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 41 of 126
Found at i:8182861 original size:45 final size:46
Alignment explanation
Indices: 8182811--8182906 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 46
8182801 CAAATATTTG
* *
8182811 CATTTGACAAATTTTAGAGATTCACATAT-AAAATTTAAAAATTCA
1 CATTTGAAAAACTTTAGAGATTCACATATGAAAATTTAAAAATTCA
* * *
8182856 CATTTGAAAAACTTTAGAGATTCACATTTGAAAATTTACAGATTCA
1 CATTTGAAAAACTTTAGAGATTCACATATGAAAATTTAAAAATTCA
8182902 CATTT
1 CATTT
8182907 AGAATGCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 26 0.58
46 19 0.42
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.36
Consensus pattern (46 bp):
CATTTGAAAAACTTTAGAGATTCACATATGAAAATTTAAAAATTCA
Found at i:8182878 original size:24 final size:22
Alignment explanation
Indices: 8182811--8182934 Score: 117
Period size: 21 Copynumber: 5.5 Consensus size: 22
8182801 CAAATATTTG
8182811 CATTTGACAAATTTTAGAGATTCA
1 CATTTGA-AAA-TTTAGAGATTCA
* * *
8182835 CATAT-AAAATTTAAAAATTCA
1 CATTTGAAAATTTAGAGATTCA
8182856 CATTTGAAAAACTTTAGAGATTCA
1 CATTTG-AAAA-TTTAGAGATTCA
*
8182880 CATTTGAAAATTTACAGATTCA
1 CATTTGAAAATTTAGAGATTCA
* ** * *
8182902 CATTT-AGAATGCAAAAATTCA
1 CATTTGAAAATTTAGAGATTCA
8182923 CATTTGAAAATT
1 CATTTGAAAATT
8182935 CAAAGAGCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
21 30 0.37
22 23 0.28
23 9 0.11
24 20 0.24
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (22 bp):
CATTTGAAAATTTAGAGATTCA
Found at i:8183436 original size:31 final size:32
Alignment explanation
Indices: 8183363--8183442 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
8183353 AACTAATACT
*
8183363 AGTTAATCTAGGCTTAAGTCTAGTTATGTGCC
1 AGTTAATCTAGGCTTAAGTCTAGTAATGTGCC
* *
8183395 AGCTAATCTAGACTTAAGTCTCA-TAATGTG-C
1 AGTTAATCTAGGCTTAAGTCT-AGTAATGTGCC
8183426 AGTTAATCTAGGCTTAA
1 AGTTAATCTAGGCTTAA
8183443 AATCAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 16 0.38
32 25 0.60
33 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (32 bp):
AGTTAATCTAGGCTTAAGTCTAGTAATGTGCC
Found at i:8183783 original size:70 final size:70
Alignment explanation
Indices: 8183696--8183841 Score: 186
Period size: 70 Copynumber: 2.1 Consensus size: 70
8183686 AATGTCAAAA
* ** * * *
8183696 ATTTAAATGTTCACCAAATGATGTAAATGCATGGTTCTAACTATGATTCAAATGCAATATTC-AA
1 ATTTAAATGCTCACCAAATGATACAAATGCATGGTAC-AACAATGATGCAAATGCAATATTCAAA
8183760 ACAATG
65 ACAATG
* * **
8183766 ATTTAGATGCTCACCAAATGATACAAATGGATGGTACAACAATGATGCAAATGCGGTATTCAAAA
1 ATTTAAATGCTCACCAAATGATACAAATGCATGGTACAACAATGATGCAAATGCAATATTCAAAA
8183831 CAATG
66 CAATG
8183836 ATTTAA
1 ATTTAA
8183842 GTTCTTTCCA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 20 0.31
70 44 0.69
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (70 bp):
ATTTAAATGCTCACCAAATGATACAAATGCATGGTACAACAATGATGCAAATGCAATATTCAAAA
CAATG
Found at i:8195302 original size:21 final size:20
Alignment explanation
Indices: 8195278--8195320 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
8195268 CTTAGTTGGA
8195278 AGTTAAAGTTAGGTAGAAGTT
1 AGTTAAAGTTA-GTAGAAGTT
*
8195299 AGTTAAAGTTAGTTGAAGTT
1 AGTTAAAGTTAGTAGAAGTT
8195319 AG
1 AG
8195321 CTTAGACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
AGTTAAAGTTAGTAGAAGTT
Found at i:8195309 original size:10 final size:10
Alignment explanation
Indices: 8195278--8195320 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
8195268 CTTAGTTGGA
8195278 AGTTAAAGTT
1 AGTTAAAGTT
*
8195288 AGGTAGAAGTT
1 AGTTA-AAGTT
8195299 AGTTAAAGTT
1 AGTTAAAGTT
*
8195309 AGTTGAAGTT
1 AGTTAAAGTT
8195319 AG
1 AG
8195321 CTTAGACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (10 bp):
AGTTAAAGTT
Found at i:8197178 original size:15 final size:15
Alignment explanation
Indices: 8197158--8197186 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8197148 AAATATTAAT
8197158 AAAGGAAAAGAAAGG
1 AAAGGAAAAGAAAGG
8197173 AAAGGAAAAGAAAG
1 AAAGGAAAAGAAAG
8197187 TTTTTTAAAA
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
AAAGGAAAAGAAAGG
Found at i:8198123 original size:18 final size:16
Alignment explanation
Indices: 8198085--8198156 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 16
8198075 TGTTTAGTTT
8198085 ATTTTTTAGTTTTA-TA
1 ATTTTTTA-TTTTAGTA
8198101 ATTTTTTATTCTTAGTA
1 ATTTTTTATT-TTAGTA
*
8198118 ACTTTTCTATTTTTAGT-
1 A-TTTTTTA-TTTTAGTA
* *
8198135 AGTTGTTATTTTTAGTA
1 ATTTTTTA-TTTTAGTA
8198152 ATTTT
1 ATTTT
8198157 ACTTTTAGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 2 0.04
16 23 0.51
17 7 0.16
18 11 0.24
19 2 0.04
ACGTcount: A:0.22, C:0.04, G:0.08, T:0.65
Consensus pattern (16 bp):
ATTTTTTATTTTAGTA
Found at i:8198146 original size:16 final size:15
Alignment explanation
Indices: 8198104--8198164 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 15
8198094 TTTTATAATT
*
8198104 TTTTATTCTTAGTAA
1 TTTTATTTTTAGTAA
*
8198119 CTTTTCTATTTTTAGTAG
1 --TTT-TATTTTTAGTAA
8198137 TTGTTATTTTTAGTAA
1 TT-TTATTTTTAGTAA
*
8198153 TTTTACTTTTAG
1 TTTTATTTTTAG
8198165 GTCTTTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 9 0.24
16 15 0.39
17 4 0.11
18 10 0.26
ACGTcount: A:0.21, C:0.07, G:0.10, T:0.62
Consensus pattern (15 bp):
TTTTATTTTTAGTAA
Found at i:8198927 original size:16 final size:17
Alignment explanation
Indices: 8198902--8198939 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8198892 TTAGTATATA
*
8198902 CATTTTCATT-TTTTTT
1 CATTTGCATTCTTTTTT
8198918 CATTTGCATTCTTTTTT
1 CATTTGCATTCTTTTTT
8198935 CATTT
1 CATTT
8198940 TTTCTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.13, C:0.16, G:0.03, T:0.68
Consensus pattern (17 bp):
CATTTGCATTCTTTTTT
Found at i:8202159 original size:19 final size:19
Alignment explanation
Indices: 8202092--8202159 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
8202082 ATTTTCCATG
* *
8202092 AAACCCTAAACCACCCTCC
1 AAACCCTAAACCACCATTC
**
8202111 AAACCCTAAACCAAAATTC
1 AAACCCTAAACCACCATTC
* *
8202130 TAAACCTTAAACCACCTTTC
1 -AAACCCTAAACCACCATTC
8202150 AAACCCTAAA
1 AAACCCTAAA
8202160 TCAGCTCCCA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 24 0.62
20 15 0.38
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (19 bp):
AAACCCTAAACCACCATTC
Found at i:8202240 original size:12 final size:12
Alignment explanation
Indices: 8202232--8202272 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
8202222 CACCCTAATT
8202232 TAGACCCTAAAC
1 TAGACCCTAAAC
*
8202244 TA-ACCCTAACC
1 TAGACCCTAAAC
8202255 TAGACCCTAAAC
1 TAGACCCTAAAC
8202267 TA-ACCC
1 TAGACCC
8202273 AAATCCTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 14 0.54
12 12 0.46
ACGTcount: A:0.39, C:0.39, G:0.05, T:0.17
Consensus pattern (12 bp):
TAGACCCTAAAC
Found at i:8202258 original size:23 final size:23
Alignment explanation
Indices: 8202223--8202272 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
8202213 CAAACCCTAC
**
8202223 ACCCTAATTTAGACCCTAAACTA
1 ACCCTAACCTAGACCCTAAACTA
8202246 ACCCTAACCTAGACCCTAAACTA
1 ACCCTAACCTAGACCCTAAACTA
8202269 ACCC
1 ACCC
8202273 AAATCCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.20
Consensus pattern (23 bp):
ACCCTAACCTAGACCCTAAACTA
Found at i:8202850 original size:27 final size:28
Alignment explanation
Indices: 8202811--8202863 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
8202801 GTTTGGTTTG
8202811 AGAAAATGTTTTTTATTTT-TATTTTCT
1 AGAAAATGTTTTTTATTTTCTATTTTCT
8202838 AGAAAATAG-TTTTTATTTTCTATTTT
1 AGAAAAT-GTTTTTTATTTTCTATTTT
8202864 TAGTTTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (28 bp):
AGAAAATGTTTTTTATTTTCTATTTTCT
Found at i:8205146 original size:39 final size:39
Alignment explanation
Indices: 8205092--8205188 Score: 194
Period size: 39 Copynumber: 2.5 Consensus size: 39
8205082 TAGGGTTTCA
8205092 TTTTAGGGTTTCGAGTTTTGCCTAGAATTTAAAATTTTG
1 TTTTAGGGTTTCGAGTTTTGCCTAGAATTTAAAATTTTG
8205131 TTTTAGGGTTTCGAGTTTTGCCTAGAATTTAAAATTTTG
1 TTTTAGGGTTTCGAGTTTTGCCTAGAATTTAAAATTTTG
8205170 TTTTAGGGTTTCGAGTTTT
1 TTTTAGGGTTTCGAGTTTT
8205189 AATTTAAAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.21, C:0.07, G:0.22, T:0.51
Consensus pattern (39 bp):
TTTTAGGGTTTCGAGTTTTGCCTAGAATTTAAAATTTTG
Found at i:8205329 original size:24 final size:23
Alignment explanation
Indices: 8205292--8205341 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
8205282 TTTTATATAT
*
8205292 TTTATTTTTCTTTATAATTATTA
1 TTTATTTATCTTTATAATTATTA
*
8205315 TTTATTTATCTTTTATTATTATTA
1 TTTATTTATC-TTTATAATTATTA
8205339 TTT
1 TTT
8205342 TTATTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTATTTATCTTTATAATTATTA
Found at i:8205343 original size:15 final size:17
Alignment explanation
Indices: 8205309--8205349 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
8205299 TTCTTTATAA
8205309 TTATTATTTATTTATCTT
1 TTATTA-TTATTTATCTT
8205327 TTATTATTA-TTAT-TT
1 TTATTATTATTTATCTT
8205342 TTATTATT
1 TTATTATT
8205350 TAATAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.43
16 4 0.17
17 3 0.13
18 6 0.26
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTATTATTTATCTT
Found at i:8214818 original size:18 final size:19
Alignment explanation
Indices: 8214795--8214839 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
8214785 TATCCACCTA
8214795 AAATGTATCCT-TTACCAC
1 AAATGTATCCTCTTACCAC
*
8214813 AAATGTAT-CTCTTACCAT
1 AAATGTATCCTCTTACCAC
8214831 AAATGTATC
1 AAATGTATC
8214840 GTCCTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (19 bp):
AAATGTATCCTCTTACCAC
Found at i:8216132 original size:18 final size:18
Alignment explanation
Indices: 8216111--8216155 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
8216101 TTTATTTTAC
8216111 CATTTTAGGCCCTTTTTT
1 CATTTTAGGCCCTTTTTT
*
8216129 CATTTTTGG--CTTTTTT
1 CATTTTAGGCCCTTTTTT
8216145 -ATTTTAGGCCC
1 CATTTTAGGCCC
8216156 CTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 7 0.30
16 7 0.30
17 1 0.04
18 8 0.35
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.56
Consensus pattern (18 bp):
CATTTTAGGCCCTTTTTT
Found at i:8217652 original size:71 final size:71
Alignment explanation
Indices: 8217563--8217707 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
8217553 TAAGGTTATC
8217563 TTAAGCTTGACCAACAGTTCCTAAAAGAATAGGTTGTAACCTACATCAATAGAATAAAGCTCCAA
1 TTAAGCTTGACCAACAGTTCCTAAAAGAATAGGTTGTAACCTACATCAATAGAATAAAGCTCCAA
8217628 AGTCAA
66 AGTCAA
8217634 TTAAGCTTGACCAACAGTTCCTAAAAGAATAGGTTGTAACCTACATCAATAGAATAAAGCTCCAA
1 TTAAGCTTGACCAACAGTTCCTAAAAGAATAGGTTGTAACCTACATCAATAGAATAAAGCTCCAA
8217699 AGTCAA
66 AGTCAA
8217705 TTA
1 TTA
8217708 CGTGTAACAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (71 bp):
TTAAGCTTGACCAACAGTTCCTAAAAGAATAGGTTGTAACCTACATCAATAGAATAAAGCTCCAA
AGTCAA
Found at i:8218170 original size:8 final size:7
Alignment explanation
Indices: 8218136--8218179 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 7
8218126 AAAAAATCAA
8218136 AATAAAT
1 AATAAAT
8218143 AATAAAT
1 AATAAAT
*
8218150 AATGAAT
1 AATAAAT
8218157 AAATAAAT
1 -AATAAAT
8218165 ATATAAAT
1 A-ATAAAT
8218173 ATATAAA
1 A-ATAAA
8218180 GTACCACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (7 bp):
AATAAAT
Found at i:8220377 original size:101 final size:99
Alignment explanation
Indices: 8220201--8220387 Score: 293
Period size: 101 Copynumber: 1.9 Consensus size: 99
8220191 TTTTTCAATT
*
8220201 GTGATATCCGATCTCTCTTTAATGGCGATATTCAAAACATTGGCACTTTTTGGTGGCAACATTCG
1 GTGACATCCGATCTCTCTTTAATGGCGATATTCAAAACATTGGCACTTTTTGGTGGCAACATTCG
8220266 AGTTCTTTTCAATGGTGATATGTTCTCTTTGATG
66 AGTTCTTTTCAATGGTGATATGTTCTCTTTGATG
* * * *
8220300 GTGACATCCGATCTTTTTTTAATGGTGATATTCAAAATCGTTGGCACTTTTTTGGTGGCAACATT
1 GTGACATCCGATCTCTCTTTAATGGCGATATTCAAAA-CATTGGCAC-TTTTTGGTGGCAACATT
* *
8220365 TGAGTTTTTTTCAATGGTGATAT
64 CGAGTTCTTTTCAATGGTGATAT
8220388 CTTATCTCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 33 0.42
100 8 0.10
101 38 0.48
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (99 bp):
GTGACATCCGATCTCTCTTTAATGGCGATATTCAAAACATTGGCACTTTTTGGTGGCAACATTCG
AGTTCTTTTCAATGGTGATATGTTCTCTTTGATG
Found at i:8220675 original size:16 final size:17
Alignment explanation
Indices: 8220654--8220694 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8220644 AGAGAAATTT
8220654 AAAAAAAAAA-AAAACA
1 AAAAAAAAAATAAAACA
* *
8220670 AAAAAAAAAATGAAGCA
1 AAAAAAAAAATAAAACA
8220687 AAAAAAAA
1 AAAAAAAA
8220695 GTGAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAATAAAACA
Found at i:8220817 original size:21 final size:20
Alignment explanation
Indices: 8220791--8220829 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8220781 AGCATTTTTC
8220791 AAAAAAATAAAAATAAAAATA
1 AAAAAAATAAAAA-AAAAATA
*
8220812 AAAAAACTAAAAAAAAAA
1 AAAAAAATAAAAAAAAAA
8220830 GTTTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (20 bp):
AAAAAAATAAAAAAAAAATA
Found at i:8221043 original size:6 final size:6
Alignment explanation
Indices: 8221034--8221077 Score: 61
Period size: 6 Copynumber: 6.8 Consensus size: 6
8221024 AAAAAATTAA
8221034 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT CCAAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT ---AAAAAT AAAAA
8221078 CCCTCAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 29 0.83
9 6 0.17
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:8221087 original size:17 final size:15
Alignment explanation
Indices: 8221052--8221100 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
8221042 AAATAAAAAT
*
8221052 AAAAATAAAAATCCA
1 AAAAATAAAAACCCA
8221067 AAAAATAAAAACCCTCA
1 AAAAATAAAAA-CC-CA
* *
8221084 AAAAAGAAAAAACCA
1 AAAAATAAAAACCCA
8221099 AA
1 AA
8221101 GTTCATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 15 0.52
16 2 0.07
17 12 0.41
ACGTcount: A:0.73, C:0.16, G:0.02, T:0.08
Consensus pattern (15 bp):
AAAAATAAAAACCCA
Found at i:8228236 original size:22 final size:21
Alignment explanation
Indices: 8228210--8228281 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
8228200 CATGTCAATG
8228210 ATATTCTAGTAATATTCTGATA
1 ATATTCTAGTAATATT-TGATA
*
8228232 ATATTCTA--AAT-TGATGATA
1 ATATTCTAGTAATAT-TTGATA
* *
8228251 TTATTCTAGTAATATTTCAGTA
1 ATATTCTAGTAATATTTGA-TA
8228273 ATATTCTAG
1 ATATTCTAG
8228282 ATTGATTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 13 0.32
20 3 0.08
21 5 0.12
22 19 0.47
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (21 bp):
ATATTCTAGTAATATTTGATA
Found at i:8232692 original size:11 final size:11
Alignment explanation
Indices: 8232676--8232769 Score: 54
Period size: 11 Copynumber: 8.8 Consensus size: 11
8232666 GTTGTCAATG
8232676 ATATTTTAGTA
1 ATATTTTAGTA
*
8232687 ATATTTTGGTA
1 ATATTTTAGTA
* *
8232698 ATATTCTGGTA
1 ATATTTTAGTA
*
8232709 ATATTCTAG-A
1 ATATTTTAGTA
* * *
8232719 TTA-ATGA-TA
1 ATATTTTAGTA
*
8232728 TTATTCTT-GTA
1 ATATT-TTAGTA
*
8232739 ATATTCTAGTA
1 ATATTTTAGTA
8232750 ATATTTT-GATA
1 ATATTTTAG-TA
8232761 ATATTTTAG
1 ATATTTTAG
8232770 ATTAATGGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
9 5 0.08
10 5 0.08
11 53 0.83
12 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (11 bp):
ATATTTTAGTA
Found at i:8232733 original size:30 final size:30
Alignment explanation
Indices: 8232699--8232795 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 30
8232689 ATTTTGGTAA
8232699 TATTCTGGTAATATTCTAGATTAATGATAT
1 TATTCTGGTAATATTCTAGATTAATGATAT
*
8232729 TATTCTTGTAATATTCTAG--T-A--ATA-
1 TATTCTGGTAATATTCTAGATTAATGATAT
* * *
8232753 T-TT-TGATAATATTTTAGATTAATGGTAT
1 TATTCTGGTAATATTCTAGATTAATGATAT
*
8232781 TATTCTTGTAATATT
1 TATTCTGGTAATATT
8232796 TCAATAATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
22 11 0.21
23 2 0.04
24 2 0.04
25 4 0.08
27 3 0.06
28 2 0.04
29 2 0.04
30 26 0.50
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (30 bp):
TATTCTGGTAATATTCTAGATTAATGATAT
Found at i:8232751 original size:52 final size:51
Alignment explanation
Indices: 8232684--8232808 Score: 169
Period size: 52 Copynumber: 2.4 Consensus size: 51
8232674 TGATATTTTA
* *
8232684 GTAATATTTTGGTAATATTCTGGTAATATTCTAGATTAATGATATTATTCTT
1 GTAATA-TTTAGTAATATTCTGATAATATTCTAGATTAATGATATTATTCTT
* * *
8232736 GTAATATTCTAGTAATATTTTGATAATATTTTAGATTAATGGTATTATTCTT
1 GTAATATT-TAGTAATATTCTGATAATATTCTAGATTAATGATATTATTCTT
*
8232788 GTAATATTTCAATAATATTCT
1 GTAATATTT-AGTAATATTCT
8232809 AGATTGATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
51 3 0.05
52 61 0.95
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (51 bp):
GTAATATTTAGTAATATTCTGATAATATTCTAGATTAATGATATTATTCTT
Found at i:8232875 original size:11 final size:12
Alignment explanation
Indices: 8232811--8232873 Score: 71
Period size: 11 Copynumber: 5.6 Consensus size: 12
8232801 AATATTCTAG
8232811 ATTGATTT-GAT
1 ATTGATTTAGAT
*
8232822 ATTGATTTAGAA
1 ATTGATTTAGAT
*
8232834 AAT-A-TTAGAT
1 ATTGATTTAGAT
8232844 ATTGATTTA-AT
1 ATTGATTTAGAT
*
8232855 ATTAATTTAGAT
1 ATTGATTTAGAT
8232867 ATTGATT
1 ATTGATT
8232874 AGGTGATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.17
11 20 0.48
12 15 0.36
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (12 bp):
ATTGATTTAGAT
Found at i:8232903 original size:21 final size:21
Alignment explanation
Indices: 8232857--8232904 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
8232847 GATTTAATAT
*
8232857 TAATT-TAGATATTGATTAGG
1 TAATTATAGAAATTGATTAGG
*
8232877 TGATTATAGAAATTGATTTA-G
1 TAATTATAGAAATTGA-TTAGG
8232898 TAATTAT
1 TAATTAT
8232905 TTTTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (21 bp):
TAATTATAGAAATTGATTAGG
Found at i:8236335 original size:3 final size:3
Alignment explanation
Indices: 8236327--8236401 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
8236317 GTTATCATAG
* * * * *
8236327 TAA TAA TAA CAA TAA TAA TAA TAA CAA CAA CAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8236375 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
8236402 GGGGTTTTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:8244208 original size:2 final size:2
Alignment explanation
Indices: 8244201--8244240 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8244191 ATTACTTTCC
8244201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8244241 AGTCATCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8249996 original size:21 final size:19
Alignment explanation
Indices: 8249958--8250004 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
8249948 AAGATTTTTT
8249958 AAAAAAAAGTAAAAGAAGA
1 AAAAAAAAGTAAAAGAAGA
* *
8249977 AGAAAAAATGTCAAATGAAGA
1 A-AAAAAAAGT-AAAAGAAGA
8249998 AAAAAAA
1 AAAAAAA
8250005 GACTCATCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 14 0.58
21 9 0.38
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAAAAAAGTAAAAGAAGA
Found at i:8253190 original size:20 final size:19
Alignment explanation
Indices: 8253150--8253191 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
8253140 TAACTATGAA
**
8253150 TTTATGAAGTTTGATTTTT
1 TTTATGAAGTTTGATGATT
8253169 TTTATGAAGATTTGATGATT
1 TTTATGAAG-TTTGATGATT
8253189 TTT
1 TTT
8253192 TTTTAGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.60
Consensus pattern (19 bp):
TTTATGAAGTTTGATGATT
Found at i:8255990 original size:45 final size:46
Alignment explanation
Indices: 8255926--8256056 Score: 140
Period size: 45 Copynumber: 2.8 Consensus size: 46
8255916 AAAAAAATTT
* * *
8255926 CAAGCCTTTAATGAGATGAGCTTTCCAATCAAAATTTT-AAGTTTC
1 CAAGCCTCTAATGAGATGAGCTTTTCAATCAAAATTTTAAAGCTTC
* *
8255971 CAAGCCTCTAATGAGATGAGCTTTTCAGTCAAATTTGTTTTAAAGCTTC
1 CAAGCCTCTAATGAGATGAGCTTTTCAATCAAA---ATTTTAAAGCTTC
* * * *
8256020 TAAGCCTCTAATGAAAAGAGCTTTTCAAT-AAGATTTT
1 CAAGCCTCTAATGAGATGAGCTTTTCAATCAAAATTTT
8256057 TTTTATAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
45 34 0.48
48 6 0.08
49 31 0.44
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (46 bp):
CAAGCCTCTAATGAGATGAGCTTTTCAATCAAAATTTTAAAGCTTC
Found at i:8256179 original size:10 final size:10
Alignment explanation
Indices: 8256161--8256210 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
8256151 AAACAAAAGC
8256161 AAAAGTAAAA
1 AAAAGTAAAA
*
8256171 AAAATTAAAA
1 AAAAGTAAAA
* *
8256181 AATAG-CAAA
1 AAAAGTAAAA
*
8256190 AAAAGAAAAA
1 AAAAGTAAAA
8256200 AAAAGTAAAA
1 AAAAGTAAAA
8256210 A
1 A
8256211 CAAAAAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (10 bp):
AAAAGTAAAA
Found at i:8256199 original size:19 final size:20
Alignment explanation
Indices: 8256177--8256222 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
8256167 AAAAAAAATT
8256177 AAAAAATAGCAAAAA-AAGAA
1 AAAAAATAGCAAAAACAA-AA
*
8256197 AAAAAA-AGTAAAAACAAAA
1 AAAAAATAGCAAAAACAAAA
8256216 AAAAAAT
1 AAAAAAT
8256223 TCTTTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.83, C:0.04, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAAATAGCAAAAACAAAA
Found at i:8256216 original size:18 final size:18
Alignment explanation
Indices: 8256149--8256221 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
8256139 GTAGTAAAAC
**
8256149 AAAAACAAAAGCAAAAGT
1 AAAAACAAAAAAAAAAGT
*
8256167 AAAAA-AAATTAAAAAATAGC
1 AAAAACAAA--AAAAAA-AGT
*
8256187 AAAAAAAGAAAAAAAAAGT
1 AAAAACA-AAAAAAAAAGT
8256206 AAAAACAAAAAAAAAA
1 AAAAACAAAAAAAAAA
8256222 TTCTTTTGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
17 3 0.07
18 14 0.31
19 12 0.27
20 13 0.29
21 1 0.02
22 2 0.04
ACGTcount: A:0.81, C:0.05, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAACAAAAAAAAAAGT
Found at i:8256219 original size:29 final size:29
Alignment explanation
Indices: 8256161--8256221 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
8256151 AAACAAAAGC
* * **
8256161 AAAAGTAAAAAAAATTAAAAAATAGCAAA
1 AAAAGAAAAAAAAAGTAAAAAATAAAAAA
*
8256190 AAAAGAAAAAAAAAGT-AAAAACAAAAAA
1 AAAAGAAAAAAAAAGTAAAAAATAAAAAA
8256218 AAAA
1 AAAA
8256222 TTCTTTTGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.08
Consensus pattern (29 bp):
AAAAGAAAAAAAAAGTAAAAAATAAAAAA
Found at i:8257883 original size:3 final size:3
Alignment explanation
Indices: 8257877--8257920 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
8257867 CTTCTACTTA
8257877 AAT AAT 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 AAT AAT AA
8257921 AATTACAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8264919 original size:78 final size:80
Alignment explanation
Indices: 8264759--8265006 Score: 270
Period size: 78 Copynumber: 3.1 Consensus size: 80
8264749 AAAAACACCA
* * * ** * *
8264759 TTCAGCAAACTATTCAACATATGATTTAGCCCTTCAATATCATACAAAACTATTCAGCAAAACAA
1 TTCAGCAAACCATTCAGCATATGATTCAGCCCCCCAATATCATACAATACCATTCAGCAAAACAA
8264824 TATCAGACAACAAGG
66 TATCAGACAACAAGG
* * * *
8264839 TTCAGCAAACCATTTAGCATATG-TTCAGCCCCCCAACATCATA-AATACCATTCGGCAATACAA
1 TTCAGCAAACCATTCAGCATATGATTCAGCCCCCCAATATCATACAATACCATTCAGCAAAACAA
* *
8264902 TATCATACAATAAGG
66 TATCAGACAACAAGG
* * * * * **
8264917 TTCAACAAACCATTCAGCATATGATTCAACCCCCAAATATCATACAATACTATACAATAAAA-AA
1 TTCAGCAAACCATTCAGCATATGATTCAGCCCCCCAATATCATACAATACCATTCAGCAAAACAA
*
8264981 -ATCAGACAGCAAGG
66 TATCAGACAACAAGG
*
8264995 TTCAACAAACCA
1 TTCAGCAAACCA
8265007 CAATATTTAA
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
78 73 0.53
79 35 0.25
80 31 0.22
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.23
Consensus pattern (80 bp):
TTCAGCAAACCATTCAGCATATGATTCAGCCCCCCAATATCATACAATACCATTCAGCAAAACAA
TATCAGACAACAAGG
Found at i:8275056 original size:134 final size:134
Alignment explanation
Indices: 8274696--8275059 Score: 464
Period size: 134 Copynumber: 2.7 Consensus size: 134
8274686 GTTTTTTTTA
* * ** * * *
8274696 TACAAACGCCACCAAAGCAACAACATTTTTCTCATAAAAATGCCACTAAATTAGAAACGTCTCAA
1 TACAAATGCCATCAAAGCAACGGCATTTTTCTCATAAAAATGCCACTAAATTAGCAGCATCTCAA
* * * *
8274761 AGATACAAACGTCGCTAATATAGAGGCATTTTCATATACAAACGCCTCCAAAGTAGCGACGTTTT
66 ATATACAAACGCCGCTAATATAGAGGCGTTTTCATATACAAACGCCTCCAAAGTAGCAACGTTTT
*
8274826 CATT
131 CAGT
* * * * *
8274830 TACAAATG-CTTCCAAAGCAACGGCATTTTTTTCATAAAAACT-TCATTAAATTAGCGGCATCTC
1 TACAAATGCCAT-CAAAGCAACGGCATTTTTCTCATAAAAA-TGCCACTAAATTAGCAGCATCTC
* * * *
8274893 AAATAAAAAAACGCCGCTAATATAGAGGCGTTTTCATATACAAATGCCTCTAAAGTAGCAACGTT
64 AAATATACAAACGCCGCTAATATAGAGGCGTTTTCATATACAAACGCCTCCAAAGTAGCAACGTT
8274958 TTCAGT
129 TTCAGT
* *
8274964 TACAAATGCCATCAAAGTAACGGCATTTTTCTCATAAAAATGCCACTAATTTAGCAGCATCTCAA
1 TACAAATGCCATCAAAGCAACGGCATTTTTCTCATAAAAATGCCACTAAATTAGCAGCATCTCAA
*
8275029 ATATACAAACGCCGCTAAAAT-GAAGGCGTTT
66 ATATACAAACGCCGCTAATATAG-AGGCGTTT
8275060 CAGATATAAA
Statistics
Matches: 194, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
133 3 0.02
134 188 0.97
135 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (134 bp):
TACAAATGCCATCAAAGCAACGGCATTTTTCTCATAAAAATGCCACTAAATTAGCAGCATCTCAA
ATATACAAACGCCGCTAATATAGAGGCGTTTTCATATACAAACGCCTCCAAAGTAGCAACGTTTT
CAGT
Found at i:8275311 original size:23 final size:23
Alignment explanation
Indices: 8275284--8275344 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
8275274 AGAAATAATT
*
8275284 TTTATATTATTGTCTATAT-TTTA
1 TTTATATTATT-TATATATATTTA
* *
8275307 TTTATTTTAGTTATATATATTTA
1 TTTATATTATTTATATATATTTA
8275330 TTTATTATTATTTAT
1 TTTA-TATTATTTAT
8275345 GTAAAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 6 0.19
23 17 0.55
24 8 0.26
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (23 bp):
TTTATATTATTTATATATATTTA
Found at i:8275326 original size:24 final size:24
Alignment explanation
Indices: 8275298--8275344 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
8275288 TATTATTGTC
8275298 TATAT-TTTATTTATT-TTAGTTA
1 TATATATTTATTTATTATTAGTTA
*
8275320 TATATATTTATTTATTATTATTTA
1 TATATATTTATTTATTATTAGTTA
8275344 T
1 T
8275345 GTAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 10 0.45
24 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TATATATTTATTTATTATTAGTTA
Found at i:8278322 original size:21 final size:20
Alignment explanation
Indices: 8278263--8278332 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
8278253 TTTCTCCAAT
*
8278263 TCTTTCTCTTTCCTCATTTTT
1 TCTTTCTCTTTCCTC-TTTTC
* *
8278284 TC-TT-TCTTTCTTTTTTTC
1 TCTTTCTCTTTCCTCTTTTC
8278302 TCTTTCCTCTTTCCTCTTTTC
1 TCTTT-CTCTTTCCTCTTTTC
*
8278323 ACTTT-TCTTT
1 TCTTTCTCTTT
8278333 TTCCTTCCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 6 0.15
19 14 0.35
20 2 0.05
21 18 0.45
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTTTCTCTTTCCTCTTTTC
Found at i:8297260 original size:79 final size:79
Alignment explanation
Indices: 8297129--8297287 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
8297119 GATTTTTCTG
8297129 TGCACAACTTTTTCTATGATATTTATATATATACCAAACATTTTTTCAATTGTTTGGAAGGTGAT
1 TGCACAACTTTTTCTATGATATTTATATATATACCAAACATTTTTTCAATTGTTTGGAAGGTGAT
8297194 CATCAAATGATCAT
66 CATCAAATGATCAT
*
8297208 TGCACAACTTTTTCTATGATATTTATATATATACGAAACATTTTTTCAATTGTTTGGAAGGTGAT
1 TGCACAACTTTTTCTATGATATTTATATATATACCAAACATTTTTTCAATTGTTTGGAAGGTGAT
*
8297273 CATCAAATGGTCAT
66 CATCAAATGATCAT
8297287 T
1 T
8297288 TGCATCATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (79 bp):
TGCACAACTTTTTCTATGATATTTATATATATACCAAACATTTTTTCAATTGTTTGGAAGGTGAT
CATCAAATGATCAT
Found at i:8297768 original size:51 final size:50
Alignment explanation
Indices: 8297693--8297790 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 50
8297683 AATTTGGGGT
* *
8297693 AATTTAAATGAAAGAAAATGAGGGAAAGTGAGAGGGACTCGTCATCCCCA
1 AATTTAAATGAAAGAAAATGAGGGAAAGTAAGAGGGACTCATCATCCCCA
* * *
8297743 AATTTAAAATGCAAGAAAGTGAGGGAAAGTAAGAGGGGCTCATCATCC
1 AATTT-AAATGAAAGAAAATGAGGGAAAGTAAGAGGGACTCATCATCC
8297791 TTCCATTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 5 0.12
51 37 0.88
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (50 bp):
AATTTAAATGAAAGAAAATGAGGGAAAGTAAGAGGGACTCATCATCCCCA
Found at i:8304976 original size:14 final size:14
Alignment explanation
Indices: 8304957--8304985 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8304947 TCTTTCTTTC
8304957 ATTATGATTTCCAA
1 ATTATGATTTCCAA
8304971 ATTATGATTTCCAA
1 ATTATGATTTCCAA
8304985 A
1 A
8304986 AGCCGGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (14 bp):
ATTATGATTTCCAA
Found at i:8306718 original size:20 final size:22
Alignment explanation
Indices: 8306670--8306725 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
8306660 TTATATCTTT
*
8306670 TTTTTTATATTTAAAATGCTTA
1 TTTTTTATATTTTAAATGCTTA
*
8306692 CTTTTTATATTTTAAA-G-TTA
1 TTTTTTATATTTTAAATGCTTA
8306712 TTTTTTATGATTTT
1 TTTTTTAT-ATTTT
8306726 TTTTTTTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.33
21 6 0.20
22 14 0.47
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTTTATATTTTAAATGCTTA
Found at i:8314800 original size:4 final size:4
Alignment explanation
Indices: 8314791--8314818 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8314781 AAATAAAAAT
8314791 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
8314819 GATAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:8315211 original size:38 final size:38
Alignment explanation
Indices: 8315110--8315370 Score: 222
Period size: 38 Copynumber: 6.8 Consensus size: 38
8315100 TACTTTTGAC
* *
8315110 AAGCTCCTTCA-AAATAAAGGCACATAACTTTAAAAATA
1 AAGCTCC-TCATAAATAAAGGCACACAACTTTAAACATA
* ** * * * *
8315148 ATGGCTTATCATCAATATAGACACACAACTTTAAACATG
1 A-AGCTCCTCATAAATAAAGGCACACAACTTTAAACATA
* * *
8315187 ACGCTCATCATAAATTAAGGCACACAACTTTAAACATA
1 AAGCTCCTCATAAATAAAGGCACACAACTTTAAACATA
** * *
8315225 AAGCTCCTCATAAATAAAGGTGCATAACTTGAAA-ATAA
1 AAGCTCCTCATAAATAAAGGCACACAACTTTAAACAT-A
* *
8315263 AAGCTCCTCATAAATAAAGGTATACAACTTTAAACATA
1 AAGCTCCTCATAAATAAAGGCACACAACTTTAAACATA
* * * *
8315301 AAGGC-CCTTTATCAATAAAGGCACATAACTTTAAAAATA
1 AA-GCTCC-TCATAAATAAAGGCACACAACTTTAAACATA
* * *
8315340 AGAGCTCTTCATAAATAGAGGCACATAACTT
1 A-AGCTCCTCATAAATAAAGGCACACAACTT
8315371 AAAAAAAAAA
Statistics
Matches: 178, Mismatches: 37, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
37 2 0.01
38 97 0.54
39 77 0.43
40 2 0.01
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.25
Consensus pattern (38 bp):
AAGCTCCTCATAAATAAAGGCACACAACTTTAAACATA
Found at i:8315376 original size:39 final size:39
Alignment explanation
Indices: 8315111--8315376 Score: 215
Period size: 39 Copynumber: 6.9 Consensus size: 39
8315101 ACTTTTGACA
8315111 AGCTCCTTCA-AAATAAAGGCACATAACTTTAAAAATAATG
1 AGCT-CTTCATAAATAAAGGCACATAACTTTAAAAATAA-G
* * * * *
8315151 -GCT-TATCATCAATATAGACACACAACTTTAAACAT--G
1 AGCTCT-TCATAAATAAAGGCACATAACTTTAAAAATAAG
* * * *
8315187 ACGCTCATCATAAATTAAGGCACACAACTTTAAACATAA-
1 A-GCTCTTCATAAATAAAGGCACATAACTTTAAAAATAAG
* ** * *
8315226 AGCTCCTCATAAATAAAGGTGCATAAC-TTGAAAATAAA
1 AGCTCTTCATAAATAAAGGCACATAACTTTAAAAATAAG
* * * * *
8315264 AGCTCCTCATAAATAAAGGTATACAACTTTAAACATAA-
1 AGCTCTTCATAAATAAAGGCACATAACTTTAAAAATAAG
* * *
8315302 AGGCCCTTTATCAATAAAGGCACATAACTTTAAAAATAAG
1 A-GCTCTTCATAAATAAAGGCACATAACTTTAAAAATAAG
* *
8315342 AGCTCTTCATAAATAGAGGCACATAACTTAAAAAA
1 AGCTCTTCATAAATAAAGGCACATAACTTTAAAAA
8315377 AAAAAGTAAC
Statistics
Matches: 180, Mismatches: 35, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
36 1 0.01
37 9 0.05
38 78 0.43
39 91 0.51
40 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (39 bp):
AGCTCTTCATAAATAAAGGCACATAACTTTAAAAATAAG
Found at i:8316510 original size:19 final size:20
Alignment explanation
Indices: 8316483--8316528 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
8316473 GAATTTTATT
8316483 TTTTATTTTCATTTTTAGT-C
1 TTTT-TTTTCATTTTTAGTCC
*
8316503 TTTTTTTTCATTTTTTGTCC
1 TTTTTTTTCATTTTTAGTCC
8316523 TTTTTT
1 TTTTTT
8316529 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCATTTTTAGTCC
Found at i:8316517 original size:20 final size:19
Alignment explanation
Indices: 8316483--8316528 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
8316473 GAATTTTATT
8316483 TTTTATTTTCATTTTTAGT-C
1 TTTT-TTTTCATTTTT-GTCC
8316503 TTTTTTTTCATTTTTTGTCC
1 TTTTTTTTCA-TTTTTGTCC
8316523 TTTTTT
1 TTTTTT
8316529 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCATTTTTGTCC
Found at i:8316533 original size:26 final size:27
Alignment explanation
Indices: 8316504--8316570 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 27
8316494 TTTTTAGTCT
8316504 TTTTTTTCATTTTTTGTCCTTT-TT-TC
1 TTTTTTTCATTTTTT-TCCTTTCTTATC
**
8316530 --TTTTTCATTTTTTTTGTTTGCTTATC
1 TTTTTTTCATTTTTTTCCTTT-CTTATC
8316556 TTTTTTTCATTTTTT
1 TTTTTTTCATTTTTT
8316571 CTTCTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 4 0.12
24 13 0.38
25 2 0.06
26 2 0.06
28 13 0.38
ACGTcount: A:0.06, C:0.12, G:0.04, T:0.78
Consensus pattern (27 bp):
TTTTTTTCATTTTTTTCCTTTCTTATC
Found at i:8320551 original size:60 final size:58
Alignment explanation
Indices: 8320465--8320634 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 58
8320455 TTAAAAATTT
*
8320465 TTTTTATTTTCAACGAAAATTGATACTTTCAACTTTTCCTCAAAAAATAGTTTTTAGAAA
1 TTTTTATTTTCAA-GAAAATTAATACTTTCAACTTTTCCTC-AAAAATAGTTTTTAGAAA
* * *
8320525 TTTTTATTTTCAAGAAAAATTAATACTATCAACTTTTTCTCAAAAATATTTTTTAGAAA
1 TTTTTATTTTCAAG-AAAATTAATACTTTCAACTTTTCCTCAAAAATAGTTTTTAGAAA
* * *
8320584 -TTTTATTTTCAAGGAAATTAATACTTTCAACTTTTCTTTAAAAAT-GTTTTT
1 TTTTTATTTTCAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATAGTTTTT
8320635 TTTTAATTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
56 5 0.05
57 27 0.27
58 13 0.13
59 18 0.18
60 36 0.36
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (58 bp):
TTTTTATTTTCAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATAGTTTTTAGAAA
Found at i:8320627 original size:57 final size:57
Alignment explanation
Indices: 8320466--8320649 Score: 217
Period size: 57 Copynumber: 3.2 Consensus size: 57
8320456 TAAAAATTTT
* * *
8320466 TTTTATTTTCAACGAAAATTGATACTTTCAACTTTTCCTCAAAAAATAGTTTTTAGAAA
1 TTTTATTTTCAA-GAAAATTAATACTTTCAACTTTT-CTTAAAAAATATTTTTTAGAAA
* *
8320525 TTTTTATTTTCAAGAAAAATTAATACTATCAACTTTT-TCTCAAAAATATTTTTTAGAAA
1 -TTTTATTTTCAAG-AAAATTAATACTTTCAACTTTTCT-TAAAAAATATTTTTTAGAAA
* * * ***
8320584 TTTTATTTTCAAGGAAATTAATACTTTCAACTTTTCTTTAAAAATGTTTTTTTTTAA
1 TTTTATTTTCAAGAAAATTAATACTTTCAACTTTTCTTAAAAAATATTTTTTAGAAA
8320641 TTTTATTTT
1 TTTTATTTT
8320650 ATATATATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
57 44 0.40
58 15 0.14
59 18 0.17
60 32 0.29
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.49
Consensus pattern (57 bp):
TTTTATTTTCAAGAAAATTAATACTTTCAACTTTTCTTAAAAAATATTTTTTAGAAA
Found at i:8320710 original size:16 final size:16
Alignment explanation
Indices: 8320686--8320719 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8320676 CAAAAATACT
8320686 CACAAAAATAAAACAA
1 CACAAAAATAAAACAA
*
8320702 CACATAAATAAAACAA
1 CACAAAAATAAAACAA
8320718 CA
1 CA
8320720 AACAAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.21, G:0.00, T:0.09
Consensus pattern (16 bp):
CACAAAAATAAAACAA
Found at i:8321318 original size:28 final size:27
Alignment explanation
Indices: 8321287--8321339 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
8321277 TCTGTTCTCT
8321287 TTTCTACTTTTGATTTTTTGCTCTTTTC
1 TTTCTACTTTTGATTTTTT-CTCTTTTC
**
8321315 TTTCTGTTTTTGATTTTTTCTCTTT
1 TTTCTACTTTTGATTTTTTCTCTTT
8321340 GTTTTTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.06, C:0.15, G:0.08, T:0.72
Consensus pattern (27 bp):
TTTCTACTTTTGATTTTTTCTCTTTTC
Found at i:8321326 original size:20 final size:20
Alignment explanation
Indices: 8321301--8321347 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8321291 TACTTTTGAT
8321301 TTTTTGCTCTTTTCT-TTCTG
1 TTTTTGCTCTTTTCTCTT-TG
* *
8321321 TTTTTGATTTTTTCTCTTTG
1 TTTTTGCTCTTTTCTCTTTG
8321341 TTTTTGC
1 TTTTTGC
8321348 ATTTCTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.02, C:0.15, G:0.11, T:0.72
Consensus pattern (20 bp):
TTTTTGCTCTTTTCTCTTTG
Found at i:8322121 original size:11 final size:11
Alignment explanation
Indices: 8322105--8322131 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
8322095 TTTTTAAAAT
8322105 TAATTTTCTAA
1 TAATTTTCTAA
8322116 TAATTTTCTAA
1 TAATTTTCTAA
8322127 TAATT
1 TAATT
8322132 AATCATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATTTTCTAA
Found at i:8328676 original size:22 final size:22
Alignment explanation
Indices: 8328651--8328693 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8328641 ACAATTTTGC
* *
8328651 TTGATTTATTTTGTGATAACAA
1 TTGATATACTTTGTGATAACAA
*
8328673 TTGATATGCTTTGTGATAACA
1 TTGATATACTTTGTGATAACA
8328694 TATCTTTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (22 bp):
TTGATATACTTTGTGATAACAA
Found at i:8328713 original size:16 final size:16
Alignment explanation
Indices: 8328694--8328729 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
8328684 TGTGATAACA
*
8328694 TATCTTTAACAATTGG
1 TATCTATAACAATTGG
8328710 TATCTATAACAATTGG
1 TATCTATAACAATTGG
8328726 TATC
1 TATC
8328730 AGCTTGTATG
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:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (16 bp):
TATCTATAACAATTGG
Found at i:8332099 original size:50 final size:52
Alignment explanation
Indices: 8332040--8332137 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 52
8332030 TTAGCGTGGA
* * *
8332040 TTTGGAATCCATCTT-TG-TTATTAAATGGGGGAAGACAGT-GAGATTGTGCT
1 TTTGGAATCCATATTATGCTGA-TAAATGGGGGAAGAAAGTGGAGATTGTGCT
*
8332090 TTTGGAATCCATATTATGCTGATAAATGGGTGAAGAAAGTGGAGATTG
1 TTTGGAATCCATATTATGCTGATAAATGGGGGAAGAAAGTGGAGATTG
8332138 AGCCTCTGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 14 0.34
51 18 0.44
52 9 0.22
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.34
Consensus pattern (52 bp):
TTTGGAATCCATATTATGCTGATAAATGGGGGAAGAAAGTGGAGATTGTGCT
Found at i:8335303 original size:22 final size:22
Alignment explanation
Indices: 8335260--8335307 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
8335250 TTAGTTAAAT
* **
8335260 TTTACGTTTTAAGTTTTGATTA
1 TTTACGTTTTAAATTTAAATTA
8335282 CTTTA-GTTTTAAATTTAAATTA
1 -TTTACGTTTTAAATTTAAATTA
8335304 TTTA
1 TTTA
8335308 AATTCGAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 14 0.64
23 4 0.18
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.58
Consensus pattern (22 bp):
TTTACGTTTTAAATTTAAATTA
Found at i:8335307 original size:15 final size:15
Alignment explanation
Indices: 8335289--8335359 Score: 67
Period size: 14 Copynumber: 4.7 Consensus size: 15
8335279 TTACTTTAGT
8335289 TTTAAATTTAAATTA
1 TTTAAATTTAAATTA
**
8335304 TTTAAATTCGAA-TA
1 TTTAAATTTAAATTA
8335318 TTTAAATTTAAATT-
1 TTTAAATTTAAATTA
*
8335332 GTTAAATTTTAAAATTAA
1 TTTAAA-TTT-AAATT-A
8335350 TTT-AATTTAA
1 TTTAAATTTAA
8335360 GTATAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
14 17 0.38
15 16 0.36
16 8 0.18
17 2 0.04
18 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTAAATTTAAATTA
Found at i:8336628 original size:13 final size:13
Alignment explanation
Indices: 8336610--8336652 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
8336600 TTTAAACATC
8336610 ATATAATAATATA
1 ATATAATAATATA
*
8336623 ATATAATAACATA
1 ATATAATAATATA
*
8336636 ATATAAATATTATA
1 ATAT-AATAATATA
8336650 ATA
1 ATA
8336653 AAAATACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAATAATATA
Found at i:8336736 original size:22 final size:22
Alignment explanation
Indices: 8336617--8336736 Score: 57
Period size: 22 Copynumber: 5.2 Consensus size: 22
8336607 ATCATATAAT
* *
8336617 AATATAATATAATAACATAATATA
1 AATATTATAT-ATAAAATAA-ATA
8336641 AATATTATA-ATAAAAATACAA-A
1 AATATTATATAT-AAAATA-AATA
*
8336663 AATATTATAATTTAAATATAAATTA
1 AATATTAT-ATATAAA-ATAAA-TA
* *** **
8336688 TAATATCATAT-TTTTATTTATA
1 -AATATTATATATAAAATAAATA
*
8336710 CATATTATATATAAAATAAATA
1 AATATTATATATAAAATAAATA
8336732 AATAT
1 AATAT
8336737 AAATACATAA
Statistics
Matches: 70, Mismatches: 17, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
21 8 0.11
22 23 0.33
23 15 0.21
24 14 0.20
25 3 0.04
26 7 0.10
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
AATATTATATATAAAATAAATA
Found at i:8337032 original size:17 final size:16
Alignment explanation
Indices: 8337006--8337042 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
8336996 ATTTTACAAT
8337006 AATATTTAAAATAATA
1 AATATTTAAAATAATA
8337022 AATATTATAAAATAATA
1 AATATT-TAAAATAATA
8337039 AATA
1 AATA
8337043 AATAACAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATTTAAAATAATA
Found at i:8338715 original size:23 final size:23
Alignment explanation
Indices: 8338663--8338734 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
8338653 TTTAAATGTG
*
8338663 AAAAAAAGACAATTTTATAATTTTT
1 AAAAAAATACAATTTTAT--TTTTT
*
8338688 --TAAAATACAATTTTATTTTTT
1 AAAAAAATACAATTTTATTTTTT
* *
8338709 AAAAAAATTA-AAGTTTATTTTAT
1 AAAAAAA-TACAATTTTATTTTTT
8338732 AAA
1 AAA
8338735 CTTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.13
23 32 0.82
24 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (23 bp):
AAAAAAATACAATTTTATTTTTT
Found at i:8342201 original size:21 final size:18
Alignment explanation
Indices: 8342175--8342217 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
8342165 CGTGTTGAAG
8342175 GTTTGTTCTTTCTTTTCTTTT
1 GTTTG-TCTTT-TTTT-TTTT
8342196 GTTTGTCTTTTTTTTTTT
1 GTTTGTCTTTTTTTTTTT
8342214 -TTTG
1 GTTTG
8342218 AATTTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 4 0.18
19 4 0.18
20 5 0.23
21 5 0.23
ACGTcount: A:0.00, C:0.09, G:0.12, T:0.79
Consensus pattern (18 bp):
GTTTGTCTTTTTTTTTTT
Found at i:8353550 original size:15 final size:15
Alignment explanation
Indices: 8353532--8353602 Score: 67
Period size: 14 Copynumber: 4.7 Consensus size: 15
8353522 TACTTTAGTT
8353532 TTTAAATTTAAATTA
1 TTTAAATTTAAATTA
**
8353547 TTTAAATTCGAA-TA
1 TTTAAATTTAAATTA
8353561 TTTAAATTTAAATT-
1 TTTAAATTTAAATTA
*
8353575 GTTAAATTTTAAAATTAA
1 TTTAAA-TTT-AAATT-A
8353593 TTT-AATTTAA
1 TTTAAATTTAA
8353603 GTATAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
14 17 0.38
15 16 0.36
16 8 0.18
17 2 0.04
18 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTAAATTTAAATTA
Found at i:8354876 original size:13 final size:13
Alignment explanation
Indices: 8354852--8354889 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
8354842 TATAATTTTA
*
8354852 AACATCATATAAT
1 AACATAATATAAT
*
8354865 AATATAATATAAT
1 AACATAATATAAT
8354878 AACATAATATAA
1 AACATAATATAA
8354890 AATTTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
AACATAATATAAT
Found at i:8355264 original size:15 final size:16
Alignment explanation
Indices: 8355244--8355279 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8355234 TTTATTTTAC
8355244 AATAATATT-TAAAAT
1 AATAATATTATAAAAT
8355259 AATAATATTATAAAAT
1 AATAATATTATAAAAT
8355275 AATAA
1 AATAA
8355280 ATAAATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATATTATAAAAT
Found at i:8356957 original size:23 final size:23
Alignment explanation
Indices: 8356905--8356976 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
8356895 TTTAAATGTG
*
8356905 AAAAAAAGACAATTTTATAATTTTT
1 AAAAAAATACAATTTTAT--TTTTT
*
8356930 --TAAAATACAATTTTATTTTTT
1 AAAAAAATACAATTTTATTTTTT
* *
8356951 AAAAAAATTA-AAGTTTATTTTAT
1 AAAAAAA-TACAATTTTATTTTTT
8356974 AAA
1 AAA
8356977 CTTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.13
23 32 0.82
24 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (23 bp):
AAAAAAATACAATTTTATTTTTT
Found at i:8360441 original size:21 final size:21
Alignment explanation
Indices: 8360415--8360461 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8360405 CGTGTTGAAG
*
8360415 GTTTGTTCTTTCTTTTCTTTT
1 GTTTGTCCTTTCTTTTCTTTT
* *
8360436 GTTTGTCCTTTTTTTTTTTTT
1 GTTTGTCCTTTCTTTTCTTTT
*
8360457 TTTTG
1 GTTTG
8360462 AATTTTGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.79
Consensus pattern (21 bp):
GTTTGTCCTTTCTTTTCTTTT
Found at i:8371204 original size:100 final size:104
Alignment explanation
Indices: 8371040--8371359 Score: 303
Period size: 100 Copynumber: 3.1 Consensus size: 104
8371030 ACAAAAAATG
* * ** * * * *
8371040 TCAAACAGATAAAAAAATTAAATGTCAAATACTGCATTTTTGTTCAAAAAAATGCAATAATTGTC
1 TCAAATAGACAAAAAAA-TAAATACCAAATACTACATTTCTGTTCAAAAAAATTCAGTAATTGTC
8371105 ATACCTATAATAAATGTTCATTAAATAAAAAACCATCAAA
65 ATACCTATAATAAATGTTCATTAAATAAAAAACCATCAAA
* * *
8371145 TC-AATAG-CAAAAAAA-AAATGCTAAATA-T-TATGTTCTGTTCAAAAAAATTCAGTAATTGTC
1 TCAAATAGACAAAAAAATAAATACCAAATACTACAT-TTCTGTTCAAAAAAATTCAGTAATTGTC
* * * *
8371205 ATACCCATAATAAATGCTT-ATTAAATCAAAAGCTATCAAA
65 ATACCTATAATAAATG-TTCATTAAATAAAAAACCATCAAA
* * * *
8371245 TCAAATAGATAAAAAAATTAAATACCAAATACTACATTTTTGTTAAAAAAAAATGT-AGTAATTA
1 TCAAATAGACAAAAAAA-TAAATACCAAATACTACATTTCTGTT-CAAAAAAAT-TCAGTAATTG
* * * * *
8371309 CCATACCTATAATAAATGCTCATTAAAAAGAAAAAACCATTAAG
63 TCATACCTATAATAAATGTTCATT--AAATAAAAAACCATCAAA
8371353 TCAAATA
1 TCAAATA
8371360 TTATGCTTTT
Statistics
Matches: 174, Mismatches: 28, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
99 2 0.01
100 61 0.35
101 17 0.10
102 7 0.04
103 7 0.04
104 14 0.08
105 10 0.06
106 36 0.21
107 1 0.01
108 19 0.11
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (104 bp):
TCAAATAGACAAAAAAATAAATACCAAATACTACATTTCTGTTCAAAAAAATTCAGTAATTGTCA
TACCTATAATAAATGTTCATTAAATAAAAAACCATCAAA
Found at i:8373308 original size:21 final size:22
Alignment explanation
Indices: 8373255--8373324 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 22
8373245 AATAATTTAT
8373255 TATTTTAAAAAATTG--ATA-A
1 TATTTTAAAAAATTGAAATATA
* *
8373274 -ATTCT-AAAAGTTGAAA-ACTA
1 TATTTTAAAAAATTGAAATA-TA
8373294 T-TTTTAAAAAATTGAAATATA
1 TATTTTAAAAAATTGAAATATA
8373315 TATTTTAAAA
1 TATTTTAAAA
8373325 GAAATATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
17 7 0.18
18 5 0.13
19 1 0.03
20 4 0.10
21 13 0.33
22 9 0.23
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (22 bp):
TATTTTAAAAAATTGAAATATA
Found at i:8373340 original size:17 final size:18
Alignment explanation
Indices: 8373307--8373347 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
8373297 TTAAAAAATT
*
8373307 GAAATATATATTTTAAAA
1 GAAATATATAATTTAAAA
8373325 GAAATAT-TAATTTAAAA
1 GAAATATATAATTTAAAA
*
8373342 AAAATA
1 GAAATA
8373348 AAATTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
GAAATATATAATTTAAAA
Found at i:8374502 original size:2 final size:2
Alignment explanation
Indices: 8374495--8374521 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8374485 GCTATAGTAA
8374495 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
8374522 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8374526 original size:2 final size:2
Alignment explanation
Indices: 8374521--8374552 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8374511 ACACACACAC
8374521 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
8374553 TAAACAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8375449 original size:14 final size:14
Alignment explanation
Indices: 8375430--8375457 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8375420 TCCATCACTG
8375430 ATATTAACAGAGAT
1 ATATTAACAGAGAT
8375444 ATATTAACAGAGAT
1 ATATTAACAGAGAT
8375458 TTGAGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
ATATTAACAGAGAT
Found at i:8375789 original size:20 final size:20
Alignment explanation
Indices: 8375760--8375807 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
8375750 TTGAATTGAA
8375760 GATGTAGATATTGACTTTACT
1 GATGT-GATATTGACTTTACT
8375781 GATGTGATATTGACTTTACT
1 GATGTGATATTGACTTTACT
*
8375801 AATGTGA
1 GATGTGA
8375808 CATTATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (20 bp):
GATGTGATATTGACTTTACT
Found at i:8376604 original size:26 final size:25
Alignment explanation
Indices: 8376578--8376651 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
8376568 AATTGAAAAT
8376578 TTTTTTAAAAAAAATTGAAATATAA
1 TTTTTTAAAAAAAATTGAAATATAA
* *
8376603 TTTTTTACAAATAAAA-AGAAATATTA
1 TTTTTTA-AAA-AAAATTGAAATATAA
* *
8376629 TTTTTTAAAACAAATTAAAATAT
1 TTTTTTAAAAAAAATTGAAATAT
8376652 TGGAAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
24 3 0.07
25 16 0.39
26 18 0.44
27 4 0.10
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (25 bp):
TTTTTTAAAAAAAATTGAAATATAA
Found at i:8381362 original size:34 final size:34
Alignment explanation
Indices: 8381292--8381362 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
8381282 GTACTTTAGG
* *
8381292 AAATAAAATAACTTAATTGGACATGTATATTCAA
1 AAATAAAATAACTTAATTGGACATGCATATTAAA
* *
8381326 AAATAAAATAA-TTCAATTTGACATGCATTTTAAA
1 AAATAAAATAACTT-AATTGGACATGCATATTAAA
8381360 AAA
1 AAA
8381363 GATAATGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.32
Consensus pattern (34 bp):
AAATAAAATAACTTAATTGGACATGCATATTAAA
Found at i:8384984 original size:21 final size:21
Alignment explanation
Indices: 8384958--8385006 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
8384948 TGGATTGCAT
8384958 GCAGAAGACAAGGCAGCTAAA
1 GCAGAAGACAAGGCAGCTAAA
8384979 GCAGAAGACAAGGCAGCTAAA
1 GCAGAAGACAAGGCAGCTAAA
*
8385000 GCTGAAG
1 GCAGAAG
8385007 CCCTTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.18, G:0.31, T:0.06
Consensus pattern (21 bp):
GCAGAAGACAAGGCAGCTAAA
Found at i:8386301 original size:43 final size:43
Alignment explanation
Indices: 8386240--8386323 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
8386230 AGGCTAAATA
* * *
8386240 TGATGGTTAACGGTGTGGTTAAATGGTCATTTAATCTTATATT
1 TGATGGCTAAAGGTGTGGTTAAATGGTAATTTAATCTTATATT
*
8386283 TGATGGCTAAAGGTGTGGTTAAATGTTAATTTAATCTTATA
1 TGATGGCTAAAGGTGTGGTTAAATGGTAATTTAATCTTATA
8386324 CAGGCTCTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.43
Consensus pattern (43 bp):
TGATGGCTAAAGGTGTGGTTAAATGGTAATTTAATCTTATATT
Found at i:8393811 original size:22 final size:22
Alignment explanation
Indices: 8393785--8393828 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8393775 TGTATATTTA
*
8393785 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
8393807 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
8393829 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:8393901 original size:23 final size:23
Alignment explanation
Indices: 8393873--8393922 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
8393863 AGGATCAGTT
8393873 TTTAGAAAGATTTAGTTTCCTAG
1 TTTAGAAAGATTTAGTTTCCTAG
8393896 TTTAGAAAGATTTAGTTTCCTAG
1 TTTAGAAAGATTTAGTTTCCTAG
8393919 TTTA
1 TTTA
8393923 ACATCTAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (23 bp):
TTTAGAAAGATTTAGTTTCCTAG
Found at i:8397880 original size:22 final size:22
Alignment explanation
Indices: 8397854--8397897 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8397844 TGTATATTTA
* *
8397854 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCCAGAATTAAG
8397876 TATTTGTATCCCCAGAATTAAG
1 TATTTGTATCCCCAGAATTAAG
8397898 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTTGTATCCCCAGAATTAAG
Found at i:8398078 original size:25 final size:26
Alignment explanation
Indices: 8398042--8398090 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
8398032 TATACATTCA
8398042 GTTTTTTCTCTTAG-TTTTCCACACT
1 GTTTTTTCTCTTAGTTTTTCCACACT
8398067 GTTTTATT-TCTTAGTTTTTCCACA
1 GTTTT-TTCTCTTAGTTTTTCCACA
8398091 GAAATTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.14, C:0.20, G:0.08, T:0.57
Consensus pattern (26 bp):
GTTTTTTCTCTTAGTTTTTCCACACT
Found at i:8403791 original size:11 final size:11
Alignment explanation
Indices: 8403775--8403799 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8403765 TCATTTTTCA
8403775 TATTTTTATAT
1 TATTTTTATAT
8403786 TATTTTTATAT
1 TATTTTTATAT
8403797 TAT
1 TAT
8403800 GTTACCATAA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTTATAT
Found at i:8426585 original size:18 final size:18
Alignment explanation
Indices: 8426562--8426625 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
8426552 TTATCCACCA
8426562 CAAATGTATCTTCTACCT
1 CAAATGTATCTTCTACCT
* *
8426580 CAAATGTAT-TCTCCACTT
1 CAAATGTATCT-TCTACCT
8426598 CAAATGTATCATT-TACCAT
1 CAAATGTATC-TTCTACC-T
8426617 -AAATGTATC
1 CAAATGTATC
8426626 ATCCACCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.03
18 34 0.89
19 2 0.05
20 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (18 bp):
CAAATGTATCTTCTACCT
Found at i:8426595 original size:36 final size:36
Alignment explanation
Indices: 8426550--8426638 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 36
8426540 TCTATAAGGT
*
8426550 TATTATCCACCACAAATGTATC-TTCTACC-TCAAATG
1 TATTCTCCACCACAAATGTATCATT-TACCAT-AAATG
**
8426586 TATTCTCCACTTCAAATGTATCATTTACCATAAATG
1 TATTCTCCACCACAAATGTATCATTTACCATAAATG
8426622 TA-TCATCCACCACAAAT
1 TATTC-TCCACCACAAAT
8426639 ATATTATCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 2 0.04
36 40 0.89
37 3 0.07
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (36 bp):
TATTCTCCACCACAAATGTATCATTTACCATAAATG
Found at i:8426633 original size:18 final size:18
Alignment explanation
Indices: 8426554--8426638 Score: 59
Period size: 18 Copynumber: 4.7 Consensus size: 18
8426544 TAAGGTTATT
*
8426554 ATCCACCACAAATGTATC
1 ATCCACCATAAATGTATC
* *
8426572 TTCTACC-TCAAATGTATTC
1 ATCCACCAT-AAATGTA-TC
*
8426591 -TCCA-CTTCAAATGTATC
1 ATCCACCAT-AAATGTATC
**
8426608 ATTTACCATAAATGTATC
1 ATCCACCATAAATGTATC
*
8426626 ATCCACCACAAAT
1 ATCCACCATAAAT
8426639 ATATTATCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
17 3 0.06
18 45 0.87
19 4 0.08
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (18 bp):
ATCCACCATAAATGTATC
Found at i:8439595 original size:23 final size:24
Alignment explanation
Indices: 8439525--8439604 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
8439515 TATTTAGAAT
* *
8439525 ATATATTTTTATTGAATAATATAA
1 ATATATTTTTATTGAATAAAATTA
*
8439549 ATTATTATTTTAGATT-AATTAAAATTA
1 A-TA-TATTTT-TATTGAA-TAAAATTA
8439576 ATATATTTTTATTGAA-AAAA-T-
1 ATATATTTTTATTGAATAAAATTA
8439597 ATATATTT
1 ATATATTT
8439605 GTAAAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
21 8 0.17
22 1 0.02
23 4 0.09
24 4 0.09
25 10 0.21
26 10 0.21
27 10 0.21
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
ATATATTTTTATTGAATAAAATTA
Found at i:8442421 original size:16 final size:16
Alignment explanation
Indices: 8442400--8442435 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8442390 TTAATGATAT
8442400 TAAATTAAATAAAATA
1 TAAATTAAATAAAATA
**
8442416 TAAATTAGTTAAAATA
1 TAAATTAAATAAAATA
8442432 TAAA
1 TAAA
8442436 ATAATTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TAAATTAAATAAAATA
Found at i:8443160 original size:49 final size:48
Alignment explanation
Indices: 8443107--8443217 Score: 106
Period size: 47 Copynumber: 2.3 Consensus size: 48
8443097 TGCATTTTTA
8443107 ATTTTTAAGATTACTCTTTT-TTATAATTAGTTTGATATTT-T-TAATATAT
1 ATTTTTAAGATTACT-TTTTATT-TAATTAGTTT-ATATTTATGTAA-ATAT
* * *
8443156 ATTTTGAACATTA-TTTTTATTTAATTTGTTTATATTTATGTAAATAT
1 ATTTTTAAGATTACTTTTTATTTAATTAGTTTATATTTATGTAAATAT
8443203 AGTTTTATAAG-TTAC
1 A-TTTT-TAAGATTAC
8443218 AGCTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
46 6 0.12
47 19 0.37
48 13 0.25
49 13 0.25
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.58
Consensus pattern (48 bp):
ATTTTTAAGATTACTTTTTATTTAATTAGTTTATATTTATGTAAATAT
Found at i:8448234 original size:20 final size:19
Alignment explanation
Indices: 8448199--8448261 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 19
8448189 TAAATATGCA
8448199 AAAATATCATGAAATAATAT
1 AAAATATCATGAAATAA-AT
8448219 AAAATATCAT-ACAATAAAT
1 AAAATATCATGA-AATAAAT
*
8448238 AATATTAATCATGTAAATAAAT
1 AA-AAT-ATCATG-AAATAAAT
8448260 AA
1 AA
8448262 TTAATTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
19 5 0.14
20 17 0.46
21 5 0.14
22 9 0.24
23 1 0.03
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATATCATGAAATAAAT
Found at i:8448266 original size:20 final size:22
Alignment explanation
Indices: 8448231--8448274 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
8448221 AATATCATAC
8448231 AATAAATAATATTAATCATGTA
1 AATAAATAATATTAATCATGTA
*
8448253 AATAAAT-A-ATTAATTATGTA
1 AATAAATAATATTAATCATGTA
8448273 AA
1 AA
8448275 GATAAATACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
AATAAATAATATTAATCATGTA
Found at i:8448444 original size:21 final size:21
Alignment explanation
Indices: 8448420--8448530 Score: 107
Period size: 21 Copynumber: 5.2 Consensus size: 21
8448410 AACAAAATAG
8448420 AAAAAACAAAAAATGAAAAAT
1 AAAAAACAAAAAATGAAAAAT
*** *
8448441 AAAAATGGAAAAATGTAAAAT
1 AAAAAACAAAAAATGAAAAAT
* * * *
8448462 GAAAGACAAAAAATAAAAAAC
1 AAAAAACAAAAAATGAAAAAT
8448483 AAAAAACAAAAAAATAGAAAAAT
1 AAAAAAC-AAAAAAT-GAAAAAT
*
8448506 AAAAAACAAAAAGT-AGAAAAT
1 AAAAAACAAAAAATGA-AAAAT
8448527 AAAA
1 AAAA
8448531 TAAAATAAAA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
20 1 0.01
21 44 0.63
22 13 0.19
23 12 0.17
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (21 bp):
AAAAAACAAAAAATGAAAAAT
Found at i:8448479 original size:7 final size:7
Alignment explanation
Indices: 8448420--8448530 Score: 71
Period size: 7 Copynumber: 15.6 Consensus size: 7
8448410 AACAAAATAG
*
8448420 AAAAAAC
1 AAAAAAT
8448427 AAAAAAT
1 AAAAAAT
*
8448434 GAAAAAT
1 AAAAAAT
8448441 -AAAAAT
1 AAAAAAT
*
8448447 GGAAAAAT
1 -AAAAAAT
**
8448455 GTAAAAT
1 AAAAAAT
* * *
8448462 GAAAGAC
1 AAAAAAT
8448469 AAAAAAT
1 AAAAAAT
*
8448476 AAAAAAC
1 AAAAAAT
*
8448483 AAAAAACA
1 AAAAAA-T
8448491 AAAAAAT
1 AAAAAAT
8448498 AGAAAAAT
1 A-AAAAAT
*
8448506 AAAAAAC
1 AAAAAAT
*
8448513 AAAAAGT
1 AAAAAAT
*
8448520 AGAAAAT
1 AAAAAAT
8448527 AAAA
1 AAAA
8448531 TAAAATAAAA
Statistics
Matches: 82, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
6 6 0.07
7 57 0.70
8 19 0.23
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (7 bp):
AAAAAAT
Found at i:8448517 original size:14 final size:14
Alignment explanation
Indices: 8448398--8448540 Score: 81
Period size: 14 Copynumber: 9.8 Consensus size: 14
8448388 AATAATAATA
*
8448398 AAAACAATACAAAAC
1 AAAA-AATAAAAAAC
* *
8448413 AAAATAGAAAAAAC
1 AAAAAATAAAAAAC
*
8448427 AAAAAATGAAAAA-
1 AAAAAATAAAAAAC
* * *
8448440 TAAAAATGGAAAAAT
1 AAAAAAT-AAAAAAC
** * *
8448455 GTAAAATGAAAGAC
1 AAAAAATAAAAAAC
8448469 AAAAAATAAAAAAC
1 AAAAAATAAAAAAC
* *
8448483 AAAAAACAAAAAAAT
1 AAAAAA-TAAAAAAC
8448498 AGAAAAATAAAAAAC
1 A-AAAAATAAAAAAC
* *
8448513 AAAAAGTAGAAAATAA
1 AAAAAATA-AAAA-AC
8448529 AATAAAATAAAA
1 AA-AAAATAAAA
8448541 TCAAATCAAA
Statistics
Matches: 99, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
13 6 0.06
14 50 0.51
15 27 0.27
16 11 0.11
17 5 0.05
ACGTcount: A:0.77, C:0.06, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAAATAAAAAAC
Found at i:8449761 original size:18 final size:18
Alignment explanation
Indices: 8449718--8449762 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
8449708 TTTGACTCAC
*
8449718 AATAAAAAACAAAATTAA
1 AATAAAAATCAAAATTAA
*
8449736 AATTAAAATCAAAATTAA
1 AATAAAAATCAAAATTAA
*
8449754 GATAAAAAT
1 AATAAAAAT
8449763 TTTTGGGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
AATAAAAATCAAAATTAA
Found at i:8450065 original size:38 final size:38
Alignment explanation
Indices: 8449988--8450201 Score: 175
Period size: 38 Copynumber: 5.6 Consensus size: 38
8449978 TCTTCAATAA
* * * * *
8449988 AGGCTTGAAATTTTGAAAAATAAAATAGTCCTTCATCG
1 AGGCTTTAACTTTTGAAAAATAAAGTACTTCTTCATCG
* * *
8450026 AGGCTTTGACTTTTGAAAAATAAAGTACTTTTTCGTCG
1 AGGCTTTAACTTTTGAAAAATAAAGTACTTCTTCATCG
* **
8450064 AGGCTTAAACTTTCAAAAAATAAAGTAC-TCTTC-TACTG
1 AGGCTTTAACTTTTGAAAAATAAAGTACTTCTTCAT-C-G
* * * *
8450102 A-GTTTTCAACTTTTGAAAAATAAAATACTTCTCCATCA
1 AGGCTTT-AACTTTTGAAAAATAAAGTACTTCTTCATCG
* * *
8450140 AGGCTTTGACTTTTGAAAAGTAAAGTACTT-TTCTACCG
1 AGGCTTTAACTTTTGAAAAATAAAGTACTTCTTC-ATCG
* * *
8450178 AAGCTTCAACTTTTAAAAAATAAA
1 AGGCTTTAACTTTTGAAAAATAAA
8450202 ATGGATATCT
Statistics
Matches: 137, Mismatches: 32, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
36 1 0.01
37 10 0.07
38 116 0.85
39 9 0.07
40 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (38 bp):
AGGCTTTAACTTTTGAAAAATAAAGTACTTCTTCATCG
Found at i:8450114 original size:76 final size:76
Alignment explanation
Indices: 8450034--8450203 Score: 198
Period size: 76 Copynumber: 2.2 Consensus size: 76
8450024 CGAGGCTTTG
* * * * *
8450034 ACTTTTGAAAAATAAAGTACTTTTTCGTCGAGGCTTAAACTTTCAAAAAATAAAGTACTCTTCTA
1 ACTTTTGAAAAATAAAATACTTCTCCATCAAGGCTTAAACTTTCAAAAAATAAAGTACTCTTCTA
* *
8450099 CTG-AGTTTTCA
66 CCGAAG-CTTCA
** ** * *
8450110 ACTTTTGAAAAATAAAATACTTCTCCATCAAGGCTTTGACTTTTGAAAAGTAAAGTACTTTTCTA
1 ACTTTTGAAAAATAAAATACTTCTCCATCAAGGCTTAAACTTTCAAAAAATAAAGTACTCTTCTA
8450175 CCGAAGCTTCA
66 CCGAAGCTTCA
*
8450186 ACTTTTAAAAAATAAAAT
1 ACTTTTGAAAAATAAAAT
8450204 GGATATCTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
76 77 0.97
77 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (76 bp):
ACTTTTGAAAAATAAAATACTTCTCCATCAAGGCTTAAACTTTCAAAAAATAAAGTACTCTTCTA
CCGAAGCTTCA
Found at i:8453263 original size:18 final size:18
Alignment explanation
Indices: 8453221--8453264 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
8453211 TTTGACTCAC
8453221 AATAAAAA-CAAAATTAA
1 AATAAAAATCAAAATTAA
*
8453238 AATTAAAATCAAAATTAA
1 AATAAAAATCAAAATTAA
*
8453256 GATAAAAAT
1 AATAAAAAT
8453265 TTTTGGGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (18 bp):
AATAAAAATCAAAATTAA
Found at i:8457311 original size:20 final size:20
Alignment explanation
Indices: 8457288--8457330 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
8457278 ATTCTCTAAC
8457288 TGCCCCTTTAGTTCTTCTTG
1 TGCCCCTTTAGTTCTTCTTG
8457308 TGCCCCTTTAGTTCTTCTTG
1 TGCCCCTTTAGTTCTTCTTG
8457328 TGC
1 TGC
8457331 TTTTTCAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.05, C:0.30, G:0.16, T:0.49
Consensus pattern (20 bp):
TGCCCCTTTAGTTCTTCTTG
Found at i:8459421 original size:20 final size:20
Alignment explanation
Indices: 8459389--8459443 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
8459379 TATCATGTAG
8459389 TAAATAA-TAATCATGCAAA
1 TAAATAATTAATCATGCAAA
*
8459408 TAAATAATTAATCATACAAA
1 TAAATAATTAATCATGCAAA
8459428 TAAATAATTAATCATG
1 TAAATAATTAATCATG
8459444 TGAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (20 bp):
TAAATAATTAATCATGCAAA
Found at i:8459475 original size:15 final size:15
Alignment explanation
Indices: 8459446--8459478 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8459436 TAATCATGTG
8459446 AAAATAAATTCCATA
1 AAAATAAATTCCATA
8459461 AAAACTAAATT-CATA
1 AAAA-TAAATTCCATA
8459476 AAA
1 AAA
8459479 TATATCATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATAAATTCCATA
Found at i:8459574 original size:17 final size:15
Alignment explanation
Indices: 8459554--8459652 Score: 78
Period size: 16 Copynumber: 6.3 Consensus size: 15
8459544 AACTCATAAG
8459554 TAAATAATAAATAATAA
1 TAAATAA-AAATAA-AA
8459571 TAAA-AACAAATAAACA
1 TAAATAA-AAATAAA-A
*
8459587 AAAATAAAAAATAAAA
1 TAAAT-AAAAATAAAA
* *
8459603 TAAA-ATAAATAGAA
1 TAAATAAAAATAAAA
8459617 -AAATAAAAATAAAA
1 TAAATAAAAATAAAA
8459631 TAAAATAAAAATTAAAAA
1 T-AAATAAAAA-T-AAAA
8459649 TAAA
1 TAAA
8459653 ACAAAAAAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
13 3 0.04
14 16 0.24
15 1 0.01
16 25 0.37
17 15 0.22
18 7 0.10
ACGTcount: A:0.78, C:0.02, G:0.01, T:0.19
Consensus pattern (15 bp):
TAAATAAAAATAAAA
Found at i:8459625 original size:23 final size:22
Alignment explanation
Indices: 8459559--8459653 Score: 102
Period size: 23 Copynumber: 4.1 Consensus size: 22
8459549 ATAAGTAAAT
*
8459559 AATAAATAATAATAAAAACAAATAA
1 AATAAATAA-AA-AATAA-AAATAA
*
8459584 ACAAAAATAAAAAAT-AAAATAA
1 A-ATAAATAAAAAATAAAAATAA
8459606 AATAAATAGAAAAATAAAAATAA
1 AATAAATA-AAAAATAAAAATAA
*
8459629 AATAAAATAAAAATTAAAAATAA
1 AAT-AAATAAAAAATAAAAATAA
8459652 AA
1 AA
8459654 CAAAAAAGAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
21 6 0.10
22 13 0.21
23 26 0.42
24 7 0.11
25 3 0.05
26 7 0.11
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.18
Consensus pattern (22 bp):
AATAAATAAAAAATAAAAATAA
Found at i:8459648 original size:7 final size:6
Alignment explanation
Indices: 8459555--8459653 Score: 80
Period size: 6 Copynumber: 16.3 Consensus size: 6
8459545 ACTCATAAGT
* * *
8459555 AAATAA TAAATAA TAATAA AAACAAA TAAACAA AAATAA AAA-ATA AAAT-A
1 AAATAA -AAATAA AAATAA AAA-TAA -AAATAA AAATAA AAATA-A AAATAA
* *
8459605 AAATAA ATAGAA AAATAA AAAT-A AAAT-A AAATAA AAATTAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TAA AAATAA
8459652 AA
1 AA
8459654 CAAAAAAGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
5 16 0.21
6 41 0.54
7 16 0.21
8 3 0.04
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:8459653 original size:5 final size:5
Alignment explanation
Indices: 8459562--8459640 Score: 63
Period size: 5 Copynumber: 14.6 Consensus size: 5
8459552 AGTAAATAAT
8459562 AAATA ATAATA AAA-A CAAATA AACA-A AAATAAA AAATA AAATA AAATA
1 AAATA A-AATA AAATA -AAATA AA-ATA AAAT--A AAATA AAATA AAATA
*
8459610 AATAGAA AAATAA AAATA AAATA AAATA AAA
1 AA-A-TA AAAT-A AAATA AAATA AAATA AAA
8459641 ATTAAAAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
4 2 0.03
5 38 0.61
6 14 0.23
7 8 0.13
ACGTcount: A:0.80, C:0.03, G:0.01, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:8459658 original size:28 final size:28
Alignment explanation
Indices: 8459562--8459653 Score: 100
Period size: 28 Copynumber: 3.3 Consensus size: 28
8459552 AGTAAATAAT
* *
8459562 AAATAATAATAAAA-ACAAAT--AAACAA
1 AAATAAAAATAAAATA-AAATAAAAAGAA
*
8459588 AAATAAAAAATAAAATAAAATAAATAGAA
1 AAAT-AAAAATAAAATAAAATAAAAAGAA
*
8459617 AAATAAAAATAAAATAAAATAAAAATTAA
1 AAATAAAAATAAAATAAAATAAAAA-GAA
8459646 AAATAAAA
1 AAATAAAA
8459654 CAAAAAAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
26 4 0.07
27 13 0.23
28 21 0.38
29 18 0.32
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.17
Consensus pattern (28 bp):
AAATAAAAATAAAATAAAATAAAAAGAA
Found at i:8459665 original size:17 final size:16
Alignment explanation
Indices: 8459572--8459665 Score: 57
Period size: 17 Copynumber: 5.6 Consensus size: 16
8459562 AAATAATAAT
*
8459572 AAAAACAAAT-AAACAA
1 AAAAAAAAATAAAAC-A
*
8459588 AAATAAAAAATAAAATA
1 AAA-AAAAAATAAAACA
* *
8459605 AAATAAATAGA-AAAATA
1 AAA-AAA-AAATAAAACA
* *
8459622 AAAATAAAATAAAATA
1 AAAAAAAAATAAAACA
8459638 AAAATTAAAAATAAAACA
1 AAAA--AAAAATAAAACA
8459656 AAAAAGAAAA
1 AAAAA-AAAA
8459666 GCAAAAACCT
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
15 2 0.03
16 16 0.25
17 27 0.42
18 19 0.30
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAAAAAAATAAAACA
Found at i:8460852 original size:6 final size:6
Alignment explanation
Indices: 8460841--8460886 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
8460831 CACAATAAAA
* *
8460841 AAAATT AAAATT AAAATT AAAATC AAAATC AAAATTT AAAATT AAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA-TT AAAATT AAA
8460887 TCAAACTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (6 bp):
AAAATT
Found at i:8460868 original size:18 final size:18
Alignment explanation
Indices: 8460841--8460896 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
8460831 CACAATAAAA
*
8460841 AAAATTAAAATTAAAATT
1 AAAATTAAAATCAAAATT
*
8460859 AAAATCAAAATCAAAATTT
1 AAAATTAAAATCAAAA-TT
*
8460878 AAAATT-AAATCAAACTT
1 AAAATTAAAATCAAAATT
8460895 AA
1 AA
8460897 GATAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.12
18 22 0.67
19 7 0.21
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTAAAATCAAAATT
Done.