Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 57 of 129
Found at i:8265898 original size:6 final size:6
Alignment explanation
Indices: 8265846--8265892 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
8265836 TTAGGCCCAT
* *
8265846 AACCTAA AACTTA ACCCTA AACCTA AATCCTA AACCTA AACC-A AACC
1 AACCT-A AACCTA AACCTA AACCTA AA-CCTA AACCTA AACCTA AACC
8265893 CTAACCTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 5 0.14
6 20 0.57
7 10 0.29
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
AACCTA
Found at i:8265900 original size:17 final size:18
Alignment explanation
Indices: 8265861--8265905 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
8265851 AAAACTTAAC
*
8265861 CCTAAACCTAAATCCTAAA
1 CCTAAACC-AAACCCTAAA
8265880 CCTAAACCAAACCCT-AA
1 CCTAAACCAAACCCTAAA
*
8265897 CCTAGACCA
1 CCTAAACCA
8265906 CAAACTAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.42
18 6 0.25
19 8 0.33
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (18 bp):
CCTAAACCAAACCCTAAA
Found at i:8265926 original size:48 final size:48
Alignment explanation
Indices: 8265867--8265981 Score: 135
Period size: 48 Copynumber: 2.4 Consensus size: 48
8265857 TAACCCTAAA
* *
8265867 CCTAAATCCTAAACCTAAA-CCAAACCCTAACCTAGACCACAAACTAAC
1 CCTAAAACCT-AACCTAAACCCAAACCCTAACCTAGACCACAAACAAAC
* * * *
8265915 TCTAAAACCTAAGCTAAACCCAAACCCTAACTTAGACCCCAAACAAAC
1 CCTAAAACCTAACCTAAACCCAAACCCTAACCTAGACCACAAACAAAC
*
8265963 CCT-AACCCTAACCTTAAAC
1 CCTAAAACCTAACC-TAAAC
8265982 TAAATCGTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 15 0.27
48 41 0.73
ACGTcount: A:0.44, C:0.37, G:0.03, T:0.16
Consensus pattern (48 bp):
CCTAAAACCTAACCTAAACCCAAACCCTAACCTAGACCACAAACAAAC
Found at i:8274571 original size:19 final size:19
Alignment explanation
Indices: 8274547--8274586 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
8274537 ACTTTAGAGC
*
8274547 TTAAAAGATCAAATCTTGT
1 TTAAAAGATCAAATCCTGT
8274566 TTAAAAGATCAAATCCTGT
1 TTAAAAGATCAAATCCTGT
8274585 TT
1 TT
8274587 TTCAGCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (19 bp):
TTAAAAGATCAAATCCTGT
Found at i:8278087 original size:20 final size:20
Alignment explanation
Indices: 8278064--8278107 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8278054 TTATGCATTT
8278064 TATTTTACTAATTTTTTATA
1 TATTTTACTAATTTTTTATA
* * *
8278084 TATTTTAGTATTTTTTTATT
1 TATTTTACTAATTTTTTATA
8278104 TATT
1 TATT
8278108 GAGTAACTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TATTTTACTAATTTTTTATA
Found at i:8278112 original size:19 final size:19
Alignment explanation
Indices: 8278072--8278126 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
8278062 TTTATTTTAC
* *
8278072 TAATTTTTTATATATTTTAG
1 TAATTTTTTATTTA-TTGAG
*
8278092 TATTTTTTTATTTATTGAG
1 TAATTTTTTATTTATTGAG
* *
8278111 TAACTTATTATTTATT
1 TAATTTTTTATTTATT
8278127 AAACATTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TAATTTTTTATTTATTGAG
Found at i:8279186 original size:15 final size:14
Alignment explanation
Indices: 8279166--8279217 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 14
8279156 AGGAAAAAAG
8279166 AAGAAAAAAACATGA
1 AAGAAAAAAA-ATGA
8279181 AAGAAAAAAAAAT-A
1 AAG-AAAAAAAATGA
8279195 AAGTAAAAAGAAATGA
1 AAG-AAAAA-AAATGA
8279211 CAAGAAA
1 -AAGAAA
8279218 GGAAAGGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 9 0.28
15 9 0.28
16 11 0.34
17 3 0.09
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (14 bp):
AAGAAAAAAAATGA
Found at i:8279197 original size:14 final size:15
Alignment explanation
Indices: 8279166--8279217 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
8279156 AGGAAAAAAG
*
8279166 AAGAAAAAAACATGA
1 AAGAAAAAAAAATGA
8279181 AAGAAAAAAAAAT-A
1 AAGAAAAAAAAATGA
*
8279195 AAGTAAAAAGAAATGA
1 AAG-AAAAAAAAATGA
8279211 CAAGAAA
1 -AAGAAA
8279218 GGAAAGGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 4 0.12
15 21 0.66
16 4 0.12
17 3 0.09
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (15 bp):
AAGAAAAAAAAATGA
Found at i:8279700 original size:16 final size:17
Alignment explanation
Indices: 8279679--8279711 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8279669 AATCCATTCA
*
8279679 AAAAAAATGAAA-AAAT
1 AAAAAAAGGAAAGAAAT
8279695 AAAAAAAGGAAAGAAAT
1 AAAAAAAGGAAAGAAAT
8279712 GTAGGAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAAAAGGAAAGAAAT
Found at i:8281649 original size:22 final size:22
Alignment explanation
Indices: 8281608--8281659 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
8281598 ACTCCTTTGT
*
8281608 ATAAATAGTGAAAAACTTTTAA
1 ATAAAAAGTGAAAAACTTTTAA
* *
8281630 GATGAAAAGTG-AAAATTTTTAA
1 -ATAAAAAGTGAAAAACTTTTAA
8281652 ATAAAAAG
1 ATAAAAAG
8281660 ATTTCAAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.28
22 10 0.40
23 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (22 bp):
ATAAAAAGTGAAAAACTTTTAA
Found at i:8282031 original size:40 final size:40
Alignment explanation
Indices: 8281987--8282194 Score: 181
Period size: 40 Copynumber: 5.2 Consensus size: 40
8281977 CCTCTAAGTG
* *
8281987 AAACCTTAGATTTTTGAATGATTTCCAAGGCCTCCAGGCA
1 AAACCTTAGATTTTTGAATGATTTCCAAGGCCTTCAAGCA
* ** *
8282027 AAACCTCATAG-TTTTT-AATAATTTTTAAGGCCTTTAAGCA
1 AAACCT--TAGATTTTTGAATGATTTCCAAGGCCTTCAAGCA
* * *
8282067 AAACCTTAAAATTTTGAATGATTTCTAAGGCCTTCAAGCA
1 AAACCTTAGATTTTTGAATGATTTCCAAGGCCTTCAAGCA
* * * *
8282107 AAACTTTAAATTTTTGAA-AAGTTTCCAAGGCCTTCAAGCG
1 AAACCTTAGATTTTTGAATGA-TTTCCAAGGCCTTCAAGCA
* * * * * *
8282147 AAACATTAGATTTTTTAATGAGTCCCAATGCC-TCTAGGCA
1 AAACCTTAGATTTTTGAATGATTTCCAAGGCCTTC-AAGCA
8282187 AAACCTTA
1 AAACCTTA
8282195 ATGCCTTCAA
Statistics
Matches: 135, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
38 2 0.01
39 7 0.05
40 117 0.87
41 6 0.04
42 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (40 bp):
AAACCTTAGATTTTTGAATGATTTCCAAGGCCTTCAAGCA
Found at i:8282386 original size:12 final size:12
Alignment explanation
Indices: 8282369--8282440 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
8282359 CCTTAAAAAA
8282369 AACAAAATAAAC
1 AACAAAATAAAC
*
8282381 AACAAAATTAA-
1 AACAAAATAAAC
8282392 AA-AAAATAACAAC
1 AACAAAAT-A-AAC
* *
8282405 AACAAGCACAAAC
1 AACAA-AATAAAC
*
8282418 ACACAAAA-AAAT
1 A-ACAAAATAAAC
8282430 AACAAAATAAA
1 AACAAAATAAA
8282441 AAAAAGAGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
10 5 0.11
11 8 0.17
12 19 0.40
13 7 0.15
14 7 0.15
15 1 0.02
ACGTcount: A:0.74, C:0.17, G:0.01, T:0.08
Consensus pattern (12 bp):
AACAAAATAAAC
Found at i:8284696 original size:7 final size:7
Alignment explanation
Indices: 8284639--8284722 Score: 54
Period size: 7 Copynumber: 12.7 Consensus size: 7
8284629 ATTTACTATA
8284639 AAACCCT
1 AAACCCT
8284646 AAACTCC-
1 AAAC-CCT
*
8284653 AAACTC-
1 AAACCCT
8284659 AAACCCT
1 AAACCCT
* *
8284666 AGACCCC
1 AAACCCT
*
8284673 AAGCCCT
1 AAACCCT
*
8284680 AAA-TCT
1 AAACCCT
8284686 AAACCCT
1 AAACCCT
8284693 AAACCC-
1 AAACCCT
* *
8284699 ATATCCT
1 AAACCCT
8284706 AAA-CC-
1 AAACCCT
8284711 AAACCCT
1 AAACCCT
8284718 AAACC
1 AAACC
8284723 AAATCCCAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 3 0.05
6 19 0.33
7 34 0.59
8 2 0.03
ACGTcount: A:0.43, C:0.40, G:0.02, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:8284720 original size:12 final size:12
Alignment explanation
Indices: 8284671--8284734 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 12
8284661 ACCCTAGACC
*
8284671 CCAAGCCCTAAA
1 CCAAACCCTAAA
*
8284683 TCTAAACCCTAAA
1 -CCAAACCCTAAA
* *
8284696 CCCATATCCTAAA
1 -CCAAACCCTAAA
8284709 CCAAACCCTAAA
1 CCAAACCCTAAA
8284721 CCAAATCCC-AAA
1 CCAAA-CCCTAAA
8284733 CC
1 CC
8284735 CTAGCTTAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
12 20 0.48
13 22 0.52
ACGTcount: A:0.44, C:0.41, G:0.02, T:0.14
Consensus pattern (12 bp):
CCAAACCCTAAA
Found at i:8284733 original size:24 final size:25
Alignment explanation
Indices: 8284651--8284734 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 25
8284641 ACCCTAAACT
* * *
8284651 CCAAACTCAAACCCTAGACCCCAAGC
1 CCAAAC-CAAACCCTAAACCCAAATC
* *
8284677 CCTAAATCTAAACCCTAAACCCATATC
1 CC-AAA-CCAAACCCTAAACCCAAATC
*
8284704 CTAAACCAAACCCTAAA-CCAAATC
1 CCAAACCAAACCCTAAACCCAAATC
8284728 CCAAACC
1 CCAAACC
8284735 CTAGCTTAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
24 12 0.26
25 11 0.23
26 5 0.11
27 18 0.38
28 1 0.02
ACGTcount: A:0.43, C:0.42, G:0.02, T:0.13
Consensus pattern (25 bp):
CCAAACCAAACCCTAAACCCAAATC
Found at i:8284768 original size:42 final size:42
Alignment explanation
Indices: 8284715--8284796 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
8284705 TAAACCAAAC
* *
8284715 CCTAAACCAAATCCCAAACCCTAGCTTAGA-CCCTAAACTAAT
1 CCTAAACCAAATCCCAAAACCTAACTTAGATCCC-AAACTAAT
* *
8284757 CCTAAACCAAATCCTAAAACCTAATTTAGATCCCAAACTA
1 CCTAAACCAAATCCCAAAACCTAACTTAGATCCCAAACTA
8284797 GCCTTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.43, C:0.33, G:0.04, T:0.21
Consensus pattern (42 bp):
CCTAAACCAAATCCCAAAACCTAACTTAGATCCCAAACTAAT
Found at i:8285817 original size:44 final size:43
Alignment explanation
Indices: 8285740--8285830 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 43
8285730 TTTTTAAAAT
* *
8285740 TTTTTCAAACGCAACTATTTGAATCTTATATGTAAATCTCTAAA
1 TTTTTCAAACGCAAATATTTGAATCTTAGATGTAAATCT-TAAA
* * * * *
8285784 TTTTTCAAATGCAAATTTTTTAATTTTAGATGTAAATCTTTAA
1 TTTTTCAAACGCAAATATTTGAATCTTAGATGTAAATCTTAAA
8285827 TTTT
1 TTTT
8285831 CTTTTACAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 7 0.17
44 33 0.82
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (43 bp):
TTTTTCAAACGCAAATATTTGAATCTTAGATGTAAATCTTAAA
Found at i:8285898 original size:19 final size:18
Alignment explanation
Indices: 8285874--8285911 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
8285864 TAAATTTTCA
8285874 TTTGTGAATTTTTAGATTT
1 TTTGTGAATTTTTA-ATTT
8285893 TTTGTGAATTTTTAATTT
1 TTTGTGAATTTTTAATTT
8285911 T
1 T
8285912 ATTTGCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (18 bp):
TTTGTGAATTTTTAATTT
Found at i:8287782 original size:15 final size:15
Alignment explanation
Indices: 8287764--8287794 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8287754 TAGATTTTGG
*
8287764 TATTATTTATTTTAT
1 TATTATTTAATTTAT
8287779 TATTATTTAATTTAT
1 TATTATTTAATTTAT
8287794 T
1 T
8287795 TGCATTAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTATTTAATTTAT
Found at i:8287951 original size:59 final size:56
Alignment explanation
Indices: 8287839--8287957 Score: 141
Period size: 58 Copynumber: 2.1 Consensus size: 56
8287829 AAAGTATAAG
*
8287839 AAAAGAGTTAAAATATCAATCTTTTCTTAAAATAAAATTGTTTGATGAATAAAAAAGA
1 AAAAAAGTTAAAATATCAATCTTTTCTTAAAATAAAATTGTTTGA-GAATAAAAAA-A
* * * * *
8287897 AAAAAAGTTAAAATATTAATTTTTTTCTTAAAATGAAATTATTTTGA-AATTAAAAAA
1 AAAAAAGTTAAAATATCAA-TCTTTTCTTAAAATAAAATT-GTTTGAGAATAAAAAAA
8287954 AAAA
1 AAAA
8287958 GTCGTAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
57 5 0.09
58 25 0.47
59 18 0.34
60 5 0.09
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (56 bp):
AAAAAAGTTAAAATATCAATCTTTTCTTAAAATAAAATTGTTTGAGAATAAAAAAA
Found at i:8293603 original size:21 final size:21
Alignment explanation
Indices: 8293579--8293651 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
8293569 CAAGTCTTTG
8293579 AATTTTTATGTGAATCTCTAA
1 AATTTTTATGTGAATCTCTAA
*
8293600 AATTTTTCAAATGTGAATCT-TTA
1 AATTTTT---ATGTGAATCTCTAA
* *
8293623 AATTTTGGATATGAATCTCTAA
1 AATTTT-TATGTGAATCTCTAA
8293645 AATTTTT
1 AATTTTT
8293652 TTAATGTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
21 16 0.38
22 8 0.19
23 8 0.19
24 10 0.24
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (21 bp):
AATTTTTATGTGAATCTCTAA
Found at i:8293646 original size:45 final size:45
Alignment explanation
Indices: 8293536--8293971 Score: 273
Period size: 45 Copynumber: 9.7 Consensus size: 45
8293526 ATCTATAAAT
* *
8293536 TTTTGAATGTGAATTTTTAAAATCTTTT--AAT-TGCAAGTCTTTGAA
1 TTTTGAATGTGAATCTCTAAAAT-TTTTCAAATGTG-AA-TCTTTGAA
* *
8293581 TTTT-TATGTGAATCTCTAAAATTTTTCAAATGTGAATCTTTAAA
1 TTTTGAATGTGAATCTCTAAAATTTTTCAAATGTGAATCTTTGAA
* * **
8293625 TTTTGGATATGAATCTCTAAAATTTTTTTAATGTGAA-CATTTGAA
1 TTTTGAATGTGAATCTCTAAAATTTTTCAAATGTGAATC-TTTGAA
* * * * * * *
8293670 TTTTAAATGTGAATTTCTAAAGTCTTTCGAATGAGAACCTTTGAA
1 TTTTGAATGTGAATCTCTAAAATTTTTCAAATGTGAATCTTTGAA
* * * *
8293715 TTTTGAATGTAAATCTCTAAAAATTTTTAAAACGTGAATTTTTGAA
1 TTTTGAATGTGAATCTCT-AAAATTTTTCAAATGTGAATCTTTGAA
* * *** * *
8293761 TTTTGGATATGAATCTCTAAAATTTTTTGGATGTGAATCTCTAAA
1 TTTTGAATGTGAATCTCTAAAATTTTTCAAATGTGAATCTTTGAA
* * * *
8293806 TTTTAAATGTGAATCTCT-AAATCTTT-AGAATGAGAA-CTTTGGATT
1 TTTTGAATGTGAATCTCTAAAATTTTTCA-AATGTGAATCTTT-GA-A
* * * ** * *
8293851 TTTTGGATGTAAACCTCT-AAATTTTTTGAATGCGAAAT-GTTGAA
1 TTTTGAATGTGAATCTCTAAAATTTTTCAAATGTG-AATCTTTGAA
* * * * ** * *
8293895 TTCTCATTGTGAATCTCTACAATCTTTT-AAATAAGAACCTTTAAA
1 TTTTGAATGTGAATCTCTAAAAT-TTTTCAAATGTGAATCTTTGAA
* * *
8293940 TTTTGAATATGAATCTCTAAAAGTTTTGAAAT
1 TTTTGAATGTGAATCTCTAAAATTTTTCAAAT
8293972 TTAGATGAAA
Statistics
Matches: 297, Mismatches: 77, Indels: 34
0.73 0.19 0.08
Matches are distributed among these distances:
43 7 0.02
44 59 0.20
45 186 0.63
46 45 0.15
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTTGAATGTGAATCTCTAAAATTTTTCAAATGTGAATCTTTGAA
Found at i:8293654 original size:90 final size:89
Alignment explanation
Indices: 8293525--8293826 Score: 286
Period size: 91 Copynumber: 3.3 Consensus size: 89
8293515 TTTAGATGAA
* * * * *
8293525 AATCTATAAATTTTTGAATGTGAATTTTTAAAA-TCTTTTAATTGCAAGTCTTTGAATTTT-TAT
1 AATCTTTAAA-TTTTGAATGTGAATCTCTAAAATTTTTTTAATTG-AA-TCTTTGAATTTTAAAT
*
8293588 GTGAATCTCTAAAATTTTTCAAATGTG
63 GTGAATCTCTAAAATTTTTCGAATGTG
* *
8293615 AATCTTTAAATTTTGGATATGAATCTCTAAAATTTTTTTAATGTGAA-CATTTGAATTTTAAATG
1 AATCTTTAAATTTTGAATGTGAATCTCTAAAATTTTTTTAAT-TGAATC-TTTGAATTTTAAATG
* * * *
8293679 TGAATTTCTAAAGTCTTTCGAATGAG
64 TGAATCTCTAAAATTTTTCGAATGTG
* * * ** * * ** *
8293705 AACCTTTGAATTTTGAATGTAAATCTCTAAAAATTTTTAAAACGTGAATTTTTGAATTTTGGATA
1 AATCTTTAAATTTTGAATGTGAATCTCT-AAAATTTTTTTAA-TTGAATCTTTGAATTTTAAATG
* *
8293770 TGAATCTCTAAAATTTTTTGGATGTG
64 TGAATCTCTAAAATTTTTCGAATGTG
* *
8293796 AATCTCTAAATTTTAAATGTGAATCTCTAAA
1 AATCTTTAAATTTTGAATGTGAATCTCTAAA
8293827 TCTTTAGAAT
Statistics
Matches: 170, Mismatches: 35, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
88 1 0.01
89 28 0.16
90 69 0.41
91 72 0.42
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (89 bp):
AATCTTTAAATTTTGAATGTGAATCTCTAAAATTTTTTTAATTGAATCTTTGAATTTTAAATGTG
AATCTCTAAAATTTTTCGAATGTG
Found at i:8293763 original size:136 final size:134
Alignment explanation
Indices: 8293574--8293871 Score: 395
Period size: 136 Copynumber: 2.2 Consensus size: 134
8293564 AATTGCAAGT
* * * *
8293574 CTTTGAATTTT-TATGTGAATCTCT-AAAATTTTTCAAATGTGAATCTTTAAATTTTGGATATGA
1 CTTTGAATTTTGAATGTAAATCTCTAAAAATTTTTAAAACGTGAATCTTTAAATTTTGGATATGA
* * * * *
8293637 ATCTCTAAAATTTTTTTAATGTGAA-CATTTGAATTTTAAATGTGAATTTCTAAAGTCTTTCGAA
66 ATCTCTAAAATTTTTTGAATGTGAATC-TCTAAATTTTAAATGTGAATCTCTAAA-TCTTTAGAA
8293701 TGAGAA
129 TGAGAA
* *
8293707 CCTTTGAATTTTGAATGTAAATCTCTAAAAATTTTTAAAACGTGAATTTTTGAATTTTGGATATG
1 -CTTTGAATTTTGAATGTAAATCTCTAAAAATTTTTAAAACGTGAATCTTTAAATTTTGGATATG
*
8293772 AATCTCTAAAATTTTTTGGATGTGAATCTCTAAATTTTAAATGTGAATCTCTAAATCTTTAGAAT
65 AATCTCTAAAATTTTTTGAATGTGAATCTCTAAATTTTAAATGTGAATCTCTAAATCTTTAGAAT
8293837 GAGAA
130 GAGAA
* * *
8293842 CTTTGGATTTTTTGGATGTAAACCTCTAAA
1 CTTT-GA-ATTTTGAATGTAAATCTCTAAA
8293872 TTTTTTGAAT
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
134 15 0.10
135 27 0.19
136 101 0.70
137 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (134 bp):
CTTTGAATTTTGAATGTAAATCTCTAAAAATTTTTAAAACGTGAATCTTTAAATTTTGGATATGA
ATCTCTAAAATTTTTTGAATGTGAATCTCTAAATTTTAAATGTGAATCTCTAAATCTTTAGAATG
AGAA
Found at i:8293806 original size:23 final size:23
Alignment explanation
Indices: 8293761--8293878 Score: 98
Period size: 23 Copynumber: 5.2 Consensus size: 23
8293751 AATTTTTGAA
*
8293761 TTTTGGATATGAATCTCTAAAATT
1 TTTTGGATGTGAATCTCT-AAATT
8293785 TTTTGGATGTGAATCTCTAAA--
1 TTTTGGATGTGAATCTCTAAATT
** *
8293806 TTTTAAATGTGAATCTCTAAATC
1 TTTTGGATGTGAATCTCTAAATT
* * * * **
8293829 TTTAGAATGAGAA-CTTTGGATT
1 TTTTGGATGTGAATCTCTAAATT
* *
8293851 TTTTGGATGTAAACCTCTAAATT
1 TTTTGGATGTGAATCTCTAAATT
8293874 TTTTG
1 TTTTG
8293879 AATGCGAAAT
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
21 19 0.26
22 14 0.19
23 24 0.32
24 17 0.23
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (23 bp):
TTTTGGATGTGAATCTCTAAATT
Found at i:8293958 original size:89 final size:88
Alignment explanation
Indices: 8293755--8293969 Score: 204
Period size: 89 Copynumber: 2.4 Consensus size: 88
8293745 AACGTGAATT
* * *
8293755 TTTG-AATTTTGGATATGAATCTCTAAAATTTTTTGGATGTGAATCTCTAAATTTTAAATGTGAA
1 TTTGAAATTTTGGATATGAATCTCT-AAATTTTTTGAATGCGAATCTCTAAATTCTAAATGTGAA
*
8293819 TCTCTAAATCTTTAGAATGAGAAC
65 TCTCTAAATCTTTAGAATAAGAAC
** * * * * * * *
8293843 TTTGGATTTTTTGGATGTAAACCTCTAAATTTTTTGAATGCGAAATGT-TGAATTCTCATTGTGA
1 TTT-GAAATTTTGGATATGAATCTCTAAATTTTTTGAATGCG-AATCTCTAAATTCTAAATGTGA
8293907 ATCTCTACAATCTTTTA-AATAAGAACC
64 ATCTCTA-AATC-TTTAGAATAAGAA-C
* **
8293934 TTT-AAATTTTGAATATGAATCTCTAAAAGTTTTGAA
1 TTTGAAATTTTGGATATGAATCTCTAAATTTTTTGAA
8293970 ATTTAGATGA
Statistics
Matches: 100, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
88 3 0.03
89 59 0.59
90 30 0.30
91 8 0.08
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (88 bp):
TTTGAAATTTTGGATATGAATCTCTAAATTTTTTGAATGCGAATCTCTAAATTCTAAATGTGAAT
CTCTAAATCTTTAGAATAAGAAC
Found at i:8293960 original size:21 final size:22
Alignment explanation
Indices: 8293904--8293969 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 22
8293894 ATTCTCATTG
*
8293904 TGAATCTCTACAATCTTTTAAATA
1 TGAATCTCTA-AA-CTTTTGAATA
* * *
8293928 AGAACCTTTAAA-TTTTGAATA
1 TGAATCTCTAAACTTTTGAATA
*
8293949 TGAATCTCTAAAAGTTTTGAA
1 TGAATCTCT-AAACTTTTGAA
8293970 ATTTAGATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 14 0.42
22 3 0.09
23 9 0.27
24 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (22 bp):
TGAATCTCTAAACTTTTGAATA
Found at i:8294263 original size:39 final size:38
Alignment explanation
Indices: 8294214--8294293 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
8294204 TTTTGAATTT
* *
8294214 TTTATTTCTTTT-CTAAATCTTTGAACTCTTTTACGAATC
1 TTTATATCTTTTGC-AAATCATTGAA-TCTTTTACGAATC
* *
8294253 TTTATATCTTTTGCGAATCATTGTATCTTTTACGAATC
1 TTTATATCTTTTGCAAATCATTGAATCTTTTACGAATC
8294291 TTT
1 TTT
8294294 CAATTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 16 0.44
39 19 0.53
40 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.54
Consensus pattern (38 bp):
TTTATATCTTTTGCAAATCATTGAATCTTTTACGAATC
Found at i:8294264 original size:19 final size:19
Alignment explanation
Indices: 8294240--8294293 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
8294230 ATCTTTGAAC
8294240 TCTTTTACGAATCTTTATA
1 TCTTTTACGAATCTTTATA
* * *
8294259 TCTTTTGCGAATCATTGTA
1 TCTTTTACGAATCTTTATA
8294278 TCTTTTACGAATCTTT
1 TCTTTTACGAATCTTT
8294294 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (19 bp):
TCTTTTACGAATCTTTATA
Found at i:8294302 original size:19 final size:18
Alignment explanation
Indices: 8294229--8294341 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 18
8294219 TTCTTTTCTA
8294229 AATCTTTGAACTCTTTTACG
1 AATCTTT-AA-TCTTTTACG
*
8294249 AATCTTTATATCTTTTGCG
1 AATCTTTA-ATCTTTTACG
8294268 AATCATTGT-ATCTTTTACG
1 AATC-TT-TAATCTTTTACG
* *
8294287 AATCTTTCAATTTTTTTTATG
1 AATCTTT-AA--TCTTTTACG
* * *
8294308 AATCTTTGATCTCTTTGCA
1 AATCTTTAATCT-TTTACG
8294327 AATCTTTGAATCTTT
1 AATCTTT-AATCTTT
8294342 AATTTTAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
17 1 0.01
18 4 0.05
19 39 0.53
20 15 0.20
21 15 0.20
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (18 bp):
AATCTTTAATCTTTTACG
Found at i:8294449 original size:14 final size:14
Alignment explanation
Indices: 8294440--8294466 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8294430 CAAAGTTTTG
8294440 AGTTTCAAGTTACA
1 AGTTTCAAGTTACA
8294454 AGTTTCAAGTTAC
1 AGTTTCAAGTTAC
8294467 GAATTTTTAA
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:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
AGTTTCAAGTTACA
Found at i:8304911 original size:75 final size:75
Alignment explanation
Indices: 8304788--8304939 Score: 279
Period size: 75 Copynumber: 2.0 Consensus size: 75
8304778 ACATCTTTAA
*
8304788 AAATTAATATTTATTTTGCATTCTGCTTTTAGTCATGATGTTTAATAATTGATGAGTTCTCAGGA
1 AAATTAATATTTATTTTGCATTCTGCTTTTAATCATGATGTTTAATAATTGATGAGTTCTCAGGA
8304853 TGAGTCTGGC
66 TGAGTCTGGC
8304863 AAATTAATATTTATTTTGCATTCCT-CTTTTAATCATGATGTTTAATAATTGATGAGTTCTCAGG
1 AAATTAATATTTATTTTGCATT-CTGCTTTTAATCATGATGTTTAATAATTGATGAGTTCTCAGG
8304927 ATGAGTCTGGC
65 ATGAGTCTGGC
8304938 AA
1 AA
8304940 TATTCGCATG
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
75 73 0.97
76 2 0.03
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.43
Consensus pattern (75 bp):
AAATTAATATTTATTTTGCATTCTGCTTTTAATCATGATGTTTAATAATTGATGAGTTCTCAGGA
TGAGTCTGGC
Found at i:8308391 original size:12 final size:11
Alignment explanation
Indices: 8308373--8308436 Score: 60
Period size: 12 Copynumber: 5.7 Consensus size: 11
8308363 TATTTAATGA
8308373 TAAAATTTTAT
1 TAAAATTTTAT
8308384 TGAAAATTTTAT
1 T-AAAATTTTAT
* *
8308396 TAAAAAATATAT
1 T-AAAATTTTAT
8308408 TAAAA-TTTAT
1 TAAAATTTTAT
8308418 TAAATATTTT-T
1 TAAA-ATTTTAT
*
8308429 CAAAATTT
1 TAAAATTT
8308437 GTACATTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 12 0.27
11 10 0.22
12 23 0.51
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
TAAAATTTTAT
Found at i:8309636 original size:95 final size:95
Alignment explanation
Indices: 8309447--8309623 Score: 284
Period size: 95 Copynumber: 1.9 Consensus size: 95
8309437 TATATGTAAA
* *
8309447 AAATTTAAATTTATATCTATAAAATATTTTTTGTGAAATATAATCATAAGATCTTTAATTCAAAA
1 AAATTTAAATTTATATCTATAAAATATTTTTTATAAAATATAATCATAAGATCTTTAATTCAAAA
*
8309512 CGAATAATATCTTATAAATTAATTATGAAT
66 CAAATAATATCTTATAAATTAATTATGAAT
**
8309542 AAATTTAAATTTAT-TCTTATAAAATATTTTTTATAAAATATAATTGTAAGATCTTTAATTCAAA
1 AAATTTAAATTTATATC-TATAAAATATTTTTTATAAAATATAATCATAAGATCTTTAATTCAAA
*
8309606 ACAAATAATATTTTATAA
65 ACAAATAATATCTTATAA
8309624 GTTAGTTGTG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 2 0.03
95 73 0.97
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (95 bp):
AAATTTAAATTTATATCTATAAAATATTTTTTATAAAATATAATCATAAGATCTTTAATTCAAAA
CAAATAATATCTTATAAATTAATTATGAAT
Found at i:8340544 original size:42 final size:43
Alignment explanation
Indices: 8340412--8340545 Score: 182
Period size: 43 Copynumber: 3.1 Consensus size: 43
8340402 TAGTTTGAGG
*
8340412 ATTTCTCATTTTAAAGTTGTTTAGCCTCTATTTAGATGAGCTA
1 ATTTCTCATTTTAAAGTTGTTTAGCCTCTGTTTAGATGAGCTA
* *
8340455 ATTTCTCATTTTAAAGTTGTTTAGCCTCTGTTTAGAGGAGCTC
1 ATTTCTCATTTTAAAGTTGTTTAGCCTCTGTTTAGATGAGCTA
* * * *
8340498 ATTTCCCA-TTTAAAGTTGTTTAGCTTTTGTTTAAATGAGCCT-
1 ATTTCTCATTTTAAAGTTGTTTAGCCTCTGTTTAGATGAG-CTA
8340540 ATTTCT
1 ATTTCT
8340546 TAATTTATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
42 32 0.40
43 49 0.60
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (43 bp):
ATTTCTCATTTTAAAGTTGTTTAGCCTCTGTTTAGATGAGCTA
Found at i:8341822 original size:18 final size:18
Alignment explanation
Indices: 8341795--8341860 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
8341785 AATCGCAGGT
*
8341795 TTTTTCTTTTTCATTTTA
1 TTTTTATTTTTCATTTTA
*
8341813 TTTTTATTTTTGATTTTGA
1 TTTTTATTTTTCATTTT-A
8341832 -TTTTATTTTTCCTATTTTA
1 TTTTTATTTTT-C-ATTTTA
*
8341851 TTTTCATTTT
1 TTTTTATTTT
8341861 ATTATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 25 0.62
19 2 0.05
20 13 0.32
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTATTTTTCATTTTA
Found at i:8341829 original size:25 final size:25
Alignment explanation
Indices: 8341802--8341863 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
8341792 GGTTTTTTCT
8341802 TTTTCATTTTATTTTT-AT-TTTTGA
1 TTTTCATTTTATTTTTCATATTTT-A
* *
8341826 TTTTGATTTTATTTTTCCTATTTTA
1 TTTTCATTTTATTTTTCATATTTTA
8341851 TTTTCATTTTATT
1 TTTTCATTTTATT
8341864 ATATATATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.45
25 14 0.42
26 4 0.12
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTTCATTTTATTTTTCATATTTTA
Found at i:8343944 original size:7 final size:7
Alignment explanation
Indices: 8343932--8343971 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
8343922 CAAATTCCAT
8343932 TAAACCC
1 TAAACCC
*
8343939 TAAACCA
1 TAAACCC
8343946 TAAACCC
1 TAAACCC
*
8343953 TAAATCC
1 TAAACCC
8343960 TAAACCC
1 TAAACCC
8343967 TAAAC
1 TAAAC
8343972 GCGAAACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:8345275 original size:16 final size:15
Alignment explanation
Indices: 8345239--8345280 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
8345229 ATAATAAAGG
8345239 AAAACAAAAAAAATCT
1 AAAA-AAAAAAAATCT
8345255 AAAAAACAAAAAATC-
1 AAAAAA-AAAAAATCT
8345270 ACAAAAAAAAA
1 A-AAAAAAAAA
8345281 TCTTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.81, C:0.12, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAAATCT
Found at i:8348772 original size:24 final size:24
Alignment explanation
Indices: 8348736--8348781 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
8348726 TATAGCACCA
**
8348736 AAAATCTTTAAATAATGTGAAATT
1 AAAATCTAAAAATAATGTGAAATT
**
8348760 AAAATCTAAAAATTTTGTGAAA
1 AAAATCTAAAAATAATGTGAAA
8348782 ATTTGACCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (24 bp):
AAAATCTAAAAATAATGTGAAATT
Found at i:8350885 original size:97 final size:97
Alignment explanation
Indices: 8350715--8350904 Score: 308
Period size: 97 Copynumber: 2.0 Consensus size: 97
8350705 CTTCATTTGG
* *
8350715 TAAGTTATAAGCAATAAGATGGTTGATTAACATGCAAAATTGTTTAATACATGAGCTACTCAACA
1 TAAGTTATAAGCAATAAGATGGTTGATTAACATGCAAAATTGTCTAATACATGAGCCACTCAACA
8350780 GAGATTTCTAGTTTTGGTGACTTAATAGATGT
66 GAGATTTCTAGTTTTGGTGACTTAATAGATGT
** *
8350812 TAAGTTATAAGCAATAAGATGGTTGATTAATTTGCAAAATTGTCTAATACATGAGCCACTCAACT
1 TAAGTTATAAGCAATAAGATGGTTGATTAACATGCAAAATTGTCTAATACATGAGCCACTCAACA
** *
8350877 TTGCTTTCTAGTTTTGGTGACTTAATAG
66 GAGATTTCTAGTTTTGGTGACTTAATAG
8350905 GTGTCAAGGC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 85 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (97 bp):
TAAGTTATAAGCAATAAGATGGTTGATTAACATGCAAAATTGTCTAATACATGAGCCACTCAACA
GAGATTTCTAGTTTTGGTGACTTAATAGATGT
Found at i:8353488 original size:57 final size:57
Alignment explanation
Indices: 8353393--8353546 Score: 168
Period size: 57 Copynumber: 2.7 Consensus size: 57
8353383 GAAGCATTTT
* * *
8353393 CAAAGATAAGAAAAAAGATTTGTAAGACTTTCAAGCATAATTACCAAGATCTCCAAG
1 CAAAGATAAGAAAAAAGATTTGTAAGAATTTCAAGCATAATCACCAAGACCTCCAAG
* * * * ** *
8353450 CAAAAATAAGAAAAATGATTTGTAAGAATTTTAGGCATAATCACTGAGACCTCTAAG
1 CAAAGATAAGAAAAAAGATTTGTAAGAATTTCAAGCATAATCACCAAGACCTCCAAG
* * *
8353507 CAAAGATAAG-AAAAAGAATTT-TAAGACTTCCAAACATAAT
1 CAAAGATAAGAAAAAAG-ATTTGTAAGAATTTCAAGCATAAT
8353547 ATTCAAAACC
Statistics
Matches: 79, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
56 19 0.24
57 60 0.76
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (57 bp):
CAAAGATAAGAAAAAAGATTTGTAAGAATTTCAAGCATAATCACCAAGACCTCCAAG
Found at i:8354103 original size:6 final size:6
Alignment explanation
Indices: 8354094--8354151 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
8354084 ATTTTATCAT
*
8354094 TTTTTA TTTTT- TATTTTA TTTTTTA TTTTTA TTTTTA TTTTTA TTTTCA
1 TTTTTA TTTTTA T-TTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
8354143 TTTTCA TTT
1 TTTTTA TTT
8354152 CTTTTCATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
5 1 0.02
6 41 0.85
7 5 0.10
8 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:8360566 original size:12 final size:12
Alignment explanation
Indices: 8360549--8360573 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8360539 ATCACATGCC
8360549 ATCTAGCTATGA
1 ATCTAGCTATGA
8360561 ATCTAGCTATGA
1 ATCTAGCTATGA
8360573 A
1 A
8360574 ATTGACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATCTAGCTATGA
Found at i:8361830 original size:15 final size:15
Alignment explanation
Indices: 8361810--8361845 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
8361800 TCAACAATAA
8361810 ACTCAAAGTGACGGT
1 ACTCAAAGTGACGGT
8361825 ACTCAAAGTGACGGT
1 ACTCAAAGTGACGGT
*
8361840 GCTCAA
1 ACTCAA
8361846 TGACAATGGT
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:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (15 bp):
ACTCAAAGTGACGGT
Found at i:8363765 original size:16 final size:17
Alignment explanation
Indices: 8363739--8363791 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
8363729 CTTAAGAACT
8363739 AAAGCTTACTAAAAATAG
1 AAAG-TTACTAAAAATAG
8363757 AAA-TTACT-AAAAT-G
1 AAAGTTACTAAAAATAG
*
8363771 CAAAGTTGCTAAAAATAG
1 -AAAGTTACTAAAAATAG
8363789 AAA
1 AAA
8363792 ATTAAACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
14 1 0.03
15 8 0.27
16 9 0.30
17 8 0.27
18 4 0.13
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (17 bp):
AAAGTTACTAAAAATAG
Found at i:8371548 original size:18 final size:18
Alignment explanation
Indices: 8371522--8371564 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
8371512 TACCATAGGG
8371522 CTTTCTTCCCCATCGTCA
1 CTTTCTTCCCCATCGTCA
*
8371540 CTTTTTTCCCCATCGTCA
1 CTTTCTTCCCCATCGTCA
8371558 CTTTCTT
1 CTTTCTT
8371565 ATACTGGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.09, C:0.40, G:0.05, T:0.47
Consensus pattern (18 bp):
CTTTCTTCCCCATCGTCA
Found at i:8373689 original size:31 final size:30
Alignment explanation
Indices: 8373613--8373690 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
8373603 TTTAATTCAC
*
8373613 ATATATATAAAACT-T-TTAAAATAAAAATT
1 ATATATATAAAA-TATATAAAAATAAAAATT
*
8373642 ATATATATAAATTATATAAAAATAAAAATT
1 ATATATATAAAATATATAAAAATAAAAATT
*
8373672 A-AGTTTAATAAAATATATA
1 ATA-TAT-ATAAAATATATA
8373691 TAATTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 1 0.02
29 13 0.32
30 16 0.39
31 11 0.27
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (30 bp):
ATATATATAAAATATATAAAAATAAAAATT
Found at i:8373733 original size:20 final size:20
Alignment explanation
Indices: 8373708--8373745 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8373698 ATTTTTAATT
*
8373708 TTTATATATATGTGAATTAA
1 TTTATATATATGTAAATTAA
8373728 TTTATATATATGTAAATT
1 TTTATATATATGTAAATT
8373746 CGAGTCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTATATATATGTAAATTAA
Found at i:8376502 original size:25 final size:25
Alignment explanation
Indices: 8376470--8376517 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
8376460 AAATAATTAA
*
8376470 AATTAAGGGATTATCTTACTTTTTT
1 AATTAAGGAATTATCTTACTTTTTT
8376495 AATTAAGGAATTATCTTACTTTT
1 AATTAAGGAATTATCTTACTTTT
8376518 AAATGGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (25 bp):
AATTAAGGAATTATCTTACTTTTTT
Found at i:8376873 original size:21 final size:20
Alignment explanation
Indices: 8376844--8376882 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8376834 ACCAATAAAT
8376844 AAAAAAAATTACTTTGGATC
1 AAAAAAAATTACTTTGGATC
*
8376864 AAAAAGAAATTTCTTTGGA
1 AAAAA-AAATTACTTTGGA
8376883 ATATAGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.31
Consensus pattern (20 bp):
AAAAAAAATTACTTTGGATC
Found at i:8393097 original size:23 final size:26
Alignment explanation
Indices: 8393037--8393105 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
8393027 TTAGTATATG
8393037 TATTTTTATTAAATAATATAAATTAT
1 TATTTTTATTAAATAATATAAATTAT
*
8393063 TA-TTTTA--AATTAAT-TAAATTAATT
1 TATTTTTATTAAATAATATAAATT-A-T
8393087 TATTTTTATTAAA-AATATA
1 TATTTTTATTAAATAATATA
8393106 TATATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
22 6 0.17
23 7 0.20
24 3 0.09
25 10 0.29
26 5 0.14
27 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTTTATTAAATAATATAAATTAT
Found at i:8403787 original size:5 final size:5
Alignment explanation
Indices: 8403773--8403806 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
8403763 AGCAACCGAC
8403773 AGAG- AGAGA AGAGA AGAGA AGAGA AGAGA AGAGA
1 AGAGA AGAGA AGAGA AGAGA AGAGA AGAGA AGAGA
8403807 CGACAAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
AGAGA
Found at i:8404395 original size:27 final size:26
Alignment explanation
Indices: 8404345--8404401 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
8404335 CATATCAAAG
*
8404345 TAATATTATTTAATCTAATTTTATTTA
1 TAATATTATTTAATCTAATCTTA-TTA
*
8404372 TAATATTATTTTATC-ATATCTTATTA
1 TAATATTATTTAATCTA-ATCTTATTA
8404398 TAAT
1 TAAT
8404402 CTTGTATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (26 bp):
TAATATTATTTAATCTAATCTTATTA
Found at i:8404699 original size:23 final size:24
Alignment explanation
Indices: 8404649--8404705 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
8404639 AATGAGAAAA
* *
8404649 AAAACTAAAAAATTAAAAAATGTT
1 AAAACTAAAAAATTAAAAAATATC
* *
8404673 AAAATTAAAAAA-TACAAAATATC
1 AAAACTAAAAAATTAAAAAATATC
8404696 AAAACTAAAA
1 AAAACTAAAA
8404706 TTTAAATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (24 bp):
AAAACTAAAAAATTAAAAAATATC
Found at i:8405060 original size:26 final size:26
Alignment explanation
Indices: 8405022--8405074 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
8405012 TGCTAATGCC
8405022 CCATTTCTTTTC-TCTCTCTCCTCTTT
1 CCATTTCTTTTCTTCTCTCT-CTCTTT
*
8405048 CCATTT-TTCTTCTTCTTTCTCTCTTT
1 CCATTTCTT-TTCTTCTCTCTCTCTTT
8405074 C
1 C
8405075 ATAATTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.08
26 16 0.67
27 6 0.25
ACGTcount: A:0.04, C:0.36, G:0.00, T:0.60
Consensus pattern (26 bp):
CCATTTCTTTTCTTCTCTCTCTCTTT
Found at i:8405148 original size:26 final size:23
Alignment explanation
Indices: 8405095--8405158 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 23
8405085 TATTTTTTTG
* *
8405095 AATTTTTTTAAAAAATCATATTT
1 AATTTTTTTAAAAAATAATATTC
*
8405118 TATTTTTTTCAAAAAATTGAATATTC
1 AATTTTTTT-AAAAAA-T-AATATTC
*
8405144 AATTTTTATAAAAAA
1 AATTTTTTTAAAAAA
8405159 CTTTTTCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 8 0.24
24 6 0.18
25 7 0.21
26 12 0.36
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTTTTTTAAAAAATAATATTC
Found at i:8405430 original size:3 final size:3
Alignment explanation
Indices: 8405413--8405502 Score: 150
Period size: 3 Copynumber: 31.0 Consensus size: 3
8405403 TTTTTTATAC
*
8405413 ATT A-T ATT A-T ATT ATT ATC A-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8405458 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8405503 TGCTTTTTCT
Statistics
Matches: 82, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
2 5 0.06
3 77 0.94
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:8409854 original size:12 final size:12
Alignment explanation
Indices: 8409833--8409865 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8409823 AGGGCAAATA
8409833 TTTTCTTTTTT-
1 TTTTCTTTTTTC
8409844 TTTTCCTTTTTTC
1 TTTT-CTTTTTTC
8409857 TTTTCTTTT
1 TTTTCTTTT
8409866 CATGCATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 12 0.60
13 4 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:8413310 original size:53 final size:53
Alignment explanation
Indices: 8413227--8413348 Score: 174
Period size: 53 Copynumber: 2.3 Consensus size: 53
8413217 TTCAAAAACA
* *
8413227 AAAAAGAAAGAAAAAGAATAGTTCAAGTTGAAAACCCAAAAGGGCAACTTGAACT
1 AAAAA-AAATAAAAA-AAAAGTTCAAGTTGAAAACCCAAAAGGGCAACTTGAACT
** *
8413282 AAAAAAAATAAAAAAAAAGTTCAAGTTGAAAACCTGAAAGGGTAACTTGAACT
1 AAAAAAAATAAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGGCAACTTGAACT
8413335 -AAAAAAATAAAAAA
1 AAAAAAAATAAAAAA
8413349 TAAAAAATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
52 14 0.23
53 35 0.56
54 8 0.13
55 5 0.08
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.16
Consensus pattern (53 bp):
AAAAAAAATAAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGGCAACTTGAACT
Found at i:8413348 original size:7 final size:7
Alignment explanation
Indices: 8413336--8413362 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8413326 ACTTGAACTA
8413336 AAAAAAT
1 AAAAAAT
8413343 AAAAAAT
1 AAAAAAT
8413350 AAAAAAT
1 AAAAAAT
8413357 AAAAAA
1 AAAAAA
8413363 GAGAGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:8414310 original size:56 final size:56
Alignment explanation
Indices: 8414190--8414310 Score: 136
Period size: 56 Copynumber: 2.2 Consensus size: 56
8414180 GATTTTGTCT
* * * * *
8414190 TGATCACTTAATCTTGGCTTAGTCCATATCATTTCTTATGATTCGTGGTTTCATTC
1 TGATCATTTAATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGATTTAATTC
** * * *
8414246 TGGCCATTTGATCTTGGGTCAGTCCAAATCATTTCTTATGATTTGTGATTTAA-TC
1 TGATCATTTAATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGATTTAATTC
8414301 TCGATCATTT
1 T-GATCATTT
8414311 TTTTTTTTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
55 3 0.06
56 49 0.94
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (56 bp):
TGATCATTTAATCTTGGCTCAGTCCAAATCATTTCTTATGATTCGTGATTTAATTC
Found at i:8414487 original size:117 final size:117
Alignment explanation
Indices: 8414253--8414572 Score: 329
Period size: 117 Copynumber: 2.7 Consensus size: 117
8414243 TTCTGGCCAT
* * * * ** ** * * *
8414253 TTGATCTTGGGTCAGTCCAAATCATTTCTTATGATTTGTGATTTAATCTCGATCATTTTTTTTTT
1 TTGATCTTGGCTCAATCCAGATCATTTTTTATGATTCATGATTTTGTC-CCATCA-TTTATTTTC
* * ** *
8414318 TA-CTTCGACTCGATCCTGGTCACTTTATTTTGACTCATGGTTTCATCCCGATCAC
64 AACCTT-GACTCGATCCTAGTTGC-TTATTTTGACTCATAGTTTCATCCCGATCAC
* * **
8414373 TTGATCTTGGCTCAGTTCAG-TCATTTTTTATGATTTGTGATTTTGTCCCATTCATTTATTTTCA
1 TTGATCTTGGCTCAATCCAGATCATTTTTTATGATTCATGATTTTGTCCCA-TCATTTATTTTCA
* *
8414437 ACCTTGACTTGATCTTAGTTGCTTATTTTGACTCATAGTTTCATCCCGATCAC
65 ACCTTGACTCGATCCTAGTTGCTTATTTTGACTCATAGTTTCATCCCGATCAC
* * * ***
8414490 TTGATTTTGGCTCAATCCAGATCATTTTTTATGATTCATGGTTTTTTTTTATCATTTATTTTCAA
1 TTGATCTTGGCTCAATCCAGATCATTTTTTATGATTCATGATTTTGTCCCATCATTTATTTTCAA
8414555 CCTTGACTCGATCCTAGT
66 CCTTGACTCGATCCTAGT
8414573 CGTCTCATTT
Statistics
Matches: 169, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
117 77 0.46
118 45 0.27
119 30 0.18
120 17 0.10
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (117 bp):
TTGATCTTGGCTCAATCCAGATCATTTTTTATGATTCATGATTTTGTCCCATCATTTATTTTCAA
CCTTGACTCGATCCTAGTTGCTTATTTTGACTCATAGTTTCATCCCGATCAC
Found at i:8415152 original size:26 final size:26
Alignment explanation
Indices: 8415121--8415205 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
8415111 TACATCCAAG
*
8415121 CCAATTAGGTCCATTTGTGTCTGGGC
1 CCAATTAGGTCCATTTGTGTCTAGGC
* *
8415147 CCAATTAGGCCCA-TTGATGT-TCAAGC
1 CCAATTAGGTCCATTTG-TGTCT-AGGC
* * *
8415173 CCAATCAGGTTCATTTGTGTCTAGGT
1 CCAATTAGGTCCATTTGTGTCTAGGC
8415199 CCAATTA
1 CCAATTA
8415206 AGCCCATCCG
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
25 4 0.09
26 38 0.83
27 4 0.09
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (26 bp):
CCAATTAGGTCCATTTGTGTCTAGGC
Found at i:8416328 original size:20 final size:22
Alignment explanation
Indices: 8416303--8416358 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
8416293 TCAAAATGAT
8416303 AAAAAAATCTTTTC-AATAAA-
1 AAAAAAATCTTTTCAAATAAAC
* *
8416323 AAAAAAGTTTTTTCAAATAAAC
1 AAAAAAATCTTTTCAAATAAAC
*
8416345 AAAAATAATTTTTT
1 AAAAA-AATCTTTT
8416359 AATTCTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.40
21 6 0.20
22 5 0.17
23 7 0.23
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAAAATCTTTTCAAATAAAC
Found at i:8416341 original size:21 final size:19
Alignment explanation
Indices: 8416303--8416350 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
8416293 TCAAAATGAT
*
8416303 AAAAAAATCTTTTCAATAA
1 AAAAAAATTTTTTCAATAA
8416322 AAAAAAAGTTTTTTCAAATAA
1 AAAAAAA-TTTTTTC-AATAA
*
8416343 ACAAAAAT
1 AAAAAAAT
8416351 AATTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 7 0.28
21 11 0.44
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAAATTTTTTCAATAA
Found at i:8416901 original size:18 final size:19
Alignment explanation
Indices: 8416878--8416913 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8416868 AATGTCCATA
8416878 TTTA-TTTTTAAAATTTTC
1 TTTATTTTTTAAAATTTTC
8416896 TTTATTTTTTAAAATTTT
1 TTTATTTTTTAAAATTTT
8416914 TTGTAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTTTTTAAAATTTTC
Found at i:8420767 original size:19 final size:21
Alignment explanation
Indices: 8420745--8420807 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
8420735 AATTTATAGA
8420745 TTAATTAAAATTTT-A-TATT
1 TTAATTAAAATTTTAATTATT
*
8420764 TTAA-TATATATTTTAATTATT
1 TTAATTA-AAATTTTAATTATT
**
8420785 TTAATTAAAAAATT-ATTATT
1 TTAATTAAAATTTTAATTATT
8420805 TTA
1 TTA
8420808 CTTTTATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 2 0.06
19 10 0.28
20 10 0.28
21 12 0.33
22 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAATTAAAATTTTAATTATT
Found at i:8422174 original size:50 final size:51
Alignment explanation
Indices: 8422119--8422228 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 51
8422109 AACTTAGAAA
8422119 CCAAAAAACTT-AAAAAAAAAATCACCGACCCTAGGTGATCTTCAATTCAC
1 CCAAAAAACTTAAAAAAAAAAATCACCGACCCTAGGTGATCTTCAATTCAC
* *
8422169 CCAAAAAACTTAAAAAAAAAAAAAAATCATCGACCCTAGGTGATCTTTAATTCAC
1 CCAAAAAACTT----AAAAAAAAAAATCACCGACCCTAGGTGATCTTCAATTCAC
8422224 CCAAA
1 CCAAA
8422229 TTCAGCTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
50 11 0.21
55 42 0.79
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (51 bp):
CCAAAAAACTTAAAAAAAAAAATCACCGACCCTAGGTGATCTTCAATTCAC
Found at i:8423932 original size:29 final size:29
Alignment explanation
Indices: 8423887--8423943 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
8423877 TTATTAGTAT
8423887 ACTATAGTATTATTTA-TATTATATTACAC
1 ACTATAGTATTATTTATTA-TATATTACAC
*
8423916 ACTATAGTTGTTA-TTATTATATATTACA
1 ACTATAG-TATTATTTATTATATATTACA
8423944 TATTATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (29 bp):
ACTATAGTATTATTTATTATATATTACAC
Found at i:8423934 original size:3 final size:3
Alignment explanation
Indices: 8423926--8424034 Score: 57
Period size: 3 Copynumber: 34.7 Consensus size: 3
8423916 ACTATAGTTG
* *
8423926 TTA TTA TTA TATA TTA CATA TTA -TA TTA TATA CTA -TA GTTA TTA TTA
1 TTA TTA TTA T-TA TTA -TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA
* *
8423973 TTA TTA -TA CTTA -TA TTA TACA TATA TTA TATA TTA TATA CTA -TA
1 TTA TTA TTA -TTA TTA TTA T-TA T-TA TTA T-TA TTA T-TA TTA TTA
8424017 GTTA TTA TTA TTA TTA TT
1 -TTA TTA TTA TTA TTA TT
8424035 TATTTATTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
2 10 0.12
3 53 0.62
4 23 0.27
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:8423988 original size:41 final size:39
Alignment explanation
Indices: 8423900--8423991 Score: 121
Period size: 41 Copynumber: 2.3 Consensus size: 39
8423890 ATAGTATTAT
*
8423900 TTATATTATATTACACACTATAGTTGTTATTATTATATA
1 TTATATTATATTACACACTATAGTTATTATTATTATATA
* *
8423939 TTACATATTATATTATATACTATAGTTATTATTATTATTATA
1 TT--ATATTATATTACACACTATAGTTATTATTATTA-TATA
8423981 CTTATATTATA
1 -TTATATTATA
8423992 CATATATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.04
41 38 0.83
42 4 0.09
43 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (39 bp):
TTATATTATATTACACACTATAGTTATTATTATTATATA
Found at i:8425840 original size:37 final size:37
Alignment explanation
Indices: 8425797--8425881 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
8425787 TAGATTTGAA
* *
8425797 ATTATTT-TTATTCCCTTTCATTGCT-TATATTTGCTTT
1 ATTATTTATT-TTCCCTTTCATTG-TGTATACTTGCTTG
* *
8425834 ATTATTTATTTTTCTTTTCATTGTGTATACTTGCTTG
1 ATTATTTATTTTCCCTTTCATTGTGTATACTTGCTTG
*
8425871 ATTATTCATTT
1 ATTATTTATTT
8425882 GTCTTTCTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 1 0.02
37 38 0.93
38 2 0.05
ACGTcount: A:0.18, C:0.13, G:0.07, T:0.62
Consensus pattern (37 bp):
ATTATTTATTTTCCCTTTCATTGTGTATACTTGCTTG
Found at i:8425887 original size:37 final size:37
Alignment explanation
Indices: 8425812--8425887 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
8425802 TTTTATTCCC
* * * *
8425812 TTTCATTGCTTATATTTGCTTTATTATTTATTTTTCT
1 TTTCATTGCTTATACTTGCTTGATTATTCATTTGTCT
8425849 TTTCATTG-TGTATACTTGCTTGATTATTCATTTGTCT
1 TTTCATTGCT-TATACTTGCTTGATTATTCATTTGTCT
8425886 TT
1 TT
8425888 CTCTTTATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 1 0.03
37 33 0.97
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.63
Consensus pattern (37 bp):
TTTCATTGCTTATACTTGCTTGATTATTCATTTGTCT
Found at i:8435705 original size:56 final size:53
Alignment explanation
Indices: 8435588--8435867 Score: 213
Period size: 56 Copynumber: 5.2 Consensus size: 53
8435578 TGCTTAACCT
** * * *
8435588 AAAAAAAAGCAAAAAAAAGTTTAAGTTGAAAACTCGAAAAGGCAGCTTAAACCT-
1 AAAAAAAAAAAAAAAAAAGTTCAAGTTGAAAAC-CCAAAAGGCAGCTTGAA-CTA
*
8435642 -----AAAAAAAAAAAAAGTTCAAGTTGAAAACCCAAAATGGTAGCTTGAACTA
1 AAAAAAAAAAAAAAAAAAGTTCAAGTTGAAAACCCAAAA-GGCAGCTTGAACTA
* * * *
8435691 AAAAACAAGAAAAAAATTAAA----AAGTTCAAAACCTAAAAAGGCAACTTGAACTCGA
1 AAAAA-AA-AAAAAAA-AAAAGTTCAAGTTGAAAACC-CAAAAGGCAGCTTGAACT--A
* * * * * *
8435746 AGAAAAAAAGAAGAAAAAGTTTAAGATGAAAACCCGAAAGGGCAGCTTGAACTA
1 AAAAAAAAAAAAAAAAAAGTTCAAGTTGAAAACCC-AAAAGGCAGCTTGAACTA
*
8435800 AAAAAAAAAAGAAGAAAAAAGTTCAAGTTGAAAACCCGAAAAAGCAGCTTGAAC-A
1 AAAAAAAAAA-AA-AAAAAAGTTCAAGTTGAAAACCC-AAAAGGCAGCTTGAACTA
8435855 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
8435868 GAAGAAAAGG
Statistics
Matches: 179, Mismatches: 27, Indels: 41
0.72 0.11 0.17
Matches are distributed among these distances:
48 7 0.04
49 34 0.19
52 3 0.02
53 28 0.16
54 17 0.09
55 20 0.11
56 67 0.37
57 3 0.02
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.14
Consensus pattern (53 bp):
AAAAAAAAAAAAAAAAAAGTTCAAGTTGAAAACCCAAAAGGCAGCTTGAACTA
Found at i:8436728 original size:114 final size:114
Alignment explanation
Indices: 8436527--8436953 Score: 383
Period size: 114 Copynumber: 3.7 Consensus size: 114
8436517 ATAGTTTCTG
* * * * ** * *
8436527 ATCTTGACTCAGGTCAAATCATCTTTAGACTTGTGGCATCAGTTTAGTCATTTACCTACGACCTC
1 ATCTTGACTTAGGTCAAGTCATCTTTAGACTCGTGACATCAGTTCGGTCATTTACCTACAACTTC
* * * *
8436592 GACTCGATCTTGGTCGCCTTCAAACTTATGACATCATCCTAATAATCTA
66 AACTCGATCTTGGTCGCCTTCAAACTCACGACATCATCCCAATAATCTA
* * * *
8436641 ATCTTGACTTGGGTCAAGTCATCTTTAGACTCGCGACATTAGTTCGGTCATTTACCTACAACTTT
1 ATCTTGACTTAGGTCAAGTCATCTTTAGACTCGTGACATCAGTTCGGTCATTTACCTACAACTTC
** * * *
8436706 AACTTAATCTTGGTCGCTTTCAAACTCACGACATCATCCCAATCATCTG
66 AACTCGATCTTGGTCGCCTTCAAACTCACGACATCATCCCAATAATCTA
* * * *
8436755 ATCTTGACTTAGGT-TAGATCATCTTCAGACTCGTGACATCATTTCGGTCATTTACCTATAACTT
1 ATCTTGACTTAGGTCAAG-TCATCTTTAGACTCGTGACATCAGTTCGGTCATTTACCTACAACTT
* * * * ** * *
8436819 GAACTCGATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAATAATCTG
65 CAACTCGATCTTGGTCGCCTTCAAACTCACGACATCATCCCAATAATCTA
* ** * * * * * * ** *
8436869 ATCTCGACTCGGGT-TAGATCATCTTCAGACTTGTGACGTCAGTAT-GATCATTTACTTATGACC
1 ATCTTGACTTAGGTCAAG-TCATCTTTAGACTCGTGACATCAGT-TCGGTCATTTACCTACAACT
* *
8436932 TCGACTCGGTCTTGGTCGCCTT
64 TCAACTCGATCTTGGTCGCCTT
8436954 TAGACTTGTG
Statistics
Matches: 258, Mismatches: 53, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
113 2 0.01
114 255 0.99
115 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (114 bp):
ATCTTGACTTAGGTCAAGTCATCTTTAGACTCGTGACATCAGTTCGGTCATTTACCTACAACTTC
AACTCGATCTTGGTCGCCTTCAAACTCACGACATCATCCCAATAATCTA
Found at i:8436959 original size:114 final size:114
Alignment explanation
Indices: 8436523--8437040 Score: 294
Period size: 114 Copynumber: 4.5 Consensus size: 114
8436513 CATCATAGTT
* * * * * * * * *
8436523 TCTGATCTTGACTCAGGTCAAATCATCTTTAGACTTGTGGCATCAGTTTAG-TCATTTACCTACG
1 TCTGATCTCGACTCAGGTTAGATCATCTTCAGACTCGTGACATCA-TATCGATCATTTACCTA-T
* * * *** ** * *
8436587 ACCTCG-ACTCGATCTTGGTCGCCTTCAAACTTATGACATCATCCTAATAA
64 AACTCGAACTCGATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAATAA
* * ** * * * * * *
8436637 TCTAATCTTGACTTGGGTCA-AGTCATCTTTAGACTCGCGACATTAGT-TCGGTCATTTACCTAC
1 TCTGATCTCGACTCAGGTTAGA-TCATCTTCAGACTCGTGACATCA-TATCGATCATTTACCTAT
** ** * * * * ** * *
8436700 AACTTTAACTTAATCTTGGTCGCTTTCAAACTCACGACATCATCCCAATCA
64 AACTCGAACTCGATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAATAA
* * * *
8436751 TCTGATCTTGACTTAGGTTAGATCATCTTCAGACTCGTGACATCATTTCGGTCATTTACCTATAA
1 TCTGATCTCGACTCAGGTTAGATCATCTTCAGACTCGTGACATCATATCGATCATTTACCTATAA
*
8436816 CTTGAACTCGATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAATAA
66 CTCGAACTCGATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAATAA
* * * *
8436865 TCTGATCTCGACTCGGGTTAGATCATCTTCAGACTTGTGACGTCAGTAT-GATCATTTACTTATG
1 TCTGATCTCGACTCAGGTTAGATCATCTTCAGACTCGTGACATCA-TATCGATCATTTACCTAT-
* * * * * * * * * *
8436929 ACCTCG-ACTCGGTCTTGGTCGCCTTTAGACTTGTGGCATTGTCCCAGTCA
64 AACTCGAACTCGATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAATAA
* ** * * * * * * *
8436979 TTTGATCTTAACTCATGTCAGATCATATTCAGACTCATGGCATCA-GTCTAGTCATTTACCTA
1 TCTGATCTCGACTCAGGTTAGATCATCTTCAGACTCGTGACATCATATCGA-TCATTTACCTA
8437041 CGACCTCTTC
Statistics
Matches: 325, Mismatches: 70, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
112 1 0.00
113 8 0.02
114 309 0.95
115 7 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (114 bp):
TCTGATCTCGACTCAGGTTAGATCATCTTCAGACTCGTGACATCATATCGATCATTTACCTATAA
CTCGAACTCGATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAATAA
Found at i:8437129 original size:114 final size:113
Alignment explanation
Indices: 8436526--8437117 Score: 245
Period size: 114 Copynumber: 5.2 Consensus size: 113
8436516 CATAGTTTCT
* * * * ** *
8436526 GATCTTGACTCAGGTCAAATCATCTTTAGACTTGTGGCATCAGTTTAGTCATTTACCTACGACCT
1 GATCTTAACTCAGGTCAGATCATATTCAGACTCATGGCATCAGTCTAGTCATTTACCTACGACCT
* * * * * *
8436591 CGACTC-GATCTTGGTCGCCTTCAAACTTATGACATCATCCTAAT-AATC
66 CGACTCAG-TCTTGGTCACCTTTAGACTTATG-CATTATCCCAATCATTC
* * ** * * ** * * * *
8436639 TAATCTTGACTTGGGTCA-AGTCATCTTTAGACTCGCGACATTAGT-TCGGTCATTTACCTACAA
1 -GATCTTAACTCAGGTCAGA-TCATATTCAGACTCATGGCATCAGTCT-AGTCATTTACCTACGA
* ** * * * * * * *
8436702 CTTTAACTTAATCTTGGTC-GCTTTCAAACTCACGACATCATCCCAATCA-TC
63 CCTCGACTCAGTCTTGGTCACCTTT-AGACTTATG-CATTATCCCAATCATTC
* * * * * * * * * *
8436753 TGATCTTGACTTAGGTTAGATCATCTTCAGACTCGTGACATCA-TTTCGGTCATTTACCTA-TAA
1 -GATCTTAACTCAGGTCAGATCATATTCAGACTCATGGCATCAGTCT-AGTCATTTACCTACGAC
* * *** * ** *
8436816 CTTGAACTC-GATCTTGGTCACCTTCAGACTCGCGGTATCGTCCCAAT-AATC
64 CTCG-ACTCAG-TCTTGGTCACCTTTAGACT-TATGCATTATCCCAATCATTC
** * * * ** * * * * *
8436867 TGATCTCGACTCGGGTTAGATCATCTTCAGACTTGTGACGTCAGTAT-GATCATTTACTTATGAC
1 -GATCTTAACTCAGGTCAGATCATATTCAGACTCATGGCATCAGTCTAG-TCATTTACCTACGAC
* * * * * *
8436931 CTCGACTCGGTCTTGGTCGCCTTTAGACTTGTGGCATTGTCCCAGTCATTT
64 CTCGACTCAGTCTTGGTCACCTTTAGACTTAT-GCATTATCCCAATCATTC
*
8436982 GATCTTAACTCATGTCAGATCATATTCAGACTCATGGCATCAGTCTAGTCATTTACCTACGACCT
1 GATCTTAACTCAGGTCAGATCATATTCAGACTCATGGCATCAGTCTAGTCATTTACCTACGACCT
**
8437047 CTTCTCAGTCTTGGTCACCTTTAGACTCTCAT-CATTATCCCAATCATTC
66 CGACTCAGTCTTGGTCACCTTTAGACT-T-ATGCATTATCCCAATCATTC
** *
8437096 GATCTTGGCTTAGGTCAGATCA
1 GATCTTAACTCAGGTCAGATCA
8437118 CTTTTAGACT
Statistics
Matches: 373, Mismatches: 84, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
113 11 0.03
114 344 0.92
115 17 0.05
116 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (113 bp):
GATCTTAACTCAGGTCAGATCATATTCAGACTCATGGCATCAGTCTAGTCATTTACCTACGACCT
CGACTCAGTCTTGGTCACCTTTAGACTTATGCATTATCCCAATCATTC
Found at i:8437379 original size:3 final size:3
Alignment explanation
Indices: 8437343--8437557 Score: 113
Period size: 3 Copynumber: 68.3 Consensus size: 3
8437333 TAGCTGGGGA
* *
8437343 TAT TAT TACT T-T TAT TAG TA- TAT TA- TAG TAT TAT TAT ATAT TA-
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
8437386 TAT TAT ACAC TA- TAGT TAT TAT TAT TAT TAT GTAT TAT ATAT TA- TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT
* *
8437433 TAT ATAC TA- TAGT TAT TAT TAT TAT TAT ACAT ATAT TAT ATAT TAT
1 TAT -TAT TAT TA-T TAT TAT TAT TAT TAT -TAT -TAT TAT -TAT TAT
* *
8437479 ATAC TAT AGAT T-T TAT TAT TAT TAT TAT ATAT TATT TAT TAT ATAT
1 -TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT -TAT
* **
8437525 TAT CTAT TAT ATAC TAT GGT TAT TAT TAT TAT T
1 TAT -TAT TAT -TAT TAT TAT TAT TAT TAT TAT T
8437558 TATTTATTTA
Statistics
Matches: 169, Mismatches: 18, Indels: 50
0.71 0.08 0.21
Matches are distributed among these distances:
2 16 0.09
3 109 0.64
4 44 0.26
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:8437386 original size:7 final size:7
Alignment explanation
Indices: 8437355--8437537 Score: 132
Period size: 7 Copynumber: 26.3 Consensus size: 7
8437345 TTATTACTTT
8437355 TATTAGTA
1 TATTA-TA
8437363 TATTATA
1 TATTATA
8437370 GTATTAT-
1 -TATTATA
8437377 TATATATTA
1 TAT-TA-TA
8437386 TATTATA
1 TATTATA
* *
8437393 CACTATA
1 TATTATA
*
8437400 -GTTAT-
1 TATTATA
8437405 TATTAT-
1 TATTATA
*
8437411 TATTATG
1 TATTATA
8437418 TATTATA
1 TATTATA
8437425 TA-T-TA
1 TATTATA
8437430 TATTATA
1 TATTATA
*
8437437 TACTATA
1 TATTATA
8437444 GTTATTAT-
1 --TATTATA
8437452 TATTAT-
1 TATTATA
*
8437458 TATACATA
1 TAT-TATA
8437466 TATTATA
1 TATTATA
8437473 TATTATA
1 TATTATA
*
8437480 TACTATA
1 TATTATA
* *
8437487 GATTTTA
1 TATTATA
8437494 TTATTAT-
1 -TATTATA
8437501 TATTATA
1 TATTATA
*
8437508 TATTATT
1 TATTATA
8437515 TATTATA
1 TATTATA
*
8437522 TATTATC
1 TATTATA
8437529 TATTATA
1 TATTATA
8437536 TA
1 TA
8437538 CTATGGTTAT
Statistics
Matches: 141, Mismatches: 20, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
5 4 0.03
6 33 0.23
7 75 0.53
8 21 0.15
9 8 0.06
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (7 bp):
TATTATA
Found at i:8437430 original size:44 final size:44
Alignment explanation
Indices: 8437374--8437522 Score: 212
Period size: 44 Copynumber: 3.3 Consensus size: 44
8437364 ATTATAGTAT
* *
8437374 TATTATATATTATATTATACACTATAGTTATTATTATTATTATG
1 TATTATATATTATATTATATACTATAGTTATTATTATTATTATA
8437418 TATTATATATTATATTATATACTATAGTTATTATTATTATTATA
1 TATTATATATTATATTATATACTATAGTTATTATTATTATTATA
*
8437462 CA-TATAT-TATATATTATATACTATAGATTTTATTATTATTATTATA
1 TATTATATAT-TATATTATATACTATAG---TTATTATTATTATTATA
*
8437508 TATTATTTATTATAT
1 TATTATATATTATAT
8437523 ATTATCTATT
Statistics
Matches: 94, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
42 1 0.01
43 22 0.23
44 43 0.46
46 18 0.19
47 9 0.10
48 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (44 bp):
TATTATATATTATATTATATACTATAGTTATTATTATTATTATA
Found at i:8438429 original size:19 final size:18
Alignment explanation
Indices: 8438401--8438439 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8438391 AGATCGCAAG
*
8438401 TTTTTTTTTTCATTTTAT
1 TTTTTTTTTTCATTTGAT
*
8438419 TTTTATTTTTTGATTTGAT
1 TTTT-TTTTTTCATTTGAT
8438438 TT
1 TT
8438440 GATTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTTTTTCATTTGAT
Found at i:8444174 original size:73 final size:73
Alignment explanation
Indices: 8444097--8444232 Score: 175
Period size: 73 Copynumber: 1.9 Consensus size: 73
8444087 CTTGGATCGA
* * *
8444097 ATCGATTGGTTTTTCTTCCAATAGCCAAATTAAGG-AAAAATGTTAAGGAACCGATCGATCCCCT
1 ATCGATTGATTTTCCATCCAATAGCCAAATT-AGGTAAAAATGTTAAGGAACCGATCGATCCCCT
8444161 TTAGATTGG
65 TTAGATTGG
* * ** * *
8444170 ATCGATTTATTTTCCATCTAATAGCCAAATTAGGTGGAAATGTTAAGGAATCGATGGATCCCC
1 ATCGATTGATTTTCCATCCAATAGCCAAATTAGGTAAAAATGTTAAGGAACCGATCGATCCCC
8444233 CTATGGACCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 3 0.06
73 50 0.94
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (73 bp):
ATCGATTGATTTTCCATCCAATAGCCAAATTAGGTAAAAATGTTAAGGAACCGATCGATCCCCTT
TAGATTGG
Found at i:8453643 original size:18 final size:18
Alignment explanation
Indices: 8453600--8453651 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
8453590 TGAAATTAAT
8453600 TATTATAATAATAAAATTA
1 TATT-TAATAATAAAATTA
* *
8453619 AAATTAATAAT-AAATATA
1 TATTTAATAATAAAAT-TA
*
8453637 TATTTAAAAATAAAA
1 TATTTAATAATAAAA
8453652 GTGGCAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 4 0.15
18 17 0.65
19 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATTTAATAATAAAATTA
Found at i:8454556 original size:37 final size:38
Alignment explanation
Indices: 8454505--8454585 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
8454495 CTTGGAACAA
8454505 ATTTTATAAATAATAATATTAA-AAATATATATTTTA-G
1 ATTTTATAAATAATAATATTAAGAAA-ATATATTTTACG
** *
8454542 ATTTTATATGTAATAATATTAAGTAAATATATTTTACG
1 ATTTTATAAATAATAATATTAAGAAAATATATTTTACG
8454580 -TTTTAT
1 ATTTTAT
8454586 TTTAACTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 36 0.92
38 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (38 bp):
ATTTTATAAATAATAATATTAAGAAAATATATTTTACG
Found at i:8454739 original size:72 final size:71
Alignment explanation
Indices: 8454644--8455073 Score: 337
Period size: 72 Copynumber: 5.9 Consensus size: 71
8454634 TTAAAACATT
* * ** * *
8454644 ATCTTTGTTAACATTTCAGAATTTCAAAAATAAAAGTTTTGATATCCACTATGTTTCTTATCTTA
1 ATCTTTGTTAAAATTTCA-AATTTTAAAAAT-AAAGTTTCAATATCCACTATGTTTTTTATTTTA
8454709 AAAATACG
64 AAAATACG
* * * * * * *
8454717 ATTTTTGTTAAAATGTCAAATTTTTAAAAATATAA-TTTCAACATCCAATGTGTTTCTTATCTTA
1 ATCTTTGTTAAAATTTCAAA-TTTTAAAAATA-AAGTTTCAATATCCACTATGTTTTTTATTTTA
*
8454781 AAAACACG
64 AAAATACG
* * * * * *
8454789 ATCTTTATTAAAATTTTAAAATTTTGAAAATATAGTTTCAATATCCATTACGTTTTTTATTTTAA
1 ATCTTTGTTAAAA-TTTCAAATTTTAAAAATAAAGTTTCAATATCCACTATGTTTTTTATTTTAA
8454854 AAATGA-G
65 AAAT-ACG
* * * * **
8454861 ATTTTTGTTAAATTTTTAAAATTTTGAAAATAAAGTTTCAATATCCACTACATTGTTTTATTTTA
1 ATCTTTGTTAAA-ATTTCAAATTTTAAAAATAAAGTTTCAATATCCACTATGTT-TTTTATTTTA
* *
8454926 AAAATGCA
64 AAAATACG
* * * * * *
8454934 ATATTTGTTAAAA-TTCTAGAATTTCAAAAATAAGGTTTCAACATCAACTATATTTTTTATTTTA
1 ATCTTTGTTAAAATTTC-A-AATTTTAAAAATAAAGTTTCAATATCCACTATGTTTTTTATTTTA
**
8454998 AAAACGCG
64 AAAATACG
* * ** * * *
8455006 ATCTTTGTTAAAATTTCATAAATTTGAAAATATTGTTTCAATATTCATTACT-TTTTTTATCTTA
1 ATCTTTGTTAAAATTTCA-AATTTTAAAAATAAAGTTTCAATATCCACTA-TGTTTTTTATTTTA
8455070 AAAA
64 AAAA
8455074 GCAATACTTG
Statistics
Matches: 291, Mismatches: 54, Indels: 25
0.79 0.15 0.07
Matches are distributed among these distances:
71 3 0.01
72 197 0.68
73 91 0.31
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.44
Consensus pattern (71 bp):
ATCTTTGTTAAAATTTCAAATTTTAAAAATAAAGTTTCAATATCCACTATGTTTTTTATTTTAAA
AATACG
Found at i:8454929 original size:217 final size:217
Alignment explanation
Indices: 8454670--8455073 Score: 514
Period size: 217 Copynumber: 1.9 Consensus size: 217
8454660 CAGAATTTCA
** ** * *
8454670 AAAATAAAAGTTTTGATATCCACTATGTTTCTTATCTTAAAAATACGATTTTTGTTAAAATGTC-
1 AAAATAAAAGTTTCAATATCCACTACATTTCTTATCTTAAAAATACAATATTTGTTAAAAT-TCT
* * *
8454734 A-AATTTTTAAAAATATA-ATTTCAACATCCAA-TGTGTTTCTTATCTTAAAAACACGATCTTTA
65 AGAA-TTTCAAAAATA-AGATTTCAACAT-CAACTATATTTCTTATCTTAAAAACACGATCTTTA
* *
8454796 TTAAAATTTTA-AAATTTTGAAAATATAGTTTCAATATCCATTACGTTTTTTATTTTAAAAATGA
127 TTAAAATTTCATAAA-TTTGAAAATATAGTTTCAATATCCATTACGTTTTTTATCTTAAAAATGA
8454860 GATTTTTGTTAAATTTTTAAAATTTTG
191 GATTTTTGTTAAATTTTTAAAATTTTG
* * *
8454887 AAAAT-AAAGTTTCAATATCCACTACATTGTTTTATTTTAAAAATGCAATATTTGTTAAAATTCT
1 AAAATAAAAGTTTCAATATCCACTACATT-TCTTATCTTAAAAATACAATATTTGTTAAAATTCT
* * * * *
8454951 AGAATTTCAAAAATAAGGTTTCAACATCAACTATATTTTTTATTTTAAAAACGCGATCTTTGTTA
65 AGAATTTCAAAAATAAGATTTCAACATCAACTATATTTCTTATCTTAAAAACACGATCTTTATTA
* * *
8455016 AAATTTCATAAATTTGAAAATATTGTTTCAATATTCATTACTTTTTTTATCTTAAAAA
130 AAATTTCATAAATTTGAAAATATAGTTTCAATATCCATTACGTTTTTTATCTTAAAAA
8455074 GCAATACTTG
Statistics
Matches: 159, Mismatches: 22, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
216 25 0.16
217 129 0.81
218 5 0.03
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (217 bp):
AAAATAAAAGTTTCAATATCCACTACATTTCTTATCTTAAAAATACAATATTTGTTAAAATTCTA
GAATTTCAAAAATAAGATTTCAACATCAACTATATTTCTTATCTTAAAAACACGATCTTTATTAA
AATTTCATAAATTTGAAAATATAGTTTCAATATCCATTACGTTTTTTATCTTAAAAATGAGATTT
TTGTTAAATTTTTAAAATTTTG
Found at i:8457061 original size:149 final size:143
Alignment explanation
Indices: 8456733--8457194 Score: 416
Period size: 149 Copynumber: 3.2 Consensus size: 143
8456723 GAGATCATTT
* * * *
8456733 TTTTTTTTGAAAAAATTCTAGATCATATTTTGATATTATTTCATGAATTTTGATGTATTAAAAAC
1 TTTTTTGTG-AAAAATTTTAGATCATATTTTGATATTATTTCATGATTTTTGATGCATTAAAAAC
* * * *
8456798 CATGATCACACATC-AAAGGATTAAAATTACCAAAATGCCATTTAAGGGTACTTTTGTAATTCAG
65 CTTGATCACACCTCGAAAGGATTGAAATTACCAAAATGCC-TTTTAGGGTACTTTTGTAATTCAG
*
8456862 ACTTTCCAATGTTAG
129 ACTTTCCAAGGTTAG
* * * * *
8456877 TTTTTCGCGAAAAGCTCTT-GATCATATGTTT-ATATTATTTCATGATTTTTGATGCGTTAAAAA
1 TTTTTTGTGAAAA-ATTTTAGATCATAT-TTTGATATTATTTCATGATTTTTGATGCATTAAAAA
* * **
8456940 CCTTGATCACACCTCGAAATGATTGAAATTACCAAAATGCCTTTTAGGATTTTTTTTTTTTTGTA
64 CCTTGATCACACCTCGAAAGGATTGAAATTACCAAAATGCCTTTTAGG------GTACTTTTGTA
*
8457005 ATTCAGCCTTTCCAAGGTT-G
123 ATTCAGACTTTCCAAGGTTAG
* * *
8457025 ATTTTTTGTGAAAAATTTTAAATCATGTTTTGATATTATTTCATGATTTTTCATGCATTAAAAAC
1 -TTTTTTGTGAAAAATTTTAGATCATATTTTGATATTATTTCATGATTTTTGATGCATTAAAAAC
* ** * * * * * *
8457090 ATTGATCGTACCTTGAAAGGGTTGAAATTACAAAAATACCTTTTATGAGTA-TTTTAGTAATT-T
65 CTTGATCACACCTCGAAAGGATTGAAATTACCAAAATGCCTTTTA-GGGTACTTTT-GTAATTCA
* *
8457153 GATCTTAT-TAAGGTTGG
128 GA-CTT-TCCAAGGTTAG
* * *
8457170 TTTTTTCTAAAAAATTTCAGATCAT
1 TTTTTTGTGAAAAATTTTAGATCAT
8457195 GATTAAATAT
Statistics
Matches: 256, Mismatches: 45, Indels: 34
0.76 0.13 0.10
Matches are distributed among these distances:
143 65 0.25
144 71 0.28
145 2 0.01
148 7 0.03
149 110 0.43
150 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (143 bp):
TTTTTTGTGAAAAATTTTAGATCATATTTTGATATTATTTCATGATTTTTGATGCATTAAAAACC
TTGATCACACCTCGAAAGGATTGAAATTACCAAAATGCCTTTTAGGGTACTTTTGTAATTCAGAC
TTTCCAAGGTTAG
Found at i:8458781 original size:18 final size:18
Alignment explanation
Indices: 8458758--8458820 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
8458748 AGCTAAGCTT
**
8458758 ACCCTAAATCAAACCTGC
1 ACCCTAAATCAAACCTAA
*
8458776 ACCCTAAA-CTAACCCTAA
1 ACCCTAAATC-AAACCTAA
*
8458794 ACCCTAAATCAATCCTTAA
1 ACCCTAAATCAAACC-TAA
8458813 ACCCTAAA
1 ACCCTAAA
8458821 CCAACCTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 1 0.03
18 25 0.66
19 12 0.32
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.19
Consensus pattern (18 bp):
ACCCTAAATCAAACCTAA
Found at i:8458805 original size:36 final size:37
Alignment explanation
Indices: 8458758--8458832 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
8458748 AGCTAAGCTT
** *
8458758 ACCCTAAATCAAACC-TGCACCCTAAACTAACCCTAA
1 ACCCTAAATCAAACCTTAAACCCTAAACCAACCCTAA
* *
8458794 ACCCTAAATCAATCCTTAAACCCTAAACCAACCTTAA
1 ACCCTAAATCAAACCTTAAACCCTAAACCAACCCTAA
8458831 AC
1 AC
8458833 TGAGCCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
36 14 0.42
37 19 0.58
ACGTcount: A:0.43, C:0.37, G:0.01, T:0.19
Consensus pattern (37 bp):
ACCCTAAATCAAACCTTAAACCCTAAACCAACCCTAA
Found at i:8458830 original size:18 final size:18
Alignment explanation
Indices: 8458776--8458832 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
8458766 TCAAACCTGC
* *
8458776 ACCCTAAACTAACCCTAA
1 ACCCTAAACCAACCTTAA
*
8458794 ACCCTAAATCAATCCTTAA
1 ACCCTAAACCAA-CCTTAA
8458813 ACCCTAAACCAACCTTAA
1 ACCCTAAACCAACCTTAA
8458831 AC
1 AC
8458833 TGAGCCTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (18 bp):
ACCCTAAACCAACCTTAA
Found at i:8471644 original size:10 final size:10
Alignment explanation
Indices: 8471626--8471660 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
8471616 TTTAGTTAGA
*
8471626 AGTTGAAGTT
1 AGTTAAAGTT
8471636 AGTTAAAGTT
1 AGTTAAAGTT
*
8471646 AGTTAAGGTT
1 AGTTAAAGTT
8471656 AGTTA
1 AGTTA
8471661 TTTTAGCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (10 bp):
AGTTAAAGTT
Found at i:8472587 original size:132 final size:133
Alignment explanation
Indices: 8472348--8472587 Score: 286
Period size: 132 Copynumber: 1.8 Consensus size: 133
8472338 AAAAAGGGTA
* * * * * *
8472348 AAATTATTAAAATACCCTTATAAGGGGTATTTTCATAATTTGATCTTCTCGAGTTTGGATTTTTA
1 AAATTACTAAAATACCCTTATAAGAGGTATTTTCATAATTTGACCTTCACGAGCTTGGATTTTCA
* * * * *
8472413 TGAAACTTTTCAAATCTTAATTTTATAATATTTCATGTTTTTTTGGTTTCTTAAAATCACAACCA
66 TGAAAATTTCCAAATCTCAATTTCATAATATTTCATGATTTTTTGGTTTCTTAAAATCACAACCA
8472478 GTG
131 GTG
* * * *
8472481 AAATTACTAAAATACCTTTATAA-ATGTATTTTCGTAATTTGGCCTTCACGAGCTTGGATTTTCA
1 AAATTACTAAAATACCCTTATAAGAGGTATTTTCATAATTTGACCTTCACGAGCTTGGATTTTCA
** * *
8472545 TGAAAATTTCCATGTTCTCAATTTCA-AATTTTTTATGATTTTT
66 TGAAAATTTCCA-AATCTCAATTTCATAATATTTCATGATTTTT
8472588 GGTGCTTGAA
Statistics
Matches: 87, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
132 57 0.66
133 30 0.34
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (133 bp):
AAATTACTAAAATACCCTTATAAGAGGTATTTTCATAATTTGACCTTCACGAGCTTGGATTTTCA
TGAAAATTTCCAAATCTCAATTTCATAATATTTCATGATTTTTTGGTTTCTTAAAATCACAACCA
GTG
Found at i:8478933 original size:357 final size:355
Alignment explanation
Indices: 8478109--8479281 Score: 1600
Period size: 357 Copynumber: 3.3 Consensus size: 355
8478099 GATTTCCAAA
* **
8478109 GTTATCTGTAACTGCCTTCACTAATTATCTATAAACTATG-TAGAAATTATTAAAGGTGTCTTTC
1 GTTATCTGTAAC-GCCTTCACTAATTATCTACAAACTATGATAGAAATTATTAAAGGCATCTTTC
* * * * * *
8478173 TTGGATATACGCCTTTAATAACCGTGTTAGAATTTATGTGACGGTATATAGAAGGTATTTTATAT
65 TTGGATATACGCCTTCAATAACCATGTTAAAATTTGTGTGACGGTATATAGAACGTATTTTATAG
* * * *
8478238 TAGAAGACACCTTTAATAATT-CTCAAAATTTTTAGTGAGAAATTTTTTAAGGCGTCTGTTATTA
130 TAGAAGACACGTTTAATGATTCCT-AAAATTTTTAGTGAGAAAATTTTGAAGGCGTCTGTTATTA
* **
8478302 ACAAATGCCTTCAGTAATGGATTCT-AAGTTTAAAGGTATATTGAAGGCACCTTTTTTGAATAAA
194 ACAAATGCCTTCAGTAATGGATTATCAAGTTTAAAGGTATATTGAAGGTGCC-TTTTTGAATAAA
* * *
8478366 CGCCTTTC-ATAACCATCATGGTATATTGAAGGCGTTTCATAATAAAATACACCTTTAATAATCT
258 CG-CTTTCTATAACCATCGTGGTATATTGAAGGCGTTTCATAATAAAAGACGCCTTTAATAATCT
** * *
8478430 GAAAAAAAATTT-TTAA-AAAATTATTGAAGGCATT
322 G-AAAAACTTTTGTTAAGCAAATTATTAAAGG-ATT
*
8478464 GTTATCTGTAACCGCCTTCACTAATTATCTACAAACTATGATAGAAACTATTAAAGGCATCTTTC
1 GTTATCTGTAA-CGCCTTCACTAATTATCTACAAACTATGATAGAAATTATTAAAGGCATCTTTC
*
8478529 TTGGATATACGCCTTTAATAACCATGTTAAAATTTGTGTGACGGTATATAGAACGTATTTTATAG
65 TTGGATATACGCCTTCAATAACCATGTTAAAATTTGTGTGACGGTATATAGAACGTATTTTATAG
*
8478594 TAGAAGACACGTTTAATGATTCCTAAAATTTTTAATGAGAAAATTTTGAAGGCGTCTGTTATTAA
130 TAGAAGACACGTTTAATGATTCCTAAAATTTTTAGTGAGAAAATTTTGAAGGCGTCTGTTATTAA
* *
8478659 CAAATGCCTTCAGTAATGGATTATCAAATTTAAAAGTATATTGAAGGTGCCTTTTTGAATAAACG
195 CAAATGCCTTCAGTAATGGATTATCAAGTTTAAAGGTATATTGAAGGTGCCTTTTTGAATAAACG
* * *
8478724 CTTTCTATAACCATCGTGGTGTATTGAAGGCGTTTCATAATAAAAGATGCCTTTAATAATCCGAA
260 CTTTCTATAACCATCGTGGTATATTGAAGGCGTTTCATAATAAAAGACGCCTTTAATAATCTGAA
*
8478789 AAACTTTTGTTAAGCAATTTATTAAAGGTATT
325 AAACTTTTGTTAAGCAAATTATTAAAGG-ATT
*
8478821 GTTATCTGTAATCGCCTTCATTAATTATCTACAAACTATGATAGAAATTATTAAAGGCATCTTTC
1 GTTATCTGTAA-CGCCTTCACTAATTATCTACAAACTATGATAGAAATTATTAAAGGCATCTTTC
* * * *
8478886 TTAGATATACACATTCAATAACCATGTTAAAATTTGTGTGGCGGTATATAGAACGTATTTTATAG
65 TTGGATATACGCCTTCAATAACCATGTTAAAATTTGTGTGACGGTATATAGAACGTATTTTATAG
* *
8478951 TAGAA-A-ACGGCTTTAATGATTCCTAAAATTTTTAGTG-GAAAAATTTTGAAGGTGTCTATTAT
130 TAGAAGACAC-G-TTTAATGATTCCTAAAATTTTTAGTGAG-AAAATTTTGAAGGCGTCTGTTAT
* * **
8479013 TAACAAATGCCTTCAGTAATGAATTA-CTAAGTTTAAAGGTATATTAAAGGTGCCTTTTCAAATA
192 TAACAAATGCCTTCAGTAATGGATTATC-AAGTTTAAAGGTATATTGAAGGTGCCTTTTTGAATA
* * * *
8479077 AATGCCTTCTATAACCATCGTGGTATATTGAAGGTGTTTCATAATAAAAGACGCCTTTAATAAGC
256 AACGCTTTCTATAACCATCGTGGTATATTGAAGGCGTTTCATAATAAAAGACGCCTTTAATAATC
8479142 TGAAAAACTTTTGTTAAGCAAATTATTAAA-G-TT
321 TGAAAAACTTTTGTTAAGCAAATTATTAAAGGATT
* * * * * *
8479175 GTTAATGTAGAAAACACCTTCACTAATTGTCTATAAA-T-TGGAATAGAAATTATTAAAGGCGTC
1 GTT-ATCT-G-TAACGCCTTCACTAATTATCTACAAACTAT-G-ATAGAAATTATTAAAGGCATC
*
8479238 TTTCTTGGATATACGCCTTCAATAACCGTGTTAAAATTTGTGTG
61 TTTCTTGGATATACGCCTTCAATAACCATGTTAAAATTTGTGTG
8479282 GTGATATGTT
Statistics
Matches: 735, Mismatches: 67, Indels: 31
0.88 0.08 0.04
Matches are distributed among these distances:
354 6 0.01
355 57 0.08
356 316 0.43
357 356 0.48
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (355 bp):
GTTATCTGTAACGCCTTCACTAATTATCTACAAACTATGATAGAAATTATTAAAGGCATCTTTCT
TGGATATACGCCTTCAATAACCATGTTAAAATTTGTGTGACGGTATATAGAACGTATTTTATAGT
AGAAGACACGTTTAATGATTCCTAAAATTTTTAGTGAGAAAATTTTGAAGGCGTCTGTTATTAAC
AAATGCCTTCAGTAATGGATTATCAAGTTTAAAGGTATATTGAAGGTGCCTTTTTGAATAAACGC
TTTCTATAACCATCGTGGTATATTGAAGGCGTTTCATAATAAAAGACGCCTTTAATAATCTGAAA
AACTTTTGTTAAGCAAATTATTAAAGGATT
Found at i:8487834 original size:131 final size:132
Alignment explanation
Indices: 8487656--8487899 Score: 309
Period size: 131 Copynumber: 1.9 Consensus size: 132
8487646 CAAAATTATC
* * * * *
8487656 AAAATACCCTTATAAGGGGCATTTTCGTAATTTGATCTTCTCGAGCTTTGATTTTCATG-AAACT
1 AAAATACCCTTATAAGAGGCATTTTCGTAATTTGAGCTTCCCAAGCTTGGATTTTCATGAAAACT
* * * *
8487720 TTC-AGATCTTAATTTTATAATA-TTTCATGTTTTTTTTTGTACTTAAAATCACAACAAGTGAAG
66 TTCAAG-TCTCAATTTCACAATATTTTCATG--ATTTTTTGTACTTAAAATCACAACAAGTGAAG
8487783 TTACT
128 TTACT
* *
8487788 AAAATACCCTTATAA-AGGTATTTTCGTAATTTG-GCATTCCCAAGCTTGGATTTTCATGAAAAT
1 AAAATACCCTTATAAGAGGCATTTTCGTAATTTGAGC-TTCCCAAGCTTGGATTTTCATGAAAAC
*
8487851 TTTCAAGTCTCAATTTCACAATATTTTTATGATTTTTTGTACTTAAAAT
65 TTTCAAGTCTCAATTTCACAATATTTTCATGATTTTTTGTACTTAAAAT
8487900 TCCCAAAAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
130 1 0.01
131 52 0.54
132 35 0.36
133 8 0.08
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (132 bp):
AAAATACCCTTATAAGAGGCATTTTCGTAATTTGAGCTTCCCAAGCTTGGATTTTCATGAAAACT
TTCAAGTCTCAATTTCACAATATTTTCATGATTTTTTGTACTTAAAATCACAACAAGTGAAGTTA
CT
Found at i:8488286 original size:22 final size:20
Alignment explanation
Indices: 8488261--8488300 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8488251 AAGAGGGAGA
8488261 GAAAACACACAAAAAAAAAGTT
1 GAAAACA-A-AAAAAAAAAGTT
8488283 GAAAACAAAAAAAAAAAG
1 GAAAACAAAAAAAAAAAG
8488301 GTTTAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.75, C:0.10, G:0.10, T:0.05
Consensus pattern (20 bp):
GAAAACAAAAAAAAAAAGTT
Found at i:8491158 original size:17 final size:17
Alignment explanation
Indices: 8491126--8491160 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8491116 TTTGTGCTTA
* *
8491126 TGATTTATTTATGATAT
1 TGATTTATTAAAGATAT
8491143 TGATTTATTAAAGATAT
1 TGATTTATTAAAGATAT
8491160 T
1 T
8491161 TTGATTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (17 bp):
TGATTTATTAAAGATAT
Found at i:8495107 original size:24 final size:22
Alignment explanation
Indices: 8495093--8495138 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
8495083 AAAATGAAAG
8495093 AAAAAGAAAAAAAAACATAAAAAG
1 AAAAAGAAAAAAAAA-A-AAAAAG
*
8495117 AGAAAGAAAAAAAATAAAAAAA
1 AAAAAGAAAAAAAA-AAAAAAA
8495139 TAAAGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 14 0.70
25 1 0.05
ACGTcount: A:0.85, C:0.02, G:0.09, T:0.04
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAAAAAAG
Found at i:8495143 original size:21 final size:20
Alignment explanation
Indices: 8495068--8495143 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 20
8495058 TCCATTCAAT
8495068 AAAAAAAAAGAGAAAAAAATGA
1 AAAAAAAAAGA-AAAAAAAT-A
8495090 AAGAAAAAGAA-AAAAAAACATA
1 AA-AAAAA-AAGAAAAAAA-ATA
*
8495112 AAAAGAGAAAGAAAAAAAATA
1 AAAA-AAAAAGAAAAAAAATA
8495133 AAAAAATAAAG
1 AAAAAA-AAAG
8495144 GAAATGATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 20 0.43
23 8 0.17
24 2 0.04
ACGTcount: A:0.82, C:0.01, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAATA
Found at i:8495156 original size:34 final size:31
Alignment explanation
Indices: 8495068--8495142 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
8495058 TCCATTCAAT
* * *
8495068 AAAAAAAAAGAGAAAAAAATGAAAGAAAAAG
1 AAAAAAAAACATAAAAAGATGAAAGAAAAAG
8495099 AAAAAAAAACATAAAAAGA-GAAAGAAAAA-
1 AAAAAAAAACATAAAAAGATGAAAGAAAAAG
8495128 AAATAAAAAA-ATAAA
1 AAA-AAAAAACATAAA
8495143 GGAAATGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.20
30 16 0.40
31 16 0.40
ACGTcount: A:0.83, C:0.01, G:0.11, T:0.05
Consensus pattern (31 bp):
AAAAAAAAACATAAAAAGATGAAAGAAAAAG
Found at i:8498346 original size:10 final size:11
Alignment explanation
Indices: 8498325--8498353 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
8498315 AAAATAATAC
8498325 ATTTATATATA
1 ATTTATATATA
8498336 ATTTA-ATATA
1 ATTTATATATA
8498346 ATTTATAT
1 ATTTATAT
8498354 TAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTATATATA
Found at i:8499729 original size:28 final size:29
Alignment explanation
Indices: 8499693--8499759 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
8499683 ATATATATTT
*
8499693 TAAATTTTTAA-AATTTTTAAAAATAAAGTA
1 TAAA-TTTTAAGAATTTTGAAAAATAAA-TA
* *
8499723 T-AATTTTAAGAGTTTTGCAAAATAAATA
1 TAAATTTTAAGAATTTTGAAAAATAAATA
8499751 TAAATTTTA
1 TAAATTTTA
8499760 TTTTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 9 0.28
29 22 0.69
30 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (29 bp):
TAAATTTTAAGAATTTTGAAAAATAAATA
Found at i:8504902 original size:23 final size:21
Alignment explanation
Indices: 8504874--8504922 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
8504864 TTATGATTTA
*
8504874 AAATTTGAACAAAAATTATATAT
1 AAATTT-AACAAAAATT-GATAT
*
8504897 AAATTTAATAAAAATTGATAT
1 AAATTTAACAAAAATTGATAT
8504918 AAATT
1 AAATT
8504923 ATAATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 9 0.38
23 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
AAATTTAACAAAAATTGATAT
Found at i:8504912 original size:22 final size:21
Alignment explanation
Indices: 8504874--8504928 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
8504864 TTATGATTTA
* *
8504874 AAATTTGAACAAAAATTATATAT
1 AAATTT-AATAAAAATT-GATAT
8504897 AAATTTAATAAAAATTGATAT
1 AAATTTAATAAAAATTGATAT
8504918 AAATTATAATA
1 AAATT-TAATA
8504929 TAATGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.31
22 14 0.48
23 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATTTAATAAAAATTGATAT
Found at i:8505472 original size:6 final size:6
Alignment explanation
Indices: 8505452--8505492 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
8505442 TAAAGAGGCT
* *
8505452 TTCACA TTACGCA TTCGCA TTCACA TTCACA TTCACA TTCA
1 TTCACA TT-CACA TTCACA TTCACA TTCACA TTCACA TTCA
8505493 TTTGGATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (6 bp):
TTCACA
Found at i:8511394 original size:14 final size:14
Alignment explanation
Indices: 8511355--8511394 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
8511345 CTAGCAATCC
8511355 TTTTATTTTTTCCT
1 TTTTATTTTTTCCT
8511369 TTATT-TTTTTTCCT
1 TT-TTATTTTTTCCT
*
8511383 TTTTATTCTTTC
1 TTTTATTTTTTC
8511395 TGTTTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTTTTCCT
Found at i:8512109 original size:18 final size:18
Alignment explanation
Indices: 8512075--8512108 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8512065 TTTATATCTT
*
8512075 TTTTGTTTTTCGATTTTC
1 TTTTGGTTTTCGATTTTC
8512093 TTTTGGTTTT-GATTTT
1 TTTTGGTTTTCGATTTT
8512109 TTGATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.06, C:0.06, G:0.15, T:0.74
Consensus pattern (18 bp):
TTTTGGTTTTCGATTTTC
Found at i:8512960 original size:29 final size:29
Alignment explanation
Indices: 8512918--8512976 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8512908 AAATCCTATC
8512918 TAGTTTCGCTTTCAATTCATCATAGCCAT
1 TAGTTTCGCTTTCAATTCATCATAGCCAT
8512947 TAGTTTCGCTTTCAATTCATCATAGCCAT
1 TAGTTTCGCTTTCAATTCATCATAGCCAT
8512976 T
1 T
8512977 GAACTAGCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (29 bp):
TAGTTTCGCTTTCAATTCATCATAGCCAT
Found at i:8521643 original size:11 final size:11
Alignment explanation
Indices: 8521629--8521683 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
8521619 ATAAATAGGT
8521629 TAAAAATAAAA
1 TAAAAATAAAA
8521640 T-AAAATAAAA
1 TAAAAATAAAA
*
8521650 -AGAAATAAAAAA
1 TA-AAA-ATAAAA
8521662 TAAAAATAAAA
1 TAAAAATAAAA
8521673 TGAAAAA-AAAA
1 T-AAAAATAAAA
8521684 ACCTGCGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 9 0.24
11 14 0.38
12 13 0.35
13 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.15
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:8521671 original size:23 final size:22
Alignment explanation
Indices: 8521630--8521684 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
8521620 TAAATAGGTT
*
8521630 AAAAATAAAATAAAATAAAAAG
1 AAAAAAAAAATAAAATAAAAAG
* *
8521652 AAATAAAAAATAAAAATAAAATG
1 AAAAAAAAAAT-AAAATAAAAAG
8521675 AAAAAAAAAA
1 AAAAAAAAAA
8521685 CCTGCGATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAAAAAAAATAAAATAAAAAG
Found at i:8521679 original size:7 final size:6
Alignment explanation
Indices: 8521629--8521684 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 6
8521619 ATAAATAGGT
* *
8521629 TAAAAA T-AAAA T-AAAA TAAAAA GAAATA -AAAAA TAAAAA T-AAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
8521673 TGAAAAA -AAAAA
1 T-AAAAA TAAAAA
8521685 CCTGCGATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
5 24 0.56
6 15 0.35
7 4 0.09
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (6 bp):
TAAAAA
Found at i:8522543 original size:21 final size:21
Alignment explanation
Indices: 8522514--8522570 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
8522504 AGATTTGGAT
*
8522514 AGAAAAAAAAAG-AAAGAACAA
1 AGAAGAAAAAAGAAAAG-ACAA
*
8522535 AGAAG-AAAATGAAAAGACAA
1 AGAAGAAAAAAGAAAAGACAA
8522555 AG-AGAAAAAATGAAAA
1 AGAAGAAAAAA-GAAAA
8522571 TAGAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 13 0.43
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (21 bp):
AGAAGAAAAAAGAAAAGACAA
Found at i:8522548 original size:20 final size:21
Alignment explanation
Indices: 8522518--8522570 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
8522508 TTGGATAGAA
*
8522518 AAAAAAAG-AAAGAACAAAGA-
1 AAAAAATGAAAAG-ACAAAGAG
*
8522538 AGAAAATGAAAAGACAAAGAG
1 AAAAAATGAAAAGACAAAGAG
8522559 AAAAAATGAAAA
1 AAAAAATGAAAA
8522571 TAGAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (21 bp):
AAAAAATGAAAAGACAAAGAG
Found at i:8522593 original size:3 final size:3
Alignment explanation
Indices: 8522578--8522690 Score: 106
Period size: 3 Copynumber: 38.0 Consensus size: 3
8522568 AAATAGAAAT
* * * *
8522578 ATA ATA GTA ATA ATA ATA ATA ATA ATA ACA CAAA AAA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * *
8522622 AAA AGTA ATA ATA ATA ATA ATA ATA ATA ACA CTA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
8522668 AT- ATA ATA ACA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
8522691 CCTTATAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
2 6 0.07
3 82 0.89
4 4 0.04
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:8522738 original size:26 final size:26
Alignment explanation
Indices: 8522709--8522792 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
8522699 AAAACTATTC
* * *
8522709 AATTGGACTTGGATATAGAA-GTGCCT
1 AATTGGACCTAGATATA-AATGGGCCT
*
8522735 AATTTGACCTAGATATAAATGGGCCT
1 AATTGGACCTAGATATAAATGGGCCT
* * * *
8522761 AATTAGGCCCT-GACACAAATGGGTCT
1 AATT-GGACCTAGATATAAATGGGCCT
8522787 AATTGG
1 AATTGG
8522793 GATCGGACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.09
26 39 0.83
27 4 0.09
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (26 bp):
AATTGGACCTAGATATAAATGGGCCT
Found at i:8522828 original size:26 final size:26
Alignment explanation
Indices: 8522785--8522841 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
8522775 ACAAATGGGT
**
8522785 CTAATTGGGATCGGACATCAATAGGC
1 CTAATTGGGATCAAACATCAATAGGC
* * *
8522811 CTAATTGGGTTCAAACATTAATGGGC
1 CTAATTGGGATCAAACATCAATAGGC
8522837 CTAAT
1 CTAAT
8522842 AAGATTCGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (26 bp):
CTAATTGGGATCAAACATCAATAGGC
Found at i:8534591 original size:24 final size:22
Alignment explanation
Indices: 8534543--8534599 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
8534533 AAACTAGGTT
*
8534543 AAAAATAAAATAAAATAAATAG
1 AAAAAAAAAATAAAATAAATAG
*
8534565 AAATCAAAAAATAAAAATAAA-ATG
1 AAA-AAAAAAAT-AAAATAAATA-G
8534589 AAAAAAAAAAT
1 AAAAAAAAAAT
8534600 CTACGATCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.10
23 14 0.48
24 12 0.41
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (22 bp):
AAAAAAAAAATAAAATAAATAG
Found at i:8534592 original size:19 final size:19
Alignment explanation
Indices: 8534545--8534598 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
8534535 ACTAGGTTAA
8534545 AAAT-AAAATAAAATAAATAG
1 AAATCAAAA-AAAA-AAATAG
8534565 AAATCAAAAAATAAAAATA-
1 AAATCAAAAAA-AAAAATAG
*
8534584 AAATGAAAAAAAAAA
1 AAATCAAAAAAAAAA
8534599 TCTACGATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 4 0.13
19 10 0.32
20 11 0.35
21 6 0.19
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (19 bp):
AAATCAAAAAAAAAAATAG
Found at i:8534888 original size:19 final size:19
Alignment explanation
Indices: 8534849--8534893 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8534839 TCATCGAAAG
* *
8534849 CTGGAAAACCCATCGGTTT
1 CTGGAAAACCCATCAGATT
*
8534868 CTGGAAAACCTATCAGATT
1 CTGGAAAACCCATCAGATT
8534887 CT-GAAAA
1 CTGGAAAA
8534894 TCTTGCCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (19 bp):
CTGGAAAACCCATCAGATT
Found at i:8535454 original size:3 final size:3
Alignment explanation
Indices: 8535430--8535590 Score: 140
Period size: 3 Copynumber: 55.3 Consensus size: 3
8535420 AAAAAATGAA
* * *
8535430 AAT AAA AAT -AT AAT AGT AAT AAT AAT AAT AAT AAT AAT AA- AAG AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
8535475 AAT AA- ACAT AGA- AA- AAT AAA AAT AAA AAGG AA- AGT AAT AAT AAT
1 AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
* *
8535519 AAT AAT AAT AAT AAC AAT AAT AAT AAG AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
8535566 AAT AAT AAT AAC AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
8535591 CTTTATACTA
Statistics
Matches: 130, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
2 13 0.10
3 113 0.87
4 4 0.03
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (3 bp):
AAT
Done.