTTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATAATTTTAT
Found at i:693462 original size:24 final size:24
Alignment explanation
Indices: 693430--693478 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
693420 GGTACGGATG
693430 ATACGAGACAACAATGGCCATTGA
1 ATACGAGACAACAATGGCCATTGA
693454 ATACGAGACAACAATGGCCATTGA
1 ATACGAGACAACAATGGCCATTGA
693478 A
1 A
693479 AGCCCTCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (24 bp):
ATACGAGACAACAATGGCCATTGA
Found at i:693805 original size:2 final size:2
Alignment explanation
Indices: 693798--693849 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
693788 ATTTTCTATC
693798 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
693840 AT AT AT AT AT
1 AT AT AT AT AT
693850 GAGATAAGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:695520 original size:57 final size:57
Alignment explanation
Indices: 695458--695629 Score: 283
Period size: 57 Copynumber: 3.0 Consensus size: 57
695448 TTTATTTTGT
* *
695458 TGCATGTTAATTAAATTATTTTGTTTATTAACCT-TTAACTATATTGATATTTTTATG
1 TGCATGTTGATTAAATTATTTTGTTTATTAA-CTATTAACTATATTGATATTTTTAGG
*
695515 TGCATGTTGATTAAATTATTTTGTTAATTAACTATTAACTATATTGATATTTTTAGG
1 TGCATGTTGATTAAATTATTTTGTTTATTAACTATTAACTATATTGATATTTTTAGG
* *
695572 TGCATGTTGATTAAATTATTTTGTTTATTAACTATTAAATATATTGATATTTTCAGG
1 TGCATGTTGATTAAATTATTTTGTTTATTAACTATTAACTATATTGATATTTTTAGG
695629 T
1 T
695630 TATACAAATT
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 2 0.02
57 106 0.98
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (57 bp):
TGCATGTTGATTAAATTATTTTGTTTATTAACTATTAACTATATTGATATTTTTAGG
Found at i:699131 original size:21 final size:22
Alignment explanation
Indices: 699106--699187 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
699096 CCAGAACCCT
* * *
699106 AGGGGGTATTGATTCCCCTAC-
1 AGGGGGAATCGATTCCCCTTCA
* *
699127 AGGGGGAATCGGTTCTCCTTCA
1 AGGGGGAATCGATTCCCCTTCA
*
699149 AAGGGGAATCGATTCCCCTTCA
1 AGGGGGAATCGATTCCCCTTCA
*
699171 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
699188 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 16 0.32
22 34 0.68
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTCA
Found at i:706054 original size:21 final size:21
Alignment explanation
Indices: 706009--706054 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
705999 CAACATTGAT
*
706009 CCAAAGCTTCCCATCAACAGG
1 CCAAAGCTTCCCATCAACAGA
706030 CCAAAGCTTCCCATCATA-AGA
1 CCAAAGCTTCCCATCA-ACAGA
706051 CCAA
1 CCAA
706055 CAATTTGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.15
Consensus pattern (21 bp):
CCAAAGCTTCCCATCAACAGA
Found at i:710340 original size:3 final size:3
Alignment explanation
Indices: 710334--710365 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
710324 ACATTATTAT
710334 TAA TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
710366 GATAGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:710693 original size:52 final size:52
Alignment explanation
Indices: 710624--711226 Score: 1059
Period size: 52 Copynumber: 11.6 Consensus size: 52
710614 TCACTCTCTA
* * *
710624 TTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGAT-TGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACG-GGTCTGCCCAAT
*
710676 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
710728 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
710780 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAA-
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
710831 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* *
710883 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
710935 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
710987 TTTCTTCAGGGACTAGAACTCGAA-AATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
*
711038 TTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
* **
711090 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGAATGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
711142 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
711194 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCT
711227 CCAACGATCG
Statistics
Matches: 525, Mismatches: 23, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
51 102 0.19
52 423 0.81
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (52 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAAT
Found at i:710907 original size:155 final size:156
Alignment explanation
Indices: 710624--711226 Score: 1077
Period size: 155 Copynumber: 3.9 Consensus size: 156
710614 TCACTCTCTA
* * *
710624 TTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGAT-TGCCCAATTTTCTTCAGGGA
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACG-GGTCTGCCCAATTTTCTTCAGGGA
*
710688 CTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAATTTTCTTCAGGGACTAGAACTCGAAC
65 CTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAAC
710753 AATAATCTTCCTACGAGACTGCCCAAT
130 AATAATCTTCCTACGAGACTGCCCAAT
710780 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAA-TTTCTTCAGGGAC
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
*
710844 TAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAATTTTCTTCAGGGACTAGAACTCGAACA
66 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACA
710909 ATAATCTTCCTACGAGACTGCCCAAT
131 ATAATCTTCCTACGAGACTGCCCAAT
710935 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
*
711000 TAGAACTCGAA-AATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAAGGACTAGAACTCGAACA
66 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACA
* *
711064 ATAATCTTCCTACGGGTCTGCCCAAT
131 ATAATCTTCCTACGAGACTGCCCAAT
* **
711090 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGAGAATGCCCAATTTTCTTCAGGGAC
1 TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
711155 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACA
66 TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACA
711220 ATAATCT
131 ATAATCT
711227 CCAACGATCG
Statistics
Matches: 433, Mismatches: 11, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
155 305 0.70
156 128 0.30
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (156 bp):
TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGAC
TAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACA
ATAATCTTCCTACGAGACTGCCCAAT
Found at i:710941 original size:207 final size:207
Alignment explanation
Indices: 710623--711226 Score: 1077
Period size: 207 Copynumber: 2.9 Consensus size: 207
710613 TTCACTCTCT
* * *
710623 ATTTCTTCAGGGAGTAGAACTCGAACGATAATCTTCCTACGAGAT-TGCCCAATTTTCTTCAGGG
1 ATTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACG-GGTCTGCCCAATTTTCTTCAGGG
* * *
710687 ACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAATTTTCTTCAGGGACTAGAACTCGAA
65 ACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAA
* *
710752 CAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCT
130 CAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCT
710817 ACGGGTCTGCCCA
195 ACGGGTCTGCCCA
*
710830 ATTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGTCCAATTTTCTTCAGGGA
1 ATTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGA
710895 CTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAAC
66 CTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAAC
710960 AATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAA-AATAATCTTCCTA
131 AATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTA
711024 CGGGTCTGCCCA
196 CGGGTCTGCCCA
*
711036 ATTTTCTTCAAGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGG
1 A-TTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGG
*
711101 ACTAGAACTCGAACAATAATCTTCCTACGAGAATGCCCAATTTTCTTCAGGGACTAGAACTCGAA
65 ACTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAA
711166 CAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCT
130 CAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCT
711227 CCAACGATCG
Statistics
Matches: 382, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
206 28 0.07
207 346 0.91
208 8 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (207 bp):
ATTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGA
CTAGAACTCGAACAATAATCTTCCTACGAGACTGCCCAATTTTCTTCAGGGACTAGAACTCGAAC
AATAATCTTCCTACGGGTCTGCCCAATTTTCTTCAGGGACTAGAACTCGAACAATAATCTTCCTA
CGGGTCTGCCCA
Found at i:711175 original size:28 final size:28
Alignment explanation
Indices: 711092--711176 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 28
711082 TGCCCAATTT
711092 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTCAGGGACTAGAACTCGAACAATAA
** * ** **
711120 TCTTC--CTACGAGAA-T-GCCCAATTT
1 TCTTCAGGGACTAGAACTCGAACAATAA
711144 TCTTCAGGGACTAGAACTCGAACAATAA
1 TCTTCAGGGACTAGAACTCGAACAATAA
711172 TCTTC
1 TCTTC
711177 CTACGGGTCT
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 10 0.26
25 1 0.03
26 12 0.31
27 1 0.03
28 15 0.38
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (28 bp):
TCTTCAGGGACTAGAACTCGAACAATAA
Found at i:711281 original size:55 final size:55
Alignment explanation
Indices: 711222--711502 Score: 476
Period size: 55 Copynumber: 5.1 Consensus size: 55
711212 CTCGAACAAT
*
711222 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
711277 AATCTTCAACAATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
711332 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
711385 AATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
711440 AATCTTCAACGATCGCGTCTGCCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACGATCGCGTCTG-CCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
711496 AATCTTC
1 AATCTTC
711503 TTTTGCTTCA
Statistics
Matches: 210, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
53 48 0.23
54 4 0.02
55 118 0.56
56 40 0.19
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (55 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:711431 original size:108 final size:110
Alignment explanation
Indices: 711222--711502 Score: 494
Period size: 108 Copynumber: 2.6 Consensus size: 110
711212 CTCGAACAAT
*
711222 AATCTCCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
711287 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
* *
711332 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA-TC-CACAATCTTCATC
1 AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* *
711395 AATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAT
66 AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
711440 AATCTTCAACGATCGCGTCTGCCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 AATCTTCAACGATCGCGTCTG-CCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
711503 TTTTGCTTCA
Statistics
Matches: 162, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
108 75 0.46
109 29 0.18
110 49 0.30
111 9 0.06
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (110 bp):
AATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
AATCGCGTCTGCCCCCTATTTATTCAGAGAGTATAAGACTCGAAC
Found at i:712794 original size:8 final size:8
Alignment explanation
Indices: 712781--712883 Score: 66
Period size: 8 Copynumber: 12.5 Consensus size: 8
712771 TTGAACCCCC
712781 TTTTATTT
1 TTTTATTT
712789 TTTTATTT
1 TTTTATTT
* *
712797 TTTTCTTC
1 TTTTATTT
* *
712805 TTCTCTTT
1 TTTTATTT
*
712813 TTCTTCTTT
1 TT-TTATTT
*
712822 TTTT-TCTA
1 TTTTAT-TT
*
712830 TTTCATTT
1 TTTTATTT
712838 TTTTCATTT
1 TTTT-ATTT
712847 TTTTCATTT
1 TTTT-ATTT
712856 TTTTCATTT
1 TTTT-ATTT
*
712865 TTTCA-TT
1 TTTTATTT
*
712872 TTTCATTT
1 TTTTATTT
712880 TTTT
1 TTTT
712884 TTATCTTTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
7 8 0.10
8 38 0.48
9 33 0.42
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTATTT
Found at i:712813 original size:14 final size:12
Alignment explanation
Indices: 712794--712828 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
712784 TATTTTTTTA
712794 TTTTTTTCTTCT
1 TTTTTTTCTTCT
712806 TCTCTTTTTCTTCT
1 T-T-TTTTTCTTCT
712820 TTTTTTTCT
1 TTTTTTTCT
712829 ATTTCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 2 0.10
14 11 0.52
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:712839 original size:26 final size:24
Alignment explanation
Indices: 712786--712874 Score: 74
Period size: 26 Copynumber: 3.6 Consensus size: 24
712776 CCCCCTTTTA
712786 TTTTTTT-ATTTTTTTCT-TCTTCTC
1 TTTTTTTCATTTTTTTCTAT-TTC-C
* *
712810 TTTTTCTTCTTTTTTTTCTATTTCA
1 TTTTT-TTCATTTTTTTCTATTTCC
* *
712835 TTTTTTTCATTTTTTTCATTTTTTTC
1 TTTTTTTCATTTTTTTC--TATTTCC
*
712861 ATTTTTTCATTTTT
1 TTTTTTTCATTTTT
712875 CATTTTTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
24 16 0.30
25 7 0.13
26 29 0.55
27 1 0.02
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTTTCATTTTTTTCTATTTCC
Found at i:712840 original size:18 final size:17
Alignment explanation
Indices: 712781--712883 Score: 83
Period size: 16 Copynumber: 6.2 Consensus size: 17
712771 TTGAACCCCC
712781 TTTT-ATTTTTTTATTT
1 TTTTCATTTTTTTATTT
* * *
712797 TTTTC-TTCTTCTCTTT
1 TTTTCATTTTTTTATTT
*
712813 TTCTTC-TTTTTTT-TCT
1 TT-TTCATTTTTTTATTT
*
712829 ATTTCATTTTTTTCATTT
1 TTTTCATTTTTTT-ATTT
712847 TTTTCATTTTTTTCA-TT
1 TTTTCATTTTTTT-ATTT
*
712864 TTTTCA-TTTTTCATTT
1 TTTTCATTTTTTTATTT
712880 TTTT
1 TTTT
712884 TTATCTTTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
15 4 0.06
16 35 0.49
17 16 0.23
18 16 0.23
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCATTTTTTTATTT
Found at i:712857 original size:33 final size:32
Alignment explanation
Indices: 712810--712883 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
712800 TCTTCTTCTC
*
712810 TTTTTCTTCTTTTTTTTCTATTTCATT-TTTTTCA
1 TTTTT-TTCATTTTTTTC-ATTT-ATTATTTTTCA
*
712844 TTTTTTTCATTTTTTTCATTTTTTCATTTTTCA
1 TTTTTTTCATTTTTTTCATTTATT-ATTTTTCA
712877 TTTTTTT
1 TTTTTTT
712884 TTATCTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 2 0.06
32 4 0.11
33 25 0.69
34 5 0.14
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.78
Consensus pattern (32 bp):
TTTTTTTCATTTTTTTCATTTATTATTTTTCA
Found at i:712874 original size:9 final size:9
Alignment explanation
Indices: 712781--712883 Score: 91
Period size: 9 Copynumber: 12.4 Consensus size: 9
712771 TTGAACCCCC
712781 TTTT-ATTT
1 TTTTCATTT
712789 TTTT-ATTT
1 TTTTCATTT
*
712797 TTTTC-TTC
1 TTTTCATTT
*
712805 TTCTC-TTT
1 TTTTCATTT
712813 TTCTTC-TTT
1 TT-TTCATTT
*
712822 TTTT--TCT
1 TTTTCATTT
*
712829 ATTTCATTT
1 TTTTCATTT
712838 TTTTCATTT
1 TTTTCATTT
712847 TTTTCATTT
1 TTTTCATTT
712856 TTTTCA-TT
1 TTTTCATTT
712864 TTTTCA--T
1 TTTTCATTT
712871 TTTTCATTT
1 TTTTCATTT
712880 TTTT
1 TTTT
712884 TTATCTTTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
7 12 0.15
8 32 0.40
9 37 0.46
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCATTT
Found at i:712883 original size:17 final size:17
Alignment explanation
Indices: 712837--712884 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
712827 CTATTTCATT
712837 TTTTTCA-TTTTTTTCA
1 TTTTTCATTTTTTTTCA
712853 TTTTT--TTCATTTTTTCA
1 TTTTTCATT--TTTTTTCA
712870 TTTTTCATTTTTTTT
1 TTTTTCATTTTTTTT
712885 TATCTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
15 1 0.04
16 5 0.19
17 19 0.70
19 2 0.07
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTCATTTTTTTTCA
Done.