Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 29 of 126
Found at i:6158190 original size:20 final size:20
Alignment explanation
Indices: 6158167--6158207 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6158157 AAGTCAACTC
6158167 TAGTCAAAATTAATCAAATT
1 TAGTCAAAATTAATCAAATT
**
6158187 TAGTCAAAATTGGTCAAATT
1 TAGTCAAAATTAATCAAATT
6158207 T
1 T
6158208 GATAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (20 bp):
TAGTCAAAATTAATCAAATT
Found at i:6160009 original size:16 final size:16
Alignment explanation
Indices: 6159989--6160021 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
6159979 GAATTTAGCT
6159989 TTTTTGCATGATATTTA
1 TTTTTGCATGA-ATTTA
6160006 TTTTTGCATGAATTTA
1 TTTTTGCATGAATTTA
6160022 GTATATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (16 bp):
TTTTTGCATGAATTTA
Found at i:6160124 original size:20 final size:20
Alignment explanation
Indices: 6159991--6160172 Score: 82
Period size: 20 Copynumber: 9.2 Consensus size: 20
6159981 ATTTAGCTTT
*
6159991 TTTGCATGA-TATT--TATT
1 TTTGCATGATTATTAATATA
* *
6160008 TTTGCATGAAT-TTAGTATA
1 TTTGCATGATTATTAATATA
* * * *
6160027 TTTGCCTGACTAATATCTAATA
1 TTTGCATGATTATTA-AT-ATA
6160049 TTTGCATGATTATT-AT-TA
1 TTTGCATGATTATTAATATA
6160067 TTTGCATGA-TATTACTATATTTA
1 TTTGCATGATTATTA--ATA--TA
*
6160090 TAATTACAT-ATTTATTAATATA
1 T--TTGCATGA-TTATTAATATA
6160112 TTTGCATGATTATT--TATA
1 TTTGCATGATTATTAATATA
* * *
6160130 ATTGTATGTTTATTAATATCA
1 TTTGCATGATTATTAATAT-A
6160151 -TTGTC-TGATTATTAATATA
1 TTTG-CATGATTATTAATATA
6160170 TTT
1 TTT
6160173 ATTTGTATGG
Statistics
Matches: 127, Mismatches: 16, Indels: 41
0.69 0.09 0.22
Matches are distributed among these distances:
17 15 0.12
18 27 0.21
19 13 0.10
20 35 0.28
21 3 0.02
22 17 0.13
23 3 0.02
24 4 0.03
25 5 0.04
26 5 0.04
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTGCATGATTATTAATATA
Found at i:6160142 original size:18 final size:18
Alignment explanation
Indices: 6160084--6160143 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
6160074 GATATTACTA
* *
6160084 TATTTATAATTACATATT
1 TATTTATAATTGCATGTT
* *
6160102 TATTAATATATTTGCATGAT
1 TATT--TATAATTGCATGTT
*
6160122 TATTTATAATTGTATGTT
1 TATTTATAATTGCATGTT
6160140 TATT
1 TATT
6160144 AATATCATTG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 19 0.58
20 14 0.42
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (18 bp):
TATTTATAATTGCATGTT
Found at i:6160299 original size:24 final size:24
Alignment explanation
Indices: 6160266--6160326 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
6160256 TTATTGCATG
*
6160266 ATTTACTGCATGATATGATTTTAT
1 ATTTATTGCATGATATGATTTTAT
*
6160290 ATTTATTGCATTATATGATTTTAT
1 ATTTATTGCATGATATGATTTTAT
*
6160314 A-TTATCGCATGAT
1 ATTTATTGCATGAT
6160327 TTATTGCACG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (24 bp):
ATTTATTGCATGATATGATTTTAT
Found at i:6161006 original size:41 final size:40
Alignment explanation
Indices: 6160960--6161055 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 40
6160950 TTAAGAAAAT
6160960 AATATTATTATATTATTTAACATTAATTATTAAAATAAT-A-A-
1 AATATTATTATATTA-TT---ATTAATTATTAAAATAATAATAC
* *
6161001 AATATTATATATGTTATTATTTATTATTAAAATAATAATAC
1 AATATTAT-TATATTATTATTAATTATTAAAATAATAATAC
6161042 AATATTATT-TATTA
1 AATATTATTATATTA
6161056 ATGAAATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
38 17 0.35
39 5 0.10
40 2 0.04
41 18 0.38
42 6 0.12
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (40 bp):
AATATTATTATATTATTATTAATTATTAAAATAATAATAC
Found at i:6161050 original size:29 final size:27
Alignment explanation
Indices: 6161015--6161074 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
6161005 TTATATATGT
*
6161015 TATTATTTATTATTAAAATAATAATACAA
1 TATTATTTATTAATAAAATAATAA-A-AA
*
6161044 TATTATTTATTAATGAAATAATAAAAA
1 TATTATTTATTAATAAAATAATAAAAA
6161071 TATT
1 TATT
6161075 TATGTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.21
28 1 0.03
29 22 0.76
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTATTTATTAATAAAATAATAAAAA
Found at i:6161083 original size:27 final size:29
Alignment explanation
Indices: 6161015--6161084 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
6161005 TTATATATGT
* * *
6161015 TATTATTTATTATTAAAATAATAATACAA
1 TATTATGTATTAATGAAATAATAATACAA
*
6161044 TATTATTTATTAATGAAATAATAA-A-AA
1 TATTATGTATTAATGAAATAATAATACAA
6161071 TATTTATGT-TTAAT
1 TA-TTATGTATTAAT
6161085 AATATGCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 9 0.24
28 6 0.16
29 22 0.59
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (29 bp):
TATTATGTATTAATGAAATAATAATACAA
Found at i:6167387 original size:42 final size:42
Alignment explanation
Indices: 6167328--6167411 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
6167318 TAAGCATACT
* * *
6167328 TAGTTTGCAGATAACTTTAAAATGATTACATCATGAGGCTAA
1 TAGTTCGCAAATAACTTTAAAAAGATTACATCATGAGGCTAA
*
6167370 TAGTTCGCAAATAACTTTAAAAAGATTATATCATGAGGCTAA
1 TAGTTCGCAAATAACTTTAAAAAGATTACATCATGAGGCTAA
6167412 CAAAACACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (42 bp):
TAGTTCGCAAATAACTTTAAAAAGATTACATCATGAGGCTAA
Found at i:6184951 original size:24 final size:24
Alignment explanation
Indices: 6184902--6184951 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
6184892 TACTTTTTTT
*
6184902 ATTTAATTTTTTTCATTATGTTTA
1 ATTTAATTTTTTTCATTATGTATA
6184926 ATTTAATTTAGTTTT-ATTAT-TATA
1 ATTTAATTT--TTTTCATTATGTATA
6184950 AT
1 AT
6184952 CTATGCATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 14 0.61
25 5 0.22
26 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (24 bp):
ATTTAATTTTTTTCATTATGTATA
Found at i:6185025 original size:16 final size:15
Alignment explanation
Indices: 6185004--6185055 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
6184994 TGTTGTTTTT
6185004 AATAATAGTAGTAATA
1 AATAATAGTAG-AATA
*
6185020 AATAATAATAAGAATA
1 AATAATAGT-AGAATA
*
6185036 AAAAAT-G-AGAATA
1 AATAATAGTAGAATA
6185049 AATAATA
1 AATAATA
6185056 ATGAAAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 11 0.37
16 17 0.57
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (15 bp):
AATAATAGTAGAATA
Found at i:6185347 original size:3 final size:3
Alignment explanation
Indices: 6185339--6185422 Score: 80
Period size: 3 Copynumber: 26.7 Consensus size: 3
6185329 TCTTTTAAAA
* * * *
6185339 AAT AAT AAT AAAT AAT -TT CAAT AAT AAT AAA AACC AAT AATT AAGA
1 AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AA-T AA-T
6185385 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6185423 ATTTTATAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 1 0.01
3 56 0.82
4 11 0.16
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:6185703 original size:16 final size:16
Alignment explanation
Indices: 6185683--6185740 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
6185673 CGAAACCCTT
*
6185683 AAACTCTAAACCTTCT
1 AAACTCTAAACCTTCA
*
6185699 AAACTCTAAA-TTTCAA
1 AAACTCTAAACCTTC-A
*
6185715 AAACACTAAACCTTCA
1 AAACTCTAAACCTTCA
*
6185731 AAACCCTAAA
1 AAACTCTAAA
6185741 ACTCCAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 3 0.09
16 29 0.83
17 3 0.09
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACTCTAAACCTTCA
Found at i:6185729 original size:32 final size:32
Alignment explanation
Indices: 6185683--6185779 Score: 101
Period size: 32 Copynumber: 3.1 Consensus size: 32
6185673 CGAAACCCTT
* *
6185683 AAACTCTAAACCTTCTAAACTCTAAATTTCAA
1 AAACACTAAACCTTCTAAACCCTAAATTTCAA
* ** *
6185715 AAACACTAAACCTTCAAAACCCTAAAACTCCA
1 AAACACTAAACCTTCTAAACCCTAAATTTCAA
*
6185747 AATCA-TAAAACC--CTAAACCCTAAATTTCAA
1 AAACACT-AAACCTTCTAAACCCTAAATTTCAA
6185777 AAA
1 AAA
6185780 TCGTAAAACT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
30 16 0.31
31 1 0.02
32 35 0.67
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (32 bp):
AAACACTAAACCTTCTAAACCCTAAATTTCAA
Found at i:6185770 original size:46 final size:46
Alignment explanation
Indices: 6185715--6185803 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
6185705 TAAATTTCAA
*
6185715 AAACACTAAACCTTC-AAAACCCTAAAACTCCAAATCATAAAACCCT
1 AAACACTAAA-CTTCAAAAACCCTAAAACTCCAAACCATAAAACCCT
* * * * *
6185761 AAACCCTAAATTTCAAAAATCGTAAAACTCCAAACCTTAAAAC
1 AAACACTAAACTTCAAAAACCCTAAAACTCCAAACCATAAAAC
6185804 TTTTTAAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
45 3 0.08
46 33 0.92
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (46 bp):
AAACACTAAACTTCAAAAACCCTAAAACTCCAAACCATAAAACCCT
Found at i:6185851 original size:38 final size:38
Alignment explanation
Indices: 6185809--6185962 Score: 145
Period size: 38 Copynumber: 4.1 Consensus size: 38
6185799 AAAACTTTTT
* *
6185809 AAACTAAAAAATCAAAACCTTAAACCTTCAAAACCCTA
1 AAACTCAAAAATCAAAACCTTAAACCCTCAAAACCCTA
* ** * **
6185847 AAACTCCAAACCCTAAACCTTAAA-TTTCAAAACCCTCA
1 AAACTCAAAAATCAAAACCTTAAACCCTCAAAACCCT-A
* *
6185885 AAACTCAAAAATCAAAACCTTAAACCCTCAATA-CCTT
1 AAACTCAAAAATCAAAACCTTAAACCCTCAAAACCCTA
*
6185922 AAACTTCAAAACTCTAAAA-CTTGAAACCCT-AAAACCCTA
1 AAAC-TCAAAAATC-AAAACCTT-AAACCCTCAAAACCCTA
6185961 AA
1 AA
6185963 CCCTCAAACC
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
37 15 0.16
38 57 0.61
39 21 0.23
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (38 bp):
AAACTCAAAAATCAAAACCTTAAACCCTCAAAACCCTA
Found at i:6185858 original size:31 final size:29
Alignment explanation
Indices: 6185783--6185867 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
6185773 TCAAAAATCG
* **
6185783 TAAAACTCCAAACCTTAAAACTTTTTAAAC
1 TAAAACTCCAAACCTT-AAACCTTCAAAAC
* *
6185813 TAAAAAATCAAAACCTTAAACCTTCAAAACCC
1 T-AAAACTCCAAACCTTAAACCTTCAAAA--C
*
6185845 TAAAACTCCAAACCCTAAACCTT
1 TAAAACTCCAAACCTTAAACCTT
6185868 AAATTTCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
30 10 0.23
31 32 0.73
32 2 0.05
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (29 bp):
TAAAACTCCAAACCTTAAACCTTCAAAAC
Found at i:6185879 original size:22 final size:22
Alignment explanation
Indices: 6185854--6185915 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
6185844 CTAAAACTCC
* **
6185854 AAACCCTAAACCTTAAATTTCA
1 AAACCCTAAACCTCAAAAATCA
*
6185876 AAACCCTCAAAACTCAAAAATCA
1 AAACCCT-AAACCTCAAAAATCA
*
6185899 AAACCTTAAACCCTCAA
1 AAACCCTAAA-CCTCAA
6185916 TACCTTAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCCTAAACCTCAAAAATCA
Found at i:6185931 original size:54 final size:53
Alignment explanation
Indices: 6185820--6185972 Score: 159
Period size: 54 Copynumber: 2.9 Consensus size: 53
6185810 AACTAAAAAA
* * * *
6185820 TCAAAACCTTAAACCTTCAAAACCCTAAAACTCC-AAACCCT-AAACCTTAAATT
1 TCAAAACCCTAAAAC-TCAAAAACCTAAAAC-CCTAAACCCTCAAACCTTAAACT
* *
6185873 TCAAAACCCTCAAAACTCAAAAATC-AAAACCTTAAACCCTCAATACCTTAAACT
1 TCAAAACCCT-AAAACTCAAAAACCTAAAACCCTAAACCCTCAA-ACCTTAAACT
* ** *
6185927 TCAAAACTCTAAAACTTGAAACCCTAAAACCCTAAACCCTCAAACC
1 TCAAAACCCTAAAACTCAAAAACCTAAAACCCTAAACCCTCAAACC
6185973 CCTAAAATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
51 1 0.01
52 12 0.14
53 31 0.37
54 39 0.47
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (53 bp):
TCAAAACCCTAAAACTCAAAAACCTAAAACCCTAAACCCTCAAACCTTAAACT
Found at i:6185941 original size:16 final size:16
Alignment explanation
Indices: 6185683--6185956 Score: 69
Period size: 15 Copynumber: 17.8 Consensus size: 16
6185673 CGAAACCCTT
* *
6185683 AAACTCTAAACCTTCT
1 AAACTCTAAAACTTCA
*
6185699 AAACTCT-AAATTTCAA
1 AAACTCTAAAACTTC-A
* *
6185715 AAACACTAAACCTTCA
1 AAACTCTAAAACTTCA
* *
6185731 AAACCCTAAAAC-TCC
1 AAACTCTAAAACTTCA
* *
6185746 AAA-TCATAAAAC-CCT
1 AAACTC-TAAAACTTCA
* *
6185761 AAACCCT-AAATTTCA
1 AAACTCTAAAACTTCA
* *
6185776 AAAATCGTAAAACTCCA
1 AAACTC-TAAAACTTCA
* **
6185793 AACCT-TAAAACTTTTT
1 AAACTCTAAAAC-TTCA
**
6185809 AAA--CTAAAAAATCA
1 AAACTCTAAAACTTCA
*
6185823 AAAC-CTTAAACCTTCA
1 AAACTC-TAAAACTTCA
* *
6185839 AAACCCTAAAAC-TCC
1 AAACTCTAAAACTTCA
* *
6185854 AAACCCTAAACCTT-A
1 AAACTCTAAAACTTCA
** *
6185869 AATTTC-AAAACCCTCA
1 AAACTCTAAAA-CTTCA
*
6185885 AAACTC-AAAA-ATCA
1 AAACTCTAAAACTTCA
* *
6185899 AAAC-CTTAAACCCTCA
1 AAACTC-TAAAACTTCA
* *
6185915 ATAC-CTTAAACTTCA
1 AAACTCTAAAACTTCA
*
6185930 AAACTCTAAAACTT-G
1 AAACTCTAAAACTTCA
*
6185945 AAACCCTAAAAC
1 AAACTCTAAAAC
6185957 CCTAAACCCT
Statistics
Matches: 184, Mismatches: 55, Indels: 39
0.66 0.20 0.14
Matches are distributed among these distances:
13 1 0.01
14 18 0.10
15 80 0.43
16 70 0.38
17 15 0.08
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.23
Consensus pattern (16 bp):
AAACTCTAAAACTTCA
Found at i:6185963 original size:15 final size:16
Alignment explanation
Indices: 6185945--6185978 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6185935 CTAAAACTTG
6185945 AAACCCT-AAAACCCT
1 AAACCCTCAAAACCCT
*
6185960 AAACCCTCAAACCCCT
1 AAACCCTCAAAACCCT
6185976 AAA
1 AAA
6185979 ATTTCAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (16 bp):
AAACCCTCAAAACCCT
Found at i:6186077 original size:15 final size:15
Alignment explanation
Indices: 6186057--6186108 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
6186047 GACCTGAAAC
6186057 CCTAAAACCATAAAA-
1 CCTAAAA-CATAAAAT
*
6186072 CCTAAAATCTTAAAAT
1 CCTAAAA-CATAAAAT
6186088 CCTAAAACA-AAAAT
1 CCTAAAACATAAAAT
6186102 CCTAAAA
1 CCTAAAA
6186109 TCTCAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.36
15 14 0.42
16 7 0.21
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (15 bp):
CCTAAAACATAAAAT
Found at i:6186108 original size:30 final size:30
Alignment explanation
Indices: 6186057--6186141 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
6186047 GACCTGAAAC
6186057 CCTAAAACCATAAAA-CCTAAAATCTTAAAAT
1 CCTAAAA-CA-AAAATCCTAAAATCTTAAAAT
*
6186088 CCTAAAACAAAAATCCTAAAATCTCAAAAT
1 CCTAAAACAAAAATCCTAAAATCTTAAAAT
* * *
6186118 GCTCAAAC-AAGATCCT-AAATCTTA
1 CCTAAAACAAAAATCCTAAAATCTTA
6186142 TAAAGTATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
28 7 0.15
29 11 0.23
30 23 0.48
31 7 0.15
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.22
Consensus pattern (30 bp):
CCTAAAACAAAAATCCTAAAATCTTAAAAT
Found at i:6186109 original size:8 final size:8
Alignment explanation
Indices: 6186057--6186110 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
6186047 GACCTGAAAC
6186057 CCTAAAA-
1 CCTAAAAT
6186064 CCATAAAA-
1 CC-TAAAAT
6186072 CCTAAAAT
1 CCTAAAAT
*
6186080 CTTAAAAT
1 CCTAAAAT
6186088 CCTAAAA-
1 CCTAAAAT
*
6186095 -CAAAAAT
1 CCTAAAAT
6186102 CCTAAAAT
1 CCTAAAAT
6186110 C
1 C
6186111 TCAAAATGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 5 0.13
7 7 0.18
8 27 0.69
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (8 bp):
CCTAAAAT
Found at i:6202516 original size:14 final size:13
Alignment explanation
Indices: 6202499--6202536 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
6202489 AAATAGGTTA
6202499 AAATAAATAAAAT
1 AAATAAATAAAAT
6202512 CAAATAAATAAAAT
1 -AAATAAATAAAAT
6202526 -AA-AAATAAAAT
1 AAATAAATAAAAT
6202537 GGAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 9 0.38
12 2 0.08
14 13 0.54
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:6202860 original size:11 final size:11
Alignment explanation
Indices: 6202844--6202878 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
6202834 AGATTCTGAG
6202844 AATCTCATCGA
1 AATCTCATCGA
*
6202855 AATCTCATCAA
1 AATCTCATCGA
6202866 AATCTCATCGA
1 AATCTCATCGA
6202877 AA
1 AA
6202879 ACTTTAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (11 bp):
AATCTCATCGA
Found at i:6213740 original size:34 final size:33
Alignment explanation
Indices: 6213695--6213765 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 33
6213685 ATAAAACCAA
*
6213695 AAAATAGGAAAATAGGTTAAAAATAAAATAAAAT-
1 AAAATAAGAAAATAGGTT-AAAAT-AAATAAAATC
6213729 AAAATAAGAAAATAGGTTAAAATAAATAAAATC
1 AAAATAAGAAAATAGGTTAAAATAAATAAAATC
6213762 AAAA
1 AAAA
6213766 AATAAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
32 9 0.26
33 9 0.26
34 17 0.49
ACGTcount: A:0.69, C:0.01, G:0.10, T:0.20
Consensus pattern (33 bp):
AAAATAAGAAAATAGGTTAAAATAAATAAAATC
Found at i:6213749 original size:18 final size:18
Alignment explanation
Indices: 6213695--6213753 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
6213685 ATAAAACCAA
*
6213695 AAAATAGGAAAATAGGTT
1 AAAATAAGAAAATAGGTT
* ***
6213713 -AAA-AATAAAATAAAAT
1 AAAATAAGAAAATAGGTT
6213729 AAAATAAGAAAATAGGTT
1 AAAATAAGAAAATAGGTT
6213747 AAAATAA
1 AAAATAA
6213754 ATAAAATCAA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
16 8 0.27
17 6 0.20
18 16 0.53
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (18 bp):
AAAATAAGAAAATAGGTT
Found at i:6213773 original size:23 final size:22
Alignment explanation
Indices: 6213713--6213777 Score: 60
Period size: 27 Copynumber: 2.7 Consensus size: 22
6213703 AAAATAGGTT
6213713 AAAAAT-AAAATAAAATAAAATA
1 AAAAATAAAAAT-AAATAAAATA
6213735 AGAAAATAGGTTAAAATAAATAAAATCA
1 A-AAAATA----AAAATAAATAAAAT-A
6213763 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
6213778 ATGGAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
22 1 0.03
23 13 0.36
27 15 0.42
28 7 0.19
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (22 bp):
AAAAATAAAAATAAATAAAATA
Found at i:6216193 original size:332 final size:335
Alignment explanation
Indices: 6215382--6216315 Score: 937
Period size: 332 Copynumber: 2.8 Consensus size: 335
6215372 AACATCTTTT
* * * ** * * *
6215382 TTTTTATGTTTCAATATTTTTTCAAAGTTCTTCCATGATAATAGAGG--CTTATCAA-TATAAAA
1 TTTTTGTGTTTCAATCTTTTTTGAAAGACCTTCCATAATAAT-G-GGAACTTGTCAATTATAAAG
* * * *
6215444 GACACAACAAATGCTTCATCCA-TCTCTATCCTATATTG-TTGAAACTTATTCAAGATAGT-TTC
64 GACA-AACAAATACTTTATCCATTC-CTATCTTGTATTGTTTG-AACTTATTCAAGATAGTCTT-
* * *
6215506 AATTTCAAGAAATTGATT-TGTGAAAGGTTTTGAATCAGTCATTTTATAAATGTTCCATCTTGAA
125 AATTTCAAGAAATTGATTCTATGAAAGGTTTTGAATCAGTCATTTTGTACATGTTCCATCTTGAA
* * * *
6215570 ACTTGGAACTTTTTAAATGTAGCATCTTTTTTCATGTAT-CTCACGTCCAACTTATCCCATACCT
190 ACTAGAAAC-TTTTAAATGTAGCATCTTTTTTCATGT-TCCTTACATCCAACTTATCCCATA-C-
* * * * * * ** * * *
6215634 TTTTTTTGTCGTTGTGCATGTAATTTAGGTATCAAATAGAACTCTTCTAAATGAAGATGACTTGC
251 TTCTTTTGTCGATATGCATGCAATGTAAGTATCAAATAGAACTCTTCTAAACAAAAAAGACATGC
* * *
6215699 AAGCTCTTCAAAGTTAACTTATTCA
316 AA-----TAAAAATTAACATATTCA
* * * * * *
6215724 TTTTTGTGTTTTAATGTTTTTTTAAAGTCCTTCCATAATGATGGGAACTTGTCAATTATATAGGA
1 TTTTTGTGTTTCAATCTTTTTTGAAAGACCTTCCATAATAATGGGAACTTGTCAATTATAAAGGA
* * * * *
6215789 CATAACAAATACTTTATCCATTTCTATCTTGTATTGTTTGAACTTATTTAAAATAGTCTAAATGT
66 CA-AACAAATACTTTATCCATTCCTATCTTGTATTGTTTGAACTTATTCAAGATAGTCTTAATTT
* * * *
6215854 CAAGAAATTG-TTCTATGAATGGTTCTAAATCAATCATTTTGTACATGTTCCATCTTGAAACTAG
130 CAAGAAATTGATTCTATGAAAGGTTTTGAATCAGTCATTTTGTACATGTTCCATCTTGAAACTAG
* * *
6215918 AAACTTTTAGATGTAGCATCTTTTTTCATATTCCTTACATTCAACTTATCCCATACTTCTTTTGT
195 AAACTTTTAAATGTAGCATCTTTTTTCATGTTCCTTACATCCAACTTATCCCATACTTCTTTTGT
* * * *
6215983 CGATATGCATGCAATGTAAGTATCAAATATACCTTTTCTAAACAAAAAAGACATGTAA-AAAAAT
260 CGATATGCATGCAATGTAAGTATCAAATAGAACTCTTCTAAACAAAAAAGACATGCAATAAAAAT
* *
6216047 TAACATCTTCC
325 TAACATATTCA
** *
6216058 TTTTTGTGTTTCAATCTTTTATTGAAA-ACCTTCTGTGATAAT-GGAAGCTTGTCAATTATAAAG
1 TTTTTGTGTTTCAATCTTTT-TTGAAAGACCTTCCATAATAATGGGAA-CTTGTCAATTATAAAG
*
6216121 GAC-AACAACA-ACTTTATCC-TTCCCTATCTTGTATTGTTTGAACTTATTCAAGATACTCTTAA
64 GACAAACAA-ATACTTTATCCATT-CCTATCTTGTATTGTTTGAACTTATTCAAGATAGTCTTAA
* * * *
6216183 TTTCAAGAAATTGATTC-ATGAACGATTTTGAATTAGTCATTTTGTACATTTTCCATCTTGAAAC
127 TTTCAAGAAATTGATTCTATGAAAGGTTTTGAATCAGTCATTTTGTACATGTTCCATCTTGAAAC
* * * * *
6216247 TAGAAACTTGTCAAATGTAGCATTTTTTTTCATGTACCTTGCATCCAACTTATCCCATTCTTCTT
192 TAGAAACTT-TTAAATGTAGCATCTTTTTTCATGTTCCTTACATCCAACTTATCCCATACTTCTT
6216312 TTGT
256 TTGT
6216316 TGATGTTTAT
Statistics
Matches: 494, Mismatches: 84, Indels: 37
0.80 0.14 0.06
Matches are distributed among these distances:
331 2 0.00
332 110 0.22
333 59 0.12
334 58 0.12
335 5 0.01
340 54 0.11
341 3 0.01
342 88 0.18
343 110 0.22
344 5 0.01
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (335 bp):
TTTTTGTGTTTCAATCTTTTTTGAAAGACCTTCCATAATAATGGGAACTTGTCAATTATAAAGGA
CAAACAAATACTTTATCCATTCCTATCTTGTATTGTTTGAACTTATTCAAGATAGTCTTAATTTC
AAGAAATTGATTCTATGAAAGGTTTTGAATCAGTCATTTTGTACATGTTCCATCTTGAAACTAGA
AACTTTTAAATGTAGCATCTTTTTTCATGTTCCTTACATCCAACTTATCCCATACTTCTTTTGTC
GATATGCATGCAATGTAAGTATCAAATAGAACTCTTCTAAACAAAAAAGACATGCAATAAAAATT
AACATATTCA
Found at i:6221020 original size:12 final size:12
Alignment explanation
Indices: 6221003--6221028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6220993 TTTGGTGAGA
6221003 TTTCTCTAATTG
1 TTTCTCTAATTG
6221015 TTTCTCTAATTG
1 TTTCTCTAATTG
6221027 TT
1 TT
6221029 GATTAGCTCT
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:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (12 bp):
TTTCTCTAATTG
Found at i:6223204 original size:134 final size:132
Alignment explanation
Indices: 6222947--6223206 Score: 351
Period size: 132 Copynumber: 2.0 Consensus size: 132
6222937 TCTTTCAAAT
* * * * *
6222947 GCTACTAAATAAGTTACGTTTTTATGAAAAAGATGCTGTTGGTTTGGTGGCATTTGTAACTAAAA
1 GCTACTAAATAAGTGACATTTTTATGAAAAAAATGCTGTTGCTTTGGTGGCATTTATAACTAAAA
* * * * *
6223012 TCTGCTACTTTAGAGGCATTTGTATATGAAAATGTCTCTATATTAGTGGCGTTTGTATCTTGGAG
66 TCTGCTACTTTAGAGACATTTATATATAAAAATGCCTCTATATTAGCGGCGTTTGTATCTTGGAG
6223077 AC
131 AC
* * *
6223079 GCTACTAATTTAGTGACATTTTTTTGAAAAAAATGCTGTTGCTTTGGTGGCATTTATAACTGAAA
1 GCTACTAAATAAGTGACATTTTTATGAAAAAAATGCTGTTGCTTTGGTGGCATTTATAACT-AAA
* *
6223144 CTATC-GCTACTTTAGAGACATTTATATCTAAAAATGCCTCTATATTAGCGGTGTTTGTATCTT
65 --ATCTGCTACTTTAGAGACATTTATATATAAAAATGCCTCTATATTAGCGGCGTTTGTATCTT
6223207 TTAAATGCCA
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
132 53 0.48
133 3 0.03
134 51 0.46
135 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (132 bp):
GCTACTAAATAAGTGACATTTTTATGAAAAAAATGCTGTTGCTTTGGTGGCATTTATAACTAAAA
TCTGCTACTTTAGAGACATTTATATATAAAAATGCCTCTATATTAGCGGCGTTTGTATCTTGGAG
AC
Found at i:6237280 original size:24 final size:23
Alignment explanation
Indices: 6237244--6237289 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
6237234 AAATTAAATT
6237244 AATAGATTTATAAATTTATGAAC
1 AATAGATTTATAAATTTATGAAC
* *
6237267 AATATATTCTATAATTTTATGAA
1 AATAGATT-TATAAATTTATGAA
6237290 ATTTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (23 bp):
AATAGATTTATAAATTTATGAAC
Found at i:6238674 original size:21 final size:22
Alignment explanation
Indices: 6238648--6238688 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6238638 TTAACTTATG
*
6238648 AAACTT-ATTAACATGCAAATT
1 AAACTTAACTAACATGCAAATT
6238669 AAACTTAACTAACATGCAAA
1 AAACTTAACTAACATGCAAA
6238689 AACATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (22 bp):
AAACTTAACTAACATGCAAATT
Found at i:6239212 original size:18 final size:19
Alignment explanation
Indices: 6239185--6239222 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6239175 AACAAAATAG
6239185 AAACTAAAATT-AACTTGA
1 AAACTAAAATTGAACTTGA
*
6239203 AAACTTAAATTGAACTTGA
1 AAACTAAAATTGAACTTGA
6239222 A
1 A
6239223 CAAATCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (19 bp):
AAACTAAAATTGAACTTGA
Found at i:6239218 original size:19 final size:18
Alignment explanation
Indices: 6239185--6239245 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
6239175 AACAAAATAG
6239185 AAACTAAAATTAACTTGA
1 AAACTAAAATTAACTTGA
*
6239203 AAACTTAAATTGAACTTGAA
1 AAACTAAAATT-AACTTG-A
* *
6239223 CAAATCAAAAAATAACTTGA
1 -AAA-CTAAAATTAACTTGA
6239243 AAA
1 AAA
6239246 AGCTAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 2 0.06
21 9 0.26
22 5 0.14
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (18 bp):
AAACTAAAATTAACTTGA
Found at i:6239253 original size:21 final size:21
Alignment explanation
Indices: 6239215--6239255 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6239205 ACTTAAATTG
*
6239215 AACTTGAACAAATCAAAAAAT
1 AACTTGAACAAAGCAAAAAAT
6239236 AACTTGAA-AAAGCTAAAAAA
1 AACTTGAACAAAGC-AAAAAA
6239256 AACAAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.17
Consensus pattern (21 bp):
AACTTGAACAAAGCAAAAAAT
Found at i:6245074 original size:14 final size:13
Alignment explanation
Indices: 6245055--6245136 Score: 55
Period size: 14 Copynumber: 6.2 Consensus size: 13
6245045 AAAATTTCTC
6245055 AAAAATAAAACTAA
1 AAAAATAAAACT-A
* *
6245069 AAAAATTAAAAATT
1 AAAAA-TAAAACTA
*
6245083 AAAAATAAATGCTA
1 AAAAATAAA-ACTA
6245097 AAAAATAAAA-TA
1 AAAAATAAAACTA
6245109 AAATCAA-AAAA-T-
1 AAA--AATAAAACTA
*
6245121 AAAAATAAAAATA
1 AAAAATAAAACTA
6245134 AAA
1 AAA
6245137 TGAAAAAAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
10 2 0.04
11 4 0.07
12 9 0.16
13 12 0.22
14 22 0.40
15 6 0.11
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (13 bp):
AAAAATAAAACTA
Found at i:6245106 original size:19 final size:18
Alignment explanation
Indices: 6245067--6245129 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
6245057 AAATAAAACT
* *
6245067 AAAA-AAATTAAAAATTA
1 AAAATAAATCAAAAAATA
6245084 AAAATAAATGCTAAAAAAT-
1 AAAATAAAT-C-AAAAAATA
6245103 AAAATAAAATCAAAAAATA
1 AAAAT-AAATCAAAAAATA
6245122 AAAATAAA
1 AAAATAAA
6245130 AATAAAATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 4 0.10
18 14 0.36
19 11 0.28
20 10 0.26
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAATAAATCAAAAAATA
Found at i:6245123 original size:25 final size:25
Alignment explanation
Indices: 6245097--6245144 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
6245087 ATAAATGCTA
6245097 AAAAAT-AAAATAAAATCAAAAAAT
1 AAAAATAAAAATAAAATCAAAAAAT
*
6245121 AAAAATAAAAATAAAATGAAAAAA
1 AAAAATAAAAATAAAATCAAAAAA
6245145 GGAAACCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (25 bp):
AAAAATAAAAATAAAATCAAAAAAT
Found at i:6245142 original size:6 final size:6
Alignment explanation
Indices: 6245055--6245136 Score: 51
Period size: 6 Copynumber: 12.7 Consensus size: 6
6245045 AAAATTTCTC
* **
6245055 AAAAAT AAAACTAA AAAAATT AAAAATT AAAAAT AAATGCT AAAAA- ATAAAAT
1 AAAAAT AAAA--AT AAAAA-T AAAAA-T AAAAAT AAA-AAT AAAAAT A-AAAAT
6245108 -AAAAT CAAAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT --AAAAAT AAAAAT AAAAAT AAAA
6245137 TGAAAAAAGG
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
5 6 0.10
6 29 0.48
7 16 0.26
8 10 0.16
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:6245144 original size:19 final size:19
Alignment explanation
Indices: 6245070--6245130 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
6245060 TAAAACTAAA
* *
6245070 AAAATTAAAAATTAAAAAT
1 AAAATCAAAAAATAAAAAT
6245089 -AAATGCTAAAAAAT-AAAAT
1 AAAAT-C-AAAAAATAAAAAT
6245108 AAAATCAAAAAATAAAAAT
1 AAAATCAAAAAATAAAAAT
6245127 AAAA
1 AAAA
6245131 ATAAAATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 11 0.31
19 15 0.42
20 10 0.28
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAATCAAAAAATAAAAAT
Found at i:6245940 original size:16 final size:16
Alignment explanation
Indices: 6245919--6245949 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6245909 AAAAAATAAT
*
6245919 AATATAATAGTAGTAG
1 AATATAATAATAGTAG
6245935 AATATAATAATAGTA
1 AATATAATAATAGTA
6245950 ATAGTAATAT
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:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (16 bp):
AATATAATAATAGTAG
Found at i:6245954 original size:22 final size:19
Alignment explanation
Indices: 6245917--6245971 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
6245907 AAAAAAAATA
*
6245917 ATAATATAATAGTAGTAGAAT
1 ATAATATAATAATAGT--AAT
*
6245938 ATAATAATAGTAATAGTAAT
1 ATAAT-ATAATAATAGTAAT
6245958 ATAATATAATAATA
1 ATAATATAATAATA
6245972 ATTATTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 5 0.17
22 9 0.30
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATAGTAAT
Found at i:6246837 original size:57 final size:57
Alignment explanation
Indices: 6246749--6246904 Score: 176
Period size: 57 Copynumber: 2.7 Consensus size: 57
6246739 AAAATTTCGA
* * *
6246749 AAAAAGTT-AAAGAATTAATTTTCCTTAAATAAAAAATAATT-AAAAAAA-TGTTTTAAG
1 AAAAAGTTGAAAGTATCAATTTT-CTTAAAT-AAAAA-AATTAAAAAAAAGGGTTTTAAG
*
6246806 -AAAAGTTGAAAGTATCAATTTATCTTAAATAAAAAAATTAAAAAAAAGGGTTTTATG
1 AAAAAGTTGAAAGTATCAATTT-TCTTAAATAAAAAAATTAAAAAAAAGGGTTTTAAG
*
6246863 AAAAAGTTGAAAGTATCAATTTTTCTTAGAAAAATAAAAATT
1 AAAAAGTTGAAAGTATCAA-TTTTCTTA-AATAA-AAAAATT
6246905 TTTCAAAAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
55 4 0.05
56 19 0.22
57 25 0.29
58 24 0.28
59 7 0.08
60 7 0.08
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (57 bp):
AAAAAGTTGAAAGTATCAATTTTCTTAAATAAAAAAATTAAAAAAAAGGGTTTTAAG
Found at i:6251033 original size:7 final size:7
Alignment explanation
Indices: 6251021--6251093 Score: 59
Period size: 6 Copynumber: 10.7 Consensus size: 7
6251011 GATAAAGTAA
6251021 AAAAATG
1 AAAAATG
6251028 AAAAAT-
1 AAAAATG
6251034 AAAAATTG
1 AAAAA-TG
6251042 AAAAAATG
1 -AAAAATG
6251050 -AAAA--
1 AAAAATG
6251054 AAAAAT-
1 AAAAATG
6251060 AAAAAT-
1 AAAAATG
6251066 AAAAATG
1 AAAAATG
*
6251073 AGAAATGTG
1 A-AAA-ATG
6251082 AAAAATG
1 AAAAATG
6251089 AAAAA
1 AAAAA
6251094 AAAAGGAGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
5 4 0.07
6 21 0.38
7 15 0.27
8 8 0.14
9 8 0.14
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:6251046 original size:9 final size:8
Alignment explanation
Indices: 6251020--6251094 Score: 52
Period size: 8 Copynumber: 9.8 Consensus size: 8
6251010 GGATAAAGTA
6251020 AAAAAATG
1 AAAAAATG
6251028 -AAAAAT-
1 AAAAAATG
*
6251034 AAAAATTG
1 AAAAAATG
6251042 AAAAAATG
1 AAAAAATG
**
6251050 AAAAAAAA
1 AAAAAATG
6251058 ATAAAAAT-
1 A-AAAAATG
6251066 -AAAAATG
1 AAAAAATG
*
6251073 -AGAAATG
1 AAAAAATG
*
6251080 TGAAAAATG
1 -AAAAAATG
6251089 AAAAAA
1 AAAAAA
6251095 AAAGGAGAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 6 0.11
7 17 0.32
8 19 0.36
9 11 0.21
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.15
Consensus pattern (8 bp):
AAAAAATG
Found at i:6251086 original size:39 final size:39
Alignment explanation
Indices: 6251021--6251097 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
6251011 GATAAAGTAA
6251021 AAAAATGAAAAATAAAAATTGAAAAAATGAAAAAAAAAT
1 AAAAATGAAAAATAAAAATTGAAAAAATGAAAAAAAAAT
*
6251060 AAAAAT-AAAAATGAGAAATGTG-AAAAATGAAAAAAAAA
1 AAAAATGAAAAAT-AAAAAT-TGAAAAAATGAAAAAAAAA
6251098 GGAGAGAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
38 6 0.17
39 27 0.77
40 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.14
Consensus pattern (39 bp):
AAAAATGAAAAATAAAAATTGAAAAAATGAAAAAAAAAT
Found at i:6252321 original size:21 final size:21
Alignment explanation
Indices: 6252297--6252355 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 21
6252287 AGAATCTTTA
6252297 GAATTTTGAATGTGAACCCAT
1 GAATTTTGAATGTGAACCCAT
* **
6252318 GAATTTTTCAAATGTGAACCTTT
1 GAA-TTTT-GAATGTGAACCCAT
*
6252341 GAATTTAG-ATGTGAA
1 GAATTTTGAATGTGAA
6252356 ACTCTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 7 0.23
23 14 0.45
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (21 bp):
GAATTTTGAATGTGAACCCAT
Found at i:6252636 original size:17 final size:17
Alignment explanation
Indices: 6252608--6252700 Score: 78
Period size: 17 Copynumber: 5.3 Consensus size: 17
6252598 TGTGAATCTT
*
6252608 TGAATCTTAAATCTTTG
1 TGAATATTAAATCTTTG
* *
6252625 TGCATGTTAAATCTTTG
1 TGAATATTAAATCTTTG
* *
6252642 TGAATATTGAATCTTTT
1 TGAATATTAAATCTTTG
* * **
6252659 TGAATCTTGAATCAAATG
1 TGAATATTAAATC-TTTG
6252677 TGAATATTTGAAATCTTTG
1 TGAATA-TT-AAATCTTTG
6252696 TGAAT
1 TGAAT
6252701 CTTGAATCTC
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
17 40 0.68
18 6 0.10
19 9 0.15
20 4 0.07
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (17 bp):
TGAATATTAAATCTTTG
Found at i:6252700 original size:37 final size:35
Alignment explanation
Indices: 6252640--6252708 Score: 111
Period size: 37 Copynumber: 1.9 Consensus size: 35
6252630 GTTAAATCTT
*
6252640 TGTGAATATTGAATCTTTTTGAATCTTGAATCAAA
1 TGTGAATATTGAATCTTTGTGAATCTTGAATCAAA
6252675 TGTGAATATTTGAAATCTTTGTGAATCTTGAATC
1 TGTGAATA-TTG-AATCTTTGTGAATCTTGAATC
6252709 TCTTGCAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 8 0.26
36 3 0.10
37 20 0.65
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (35 bp):
TGTGAATATTGAATCTTTGTGAATCTTGAATCAAA
Found at i:6253483 original size:37 final size:37
Alignment explanation
Indices: 6253433--6253509 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
6253423 TGCTTAGTTT
*
6253433 TTTTTATTTTAATTGAAATTCTTTATTCATCATTTTA
1 TTTTTAATTTAATTGAAATTCTTTATTCATCATTTTA
6253470 TTTTTAATTTAATTGAAATTCTTTATTCATCATTTTA
1 TTTTTAATTTAATTGAAATTCTTTATTCATCATTTTA
6253507 TTT
1 TTT
6253510 AAACCCTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (37 bp):
TTTTTAATTTAATTGAAATTCTTTATTCATCATTTTA
Found at i:6254785 original size:58 final size:56
Alignment explanation
Indices: 6254711--6254863 Score: 173
Period size: 58 Copynumber: 2.6 Consensus size: 56
6254701 AAATTTTGGA
**
6254711 AAAAGTTAAA-TAATCAATTTTTCTTATAAATAAAATTTTCAAAAAAAAAGTTTTAAGG
1 AAAAGTTAAAGT-ATCAATTTTTCTTA-AAATAAAATAAT-AAAAAAAAAGTTTTAAGG
* **
6254769 AAAAGTTAAAGTATCAATTTTTCTTAAATATAAAAATAATAAAAAGATGGTTTTAAGG
1 AAAAGTTAAAGTATCAATTTTTCTTAAA-AT-AAAATAATAAAAAAAAAGTTTTAAGG
*
6254827 AAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAA
1 AAAAGTT-AAAGTATCAATTTTTCTT--AAAATAAAA
6254864 AAATTTTTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
57 2 0.02
58 48 0.58
59 28 0.34
60 2 0.02
61 3 0.04
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (56 bp):
AAAAGTTAAAGTATCAATTTTTCTTAAAATAAAATAATAAAAAAAAAGTTTTAAGG
Found at i:6254885 original size:73 final size:73
Alignment explanation
Indices: 6254808--6255002 Score: 225
Period size: 73 Copynumber: 2.6 Consensus size: 73
6254798 ATAAAAATAA
6254808 TAAAAAGATGGTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAAAAATTTTT-
1 TAAAAAGAT-GTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAAAATTTTTC
6254872 AAAAA-A-ATT
63 AAAAATATATT
* * * *
6254881 TAAAAAAATGTTTTGAAAGAAAAGTTGAAAGTATTAATTTTCCTTAGAAAGTAAAAATTTTTCAA
1 TAAAAAGATGTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAAATTTTTCAA
6254946 AAATATATT
65 AAATATATT
* * * * *
6254955 TCAAAAGAAACGTCTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTA
1 T-AAAA-AGATGT-TTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA
6255003 AATAAAAATC
Statistics
Matches: 105, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
71 10 0.10
72 10 0.10
73 43 0.41
74 4 0.04
75 4 0.04
76 31 0.30
77 3 0.03
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (73 bp):
TAAAAAGATGTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAAATTTTTCAAA
AATATATT
Found at i:6256715 original size:26 final size:26
Alignment explanation
Indices: 6256679--6256730 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
6256669 ATTTATAGGT
*
6256679 GCATGAAATGGAATGTATGTACTATC
1 GCATGAAATGGAATGCATGTACTATC
6256705 GCATGAAATGGAATGCATGTACTATC
1 GCATGAAATGGAATGCATGTACTATC
6256731 TATTAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (26 bp):
GCATGAAATGGAATGCATGTACTATC
Found at i:6256818 original size:31 final size:27
Alignment explanation
Indices: 6256752--6256821 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
6256742 ATATGAAGTG
* *
6256752 GAATGCCTGTACTATCTATGTGCATGT
1 GAATGCATGTACTATCTATATGCATGT
*
6256779 -AATACATGTACTATCTATATGCATAGCAT
1 GAATGCATGTACTATCTATATGCAT-G--T
6256808 AGAATGCATGTACT
1 -GAATGCATGTACT
6256822 GACTTATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 21 0.62
27 1 0.03
29 1 0.03
31 11 0.32
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (27 bp):
GAATGCATGTACTATCTATATGCATGT
Found at i:6258894 original size:20 final size:20
Alignment explanation
Indices: 6258852--6258901 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
6258842 AGGTTTGTCA
* *
6258852 TTGGTTTAGGGTTTATGATT
1 TTGGTTTAGGATTTATGAGT
6258872 TTGGTCTTAGGATTTA-GAGT
1 TTGGT-TTAGGATTTATGAGT
6258892 TTGGGTTTAG
1 TT-GGTTTAG
6258902 AGCTTAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.16, C:0.02, G:0.32, T:0.50
Consensus pattern (20 bp):
TTGGTTTAGGATTTATGAGT
Found at i:6258902 original size:13 final size:13
Alignment explanation
Indices: 6258878--6259008 Score: 63
Period size: 13 Copynumber: 9.8 Consensus size: 13
6258868 GATTTTGGTC
6258878 TTAGGATTTAGAGT
1 TTAGG-TTTAGAGT
* *
6258892 TTGGGTTTAGAGC
1 TTAGGTTTAGAGT
*
6258905 TTAGGTTTAGGGT
1 TTAGGTTTAGAGT
*
6258918 TTAGGTTTTTG-GT
1 TTAGG-TTTAGAGT
* * *
6258931 TTACGATTAG-TT
1 TTAGGTTTAGAGT
6258943 TTAGGATTTATGA-T
1 TTAGG-TTTA-GAGT
**
6258957 TTAGGTTTTCTAGT
1 TTAGG-TTTAGAGT
*
6258971 TTGGGGTTTAGAGT
1 TT-AGGTTTAGAGT
*
6258985 TTAGGATTTTG-GT
1 TTAGG-TTTAGAGT
6258998 TTAGGGTTTAG
1 TTA-GGTTTAG
6259009 GGTTGGTTGG
Statistics
Matches: 88, Mismatches: 21, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
12 8 0.09
13 43 0.49
14 35 0.40
15 2 0.02
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.49
Consensus pattern (13 bp):
TTAGGTTTAGAGT
Found at i:6259030 original size:7 final size:7
Alignment explanation
Indices: 6258854--6259012 Score: 53
Period size: 7 Copynumber: 23.6 Consensus size: 7
6258844 GTTTGTCATT
6258854 GGTTTAG
1 GGTTTAG
*
6258861 GGTTTAT
1 GGTTTAG
* *
6258868 GATTT-T
1 GGTTTAG
6258874 GGTCTTAG
1 GGT-TTAG
*
6258882 GATTTAG
1 GGTTTAG
*
6258889 AGTTT-G
1 GGTTTAG
6258895 GGTTTAG
1 GGTTTAG
* *
6258902 AGCTTA-
1 GGTTTAG
6258908 GGTTTAG
1 GGTTTAG
6258915 GGTTTA-
1 GGTTTAG
**
6258921 GGTTTTT
1 GGTTTAG
6258928 GGTTTA-
1 GGTTTAG
* *
6258934 CGATTA-
1 GGTTTAG
*
6258940 GTTTTAG
1 GGTTTAG
* *
6258947 GATTTAT
1 GGTTTAG
*
6258954 GATTTAG
1 GGTTTAG
* **
6258961 GTTTTCT
1 GGTTTAG
* *
6258968 AGTTTGG
1 GGTTTAG
6258975 GGTTTAG
1 GGTTTAG
*
6258982 AGTTTAG
1 GGTTTAG
* *
6258989 GATTT-T
1 GGTTTAG
6258995 GGTTTAG
1 GGTTTAG
6259002 GGTTTAG
1 GGTTTAG
6259009 GGTT
1 GGTT
6259013 GGTTGGGGTT
Statistics
Matches: 108, Mismatches: 37, Indels: 14
0.68 0.23 0.09
Matches are distributed among these distances:
6 28 0.26
7 78 0.72
8 2 0.02
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.49
Consensus pattern (7 bp):
GGTTTAG
Found at i:6261708 original size:16 final size:16
Alignment explanation
Indices: 6261687--6261719 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6261677 TCTCTCACTC
*
6261687 TAAAAATCTGATCGGG
1 TAAAAAACTGATCGGG
6261703 TAAAAAACTGATCGGG
1 TAAAAAACTGATCGGG
6261719 T
1 T
6261720 TTTTTGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (16 bp):
TAAAAAACTGATCGGG
Found at i:6262981 original size:61 final size:62
Alignment explanation
Indices: 6262831--6262981 Score: 171
Period size: 61 Copynumber: 2.5 Consensus size: 62
6262821 ATTTTTTTTG
** * *
6262831 GATTATTCAAGATATTTTTAACCAAAAACATTTTAAATAATCCCTTACAAAAAATTAAATGG
1 GATTATTCAAGGCATTTTTAACCAAAAACATCTTAAATAATCCCTTACAAAAAATTAAATGA
* ** * * *
6262893 GATTATTCAAGGCGTTTTT-GGCAAAAAAATCTTACATAATCCCTTACAAAAAATTGAATGA
1 GATTATTCAAGGCATTTTTAACCAAAAACATCTTAAATAATCCCTTACAAAAAATTAAATGA
* *
6262954 -AGTTATTTAAGGCATTTTTAATCAAAAA
1 GA-TTATTCAAGGCATTTTTAACCAAAAA
6262982 TAGCTTTGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
60 1 0.01
61 50 0.68
62 22 0.30
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (62 bp):
GATTATTCAAGGCATTTTTAACCAAAAACATCTTAAATAATCCCTTACAAAAAATTAAATGA
Found at i:6263027 original size:63 final size:62
Alignment explanation
Indices: 6262956--6263129 Score: 187
Period size: 63 Copynumber: 2.8 Consensus size: 62
6262946 TTGAATGAAG
* *
6262956 TTATTTAAGGCATTTTTAATCAAAAATAGCTTTGAATAATCTCTTTTAA-TTTTTA-TAAAGGGA
1 TTATTTAAGACATTTTT-ATCAAAAATAGCCTTGAATAATCTCTTTTAATTTTTTATTAAA--GA
* * *
6263019 TTATTTAAGACATTTTTTTGTCAAAAAT-GCCTTAAATAATCTC-TTTAATTTTTTATTGAAGA
1 TTATTTAAGACA--TTTTTATCAAAAATAGCCTTGAATAATCTCTTTTAATTTTTTATTAAAGA
* *
6263081 TTATTTAAGACATATTTTATCAGAAATA-CCTTGAATAATCCCTTGTTAA
1 TTATTTAAGACAT-TTTTATCAAAAATAGCCTTGAATAATCTCTT-TTAA
6263130 CAACACTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
60 1 0.01
61 23 0.24
62 20 0.21
63 34 0.36
64 11 0.12
65 5 0.05
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (62 bp):
TTATTTAAGACATTTTTATCAAAAATAGCCTTGAATAATCTCTTTTAATTTTTTATTAAAGA
Found at i:6274915 original size:165 final size:164
Alignment explanation
Indices: 6274712--6275043 Score: 565
Period size: 165 Copynumber: 2.0 Consensus size: 164
6274702 TCTCAAGTAT
* * * *
6274712 ATTAATTAAATTTGTAAACTTTTTTTATCAAAATTAATCAAGCTCGCTTGAGTTTGATTCAAGTT
1 ATTAATTAAATTTATAAACTTTTTTTATCAAAATTAATCAAACTCGCTTGAGTTTAATTCAAATT
* * *
6274777 TTATCTCACGTTGAGTTTGAAAATTAAAAATAAAATTCGATGGCTTGAATTTTTGAATTAAGCTA
66 TTATCTCACATTGAATTTGAAAATTAAAAATAAAATTCGATGGCTTGAATTTTTGAATTAAACTA
*
6274842 AAATTTAAGTATTATATTATATCGACTCGATTTA
131 AAATTTAAGTATTATATTATATCAACTCGATTTA
*
6274876 ATTAATTAAATTTATAAATTTTTTTTTATCAAAATTAATCAAACTCGCTTGAGTTTAATTCAAAT
1 ATTAATTAAATTTATAAA-CTTTTTTTATCAAAATTAATCAAACTCGCTTGAGTTTAATTCAAAT
*
6274941 TTTATCTCCCATTGAATTTGAAAATTAAAAATAAAATTCGATGGCTTGAATTTTTGAATTAAACT
65 TTTATCTCACATTGAATTTGAAAATTAAAAATAAAATTCGATGGCTTGAATTTTTGAATTAAACT
6275006 AAAATTTAAGTATTATATTATATCAACTCGATTTA
130 AAAATTTAAGTATTATATTATATCAACTCGATTTA
6275041 ATT
1 ATT
6275044 TGATTACTTT
Statistics
Matches: 157, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
164 17 0.11
165 140 0.89
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (164 bp):
ATTAATTAAATTTATAAACTTTTTTTATCAAAATTAATCAAACTCGCTTGAGTTTAATTCAAATT
TTATCTCACATTGAATTTGAAAATTAAAAATAAAATTCGATGGCTTGAATTTTTGAATTAAACTA
AAATTTAAGTATTATATTATATCAACTCGATTTA
Found at i:6277417 original size:3 final size:3
Alignment explanation
Indices: 6277403--6277442 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
6277393 CGATTTTTGC
* * *
6277403 TAT TAC TAT TAT TAT TTT TAT TAT TAT TAG TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6277443 CAATATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6277559 original size:3 final size:3
Alignment explanation
Indices: 6277553--6277599 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6277543 ATTATTATTA
6277553 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
6277600 TTAATCTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:6278518 original size:19 final size:18
Alignment explanation
Indices: 6278496--6278556 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
6278486 TCCTTTTTCC
*
6278496 ATTTTCATTTTATTTTTT
1 ATTTTGATTTTATTTTTT
*
6278514 GA-TTTGATTTGATTTTTT
1 -ATTTTGATTTTATTTTTT
*
6278532 ATTTTTGATTTTATTATTCT
1 A-TTTTGATTTTATT-TTTT
6278552 ATTTT
1 ATTTT
6278557 TAGTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.03
18 14 0.40
19 16 0.46
20 4 0.11
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTGATTTTATTTTTT
Found at i:6278540 original size:14 final size:15
Alignment explanation
Indices: 6278521--6278549 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6278511 TTTGATTTGA
6278521 TTTGATTTT-TTATT
1 TTTGATTTTATTATT
6278535 TTTGATTTTATTATT
1 TTTGATTTTATTATT
6278550 CTATTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTGATTTTATTATT
Found at i:6278556 original size:26 final size:25
Alignment explanation
Indices: 6278503--6278587 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 25
6278493 TCCATTTTCA
* *
6278503 TTTTATTTTTTGATTTGATTTGA-TT
1 TTTTA-TTTTTGATTTAATTTTACTT
*
6278528 TTTTATTTTTGATTTTATTATT-CTAT
1 TTTTATTTTTGATTTAATT-TTACT-T
*
6278554 TTTTAGTTTTTTATTTAATTTTACTT
1 TTTTA-TTTTTGATTTAATTTTACTT
6278580 TTTTATTT
1 TTTTATTT
6278588 AAAAAAATCT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
24 13 0.25
25 10 0.20
26 14 0.27
27 14 0.27
ACGTcount: A:0.18, C:0.02, G:0.06, T:0.74
Consensus pattern (25 bp):
TTTTATTTTTGATTTAATTTTACTT
Found at i:6278567 original size:19 final size:18
Alignment explanation
Indices: 6278529--6278588 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
6278519 GATTTGATTT
6278529 TTTATTTTT-GATTTTATTA
1 TTTATTTTTAG-TTTT-TTA
6278548 TTCTATTTTTAGTTTTTTA
1 TT-TATTTTTAGTTTTTTA
* *
6278567 TTTAATTTTACTTTTTTA
1 TTTATTTTTAGTTTTTTA
6278585 TTTA
1 TTTA
6278589 AAAAAATCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 18 0.49
19 7 0.19
20 11 0.30
21 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTATTTTTAGTTTTTTA
Found at i:6280830 original size:21 final size:21
Alignment explanation
Indices: 6280797--6280837 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6280787 TTCACAGATC
6280797 TATACATTATGACATTATTAA
1 TATACATTATGACATTATTAA
*
6280818 TATATCATT-TGACTTTATTA
1 TATA-CATTATGACATTATTA
6280838 TAAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (21 bp):
TATACATTATGACATTATTAA
Found at i:6281120 original size:22 final size:21
Alignment explanation
Indices: 6281092--6281134 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6281082 TATTATCTTT
6281092 AAATTAAA-ATACTAAGATTAAA
1 AAATTAAATA-ACTAA-ATTAAA
6281114 AAATTAAATAACTAAATTAAA
1 AAATTAAATAACTAAATTAAA
6281135 CAATACAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 13 0.65
23 1 0.05
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (21 bp):
AAATTAAATAACTAAATTAAA
Found at i:6281132 original size:21 final size:22
Alignment explanation
Indices: 6281092--6281134 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6281082 TATTATCTTT
6281092 AAATTAAAATACTAAGATTAAA
1 AAATTAAAATACTAAGATTAAA
6281114 AAATT-AAATAACTAA-ATTAAA
1 AAATTAAAAT-ACTAAGATTAAA
6281135 CAATACAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATTAAAATACTAAGATTAAA
Found at i:6283554 original size:17 final size:18
Alignment explanation
Indices: 6283520--6283561 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6283510 TGCTTTGCTT
*
6283520 AAATATGAATGTAATTTG
1 AAATATGAATATAATTTG
*
6283538 AAAT-TGAATATACTTTG
1 AAATATGAATATAATTTG
6283555 -AATATGA
1 AAATATGA
6283562 CTATGTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 14 0.67
18 4 0.19
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (18 bp):
AAATATGAATATAATTTG
Found at i:6286727 original size:15 final size:16
Alignment explanation
Indices: 6286707--6286740 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6286697 AAAACGATTC
*
6286707 AAATTTGAA-TAATTT
1 AAATTTAAATTAATTT
6286722 AAATTTAAATTAATTT
1 AAATTTAAATTAATTT
6286738 AAA
1 AAA
6286741 ATAAAGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATTTAAATTAATTT
Found at i:6289360 original size:3 final size:3
Alignment explanation
Indices: 6289342--6289481 Score: 101
Period size: 3 Copynumber: 51.3 Consensus size: 3
6289332 ATTATCACAC
* * *
6289342 TAT TA- TAT TA- TAT TAT TAT T-G TAT TA- TAG TA- TAT TA- TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
6289384 TA- TAT TA- CAT TAC TAC TAT TAT TAT TA- TAT TA- TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
6289426 CAC TA- TAT TA- TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6289472 TAT TAT TAT T
1 TAT TAT TAT T
6289482 TCTTTTCTTT
Statistics
Matches: 112, Mismatches: 11, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
2 25 0.22
3 87 0.78
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:6289452 original size:48 final size:46
Alignment explanation
Indices: 6289342--6289476 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 46
6289332 ATTATCACAC
* * *
6289342 TATTATATTATATTATTATT-GTATTATAGTATATTATATT-AGTA
1 TATTATATTATATTATTATTATTATTATATTATATTATATTAACTA
* * *
6289386 TATTACA-T-TACTACTATTATTATTATATTATATTATATTACACTA
1 TATTATATTATATTATTATTATTATTATATTATATTATATTA-ACTA
6289431 TATTATATTAGTATTATTATTATTATTATTATTATTATTATTATTA
1 TATTATATTA-TATTATTATTATTATTA-TATTA-TATTA-TATTA
6289477 TTATTTCTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
42 8 0.11
43 19 0.26
44 6 0.08
45 9 0.12
46 1 0.01
48 15 0.21
49 5 0.07
50 5 0.07
51 5 0.07
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (46 bp):
TATTATATTATATTATTATTATTATTATATTATATTATATTAACTA
Found at i:6289460 original size:15 final size:15
Alignment explanation
Indices: 6289342--6289481 Score: 101
Period size: 13 Copynumber: 10.3 Consensus size: 15
6289332 ATTATCACAC
6289342 TATTA-TATTA-TAT
1 TATTATTATTATTAT
*
6289355 TATTATT-GTATTA-
1 TATTATTATTATTAT
*
6289368 TAGTA-TATTA-TAT
1 TATTATTATTATTAT
* *
6289381 TAGTA-TATTA-CAT
1 TATTATTATTATTAT
* *
6289394 TACTACTATTATTAT
1 TATTATTATTATTAT
6289409 TA-TATTA-TATTA-
1 TATTATTATTATTAT
* *
6289421 TATTA-CACTA-TAT
1 TATTATTATTATTAT
*
6289434 TA-TATTAGTATTAT
1 TATTATTATTATTAT
6289448 TATTATTATTATTAT
1 TATTATTATTATTAT
6289463 TATTATTATTATTAT
1 TATTATTATTATTAT
6289478 TATT
1 TATT
6289482 TCTTTTCTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
12 10 0.10
13 43 0.41
14 17 0.16
15 34 0.33
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (15 bp):
TATTATTATTATTAT
Found at i:6289481 original size:18 final size:16
Alignment explanation
Indices: 6289342--6289477 Score: 120
Period size: 16 Copynumber: 8.4 Consensus size: 16
6289332 ATTATCACAC
6289342 TATTATATTATATTAT
1 TATTATATTATATTAT
* *
6289358 TATTGTATTATAGTA-
1 TATTATATTATATTAT
6289373 TATTATATTAGTA-TAT
1 TATTATATTA-TATTAT
* *
6289389 TA-CATTACTACTATTAT
1 TATTA-TATTA-TATTAT
6289406 TATTATATTATATTA-
1 TATTATATTATATTAT
* *
6289421 TATTACACTATATTA-
1 TATTATATTATATTAT
6289436 TATTAGTATTATTATTAT
1 TATTA-TATTA-TATTAT
6289454 TATTATTATTATTATTAT
1 TATTA-TATTA-TATTAT
6289472 TATTAT
1 TATTAT
6289478 TATTTCTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
15 30 0.30
16 31 0.31
17 15 0.15
18 23 0.23
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (16 bp):
TATTATATTATATTAT
Found at i:6289845 original size:18 final size:18
Alignment explanation
Indices: 6289817--6289868 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
6289807 TTTTTTTTTT
6289817 ATTTTATTTTTATTTTCTA
1 ATTTTA-TTTTATTTTCTA
*
6289836 ATTTTATTTTATCTTCTA
1 ATTTTATTTTATTTTCTA
*
6289854 AGTTTATTTTATTTT
1 ATTTTATTTTATTTT
6289869 TAGCATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 24 0.80
19 6 0.20
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTATTTTATTTTCTA
Found at i:6290920 original size:16 final size:16
Alignment explanation
Indices: 6290899--6290929 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6290889 AATTTGAGAT
*
6290899 TATTTTTTTTCTTTCC
1 TATTTTTTTCCTTTCC
6290915 TATTTTTTTCCTTTC
1 TATTTTTTTCCTTTC
6290930 ATTGTGTATA
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:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTTTCCTTTCC
Found at i:6292014 original size:41 final size:41
Alignment explanation
Indices: 6291957--6292036 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
6291947 TATTTTAGTT
*
6291957 AAGAAACCATCCTTCATTAACCTGAATGCACATCTTTGGTA
1 AAGAAACCATCCTTCATCAACCTGAATGCACATCTTTGGTA
** *
6291998 AAGAAACCATTTTTCATCAACTTGAATGCACATCTTTGG
1 AAGAAACCATCCTTCATCAACCTGAATGCACATCTTTGG
6292037 CAAAAAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (41 bp):
AAGAAACCATCCTTCATCAACCTGAATGCACATCTTTGGTA
Found at i:6304007 original size:21 final size:21
Alignment explanation
Indices: 6303978--6304024 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
6303968 AAAGACCCTC
*
6303978 TTTTT-TTATATTGAAAATTT
1 TTTTTATTATATTGAAAACTT
*
6303998 TTTTTATTATTTTGAAAACTT
1 TTTTTATTATATTGAAAACTT
*
6304019 TATTTA
1 TTTTTA
6304025 CAAAGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTTATTATATTGAAAACTT
Found at i:6304144 original size:12 final size:13
Alignment explanation
Indices: 6304127--6304155 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6304117 TATTAAAGCC
6304127 AAAAAATAAT-AT
1 AAAAAATAATAAT
6304139 AAAAAATAATAAT
1 AAAAAATAATAAT
6304152 AAAA
1 AAAA
6304156 TGGGTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAATAATAAT
Found at i:6306247 original size:7 final size:7
Alignment explanation
Indices: 6306235--6306266 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
6306225 AAACATAGAT
6306235 TTTTTTA
1 TTTTTTA
6306242 TTTTTTA
1 TTTTTTA
6306249 TTTTTTA
1 TTTTTTA
*
6306256 TTTTTAA
1 TTTTTTA
6306263 TTTT
1 TTTT
6306267 AATTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:6306252 original size:12 final size:12
Alignment explanation
Indices: 6306237--6306318 Score: 56
Period size: 12 Copynumber: 6.6 Consensus size: 12
6306227 ACATAGATTT
*
6306237 TTTTATTTTTTATT
1 TTTTA-TTTTTA-A
6306251 TTTTATTTTTAA
1 TTTTATTTTTAA
*
6306263 TTTTAATTTTAA
1 TTTTATTTTTAA
** **
6306275 TTTTAACTTTGG
1 TTTTATTTTTAA
* *
6306287 TTTTAATTCTAA
1 TTTTATTTTTAA
*
6306299 TTCTAATTTTTAA
1 TT-TTATTTTTAA
6306312 TTTTATT
1 TTTTATT
6306319 AGTCAAAGTC
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
12 34 0.63
13 15 0.28
14 5 0.09
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:6306254 original size:14 final size:14
Alignment explanation
Indices: 6306235--6306278 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
6306225 AAACATAGAT
*
6306235 TTTTTTATTTTTTA
1 TTTTTTATTTTTAA
6306249 TTTTTTATTTTTAA
1 TTTTTTATTTTTAA
*
6306263 --TTTTAATTTTAA
1 TTTTTTATTTTTAA
6306275 TTTT
1 TTTT
6306279 AACTTTGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 11 0.42
14 15 0.58
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTATTTTTAA
Found at i:6306280 original size:6 final size:6
Alignment explanation
Indices: 6306251--6306316 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
6306241 ATTTTTTATT
* * ** *
6306251 TTTTAT TTTTAA TTTTAA TTTTAA TTTTAA CTTTGG TTTTAA TTCTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA
*
6306299 TTCTAA TTTTTAA TTTTA
1 TTTTAA -TTTTAA TTTTA
6306317 TTAGTCAAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
6 45 0.90
7 5 0.10
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (6 bp):
TTTTAA
Found at i:6314153 original size:18 final size:18
Alignment explanation
Indices: 6314121--6314155 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6314111 AAGTTTTAGT
6314121 GAAAGATGAGAAGATTAA
1 GAAAGATGAGAAGATTAA
6314139 GAAAGGATGAG-AGATTA
1 GAAA-GATGAGAAGATTA
6314156 TTTTGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.17
Consensus pattern (18 bp):
GAAAGATGAGAAGATTAA
Found at i:6316901 original size:28 final size:28
Alignment explanation
Indices: 6316842--6316902 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
6316832 GAACATGTTT
** *
6316842 AACTATTTATAAAAGATTTGTTAACAAT
1 AACTATTTATAAAAGATTTGCCAACAAC
*
6316870 AACTATTTATAAAAGATTT-CCAACGTAC
1 AACTATTTATAAAAGATTTGCCAAC-AAC
6316898 AACTA
1 AACTA
6316903 GGTAACCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (28 bp):
AACTATTTATAAAAGATTTGCCAACAAC
Found at i:6321960 original size:14 final size:14
Alignment explanation
Indices: 6321926--6321959 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
6321916 TTTTGCTTAA
6321926 TTTTTTTACAAATT
1 TTTTTTTACAAATT
6321940 TTTTTTTAC-AATT
1 TTTTTTTACAAATT
6321953 TTTTTTT
1 TTTTTTT
6321960 TGTAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTTACAAATT
Found at i:6336617 original size:10 final size:10
Alignment explanation
Indices: 6336602--6336637 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
6336592 TAACAGGCAC
6336602 ATTAATTTCA
1 ATTAATTTCA
*
6336612 ATTAATTAC-
1 ATTAATTTCA
6336621 ATTAATTTCA
1 ATTAATTTCA
6336631 ATTAATT
1 ATTAATT
6336638 AGACTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTAATTTCA
Found at i:6336624 original size:19 final size:19
Alignment explanation
Indices: 6336600--6336638 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
6336590 TATAACAGGC
6336600 ACATTAATTTCAATTAATT
1 ACATTAATTTCAATTAATT
6336619 ACATTAATTTCAATTAATT
1 ACATTAATTTCAATTAATT
6336638 A
1 A
6336639 GACTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (19 bp):
ACATTAATTTCAATTAATT
Found at i:6338248 original size:102 final size:101
Alignment explanation
Indices: 6338125--6338326 Score: 377
Period size: 102 Copynumber: 2.0 Consensus size: 101
6338115 ATTTTTATTT
*
6338125 TATATGAAAATCACTAAAATTCATTATTTTACCACATCAATAATTTTATAATTATTATTTCTGTC
1 TATATGAAAATCACTAAAATTCATTATTTTACCACATCAATAATTTTATAATTATTATTTCTATC
6338190 GCGTCAACATTTACATGACACGTACATGTAAAGTTCG
66 GCGTCAAC-TTTACATGACACGTACATGTAAAGTTCG
*
6338227 TATATGAAAATCACTAAAATTCATTATTTTACCACATCAATAATTTTATGATTATTATTTCTATC
1 TATATGAAAATCACTAAAATTCATTATTTTACCACATCAATAATTTTATAATTATTATTTCTATC
6338292 GCGTCAACTTTACATGACACGTACATGTAAAGTTC
66 GCGTCAACTTTACATGACACGTACATGTAAAGTTC
6338327 ATAATCTAAG
Statistics
Matches: 98, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 27 0.28
102 71 0.72
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (101 bp):
TATATGAAAATCACTAAAATTCATTATTTTACCACATCAATAATTTTATAATTATTATTTCTATC
GCGTCAACTTTACATGACACGTACATGTAAAGTTCG
Found at i:6340130 original size:20 final size:21
Alignment explanation
Indices: 6340076--6340132 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
6340066 TATCCCTCAA
6340076 TCAAACTCAGGTCAA-ATTTAG
1 TCAAACTCAGGTCAACA-TTAG
*
6340097 TCAAACTC-GAGTCAACA-TGG
1 TCAAACTCAG-GTCAACATTAG
6340117 TCAAACTCAGGTCAAC
1 TCAAACTCAGGTCAAC
6340133 CAGGTCAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 17 0.53
21 14 0.44
22 1 0.03
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (21 bp):
TCAAACTCAGGTCAACATTAG
Found at i:6342166 original size:3 final size:3
Alignment explanation
Indices: 6342158--6342195 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6342148 TACATAGTAC
6342158 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6342196 CATTCTACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6343128 original size:19 final size:19
Alignment explanation
Indices: 6343062--6343122 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 19
6343052 CGATTGCAGG
* * *
6343062 TTTTCATTTTTTCATTTTA
1 TTTTTATTTTTTAATTTGA
*
6343081 TTTTTATTTTTTGATTTGA
1 TTTTTATTTTTTAATTTGA
6343100 TTTTTATTTTTTAATTTGA
1 TTTTTATTTTTTAATTTGA
6343119 TTTT
1 TTTT
6343123 ACTTTTAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTTAATTTGA
Found at i:6343128 original size:24 final size:25
Alignment explanation
Indices: 6343076--6343129 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
6343066 CATTTTTTCA
** *
6343076 TTTTATTTTTATTTTTTGATTTGAT
1 TTTTATTTTTATAATTTGATTTGAC
*
6343101 TTTTATTTTT-TAATTTGATTTTAC
1 TTTTATTTTTATAATTTGATTTGAC
6343125 TTTTA
1 TTTTA
6343130 ACTCATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (25 bp):
TTTTATTTTTATAATTTGATTTGAC
Found at i:6343497 original size:19 final size:19
Alignment explanation
Indices: 6343459--6343501 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6343449 AAATCAATTG
6343459 ATAAAAAAAAAGGAATAAA
1 ATAAAAAAAAAGGAATAAA
*
6343478 ATAATAAAAAAATGAA-AAA
1 ATAA-AAAAAAAGGAATAAA
6343497 A-AAAA
1 ATAAAA
6343502 TCTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 2 0.09
19 8 0.36
20 10 0.45
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
ATAAAAAAAAAGGAATAAA
Found at i:6344387 original size:19 final size:19
Alignment explanation
Indices: 6344359--6344406 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6344349 CCTAAATCCA
*
6344359 AAACCATAAACATTAAGTT
1 AAACCATAAACATAAAGTT
* *
6344378 AAACCCTAAACCTAAAGTT
1 AAACCATAAACATAAAGTT
*
6344397 AAATCATAAA
1 AAACCATAAA
6344407 AAGTGAACGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.54, C:0.19, G:0.04, T:0.23
Consensus pattern (19 bp):
AAACCATAAACATAAAGTT
Found at i:6345445 original size:25 final size:23
Alignment explanation
Indices: 6345400--6345450 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
6345390 TTAAATTTCC
* * *
6345400 TTTTGAAAGCAAATCATTTTAATT
1 TTTTAAAAGCAAAACAATTT-ATT
6345424 TTTTAAAAGGCAAAACAATTTATT
1 TTTTAAAA-GCAAAACAATTTATT
6345448 TTT
1 TTT
6345451 GGATCAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (23 bp):
TTTTAAAAGCAAAACAATTTATT
Found at i:6345670 original size:35 final size:35
Alignment explanation
Indices: 6345615--6345692 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
6345605 TTTAGGCAAG
* * *
6345615 ATCTCAAATGCTATAATTATTTGAGATGTCATTTT
1 ATCTCAAAAGCTATAATTATTTGAGATATCATCTT
*
6345650 ATCTTAAAAGCTATAATTATTTGAGATATCATCTT
1 ATCTCAAAAGCTATAATTATTTGAGATATCATCTT
6345685 AT-TCAAAA
1 ATCTCAAAA
6345693 CATTTCTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (35 bp):
ATCTCAAAAGCTATAATTATTTGAGATATCATCTT
Found at i:6348440 original size:36 final size:36
Alignment explanation
Indices: 6348393--6348466 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
6348383 TGCATGAAAG
* *
6348393 GTACAAATTATATCAAGGATAGACGCATAAACAAGT
1 GTACAAATTATATCAAGAATAGACACATAAACAAGT
6348429 GTACAAATTATATCAAGAATAGACACATAAACAAGT
1 GTACAAATTATATCAAGAATAGACACATAAACAAGT
6348465 GT
1 GT
6348467 CCATGAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.23
Consensus pattern (36 bp):
GTACAAATTATATCAAGAATAGACACATAAACAAGT
Found at i:6350569 original size:15 final size:15
Alignment explanation
Indices: 6350530--6350569 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6350520 ATCACAAATC
6350530 AAGAGTTAAAATAATT
1 AAGA-TTAAAATAATT
*
6350546 AAGAATAAAATAATT
1 AAGATTAAAATAATT
*
6350561 AAGTTTAAA
1 AAGATTAAA
6350570 TTACATTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (15 bp):
AAGATTAAAATAATT
Found at i:6356730 original size:21 final size:21
Alignment explanation
Indices: 6356704--6356893 Score: 196
Period size: 21 Copynumber: 9.3 Consensus size: 21
6356694 GTTGCCCCTC
6356704 TTTAATTGCATGATTTATATT
1 TTTAATTGCATGATTTATATT
*
6356725 TTTAATTGCATGA-TTAT-TA
1 TTTAATTGCATGATTTATATT
*
6356744 TTTAATTGTATGATTTATATT
1 TTTAATTGCATGATTTATATT
* *
6356765 GTTAATT-CATGA-TTATATA
1 TTTAATTGCATGATTTATATT
*
6356784 TTTAATTGCATGATATATATT
1 TTTAATTGCATGATTTATATT
* *
6356805 GTTAATTGCATGATCGTATA--
1 TTTAATTGCATGAT-TTATATT
*
6356825 TTTATTTGCATGATTTATATT
1 TTTAATTGCATGATTTATATT
* *
6356846 ATTAATTGCATGA-TTATATA
1 TTTAATTGCATGATTTATATT
* * *
6356866 TTTATTTGCATGTTTTACATT
1 TTTAATTGCATGATTTATATT
*
6356887 GTTAATT
1 TTTAATT
6356894 ACGTAATTGT
Statistics
Matches: 137, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
19 29 0.21
20 45 0.33
21 59 0.43
22 4 0.03
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (21 bp):
TTTAATTGCATGATTTATATT
Found at i:6356834 original size:41 final size:41
Alignment explanation
Indices: 6356704--6356918 Score: 281
Period size: 41 Copynumber: 5.3 Consensus size: 41
6356694 GTTGCCCCTC
*
6356704 TTTAATTGCATGATTTATATTTTTAATTGCATGATTAT-TA
1 TTTAATTGCATGATTTATATTGTTAATTGCATGATTATATA
*
6356744 TTTAATTGTATGATTTATATTGTTAATT-CATGATTATATA
1 TTTAATTGCATGATTTATATTGTTAATTGCATGATTATATA
* **
6356784 TTTAATTGCATGATATATATTGTTAATTGCATGATCGTATA
1 TTTAATTGCATGATTTATATTGTTAATTGCATGATTATATA
* *
6356825 TTTATTTGCATGATTTATATTATTAATTGCATGATTATATA
1 TTTAATTGCATGATTTATATTGTTAATTGCATGATTATATA
* * * * * * *
6356866 TTTATTTGCATGTTTTACATTGTTAATTACGTAATTGTATA
1 TTTAATTGCATGATTTATATTGTTAATTGCATGATTATATA
*
6356907 TTTAATTACATG
1 TTTAATTGCATG
6356919 TCTATTTGCA
Statistics
Matches: 153, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 9 0.06
40 54 0.35
41 90 0.59
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (41 bp):
TTTAATTGCATGATTTATATTGTTAATTGCATGATTATATA
Found at i:6359048 original size:31 final size:31
Alignment explanation
Indices: 6359010--6359070 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
6359000 TACCATTAAT
*
6359010 ATGTGCATGAGATAAAATACATATACTATCA
1 ATGTGCATAAGATAAAATACATATACTATCA
* * *
6359041 ATGTGCATAAGATAGAATGCATGTACTATC
1 ATGTGCATAAGATAAAATACATATACTATC
6359071 TTATTATTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (31 bp):
ATGTGCATAAGATAAAATACATATACTATCA
Found at i:6360990 original size:7 final size:7
Alignment explanation
Indices: 6360978--6361184 Score: 152
Period size: 7 Copynumber: 30.7 Consensus size: 7
6360968 GTTAGAGGTT
6360978 GGTTTAG
1 GGTTTAG
6360985 GGTTTAG
1 GGTTTAG
*
6360992 GGTCTAG
1 GGTTTAG
6360999 GG-TTAG
1 GGTTTAG
6361005 GGTTTA-
1 GGTTTAG
6361011 GGTTTAG
1 GGTTTAG
*
6361018 GGTTTGG
1 GGTTTAG
6361025 GGTTT-G
1 GGTTTAG
*
6361031 GTTTTA-
1 GGTTTAG
*
6361037 GGTTTAA
1 GGTTTAG
6361044 GGTTT-G
1 GGTTTAG
6361050 GGTTTA-
1 GGTTTAG
6361056 GGTTTA-
1 GGTTTAG
6361062 GGTTT-G
1 GGTTTAG
6361068 GAGTTTAG
1 G-GTTTAG
6361076 GGTTTAG
1 GGTTTAG
*
6361083 AGTTT-G
1 GGTTTAG
*
6361089 GGTCTA-
1 GGTTTAG
6361095 GG-TTAG
1 GGTTTAG
6361101 GGTTTAG
1 GGTTTAG
6361108 GGTTTAG
1 GGTTTAG
6361115 GGTTT-G
1 GGTTTAG
*
6361121 AGTTTAG
1 GGTTTAG
* *
6361128 TGTTTTG
1 GGTTTAG
* *
6361135 GTTTTAA
1 GGTTTAG
6361142 GGTTTGAG
1 GGTTT-AG
*
6361150 GTTAGATTAG
1 G---GTTTAG
6361160 GGTTTA-
1 GGTTTAG
6361166 GGTTTAG
1 GGTTTAG
* *
6361173 GATTTAA
1 GGTTTAG
6361180 GGTTT
1 GGTTT
6361185 CATGAGAAAT
Statistics
Matches: 159, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
5 2 0.01
6 57 0.36
7 90 0.57
8 4 0.03
10 3 0.02
11 3 0.02
ACGTcount: A:0.15, C:0.01, G:0.38, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:6361021 original size:13 final size:13
Alignment explanation
Indices: 6360978--6361184 Score: 135
Period size: 13 Copynumber: 15.8 Consensus size: 13
6360968 GTTAGAGGTT
6360978 GGTTTAGGGTTTAG
1 GGTTTA-GGTTTAG
* *
6360992 GGTCTAGGGTTAG
1 GGTTTAGGTTTAG
6361005 GGTTTAGGTTTAG
1 GGTTTAGGTTTAG
*
6361018 GGTTTGGGGTTT-G
1 GGTTT-AGGTTTAG
* *
6361031 GTTTTAGGTTTAA
1 GGTTTAGGTTTAG
*
6361044 GGTTTGGGTTTA-
1 GGTTTAGGTTTAG
6361056 GGTTTAGGTTT-G
1 GGTTTAGGTTTAG
6361068 GAGTTTAGGGTTTAG
1 G-GTTTA-GGTTTAG
* * *
6361083 AGTTTGGGTCTA-
1 GGTTTAGGTTTAG
6361095 GG-TTAGGGTTTAG
1 GGTTTA-GGTTTAG
6361108 GGTTTAGGGTTT-G
1 GGTTTA-GGTTTAG
* *
6361121 AGTTTAGTGTTTTG
1 GGTTTAG-GTTTAG
*
6361135 GTTTTAAGGTTT-G
1 GGTTT-AGGTTTAG
*
6361148 AGG-TTA-GATTAG
1 -GGTTTAGGTTTAG
6361160 GGTTTAGGTTTAG
1 GGTTTAGGTTTAG
*
6361173 GATTTAAGGTTT
1 GGTTT-AGGTTT
6361185 CATGAGAAAT
Statistics
Matches: 152, Mismatches: 24, Indels: 34
0.72 0.11 0.16
Matches are distributed among these distances:
11 7 0.05
12 28 0.18
13 71 0.47
14 43 0.28
15 3 0.02
ACGTcount: A:0.15, C:0.01, G:0.38, T:0.45
Consensus pattern (13 bp):
GGTTTAGGTTTAG
Found at i:6361105 original size:39 final size:40
Alignment explanation
Indices: 6360978--6361125 Score: 159
Period size: 39 Copynumber: 3.8 Consensus size: 40
6360968 GTTAGAGGTT
* * *
6360978 GGTTTAGGGTTTAGGGTCTAGGG-TTAGGGTTTAGGTTTA
1 GGTTTAGGGTTTAGGGTTTAGGGTTTAGAGTTTGGGTTTA
* *
6361017 GGGTTTGGGGTTT-GGTTTTA-GGTTTA-AGGTTTGGGTTTA
1 -GGTTTAGGGTTTAGGGTTTAGGGTTTAGA-GTTTGGGTTTA
*
6361056 GGTTTA-GGTTT-GGAGTTTAGGGTTTAGAGTTTGGGTCTA
1 GGTTTAGGGTTTAGG-GTTTAGGGTTTAGAGTTTGGGTTTA
6361095 GG-TTAGGGTTTAGGGTTTAGGGTTT-GAGTTT
1 GGTTTAGGGTTTAGGGTTTAGGGTTTAGAGTTT
6361126 AGTGTTTTGG
Statistics
Matches: 93, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
37 7 0.08
38 20 0.22
39 52 0.56
40 14 0.15
ACGTcount: A:0.14, C:0.01, G:0.41, T:0.45
Consensus pattern (40 bp):
GGTTTAGGGTTTAGGGTTTAGGGTTTAGAGTTTGGGTTTA
Found at i:6362106 original size:10 final size:10
Alignment explanation
Indices: 6362093--6362128 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
6362083 AAACTATGGA
*
6362093 AAATGATATG
1 AAATGTTATG
6362103 AAATGTTATG
1 AAATGTTATG
6362113 AAATGTTATG
1 AAATGTTATG
6362123 AAATGT
1 AAATGT
6362129 AAAGAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (10 bp):
AAATGTTATG
Found at i:6363209 original size:20 final size:21
Alignment explanation
Indices: 6363166--6363211 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
6363156 TTTTAAAAGA
6363166 TTGACTTGAGTTTAATCCAAT
1 TTGACTTGAGTTTAATCCAAT
*
6363187 TTGAC-TGATTTTAA-CCAAGT
1 TTGACTTGAGTTTAATCCAA-T
6363207 TTGAC
1 TTGAC
6363212 CTTAAGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 14 0.61
21 5 0.22
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (21 bp):
TTGACTTGAGTTTAATCCAAT
Found at i:6364205 original size:49 final size:49
Alignment explanation
Indices: 6364115--6364275 Score: 144
Period size: 49 Copynumber: 3.2 Consensus size: 49
6364105 TTATATATTT
* * * * *
6364115 TAATTTTTCTCACATATACCGATGATTAACA-CCTATTAGTATAGACCTG
1 TAATTTTTCTTACATATACCGATGCTTAGCATCC-ATCAGTATAGACCTA
* * *
6364164 TAATTTTCCTTACATATACCAATGCTTAGCATCCATCAGTATAGACTTA
1 TAATTTTTCTTACATATACCGATGCTTAGCATCCATCAGTATAGACCTA
* * *
6364213 TATTTTTTATTTTTCTTACCTATACCGACGCTTAGCATCCATCAGTATAGACTTA
1 TA------ATTTTTCTTACATATACCGATGCTTAGCATCCATCAGTATAGACCTA
*
6364268 TATTTTTT
1 TAATTTTT
6364276 TTAATTTCCT
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
49 45 0.49
50 2 0.02
55 45 0.49
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (49 bp):
TAATTTTTCTTACATATACCGATGCTTAGCATCCATCAGTATAGACCTA
Found at i:6364250 original size:55 final size:55
Alignment explanation
Indices: 6364166--6364349 Score: 192
Period size: 55 Copynumber: 3.3 Consensus size: 55
6364156 TAGACCTGTA
* * * *
6364166 ATTTTCCTTACATATACCAATGCTTAGCATCCATCAGTATAGACTTATATTTTTT
1 ATTTTTCTTACCTATACCGACGCTTAGCATCCATCAGTATAGACTTATATTTTTT
6364221 ATTTTTCTTACCTATACCGACGCTTAGCATCCATCAGTATAGACTTATATTTTTT
1 ATTTTTCTTACCTATACCGACGCTTAGCATCCATCAGTATAGACTTATATTTTTT
* * * * ** * * *
6364276 -TTAATTTCCTTACTTATACTGACGGTTAG-AGACTGTCAGTATAGACTTGTATATTTC
1 ATT--TTT-CTTACCTATACCGACGCTTAGCA-TCCATCAGTATAGACTTATATTTTTT
*
6364333 AATTTTCTTACCTATAC
1 ATTTTTCTTACCTATAC
6364350 TGACAGCTAG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
54 2 0.02
55 61 0.56
56 7 0.06
57 38 0.35
58 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (55 bp):
ATTTTTCTTACCTATACCGACGCTTAGCATCCATCAGTATAGACTTATATTTTTT
Found at i:6364351 original size:55 final size:55
Alignment explanation
Indices: 6364199--6364393 Score: 194
Period size: 55 Copynumber: 3.5 Consensus size: 55
6364189 TTAGCATCCA
* * * * **
6364199 TCAGTATAGACTTATATTTTTTATTTTTCTTACCTATACCGACGCTTAGCA-TCCA
1 TCAGTATAGACTTATATTTTTTAATTTTCTTACCTATACTGACGGTTAG-AGACTG
* *
6364254 TCAGTATAGACTTATATTTTTTTTAATTTCCTTACTTATACTGACGGTTAGAGACTG
1 TCAGTATAGACTTATA--TTTTTTAATTTTCTTACCTATACTGACGGTTAGAGACTG
* * * * * *
6364311 TCAGTATAGACTTGTATATTTCAATTTTCTTACCTATACTGACAGCTAGAGATTG
1 TCAGTATAGACTTATATTTTTTAATTTTCTTACCTATACTGACGGTTAGAGACTG
* * * *
6364366 TCAGTATAAACATGTATGTTTTAATTTT
1 TCAGTATAGACTTATATTTTTTAATTTT
6364394 TTATTATATT
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
55 72 0.62
56 1 0.01
57 44 0.38
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (55 bp):
TCAGTATAGACTTATATTTTTTAATTTTCTTACCTATACTGACGGTTAGAGACTG
Found at i:6364530 original size:24 final size:24
Alignment explanation
Indices: 6364498--6364543 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
6364488 TTTTTTAAAA
6364498 AATTATATTT-TCAATTATTAATATT
1 AATTATATTTAT-AATTA-TAATATT
6364523 AATT-TATTTATAATTATAATA
1 AATTATATTTATAATTATAATA
6364544 GGATATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:6364695 original size:15 final size:15
Alignment explanation
Indices: 6364675--6364704 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6364665 TAACAAGTTT
6364675 GATAAAACAAACATC
1 GATAAAACAAACATC
*
6364690 GATAAAATAAACATC
1 GATAAAACAAACATC
6364705 ATTGAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (15 bp):
GATAAAACAAACATC
Found at i:6364933 original size:68 final size:68
Alignment explanation
Indices: 6364856--6364982 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
6364846 ACAGAAGGTA
* *
6364856 AGAAGGTAATCATCCATCCATATACCA-ATAGAAATAATTTTATAAACATCTTATTCATTCATAT
1 AGAAGGTAATAATCCATCCATATACCAGA-AGAAATAATTTTATAAACATCCTATTCATTCATAT
6364920 ATAT
65 ATAT
** *
6364924 AGAAGGTAATAATCCATTTATATACTAGAAGAAATAATTTTATAAACATCCTATTCATT
1 AGAAGGTAATAATCCATCCATATACCAGAAGAAATAATTTTATAAACATCCTATTCATT
6364983 AGTGTAATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
68 52 0.98
69 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.35
Consensus pattern (68 bp):
AGAAGGTAATAATCCATCCATATACCAGAAGAAATAATTTTATAAACATCCTATTCATTCATATA
TAT
Found at i:6368713 original size:18 final size:19
Alignment explanation
Indices: 6368679--6368715 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6368669 ATCAAAACTA
*
6368679 ACTAAAAAGAATTGAATAC
1 ACTAAAAAGAATCGAATAC
6368698 ACTAAAAA-AATCGAATAC
1 ACTAAAAAGAATCGAATAC
6368716 TTAAACCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (19 bp):
ACTAAAAAGAATCGAATAC
Found at i:6372254 original size:156 final size:156
Alignment explanation
Indices: 6371970--6372284 Score: 594
Period size: 156 Copynumber: 2.0 Consensus size: 156
6371960 TGTTATGGAA
* *
6371970 TTTAATGTATAACTATTTTTAAAATAGTGAGAATCAAATCAGAATCCTTATTTTGAATTTTATTA
1 TTTAATGTATAACTATCTTTAAAATAATGAGAATCAAATCAGAATCCTTATTTTGAATTTTATTA
6372035 CGCATTTATCATAATATAGTAAGAAACACAAGGGAATCTTGGATAAGTGGTGAAATTTTATGTGA
66 CGCATTTATCATAATATAGTAAGAAACACAAGGGAATCTTGGATAAGTGGTGAAATTTTATGTGA
6372100 TTGTAACAGTTTTTCACATAGTTGAT
131 TTGTAACAGTTTTTCACATAGTTGAT
*
6372126 TTTAATGTATAACTATCTTTAAAATAATGAGAATCAAATTAGAATCCTTATTTTGAATTTTATTA
1 TTTAATGTATAACTATCTTTAAAATAATGAGAATCAAATCAGAATCCTTATTTTGAATTTTATTA
*
6372191 CGCATTTATCATAATATAGTGAGAAACACAAGGGAATCTTGGATAAGTGGTGAAATTTTATGTGA
66 CGCATTTATCATAATATAGTAAGAAACACAAGGGAATCTTGGATAAGTGGTGAAATTTTATGTGA
6372256 TTGTAACAGTTTTTCACATAGTTGAT
131 TTGTAACAGTTTTTCACATAGTTGAT
6372282 TTT
1 TTT
6372285 GTTTTTGGTA
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (156 bp):
TTTAATGTATAACTATCTTTAAAATAATGAGAATCAAATCAGAATCCTTATTTTGAATTTTATTA
CGCATTTATCATAATATAGTAAGAAACACAAGGGAATCTTGGATAAGTGGTGAAATTTTATGTGA
TTGTAACAGTTTTTCACATAGTTGAT
Found at i:6375375 original size:9 final size:9
Alignment explanation
Indices: 6375363--6375404 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
6375353 ATAAAAAATA
6375363 AAAAAATGC
1 AAAAAATGC
6375372 AAAAAATGC
1 AAAAAATGC
*
6375381 AAAAAATTC
1 AAAAAATGC
*
6375390 AAAAAATTC
1 AAAAAATGC
6375399 AAAAAA
1 AAAAAA
6375405 AAAACAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.71, C:0.10, G:0.05, T:0.14
Consensus pattern (9 bp):
AAAAAATGC
Done.