Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 70 of 106
Found at i:12787088 original size:2 final size:2
Alignment explanation
Indices: 12787081--12787117 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12787071 TCGTAATCTA
12787081 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12787118 AGAGGGAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12787326 original size:2 final size:2
Alignment explanation
Indices: 12787314--12787354 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
12787304 ATCCTTCTCT
12787314 TA TA T- 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
12787355 AACAAAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12787819 original size:9 final size:9
Alignment explanation
Indices: 12787784--12787841 Score: 57
Period size: 8 Copynumber: 6.3 Consensus size: 9
12787774 TGTTATTATT
12787784 AAATACAATA
1 AAATACAA-A
12787794 ATAATACAAA
1 A-AATACAAA
*
12787804 TAA-ACAAA
1 AAATACAAA
12787812 AAATACAAAA
1 AAATAC-AAA
*
12787822 AAATAGAAA
1 AAATACAAA
12787831 AAATA-AAA
1 AAATACAAA
12787839 AAA
1 AAA
12787842 CAAAGGGGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
8 13 0.31
9 12 0.29
10 10 0.24
11 7 0.17
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.14
Consensus pattern (9 bp):
AAATACAAA
Found at i:12787831 original size:17 final size:17
Alignment explanation
Indices: 12787796--12787845 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
12787786 ATACAATAAT
*
12787796 AATACAAATAAACAAAA
1 AATACAAAAAAACAAAA
*
12787813 AATACAAAAAAATAGAAA
1 AATACAAAAAAACA-AAA
*
12787831 AA-ATAAAAAAACAAA
1 AATACAAAAAAACAAA
12787846 GGGGGCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 2 0.07
17 21 0.75
18 5 0.18
ACGTcount: A:0.80, C:0.08, G:0.02, T:0.10
Consensus pattern (17 bp):
AATACAAAAAAACAAAA
Found at i:12793663 original size:10 final size:9
Alignment explanation
Indices: 12793639--12793673 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
12793629 AAACGATCTC
*
12793639 AAAAAAAAG
1 AAAAAAAAT
*
12793648 AGAAAAAAT
1 AAAAAAAAT
12793657 AAAAAAAAT
1 AAAAAAAAT
12793666 AAAAAAAA
1 AAAAAAAA
12793674 GGTGATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.89, C:0.00, G:0.06, T:0.06
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:12794853 original size:14 final size:15
Alignment explanation
Indices: 12794825--12794854 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12794815 GATTTTGTCA
12794825 TTAAAATATAATTTT
1 TTAAAATATAATTTT
12794840 TTAAAATA-AATTTT
1 TTAAAATATAATTTT
12794854 T
1 T
12794855 GAAAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAAATATAATTTT
Found at i:12796146 original size:99 final size:99
Alignment explanation
Indices: 12795859--12796388 Score: 503
Period size: 99 Copynumber: 5.3 Consensus size: 99
12795849 ATCATTTGCA
* * *
12795859 TTTTCTTTAGTGACGATATCCGAAGTCATTT-TCATCTTCTCAGTAGTGATATCCAAGTGTTAAA
1 TTTTCTTTAGTGACGATATCCGAAGTCATTTGT-ATCTTCTCAGTGGTGATATTCGAGTGTTAAA
*
12795923 GCTTGAATTGTATTTTCTCGAA-GGTGATATTTGAG
65 GCTTGAATTGTATTTTCTC-AATGGTGATATTCGAG
* ** * *
12795958 TTTCCTTT-GATGACGATATCCGAAGTCATTTACATCTTTTTCAGTAGTGATATTCGAGTGTTAA
1 TTTTCTTTAG-TGACGATATCCGAAGTCATTTGTATC-TTCTCAGTGGTGATATTCGAGTGTTAA
* * ** * *
12796022 AGCTTGAATTATATTTTTTTTATGGTGATGTTCAAG
64 AGCTTGAATTGTATTTTCTCAATGGTGATATTCGAG
* ** * *
12796058 TTTTCTTCAGTGGTGATATCCGAAGTCATTTGTATCTTCTCAGTGGTGATATTTGAGTGTTAAAA
1 TTTTCTTTAGTGACGATATCCGAAGTCATTTGTATCTTCTCAGTGGTGATATTCGAGTGTTAAAG
12796123 CTTGAATTGTATTTTCTCAATGGTGATATTCGAG
66 CTTGAATTGTATTTTCTCAATGGTGATATTCGAG
* * * * * * * * *
12796157 -TTTCCTTCGATAACGATATCTGAAGTCATTTGCATATTCTCAATGGTGATATCCAAGTGTTAAA
1 TTTTCTTTAG-TGACGATATCCGAAGTCATTTGTATCTTCTCAGTGGTGATATTCGAGTGTTAAA
* * *
12796221 GCTTGAATTGTATTTTTTTTTTCGATGGTGATATTCTAG
65 GCTTGAATTGTA----TTTTCTCAATGGTGATATTCGAG
* * * * *
12796260 TTTTCCTTTGGTGGCGAAATCCGAAGTAATTTGTATTTTCTC-GATGGTGATATTCGAGTGTTAA
1 TTTT-CTTTAGTGACGATATCCGAAGTCATTTGTATCTTCTCAG-TGGTGATATTCGAGTGTTAA
** * * * *
12796324 AATTTGAATTGCATTTTCTCAATAGTAATATTTGAG
64 AGCTTGAATTGTATTTTCTCAATGGTGATATTCGAG
* ** *
12796360 TTTTCTTTGGTGGTGATATCTGAAGTCAT
1 TTTTCTTTAGTGACGATATCCGAAGTCAT
12796389 CTAAAAAAAA
Statistics
Matches: 348, Mismatches: 70, Indels: 26
0.78 0.16 0.06
Matches are distributed among these distances:
98 7 0.02
99 161 0.46
100 100 0.29
101 1 0.00
103 20 0.06
104 55 0.16
105 4 0.01
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (99 bp):
TTTTCTTTAGTGACGATATCCGAAGTCATTTGTATCTTCTCAGTGGTGATATTCGAGTGTTAAAG
CTTGAATTGTATTTTCTCAATGGTGATATTCGAG
Found at i:12796240 original size:199 final size:201
Alignment explanation
Indices: 12795859--12796362 Score: 642
Period size: 199 Copynumber: 2.5 Consensus size: 201
12795849 ATCATTTGCA
* * * *
12795859 TTTTCTTTAGTGACGATATCCGAAGTCATTT-TCATCTTCTCAGTAGTGATATCCAAGTGTTAAA
1 TTTTCTTTAGTGGCGATATCCGAAGTCATTTGT-ATCTTCTCAGTGGTGATATTCGAGTGTTAAA
* * *
12795923 GCTTGAATTGTATTTTCTCGAA-GGTGATATTTGAGTTTCCTTTGATGACGATATCCGAAGTCAT
65 ACTTGAATTGTATTTTCTC-AATGGTGATATTTGAGTTTCCTTCGATAACGATATCCGAAGTCAT
* * * * *
12795987 TTACATCTTTTTCAGTAGTGATATTCGAGTGTTAAAGCTTGAATTATA-TTTTTTTT-ATGGTGA
129 TTACATCATTCTCAATAGTGATATCCAAGTGTTAAAGCTTGAATTATATTTTTTTTTCATGGTGA
*
12796050 TGTTCAAG
194 TATTCAAG
* * *
12796058 TTTTCTTCAGTGGTGATATCCGAAGTCATTTGTATCTTCTCAGTGGTGATATTTGAGTGTTAAAA
1 TTTTCTTTAGTGGCGATATCCGAAGTCATTTGTATCTTCTCAGTGGTGATATTCGAGTGTTAAAA
* *
12796123 CTTGAATTGTATTTTCTCAATGGTGATATTCGAGTTTCCTTCGATAACGATATCTGAAGTCATTT
66 CTTGAATTGTATTTTCTCAATGGTGATATTTGAGTTTCCTTCGATAACGATATCCGAAGTCATTT
* * *
12796188 GCAT-ATTCTCAATGGTGATATCCAAGTGTTAAAGCTTGAATTGTATTTTTTTTTTCGATGGTGA
131 ACATCATTCTCAATAGTGATATCCAAGTGTTAAAGCTTGAATTATA-TTTTTTTTTC-ATGGTGA
*
12796252 TATTCTAG
194 TATTCAAG
* * * *
12796260 TTTTCCTTTGGTGGCGAAATCCGAAGTAATTTGTATTTTCTC-GATGGTGATATTCGAGTGTTAA
1 TTTT-CTTTAGTGGCGATATCCGAAGTCATTTGTATCTTCTCAG-TGGTGATATTCGAGTGTTAA
* * * *
12796324 AATTTGAATTGCATTTTCTCAATAGTAATATTTGAGTTT
64 AACTTGAATTGTATTTTCTCAATGGTGATATTTGAGTTT
12796363 TCTTTGGTGG
Statistics
Matches: 263, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
198 36 0.14
199 116 0.44
200 9 0.03
202 18 0.07
203 84 0.32
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (201 bp):
TTTTCTTTAGTGGCGATATCCGAAGTCATTTGTATCTTCTCAGTGGTGATATTCGAGTGTTAAAA
CTTGAATTGTATTTTCTCAATGGTGATATTTGAGTTTCCTTCGATAACGATATCCGAAGTCATTT
ACATCATTCTCAATAGTGATATCCAAGTGTTAAAGCTTGAATTATATTTTTTTTTCATGGTGATA
TTCAAG
Found at i:12796643 original size:21 final size:18
Alignment explanation
Indices: 12796622--12796671 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
12796612 ATACAATAAT
*
12796622 AATACAAATAAATAAAAA
1 AATATAAATAAATAAAAA
12796640 AATATAAA-AAATAAAAA
1 AATATAAATAAATAAAAA
*
12796657 AA-AGTAAAAAAATAA
1 AATA-TAAATAAATAA
12796672 TGGGGCTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 1 0.03
17 15 0.52
18 13 0.45
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (18 bp):
AATATAAATAAATAAAAA
Found at i:12796657 original size:8 final size:8
Alignment explanation
Indices: 12796631--12796671 Score: 55
Period size: 9 Copynumber: 4.8 Consensus size: 8
12796621 TAATACAAAT
12796631 AAATAAAA
1 AAATAAAA
12796639 AAATATAAA
1 AAATA-AAA
12796648 AAATAAAAA
1 AAAT-AAAA
12796657 AAAGTAAAA
1 AAA-TAAAA
12796666 AAATAA
1 AAATAA
12796672 TGGGGCTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.27
9 20 0.67
10 2 0.07
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:12797786 original size:21 final size:19
Alignment explanation
Indices: 12797755--12797797 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
12797745 TTTAAAATTT
* *
12797755 TTTTAAATTATTTTTATTA
1 TTTTAAATTATTATTAATA
12797774 TTTTAAATTTTATTATTAATA
1 TTTTAAA--TTATTATTAATA
12797795 TTT
1 TTT
12797798 ATGCATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
21 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAAATTATTATTAATA
Found at i:12797791 original size:18 final size:19
Alignment explanation
Indices: 12797755--12797791 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12797745 TTTAAAATTT
*
12797755 TTTTAAATTATTTTTATTA
1 TTTTAAATTATTATTATTA
12797774 TTTTAAATT-TTATTATTA
1 TTTTAAATTATTATTATTA
12797792 ATATTTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTAAATTATTATTATTA
Found at i:12802700 original size:30 final size:31
Alignment explanation
Indices: 12802666--12802743 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
12802656 TTTGTTGTTC
12802666 CCAAATAAGCCCTTAACC-TTCAATTTGCAT
1 CCAAATAAGCCCTTAACCTTTCAATTTGCAT
* ** * *
12802696 CCAAATAAGCTCTTGGCCTTTTAATTTGTAT
1 CCAAATAAGCCCTTAACCTTTCAATTTGCAT
* *
12802727 TCAAATAAGCCATTAAC
1 CCAAATAAGCCCTTAAC
12802744 TTTTACTTTG
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (31 bp):
CCAAATAAGCCCTTAACCTTTCAATTTGCAT
Found at i:12807576 original size:2 final size:2
Alignment explanation
Indices: 12807569--12807599 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12807559 ATTGAGTTAA
*
12807569 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12807600 AAGAGACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:12807799 original size:2 final size:2
Alignment explanation
Indices: 12807786--12807815 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
12807776 CTTTTCATTA
*
12807786 AT AT AA 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
12807816 TTGTCAGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12808476 original size:15 final size:17
Alignment explanation
Indices: 12808458--12808489 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12808448 AGTTTTGTAA
12808458 TTTTT-AATATAAAAAT
1 TTTTTAAATATAAAAAT
12808474 TTTTTAAATATAAAAA
1 TTTTTAAATATAAAAA
12808490 AATAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTTAAATATAAAAAT
Found at i:12809146 original size:12 final size:12
Alignment explanation
Indices: 12809129--12809154 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12809119 GGTTACACTT
12809129 AGCCAATAATTG
1 AGCCAATAATTG
12809141 AGCCAATAATTG
1 AGCCAATAATTG
12809153 AG
1 AG
12809155 AAAAATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (12 bp):
AGCCAATAATTG
Found at i:12815294 original size:2 final size:2
Alignment explanation
Indices: 12815289--12815316 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12815279 AAAAAAAAAA
12815289 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
12815317 TAAAACCAGC
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:12817078 original size:14 final size:14
Alignment explanation
Indices: 12817059--12817092 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12817049 TTTTAAAAAG
12817059 AAATTTTCTCTTAA
1 AAATTTTCTCTTAA
* *
12817073 AAATTTTCTTTTAG
1 AAATTTTCTCTTAA
12817087 AAATTT
1 AAATTT
12817093 ATATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATTTTCTCTTAA
Found at i:12819953 original size:16 final size:16
Alignment explanation
Indices: 12819915--12819970 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
12819905 ATATAAGATA
*
12819915 AATAAATACTAACAATG
1 AATAAATA-AAACAATG
12819932 AATAAAATAAAACAAT-
1 AAT-AAATAAAACAATG
*
12819948 AATAAATAAATCAA-G
1 AATAAATAAAACAATG
12819963 -ATAAATAA
1 AATAAATAA
12819971 CTAATTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 8 0.23
15 10 0.29
16 3 0.09
17 9 0.26
18 5 0.14
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (16 bp):
AATAAATAAAACAATG
Found at i:12831812 original size:2 final size:2
Alignment explanation
Indices: 12831794--12831832 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
12831784 CAACTTAAGC
**
12831794 AT AT A- AT AT AT GC 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
12831833 CTCTTTGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:12835104 original size:3 final size:3
Alignment explanation
Indices: 12835098--12835128 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12835088 ATATATCATC
12835098 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
12835129 ATTCTAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12836777 original size:17 final size:17
Alignment explanation
Indices: 12836752--12836802 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
12836742 CAAATTTAAT
*
12836752 AAATTAAAAATAAAACA
1 AAATAAAAAATAAAACA
*
12836769 AAATAAAAAATTTAAA-A
1 AAATAAAAAA-TAAAACA
* *
12836786 ACATAAAATATAAAACA
1 AAATAAAAAATAAAACA
12836803 TACGACAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAAAAAATAAAACA
Found at i:12840016 original size:21 final size:21
Alignment explanation
Indices: 12839978--12840017 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12839968 ATATAATATA
*
12839978 TTTAAAAATCAAATAAATAAG
1 TTTAAAAATCAAAAAAATAAG
12839999 TTTAAAAAT-ATAAAAAATA
1 TTTAAAAATCA-AAAAAATA
12840018 TTATCATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (21 bp):
TTTAAAAATCAAAAAAATAAG
Found at i:12840084 original size:26 final size:27
Alignment explanation
Indices: 12840026--12840084 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
12840016 TATTATCATA
**
12840026 AATTTTTTATAAAATTTTTAAACACTT
1 AATTTTTTATAAAATTTTTAAACAAGT
*
12840053 AATTTTTTAT-AAATTTTTAAATAAGT
1 AATTTTTTATAAAATTTTTAAACAAGT
12840079 -ATTTTT
1 AATTTTT
12840085 CATATACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 13 0.45
27 10 0.34
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (27 bp):
AATTTTTTATAAAATTTTTAAACAAGT
Found at i:12840625 original size:23 final size:20
Alignment explanation
Indices: 12840581--12840645 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 20
12840571 GTATTTTTAT
12840581 TTTATTTTATATAAAAATTA
1 TTTATTTTATATAAAAATTA
*
12840601 TTTATTATTAATATCAAAATATA
1 TTTATT-TT-ATATAAAAAT-TA
*
12840624 TTATATATTTATTATTAAAATT
1 TT-TAT-TTTA-TATAAAAATT
12840646 TTAAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
20 6 0.16
21 2 0.05
22 9 0.24
23 6 0.16
24 13 0.35
25 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATTTTATATAAAAATTA
Found at i:12849104 original size:13 final size:13
Alignment explanation
Indices: 12849086--12849110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12849076 AATAATAATA
12849086 ATTATTATTATTT
1 ATTATTATTATTT
12849099 ATTATTATTATT
1 ATTATTATTATT
12849111 ATTTTAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:12849166 original size:14 final size:15
Alignment explanation
Indices: 12849137--12849173 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
12849127 AAGATTTATT
*
12849137 TTTATTTGTTTAAAA
1 TTTATTTATTTAAAA
12849152 TTTATTTATTT-AAA
1 TTTATTTATTTAAAA
12849166 TTTATTTA
1 TTTATTTA
12849174 ATTATAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTATTTATTTAAAA
Found at i:12849323 original size:15 final size:15
Alignment explanation
Indices: 12849303--12849336 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12849293 TTATCATTTA
12849303 AATAAATTAAATTCG
1 AATAAATTAAATTCG
* *
12849318 AATAAATTGAATTTG
1 AATAAATTAAATTCG
12849333 AATA
1 AATA
12849337 CTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (15 bp):
AATAAATTAAATTCG
Found at i:12857300 original size:22 final size:22
Alignment explanation
Indices: 12857260--12857310 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
12857250 TTAATAATTT
* * *
12857260 TATATAAAATATTATAATATGA
1 TATAAAAAATATAAAAATATGA
*
12857282 TATAAAAAATATAAAAATATTA
1 TATAAAAAATATAAAAATATGA
*
12857304 TTTAAAA
1 TATAAAA
12857311 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TATAAAAAATATAAAAATATGA
Found at i:12857332 original size:40 final size:40
Alignment explanation
Indices: 12857288--12857375 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
12857278 ATGATATAAA
*
12857288 AAATATAAAAATAT-TATTTAAAATTTTAATAAAAATTTAT
1 AAATATAAAAATATATATTTAAAATGTTAATAAAAA-TTAT
* * *
12857328 AAATATAAAAATATCATATTTAATATGTTGATATAAATTAT
1 AAATATAAAAATAT-ATATTTAAAATGTTAATAAAAATTAT
12857369 -AATATAA
1 AAATATAA
12857376 TAATTGTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 21 0.50
41 4 0.10
42 17 0.40
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (40 bp):
AAATATAAAAATATATATTTAAAATGTTAATAAAAATTAT
Found at i:12857948 original size:34 final size:35
Alignment explanation
Indices: 12857860--12857958 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 35
12857850 AGTTGATATT
** * *
12857860 AAATTTATCGAAAATAGATATTT-AAAAAGTTTTA
1 AAATTTATTAAAAATACATTTTTGAAAAAGTTTTA
*
12857894 AAATTTATTAAAAATTCATTTTTGAAAAA-TTTTA
1 AAATTTATTAAAAATACATTTTTGAAAAAGTTTTA
* * * *
12857928 AAATTTTTTAGATATACA-TTTTCAAAAAGTT
1 AAATTTATTAAAAATACATTTTTGAAAAAGTT
12857959 CGATTTCACT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 9 0.17
34 39 0.74
35 5 0.09
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (35 bp):
AAATTTATTAAAAATACATTTTTGAAAAAGTTTTA
Found at i:12858346 original size:18 final size:18
Alignment explanation
Indices: 12858323--12858357 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12858313 CTAGTATATT
12858323 TAAGAAA-AACAAAAATAG
1 TAAGAAATAA-AAAAATAG
12858341 TAAGAAATAAAAAAATA
1 TAAGAAATAAAAAAATA
12858358 TGGCTTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAGAAATAAAAAAATAG
Found at i:12867233 original size:19 final size:19
Alignment explanation
Indices: 12867209--12867246 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12867199 TTTTTGTTGT
12867209 TGCAAACATGAATTATTGC
1 TGCAAACATGAATTATTGC
*
12867228 TGCAAACATGAATTGTTGC
1 TGCAAACATGAATTATTGC
12867247 ACCAGAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (19 bp):
TGCAAACATGAATTATTGC
Found at i:12867247 original size:16 final size:18
Alignment explanation
Indices: 12867205--12867240 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12867195 CTATTTTTTG
12867205 TTGTTGCAAACATGAATTA
1 TTGTTGCAAACATGAA-TA
*
12867224 TTGCTGCAAACATGAAT
1 TTGTTGCAAACATGAAT
12867241 TGTTGCACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 1 0.06
19 15 0.94
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (18 bp):
TTGTTGCAAACATGAATA
Found at i:12868897 original size:19 final size:21
Alignment explanation
Indices: 12868867--12868919 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
12868857 TTTAAAAATA
*
12868867 AATTTTCAAAAATACA-ATAT
1 AATTATCAAAAATACATATAT
*
12868887 AATTATCAAAAATTCATATAT
1 AATTATCAAAAATACATATAT
*
12868908 AATTCTCAAAAA
1 AATTATCAAAAA
12868920 ATCTATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (21 bp):
AATTATCAAAAATACATATAT
Found at i:12870838 original size:18 final size:18
Alignment explanation
Indices: 12870812--12870846 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12870802 CATTAAAATA
*
12870812 ATTAATTTTATTTTTATC
1 ATTAATTTTAATTTTATC
*
12870830 ATTACTTTTAATTTTAT
1 ATTAATTTTAATTTTAT
12870847 TAAAATCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTAATTTTAATTTTATC
Found at i:12874682 original size:23 final size:21
Alignment explanation
Indices: 12874656--12874711 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
12874646 TTTAATGTCA
12874656 AAAAATAAAAAATCTTAAAATAT
1 AAAAA-AAAAAAT-TTAAAATAT
* *
12874679 AAAAAATAAAAATTTTAAATGT
1 AAAAAA-AAAAATTTAAAATAT
12874701 AAAAAAAAAAA
1 AAAAAAAAAAA
12874712 AACATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.17
22 14 0.47
23 11 0.37
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAAAAAAAATTTAAAATAT
Found at i:12874703 original size:29 final size:30
Alignment explanation
Indices: 12874671--12874742 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 30
12874661 TAAAAAATCT
**
12874671 TAAAATATAAAAAATAA-A-AATTTT-AAATG
1 TAAAA-ATAAAAAA-AACATAATTTTGAAAAA
12874700 TAAAAA-AAAAAAAACATAATTTTGAAAAA
1 TAAAAATAAAAAAAACATAATTTTGAAAAA
12874729 TAAAAAATAAAAAA
1 T-AAAAATAAAAAA
12874743 GCAGAGGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 2 0.06
27 7 0.19
28 7 0.19
29 9 0.25
30 5 0.14
31 6 0.17
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (30 bp):
TAAAAATAAAAAAAACATAATTTTGAAAAA
Found at i:12874712 original size:23 final size:23
Alignment explanation
Indices: 12874643--12874713 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
12874633 AAAGTTTCAT
*
12874643 AATTTT-AATGTCAAAAAATAAAA
1 AATTTTAAATGT-AAAAAAAAAAA
* * *
12874666 AATCTTAAA-ATATAAAAAATAAA
1 AATTTTAAATGTA-AAAAAAAAAA
12874689 AATTTTAAATGTAAAAAAAAAAA
1 AATTTTAAATGTAAAAAAAAAAA
12874712 AA
1 AA
12874714 CATAATTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
22 1 0.03
23 33 0.87
24 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (23 bp):
AATTTTAAATGTAAAAAAAAAAA
Found at i:12875036 original size:24 final size:22
Alignment explanation
Indices: 12875009--12875059 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
12874999 ATAAATAAAA
12875009 ATTAAATATATTTATAAATTATTT
1 ATTAAATAT-TTTATAAATT-TTT
*
12875033 ATTAAATATTTTATTAATTTTT
1 ATTAAATATTTTATAAATTTTT
12875055 ATTAA
1 ATTAA
12875060 CGAATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 8 0.31
23 9 0.35
24 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTAAATATTTTATAAATTTTT
Found at i:12875038 original size:12 final size:12
Alignment explanation
Indices: 12875009--12875059 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
12874999 ATAAATAAAA
12875009 ATTAAATATATTT
1 ATTAAAT-TATTT
12875022 A-TAAATTATTT
1 ATTAAATTATTT
12875033 ATTAAA-TATTTT
1 ATTAAATTA-TTT
12875045 ATT-AATT-TTT
1 ATTAAATTATTT
12875055 ATTAA
1 ATTAA
12875060 CGAATTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 6 0.18
11 11 0.32
12 16 0.47
13 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTAAATTATTT
Found at i:12875213 original size:2 final size:2
Alignment explanation
Indices: 12875208--12875237 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
12875198 CAATAATAGA
12875208 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12875238 GAAAGGTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12876754 original size:2 final size:2
Alignment explanation
Indices: 12876747--12876777 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
12876737 AACTTTTTAC
12876747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12876778 GTGCATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12880275 original size:30 final size:31
Alignment explanation
Indices: 12880239--12880300 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
12880229 ATATATTATT
*
12880239 AATGAATCAAAT-ATATCATTTTATTAATAA
1 AATGAATCAAATAATATCATCTTATTAATAA
* *
12880269 AATGAATCAGATAATATTATCTTATTAATAA
1 AATGAATCAAATAATATCATCTTATTAATAA
12880300 A
1 A
12880301 TAAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.50, C:0.06, G:0.05, T:0.39
Consensus pattern (31 bp):
AATGAATCAAATAATATCATCTTATTAATAA
Found at i:12883635 original size:29 final size:30
Alignment explanation
Indices: 12883589--12883668 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
12883579 TCTCTTAATT
* *
12883589 TTTAATTTACATTTAAATAAATTCTTAA-A
1 TTTAATTTATATTTAAATAAATTATTAACA
** *
12883618 TTTAATTTATATCCAAATAAATTATTAACC
1 TTTAATTTATATTTAAATAAATTATTAACA
12883648 TTTAATTTATATTTAAATAAA
1 TTTAATTTATATTTAAATAAA
12883669 ATTTTAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 24 0.56
30 19 0.44
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTAATTTATATTTAAATAAATTATTAACA
Found at i:12883674 original size:18 final size:18
Alignment explanation
Indices: 12883653--12883702 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
12883643 TAACCTTTAA
12883653 TTTATATTTAAATAAAAT
1 TTTATATTTAAATAAAAT
* *
12883671 TTTA-ATATAAAT-TAAT
1 TTTATATTTAAATAAAAT
*
12883687 TTTTTATTTGAAATAA
1 TTTATATTT-AAATAA
12883703 GAGTTCGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
16 6 0.25
17 10 0.42
18 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTATATTTAAATAAAAT
Found at i:12885130 original size:29 final size:30
Alignment explanation
Indices: 12885089--12885145 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
12885079 ATTTTTTGGT
12885089 ATATTCTAAAATTATGTTATAT-ATTTTTGA
1 ATATTCTAAAATTATGTTA-ATGATTTTTGA
*
12885119 ATATT-TAAAATTATTTTAATGATTTTT
1 ATATTCTAAAATTATGTTAATGATTTTT
12885146 TTATTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 18 0.72
30 5 0.20
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (30 bp):
ATATTCTAAAATTATGTTAATGATTTTTGA
Found at i:12885146 original size:30 final size:30
Alignment explanation
Indices: 12885078--12885146 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
12885068 TCTTTCATCT
*
12885078 TATTTTTTGGTATATTCTAAAATTATGTTA
1 TATTTTTTGGAATATTCTAAAATTATGTTA
*
12885108 TATATTTTT-GAATATT-TAAAATTATTTTAA
1 TAT-TTTTTGGAATATTCTAAAATTATGTT-A
12885138 TGATTTTTT
1 T-ATTTTTT
12885147 TATTTTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 11 0.32
30 16 0.47
31 7 0.21
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.59
Consensus pattern (30 bp):
TATTTTTTGGAATATTCTAAAATTATGTTA
Found at i:12885950 original size:29 final size:28
Alignment explanation
Indices: 12885896--12885983 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
12885886 AAAGTTTAAT
* * *
12885896 AAAAATTATAAATAAATTTAAT-AAAATA
1 AAAAAATAT-AATAATTTTTATAAAAATA
12885924 AAAAAATATACATAATTTTTATAAAAA-A
1 AAAAAATATA-ATAATTTTTATAAAAATA
*
12885952 ATATAAAA-ATATTAATATTTTATAAAAATA
1 A-A-AAAATATAATAAT-TTTTATAAAAATA
12885982 AA
1 AA
12885984 TACACAAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 1 0.02
28 23 0.46
29 20 0.40
30 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAAATATAATAATTTTTATAAAAATA
Found at i:12885960 original size:31 final size:29
Alignment explanation
Indices: 12885918--12885979 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 29
12885908 TAAATTTAAT
12885918 AAAATAAAAAAATA-TACATAATTTTTATAAA
1 AAAATAAAAAAATATTA-AT-A-TTTTATAAA
*
12885949 AAAATATAAAAATATTAATATTTTATAAA
1 AAAATAAAAAAATATTAATATTTTATAAA
12885978 AA
1 AA
12885980 TAAATACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 11 0.38
30 1 0.03
31 15 0.52
32 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATAAAAAAATATTAATATTTTATAAA
Found at i:12891082 original size:12 final size:12
Alignment explanation
Indices: 12891077--12891125 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
12891067 ACAACAGCCA
*
12891077 CAACAACCACAG
1 CAACAGCCACAG
*
12891089 CAGCAGCCACAG
1 CAACAGCCACAG
*
12891101 CCACAGCCACAG
1 CAACAGCCACAG
*
12891113 CCACAGCCACAG
1 CAACAGCCACAG
12891125 C
1 C
12891126 CACAACCACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.37, C:0.47, G:0.16, T:0.00
Consensus pattern (12 bp):
CAACAGCCACAG
Found at i:12891101 original size:6 final size:6
Alignment explanation
Indices: 12891083--12891134 Score: 79
Period size: 6 Copynumber: 8.7 Consensus size: 6
12891073 GCCACAACAA
*
12891083 CCACAG -CAGCAG CCACAG CCACAG CCACAG CCACAG CCACAG CCACAA
1 CCACAG CCA-CAG CCACAG CCACAG CCACAG CCACAG CCACAG CCACAG
12891131 CCAC
1 CCAC
12891135 CTCCACAGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
5 2 0.05
6 39 0.91
7 2 0.05
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
CCACAG
Found at i:12891143 original size:18 final size:18
Alignment explanation
Indices: 12891070--12891134 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
12891060 TGCAGCAACA
12891070 ACAGCCACAA-CA-A-CC
1 ACAGCCACAACCACAGCC
*
12891085 ACAG-CAGCAGCCACAGCC
1 ACAGCCA-CAACCACAGCC
*
12891103 ACAGCCACAGCCACAGCC
1 ACAGCCACAACCACAGCC
12891121 ACAGCCACAACCAC
1 ACAGCCACAACCAC
12891135 CTCCACAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.05
15 6 0.14
16 2 0.05
17 1 0.02
18 30 0.70
19 2 0.05
ACGTcount: A:0.38, C:0.48, G:0.14, T:0.00
Consensus pattern (18 bp):
ACAGCCACAACCACAGCC
Found at i:12891148 original size:3 final size:3
Alignment explanation
Indices: 12891140--12891165 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12891130 ACCACCTCCA
12891140 CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CA
12891166 ACAACAACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:12899902 original size:3 final size:3
Alignment explanation
Indices: 12899894--12899925 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12899884 TAAAACATAG
12899894 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12899926 TGCTAAAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12901554 original size:141 final size:141
Alignment explanation
Indices: 12901401--12901684 Score: 541
Period size: 141 Copynumber: 2.0 Consensus size: 141
12901391 TGGAGCTGAA
*
12901401 GTGGCTAAAAAAGCTGAGGTAAGCAAAAGAGTTGAGCTAGCTGGAAATGCTGAAATAAAGAAAAA
1 GTGGCTAAAAAAGCTGAGGTAAGCAAAAGAGTTGAGCTAGCTGAAAATGCTGAAATAAAGAAAAA
12901466 AGTTGGTTATGAAATGATGATGGAATATTCGAGTCAGTCGCACAAGGAGCAACAGAAATGAATAT
66 AGTTGGTTATGAAATGATGATGGAATATTCGAGTCAGTCGCACAAGGAGCAACAGAAATGAATAT
12901531 GCTGAAAGACG
131 GCTGAAAGACG
*
12901542 GTGGCTAAAAAAGTTGAGGTAAGCAAAAGAGTTGAGCTAGCTGAAAATGCTGAAATAAAGAAAAA
1 GTGGCTAAAAAAGCTGAGGTAAGCAAAAGAGTTGAGCTAGCTGAAAATGCTGAAATAAAGAAAAA
*
12901607 AGTTGGTTATGAAATGATGATGGAATATTCGAGTCAGTCGCACAAGGAGCAATAGAAATGAATAT
66 AGTTGGTTATGAAATGATGATGGAATATTCGAGTCAGTCGCACAAGGAGCAACAGAAATGAATAT
12901672 GCTGAAAGACG
131 GCTGAAAGACG
12901683 GT
1 GT
12901685 TATGGGAGCT
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (141 bp):
GTGGCTAAAAAAGCTGAGGTAAGCAAAAGAGTTGAGCTAGCTGAAAATGCTGAAATAAAGAAAAA
AGTTGGTTATGAAATGATGATGGAATATTCGAGTCAGTCGCACAAGGAGCAACAGAAATGAATAT
GCTGAAAGACG
Found at i:12908143 original size:27 final size:26
Alignment explanation
Indices: 12908065--12908156 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
12908055 TTAGAAAGAT
12908065 TTTTTATTAAATAATATAAATT-AT-TA
1 TTTTTATTAAA-AATAT-AATTAATATA
* *
12908091 TTTTAAATT--AATTATAATTAATATA
1 TTTT-TATTAAAAATATAATTAATATA
12908116 TTTTTATTAAAAATATATATTAATATA
1 TTTTTATTAAAAATATA-ATTAATATA
* *
12908143 TATTTATAAAAAAT
1 TTTTTATTAAAAAT
12908157 TACCCAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
23 4 0.07
24 9 0.17
25 7 0.13
26 10 0.19
27 24 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTTTATTAAAAATATAATTAATATA
Found at i:12909040 original size:26 final size:26
Alignment explanation
Indices: 12909010--12909060 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
12909000 CAAATAAAAT
*
12909010 TTTTTAATAAATTATTTAAATTGAATA
1 TTTTGAAT-AATTATTTAAATTGAATA
*
12909037 TTTTGGATAATTATTTAAATTGAA
1 TTTTGAATAATTATTTAAATTGAA
12909061 ATCAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
TTTTGAATAATTATTTAAATTGAATA
Found at i:12910195 original size:19 final size:20
Alignment explanation
Indices: 12910171--12910212 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
12910161 TTATCAAATA
*
12910171 AATGAAGAAAATATTTTT-T
1 AATGAAAAAAATATTTTTAT
12910190 AATGAAAAAAATATTTTTAT
1 AATGAAAAAAATATTTTTAT
12910210 AAT
1 AAT
12910213 TCTTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
AATGAAAAAAATATTTTTAT
Found at i:12913111 original size:27 final size:27
Alignment explanation
Indices: 12913052--12913113 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
12913042 AACTTATAAT
12913052 TTAATATTTATATTTAAAAATTTTTAA
1 TTAATATTTATATTTAAAAATTTTTAA
* * *
12913079 TATAATATTTA-ATTTATAATTTTATTGA
1 T-TAATATTTATATTTAAAAATTT-TTAA
12913107 TTAATAT
1 TTAATAT
12913114 AGTACTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TTAATATTTATATTTAAAAATTTTTAA
Found at i:12915701 original size:61 final size:62
Alignment explanation
Indices: 12915587--12915704 Score: 175
Period size: 61 Copynumber: 1.9 Consensus size: 62
12915577 AATTTTTATG
*
12915587 AAGGATTATTAAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCCTTTCTAAATTTGTTGA
1 AAGGATTATTAAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCATTTCTAAATTTGTTGA
* * * **
12915649 AAGGATTATTGAAAGCGTTTTT-AGCAAAAACGCCTTCAATGATCATTTCTAAATTT
1 AAGGATTATTAAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCATTTCTAAATTT
12915705 TTTTCAGGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 30 0.60
62 20 0.40
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (62 bp):
AAGGATTATTAAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCATTTCTAAATTTGTTGA
Found at i:12915717 original size:62 final size:62
Alignment explanation
Indices: 12915587--12915731 Score: 175
Period size: 62 Copynumber: 2.3 Consensus size: 62
12915577 AATTTTTATG
* * *
12915587 AAGGATTATTAAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCCTTTCTAAATTTGTTGA
1 AAGGATTATTGAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCATTTCTAAATTTGTTCA
* * ** *
12915649 AAGGATTATTGAAAGCGTTTTT-AGCAAAAACGCCTTCAATGATCATTTCTAAATTTTTTTCA
1 AAGGATTATTGAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCATTTCTAAA-TTTGTTCA
** *
12915711 GGGGATTATTGAAGGAGTTTT
1 AAGGATTATTGAAAGAGTTTT
12915732 CATTAAAGGT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
61 27 0.39
62 43 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (62 bp):
AAGGATTATTGAAAGAGTTTTTGACCAAAAACGCCTTCAACAATCATTTCTAAATTTGTTCA
Found at i:12915894 original size:64 final size:65
Alignment explanation
Indices: 12915772--12915894 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 65
12915762 TTAATAATCC
* * * * *
12915772 CTTCTAAAATTTTTTGTATGGATTATTGAAAGCATTTTTGGTCAAAAATGCCTCCAATATTCACT
1 CTTCTAAAATTTTTTGAATAGATTATTGAAAGCATTTTTGGCCAAAAATACATCCAATATTCACT
* ** * *
12915837 CTTC-AAAATTTTTTGAATAGATTATTGAAGGTTTTTTTGGCCAAAAATATATTCAATA
1 CTTCTAAAATTTTTTGAATAGATTATTGAAAGCATTTTTGGCCAAAAATACATCCAATA
12915895 ATCCTATTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
64 44 0.92
65 4 0.08
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (65 bp):
CTTCTAAAATTTTTTGAATAGATTATTGAAAGCATTTTTGGCCAAAAATACATCCAATATTCACT
Found at i:12926499 original size:15 final size:15
Alignment explanation
Indices: 12926479--12926513 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12926469 ACCAAGTCTA
*
12926479 ATAAAACAAACATCG
1 ATAAAACAAACATAG
*
12926494 ATAAAACAAATATAG
1 ATAAAACAAACATAG
12926509 ATAAA
1 ATAAA
12926514 GAGTTACACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (15 bp):
ATAAAACAAACATAG
Found at i:12929228 original size:22 final size:24
Alignment explanation
Indices: 12929188--12929233 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
12929178 TTACGTAGAA
*
12929188 AAATTGCATGTAAAGAAAGTAATT
1 AAATTGCATGTAAAAAAAGTAATT
12929212 AAATT-CAT-TAAAAAAAGTAATT
1 AAATTGCATGTAAAAAAAGTAATT
12929234 GTATAACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 3 0.14
24 5 0.24
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.30
Consensus pattern (24 bp):
AAATTGCATGTAAAAAAAGTAATT
Found at i:12932946 original size:5 final size:5
Alignment explanation
Indices: 12932929--12932967 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
12932919 TAAAATTAAT
*
12932929 AAAGG AAAAG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
12932968 AAATTCTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:12941885 original size:18 final size:19
Alignment explanation
Indices: 12941858--12941897 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
12941848 AGAACTTGAG
*
12941858 AATCATAACAAGG-AAAAT
1 AATCAAAACAAGGCAAAAT
*
12941876 AATCAAAACATGGCAAAAT
1 AATCAAAACAAGGCAAAAT
12941895 AAT
1 AAT
12941898 TTTTGATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.17
Consensus pattern (19 bp):
AATCAAAACAAGGCAAAAT
Found at i:12946200 original size:25 final size:25
Alignment explanation
Indices: 12946149--12946197 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
12946139 ATTTTTTTTC
12946149 TTTTCTCAAAGCTGAAGATGAAGAA
1 TTTTCTCAAAGCTGAAGATGAAGAA
*
12946174 TTTT-TCAAAGTTGAATG-TGAAGAA
1 TTTTCTCAAAGCTGAA-GATGAAGAA
12946198 ATTGGTGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (25 bp):
TTTTCTCAAAGCTGAAGATGAAGAA
Found at i:12949185 original size:17 final size:18
Alignment explanation
Indices: 12949163--12949198 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12949153 TCCTCTCTGA
12949163 ATTTTTATA-TTATACTC
1 ATTTTTATACTTATACTC
*
12949180 ATTTTTGTACTTATACTC
1 ATTTTTATACTTATACTC
12949198 A
1 A
12949199 ATGAGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.28, C:0.14, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTTTTATACTTATACTC
Found at i:12952584 original size:2 final size:2
Alignment explanation
Indices: 12952577--12952601 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12952567 ATGCATAAAC
12952577 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12952602 CACACAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12952894 original size:31 final size:31
Alignment explanation
Indices: 12952859--12952920 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
12952849 AAAAATTTTC
*
12952859 TTATTAATGA-AGTGACAATATTTAATTCATT
1 TTATTAATGAGA-TGACAATATTCAATTCATT
*
12952890 TTATTAATGAGATGACATTATTCAATTCATT
1 TTATTAATGAGATGACAATATTCAATTCATT
12952921 GATAGCGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (31 bp):
TTATTAATGAGATGACAATATTCAATTCATT
Found at i:12954449 original size:23 final size:24
Alignment explanation
Indices: 12954400--12954452 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
12954390 TCTTTTCCTT
* *
12954400 TTATTTTTATTTTTATTTTACATG
1 TTATTTTTATATTTATTTTACAAG
*
12954424 TTATTTTT-TATTTATTTTTCAAG
1 TTATTTTTATATTTATTTTACAAG
12954447 TTATTT
1 TTATTT
12954453 ACTTTGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (24 bp):
TTATTTTTATATTTATTTTACAAG
Found at i:12954804 original size:11 final size:10
Alignment explanation
Indices: 12954779--12954803 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12954769 TATACAAGAT
12954779 AAAAATTAAA
1 AAAAATTAAA
12954789 AAAAATTAAA
1 AAAAATTAAA
12954799 AAAAA
1 AAAAA
12954804 ACTTTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:12958535 original size:82 final size:82
Alignment explanation
Indices: 12958415--12958624 Score: 223
Period size: 82 Copynumber: 2.6 Consensus size: 82
12958405 CATTAAATGC
* *
12958415 AATTAGAATTCTTATTTACAAATTGAATAAATTTTATT-ATCATTTATC-ATAAAAAATAAGTTA
1 AATTAAAATTCTTATTTACAAATTGAATAAATTATATTAAT-ATTTATCGATAAAAAATAAGTTA
12958478 ATGTTAGTCATTT-GATGT
65 ATGTTAGTCATTTAG-TGT
* * * *
12958496 AATTAAAATTCTTACTTTACGAATTGAATAAATTATATTAATATTTTTCGTTAAAAAATAATTTA
1 AATTAAAATTCTTA-TTTACAAATTGAATAAATTATATTAATATTTATCGATAAAAAATAAGTTA
* *
12958561 CTGTTAGTTATTTAGTGT
65 ATGTTAGTCATTTAGTGT
* * * * *
12958579 AA-TAAGAATTTTTATTTGCATATTAAATAAATCT-TATAAATATTTA
1 AATTAA-AATTCTTATTTACAAATTGAATAAAT-TATATTAATATTTA
12958625 AAATTTAATG
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
81 13 0.12
82 55 0.51
83 39 0.36
84 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (82 bp):
AATTAAAATTCTTATTTACAAATTGAATAAATTATATTAATATTTATCGATAAAAAATAAGTTAA
TGTTAGTCATTTAGTGT
Found at i:12964616 original size:19 final size:21
Alignment explanation
Indices: 12964592--12964630 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12964582 AGAAAAAAAG
12964592 GGAAAG-AAATGATT-TTAAA
1 GGAAAGAAAATGATTGTTAAA
12964611 GGAAAGAAAATGATTGTTAA
1 GGAAAGAAAATGATTGTTAA
12964631 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (21 bp):
GGAAAGAAAATGATTGTTAAA
Found at i:12964858 original size:19 final size:19
Alignment explanation
Indices: 12964796--12964842 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
12964786 AATTTTGATA
* *
12964796 TTAATTATTTAAAA-AATT
1 TTAATTAATAAAAATAATT
12964814 TTAAAATTAATAAAAATAATT
1 TT--AATTAATAAAAATAATT
12964835 TTAATTAA
1 TTAATTAA
12964843 AAAGAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
20 10 0.42
21 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATTAATAAAAATAATT
Found at i:12969585 original size:29 final size:28
Alignment explanation
Indices: 12969553--12969617 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
12969543 AAAAAATCTA
* *
12969553 AAAAATTTAAGAAATTCT-AGATAATTCTT
1 AAAAATTTAAAAAATTCTAAAATAA-T-TT
*
12969582 AAAAATTAAAAAAATTCTAAAATAATTT
1 AAAAATTTAAAAAATTCTAAAATAATTT
12969610 AAAAATTT
1 AAAAATTT
12969618 TTTGTATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 9 0.29
29 17 0.55
30 5 0.16
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAAATTTAAAAAATTCTAAAATAATTT
Found at i:12969693 original size:20 final size:19
Alignment explanation
Indices: 12969670--12969712 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
12969660 AATTGTATAG
12969670 ATTTAAAATATTTGTAGAAAA
1 ATTTAAAAT-TTTGTA-AAAA
* *
12969691 TTTTAAAATTTTTTAAAAA
1 ATTTAAAATTTTGTAAAAA
12969710 ATT
1 ATT
12969713 AGAAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
ATTTAAAATTTTGTAAAAA
Found at i:12969695 original size:21 final size:20
Alignment explanation
Indices: 12969671--12969712 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
12969661 ATTGTATAGA
*
12969671 TTTAAAATATTTGTAGAAAAT
1 TTTAAAAT-TTTGTAAAAAAT
*
12969692 TTTAAAATTTTTTAAAAAAT
1 TTTAAAATTTTGTAAAAAAT
12969712 T
1 T
12969713 AGAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTAAAATTTTGTAAAAAAT
Found at i:12969798 original size:20 final size:20
Alignment explanation
Indices: 12969756--12969799 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12969746 AAGATATTTT
* *
12969756 AAAATTCTAACAATTTTTTA
1 AAAATTCTAACAATATTTCA
12969776 AAAATTCTAA-AATAATTTCA
1 AAAATTCTAACAAT-ATTTCA
12969796 AAAA
1 AAAA
12969800 ATTTTATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTCTAACAATATTTCA
Found at i:12969845 original size:10 final size:9
Alignment explanation
Indices: 12969832--12969904 Score: 67
Period size: 10 Copynumber: 7.8 Consensus size: 9
12969822 AAACATTTTA
12969832 AAAAATTCT
1 AAAAATTCT
* *
12969841 GAAAATTTTT
1 -AAAAATTCT
*
12969851 AAAAAAT-T
1 AAAAATTCT
12969859 AAAAATTCT
1 AAAAATTCT
12969868 ATAAAATTCT
1 A-AAAATTCT
12969878 ATAAAATTCT
1 A-AAAATTCT
*
12969888 ATAAAATTTT
1 A-AAAATTCT
12969898 AAAAATT
1 AAAAATT
12969905 TTCAAGATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
8 7 0.13
9 13 0.24
10 35 0.64
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.38
Consensus pattern (9 bp):
AAAAATTCT
Found at i:12969885 original size:20 final size:19
Alignment explanation
Indices: 12969858--12969904 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
12969848 TTTAAAAAAT
12969858 TAAAAATTCTATAAAATTC
1 TAAAAATTCTATAAAATTC
*
12969877 TATAAAATTCTATAAAATTT
1 TA-AAAATTCTATAAAATTC
12969897 TAAAAATT
1 TAAAAATT
12969905 TTCAAGATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAATTCTATAAAATTC
Found at i:12969990 original size:16 final size:16
Alignment explanation
Indices: 12969965--12970014 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
12969955 CTTTTATAAA
12969965 TTTATAGAATTTTATAT
1 TTTAT-GAATTTTATAT
*
12969982 TTTATGAATTTAAT-T
1 TTTATGAATTTTATAT
**
12969997 TTTACAAATTTTA-AT
1 TTTATGAATTTTATAT
12970012 TTT
1 TTT
12970015 TTTACTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 15 0.54
16 8 0.29
17 5 0.18
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (16 bp):
TTTATGAATTTTATAT
Found at i:12970053 original size:19 final size:18
Alignment explanation
Indices: 12970031--12970069 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
12970021 TTGTTGGATT
*
12970031 TTTTAAAAATTTTTCAGAA
1 TTTTAAAAAATTTTCA-AA
12970050 TTTTAAAAAATTTTCAAA
1 TTTTAAAAAATTTTCAAA
12970068 TT
1 TT
12970070 ATGATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTAAAAAATTTTCAAA
Found at i:12970195 original size:18 final size:17
Alignment explanation
Indices: 12970151--12970203 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
12970141 ATTTTTCAAA
12970151 AATTTTTAGAATTTTTAG
1 AATTTTT-GAATTTTTAG
12970169 AATTGTTTTGAATTTTGTAG
1 AA-T-TTTTGAATTTT-TAG
* *
12970189 TATTTTTAAATTTTT
1 AATTTTTGAATTTTT
12970204 TGAGAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 9 0.30
20 8 0.27
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.60
Consensus pattern (17 bp):
AATTTTTGAATTTTTAG
Found at i:12970234 original size:21 final size:20
Alignment explanation
Indices: 12970189--12970238 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
12970179 AATTTTGTAG
*
12970189 TATTTTTAAATTTTTTGAGA
1 TATTTTAAAATTTTTTGAGA
*
12970209 AATTTTAAAATGTTTTTCGA-A
1 TATTTTAAAAT-TTTTT-GAGA
12970230 TA-TTTAAAA
1 TATTTTAAAA
12970239 AATCTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 16 0.64
21 7 0.28
22 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (20 bp):
TATTTTAAAATTTTTTGAGA
Found at i:12970266 original size:30 final size:31
Alignment explanation
Indices: 12970222--12970295 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 31
12970212 TTTAAAATGT
* * * *
12970222 TTTTCGAATATTTAAAAAATCTTAAAAAA-A-
1 TTTTAGAATTTTTTAAAAAT-TAAAAAAATAC
*
12970252 TTTTAGATTTTTT-AAAAATTAAAAAAATAC
1 TTTTAGAATTTTTTAAAAATTAAAAAAATAC
12970282 TTTTAGAATTTTTT
1 TTTTAGAATTTTTT
12970296 TTCATAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.19
29 7 0.19
30 22 0.61
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (31 bp):
TTTTAGAATTTTTTAAAAATTAAAAAAATAC
Found at i:12970355 original size:20 final size:19
Alignment explanation
Indices: 12970330--12970392 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
12970320 AATTGTTTTG
12970330 AATTTTTTTAAAGATTTTAA
1 AATTTTTTTAAAG-TTTTAA
*
12970350 AATTTTTTTGAAGTTTTAA
1 AATTTTTTTAAAGTTTTAA
* *
12970369 AATTTTTTGAAAGTTTTAG
1 AATTTTTTTAAAGTTTTAA
12970388 AATTT
1 AATTT
12970393 GAAAAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 27 0.69
20 12 0.31
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.56
Consensus pattern (19 bp):
AATTTTTTTAAAGTTTTAA
Found at i:12970547 original size:21 final size:21
Alignment explanation
Indices: 12970506--12970558 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
12970496 TTAATTTTAA
*
12970506 TTTTTAAAAATATTTTAGAAG
1 TTTTTAAAATTATTTTAGAAG
*
12970527 TCTTTTAAAATTGTTTT-GAAG
1 T-TTTTAAAATTATTTTAGAAG
12970548 TTTTTAAAATT
1 TTTTTAAAATT
12970559 TTTAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 10 0.34
21 6 0.21
22 13 0.45
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTTTAAAATTATTTTAGAAG
Found at i:12971479 original size:3 final size:3
Alignment explanation
Indices: 12971473--12971498 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12971463 ATTTGTTTCT
12971473 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
12971499 TATTGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12979201 original size:37 final size:35
Alignment explanation
Indices: 12979129--12979201 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
12979119 CTTTTCGATA
* **
12979129 TAAATATATATACATGTATATATTTATCCTGATTT
1 TAAATATATATACATATATATATTTATCAAGATTT
* *
12979164 TAAATATATGTATATATATATATATTATCAAGTATTT
1 TAAATATATATACATATATATAT-TTATCAAG-ATTT
12979201 T
1 T
12979202 GATCTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 20 0.65
36 6 0.19
37 5 0.16
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (35 bp):
TAAATATATATACATATATATATTTATCAAGATTT
Found at i:12979383 original size:47 final size:45
Alignment explanation
Indices: 12979290--12979385 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 45
12979280 AAAAATTTGT
12979290 CATTTTTATTTTTAAAATTAAAAAATAAAAAATAAAATTTTAAAAAA
1 CATTTTTATTTTTAAAATTAAAAAATAAAAAATAAAA--TTAAAAAA
* * *
12979337 CATTTTTATATTTTGAAATTAAAAAAATTGAATAAATAAAATAAAAAAA
1 CATTTTTAT-TTTTAAAATT-AAAAAA-T-AAAAAATAAAATTAAAAAA
12979386 AGAGAGAGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 9 0.21
48 9 0.21
49 13 0.31
50 1 0.02
51 10 0.24
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (45 bp):
CATTTTTATTTTTAAAATTAAAAAATAAAAAATAAAATTAAAAAA
Found at i:12979660 original size:3 final size:3
Alignment explanation
Indices: 12979652--12979680 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12979642 ACATATTAAC
12979652 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12979681 TATTGAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:12982003 original size:15 final size:13
Alignment explanation
Indices: 12981971--12982005 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
12981961 AAAAGGTTGG
12981971 AAGAGAGAAGATT
1 AAGAGAGAAGATT
12981984 AAGAGAGAAGATT
1 AAGAGAGAAGATT
12981997 AAGAGAGAA
1 AAGAGAGAA
12982006 CCACTTCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.11
Consensus pattern (13 bp):
AAGAGAGAAGATT
Found at i:12987317 original size:21 final size:21
Alignment explanation
Indices: 12987260--12987317 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
12987250 AAATTTGAAT
*
12987260 AATTAT-AAATA--AATAAAT
1 AATTATAAAATATGAATAAAA
* *
12987278 AATTAATAAATTTTG-ATAAAA
1 AATT-ATAAAATATGAATAAAA
12987299 AATTATAAAATATGAATAA
1 AATTATAAAATATGAATAA
12987318 TATTTTAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
18 4 0.13
19 2 0.07
20 11 0.37
21 13 0.43
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (21 bp):
AATTATAAAATATGAATAAAA
Found at i:12993606 original size:23 final size:23
Alignment explanation
Indices: 12993580--12993633 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
12993570 GTAATAAAAT
* ** *
12993580 ATTTTATTCTGTAAATGATTAAA
1 ATTTTATTCTGGAAAAAAGTAAA
*
12993603 ATTTAATT-TGGAAAAAAGTAAA
1 ATTTTATTCTGGAAAAAAGTAAA
12993625 ATTTTATTC
1 ATTTTATTC
12993634 ATTTATTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (23 bp):
ATTTTATTCTGGAAAAAAGTAAA
Found at i:12995478 original size:33 final size:33
Alignment explanation
Indices: 12995439--12995511 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
12995429 AAAGTCTATA
12995439 TTTTTATGTTTGTTGTATCCAAATCATTGTTAT
1 TTTTTATGTTTGTTGTATCCAAATCATTGTTAT
12995472 TTTTTATGTTTGTTGTATCCAAATCATTGTTAT
1 TTTTTATGTTTGTTGTATCCAAATCATTGTTAT
*
12995505 TGTTTAT
1 TTTTTAT
12995512 TCATCAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.21, C:0.08, G:0.12, T:0.59
Consensus pattern (33 bp):
TTTTTATGTTTGTTGTATCCAAATCATTGTTAT
Found at i:12998537 original size:24 final size:24
Alignment explanation
Indices: 12998486--12998544 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
12998476 TAAAAAATAA
*
12998486 AAAAAAAAAGAGTCAAATTTCATG
1 AAAAAAAAAGAGTAAAATTTCATG
*
12998510 -AAAAAAAAG-TTAAAAGTTTCATG
1 AAAAAAAAAGAGTAAAA-TTTCATG
12998533 AAAAAGAAAAGA
1 AAAAA-AAAAGA
12998545 AAAAGCAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 4 0.14
25 5 0.17
ACGTcount: A:0.63, C:0.05, G:0.14, T:0.19
Consensus pattern (24 bp):
AAAAAAAAAGAGTAAAATTTCATG
Found at i:12999770 original size:17 final size:16
Alignment explanation
Indices: 12999747--12999788 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
12999737 TAATTTATAT
12999747 ATATTATTTTTGCATGG
1 ATATTATTTTTGCAT-G
* *
12999764 TTATTATTATTGCATG
1 ATATTATTTTTGCATG
12999780 ATATTATTT
1 ATATTATTT
12999789 GTATGATGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (16 bp):
ATATTATTTTTGCATG
Found at i:13000629 original size:26 final size:27
Alignment explanation
Indices: 13000600--13000660 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
13000590 TAATAAAAAA
*
13000600 TTAATGATAACTCTTA-AAATTTATA-T
1 TTAATGATAAAT-TTATAAATTTATACT
* *
13000626 TTAATAATAAATTTATGAATTTATACT
1 TTAATGATAAATTTATAAATTTATACT
13000653 TT-ATGATA
1 TTAATGATA
13000661 CATACCTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 3 0.10
26 23 0.79
27 3 0.10
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (27 bp):
TTAATGATAAATTTATAAATTTATACT
Found at i:13006073 original size:17 final size:19
Alignment explanation
Indices: 13006053--13006092 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
13006043 GGAAAAGTGA
13006053 AAAAAACAA-AAAAGA-AG
1 AAAAAACAATAAAAGATAG
*
13006070 AAAAAACAATTAAAGATAG
1 AAAAAACAATAAAAGATAG
13006089 AAAA
1 AAAA
13006093 TAAAACATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAAAACAATAAAAGATAG
Found at i:13007476 original size:11 final size:11
Alignment explanation
Indices: 13007448--13007487 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13007438 GATTTACCGA
*
13007448 TATTTTTTTGG
1 TATTTTATTGG
*
13007459 TGTTTTTATTGG
1 T-ATTTTATTGG
13007471 TATTTTATTGG
1 TATTTTATTGG
13007482 TATTTT
1 TATTTT
13007488 TGCTAGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.70
Consensus pattern (11 bp):
TATTTTATTGG
Found at i:13011652 original size:42 final size:41
Alignment explanation
Indices: 13011545--13011655 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 41
13011535 AATTTTATCT
* * *
13011545 TTTCATTTCTTACTACCTTACCTAAATGTTGATTTTTTACCC
1 TTTCA-TTCTTACTACCTTAGCTACATATTGATTTTTTACCC
* * *
13011587 TTTTATTCTCTACTACATCAGCTACATATTGATTTTTTACCC
1 TTTCATTCT-TACTACCTTAGCTACATATTGATTTTTTACCC
13011629 TTTCATTCCTTACTACCTTAGCTACAT
1 TTTCATT-CTTACTACCTTAGCTACAT
13011656 CTTTCACTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
41 4 0.07
42 52 0.90
43 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.05, T:0.48
Consensus pattern (41 bp):
TTTCATTCTTACTACCTTAGCTACATATTGATTTTTTACCC
Found at i:13012235 original size:32 final size:32
Alignment explanation
Indices: 13012199--13012262 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
13012189 ATTGTTATCT
* *
13012199 AATTTCTGTTATAATCTTTTACTTAGTTATAA
1 AATTTATGTTATAAGCTTTTACTTAGTTATAA
*
13012231 AATTTATGTTATAAGCTTTTACTTTGTTATAA
1 AATTTATGTTATAAGCTTTTACTTAGTTATAA
13012263 CCAATGGTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (32 bp):
AATTTATGTTATAAGCTTTTACTTAGTTATAA
Found at i:13012822 original size:42 final size:42
Alignment explanation
Indices: 13012774--13012992 Score: 194
Period size: 42 Copynumber: 5.2 Consensus size: 42
13012764 ATTACGCCTA
* *
13012774 AACAGCAAAAAACCCTAACTATAAATTCAAGTAATTAAAAAC
1 AACAGCAAAAAACCCTAACTATAATTTCAAGTAATTAAGAAC
* *
13012816 AACAGCAGAAAACCCTAACTATAATTTCAAGCAATTAA-AAGC
1 AACAGCAAAAAACCCTAACTATAATTTCAAGTAATTAAGAA-C
* * * **
13012858 AACAACAGAAAATCCTAACTATAATTTTGA-TCAATTAAGAAC
1 AACAGCAAAAAACCCTAACTATAATTTCAAGT-AATTAAGAAC
* * * * * *
13012900 AATAGTAAAATATCCTAACTATTATTTCAAGGAATTAAGAAC
1 AACAGCAAAAAACCCTAACTATAATTTCAAGTAATTAAGAAC
* * * * * *
13012942 AATAACAGAAAACCTTAAATATAAATTT-GAGTAATTAAGAAC
1 AACAGCAAAAAACCCTAACTAT-AATTTCAAGTAATTAAGAAC
13012984 AACAG-AAAA
1 AACAGCAAAA
13012993 TCATAAATTA
Statistics
Matches: 142, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
41 5 0.04
42 131 0.92
43 6 0.04
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.23
Consensus pattern (42 bp):
AACAGCAAAAAACCCTAACTATAATTTCAAGTAATTAAGAAC
Found at i:13012928 original size:84 final size:83
Alignment explanation
Indices: 13012782--13012993 Score: 234
Period size: 84 Copynumber: 2.5 Consensus size: 83
13012772 TAAACAGCAA
* * ** * *
13012782 AAAACCCTAACTATAAATTCAAGTAATTAAAAACAACAGCAGAAA-ACCCTAACTATAATTTCAA
1 AAAACCTTAAATATAAATTTGAGTAATTAAGAACAACAG-A-AAATATCCTAACTATAATTTCAA
13012846 GCAATTAA-AAGCAACAACAG
64 GCAATTAAGAA-CAACAACAG
* * * *
13012866 AAAATCC-TAACTATAATTTTGA-TCAATTAAGAACAATAGTAAAATATCCTAACTATTATTTCA
1 AAAA-CCTTAAATATAAATTTGAGT-AATTAAGAACAACAG-AAAATATCCTAACTATAATTTCA
* *
13012929 AGGAATTAAGAACAATAACAG
63 AGCAATTAAGAACAACAACAG
13012950 AAAACCTTAAATATAAATTTGAGTAATTAAGAACAACAGAAAAT
1 AAAACCTTAAATATAAATTTGAGTAATTAAGAACAACAGAAAAT
13012994 CATAAATTAG
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
83 11 0.10
84 93 0.85
85 5 0.05
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (83 bp):
AAAACCTTAAATATAAATTTGAGTAATTAAGAACAACAGAAAATATCCTAACTATAATTTCAAGC
AATTAAGAACAACAACAG
Found at i:13019146 original size:24 final size:23
Alignment explanation
Indices: 13019097--13019208 Score: 131
Period size: 24 Copynumber: 4.9 Consensus size: 23
13019087 TTGTTTTTGC
*
13019097 TTTTA-CTATTTATTA-TTTGAT
1 TTTTATCTATTTTTTATTTTGAT
* *
13019118 ATTTATTTATTTTTTAATTTTGAT
1 TTTTATCTATTTTTT-ATTTTGAT
* *
13019142 TTTTATCTCTTTTTTAATTTTTAAT
1 TTTTATCTATTTTTT-A-TTTTGAT
13019167 TTTT-TCTATTTTTTATTTTGAT
1 TTTTATCTATTTTTTATTTTGAT
13019189 TTTTATCTATTTTTTATTTT
1 TTTTATCTATTTTTTATTTT
13019209 CTATTTTGAA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
21 4 0.05
22 17 0.22
23 17 0.22
24 29 0.38
25 10 0.13
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTTATCTATTTTTTATTTTGAT
Found at i:13019154 original size:23 final size:23
Alignment explanation
Indices: 13019097--13019208 Score: 106
Period size: 23 Copynumber: 4.9 Consensus size: 23
13019087 TTGTTTTTGC
13019097 TTTTA-CTATTTATT-A-TTTGAT
1 TTTTATCTATTT-TTAATTTTGAT
* *
13019118 ATTTATTTATTTTTTAATTTTGAT
1 TTTTATCTA-TTTTTAATTTTGAT
* *
13019142 TTTTATCTCTTTTTTAATTTTTAAT
1 TTTTATCT-ATTTTTAA-TTTTGAT
*
13019167 TTTT-TCTATTTTTTATTTTGAT
1 TTTTATCTATTTTTAATTTTGAT
*
13019189 TTTTATCTATTTTTTATTTT
1 TTTTATCTATTTTTAATTTT
13019209 CTATTTTGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
21 4 0.05
22 14 0.19
23 25 0.33
24 22 0.29
25 10 0.13
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTTATCTATTTTTAATTTTGAT
Found at i:13019222 original size:31 final size:28
Alignment explanation
Indices: 13019153--13019251 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 28
13019143 TTTATCTCTT
* *
13019153 TTTTAATTTTTA-ATTTTTTCTATTTTTTA
1 TTTTGATTTTTACCTTTTTT-TATT-TTTA
*
13019182 TTTTGATTTTTATCTATTTTTTATTTTCTA
1 TTTTGATTTTTACCT-TTTTTTATTTT-TA
13019212 TTTTGAATTTTTACCTTCTTTTTATCTTTTA
1 TTTTG-ATTTTTACCTT-TTTTTAT-TTTTA
*
13019243 TTTTTATTT
1 TTTTGATTT
13019252 AAAAATTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
29 13 0.22
30 17 0.28
31 27 0.45
32 3 0.05
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTGATTTTTACCTTTTTTTATTTTTA
Found at i:13025989 original size:22 final size:22
Alignment explanation
Indices: 13025964--13026007 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13025954 AAATTCTCAT
*
13025964 AATTTGAAT-TTTAATTTATAAA
1 AATTT-AATATTTAATTAATAAA
*
13025986 AATTTAATATTTTATTAATAAA
1 AATTTAATATTTAATTAATAAA
13026008 TCTTCTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTTAATATTTAATTAATAAA
Found at i:13028639 original size:2 final size:2
Alignment explanation
Indices: 13028632--13028666 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13028622 ACAGAAAAGG
13028632 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
13028667 TTGTGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13029921 original size:158 final size:158
Alignment explanation
Indices: 13029629--13029945 Score: 580
Period size: 158 Copynumber: 2.0 Consensus size: 158
13029619 CAAGCTCTCG
*
13029629 TATCAAGTTTATGCAAGCGCAACACTTATGTTGGTCAATAGCCAGCTCGGAGGCTTTAAGCTCAT
1 TATCAAGTTTATGCAAGCGCAACACTTATGTTGGTCAATAGCCAGCTCGGAGGCTCTAAGCTCAT
*
13029694 CTCATTCCAAGGGACTCAGTTCTTAGGGCTTAGGCCCTTAATTTCAATGTAGACTGTCCGCACGT
66 CTCATTCCAAGGGACTCAGTTCTTAGGGCTTAGGCCCTTAATTTCAATGTAGACTGTCCGCACGC
13029759 ATGATTGACACCCAACATCATGCTAGTT
131 ATGATTGACACCCAACATCATGCTAGTT
* **
13029787 TATCAAGTTTATGCAAGCGCAACACTTATGTTGGTCAGTAGTTAGCTCGGAGGCTCTAAGCTCAT
1 TATCAAGTTTATGCAAGCGCAACACTTATGTTGGTCAATAGCCAGCTCGGAGGCTCTAAGCTCAT
*
13029852 CTCATTCCAAGGGACTCAGTTCTTAGGGCTTAGGCCCTTAATTTTAATGTAGACTGTCCGCACGC
66 CTCATTCCAAGGGACTCAGTTCTTAGGGCTTAGGCCCTTAATTTCAATGTAGACTGTCCGCACGC
13029917 ATGATTGACACCCAACATCATGCTAGTT
131 ATGATTGACACCCAACATCATGCTAGTT
13029945 T
1 T
13029946 CACAAGGGGG
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 153 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (158 bp):
TATCAAGTTTATGCAAGCGCAACACTTATGTTGGTCAATAGCCAGCTCGGAGGCTCTAAGCTCAT
CTCATTCCAAGGGACTCAGTTCTTAGGGCTTAGGCCCTTAATTTCAATGTAGACTGTCCGCACGC
ATGATTGACACCCAACATCATGCTAGTT
Found at i:13031698 original size:13 final size:14
Alignment explanation
Indices: 13031669--13031695 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13031659 TAATAATAAA
13031669 AATTTAAAAATATT
1 AATTTAAAAATATT
13031683 AATTTAAAAATAT
1 AATTTAAAAATAT
13031696 AATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTAAAAATATT
Found at i:13031702 original size:23 final size:22
Alignment explanation
Indices: 13031665--13031708 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13031655 TTGTTAATAA
* *
13031665 TAAAAATTTAAAAATATTAATT
1 TAAAAATATAAAAATAATAATT
13031687 TAAAAATATAATAAATAATAAT
1 TAAAAATATAA-AAATAATAAT
13031709 AATATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAATATAAAAATAATAATT
Found at i:13036096 original size:1 final size:1
Alignment explanation
Indices: 13036090--13036121 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
13036080 TCGTGGGGTT
13036090 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
13036122 CGCTGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:13039700 original size:18 final size:20
Alignment explanation
Indices: 13039663--13039699 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13039653 TTGTAAATGT
*
13039663 ATAAATTTTATGTATTTTTA
1 ATAAATTATATGTATTTTTA
13039683 ATAAATTATATG-ATTTT
1 ATAAATTATATGTATTTT
13039700 ATTTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATAAATTATATGTATTTTTA
Found at i:13040013 original size:20 final size:19
Alignment explanation
Indices: 13039980--13040018 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
13039970 TTTATAAGTT
13039980 CAAAAAAAAGATTAATAATA
1 CAAAAAAAAGATTAA-AATA
**
13040000 CAAAAAAATTATTAAAATA
1 CAAAAAAAAGATTAAAATA
13040019 TAATTCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (19 bp):
CAAAAAAAAGATTAAAATA
Found at i:13042184 original size:2 final size:2
Alignment explanation
Indices: 13042177--13042220 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
13042167 AGCAAAAACA
*
13042177 AT AT AT AT AT AT CT 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
13042219 AT
1 AT
13042221 CCAGAGTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13050208 original size:26 final size:25
Alignment explanation
Indices: 13050174--13050249 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 25
13050164 ATATAAAAAA
13050174 TATTT-TTTAAATTATTTTATTTAAT
1 TATTTATTTAAA-TATTTTATTTAAT
* *
13050199 TATTTATTTATATATATTTATATAAT
1 TATTTATTTAAATAT-TTTATTTAAT
*
13050225 TATCTATTTAAATATTTATATTTAA
1 TATTTATTTAAATATTT-TATTTAA
13050250 AAAATAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 10 0.23
26 33 0.77
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTATTTAAATATTTTATTTAAT
Done.