Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 42 of 125
Found at i:8364914 original size:8 final size:9
Alignment explanation
Indices: 8364853--8364927 Score: 93
Period size: 8 Copynumber: 8.3 Consensus size: 9
8364843 TGATATATTT
8364853 ATATATTAA
1 ATATATTAA
8364862 ATATATTAA
1 ATATATTAA
8364871 A-ATATTAA
1 ATATATTAA
*
8364879 ATTATATT-T
1 A-TATATTAA
8364888 ATATATTAA
1 ATATATTAA
8364897 ATATATTAA
1 ATATATTAA
8364906 A-ATATTAA
1 ATATATTAA
8364914 ATTATATTTAA
1 A-TATA-TTAA
8364925 ATA
1 ATA
8364928 AATATCTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
8 22 0.38
9 21 0.36
10 10 0.17
11 5 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATATTAA
Found at i:8364983 original size:20 final size:19
Alignment explanation
Indices: 8364935--8364990 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
8364925 ATAAATATCT
*
8364935 ATAAATAATATAATAATAAA
1 ATAAATAATAAAATAA-AAA
* *
8364955 ACAATTAATAAAATAAACAA
1 ATAAATAATAAAATAAA-AA
8364975 ATAAATAAT-AAATAAA
1 ATAAATAATAAAATAAA
8364991 TAATTAACCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAAATAATAAAATAAAAA
Found at i:8364991 original size:15 final size:15
Alignment explanation
Indices: 8364922--8364993 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
8364912 AAATTATATT
**
8364922 TAAATAAATATCT-A
1 TAAATAAATAAATAA
8364936 TAAAT-AATATAATAA
1 TAAATAAATA-AATAA
*
8364951 TAAA-ACAATTAATAAAA
1 TAAATA-AA-TAA-ATAA
*
8364968 TAAACAAATAAATAA
1 TAAATAAATAAATAA
8364983 TAAATAAATAA
1 TAAATAAATAA
8364994 TTAACCTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 18 0.39
16 6 0.13
17 11 0.24
18 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATAAATAAATAA
Found at i:8373251 original size:16 final size:17
Alignment explanation
Indices: 8373226--8373258 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8373216 ACTCAGACAA
8373226 AAAAAAAATAA-AAAAT
1 AAAAAAAATAACAAAAT
*
8373242 AAAAATAATAACAAAAT
1 AAAAAAAATAACAAAAT
8373259 GGGTAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAAATAACAAAAT
Found at i:8375898 original size:28 final size:27
Alignment explanation
Indices: 8375858--8375911 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
8375848 CCTTCAATTT
* *
8375858 ATTAAGAGATTAATTAGTAAAAAAAAAG
1 ATTAAGAGATTAAAT-GAAAAAAAAAAG
8375886 ATTAAG-GTATTAAATGAAAAAAAAAA
1 ATTAAGAG-ATTAAATGAAAAAAAAAA
8375912 CTAGCTATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (27 bp):
ATTAAGAGATTAAATGAAAAAAAAAAG
Found at i:8376136 original size:17 final size:17
Alignment explanation
Indices: 8376114--8376153 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
8376104 TTTTGAGAGA
8376114 AAAATCAAGAAAATTAT
1 AAAATCAAGAAAATTAT
8376131 AAAATCAAGAAAATTAT
1 AAAATCAAGAAAATTAT
8376148 AAAATC
1 AAAATC
8376154 TTTCATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAATCAAGAAAATTAT
Found at i:8390676 original size:22 final size:21
Alignment explanation
Indices: 8390651--8390767 Score: 85
Period size: 22 Copynumber: 5.3 Consensus size: 21
8390641 AATTTAGACA
*
8390651 AAATCAATAATAACTTTATATT
1 AAAT-AATAATAACTTTATAGT
*
8390673 AAATTAATTATAA-TTGTATAGT
1 AAA-TAATAATAACTT-TATAGT
* * *
8390695 AAATTATGAAAAACTTAATAGT
1 AAATAAT-AATAACTTTATAGT
* *
8390717 AAAATAATAATAACATAATAGT
1 -AAATAATAATAACTTTATAGT
*
8390739 AAATAAATAATAA-TTTAATAAT
1 AAAT-AATAATAACTTT-ATAGT
8390761 AAATAAT
1 AAATAAT
8390768 TGATAAAATA
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
21 13 0.17
22 54 0.71
23 9 0.12
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATAATAATAACTTTATAGT
Found at i:8390734 original size:11 final size:10
Alignment explanation
Indices: 8390718--8390767 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
8390708 CTTAATAGTA
8390718 AAATAATAAT
1 AAATAATAAT
*
8390728 AACATAATAGT
1 AA-ATAATAAT
8390739 AAATAAATAAT
1 AAAT-AATAAT
*
8390750 AATTTAATAAT
1 AA-ATAATAAT
8390761 AAATAAT
1 AAATAAT
8390768 TGATAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 8 0.24
11 24 0.73
12 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
AAATAATAAT
Found at i:8390757 original size:44 final size:42
Alignment explanation
Indices: 8390709--8390999 Score: 114
Period size: 44 Copynumber: 6.8 Consensus size: 42
8390699 TATGAAAAAC
8390709 TTAATAGTAAAATAATAATAACATAATAGTAAATAAATAATAA
1 TTAATAGT-AAATAATAATAACATAATAGTAAATAAATAATAA
* * * * *
8390752 TTTAATAATAAATAATTGATAAAATAGT-GTGTAATAACATAATAA
1 -TTAATAGTAAATAA-TAATAACATAATAGT-AAATAA-ATAATAA
* * * *
8390797 -TAA-A-TACATAATAAT---ATAGTAGGAAATAAAAAATAA
1 TTAATAGTAAATAATAATAACATAATAGTAAATAAATAATAA
* * * * *
8390833 TTTCATAGTAAATCAT-TTATACATAATTGTAAATATATAATAGA
1 -TTAATAGTAAATAATAATA-ACATAATAGTAAATAAATAATA-A
* * ** * *
8390877 -TATTAGTAAATTAATAATAACTTAATAAAAAATAAGTGATAA
1 TTAATAGTAAA-TAATAATAACATAATAGTAAATAAATAATAA
* * * * ** * * * *
8390919 CTTAGTAGTTAATTATTGATAATTTAGTAATAAATCAATGATAA
1 -TTAATAG-TAAATAATAATAACATAATAGTAAATAAATAATAA
* *
8390963 CTTAATAGTAAATTAATGATAACTTAATAGTAAATAA
1 -TTAATAGTAAA-TAATAATAACATAATAGTAAATAA
8391000 GATTCAGTTT
Statistics
Matches: 182, Mismatches: 46, Indels: 38
0.68 0.17 0.14
Matches are distributed among these distances:
36 6 0.03
37 10 0.05
38 3 0.02
39 2 0.01
40 9 0.05
41 6 0.03
42 10 0.05
43 47 0.26
44 79 0.43
45 10 0.05
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (42 bp):
TTAATAGTAAATAATAATAACATAATAGTAAATAAATAATAA
Found at i:8390825 original size:37 final size:36
Alignment explanation
Indices: 8390754--8390833 Score: 83
Period size: 37 Copynumber: 2.2 Consensus size: 36
8390744 AATAATAATT
* *
8390754 TAATAATAAATAATTGATAAAATAGTGTGTAATAACA
1 TAATAATAAATAATTAATAAAATAGTGTGAAATAA-A
*
8390791 TAATAATAAATACA-TAATAATATAGTAG-GAAATAAA
1 TAATAATAAATA-ATTAATAAAATAGT-GTGAAATAAA
*
8390827 AAATAAT
1 TAATAAT
8390834 TTCATAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
36 7 0.19
37 28 0.76
38 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.30
Consensus pattern (36 bp):
TAATAATAAATAATTAATAAAATAGTGTGAAATAAA
Found at i:8390918 original size:22 final size:21
Alignment explanation
Indices: 8390883--8390999 Score: 99
Period size: 22 Copynumber: 5.3 Consensus size: 21
8390873 TAGATATTAG
*
8390883 TAAATTAATAATAACTTAATAA
1 TAAA-TAATGATAACTTAATAA
* * *
8390905 AAAATAAGTGATAACTTAGTAGT
1 TAAATAA-TGATAACTTAATA-A
* * * *
8390928 TAATTATTGATAATTTAGTAA
1 TAAATAATGATAACTTAATAA
*
8390949 TAAATCAATGATAACTTAATAG
1 TAAAT-AATGATAACTTAATAA
*
8390971 TAAATTAATGATAACTTAATAG
1 TAAA-TAATGATAACTTAATAA
8390993 TAAATAA
1 TAAATAA
8391000 GATTCAGTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
21 10 0.13
22 62 0.81
23 5 0.06
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (21 bp):
TAAATAATGATAACTTAATAA
Found at i:8391345 original size:22 final size:22
Alignment explanation
Indices: 8391320--8391684 Score: 87
Period size: 22 Copynumber: 16.6 Consensus size: 22
8391310 AGCCTAGTAA
*
8391320 TAAATCAATGATAATTTAATAG
1 TAAATTAATGATAATTTAATAG
* *
8391342 TAAA-TAATTTATAA--CAAGTAG
1 TAAATTAA-TGATAATTTAA-TAG
* * * *
8391363 TAATTATTAATTAAAAATTAAAAG
1 TAA--ATTAATGATAATTTAATAG
*
8391387 TAAATTAAT-ATAACTTAATAG
1 TAAATTAATGATAATTTAATAG
* * *
8391408 T-AATT-ATCGGTAAATTAATAT
1 TAAATTAAT-GATAATTTAATAG
* * *
8391429 TTAATCAATAATAATTTAGTATAG
1 TAAATTAATGATAATTTA--ATAG
*
8391453 TAAATTAGA-GATATAACTTAATAG
1 TAAATTA-ATG--ATAATTTAATAG
* * * *
8391477 TATATCAATTATAATTTAACAG
1 TAAATTAATGATAATTTAATAG
* *
8391499 TAAATTAATAATAATATAATAG
1 TAAATTAATGATAATTTAATAG
* * *
8391521 TCAAAGTACA--ATAACTTAATAA
1 T-AAATTA-ATGATAATTTAATAG
* * ** *
8391543 TAAATAAATTATAACGTAATTG
1 TAAATTAATGATAATTTAATAG
* *
8391565 TAAATGCATAAT-ATAA--TAGTTG
1 TAAAT---TAATGATAATTTAATAG
*
8391587 TAAATTAATAATAACTTT-ATA-
1 TAAATTAATGATAA-TTTAATAG
* * *
8391608 -AAA-AAAAGATAACTTAATAG
1 TAAATTAATGATAATTTAATAG
* * * *
8391628 TTAATCATTGATAATTTAGTAG
1 TAAATTAATGATAATTTAATAG
* * *
8391650 TAAATCAATGAAAATTTAGTAG
1 TAAATTAATGATAATTTAATAG
*
8391672 TAAATTAGTGATA
1 TAAATTAATGATA
8391685 GCATAATAGC
Statistics
Matches: 251, Mismatches: 60, Indels: 64
0.67 0.16 0.17
Matches are distributed among these distances:
18 2 0.01
19 15 0.06
20 14 0.06
21 34 0.14
22 128 0.51
23 15 0.06
24 30 0.12
25 6 0.02
26 7 0.03
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
TAAATTAATGATAATTTAATAG
Found at i:8391932 original size:22 final size:22
Alignment explanation
Indices: 8391907--8391952 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
8391897 ACTAATAACG
*
8391907 TAATAGTAAAACATTGATATTT
1 TAATAGTAAAACATTGATAATT
* *
8391929 TAATTGTAAATCATTGATAATT
1 TAATAGTAAAACATTGATAATT
8391951 TA
1 TA
8391953 TTTATAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (22 bp):
TAATAGTAAAACATTGATAATT
Found at i:8391960 original size:22 final size:22
Alignment explanation
Indices: 8391913--8391983 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
8391903 AACGTAATAG
* * *
8391913 TAAAACATTGATATTTTAATTG
1 TAAATCATTGATAATTTAATTA
*
8391935 TAAATCATTGATAATTTATTTA
1 TAAATCATTGATAATTTAATTA
* * *
8391957 TAAATTATTGACAATTTAGTTA
1 TAAATCATTGATAATTTAATTA
8391979 TAAAT
1 TAAAT
8391984 TAGTTAATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.46
Consensus pattern (22 bp):
TAAATCATTGATAATTTAATTA
Found at i:8392009 original size:22 final size:22
Alignment explanation
Indices: 8391984--8392079 Score: 95
Period size: 22 Copynumber: 4.4 Consensus size: 22
8391974 AGTTATAAAT
*
8391984 TAGTTAATTATTAATAACTTTA
1 TAGTAAATTATTAATAACTTTA
* * *
8392006 TAGTAAATTAGTAGTAACATTA
1 TAGTAAATTATTAATAACTTTA
* *
8392028 TAATAAATTATTAATAACTTAA
1 TAGTAAATTATTAATAACTTTA
* *
8392050 TAGAAAATTATCAATAA-TTTA
1 TAGTAAATTATTAATAACTTTA
*
8392071 GTAATAAAT
1 -TAGTAAAT
8392080 CTTTTATAAC
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
21 3 0.05
22 55 0.95
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (22 bp):
TAGTAAATTATTAATAACTTTA
Found at i:8392044 original size:11 final size:11
Alignment explanation
Indices: 8391989--8392079 Score: 53
Period size: 11 Copynumber: 8.3 Consensus size: 11
8391979 TAAATTAGTT
8391989 AATTATTAATA
1 AATTATTAATA
* *
8392000 ACTT-TATAGTA
1 AATTAT-TAATA
* *
8392011 AATTAGTAGTA
1 AATTATTAATA
8392022 ACATTA-TAATA
1 A-ATTATTAATA
8392033 AATTATTAATA
1 AATTATTAATA
* *
8392044 ACTTAATAGA-A
1 AATTATTA-ATA
*
8392055 AATTATCAATA
1 AATTATTAATA
* *
8392066 ATTTAGTAATA
1 AATTATTAATA
8392077 AAT
1 AAT
8392080 CTTTTATAAC
Statistics
Matches: 60, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
10 6 0.10
11 49 0.82
12 5 0.08
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (11 bp):
AATTATTAATA
Found at i:8392076 original size:44 final size:44
Alignment explanation
Indices: 8391989--8392092 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
8391979 TAAATTAGTT
* * *
8391989 AATTATTAATAACTTTATAGTAAATTAGTAGTAACATTATAATA
1 AATTATTAATAACTTAATAGAAAATTAGTAATAACATTATAATA
*
8392033 AATTATTAATAACTTAATAGAAAATTA-TCAATAA-TTTAGTAATA
1 AATTATTAATAACTTAATAGAAAATTAGT-AATAACATTA-TAATA
*
8392077 AATCT-TTTATAACTTA
1 AAT-TATTAATAACTTA
8392093 GAACTAAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
43 4 0.08
44 47 0.90
45 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (44 bp):
AATTATTAATAACTTAATAGAAAATTAGTAATAACATTATAATA
Found at i:8392088 original size:22 final size:21
Alignment explanation
Indices: 8392063--8392145 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 21
8392053 AAAATTATCA
*
8392063 ATAATTTAGTAATAAATCTTTT
1 ATAACTTAGTAATAAATC-TTT
8392085 ATAACTTAG-AACTAAATCATTT
1 ATAACTTAGTAA-TAAATC-TTT
* * * *
8392107 ATAACTAAGTGATAAATCATG
1 ATAACTTAGTAATAAATCTTT
* *
8392128 ATAATTTAGTAGTAAATC
1 ATAACTTAGTAATAAATC
8392146 AGTAGTAAGG
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
21 17 0.35
22 31 0.63
23 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (21 bp):
ATAACTTAGTAATAAATCTTT
Found at i:8392449 original size:22 final size:22
Alignment explanation
Indices: 8392424--8392488 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
8392414 GGTAATTCAA
*
8392424 TGATAATTTAGTAATAAATAAT
1 TGATAACTTAGTAATAAATAAT
* * *
8392446 TGATAACTTAATAGCTAACT-AT
1 TGATAACTTAGTA-ATAAATAAT
*
8392468 TGAAAACTTAGTAATAAATAA
1 TGATAACTTAGTAATAAATAA
8392489 ATGGTAATGA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 4 0.12
22 25 0.76
23 4 0.12
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.35
Consensus pattern (22 bp):
TGATAACTTAGTAATAAATAAT
Found at i:8392664 original size:66 final size:66
Alignment explanation
Indices: 8392574--8392766 Score: 176
Period size: 66 Copynumber: 2.9 Consensus size: 66
8392564 TAAGTCACTT
* * * * ** * * *
8392574 ATAACTTAGTTATATATCAATAATAATTTTCTAGTAAATCATCAATGACTTCA-TAGTAAATTAG
1 ATAACTTAATAATAAATCATTAATAATTTAATACTAAATCATCAATAACTT-AGTAGTAAATCA-
8392638 TT-
64 TTC
* * * * *
8392640 ATAACTTTATAATAAATTATTAATAACTCAATACTAAATCATCAATAACTTAGTCGTAAATCATT
1 ATAACTTAATAATAAATCATTAATAATTTAATACTAAATCATCAATAACTTAGTAGTAAATCATT
8392705 C
66 C
* * * *
8392706 ATAACTTAATAGTAAATCATTAATAATTTAATAATAAATCA-CTGATAACTTAGTAATAAAT
1 ATAACTTAATAATAAATCATTAATAATTTAATACTAAATCATC-AATAACTTAGTAGTAAAT
8392767 TAATAATAAC
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
65 4 0.04
66 97 0.96
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (66 bp):
ATAACTTAATAATAAATCATTAATAATTTAATACTAAATCATCAATAACTTAGTAGTAAATCATT
C
Found at i:8392753 original size:22 final size:22
Alignment explanation
Indices: 8392542--8392778 Score: 154
Period size: 22 Copynumber: 10.8 Consensus size: 22
8392532 AATTTAGCAG
* *
8392542 TAAATCACTAATAACATAATAA
1 TAAATCATTAATAACTTAATAA
* * *
8392564 TAAGTCACTT-ATAACTTAGTTA
1 TAAATCA-TTAATAACTTAATAA
* * * ** *
8392586 TATATCAATAATAATTTTCTAG
1 TAAATCATTAATAACTTAATAA
* * * *
8392608 TAAATCATCAATGACTTCATAG
1 TAAATCATTAATAACTTAATAA
* *
8392630 TAAATTAGTT-ATAACTTTATAA
1 TAAATCA-TTAATAACTTAATAA
* * *
8392652 TAAATTATTAATAACTCAATAC
1 TAAATCATTAATAACTTAATAA
* * **
8392674 TAAATCATCAATAACTTAGTCG
1 TAAATCATTAATAACTTAATAA
* *
8392696 TAAATCATTCATAACTTAATAG
1 TAAATCATTAATAACTTAATAA
*
8392718 TAAATCATTAATAATTTAATAA
1 TAAATCATTAATAACTTAATAA
* * *
8392740 TAAATCACTGATAACTTAGTAA
1 TAAATCATTAATAACTTAATAA
* *
8392762 TAAATTAATAATAACTT
1 TAAATCATTAATAACTT
8392779 GATTGTCAAT
Statistics
Matches: 163, Mismatches: 48, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
21 3 0.02
22 158 0.97
23 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATAACTTAATAA
Found at i:8392756 original size:44 final size:44
Alignment explanation
Indices: 8392493--8392775 Score: 150
Period size: 44 Copynumber: 6.5 Consensus size: 44
8392483 AAATAAATGG
* *
8392493 TAATGAGTAAATGCA-TAATAATATAATAGTAAATCATTGAAT---T
1 TAAT-AGTAAAT-CATTAATAATTTAATAATAAATCATT-AATAACT
** * ** *
8392536 TAGCAGTAAATCACTAATAACATAATAATAAGTCACTT-ATAACT
1 TAATAGTAAATCATTAATAATTTAATAATAAATCA-TTAATAACT
* * * ** * * *
8392580 TAGTTA-TATATCAATAATAATTTTCTAGTAAATCATCAATGACT
1 TA-ATAGTAAATCATTAATAATTTAATAATAAATCATTAATAACT
* * *
8392624 TCATAGTAAATTAGTT-ATAACTTT-ATAATAAATTATTAATAACT
1 TAATAGTAAATCA-TTAATAA-TTTAATAATAAATCATTAATAACT
* * * * * ** *
8392668 CAATACTAAATCATCAATAACTTAGTCGTAAATCATTCATAACT
1 TAATAGTAAATCATTAATAATTTAATAATAAATCATTAATAACT
* *
8392712 TAATAGTAAATCATTAATAATTTAATAATAAATCACTGATAACT
1 TAATAGTAAATCATTAATAATTTAATAATAAATCATTAATAACT
* * * *
8392756 TAGTAATAAATTAATAATAA
1 TAATAGTAAATCATTAATAA
8392776 CTTGATTGTC
Statistics
Matches: 177, Mismatches: 51, Indels: 23
0.71 0.20 0.09
Matches are distributed among these distances:
41 4 0.02
42 25 0.14
43 10 0.06
44 133 0.75
45 5 0.03
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (44 bp):
TAATAGTAAATCATTAATAATTTAATAATAAATCATTAATAACT
Found at i:8394774 original size:19 final size:18
Alignment explanation
Indices: 8394740--8394793 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
8394730 TTTAATCTTA
* * *
8394740 ATTTTTTATTATATTTAT
1 ATTTTTAATTAAATTTAC
*
8394758 TTTTTTAACTTAAATTTAC
1 ATTTTTAA-TTAAATTTAC
*
8394777 ATTTTTAATTTAATTTA
1 ATTTTTAATTAAATTTA
8394794 GTATGATGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTTAATTAAATTTAC
Found at i:8394857 original size:24 final size:24
Alignment explanation
Indices: 8394813--8394865 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8394803 TAATTATTTC
8394813 AATTTTATTATTATAAAATATTAA
1 AATTTTATTATTATAAAATATTAA
** *
8394837 AATTATTA-TATTATATTATATTAT
1 AATT-TTATTATTATAAAATATTAA
8394861 AATTT
1 AATTT
8394866 GGTTAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.84
25 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTTTATTATTATAAAATATTAA
Found at i:8394993 original size:2 final size:2
Alignment explanation
Indices: 8394986--8395025 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
8394976 TTGCTAGTAC
* *
8394986 AT AT AT AT AT AT AT GT GT 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
8395026 TAAGTATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8407386 original size:22 final size:23
Alignment explanation
Indices: 8407317--8407386 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 23
8407307 TTTAACATAG
8407317 AATAATGGTAAATCAAATATTAC
1 AATAATGGTAAATCAAATATTAC
* ** * * * *
8407340 AATTAT-ACAAATCTAGT-CTAG
1 AATAATGGTAAATCAAATATTAC
8407361 AATAATGGTAAATCAAATATTA-
1 AATAATGGTAAATCAAATATTAC
8407383 AATA
1 AATA
8407387 TCTAATTTAA
Statistics
Matches: 32, Mismatches: 13, Indels: 5
0.64 0.26 0.10
Matches are distributed among these distances:
21 7 0.22
22 18 0.56
23 7 0.22
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (23 bp):
AATAATGGTAAATCAAATATTAC
Found at i:8410378 original size:16 final size:16
Alignment explanation
Indices: 8410357--8410387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8410347 ATGATTGTTA
*
8410357 ATGATGATTTATGATT
1 ATGATGACTTATGATT
8410373 ATGATGACTTATGAT
1 ATGATGACTTATGAT
8410388 GATTTTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
ATGATGACTTATGATT
Found at i:8418851 original size:44 final size:44
Alignment explanation
Indices: 8418784--8418872 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
8418774 AAAGGCTACA
*
8418784 ACAAATACACAAATCTAGCCTAGAATAATAATAAATCAAATATT
1 ACAAATACACAAATCTAACCTAGAATAATAATAAATCAAATATT
* * *
8418828 ACAATTACACAAATCTAATCTAGAATAATGATAAATCAAATATT
1 ACAAATACACAAATCTAACCTAGAATAATAATAAATCAAATATT
8418872 A
1 A
8418873 AATATCTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (44 bp):
ACAAATACACAAATCTAACCTAGAATAATAATAAATCAAATATT
Found at i:8418876 original size:22 final size:23
Alignment explanation
Indices: 8418807--8418876 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 23
8418797 TCTAGCCTAG
8418807 AATAATAATAAATCAAATATTAC
1 AATAATAATAAATCAAATATTAC
* * * *
8418830 AAT--TACACAAATCTAAT-CTAG
1 AATAATA-ATAAATCAAATATTAC
*
8418851 AATAATGATAAATCAAATATTA-
1 AATAATAATAAATCAAATATTAC
8418873 AATA
1 AATA
8418877 TCTAATTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 9
0.67 0.15 0.17
Matches are distributed among these distances:
21 7 0.20
22 22 0.63
23 6 0.17
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAAATCAAATATTAC
Found at i:8422011 original size:32 final size:32
Alignment explanation
Indices: 8421970--8422034 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
8421960 TCTCGACCCA
*
8421970 TGACAAGTGGTATCAAAGCCAGCCTTAAACCG
1 TGACAAGTGGTATCAAAGCCAGCCCTAAACCG
*
8422002 TGACAAGTGGTATCAAAGCTAGCCCTAAACCG
1 TGACAAGTGGTATCAAAGCCAGCCCTAAACCG
8422034 T
1 T
8422035 TCGATTCACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (32 bp):
TGACAAGTGGTATCAAAGCCAGCCCTAAACCG
Found at i:8422141 original size:83 final size:83
Alignment explanation
Indices: 8421999--8422164 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
8421989 CAGCCTTAAA
* *
8421999 CCGTGACAAGTGGTATCAAAGCTAGCCCTAAACCGTTCGATTCACGCCAAGCACCTCAAGGGAGG
1 CCGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGG
8422064 CAGGCAAGGTGGTCAGCC
66 CAGGCAAGGTGGTCAGCC
* *
8422082 CCGTGACAAGTGGTATCAAAGCCAGCCCTAAATCGTTCGATCCACGCCAAGCACTTCAAGGGAGG
1 CCGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGG
*
8422147 CAGGCAGGGTGGTCAGCC
66 CAGGCAAGGTGGTCAGCC
8422165 TCGTAGTCTC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.16
Consensus pattern (83 bp):
CCGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGG
CAGGCAAGGTGGTCAGCC
Found at i:8422254 original size:32 final size:32
Alignment explanation
Indices: 8422218--8422355 Score: 154
Period size: 32 Copynumber: 4.1 Consensus size: 32
8422208 TAGTCTCGAC
*
8422218 CCGTGACAAGTGATATCAAAGTCAGCCCTAAA
1 CCGTGACAAGTGGTATCAAAGTCAGCCCTAAA
*
8422250 CCGTGACAAGTGGTATCAAAGTCAGCCCTCAA
1 CCGTGACAAGTGGTATCAAAGTCAGCCCTAAA
*
8422282 --GTGATATCAAAGTCAGTGGTATCAAAGCCAGCCCTAAA
1 CCGTG--A-C--A---AGTGGTATCAAAGTCAGCCCTAAA
*
8422320 CAGTGACAAGTGGTATCAAAGTCAGCCCTAAA
1 CCGTGACAAGTGGTATCAAAGTCAGCCCTAAA
8422352 CCGT
1 CCGT
8422356 TCGATCCACG
Statistics
Matches: 90, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
30 3 0.03
32 57 0.63
33 1 0.01
35 2 0.02
37 1 0.01
38 23 0.26
40 3 0.03
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (32 bp):
CCGTGACAAGTGGTATCAAAGTCAGCCCTAAA
Found at i:8422616 original size:353 final size:353
Alignment explanation
Indices: 8422061--8422765 Score: 1257
Period size: 353 Copynumber: 2.0 Consensus size: 353
8422051 ACCTCAAGGG
*
8422061 AGGCAGGCAAGGTGGTCAGCCCCGTGACAAGTGGTATCAAAGCCAGCCCTAAATCGTTCGATCCA
1 AGGCAGGCAAGGTGGTCAGCCCCGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCA
*
8422126 CGCCAAGCACTTCAAGGGAGGCAGGCAGGGTGGTCAGCCTCGTAGTCTCGACCCAACACCTCAAG
66 CGCCAAGCACCTCAAGGGAGGCAGGCAGGGTGGTCAGCCTCGTAGTCTCGACCCAACACCTCAAG
* *
8422191 GGAAGCAGGCAGCCTCGTAGTCTCGACCCGTGACAAGTGATATCAAAGTCAGCCCTAAACCGTGA
131 GGAAGCAGGCAGCCTCGTAGTCTCGACCCCTGACAAGTGATATCAAAGTCAACCCTAAACCGTGA
** * *
8422256 CAAGTGGTATCAAAGTCAGCCCTCAAGTGATATCAAAGTCAGTGGTATCAAAGCCAGCCCTAAAC
196 CAAGTGGTATCAAAACCAGCCCTCAAGTGATATCAAAGCCAGTGGTATCAAAGCCAACCCTAAAC
*
8422321 AGTGACAAGTGGTATCAAAGTCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGAGAGGC
261 AGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGAGAGGC
* *
8422386 AGGCATGGTGGTCAGCCTCGTAGTCTCA
326 AGGCAGGGTGGTCAGCCTCATAGTCTCA
8422414 AGGCAGGCAAGGTGGTCAGCCCCGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCA
1 AGGCAGGCAAGGTGGTCAGCCCCGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCA
* *
8422479 CGCCAAGCACCTCAAGGGAGGCAGGCAGGGTGGTCAGCCTCGTAGTTTTGACCCAACACCTCAAG
66 CGCCAAGCACCTCAAGGGAGGCAGGCAGGGTGGTCAGCCTCGTAGTCTCGACCCAACACCTCAAG
*
8422544 GGAGGCAGGCAGCCTCGTAGTCTCGACCCCTGACAAGTGATATCAAAGTCAACCCTAAACCGTGA
131 GGAAGCAGGCAGCCTCGTAGTCTCGACCCCTGACAAGTGATATCAAAGTCAACCCTAAACCGTGA
8422609 CAAGTGGTATCAAAACCAGCCCTCAAGTGATATCAAAGCCAGTGGTATCAAAGCCAACCCTAAAC
196 CAAGTGGTATCAAAACCAGCCCTCAAGTGATATCAAAGCCAGTGGTATCAAAGCCAACCCTAAAC
* * *
8422674 CGTGATAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGGGAGGC
261 AGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGAGAGGC
8422739 AGGCAGGGTGGTCAGCCTCATAGTCTC
326 AGGCAGGGTGGTCAGCCTCATAGTCTC
8422766 GACCCATGAC
Statistics
Matches: 335, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
353 335 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (353 bp):
AGGCAGGCAAGGTGGTCAGCCCCGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCA
CGCCAAGCACCTCAAGGGAGGCAGGCAGGGTGGTCAGCCTCGTAGTCTCGACCCAACACCTCAAG
GGAAGCAGGCAGCCTCGTAGTCTCGACCCCTGACAAGTGATATCAAAGTCAACCCTAAACCGTGA
CAAGTGGTATCAAAACCAGCCCTCAAGTGATATCAAAGCCAGTGGTATCAAAGCCAACCCTAAAC
AGTGACAAGTGGTATCAAAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCAAGAGAGGC
AGGCAGGGTGGTCAGCCTCATAGTCTCA
Found at i:8422657 original size:15 final size:15
Alignment explanation
Indices: 8422634--8422664 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8422624 CCAGCCCTCA
8422634 AGTGATATCAAAGCC
1 AGTGATATCAAAGCC
*
8422649 AGTGGTATCAAAGCC
1 AGTGATATCAAAGCC
8422664 A
1 A
8422665 ACCCTAAACC
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:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (15 bp):
AGTGATATCAAAGCC
Found at i:8422690 original size:32 final size:32
Alignment explanation
Indices: 8422578--8422708 Score: 113
Period size: 32 Copynumber: 3.9 Consensus size: 32
8422568 GACCCCTGAC
* * *
8422578 AAGTGATATCAAAGTCAACCCTAAACCGTGAC
1 AAGTGGTATCAAAGCCAACCCTAAACCGTGAT
* * *
8422610 AAGTGGTATCAAAACCAGCCCTCAA--GTGATAT
1 AAGTGGTATCAAAGCCAACCCTAAACCGTG--AT
8422642 CAAAGCCAGTGGTATCAAAGCCAACCCTAAACCGTGAT
1 ---A---AGTGGTATCAAAGCCAACCCTAAACCGTGAT
*
8422680 AAGTGGTATCAAAGCCAGCCCTAAACCGT
1 AAGTGGTATCAAAGCCAACCCTAAACCGT
8422709 TCGATCCACG
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
30 3 0.04
32 48 0.61
35 2 0.03
38 23 0.29
40 3 0.04
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (32 bp):
AAGTGGTATCAAAGCCAACCCTAAACCGTGAT
Found at i:8423385 original size:27 final size:27
Alignment explanation
Indices: 8423355--8423411 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
8423345 TGTAGGACAA
8423355 AACCGTGAGTCCAAAGGGGCCAGAGCG
1 AACCGTGAGTCCAAAGGGGCCAGAGCG
*
8423382 AACCGTGAGTCCAAGGGGGCCAGAGCG
1 AACCGTGAGTCCAAAGGGGCCAGAGCG
8423409 AAC
1 AAC
8423412 AATACCTCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.37, T:0.07
Consensus pattern (27 bp):
AACCGTGAGTCCAAAGGGGCCAGAGCG
Found at i:8435617 original size:21 final size:21
Alignment explanation
Indices: 8435591--8435660 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
8435581 AGATGAATCT
8435591 TTAAATGAGAATCTTTGAGTG
1 TTAAATGAGAATCTTTGAGTG
* * *
8435612 TTAAATGAGAATTTTTTAAT-
1 TTAAATGAGAATCTTTGAGTG
8435632 TTCAAATGAGAATCTTTGAGGTG
1 TT-AAATGAGAATCTTTGA-GTG
*
8435655 TGAAAT
1 TTAAAT
8435661 CCAAAATTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.05
21 31 0.79
22 5 0.13
23 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (21 bp):
TTAAATGAGAATCTTTGAGTG
Found at i:8435713 original size:20 final size:21
Alignment explanation
Indices: 8435690--8435728 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8435680 AATCTTCAAA
8435690 TTCAAATGAAAAT-TTTGAAT
1 TTCAAATGAAAATCTTTGAAT
*
8435710 TTCAAATGAGAATCTTTGA
1 TTCAAATGAAAATCTTTGA
8435729 TGTGTGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (21 bp):
TTCAAATGAAAATCTTTGAAT
Found at i:8435728 original size:78 final size:79
Alignment explanation
Indices: 8435614--8435844 Score: 311
Period size: 78 Copynumber: 2.9 Consensus size: 79
8435604 TTTGAGTGTT
* * * *
8435614 AAATGAGAATTTTTTAATTTCAAATGAGAATCTTTGAGGTGTGAAATCCAAAATTTGTCGAATGT
1 AAATGAGAAATTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTTGAATGT
8435679 GAATCTTCAAATTC
66 GAATCTTCAAATTC
* *
8435693 AAATGA-AAATTTTGAATTTCAAATGAGAATCTTTGATGTGTGAAACCCAAAATTTATTGAATGT
1 AAATGAGAAATTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTTGAATGT
*
8435757 GAATCTTTAAATTC
66 GAATCTTCAAATTC
* * * * * * *
8435771 AAATAAGAAACTTTGAATTTTAAATGAGAATCTTTGAGATATGAAACCCTAAAGTTTGTTAAGAT
1 AAATGAGAAATTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCC-AAAATTTGTTGA-AT
8435836 GTGAATCTT
64 GTGAATCTT
8435845 TGAACTAGAA
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
78 70 0.53
79 43 0.32
80 9 0.07
81 11 0.08
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (79 bp):
AAATGAGAAATTTTGAATTTCAAATGAGAATCTTTGAGGTGTGAAACCCAAAATTTGTTGAATGT
GAATCTTCAAATTC
Found at i:8435938 original size:43 final size:43
Alignment explanation
Indices: 8435857--8435939 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
8435847 AACTAGAATG
* *
8435857 AAAAGCTTTGAACTTTTCGATGTGAATCTCCAAGTTCAAACAA
1 AAAAGCTTAGAACTTTTCGATGTGAATCTCCAAATTCAAACAA
*
8435900 AAAAGCTTAG-ACTTTTGGATGTGAATCTCCAAAATTCAAA
1 AAAAGCTTAGAACTTTTCGATGTGAATCTCC-AAATTCAAA
8435940 TGAGAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 19 0.53
43 17 0.47
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (43 bp):
AAAAGCTTAGAACTTTTCGATGTGAATCTCCAAATTCAAACAA
Found at i:8436256 original size:45 final size:45
Alignment explanation
Indices: 8436186--8436364 Score: 156
Period size: 44 Copynumber: 4.1 Consensus size: 45
8436176 CGAAGAGCAA
8436186 TTTA-TTTTTTTAAAGTTG-TGAGCCTCTGATTAGAGAAGCCTTG
1 TTTATTTTTTTTAAAGTTGTTGAGCCTCTGATTAGAGAAGCCTTG
* * *
8436229 TTTATTTTTTTTAAAGTTGTTAAGCCTCTGATTATAGGAG-CTT-
1 TTTATTTTTTTTAAAGTTGTTGAGCCTCTGATTAGAGAAGCCTTG
* ** ** *
8436272 TGTATTTTTTCCAAAGTCATTGAGCTTCTGATTAGAGGAA-CCTTG
1 TTTATTTTTTTTAAAGTTGTTGAGCCTCTGATTAGA-GAAGCCTTG
** ** * *
8436317 TTTA-TTTTTCAAAAGTCATTGAGCTTCTGTTTAGAGGAA-CCTTG
1 TTTATTTTTTTTAAAGTTGTTGAGCCTCTGATTAGA-GAAGCCTTG
8436361 TTTA
1 TTTA
8436365 CTTGTTTAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
43 32 0.28
44 64 0.55
45 20 0.17
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.45
Consensus pattern (45 bp):
TTTATTTTTTTTAAAGTTGTTGAGCCTCTGATTAGAGAAGCCTTG
Found at i:8436278 original size:43 final size:44
Alignment explanation
Indices: 8436190--8436325 Score: 127
Period size: 43 Copynumber: 3.1 Consensus size: 44
8436180 GAGCAATTTA
* *
8436190 TTTTTTTAAAGTTGTGAGCCTCTGATTAGAGAAGCCTTGTTTAT
1 TTTTTTTAAAGTTGTAAGCCTCTGATTAGAGAAGCCTTGTGTAT
* *
8436234 TTTTTTTAAAGTTGTTAAGCCTCTGATTATAGGAG-CTT-TGTAT
1 TTTTTTTAAAGTTG-TAAGCCTCTGATTAGAGAAGCCTTGTGTAT
** * * *
8436277 TTTTTCCAAAGTCAT-TGAGCTTCTGATTAGAGGAA-CCTTGTTTAT
1 TTTTTTTAAAGT--TGTAAGCCTCTGATTAGA-GAAGCCTTGTGTAT
8436322 TTTT
1 TTTT
8436326 CAAAAGTCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
43 27 0.36
44 22 0.29
45 26 0.35
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (44 bp):
TTTTTTTAAAGTTGTAAGCCTCTGATTAGAGAAGCCTTGTGTAT
Found at i:8436332 original size:44 final size:44
Alignment explanation
Indices: 8436204--8436364 Score: 173
Period size: 44 Copynumber: 3.7 Consensus size: 44
8436194 TTTAAAGTTG
** **
8436204 TGAGCCTCTGATTAGA-GAAGCCTTGTTTATTTTTTTTAAAGTTGT
1 TGAGCCTCTGATTAGAGGAA-CCTTGTTTA-TTTTTCAAAAGTCAT
* * * * * *
8436249 TAAGCCTCTGATTATAGGAGCTTTGTAT-TTTTTCCAAAGTCAT
1 TGAGCCTCTGATTAGAGGAACCTTGTTTATTTTTCAAAAGTCAT
*
8436292 TGAGCTTCTGATTAGAGGAACCTTGTTTATTTTTCAAAAGTCAT
1 TGAGCCTCTGATTAGAGGAACCTTGTTTATTTTTCAAAAGTCAT
* *
8436336 TGAGCTTCTGTTTAGAGGAACCTTGTTTA
1 TGAGCCTCTGATTAGAGGAACCTTGTTTA
8436365 CTTGTTTAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
43 33 0.34
44 42 0.43
45 20 0.21
46 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (44 bp):
TGAGCCTCTGATTAGAGGAACCTTGTTTATTTTTCAAAAGTCAT
Found at i:8436845 original size:44 final size:44
Alignment explanation
Indices: 8436795--8436974 Score: 197
Period size: 44 Copynumber: 4.1 Consensus size: 44
8436785 CGAAGAGCAA
*
8436795 TTTATTTTTTTTAAAGT-TGTGAGCCTCTGATTAGAGGAGCCTTG
1 TTTATTTTTTCTAAAGTAT-TGAGCCTCTGATTAGAGGAGCCTTG
* * * *
8436839 TTTATTTTTTTTAAAGTCGTTAAGCCTCTGATCAGAGGAG-CTT-
1 TTTATTTTTTCTAAAGT-ATTGAGCCTCTGATTAGAGGAGCCTTG
* * *
8436882 TGTATTTTTTCCAAAGTCATTGAGCCTCTGATTAGAGGAACCTTG
1 TTTATTTTTTCTAAAGT-ATTGAGCCTCTGATTAGAGGAGCCTTG
* * *
8436927 TTTA-TTTTTCAAAAGTCATTGAGCTTCTGTTTAGAGGAGCCTTG
1 TTTATTTTTTCTAAAGT-ATTGAGCCTCTGATTAGAGGAGCCTTG
8436971 TTTA
1 TTTA
8436975 CTTGTTTAAA
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
43 33 0.28
44 63 0.53
45 21 0.18
46 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (44 bp):
TTTATTTTTTCTAAAGTATTGAGCCTCTGATTAGAGGAGCCTTG
Found at i:8437210 original size:5 final size:5
Alignment explanation
Indices: 8437200--8437267 Score: 70
Period size: 5 Copynumber: 13.6 Consensus size: 5
8437190 TAGGTGTTTG
* *
8437200 TTATT TTATT TTATT TTATT CTTATT TT-TT AT-TT TTGTT TTATT ATTATT
1 TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTATT TTATT -TTATT
8437250 ATTA-T TTATT TTATT TTA
1 -TTATT TTATT TTATT TTA
8437268 GGATATTAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
4 9 0.16
5 33 0.59
6 14 0.25
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:8437240 original size:24 final size:23
Alignment explanation
Indices: 8437203--8437267 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
8437193 GTGTTTGTTA
*
8437203 TTTTATTTTATTTTATTCTTATT
1 TTTTATTTTATTTTATTATTATT
*
8437226 TTTTATTTTTGTTTTATTATTATTAT
1 TTTTA-TTTTATTTTATTATTA-T-T
8437252 TATTTATTTTATTTTA
1 T-TTTATTTTATTTTA
8437268 GGATATTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 5 0.14
24 14 0.40
25 1 0.03
26 11 0.31
27 4 0.11
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTATTTTATTTTATTATTATT
Found at i:8437855 original size:16 final size:15
Alignment explanation
Indices: 8437828--8437857 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
8437818 ATAAAGAAAA
8437828 AAAAAGAAGAGAGAG
1 AAAAAGAAGAGAGAG
8437843 AAAAAGAATGAGAGA
1 AAAAAGAA-GAGAGA
8437858 TCTGAAGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (15 bp):
AAAAAGAAGAGAGAG
Found at i:8438214 original size:24 final size:23
Alignment explanation
Indices: 8438173--8438228 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
8438163 TTGCATGAAT
*
8438173 AAATTTTAAAAACTAATATAAAATA
1 AAATTTTAAAAAC-AATACAAAA-A
8438198 AAATTTTCAAAAA-AATACAAAAA
1 AAATTTT-AAAAACAATACAAAAA
8438221 AATATTTT
1 AA-ATTTT
8438229 TGAGGAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 7 0.25
26 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATTTTAAAAACAATACAAAAA
Found at i:8438294 original size:67 final size:66
Alignment explanation
Indices: 8438192--8438462 Score: 324
Period size: 67 Copynumber: 4.1 Consensus size: 66
8438182 AAACTAATAT
* * *
8438192 AAAATAAAATTTTCAAAAAAATACAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTT
1 AAAATAAAATTTTC--AAAAATA-AGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTT
8438257 CTTA
63 CTTA
*
8438261 AAAATAAAATTTTCAAAAATACA-AAAAATTATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAATAAAATTTTCAAAAATA-AGAAAAA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
*
8438325 TTG
64 TTA
* * * *
8438328 AAAATAAAATTTTCAAAAA-AAGAAAAAGCATTTTTGAGGAAAAGTTGGAAGTACCAATTTTTCT
1 AAAATAAAATTTTCAAAAATAAGAAAAA-TATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCT
8438392 TA
65 TA
* *
8438394 AAACTAAAATTTT------TAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
1 AAAATAAAATTTTCAAAAATAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
*
8438453 G
66 A
8438454 AAAATAAAA
1 AAAATAAAA
8438463 ACATTCAAAG
Statistics
Matches: 180, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
60 40 0.22
61 8 0.04
65 1 0.01
66 55 0.31
67 62 0.34
69 14 0.08
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (66 bp):
AAAATAAAATTTTCAAAAATAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT
A
Found at i:8438429 original size:14 final size:15
Alignment explanation
Indices: 8438402--8438430 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8438392 TAAAACTAAA
8438402 ATTTTTAAGAAAAAT
1 ATTTTTAAGAAAAAT
8438417 ATTTTTAAGAAAAA
1 ATTTTTAAGAAAAA
8438431 GTTGAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
ATTTTTAAGAAAAAT
Found at i:8447043 original size:42 final size:42
Alignment explanation
Indices: 8446996--8447078 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
8446986 TCTTAAACTC
* * * * *
8446996 CAAAAGTGAAAATAGTGAATGACCAAAATATCCTTAGTAAAT
1 CAAAAGTGAAAATAATAAACGACCAAAATACCCTTAATAAAT
* *
8447038 CAAAAGTGATAATAATAAACGATCAAAATACCCTTAATAAA
1 CAAAAGTGAAAATAATAAACGACCAAAATACCCTTAATAAA
8447079 ATTTTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.53, C:0.13, G:0.11, T:0.23
Consensus pattern (42 bp):
CAAAAGTGAAAATAATAAACGACCAAAATACCCTTAATAAAT
Found at i:8447425 original size:478 final size:473
Alignment explanation
Indices: 8446518--8447433 Score: 1378
Period size: 473 Copynumber: 1.9 Consensus size: 473
8446508 TAAAAGTGTG
* * *
8446518 AACTCCAAAAGTGATAATAGTGAACGATCAAAATATCCTTAGTAAATCAAAAATAATAATAATGA
1 AACTCCAAAAGTGAAAATAGTGAACGACCAAAATATCCTTAGTAAATCAAAAATAATAATAATAA
* * *
8446583 ATGACCAAAATACCTTTAGTAAAAATTTTAATAAATTTTAATTAAAATAACTTTTTATTATTAAA
66 ACGACCAAAATACCCTTAATAAAAATTTTAATAAATTTTAATTAAAATAACTTTTTATTATTAAA
*
8446648 TTTTTATTGAGATAAATTATAATTTGAACTCTTTTATTATTAGACTTCTTATGGGACATTTGATT
131 TTTTTATTGAGATAAATTATAATTTAAACTCTTTTATTATTAGACTTCTTATGGGACATTTGATT
8446713 CTAATCTCTACTATAGTTGCAAAGTTTGTATATAAATGAAATATCATAAAACATTAAGAAATTTA
196 CTAATCTCTACTATAGTTGCAAAGTTTGTATATAAATGAAATATCATAAAACATTAAGAAATTTA
* *
8446778 AAAATAATGAAAAAAGACAAAAAAAAAAAGGATCCATAATTCATTTGAATAGTTTGAAAAAGACA
261 AAAATAACGAAAAAAGACAAAAAAAAAAAGGATCCATAATTCATTTGAATAGTTTCAAAAAGACA
* * * *
8446843 TAATAAGTGTTTTCTTAAGATTTATAAAGTTAGATTAGACAAACTCGCCACATTATGCCTATAGA
326 TAATAAATGTGTTCTTAAGATTTATAAAGTTAGATCAGACAAACTCACCACATTATGCCTATAGA
* * *
8446908 AATATTTTTAGAATAACATAACAATAAATAGATATACCAATTATCAAAAAGTTTAATACCCTTAT
391 AATATCTTTAGAATAACATAACAACAAATAGATATACCAATGATCAAAAAGTTTAATACCCTTAT
8446973 CTTTTTAATTATTTCTTA
456 CTTTTTAATTATTTCTTA
* * *
8446991 AACTCCAAAAGTGAAAATAGTGAATGACCAAAATATCCTTAGTAAATCAAAAGTGATAATAATAA
1 AACTCCAAAAGTGAAAATAGTGAACGACCAAAATATCCTTAGTAAATCAAAAATAATAATAATAA
* * *
8447056 ACGATCAAAATACCCTTAATAAAATTTTTAATTAAA-TTTAATTAAAATGA-TTTTTAATTATT-
66 ACGACCAAAATACCCTTAATAAAAATTTTAA-TAAATTTTAATTAAAATAACTTTTT-ATTATTA
* *
8447118 AATTTTTATTGAGATATATTATAATTTAAACTCTTTTATTATTAGACTTCTTATGGGGCATTTGA
129 AATTTTTATTGAGATAAATTATAATTTAAACTCTTTTATTATTAGACTTCTTATGGGACATTTGA
* * * *
8447183 TTTTGATCTCTAACTAAAAGATTGTAGTTGCAAAGTTTGTATATAAAT-AGAATATCGTAAGACA
194 TTCTAATCTCT-ACT-----A---TAGTTGCAAAGTTTGTATATAAATGA-AATATCATAAAACA
*
8447247 TTAAGAAATTTAAAAGTAACGAAAAAAGAC-AAAAAAAAAAGGATCCATAATTCATTTGAATAGT
249 TTAAGAAATTTAAAAATAACGAAAAAAGACAAAAAAAAAAAGGATCCATAATTCATTTGAATAGT
* *
8447311 TTCAAAAAGACATGATAAATG-GTT-TTAAGATTTATAGAGTTAGATCAGACAAACTCACCACAT
314 TTCAAAAAGACATAATAAATGTGTTCTTAAGATTTATAAAGTTAGATCAGACAAACTCACCACAT
* *
8447374 TATGCTTGTAGAAATATCTTTAGAATAACATAACAACAAATAGATATACCAATGATCAAA
379 TATGCCTATAGAAATATCTTTAGAATAACATAACAACAAATAGATATACCAATGATCAAA
8447434 CTATGATCAG
Statistics
Matches: 398, Mismatches: 33, Indels: 19
0.88 0.07 0.04
Matches are distributed among these distances:
472 76 0.19
473 107 0.27
474 4 0.01
478 92 0.23
479 2 0.01
480 53 0.13
481 64 0.16
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.34
Consensus pattern (473 bp):
AACTCCAAAAGTGAAAATAGTGAACGACCAAAATATCCTTAGTAAATCAAAAATAATAATAATAA
ACGACCAAAATACCCTTAATAAAAATTTTAATAAATTTTAATTAAAATAACTTTTTATTATTAAA
TTTTTATTGAGATAAATTATAATTTAAACTCTTTTATTATTAGACTTCTTATGGGACATTTGATT
CTAATCTCTACTATAGTTGCAAAGTTTGTATATAAATGAAATATCATAAAACATTAAGAAATTTA
AAAATAACGAAAAAAGACAAAAAAAAAAAGGATCCATAATTCATTTGAATAGTTTCAAAAAGACA
TAATAAATGTGTTCTTAAGATTTATAAAGTTAGATCAGACAAACTCACCACATTATGCCTATAGA
AATATCTTTAGAATAACATAACAACAAATAGATATACCAATGATCAAAAAGTTTAATACCCTTAT
CTTTTTAATTATTTCTTA
Found at i:8455063 original size:16 final size:15
Alignment explanation
Indices: 8455044--8455090 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
8455034 CATTTTCTCC
*
8455044 ATTTTCTAATTTTTT
1 ATTTTCTTATTTTTT
*
8455059 GATTTTCTTATCTTTT
1 -ATTTTCTTATTTTTT
*
8455075 ATTTTTTTATTTTTT
1 ATTTTCTTATTTTTT
8455090 A
1 A
8455091 ATTAGATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (15 bp):
ATTTTCTTATTTTTT
Found at i:8457665 original size:7 final size:6
Alignment explanation
Indices: 8457650--8457703 Score: 54
Period size: 7 Copynumber: 8.0 Consensus size: 6
8457640 CCAATTTTGC
8457650 TTTTAT TTTGTAT TTTATAT TTTTATT ATTTTAAT TTTTAT TTTTAT ATTTTAT
1 TTTTAT TTT-TAT TTT-TAT TTTTA-T -TTTT-AT TTTTAT TTTTAT -TTTTAT
8457704 GTATATATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
6 13 0.31
7 23 0.55
8 5 0.12
9 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:8457681 original size:23 final size:21
Alignment explanation
Indices: 8457652--8457702 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
8457642 AATTTTGCTT
*
8457652 TTATTTTGTATTTTATATTTTTA
1 TTATTTT-AATTTT-TATTTTTA
8457675 TTATTTTAATTTTTATTTTTA
1 TTATTTTAATTTTTATTTTTA
8457696 -TATTTTA
1 TTATTTTA
8457703 TGTATATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.26
21 8 0.30
22 5 0.19
23 7 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (21 bp):
TTATTTTAATTTTTATTTTTA
Found at i:8457686 original size:15 final size:16
Alignment explanation
Indices: 8457660--8457701 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
8457650 TTTTATTTTG
8457660 TATTTTATATTTTTAT
1 TATTTTATATTTTTAT
8457676 TATTTTA-ATTTTTA-
1 TATTTTATATTTTTAT
8457690 T-TTTTATATTTT
1 TATTTTATATTTT
8457702 ATGTATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 7 0.28
16 7 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTTATATTTTTAT
Found at i:8457702 original size:13 final size:13
Alignment explanation
Indices: 8457650--8457714 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
8457640 CCAATTTTGC
*
8457650 TTTTA-TTTTGTA
1 TTTTATTTTTATA
8457662 TTTTATATTTT-TA
1 TTTTAT-TTTTATA
*
8457675 --TTATTTTAAT-
1 TTTTATTTTTATA
8457685 TTTTATTTTTATA
1 TTTTATTTTTATA
* *
8457698 TTTTATGTATATA
1 TTTTATTTTTATA
8457711 TTTT
1 TTTT
8457715 CCTTTGTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.07
11 5 0.12
12 14 0.33
13 17 0.40
14 4 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTTATTTTTATA
Found at i:8457748 original size:15 final size:15
Alignment explanation
Indices: 8457725--8457765 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
8457715 CCTTTGTATC
*
8457725 TTATGTATTTATTAT
1 TTATTTATTTATTAT
8457740 TTATTTATTTATTAT
1 TTATTTATTTATTAT
8457755 TACTATTTATT
1 T--TATTTATT
8457766 AATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.65
17 8 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTTATTTATTAT
Found at i:8457754 original size:3 final size:3
Alignment explanation
Indices: 8457733--8457808 Score: 57
Period size: 3 Copynumber: 23.7 Consensus size: 3
8457723 TCTTATGTAT
* *
8457733 TTA TTA TTTA TTTA TTTA TTA TTA CTA TTTA TTA ATA -TA TATA TATA
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA TTA T-TA T-TA
8457780 TCT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
8457809 TTTCTTTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
2 3 0.05
3 40 0.62
4 21 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8457764 original size:61 final size:61
Alignment explanation
Indices: 8457656--8457772 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 61
8457646 TTGCTTTTAT
* * *
8457656 TTTGTATTTTATATTTTTATTATTTTAATTTTTATTTTTATATTTTATGT-ATATATTTTCC
1 TTTGTATCTTATATATTTATTATTTTAATTTTTATTATTATATTTTAT-TAATATATTTTCC
* *
8457717 TTTGTATCTTATGTATTTATTA-TTTATTTATTTATTATTACTA-TTTATTAATATAT
1 TTTGTATCTTATATATTTATTATTTTAATT-TTTATTATTA-TATTTTATTAATATAT
8457773 ATATATATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
60 7 0.15
61 39 0.81
62 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (61 bp):
TTTGTATCTTATATATTTATTATTTTAATTTTTATTATTATATTTTATTAATATATTTTCC
Found at i:8457867 original size:25 final size:24
Alignment explanation
Indices: 8457839--8457952 Score: 84
Period size: 25 Copynumber: 4.9 Consensus size: 24
8457829 TCTGTTAATA
8457839 TTATATATGTATTTTATTTATCTAG
1 TTATATAT-TATTTTATTTATCTAG
* *
8457864 TTATATTTTATTATTATTTAT-TCAT
1 TTATATATTATT-TTATTTATCT-AG
*
8457889 TTATATATTA--TAATTTATCT-G
1 TTATATATTATTTTATTTATCTAG
*
8457910 TTAT-TATTATTTTTTATTTATCTTG
1 TTATATATTA--TTTTATTTATCTAG
8457935 -TA-ATA-T-TTTTATTTATCT
1 TTATATATTATTTTATTTATCT
8457953 TATTTTTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
20 17 0.23
21 4 0.05
22 7 0.09
23 2 0.03
24 18 0.24
25 26 0.35
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TTATATATTATTTTATTTATCTAG
Found at i:8457949 original size:24 final size:24
Alignment explanation
Indices: 8457901--8457955 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
8457891 ATATATTATA
*
8457901 ATTTATCTGTTATTATTATTTTTT
1 ATTTATCTGTTAATATTATTTTTT
8457925 ATTTATCT-TGTAATATT-TTTATTT
1 ATTTATCTGT-TAATATTATTT-TTT
8457949 ATCTTAT
1 AT-TTAT
8457956 TTTTTTTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.24, C:0.05, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTATCTGTTAATATTATTTTTT
Found at i:8457956 original size:42 final size:39
Alignment explanation
Indices: 8457867--8458006 Score: 118
Period size: 42 Copynumber: 3.3 Consensus size: 39
8457857 TATCTAGTTA
* * * *
8457867 TATTTTATTATTATTTATTCATTTATATATTATAATTTATCTGT
1 TATTTTTTTTTTATTTA-TC-TTTA-ATATTTTTATTTATC--T
8457911 TATTATTATTTTTTATTTATCTTGTAATATTTTTATTTATCT
1 TATT-TT-TTTTTTATTTATCTT-TAATATTTTTATTTATCT
* *
8457953 TATTTTTTTTCTAATTATCTATTAATATTTTTTTATTTATCT
1 TATTTTTTTTTTATTTATCT-TTAATA--TTTTTATTTATCT
*
8457995 GATTTTTTTTTT
1 TATTTTTTTTTT
8458007 GGCTAAGATT
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
40 17 0.21
41 3 0.04
42 28 0.34
44 19 0.23
45 6 0.07
46 9 0.11
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (39 bp):
TATTTTTTTTTTATTTATCTTTAATATTTTTATTTATCT
Found at i:8458910 original size:15 final size:15
Alignment explanation
Indices: 8458867--8458956 Score: 74
Period size: 15 Copynumber: 5.6 Consensus size: 15
8458857 ATTTTTTGTA
*
8458867 TTTATTTATTCATTTAT
1 TTTATTTTTTCA-TT-T
*
8458884 TTTATTTATTTTCGTTT
1 TTTA-TT-TTTTCATTT
*
8458901 TTTATTTTTTTATTT
1 TTTATTTTTTCATTT
*
8458916 TTTACTTTTTTACTTTT
1 TTTA-TTTTTT-CATTT
8458933 TTTATTTTTT-ATTT
1 TTTATTTTTTCATTT
8458947 TATTATTTTT
1 T-TTATTTTT
8458957 ATTTTCTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
14 4 0.07
15 19 0.31
16 14 0.23
17 16 0.26
18 4 0.07
19 4 0.07
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (15 bp):
TTTATTTTTTCATTT
Found at i:8458966 original size:9 final size:8
Alignment explanation
Indices: 8458867--8458956 Score: 85
Period size: 8 Copynumber: 11.1 Consensus size: 8
8458857 ATTTTTTGTA
*
8458867 TTTATTTA
1 TTTATTTT
*
8458875 TTCATTTAT
1 TTTATTT-T
8458884 TTTATTTAT
1 TTTATTT-T
**
8458893 TTTCGTTT
1 TTTATTTT
8458901 TTTATTTT
1 TTTATTTT
8458909 TTTA-TTT
1 TTTATTTT
*
8458916 TTTACTTT
1 TTTATTTT
8458924 TTTACTTTT
1 TTTA-TTTT
8458933 TTTA-TTT
1 TTTATTTT
8458940 TTTATTTT
1 TTTATTTT
*
8458948 ATTATTTT
1 TTTATTTT
8458956 T
1 T
8458957 ATTTTCTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
7 14 0.21
8 34 0.50
9 20 0.29
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTATTTT
Found at i:8459305 original size:57 final size:58
Alignment explanation
Indices: 8458979--8459305 Score: 443
Period size: 58 Copynumber: 5.7 Consensus size: 58
8458969 TAAAATTCAA
*
8458979 AAAAAGATATTTTTGGAAAAAAGTTGAAAGTATCAATTTT--TCGAAATTAAGGTTTCC
1 AAAAA-ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
8459036 AAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
1 -AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
* * * *
8459095 AAAAAATATTTTTGGAGAAAAGTTGAAAATATCAATTTTTCTCGAAATTAAGGTTTCC
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
** *
8459153 AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT-CTCGAAATTAAAGTTT-C
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
* * * ** **
8459209 AAAAGATA-TTTTGAGAAAAAGTTGAAGGTATCAATTTTCCTC-AATATTAAAATTTTT
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTCGAA-ATTAAGGTTTCC
8459266 AAAAAATA-TTTTGAAAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCC
8459306 CTGCACAAAA
Statistics
Matches: 247, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
55 30 0.12
56 20 0.08
57 85 0.34
58 95 0.38
59 17 0.07
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
Found at i:8463167 original size:16 final size:15
Alignment explanation
Indices: 8463142--8463172 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8463132 TGGATGAAAA
8463142 ATGAGAAAAAAAATT
1 ATGAGAAAAAAAATT
8463157 ATGATGAAAAAAAATT
1 ATGA-GAAAAAAAATT
8463173 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
ATGAGAAAAAAAATT
Found at i:8465016 original size:82 final size:82
Alignment explanation
Indices: 8464879--8465108 Score: 331
Period size: 82 Copynumber: 2.8 Consensus size: 82
8464869 ATGACTGTCA
* *
8464879 AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGAAGCAATTTACTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
8464944 GTGGTGCCACTGTTTAG
66 GTGGTGCCACTGTTTAG
* * * *
8464961 AGGAGCAATTTACTTTCCAAAGTCAT-GGTGCCTCTGTTTAAAGGAGCAATTTACTTTTCAAAGT
1 AGGAGCAATTTACTTTTCAAAGT-TTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGT
* *
8465025 CGTGGTGCCTCTTTTTAG
65 CGTGGTGCCACTGTTTAG
* *
8465043 AGGAGTAATTTACTTTTCAAAGTTTCGTTGCCTCT-TTTAGAGGAGCAATTTATTTTTTC-AAGT
1 AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-CTTTTCAAAGT
8465106 CGT
65 CGT
8465109 TCAGCTTCTG
Statistics
Matches: 131, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
81 24 0.18
82 106 0.81
83 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
GTGGTGCCACTGTTTAG
Found at i:8465103 original size:41 final size:41
Alignment explanation
Indices: 8464879--8465099 Score: 281
Period size: 41 Copynumber: 5.4 Consensus size: 41
8464869 ATGACTGTCA
8464879 AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAG
* * *
8464920 AGAAGCAATTTACTTTTCAAAGTTGT-GGTGCCACTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTT-TCGTTGCCTCTGTTTAG
* * * *
8464961 AGGAGCAATTTACTTTCCAAAGTCAT-GGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCAAAGT-TTCGTTGCCTCTGTTTAG
*
8465002 AGGAGCAATTTACTTTTCAAAG--TCGTGGTGCCTCTTTTTAG
1 AGGAGCAATTTACTTTTCAAAGTTTCGT--TGCCTCTGTTTAG
*
8465043 AGGAGTAATTTACTTTTCAAAGTTTCGTTGCCTCT-TTTAG
1 AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAG
*
8465083 AGGAGCAATTTATTTTT
1 AGGAGCAATTTACTTTT
8465100 TCAAGTCGTT
Statistics
Matches: 158, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 20 0.13
41 131 0.83
42 1 0.01
43 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTTTCGTTGCCTCTGTTTAG
Found at i:8465150 original size:10 final size:10
Alignment explanation
Indices: 8465137--8465213 Score: 73
Period size: 10 Copynumber: 7.3 Consensus size: 10
8465127 AGCTTTGATC
8465137 AAAAACAAAA
1 AAAAACAAAA
8465147 AAAAACAACAA
1 AAAAACAA-AA
* **
8465158 CAAAATTAAA
1 AAAAACAAAA
8465168 AAAAACAAAGA
1 AAAAACAAA-A
*
8465179 AAACAAAAACAA
1 AAA-AACAA-AA
8465191 AAAAACAAAA
1 AAAAACAAAA
*
8465201 AAAAGCAAAA
1 AAAAACAAAA
8465211 AAA
1 AAA
8465214 TTGTCTCTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
10 30 0.56
11 15 0.28
12 8 0.15
13 1 0.02
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.03
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:8465181 original size:9 final size:8
Alignment explanation
Indices: 8465137--8465213 Score: 63
Period size: 8 Copynumber: 9.6 Consensus size: 8
8465127 AGCTTTGATC
8465137 AAAAACAA
1 AAAAACAA
8465145 AAAAA-AA
1 AAAAACAA
*
8465152 CAACAACAA
1 -AAAAACAA
**
8465161 AATTA-AA
1 AAAAACAA
8465168 AAAAACAA
1 AAAAACAA
8465176 AGAAAAC--
1 A-AAAACAA
8465183 AAAAACAA
1 AAAAACAA
8465191 AAAAACAAA
1 AAAAAC-AA
8465200 AAAAAGCAA
1 AAAAA-CAA
8465209 AAAAA
1 AAAAA
8465214 TTGTCTCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
6 5 0.09
7 8 0.14
8 21 0.38
9 21 0.38
10 1 0.02
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.03
Consensus pattern (8 bp):
AAAAACAA
Found at i:8465183 original size:24 final size:23
Alignment explanation
Indices: 8465136--8465211 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
8465126 GAGCTTTGAT
* *
8465136 CAAAAACAAAAAAA-AACAACAA
1 CAAAAACAAAAAAACAAAAAAAA
*
8465158 CAAAATTA-AAAAAAACAAAGAAAA
1 CAAAA--ACAAAAAAACAAAAAAAA
8465182 CAAAAACAAAAAAACAAAAAAAA
1 CAAAAACAAAAAAACAAAAAAAA
8465205 GCAAAAA
1 -CAAAAA
8465212 AATTGTCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 6 0.13
23 22 0.49
24 17 0.38
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (23 bp):
CAAAAACAAAAAAACAAAAAAAA
Found at i:8465285 original size:43 final size:43
Alignment explanation
Indices: 8465224--8465311 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
8465214 TTGTCTCTAT
* *
8465224 TTAGAGGAGCTTTCTTTATTTTCCAAAGTCGTTGAGCCTCTGA
1 TTAGAGAAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCTGA
*
8465267 TTAGAGAAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGA
1 TTAGAGAAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCTGA
8465310 TT
1 TT
8465312 GGAGGAGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (43 bp):
TTAGAGAAGCTTTATTTATTTTCCAAAGTCGTTGAGCCTCTGA
Found at i:8465597 original size:7 final size:7
Alignment explanation
Indices: 8465582--8465623 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
8465572 CCTTTGCATA
8465582 TTATGTAT
1 TTAT-TAT
8465590 TTATTAT
1 TTATTAT
8465597 TTATTTAT
1 TTA-TTAT
8465605 TTATTA-
1 TTATTAT
*
8465611 TTACTAT
1 TTATTAT
8465618 TTATTA
1 TTATTA
8465624 ATATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.17
7 14 0.47
8 11 0.37
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
TTATTAT
Found at i:8465664 original size:15 final size:15
Alignment explanation
Indices: 8465633--8465674 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
8465623 AATATATATA
8465633 TCTTTATTATT-TTTT
1 TCTTTATT-TTCTTTT
8465648 TCCTTT-TTTTCTTTT
1 T-CTTTATTTTCTTTT
8465663 TCTTTATTTTCT
1 TCTTTATTTTCT
8465675 GTTAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.25
15 14 0.58
16 4 0.17
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (15 bp):
TCTTTATTTTCTTTT
Found at i:8465728 original size:10 final size:10
Alignment explanation
Indices: 8465708--8465772 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
8465698 ATTTACCTAG
8465708 TTATATATTTA
1 TTAT-TATTTA
8465719 TTATTATTTA
1 TTATTATTTA
*
8465729 TTCATTTATATA
1 TT-A-TTATTTA
*
8465741 TTATAATTTA
1 TTATTATTTA
*
8465751 TCTGTTA-TTA
1 T-TATTATTTA
*
8465761 TTATTTTTTA
1 TTATTATTTA
8465771 TT
1 TT
8465773 TATCTTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 3 0.07
10 23 0.53
11 9 0.21
12 8 0.19
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATTATTTA
Found at i:8465810 original size:22 final size:22
Alignment explanation
Indices: 8465746--8465842 Score: 101
Period size: 21 Copynumber: 4.4 Consensus size: 22
8465736 ATATATTATA
8465746 ATTTATCTGTTATTATTATTTTTT
1 ATTTATC--TTATTATTATTTTTT
* *
8465770 ATTTATCTT-GTAATATTTTTT
1 ATTTATCTTATTATTATTTTTT
8465791 ATTTATCTTATTATT-TTTTTCT
1 ATTTATCTTATTATTATTTTT-T
* *
8465813 AATTATC-TATTAATATTTTTTT
1 ATTTATCTTATTATTA-TTTTTT
8465835 ATTTATCT
1 ATTTATCT
8465843 GATTTTCTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
21 30 0.49
22 19 0.31
23 5 0.08
24 7 0.11
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTATCTTATTATTATTTTTT
Found at i:8465819 original size:43 final size:45
Alignment explanation
Indices: 8465746--8465856 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 45
8465736 ATATATTATA
*
8465746 ATTTATCTGTTATTATTATTTTT-TATTTATCT-TGTAATA-TTTTTT
1 ATTTATC--TTATTATTATTTTTCTAATTATCTAT-TAATATTTTTTT
8465791 ATTTATCTTATTATT-TTTTTCTAATTATCTATTAATATTTTTTT
1 ATTTATCTTATTATTATTTTTCTAATTATCTATTAATATTTTTTT
* *
8465835 ATTTATCTGATT-TTCTTTTTCT
1 ATTTATCTTATTATTATTTTTCT
8465857 TTTTCTTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 9
0.85 0.03 0.13
Matches are distributed among these distances:
42 5 0.08
43 23 0.38
44 25 0.42
45 7 0.12
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (45 bp):
ATTTATCTTATTATTATTTTTCTAATTATCTATTAATATTTTTTT
Found at i:8465854 original size:22 final size:21
Alignment explanation
Indices: 8465756--8465842 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 21
8465746 ATTTATCTGT
*
8465756 TATTATTATTTTTTATTTATC
1 TATTATTTTTTTTTATTTATC
* *
8465777 T-TGTAATATTTTTTATTTATC
1 TAT-TATTTTTTTTTATTTATC
* *
8465798 TTATTATTTTTTTCTAATTATC
1 -TATTATTTTTTTTTATTTATC
*
8465820 TATTAATATTTTTTTATTTATC
1 TATT-ATTTTTTTTTATTTATC
8465842 T
1 T
8465843 GATTTTCTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 22 0.41
22 30 0.56
23 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.69
Consensus pattern (21 bp):
TATTATTTTTTTTTATTTATC
Found at i:8466723 original size:4 final size:4
Alignment explanation
Indices: 8466716--8466788 Score: 62
Period size: 4 Copynumber: 18.2 Consensus size: 4
8466706 CCATTTTTTG
* * *
8466716 TATT TATT TATT TATT CATT TATTT TATT TATTT TCATT TTTT TATT TTTT
1 TATT TATT TATT TATT TATT TA-TT TATT TA-TT T-ATT TATT TATT TATT
*
8466767 TATT T-TT TACT T-TT T-TT TATT T
1 TATT TATT TATT TATT TATT TATT T
8466789 TTGATTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
3 8 0.14
4 37 0.66
5 10 0.18
6 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:8466761 original size:39 final size:40
Alignment explanation
Indices: 8466718--8466803 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 40
8466708 ATTTTTTGTA
8466718 TTTATTTATTTATTCATTTA-TTTTATTTA-TTTTCATTTT
1 TTTATTTATTTATT-ATTTACTTTTATTTATTTTTCATTTT
* * * *
8466757 TTTATTTTTTTATTTTTTACTTTTTTTTATTTTTGATTTT
1 TTTATTTATTTATTATTTACTTTTATTTATTTTTCATTTT
*
8466797 ATTATTT
1 TTTATTT
8466804 TTATTTTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
38 4 0.10
39 21 0.52
40 15 0.38
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.78
Consensus pattern (40 bp):
TTTATTTATTTATTATTTACTTTTATTTATTTTTCATTTT
Found at i:8466767 original size:17 final size:16
Alignment explanation
Indices: 8466708--8466805 Score: 83
Period size: 17 Copynumber: 5.9 Consensus size: 16
8466698 TTTTTTTCCC
*
8466708 ATTTTTTGTATTTATTT
1 ATTTTTT-TATTTTTTT
* *
8466725 ATTTATTCATTTATTTT
1 ATTTTTTTATTT-TTTT
8466742 ATTTATTTTCATTTTTTT
1 ATTT-TTTT-ATTTTTTT
8466760 ATTTTTTTA-TTTTTT
1 ATTTTTTTATTTTTTT
*
8466775 ACTTTTTTT-TATTTTTG
1 A-TTTTTTTAT-TTTTTT
*
8466792 ATTTTATTATTTTT
1 ATTTTTTTATTTTT
8466806 ATTTTCTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
15 7 0.10
16 22 0.33
17 24 0.36
18 10 0.15
19 4 0.06
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (16 bp):
ATTTTTTTATTTTTTT
Found at i:8466805 original size:25 final size:25
Alignment explanation
Indices: 8466753--8466810 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 25
8466743 TTTATTTTCA
*
8466753 TTTTTTTATTTTTTT-ATTTTTTAC
1 TTTTTTTTTTTTTTTGATTTTTTAC
*
8466777 -TTTTTTTTATTTTTGATTTTATTA-
1 TTTTTTTTTTTTTTTGATTTT-TTAC
*
8466801 TTTTTATTTT
1 TTTTTTTTTT
8466811 CTTTAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
23 12 0.44
24 5 0.19
25 10 0.37
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.83
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTGATTTTTTAC
Found at i:8466815 original size:9 final size:8
Alignment explanation
Indices: 8466708--8466805 Score: 83
Period size: 8 Copynumber: 11.8 Consensus size: 8
8466698 TTTTTTTCCC
8466708 ATTTTTTGT
1 ATTTTTT-T
*
8466717 ATTTATTT
1 ATTTTTTT
* *
8466725 ATTTATTC
1 ATTTTTTT
8466733 ATTTATTTT
1 ATTT-TTTT
8466742 ATTTATTTT
1 ATTT-TTTT
8466751 CATTTTTTT
1 -ATTTTTTT
8466760 ATTTTTTT
1 ATTTTTTT
8466768 A-TTTTTT
1 ATTTTTTT
8466775 ACTTTTTTT
1 A-TTTTTTT
*
8466784 -TATTTTTG
1 AT-TTTTTT
*
8466792 ATTTTATT
1 ATTTTTTT
8466800 ATTTTT
1 ATTTTT
8466806 ATTTTCTTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
7 8 0.11
8 35 0.47
9 28 0.37
10 4 0.05
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (8 bp):
ATTTTTTT
Found at i:8486515 original size:16 final size:17
Alignment explanation
Indices: 8486477--8486516 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
8486467 TGTCATAAGG
*
8486477 GTTAAATTATAGTAAAA
1 GTTAAATTATAATAAAA
8486494 --TAAATT-TAATAAAA
1 GTTAAATTATAATAAAA
8486508 GTTAAATTA
1 GTTAAATTA
8486517 ACTTTCTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 7 0.37
15 6 0.32
16 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (17 bp):
GTTAAATTATAATAAAA
Found at i:8488464 original size:35 final size:35
Alignment explanation
Indices: 8488418--8488487 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
8488408 ACCAAACCAA
8488418 GTCCTTGTCGTCATATAGCAGATGATTAGCAAGCC
1 GTCCTTGTCGTCATATAGCAGATGATTAGCAAGCC
8488453 GTCCTTGTCGTCATATAGCAGATGATTAGCAAGCC
1 GTCCTTGTCGTCATATAGCAGATGATTAGCAAGCC
8488488 ATCCAGCACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (35 bp):
GTCCTTGTCGTCATATAGCAGATGATTAGCAAGCC
Found at i:8488927 original size:36 final size:36
Alignment explanation
Indices: 8488887--8488960 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
8488877 ATTCACAAAG
*
8488887 TATATATCTATATAAAGAGAGGTGTACCATAATTTA
1 TATATATCTATATAAAGAGAGGTGCACCATAATTTA
8488923 TATATATCTATATAAAGAGAGGTGCACCATAATTTA
1 TATATATCTATATAAAGAGAGGTGCACCATAATTTA
8488959 TA
1 TA
8488961 AGGCTAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (36 bp):
TATATATCTATATAAAGAGAGGTGCACCATAATTTA
Found at i:8489293 original size:15 final size:16
Alignment explanation
Indices: 8489275--8489315 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
8489265 AATAAAATAA
*
8489275 TTTATTATAA-TATTT
1 TTTATTATAACAATTT
8489290 TTTAATTATAACAATTT
1 TTT-ATTATAACAATTT
8489307 TTT-TTATAA
1 TTTATTATAA
8489316 AGTAACATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 7 0.30
17 7 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTATAACAATTT
Found at i:8491795 original size:26 final size:27
Alignment explanation
Indices: 8491761--8491813 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
8491751 TTAAATGAAT
* *
8491761 TTTTATATTTTTA-TTATATTTAAATA
1 TTTTATATTTTAATTTATATCTAAATA
8491787 TTTTATATTTTAATTTATATCTAAATA
1 TTTTATATTTTAATTTATATCTAAATA
8491814 AACTCTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTTATATTTTAATTTATATCTAAATA
Found at i:8494446 original size:2 final size:2
Alignment explanation
Indices: 8494434--8494471 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8494424 TGTGATCATC
* *
8494434 TA TA TA AA TA TA TA TA TA TA CA 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
8494472 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:8509944 original size:24 final size:25
Alignment explanation
Indices: 8509899--8509951 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
8509889 AAACAGAACA
* **
8509899 AAATAATTACTAATAATTATAAAAG
1 AAATAATCACTAATAACAATAAAAG
8509924 AAATAATCAC-AATAACAATAAAAG
1 AAATAATCACTAATAACAATAAAAG
8509948 AAAT
1 AAAT
8509952 GGAAAACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.25
Consensus pattern (25 bp):
AAATAATCACTAATAACAATAAAAG
Found at i:8510811 original size:55 final size:55
Alignment explanation
Indices: 8510687--8510790 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
8510677 AATACAAATT
* *
8510687 ATAACACGTAATTTTTATATAAAATATAATATAAATATAATATTTTATAAATACT
1 ATAACACATAATTTTTATATAAAATATAATATAAATATAATATTTTATAAATACG
* * * *
8510742 ATAACATATCATTTTTATATAAAATATTATATTAATATAATATTTTATA
1 ATAACACATAATTTTTATATAAAATATAATATAAATATAATATTTTATA
8510791 TGATACGGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (55 bp):
ATAACACATAATTTTTATATAAAATATAATATAAATATAATATTTTATAAATACG
Found at i:8514430 original size:27 final size:27
Alignment explanation
Indices: 8514400--8514453 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
8514390 AGGATCATTC
8514400 AAACATAGCATGTCTAAATGACAAACA
1 AAACATAGCATGTCTAAATGACAAACA
8514427 AAACATAGCATGTCTAAATGACAAACA
1 AAACATAGCATGTCTAAATGACAAACA
8514454 CTTTTGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.19, G:0.11, T:0.19
Consensus pattern (27 bp):
AAACATAGCATGTCTAAATGACAAACA
Found at i:8520959 original size:21 final size:20
Alignment explanation
Indices: 8520935--8520978 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
8520925 AATGACAATT
*
8520935 AAATAAATAATATGAAAAAAA
1 AAATAAAGAA-ATGAAAAAAA
*
8520956 AAATAGAGAAATGAAAAATAA
1 AAATAAAGAAATGAAAAA-AA
8520977 AA
1 AA
8520979 GCAAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (20 bp):
AAATAAAGAAATGAAAAAAA
Found at i:8531610 original size:24 final size:25
Alignment explanation
Indices: 8531583--8531630 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
8531573 ATTTTCTTAT
*
8531583 TTTTGATTTAAAAAATA-ATTTTTA
1 TTTTCATTTAAAAAATACATTTTTA
**
8531607 TTTTCATTTATCAAATACATTTTT
1 TTTTCATTTAAAAAATACATTTTT
8531631 TAAAAAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTTCATTTAAAAAATACATTTTTA
Found at i:8536085 original size:11 final size:11
Alignment explanation
Indices: 8536069--8536093 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8536059 AAAGTACCTC
8536069 AAATGAGAAAT
1 AAATGAGAAAT
8536080 AAATGAGAAAT
1 AAATGAGAAAT
8536091 AAA
1 AAA
8536094 AGGTTGATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (11 bp):
AAATGAGAAAT
Found at i:8537176 original size:24 final size:24
Alignment explanation
Indices: 8537149--8537194 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8537139 TTCAAAATAT
8537149 TAATACATA-TTATTTATTATATAA
1 TAATA-ATATTTATTTATTATATAA
*
8537173 TAATAATATTTTTTTATTATAT
1 TAATAATATTTATTTATTATAT
8537195 TAAATCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TAATAATATTTATTTATTATATAA
Found at i:8537735 original size:23 final size:23
Alignment explanation
Indices: 8537702--8537762 Score: 104
Period size: 23 Copynumber: 2.6 Consensus size: 23
8537692 ATTTAAATAA
8537702 ATTTTGATAAAAATTATTACTTTT
1 ATTTT-ATAAAAATTATTACTTTT
*
8537726 ATTTTATAAAAATTATTATTTTT
1 ATTTTATAAAAATTATTACTTTT
8537749 ATTTTATAAAAATT
1 ATTTTATAAAAATT
8537763 TAAAATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 31 0.86
24 5 0.14
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTTATAAAAATTATTACTTTT
Found at i:8537782 original size:20 final size:20
Alignment explanation
Indices: 8537753--8537797 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
8537743 ATTTTTATTT
8537753 TATA-AAAATTTAAA-ATATA
1 TATATAAAA-TTAAATATATA
8537772 TATATAAAATTAAATATATA
1 TATATAAAATTAAATATATA
8537792 TATATA
1 TATATA
8537798 TATAATTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATATAAAATTAAATATATA
Found at i:8537878 original size:13 final size:13
Alignment explanation
Indices: 8537857--8537892 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
8537847 AAATTTAATC
8537857 TAAATTTAATATA
1 TAAATTTAATATA
* *
8537870 TACATTTAATATT
1 TAAATTTAATATA
8537883 TAAATTTAAT
1 TAAATTTAAT
8537893 TCAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:8538431 original size:19 final size:21
Alignment explanation
Indices: 8538402--8538443 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
8538392 ATAATTTTAA
8538402 ATTTTTATATTTAC-AATTAC
1 ATTTTTATATTTACAAATTAC
*
8538422 ATTTTT-TATTTTCAAATTAC
1 ATTTTTATATTTACAAATTAC
8538442 AT
1 AT
8538444 AGAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTATATTTACAAATTAC
Found at i:8539769 original size:31 final size:31
Alignment explanation
Indices: 8539734--8539795 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8539724 AGCAGTTAGT
8539734 TAAATTCATCATTCTTAATATAAAATATAAA
1 TAAATTCATCATTCTTAATATAAAATATAAA
8539765 TAAATTCATCATTCTTAATATAAAATATAAA
1 TAAATTCATCATTCTTAATATAAAATATAAA
8539796 ACACTTACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAATTCATCATTCTTAATATAAAATATAAA
Found at i:8540679 original size:2 final size:2
Alignment explanation
Indices: 8540672--8540705 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8540662 AATTTAGCCA
8540672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8540706 TAACAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8541532 original size:15 final size:15
Alignment explanation
Indices: 8541506--8541551 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
8541496 ATTTTACTTA
8541506 TAAATAATATTATAT
1 TAAATAATATTATAT
8541521 TATAAT-ATATTA-A-
1 TA-AATAATATTATAT
8541534 TAAATAATATTATAT
1 TAAATAATATTATAT
8541549 TAA
1 TAA
8541552 TAAAAAACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
14 2 0.07
15 11 0.41
16 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAATAATATTATAT
Found at i:8541829 original size:30 final size:32
Alignment explanation
Indices: 8541770--8541830 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
8541760 TAAAAGACGA
8541770 CCAAACAATGAAAAATATTTTTATTAATTTAT
1 CCAAACAATGAAAAATATTTTTATTAATTTAT
*
8541802 CCAAATAAT-AAAAA-ATTTCTT-TTAATTTA
1 CCAAACAATGAAAAATATTT-TTATTAATTTA
8541831 AAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 12 0.44
31 7 0.26
32 8 0.30
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (32 bp):
CCAAACAATGAAAAATATTTTTATTAATTTAT
Found at i:8541861 original size:14 final size:15
Alignment explanation
Indices: 8541842--8541883 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
8541832 AAAATATAAA
8541842 TATTTTTCAAAAAT-
1 TATTTTTCAAAAATC
*
8541856 TATTTTTTAAAAATC
1 TATTTTTCAAAAATC
*
8541871 AATTTTTACAAAA
1 TATTTTT-CAAAA
8541884 CAAACGGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 13 0.57
15 6 0.26
16 4 0.17
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTTTTCAAAAATC
Found at i:8543444 original size:29 final size:30
Alignment explanation
Indices: 8543389--8543445 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
8543379 TTTAAAAATT
* * *
8543389 AATAAAATTAAAAGTATAGTAATAAAATCA
1 AATAAAATTAAAAGTACAATAACAAAATCA
*
8543419 AATAAAATT-TAAGTACAATAACAAAAT
1 AATAAAATTAAAAGTACAATAACAAAAT
8543446 TCGTTGTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 14 0.61
30 9 0.39
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (30 bp):
AATAAAATTAAAAGTACAATAACAAAATCA
Found at i:8547837 original size:22 final size:21
Alignment explanation
Indices: 8547804--8547845 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
8547794 ATTTAAATCA
*
8547804 TCTGTAATAATTTCATGAAATT
1 TCTGTAATAA-TTCATAAAATT
8547826 TCTGATAA-AATTCATAAAAT
1 TCTG-TAATAATTCATAAAAT
8547846 CAATGCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 9 0.50
22 6 0.33
23 3 0.17
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (21 bp):
TCTGTAATAATTCATAAAATT
Found at i:8549149 original size:33 final size:33
Alignment explanation
Indices: 8549101--8549164 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
8549091 TTTTACTGAT
* *
8549101 AGTTCTCAATAGGTAAAAATCATAACTAATAAC
1 AGTTCACAATAGGTAAAAACCATAACTAATAAC
*
8549134 AGTTCACAATGGGTAAAAACCATAACTAATA
1 AGTTCACAATAGGTAAAAACCATAACTAATA
8549165 GAAGTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (33 bp):
AGTTCACAATAGGTAAAAACCATAACTAATAAC
Found at i:8552300 original size:14 final size:15
Alignment explanation
Indices: 8552271--8552301 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8552261 TGGAAATTCC
*
8552271 AAAAATTTTCCAAAA
1 AAAAATTGTCCAAAA
8552286 AAAAATTGTCCAAAA
1 AAAAATTGTCCAAAA
8552301 A
1 A
8552302 TTCCAAAAAA
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:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAAATTGTCCAAAA
Found at i:8552567 original size:11 final size:11
Alignment explanation
Indices: 8552544--8552576 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8552534 TGCCAGAATT
8552544 TTTATTT-TTA
1 TTTATTTATTA
8552554 TTTATTTATTA
1 TTTATTTATTA
*
8552565 TTTTTTTATTA
1 TTTATTTATTA
8552576 T
1 T
8552577 CCTATCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:8552613 original size:5 final size:5
Alignment explanation
Indices: 8552589--8552631 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
8552579 TATCATTAAC
*
8552589 TAAAA TGAAA -AAAA TAAAAA TAAAA TAAAA T-AAA TAAAA TAAA
1 TAAAA TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA TAAAA TAAA
8552632 GCCCATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 7 0.21
5 21 0.64
6 5 0.15
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:8552980 original size:42 final size:42
Alignment explanation
Indices: 8552912--8553304 Score: 452
Period size: 42 Copynumber: 9.3 Consensus size: 42
8552902 CAAAGGCACA
**
8552912 ACAACTTTGAAAAATAAAATGCTCCTCTAAACGGAGGC-ACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* * *
8552953 ACGACTTTAAAAAAATAAATTGCTCCTCTAAATAGAGGCAA-C
1 ACAACTTT-GAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
** * * ** *
8552995 ATGACTTTGGAAAAATAAATTGCTCCTATAAGCAG-GACAACC
1 ACAACTTT-GAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* *
8553037 ATAACTTTGAAAAATAAAATGCTCCTCTAAATAGAAGCAACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* * * * *
8553079 ATAACTTTGAAAAATAAATTGTTCTTTTAAATAGAGGCAACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
*
8553121 ACAACTTTGAAAAATAAAATGCTTCTCTAAATAGAGGCAACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* * * *
8553163 ATAACTTTGAAAAATAAATTGCTCCTTTAAATAAAGGCAACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
* * *
8553205 ACAACTTTAGGAAAAA-ATAAATGCTCTTCTAAATAAAGTCAACC
1 ACAACTTT--GAAAAATA-AAATGCTCCTCTAAATAGAGGCAACC
*
8553249 ACAACTTTGAAAAATAAAATGCTCCTTTAAATAGAGGCAACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
*
8553291 ACAACTTTAAAAAA
1 ACAACTTTGAAAAA
8553305 AATAAAAGGT
Statistics
Matches: 299, Mismatches: 45, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
41 33 0.11
42 227 0.76
43 3 0.01
44 36 0.12
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (42 bp):
ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGCAACC
Found at i:8553020 original size:84 final size:85
Alignment explanation
Indices: 8552914--8553321 Score: 504
Period size: 84 Copynumber: 4.8 Consensus size: 85
8552904 AAGGCACAAC
* * ** * *
8552914 AACTTTGAAAAATAAAATGCTCCTCTAAACGGAGGC-ACCACGACTTTAAAAAAATAAATTGCTC
1 AACTTTGAAAAATAAATTGCTCCTTTAAATAGAGGCAACCACAACTTTAAAAAAATAAAATGCTC
8552978 CTCTAAATAGAGGCAA-CAT
66 CTCTAAATAGAGGCAACCAT
* * ** * * *
8552997 GACTTTGGAAAAATAAATTGCTCCTATAAGCAG-GACAACCATAACTTT-GAAAAATAAAATGCT
1 AACTTT-GAAAAATAAATTGCTCCTTTAAATAGAGGCAACCACAACTTTAAAAAAATAAAATGCT
*
8553060 CCTCTAAATAGAAGCAACCAT
65 CCTCTAAATAGAGGCAACCAT
* * * *
8553081 AACTTTGAAAAATAAATTGTTCTTTTAAATAGAGGCAACCACAACTTT-GAAAAATAAAATGCTT
1 AACTTTGAAAAATAAATTGCTCCTTTAAATAGAGGCAACCACAACTTTAAAAAAATAAAATGCTC
8553145 CTCTAAATAGAGGCAACCAT
66 CTCTAAATAGAGGCAACCAT
*
8553165 AACTTTGAAAAATAAATTGCTCCTTTAAATAAAGGCAACCACAACTTTAGGAAAAAAT-AAATGC
1 AACTTTGAAAAATAAATTGCTCCTTTAAATAGAGGCAACCACAACTTTA--AAAAAATAAAATGC
* * * *
8553229 TCTTCTAAATAAAGTCAACCAC
64 TCCTCTAAATAGAGGCAACCAT
* * *
8553251 AACTTTGAAAAATAAAATGCTCCTTTAAATAGAGGCAACCACAACTTTAAAAAAAATAAAAGGTT
1 AACTTTGAAAAATAAATTGCTCCTTTAAATAGAGGCAACCACAACTTT-AAAAAAATAAAATGCT
8553316 CCTCTA
65 CCTCTA
8553322 TAATCATATC
Statistics
Matches: 281, Mismatches: 35, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
83 57 0.20
84 131 0.47
85 7 0.02
86 79 0.28
87 7 0.02
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (85 bp):
AACTTTGAAAAATAAATTGCTCCTTTAAATAGAGGCAACCACAACTTTAAAAAAATAAAATGCTC
CTCTAAATAGAGGCAACCAT
Found at i:8553113 original size:125 final size:125
Alignment explanation
Indices: 8552914--8553304 Score: 479
Period size: 125 Copynumber: 3.1 Consensus size: 125
8552904 AAGGCACAAC
** * * *
8552914 AACTTTGAAAAATAAAATGCTCCTCTAAACGGAGGC-ACCACGACTTTAAAAAAATAAATTGCTC
1 AACTTTGAAAAATAAAATGCTCCTCTAAATAGAAGCAACCACAACTTTAGAAAAATAAATTGCTC
* ** * *
8552978 CTCTAAATAGAGGCAA-CATGACTTTGGAAAAATAAATTGCTCCTATA-AGCAGGACAACCAT
66 TTCTAAATAGAGGCAACCACAACTTT-GAAAAATAAAATGCTCCTAAATAG-AGG-CAACCAT
* *
8553039 AACTTTGAAAAATAAAATGCTCCTCTAAATAGAAGCAACCATAACTTT-GAAAAATAAATTGTTC
1 AACTTTGAAAAATAAAATGCTCCTCTAAATAGAAGCAACCACAACTTTAGAAAAATAAATTGCTC
*
8553103 TTTTAAATAGAGGCAACCACAACTTTGAAAAATAAAATGCTTCTCTAAATAGAGGCAACCAT
66 TTCTAAATAGAGGCAACCACAACTTTGAAAAATAAAATGC-TC-CTAAATAGAGGCAACCAT
* *
8553165 AACTTTGAAAAATAAATTGCTCCTTTAAATA-AAGGCAACCACAACTTTAGGAAAAAATAAA-TG
1 AACTTTGAAAAATAAAATGCTCCTCTAAATAGAA-GCAACCACAACTTTA-G-AAAAATAAATTG
* * *
8553228 CTCTTCTAAATAAAGTCAACCACAACTTTGAAAAATAAAATGCTCCTTTAAATAGAGGCAACCAC
63 CTCTTCTAAATAGAGGCAACCACAACTTTGAAAAATAAAATGCTCC--TAAATAGAGGCAACCAT
*
8553293 AACTTTAAAAAA
1 AACTTTGAAAAA
8553305 AATAAAAGGT
Statistics
Matches: 233, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
125 76 0.33
126 68 0.29
127 9 0.04
128 71 0.30
129 9 0.04
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (125 bp):
AACTTTGAAAAATAAAATGCTCCTCTAAATAGAAGCAACCACAACTTTAGAAAAATAAATTGCTC
TTCTAAATAGAGGCAACCACAACTTTGAAAAATAAAATGCTCCTAAATAGAGGCAACCAT
Found at i:8553718 original size:21 final size:22
Alignment explanation
Indices: 8553692--8553742 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
8553682 AACTTAAAAC
**
8553692 TCAAAGACTT-TTCTTTGAAAT
1 TCAAAGACTTCTGATTTGAAAT
8553713 TCAAAGA-TTCTGATTTGAAAT
1 TCAAAGACTTCTGATTTGAAAT
8553734 TCAAAGACT
1 TCAAAGACT
8553743 ATCATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (22 bp):
TCAAAGACTTCTGATTTGAAAT
Found at i:8559709 original size:16 final size:16
Alignment explanation
Indices: 8559685--8559720 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
8559675 AAACGACTCA
*
8559685 ACTCGGCTAGAGTTCG
1 ACTCAGCTAGAGTTCG
8559701 ACTCAGCTAGAGTTCG
1 ACTCAGCTAGAGTTCG
8559717 ACTC
1 ACTC
8559721 GGCTTGAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (16 bp):
ACTCAGCTAGAGTTCG
Found at i:8560993 original size:12 final size:12
Alignment explanation
Indices: 8560976--8561001 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8560966 CCAACCGATC
8560976 GGTTTCGTATTT
1 GGTTTCGTATTT
8560988 GGTTTCGTATTT
1 GGTTTCGTATTT
8561000 GG
1 GG
8561002 ATCACGATCC
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:0.08, C:0.08, G:0.31, T:0.54
Consensus pattern (12 bp):
GGTTTCGTATTT
Found at i:8566591 original size:1 final size:1
Alignment explanation
Indices: 8566587--8566613 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
8566577 AAATTACATG
8566587 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
8566614 ATGGAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8567889 original size:31 final size:31
Alignment explanation
Indices: 8567831--8567890 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
8567821 TTAAAATTCG
*
8567831 TATATTCATAATTTATATTTTACAAAAATTT
1 TATATTCATAATTTATATTATACAAAAATTT
* *
8567862 TATATT-ATAATTTATGTTCATATAAAAAT
1 TATATTCATAATTTATATT-ATACAAAAAT
8567891 ATAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (31 bp):
TATATTCATAATTTATATTATACAAAAATTT
Done.