Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 50 of 100
Found at i:9204678 original size:31 final size:30
Alignment explanation
Indices: 9204643--9204713 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
9204633 ATATTTAAAT
*
9204643 TTATATAATTACA-TCATACTTTATATAAAAA
1 TTATATAATTA-ATTCATAC-TAATATAAAAA
* *
9204674 TTATAAAATATAATTTATACTAATATAAAAA
1 TTATATAAT-TAATTCATACTAATATAAAAA
9204705 -TATATAATT
1 TTATATAATT
9204714 TATTTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 1 0.03
30 7 0.21
31 19 0.56
32 7 0.21
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (30 bp):
TTATATAATTAATTCATACTAATATAAAAA
Found at i:9204692 original size:23 final size:25
Alignment explanation
Indices: 9204666--9204716 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
9204656 TCATACTTTA
*
9204666 TATAAAAAT-TATAAA-ATATAATT
1 TATAAAAATATAAAAATATATAATT
**
9204689 TATACTAATATAAAAATATATAATT
1 TATAAAAATATAAAAATATATAATT
9204714 TAT
1 TAT
9204717 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 7 0.30
24 5 0.22
25 11 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TATAAAAATATAAAAATATATAATT
Found at i:9204792 original size:13 final size:13
Alignment explanation
Indices: 9204774--9204845 Score: 71
Period size: 13 Copynumber: 5.7 Consensus size: 13
9204764 TTATATATTT
*
9204774 TTTATATCATATA
1 TTTATATTATATA
9204787 TTTATATT-T-TA
1 TTTATATTATATA
9204798 TTTATATTATATCA
1 TTTATATTATAT-A
9204812 -TTATATTATAT-
1 TTTATATTATATA
* *
9204823 TTTAAATTATTAAA
1 TTTATATTA-TATA
9204837 TTTATATTA
1 TTTATATTA
9204846 ATAATGTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 10 0.20
12 9 0.18
13 21 0.43
14 9 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATATTATATA
Found at i:9204801 original size:24 final size:24
Alignment explanation
Indices: 9204763--9204824 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
9204753 AAAATTTTAA
9204763 ATTATATATTT-TTTATATCATAT-
1 ATTATAT-TTTATTTATATCATATC
*
9204786 ATTTATATTTTATTTATATTATATC
1 A-TTATATTTTATTTATATCATATC
*
9204811 ATTATATTATATTT
1 ATTATATTTTATTT
9204825 TAAATTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 4 0.12
24 29 0.85
25 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATATTTTATTTATATCATATC
Found at i:9204805 original size:11 final size:11
Alignment explanation
Indices: 9204783--9204824 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
9204773 TTTTATATCA
9204783 TATATTTATAT
1 TATATTTATAT
*
9204794 TTTATTTATAT
1 TATATTTATAT
9204805 TATATCATTATAT
1 TATAT--TTATAT
9204818 TATATTT
1 TATATTT
9204825 TAAATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
13 11 0.41
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:9207926 original size:21 final size:21
Alignment explanation
Indices: 9207900--9207955 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
9207890 GAGGTAGGAA
9207900 GAAAAAAAATGAAACAAGAG-AG
1 GAAAAAAAA--AAACAAGAGAAG
*
9207922 GAAAAGAAAAAAATAAGAGAAG
1 GAAAA-AAAAAAACAAGAGAAG
*
9207944 GAGAAAAAAAAA
1 GAAAAAAAAAAA
9207956 GTTGACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 15 0.50
22 11 0.37
23 4 0.13
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (21 bp):
GAAAAAAAAAAACAAGAGAAG
Found at i:9208027 original size:29 final size:30
Alignment explanation
Indices: 9207994--9208050 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9207984 TTAACGTAGG
9207994 AAGAAGAAAGAG-AGAAGAGAAAAGAAATA
1 AAGAAGAAAGAGAAGAAGAGAAAAGAAATA
* *
9208023 AAGAAGAAAGAGAAGAAGTGAGAAGAAA
1 AAGAAGAAAGAGAAGAAGAGAAAAGAAA
9208051 AAGAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.04
Consensus pattern (30 bp):
AAGAAGAAAGAGAAGAAGAGAAAAGAAATA
Found at i:9208039 original size:25 final size:23
Alignment explanation
Indices: 9207994--9208070 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 23
9207984 TTAACGTAGG
*
9207994 AAGAAGAAAGAGAGAAGAGAAAAGA
1 AAGAA-AAAGAAAGAA-AGAAAAGA
* **
9208019 AATAAAGAAGAAAGAGAAGAAGTGA
1 AAGAAA-AAGAAAGA-AAGAAAAGA
9208044 GAAGAAAAAGAAAGAAA-AAAAGA
1 -AAGAAAAAGAAAGAAAGAAAAGA
9208067 AAGA
1 AAGA
9208071 GAGAGAATCT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
22 4 0.10
23 4 0.10
24 3 0.07
25 25 0.60
26 6 0.14
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAGAAAAGA
Found at i:9208046 original size:32 final size:30
Alignment explanation
Indices: 9207994--9208077 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 30
9207984 TTAACGTAGG
*
9207994 AAGAAGAAAGAG-AGAAGAGAA-AAGAAATA
1 AAGAAGAAAGAGAAGAAGAGAAGAA-AAAGA
9208023 AAGAAGAAAGAGAAGAAGTGAGAAGAAAAAGA
1 AAGAAGAAAGAGAAGAA--GAGAAGAAAAAGA
*
9208055 AAGAA-AAAAAGAAAGAGAGAGAA
1 AAGAAGAAAGAG-AAGA-AGAGAA
9208078 TCTTTGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
29 12 0.26
30 4 0.09
31 10 0.21
32 18 0.38
33 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (30 bp):
AAGAAGAAAGAGAAGAAGAGAAGAAAAAGA
Found at i:9208048 original size:37 final size:37
Alignment explanation
Indices: 9207995--9208077 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
9207985 TAACGTAGGA
* *
9207995 AGAAGAAAGAGAGAAGAGAAAAGAAA-TAAAGAAGAAAG
1 AGAAG-AAGAGAGAAGA-AAAAGAAAGAAAAAAAGAAAG
*
9208033 AGAAGAAGTGAGAAGAAAAAGAAAGAAAAAAAGAAAG
1 AGAAGAAGAGAGAAGAAAAAGAAAGAAAAAAAGAAAG
9208070 AGAGAGAA
1 AGA-AGAA
9208078 TCTTTGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 8 0.20
37 23 0.57
38 9 0.22
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (37 bp):
AGAAGAAGAGAGAAGAAAAAGAAAGAAAAAAAGAAAG
Found at i:9208074 original size:29 final size:30
Alignment explanation
Indices: 9207993--9208074 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 30
9207983 TTTAACGTAG
* *
9207993 GAAGAAGAAAGAGAGAAGAGAAAAGAAATAAA
1 GAAGAA-AAAAAGA-AAGAGAGAAGAAATAAA
* *
9208025 GAAGAAAGAGAAG-AAGTGAGAAG-AA-AAA
1 GAAGAAA-AAAAGAAAGAGAGAAGAAATAAA
9208053 GAAAGAAAAAAAGAAAGAGAGA
1 G-AAGAAAAAAAGAAAGAGAGA
9208075 GAATCTTTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
28 8 0.20
29 15 0.37
30 8 0.20
31 1 0.02
32 9 0.22
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (30 bp):
GAAGAAAAAAAGAAAGAGAGAAGAAATAAA
Found at i:9208271 original size:24 final size:24
Alignment explanation
Indices: 9208207--9208278 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 24
9208197 AGGCTTTGAA
*
9208207 AAAAAAAAGCTTT-AAAATGTTAAC
1 AAAAAAAAGCTTTGAAAA-GTCAAC
*
9208231 AAAAAAACGGTAGCTTTGAAAAGTCAAT
1 AAAAAAA----AGCTTTGAAAAGTCAAC
9208259 AAAAAAAAGCTTTGAAAAGT
1 AAAAAAAAGCTTTGAAAAGT
9208279 AAAACTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 20 0.49
28 17 0.41
29 4 0.10
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.22
Consensus pattern (24 bp):
AAAAAAAAGCTTTGAAAAGTCAAC
Found at i:9209115 original size:24 final size:24
Alignment explanation
Indices: 9209088--9209139 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9209078 AAAAGAAATC
*
9209088 AAAACCCTCGAAATTTCAAACCTT
1 AAAACCCTCGAAACTTCAAACCTT
* *
9209112 AAAACCCTTGAAACTTGAAACCTT
1 AAAACCCTCGAAACTTCAAACCTT
9209136 AAAA
1 AAAA
9209140 TCCTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (24 bp):
AAAACCCTCGAAACTTCAAACCTT
Found at i:9210376 original size:2 final size:2
Alignment explanation
Indices: 9210369--9210402 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9210359 GAAAGTTGAA
* *
9210369 AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9210403 CTCTTGCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:9210609 original size:32 final size:31
Alignment explanation
Indices: 9210573--9210635 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
9210563 TTTTACAACC
*
9210573 AAAATTGATGGGTTATAACTTTTTAATGTTAT
1 AAAATTGATGGGATATAAC-TTTTAATGTTAT
* *
9210605 AAAATTGATGTGATATAACTTTTAATTTTAT
1 AAAATTGATGGGATATAACTTTTAATGTTAT
9210636 TGTGAAGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.48
Consensus pattern (31 bp):
AAAATTGATGGGATATAACTTTTAATGTTAT
Found at i:9211275 original size:19 final size:19
Alignment explanation
Indices: 9211246--9211297 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
9211236 AACTCGATCG
*
9211246 AATTC-AAATTAAATATCG
1 AATTCAAAATTAAATATCA
*
9211264 AA-TCATAAATTAAAAATCA
1 AATTCA-AAATTAAATATCA
9211283 AATTCAAAATTAAAT
1 AATTCAAAATTAAAT
9211298 TTGAACTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 21 0.75
20 3 0.11
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTCAAAATTAAATATCA
Found at i:9213885 original size:25 final size:25
Alignment explanation
Indices: 9213856--9213913 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
9213846 TTTTTTTACA
9213856 TTTTCATTATACTAATTTGCTATAT
1 TTTTCATTATACTAATTTGCTATAT
9213881 TTTTCATTATACTAATTTGCTATAT
1 TTTTCATTATACTAATTTGCTATAT
9213906 TTTTCATT
1 TTTTCATT
9213914 CCACTTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.03, T:0.59
Consensus pattern (25 bp):
TTTTCATTATACTAATTTGCTATAT
Found at i:9216452 original size:22 final size:22
Alignment explanation
Indices: 9216418--9216473 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
9216408 ACTACACATA
*
9216418 TTTAAAATTTAATTTACATGTTTT
1 TTTAAAA-TTAA-TTACAGGTTTT
9216442 TTTAAAA-TAATTACAGGTTTT
1 TTTAAAATTAATTACAGGTTTT
*
9216463 TTGAATAATTA
1 TTTAA-AATTA
9216474 TAAATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 14 0.50
22 5 0.18
23 2 0.07
24 7 0.25
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTAAAATTAATTACAGGTTTT
Found at i:9216825 original size:22 final size:21
Alignment explanation
Indices: 9216800--9216844 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
9216790 TTATAAGCTT
9216800 ATTATCAA-ATTAATAGACAAAA
1 ATTAT-AACATTAATAGA-AAAA
*
9216822 ATTATAACTTTAATAGAAAAA
1 ATTATAACATTAATAGAAAAA
9216843 AT
1 AT
9216845 GCTTGATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (21 bp):
ATTATAACATTAATAGAAAAA
Found at i:9219243 original size:24 final size:24
Alignment explanation
Indices: 9219179--9219250 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 24
9219169 AGGCTTTGAA
*
9219179 AAAAAAAAGCTTT-AAAACGTTAAC
1 AAAAAAAAGCTTTGAAAA-GTCAAC
*
9219203 AAAAAAACGGTAGCTTTGAAAAGTCAAT
1 AAAAAAA----AGCTTTGAAAAGTCAAC
9219231 AAAAAAAAGCTTTGAAAAGT
1 AAAAAAAAGCTTTGAAAAGT
9219251 AAAACCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 20 0.49
28 17 0.41
29 4 0.10
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.21
Consensus pattern (24 bp):
AAAAAAAAGCTTTGAAAAGTCAAC
Found at i:9219291 original size:23 final size:22
Alignment explanation
Indices: 9219217--9219306 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 22
9219207 AAACGGTAGC
*
9219217 TTTGAAAAGTCAATAAAAAAAAGC
1 TTTGAAAAGT-AA-AAAAAAAAGT
******
9219241 TTTGAAAAGT-AAAACCTTTTT
1 TTTGAAAAGTAAAAAAAAAAGT
9219262 TTTGAAAAGTAAAAGAAAAAAGT
1 TTTGAAAAGTAAAA-AAAAAAGT
9219285 TTTGAAAAGTAAAAAAAAAAGT
1 TTTGAAAAGTAAAAAAAAAAGT
9219307 GCTTTGAACA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
21 13 0.25
22 12 0.24
23 16 0.31
24 10 0.20
ACGTcount: A:0.56, C:0.04, G:0.13, T:0.27
Consensus pattern (22 bp):
TTTGAAAAGTAAAAAAAAAAGT
Found at i:9220106 original size:24 final size:24
Alignment explanation
Indices: 9220056--9220124 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
9220046 AAAAAAAATC
9220056 AAAACCCTTGAAATCTCAAAACCTT
1 AAAACCCTTGAAA-CTCAAAACCTT
** *
9220081 AAAACCCTTGAAACTTGAAACTTT
1 AAAACCCTTGAAACTCAAAACCTT
* * *
9220105 AAAATCCTTAAAACCCAAAA
1 AAAACCCTTGAAACTCAAAA
9220125 ATTTAAAATC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAACCCTTGAAACTCAAAACCTT
Found at i:9220129 original size:24 final size:23
Alignment explanation
Indices: 9220102--9220147 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9220092 AACTTGAAAC
9220102 TTTAAAATCCTTAAAACCCAAAAA
1 TTTAAAATCC-TAAAACCCAAAAA
*
9220126 TTTAAAATCCTAAAATCCAAAA
1 TTTAAAATCCTAAAACCCAAAA
9220148 CCCTAAACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAATCCTAAAACCCAAAAA
Found at i:9221265 original size:22 final size:22
Alignment explanation
Indices: 9221240--9221283 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9221230 ATTTTTTATC
9221240 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
*
9221262 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGGGATACAAATA
9221284 TAAGTATATA
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:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGGGATACAAATA
Found at i:9221304 original size:8 final size:8
Alignment explanation
Indices: 9221293--9221325 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
9221283 ATAAGTATAT
9221293 AGATTACA
1 AGATTACA
9221301 AGATTACA
1 AGATTACA
9221309 AGATTACA
1 AGATTACA
9221317 AGATTACA
1 AGATTACA
9221325 A
1 A
9221326 TCGACTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
AGATTACA
Found at i:9225145 original size:24 final size:26
Alignment explanation
Indices: 9225099--9225146 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
9225089 CCTTGATACC
*
9225099 ATGTGTAAAAATTAAGAAATAAAAAT
1 ATGTGTAAAAACTAAGAAATAAAAAT
*
9225125 ATGTG-AAAAACTAA-AAGTAAAA
1 ATGTGTAAAAACTAAGAAATAAAA
9225147 CTGAAAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 8 0.40
26 5 0.25
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.23
Consensus pattern (26 bp):
ATGTGTAAAAACTAAGAAATAAAAAT
Found at i:9227034 original size:23 final size:24
Alignment explanation
Indices: 9227008--9227053 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
9226998 TCATATATTT
9227008 TATTTTAATTA-AATATTTTTGCA
1 TATTTTAATTATAATATTTTTGCA
* *
9227031 TATTTTTATTATGATATTTTTGC
1 TATTTTAATTATAATATTTTTGC
9227054 TTGATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (24 bp):
TATTTTAATTATAATATTTTTGCA
Found at i:9231438 original size:26 final size:26
Alignment explanation
Indices: 9231402--9231454 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
9231392 TCCAAACCTA
9231402 TGCCCACGAGTGCTCATGGATGGGTT
1 TGCCCACGAGTGCTCATGGATGGGTT
*
9231428 TGCCCATGAGTGCTCATGGATGGGTT
1 TGCCCACGAGTGCTCATGGATGGGTT
9231454 T
1 T
9231455 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (26 bp):
TGCCCACGAGTGCTCATGGATGGGTT
Found at i:9233299 original size:22 final size:22
Alignment explanation
Indices: 9233274--9233322 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
9233264 TATTTACATA
9233274 TTTATATTTTAAAAAATAAAAT
1 TTTATATTTTAAAAAATAAAAT
*
9233296 TTTATATTTTAAAAAATAATAT
1 TTTATATTTTAAAAAATAAAAT
9233318 TTTAT
1 TTTAT
9233323 TAATTTCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTATATTTTAAAAAATAAAAT
Found at i:9234516 original size:13 final size:13
Alignment explanation
Indices: 9234498--9234538 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
9234488 CCATTTGGGC
*
9234498 TTATTTAGAAATT
1 TTATTTATAAATT
**
9234511 TTATTTATTTATT
1 TTATTTATAAATT
9234524 TTATTTATAAATT
1 TTATTTATAAATT
9234537 TT
1 TT
9234539 TCACCATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
TTATTTATAAATT
Found at i:9235841 original size:43 final size:43
Alignment explanation
Indices: 9235805--9235913 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
9235795 TTAAGTAGAT
* *
9235805 ACTCAACAACTTTGAAAAATAAATAATGCTATTTTAAACAGAG
1 ACTCAACAACTTTGAAAAATAAATAATACTACTTTAAACAGAG
* * * * *
9235848 GCTCAACAATTTTGAAGAATAAATAATACTCCTCTAAACAGAG
1 ACTCAACAACTTTGAAAAATAAATAATACTACTTTAAACAGAG
*
9235891 ACTTAACAACTTTGAAAAATAAA
1 ACTCAACAACTTTGAAAAATAAA
9235914 GGCTCCTCTA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.27
Consensus pattern (43 bp):
ACTCAACAACTTTGAAAAATAAATAATACTACTTTAAACAGAG
Found at i:9235942 original size:40 final size:40
Alignment explanation
Indices: 9235876--9235994 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
9235866 ATAAATAATA
* *
9235876 CTCCTCTAAACAGAGACTTAACAACTTTGAAAAATAAAGG
1 CTCCTCTAAACAGAGGCATAACAACTTTGAAAAATAAAGG
** * *
9235916 CTCCTCTAAGTAGAGGC-TAAATAACTTT-AGAAAATAAATG
1 CTCCTCTAAACAGAGGCAT-AACAACTTTGA-AAAATAAAGG
*
9235956 TTCCTCTAAACAGAGGCATAACAACTTTTGAAAAATAAA
1 CTCCTCTAAACAGAGGCATAACAAC-TTTGAAAAATAAA
9235995 AGGCCCATCG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.03
40 50 0.77
41 12 0.18
42 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.25
Consensus pattern (40 bp):
CTCCTCTAAACAGAGGCATAACAACTTTGAAAAATAAAGG
Found at i:9236781 original size:138 final size:136
Alignment explanation
Indices: 9236539--9236907 Score: 387
Period size: 138 Copynumber: 2.7 Consensus size: 136
9236529 ATTTCACATC
* * *
9236539 TCAAAGATTCTCATTTGAA-A-CTTAAAAATTCTCATTTAAAGACTCAAAGATTCTCATTTGAAA
1 TCAAAGATTCTCATTTGAAGATCTTAAAGATTCTTATTT-AAGACTTAAAGATTCTCATTTGAAA
* * * ** *
9236602 A--CTCAAAGATTCTCATTTGAAAACTAAAAGATTCTCATTTGAGGATTTCTTACAA-ATTTTCA
65 AGTCTTAAAGATTCTCATTT-AAGACTAAAAAATTCTCATTTGAAAATGTCTTA-AAGATTTTCA
9236664 TTTAAGA-T
128 TTTAAGACT
* * *
9236672 TCAAAGATTCTCATTTGAAGATTTCTTAAAGATTTTTATTTAAGACTTAAAGGTTTTCATTTGAA
1 TCAAAGATTCTCATTTGAAGA--TCTTAAAGATTCTTATTTAAGACTTAAAGATTCTCATTTGAA
* *
9236737 AATGTCTTAAAGACTCTCATTTAAGACTAAAAAATTCTCATTTGAAAATGTCTTAAAGATTTTCG
64 AA-GTCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTGAAAATGTCTTAAAGATTTTCA
9236802 TTTAAGACT
128 TTTAAGACT
* * *
9236811 T-TAAGGTTTTCATTT-AAGAACGTCTTAAAGATTCTTATTTAAGA-TTCAAAGATTCTCATTTG
1 TCAAAGATTCTCATTTGAAG-A--TCTTAAAGATTCTTATTTAAGACTT-AAAGATTCTCATTTG
* * * *
9236873 ACAAGTTATTAAAGATTCTTATTTAAGACTCAAAA
62 AAAAG-TCTTAAAGATTCTCATTTAAGACTAAAAA
9236908 CTTCATCAAA
Statistics
Matches: 197, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
133 19 0.10
134 1 0.01
136 23 0.12
137 22 0.11
138 115 0.58
139 17 0.09
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (136 bp):
TCAAAGATTCTCATTTGAAGATCTTAAAGATTCTTATTTAAGACTTAAAGATTCTCATTTGAAAA
GTCTTAAAGATTCTCATTTAAGACTAAAAAATTCTCATTTGAAAATGTCTTAAAGATTTTCATTT
AAGACT
Found at i:9236906 original size:46 final size:45
Alignment explanation
Indices: 9236538--9236906 Score: 324
Period size: 46 Copynumber: 8.1 Consensus size: 45
9236528 GATTTCACAT
* *
9236538 CTCAAAGATTCTCATTTG-AAA--CTTAAAAATTCTCATTTAAAGA
1 CTCAAAGATTCTCATTTGAAAATTCTTAAAGATTCTTATTT-AAGA
* * *
9236581 CTCAAAGATTCTCATTTGAAAA--CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAATTCTTAAAGATTCTTATTT-AAGA
* * *
9236625 CTAAAAGATTCTCATTTGAGGATTTCTTACAA-ATT-TTCATTTAAGA
1 CTCAAAGATTCTCATTTGA-AAATTCTTA-AAGATTCTT-ATTTAAGA
* * *
9236671 TTCAAAGATTCTCATTTGAAGATTTCTTAAAGATTTTTATTTAAGA
1 CTCAAAGATTCTCATTTGAA-AATTCTTAAAGATTCTTATTTAAGA
* * * * *
9236717 CTTAAAGGTTTTCATTTGAAAATGTCTTAAAGACTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAAT-TCTTAAAGATTCTTATTTAAGA
* * *
9236763 CTAAAAAATTCTCATTTGAAAATGTCTTAAAGATT-TTCGTTTAAGA
1 CTCAAAGATTCTCATTTGAAAAT-TCTTAAAGATTCTT-ATTTAAGA
** * * *
9236809 CTTTAAGGTTTTCATTT-AAGAACGTCTTAAAGATTCTTATTTAAGA
1 CTCAAAGATTCTCATTTGAA-AA-TTCTTAAAGATTCTTATTTAAGA
* * *
9236855 TTCAAAGATTCTCATTTGACAAGTTATTAAAGATTCTTATTTAAGA
1 CTCAAAGATTCTCATTTGA-AAATTCTTAAAGATTCTTATTTAAGA
9236901 CTCAAA
1 CTCAAA
9236907 ACTTCATCAA
Statistics
Matches: 266, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
43 18 0.07
44 39 0.15
45 8 0.03
46 182 0.68
47 16 0.06
48 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (45 bp):
CTCAAAGATTCTCATTTGAAAATTCTTAAAGATTCTTATTTAAGA
Found at i:9237573 original size:79 final size:79
Alignment explanation
Indices: 9237417--9237597 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 79
9237407 TCTGTCTTCT
* * ** *
9237417 ATCACTTGGTCACTACTCACAAACTTCTCAGCACTAACCATTTTAGAACAAATTTTGCCCATTGA
1 ATCACTTGATCACTATTCACAAACTTCTCAGCACTAACCATTCCAAAACAAATTTTGCCCATTGA
* * *
9237482 TCTACATTATTTTC
66 CCCACATCATTTTC
* * * *
9237496 ATCACTTGATCACTATTCACAAGCTTCTCAGCACTAGCCATTCCAAAACAAGTTTTGTCCATT-A
1 ATCACTTGATCACTATTCACAAACTTCTCAGCACTAACCATTCCAAAACAAATTTTGCCCATTGA
9237560 CCCCACATCATTTTC
66 -CCCACATCATTTTC
* *
9237575 ATCATTTGACCAC-ATCTCACAAA
1 ATCACTTGATCACTAT-TCACAAA
9237598 TTATGTCAAC
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 3 0.04
79 82 0.96
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (79 bp):
ATCACTTGATCACTATTCACAAACTTCTCAGCACTAACCATTCCAAAACAAATTTTGCCCATTGA
CCCACATCATTTTC
Found at i:9238246 original size:10 final size:10
Alignment explanation
Indices: 9238197--9238248 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
9238187 AGTCTTCCTT
*
9238197 TTTTTTTTTT
1 TTTTTTTTTC
9238207 TTTTTATTTTC
1 TTTTT-TTTTC
*
9238218 TCTCTTTTTTC
1 T-TTTTTTTTC
* *
9238229 ATCTTTTTTC
1 TTTTTTTTTC
9238239 TTTTTTTTTC
1 TTTTTTTTTC
9238249 CTTCATCCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 22 0.63
11 10 0.29
12 3 0.09
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:9238608 original size:13 final size:12
Alignment explanation
Indices: 9238592--9238632 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
9238582 ATGACATTCA
*
9238592 TTTTTCTTTTCT
1 TTTTTTTTTTCT
9238604 TTTTTTTCTTTCT
1 TTTTTTT-TTTCT
9238617 TTCTTTTTTTTCT
1 TT-TTTTTTTTCT
9238630 TTT
1 TTT
9238633 ATTTGAGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 7 0.27
13 14 0.54
14 5 0.19
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:9238612 original size:9 final size:9
Alignment explanation
Indices: 9238593--9238632 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
9238583 TGACATTCAT
9238593 TTTTCTTTTC
1 TTTT-TTTTC
9238603 TTTTTTTTC
1 TTTTTTTTC
*
9238612 -TTTCTTTC
1 TTTTTTTTC
9238620 TTTTTTTTC
1 TTTTTTTTC
9238629 TTTT
1 TTTT
9238633 ATTTGAGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 7 0.26
9 16 0.59
10 4 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:9238621 original size:17 final size:18
Alignment explanation
Indices: 9238594--9238631 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
9238584 GACATTCATT
9238594 TTTCTTTTCTTTTTTTTC
1 TTTCTTTTCTTTTTTTTC
9238612 TTTC-TTTCTTTTTTTTC
1 TTTCTTTTCTTTTTTTTC
9238629 TTT
1 TTT
9238632 TATTTGAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTCTTTTCTTTTTTTTC
Found at i:9242971 original size:223 final size:224
Alignment explanation
Indices: 9242577--9243032 Score: 887
Period size: 223 Copynumber: 2.0 Consensus size: 224
9242567 TTCTTAAAAA
*
9242577 TTTACTATTTGAAAATTTTAAGAATATCATCCTTGGGTAATTTATACTTAATTCCAAAATTTTTA
1 TTTATTATTTGAAAATTTTAAGAATATCATCCTTGGGTAATTTATACTTAATTCCAAAATTTTTA
9242642 TCAATATTTTTTTTTATTTTTTATTTTTTGTTTTGAAAATAAGTATTAATTATTGTTATTAAAAT
66 TCAATATTTTTTTTTATTTTTTATTTTTTGTTTTGAAAATAAGTATTAATTATTGTTATTAAAAT
*
9242707 ATTATCTAAATTATTTCACAATTTGAGATAAATTTAGACAAAATTTCTTATCTAGGAGTTTCCTA
131 ATTATCTAAATTATTTCACAATTTGAGATAAATTTAGACAAAATTTCTTACCTAGGAGTTTCCTA
9242772 GAAATTTACCATTTAAAATTTCTATAAAT
196 GAAATTTACCATTTAAAATTTCTATAAAT
9242801 TTTATTATTTGAAAATTTTAAGAATATCATCCTTGGGTAATTTATACTTAATTCCAAAATTTTTA
1 TTTATTATTTGAAAATTTTAAGAATATCATCCTTGGGTAATTTATACTTAATTCCAAAATTTTTA
9242866 TCAATA-TTTTTTTTATTTTTTATTTTTTGTTTTGAAAATAAGTATTAATTATTGTTATTAAAAT
66 TCAATATTTTTTTTTATTTTTTATTTTTTGTTTTGAAAATAAGTATTAATTATTGTTATTAAAAT
9242930 ATTATCTAAATTATTTCACAATTTGAGATAAATTTAGACAAAATTTCTTACCTAGGAGTTTCCTA
131 ATTATCTAAATTATTTCACAATTTGAGATAAATTTAGACAAAATTTCTTACCTAGGAGTTTCCTA
9242995 GAAATTTACCATTTAAAATTTCTATAAAT
196 GAAATTTACCATTTAAAATTTCTATAAAT
9243024 TTTATTATT
1 TTTATTATT
9243033 GGATAATTAA
Statistics
Matches: 230, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
223 160 0.70
224 70 0.30
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (224 bp):
TTTATTATTTGAAAATTTTAAGAATATCATCCTTGGGTAATTTATACTTAATTCCAAAATTTTTA
TCAATATTTTTTTTTATTTTTTATTTTTTGTTTTGAAAATAAGTATTAATTATTGTTATTAAAAT
ATTATCTAAATTATTTCACAATTTGAGATAAATTTAGACAAAATTTCTTACCTAGGAGTTTCCTA
GAAATTTACCATTTAAAATTTCTATAAAT
Found at i:9243560 original size:9 final size:8
Alignment explanation
Indices: 9243544--9243571 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
9243534 CTTAACTACC
9243544 TATTTTTT
1 TATTTTTT
9243552 TATTTTTT
1 TATTTTTT
9243560 TATTTTTT
1 TATTTTTT
9243568 TATT
1 TATT
9243572 AACAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TATTTTTT
Found at i:9255875 original size:14 final size:14
Alignment explanation
Indices: 9255844--9255885 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
9255834 TTATTATTTG
9255844 TTCTTTCTTT-TTC
1 TTCTTTCTTTCTTC
9255857 TTCTTCTCTTTCTTC
1 TTCTT-TCTTTCTTC
9255872 -TCTTTCTTTTCTTC
1 TTCTTTC-TTTCTTC
9255886 CCGTTTCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.27
14 16 0.62
15 3 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTCTTTCTTC
Found at i:9256137 original size:108 final size:108
Alignment explanation
Indices: 9255970--9256182 Score: 309
Period size: 108 Copynumber: 2.0 Consensus size: 108
9255960 TGCACAATCC
** * *
9255970 CTAAAGTCCAAAATTACTGCGTTAGCTGTCAACGGCCGCCCGACAAGCCGTCAATCACGACCGAC
1 CTAAAGTCCAAAATTACTGCACTAGCTGTCAACGGCCGACCGACAAGCCGCCAATCACGACCGAC
9256035 AGACGTAATTTTTCAATTGAAAAATGAGATTCGAATCCCAAAA
66 AGACGTAATTTTTCAATTGAAAAATGAGATTCGAATCCCAAAA
* ** * *
9256078 CTAAAGTCCAAAATTACTGCACTAGTTGTCAACGGCCGACCGATTAGCCGCCAATCACGATCGGC
1 CTAAAGTCCAAAATTACTGCACTAGCTGTCAACGGCCGACCGACAAGCCGCCAATCACGACCGAC
* * * *
9256143 ATACGTGATTTTTCAGTTGAAAAATGGGATTCGAATCCCA
66 AGACGTAATTTTTCAATTGAAAAATGAGATTCGAATCCCA
9256183 GAAGATCTGG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 92 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (108 bp):
CTAAAGTCCAAAATTACTGCACTAGCTGTCAACGGCCGACCGACAAGCCGCCAATCACGACCGAC
AGACGTAATTTTTCAATTGAAAAATGAGATTCGAATCCCAAAA
Found at i:9259513 original size:64 final size:63
Alignment explanation
Indices: 9259411--9259551 Score: 142
Period size: 64 Copynumber: 2.2 Consensus size: 63
9259401 AAATAAAAAA
* * *
9259411 TATTTTCTTGTTTTGAATTTCTAAATTCTCCACCATTTGAGCTTC-TTTAGAAATT-TTTTTTAT
1 TATTTT-TTTTTTTGAATTTCTAAATTCTCCACAATTTG-G-GTCATTTAGAAATTCTTTTTTAT
9259474 T
63 T
* * * * *
9259475 TATTTATTTTTTTTGAATTTTTGAATTTTTCACAATTTGGGTCAATTTAGAAATTCTTTTTTTTT
1 TATTT-TTTTTTTTGAATTTCTAAATTCTCCACAATTTGGGTC-ATTTAGAAATTCTTTTTTATT
*
9259540 TCTTTTTTTTTT
1 TATTTTTTTTTT
9259552 GTTTTTGGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
62 2 0.03
63 1 0.02
64 48 0.75
65 13 0.20
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (63 bp):
TATTTTTTTTTTTGAATTTCTAAATTCTCCACAATTTGGGTCATTTAGAAATTCTTTTTTATT
Found at i:9259557 original size:12 final size:11
Alignment explanation
Indices: 9259528--9259557 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9259518 AATTTAGAAA
9259528 TTCTTTTTTTT
1 TTCTTTTTTTT
9259539 TTCTTTTTTTT
1 TTCTTTTTTTT
*
9259550 TTGTTTTT
1 TTCTTTTT
9259558 GGAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:9260594 original size:11 final size:11
Alignment explanation
Indices: 9260578--9260603 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9260568 TAACTACCTA
9260578 TTTTTTTATTT
1 TTTTTTTATTT
9260589 TTTTTTTATTT
1 TTTTTTTATTT
9260600 TTTT
1 TTTT
9260604 ATTAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:9264762 original size:22 final size:21
Alignment explanation
Indices: 9264717--9264762 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
9264707 AATTTTTTAA
* *
9264717 TTTTTTAAACTTTTAAATTTT
1 TTTTTTAAACTTTTAAAATCT
*
9264738 TTTTTTAGAATTTTTAAAATCT
1 TTTTTTA-AACTTTTAAAATCT
9264760 TTT
1 TTT
9264763 GAAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTAAACTTTTAAAATCT
Found at i:9267875 original size:19 final size:20
Alignment explanation
Indices: 9267831--9267872 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9267821 AATGTTAAAA
9267831 TTTATTTTAAGTTCTATCTT
1 TTTATTTTAAGTTCTATCTT
9267851 TTTATTTTAAGTTCTATCTT
1 TTTATTTTAAGTTCTATCTT
9267871 TT
1 TT
9267873 ATTAAGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTATTTTAAGTTCTATCTT
Found at i:9273661 original size:108 final size:108
Alignment explanation
Indices: 9273458--9273666 Score: 305
Period size: 108 Copynumber: 1.9 Consensus size: 108
9273448 AAATGCACAA
* * *
9273458 TAAAGTCCCAAATTACTGCACTAGCTGTCAACGGTCGCGAGACAAGCCGTCAATCACGACCGACA
1 TAAAATCCAAAATTACTGCACTAGCTGTCAACGGTCGCGAGACAAGCCGCCAATCACGACCGACA
9273523 GACGTGATTTTTCAATTGAAAAATGAGATTCGAATCGCAAAAC
66 GACGTGATTTTTCAATTGAAAAATGAGATTCGAATCGCAAAAC
* **
9273566 TAAAATCCAAAATTACTGCACTAGCTGTCAATGG-C-CGACCGATTAGCCGCCAATCACGACCGA
1 TAAAATCCAAAATTACTGCACTAGCTGTCAACGGTCGCGA--GACAAGCCGCCAATCACGACCGA
* * *
9273629 CATACGTGATTTTTCAGTTGAAAAATGGGATTCGAATC
64 CAGACGTGATTTTTCAATTGAAAAATGAGATTCGAATC
9273667 CCAGAAGATC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 3 0.03
107 1 0.01
108 86 0.96
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (108 bp):
TAAAATCCAAAATTACTGCACTAGCTGTCAACGGTCGCGAGACAAGCCGCCAATCACGACCGACA
GACGTGATTTTTCAATTGAAAAATGAGATTCGAATCGCAAAAC
Found at i:9276047 original size:25 final size:25
Alignment explanation
Indices: 9276009--9276058 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9275999 GAGTGAGGAG
*
9276009 AATTTTTTTAGAAATTT-TGGCGAAA
1 AATTTTTCTAGAAATTTCTGG-GAAA
*
9276034 AATTTTTCTGGAAATTTCTGGGAAA
1 AATTTTTCTAGAAATTTCTGGGAAA
9276059 TTTCCAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (25 bp):
AATTTTTCTAGAAATTTCTGGGAAA
Found at i:9276218 original size:19 final size:19
Alignment explanation
Indices: 9276190--9276234 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9276180 TCCGGCCAAC
*
9276190 TTCCGGCGAAATTTCCAGA
1 TTCCGACGAAATTTCCAGA
*
9276209 TTCCGACGAATTTTCCAGA
1 TTCCGACGAAATTTCCAGA
*
9276228 ATCCGAC
1 TTCCGAC
9276235 ACCGGTGTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (19 bp):
TTCCGACGAAATTTCCAGA
Found at i:9276831 original size:59 final size:57
Alignment explanation
Indices: 9276682--9277040 Score: 476
Period size: 60 Copynumber: 6.1 Consensus size: 57
9276672 AAAATTCTAA
*
9276682 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AATTTCC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
9276739 AAAAAATATTTTT-GGGGAAAGTTGAAAGTATCAATTTTTCTTAGAAGTAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
9276795 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCC
1 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
9276854 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
*
9276916 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC-C
* *
9276976 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTCCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
9277035 AAAAAA
1 AAAAAA
9277041 AAAATCATTC
Statistics
Matches: 276, Mismatches: 12, Indels: 26
0.88 0.04 0.08
Matches are distributed among these distances:
55 31 0.11
56 15 0.05
57 53 0.19
58 15 0.05
59 51 0.18
60 56 0.20
62 54 0.20
63 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:9276834 original size:27 final size:27
Alignment explanation
Indices: 9276804--9276892 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
9276794 CAAAAAAAAT
9276804 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
9276831 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
9276861 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
9276888 ATTTT
1 ATTTT
9276893 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:9280835 original size:10 final size:10
Alignment explanation
Indices: 9280820--9280872 Score: 72
Period size: 10 Copynumber: 5.3 Consensus size: 10
9280810 AACAATGGAT
9280820 GAAAAAAAAA
1 GAAAAAAAAA
9280830 GAAAAAAAAA
1 GAAAAAAAAA
9280840 -AGAAAAAAAA
1 GA-AAAAAAAA
**
9280850 GAAAAAATGA
1 GAAAAAAAAA
9280860 GAAAAAAAAA
1 GAAAAAAAAA
9280870 GAA
1 GAA
9280873 GGAAAAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 1 0.03
10 35 0.95
11 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:9280879 original size:32 final size:30
Alignment explanation
Indices: 9280831--9280898 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 30
9280821 AAAAAAAAAG
9280831 AAAAAAAAAAGAAAAAAAAGAAAAAATGAGA
1 AAAAAAAAAAGAAAAAAAAGAAAAAATGA-A
* * *
9280862 AAAAAAAAGAAGGAAAAAATGAGAAAATGAA
1 AAAAAAAA-AAGAAAAAAAAGAAAAAATGAA
9280893 AAAAAA
1 AAAAAA
9280899 GATTCAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (30 bp):
AAAAAAAAAAGAAAAAAAAGAAAAAATGAA
Found at i:9282205 original size:42 final size:42
Alignment explanation
Indices: 9282157--9282754 Score: 870
Period size: 42 Copynumber: 14.5 Consensus size: 42
9282147 CCAAGTTCGT
9282157 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
9282199 TGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAGTTCCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-T-CGTGG
* *
9282240 TGCCTCTGTTTAGAGGAGTAATTTA-CTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
*
9282281 TACCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
*
9282323 TGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
*
9282365 TACCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
* *
9282407 TACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-TCGTGG
9282447 TGCCTCTGTTTAGAGGAGCAATTTATTTTT-CAAAGTTCCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-T-CGTGG
*
9282488 TGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
*
9282530 TGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
* *
9282572 TACCTCTGTTGAGAGGAGCAATTTATTTTT-CAAAGTTCCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-T-CGTGG
9282613 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCC-AAGTTCGT--
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG-TCGTGG
*
9282653 TGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
* * *
9282694 TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
9282736 TGCCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
9282755 TTTGGTAAAA
Statistics
Matches: 514, Mismatches: 24, Indels: 36
0.90 0.04 0.06
Matches are distributed among these distances:
39 12 0.02
40 73 0.14
41 157 0.31
42 266 0.52
43 6 0.01
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (42 bp):
TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
Found at i:9282316 original size:83 final size:82
Alignment explanation
Indices: 9282144--9282754 Score: 843
Period size: 83 Copynumber: 7.4 Consensus size: 82
9282134 GAGTATTTAC
9282144 TTTCC-AAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTG
1 TTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTG
9282207 TTTAGAGGAGCAATTTATT
64 TTTAGAGGAGCAATTTATT
* * *
9282226 TTT-CAAAGTTCCGT-TGCCTCTGTTTAGAGGAGTAATTTACTTTCCAAAGTCGTGGTACCTCTG
1 TTTCCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTG
9282289 TTTAGAGGAGCAATTTATT
64 TTTAGAGGAGCAATTTATT
* *
9282308 TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTACCTCTG
1 TTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTG
9282373 TTTAGAGGAGCAATTTATT
64 TTTAGAGGAGCAATTTATT
*
9282392 TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--TGCCTCT
1 TTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAG-TCGTGGTGCCTCT
9282454 GTTTAGAGGAGCAATTTATT
63 GTTTAGAGGAGCAATTTATT
*
9282474 TTT-CAAAGTTCCGT-TGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCT
1 TTTCCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCT
9282537 GTTTAGAGGAGCAATTTATT
63 GTTTAGAGGAGCAATTTATT
* * * *
9282557 TTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGTTCCGT--TGCCTCT
1 TTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAG-T-CGTGGTGCCTCT
9282620 GTTTAGAGGAGCAATTTATT
63 GTTTAGAGGAGCAATTTATT
* *
9282640 TTTCC-AAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGT
1 TTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGT
*
9282703 TTAGAGGAGCAATTTACT
65 TTAGAGGAGCAATTTATT
*
9282721 TTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 TTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGC
9282755 TTTGGTAAAA
Statistics
Matches: 484, Mismatches: 22, Indels: 45
0.88 0.04 0.08
Matches are distributed among these distances:
79 3 0.01
80 1 0.00
81 104 0.21
82 97 0.20
83 158 0.33
84 118 0.24
85 3 0.01
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (82 bp):
TTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTT
TAGAGGAGCAATTTATT
Found at i:9282789 original size:9 final size:9
Alignment explanation
Indices: 9282763--9282797 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
9282753 GCTTTGGTAA
*
9282763 AAAAAAAAA
1 AAAAAAAAC
9282772 AAAAAAAAC
1 AAAAAAAAC
9282781 AAAAAAAACC
1 AAAAAAAA-C
9282791 AAAAAAA
1 AAAAAAA
9282798 TGTTGAGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:9282793 original size:10 final size:10
Alignment explanation
Indices: 9282761--9282797 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9282751 GAGCTTTGGT
*
9282761 AAAAAAAAAA
1 AAAAAAAAAC
9282771 AAAAAAAAAC
1 AAAAAAAAAC
*
9282781 AAAAAAAACC
1 AAAAAAAAAC
9282791 AAAAAAA
1 AAAAAAA
9282798 TGTTGAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:9283518 original size:31 final size:32
Alignment explanation
Indices: 9283483--9283554 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
9283473 AATTTCCAGA
*
9283483 TTCCGGCGAA-AATTCCGGCGAAAC-TTGAATT
1 TTCCGGCGAACAATTCCGGC-AAACTTTGAAGT
*
9283514 TTCCGGC-AACAATTCCGGCCAACTTTGAAGT
1 TTCCGGCGAACAATTCCGGCAAACTTTGAAGT
9283545 TTCCGGCGAA
1 TTCCGGCGAA
9283555 GTGCCCAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 5 0.14
31 29 0.81
32 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (32 bp):
TTCCGGCGAACAATTCCGGCAAACTTTGAAGT
Found at i:9283630 original size:19 final size:19
Alignment explanation
Indices: 9283606--9283650 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
9283596 TTCGGCCAAC
9283606 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTTCCAGA
*
9283625 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTTCCAGA
*
9283644 ATCCGGC
1 TTCCGGC
9283651 ACCGGTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (19 bp):
TTCCGGCGAAATTTCCAGA
Found at i:9284169 original size:59 final size:58
Alignment explanation
Indices: 9284103--9284465 Score: 525
Period size: 57 Copynumber: 6.1 Consensus size: 58
9284093 AAAAATTCTA
9284103 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* * *
9284162 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAGTAAATTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
*
9284219 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCC
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
9284278 -AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-----AAAAATAAATTTCC
* *
9284340 -AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTCC
* * *
9284399 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTCCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTCC
9284459 AAAAAAA
1 AAAAAAA
9284466 AAATCATTCT
Statistics
Matches: 280, Mismatches: 14, Indels: 19
0.89 0.04 0.06
Matches are distributed among these distances:
57 97 0.35
58 5 0.02
59 60 0.21
60 62 0.22
62 56 0.20
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
Found at i:9284223 original size:116 final size:117
Alignment explanation
Indices: 9284103--9284465 Score: 547
Period size: 116 Copynumber: 3.1 Consensus size: 117
9284093 AAAAATTCTA
9284103 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
*
9284168 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AG-AAGTAAATTTCC
65 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAATAAATTTCC
*
9284219 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAAA
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAA
*
9284284 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
65 TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAG-AAAATAAATTTCC
* *
9284340 -AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTC-CAAAA
*
9284404 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT--GAAAATCGAAATTCCC
63 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAT--AAATTTCC
9284459 AAAAAAA
1 AAAAAAA
9284466 AAATCATTCT
Statistics
Matches: 227, Mismatches: 8, Indels: 19
0.89 0.03 0.07
Matches are distributed among these distances:
116 93 0.41
117 11 0.05
118 1 0.00
119 56 0.25
120 6 0.03
121 18 0.08
122 42 0.19
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (117 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAT
ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAATAAATTTCC
Found at i:9284258 original size:27 final size:27
Alignment explanation
Indices: 9284228--9284316 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
9284218 CAAAAAAAAT
9284228 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
9284255 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
9284285 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
9284312 ATTTT
1 ATTTT
9284317 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:9299783 original size:2 final size:2
Alignment explanation
Indices: 9299776--9299801 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9299766 ATCTAGAAGA
9299776 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
9299802 TTATCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9306649 original size:32 final size:29
Alignment explanation
Indices: 9306605--9306743 Score: 104
Period size: 32 Copynumber: 4.4 Consensus size: 29
9306595 CTATGCTTGA
*
9306605 AAAAAATAAAAAAAAGGAAGGAAAATGAAATG
1 AAAAAATGAAAAAAA-GAA--AAAATGAAATG
*
9306637 AAAAAATGAAAAATA-AAAAAATAGAAAAAATG
1 AAAAAATGAAAAAAAGAAAAAAT-G---AAATG
*
9306669 AAAAAATGAAAAGATAGAAAAAATGAAAAATG
1 AAAAAATGAAAA-AAAGAAAAAATG--AAATG
*
9306701 AAAAAATGAAAAATAA-AAGAAATGAAAAATG
1 AAAAAATGAAAAA-AAGAAAAAATG--AAATG
9306732 AAAAAA-GAAAAA
1 AAAAAATGAAAAA
9306744 GTGAAAAAGG
Statistics
Matches: 96, Mismatches: 4, Indels: 16
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.05
29 1 0.01
30 8 0.08
31 21 0.22
32 50 0.52
33 4 0.04
34 7 0.07
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.11
Consensus pattern (29 bp):
AAAAAATGAAAAAAAGAAAAAATGAAATG
Found at i:9306752 original size:8 final size:8
Alignment explanation
Indices: 9306632--9306751 Score: 142
Period size: 8 Copynumber: 15.2 Consensus size: 8
9306622 AAGGAAAATG
9306632 AAATGAAA
1 AAATGAAA
9306640 AAATG-AA
1 AAATGAAA
*
9306647 AAATAAAA
1 AAATGAAA
9306655 AAATAGAAA
1 AAAT-GAAA
9306664 AAATGAAA
1 AAATGAAA
9306672 AAATGAAA
1 AAATGAAA
*
9306680 AGATAGAAA
1 AAAT-GAAA
9306689 AAATG-AA
1 AAATGAAA
9306696 AAATGAAA
1 AAATGAAA
9306704 AAATG-AA
1 AAATGAAA
*
9306711 AAATAAAA
1 AAATGAAA
9306719 GAAATG-AA
1 -AAATGAAA
9306727 AAATGAAA
1 AAATGAAA
9306735 AAA-GAAA
1 AAATGAAA
*
9306742 AAGTGAAA
1 AAATGAAA
9306750 AA
1 AA
9306752 GGAGGACTCA
Statistics
Matches: 97, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
7 30 0.31
8 49 0.51
9 18 0.19
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:9307813 original size:41 final size:41
Alignment explanation
Indices: 9307767--9308020 Score: 316
Period size: 41 Copynumber: 6.1 Consensus size: 41
9307757 ATGATTGTCA
* *
9307767 AGGAGCAATTTACTTTCTAAAGTCGTAGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
**
9307808 AGGAGCAATTTACTTTCCAAAGTTCCGT--TGCCTCTAATTAG
1 AGGAGCAATTTACTTTCCAAAG-T-CGTGGTGCCTCTGTTTAG
* *
9307849 ATGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
9307891 AGGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
9307932 AGGAGCAATTTA-TTTTCAAAGTTGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
9307972 AGGAGCAATTTATGTTTCGCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTC-CAAAGTCGTGGTGCCTCTGTTTAG
9308015 AGGAGC
1 AGGAGC
9308021 TTTGGTAAAA
Statistics
Matches: 185, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
40 39 0.21
41 83 0.45
42 34 0.18
43 29 0.16
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:9307882 original size:83 final size:82
Alignment explanation
Indices: 9307767--9308020 Score: 300
Period size: 83 Copynumber: 3.1 Consensus size: 82
9307757 ATGATTGTCA
* * *
9307767 AGGAGCAATTTACTTTCT-AAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAG-
9307831 TCCGT-TGCCTCTAATTAG
65 T-CGTGTGCCTCTAATTAG
* *
9307849 ATGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAAGT
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGT
**
9307914 CGTGGTGCCTCTGTTTAG
66 CGT-GTGCCTCTAATTAG
* * * *
9307932 AGGAGCAATTTA--TTTTCAAAGTTGTGGTGCCTTTGTTTAGAGGAGCAATTTATGTTTCGCAAA
1 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTC-AAAA
* **
9307995 GTCGTTGAGCCTCTGTTTAG
64 GTCG-TGTGCCTCTAATTAG
9308015 AGGAGC
1 AGGAGC
9308021 TTTGGTAAAA
Statistics
Matches: 153, Mismatches: 13, Indels: 11
0.86 0.07 0.06
Matches are distributed among these distances:
81 41 0.27
82 21 0.14
83 90 0.59
84 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGT
CGTGTGCCTCTAATTAG
Found at i:9307932 original size:124 final size:124
Alignment explanation
Indices: 9307767--9308020 Score: 350
Period size: 124 Copynumber: 2.0 Consensus size: 124
9307757 ATGATTGTCA
*
9307767 AGGAGCAATTTACTTTCTAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTT
1 AGGAGCAATTTACTTTCAAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTA-TTTCCAAAGTT
* * * *
9307832 CCGTTGCCTCTAATTAGATGAGCAATTTACT-TTT-TCAAAGTCGTGGTGCCTCTGTTTAG
65 CCGGTGCCTCTAATTAGAGGAGCAATTTA-TGTTTCGCAAAGTCGTGGAGCCTCTGTTTAG
* * * *
9307891 AGGAGCAATTTATTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCAAAGTTG
1 AGGAGCAATTTACTTTCAAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTATTTCCAAAGTTC
* * ** *
9307956 TGGTGCCTTTGTTTAGAGGAGCAATTTATGTTTCGCAAAGTCGTTGAGCCTCTGTTTAG
66 CGGTGCCTCTAATTAGAGGAGCAATTTATGTTTCGCAAAGTCGTGGAGCCTCTGTTTAG
9308015 AGGAGC
1 AGGAGC
9308021 TTTGGTAAAA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
122 1 0.01
123 35 0.31
124 78 0.68
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (124 bp):
AGGAGCAATTTACTTTCAAAAGTCGTAGTGCCTCTGTTTAGAGGAGCAATTTATTTCCAAAGTTC
CGGTGCCTCTAATTAGAGGAGCAATTTATGTTTCGCAAAGTCGTGGAGCCTCTGTTTAG
Found at i:9308051 original size:17 final size:17
Alignment explanation
Indices: 9308027--9308071 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
9308017 GAGCTTTGGT
9308027 AAAAAAAAAAAACA-AA
1 AAAAAAAAAAAACACAA
9308043 AACAAAAAAAAAACACAA
1 AA-AAAAAAAAAACACAA
9308061 AAAACAAAAAA
1 AAAA-AAAAAA
9308072 TGACAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
18 10 0.38
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAACACAA
Found at i:9308052 original size:20 final size:20
Alignment explanation
Indices: 9308027--9308071 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
9308017 GAGCTTTGGT
9308027 AAAAAAAAAAAAC-AAAAAC
1 AAAAAAAAAAAACAAAAAAC
*
9308046 AAAAAAAAAACACAAAAAAC
1 AAAAAAAAAAAACAAAAAAC
9308066 AAAAAA
1 AAAAAA
9308072 TGACAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAACAAAAAAC
Found at i:9308259 original size:17 final size:18
Alignment explanation
Indices: 9308239--9308275 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
9308229 TTTCCTTTTG
9308239 TATTTTATGTATT-TTAT
1 TATTTTATGTATTATTAT
*
9308256 TA-TTTATTTATTATTAT
1 TATTTTATGTATTATTAT
9308273 TAT
1 TAT
9308276 GTATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TATTTTATGTATTATTAT
Found at i:9308267 original size:25 final size:24
Alignment explanation
Indices: 9308239--9308402 Score: 74
Period size: 25 Copynumber: 6.6 Consensus size: 24
9308229 TTTCCTTTTG
9308239 TATTTTATGTATTTTATTATTTATT
1 TATTTTAT-TATTTTATTATTTATT
* *
9308264 TATTATTATTA-TGTATTAATATATGT
1 TATT-TTATTATTTTATT-ATTTAT-T
* *
9308290 ATATCTTTATT-TTTT-TTGTTCA--
1 -TAT-TTTATTATTTTATTATTTATT
*
9308312 TATTTATATGTATTTTATTTATATAGTT
1 TATTT-TAT-TATTTTA-TTATTTA-TT
* *
9308340 GTATATTTATTATTATATTA-TAATT
1 -TAT-TTTATTATTTTATTATTTATT
*
9308365 TA-TTTATTATTATTATTATTT-TA
1 TATTTTATTATT-TTATTATTTATT
9308388 TATTTTATTTATTTT
1 TATTTTA-TTATTTT
9308403 TGTATTTTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 41
0.65 0.09 0.26
Matches are distributed among these distances:
20 2 0.02
21 6 0.06
22 10 0.10
23 12 0.12
24 14 0.13
25 24 0.23
26 8 0.08
27 13 0.12
28 7 0.07
29 6 0.06
30 2 0.02
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (24 bp):
TATTTTATTATTTTATTATTTATT
Found at i:9308358 original size:28 final size:26
Alignment explanation
Indices: 9308311--9308417 Score: 79
Period size: 25 Copynumber: 4.3 Consensus size: 26
9308301 TTTTTTGTTC
*
9308311 ATATTTATATGTA-T-TT-TATTTAT
1 ATATTTATATTTATTATTATATTTAT
9308334 ATAGTTGTATATTTATTATTATA-TTAT
1 ATA-TT-TATATTTATTATTATATTTAT
*
9308361 A-ATTTATTTATTATTATTATTATTT-T
1 ATATTTATAT-TTATTATTA-TATTTAT
* *
9308387 ATATTT-TATTTATTTTTGTATTT-T
1 ATATTTATATTTATTATTATATTTAT
9308411 -TATTTAT
1 ATATTTAT
9308418 CTAATTATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
23 8 0.12
24 13 0.19
25 25 0.36
26 8 0.12
27 13 0.19
28 2 0.03
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
ATATTTATATTTATTATTATATTTAT
Found at i:9308446 original size:28 final size:26
Alignment explanation
Indices: 9308408--9308474 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
9308398 ATTTTTGTAT
*
9308408 TTTTATTTATCTAATTATATATCTGTTA
1 TTTTATTTATCT-ATAATATATCT-TTA
*
9308436 TTTTATTTATCCTATAATATATCTTTT
1 TTTTATTTAT-CTATAATATATCTTTA
9308463 TTTTATTTATCT
1 TTTTATTTATCT
9308475 GTTCTAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
27 12 0.33
28 20 0.56
29 2 0.06
ACGTcount: A:0.25, C:0.09, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTTATTTATCTATAATATATCTTTA
Found at i:9309411 original size:26 final size:27
Alignment explanation
Indices: 9309363--9309413 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
9309353 AGGTTTTTTT
*
9309363 TTTTTTTTGAATTTCTTTGTTTATTTG
1 TTTTTTTTGAATTTCTTTATTTATTTG
* *
9309390 TTTTTTTT-ATTTTTTTTATTTATT
1 TTTTTTTTGAATTTCTTTATTTATT
9309414 AGATTAGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (27 bp):
TTTTTTTTGAATTTCTTTATTTATTTG
Found at i:9309468 original size:29 final size:29
Alignment explanation
Indices: 9309436--9309513 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
9309426 TTTAATATTC
9309436 TTTTTATCTTTATTTTATTTTTATTTTT-
1 TTTTTATCTTTATTTTATTTTTATTTTTA
* *
9309464 GTTTTA-CTTTTCTTTTTATTTTTATTTTTA
1 TTTTTATC-TTT-ATTTTATTTTTATTTTTA
*
9309494 TTTATTAT-TCTATTTTATTT
1 TTT-TTATCTTTATTTTATTT
9309514 AAATAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 1 0.03
28 8 0.20
29 24 0.60
30 4 0.10
31 3 0.08
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTTATCTTTATTTTATTTTTATTTTTA
Found at i:9309492 original size:7 final size:6
Alignment explanation
Indices: 9309436--9309502 Score: 75
Period size: 6 Copynumber: 11.3 Consensus size: 6
9309426 TTTAATATTC
* * * *
9309436 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
9309482 TTTTTA TTTTTA TTTATTA TT
1 TTTTTA TTTTTA TTT-TTA TT
9309503 CTATTTTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
5 8 0.16
6 38 0.75
7 5 0.10
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:9309510 original size:13 final size:11
Alignment explanation
Indices: 9309437--9309513 Score: 77
Period size: 12 Copynumber: 6.7 Consensus size: 11
9309427 TTAATATTCT
*
9309437 TTTTATCTTTA
1 TTTTATTTTTA
9309448 TTTTATTTTTA
1 TTTTATTTTTA
9309459 TTTT-TGTTTTA
1 TTTTAT-TTTTA
*
9309470 CTTTTCTTTTTA
1 -TTTTATTTTTA
9309482 TTTTTATTTTTA
1 -TTTTATTTTTA
9309494 -TTTATTATTCTA
1 TTTTATT-TT-TA
9309506 TTTTATTT
1 TTTTATTT
9309514 AAATAAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
10 7 0.12
11 21 0.37
12 22 0.39
13 7 0.12
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:9309510 original size:23 final size:23
Alignment explanation
Indices: 9309433--9309513 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 23
9309423 TTATTTAATA
* *
9309433 TTCT-TTTTATCTTTATTTTATT
1 TTCTATTTTATTTTTACTTTATT
9309455 TT-TATTTT-TGTTTTACTTT-TCT
1 TTCTATTTTAT-TTTTACTTTAT-T
*
9309477 TTTTATTTTTATTTTTA-TTTATT
1 TTCTA-TTTTATTTTTACTTTATT
9309500 ATTCTATTTTATTT
1 -TTCTATTTTATTT
9309514 AAATAAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 3 0.06
22 16 0.33
23 14 0.29
24 14 0.29
25 1 0.02
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (23 bp):
TTCTATTTTATTTTTACTTTATT
Found at i:9309514 original size:17 final size:17
Alignment explanation
Indices: 9309436--9309513 Score: 86
Period size: 17 Copynumber: 4.5 Consensus size: 17
9309426 TTTAATATTC
*
9309436 TTTTTATCTTTATTTTA
1 TTTTTATTTTTATTTTA
*
9309453 TTTTTATTTTTGTTTTA
1 TTTTTATTTTTATTTTA
* *
9309470 CTTTTCTTTTTATTTTTA
1 TTTTTATTTTTA-TTTTA
*
9309488 TTTTTATTTATTATTCTA
1 TTTTTATTT-TTATTTTA
9309506 -TTTTATTT
1 TTTTTATTT
9309514 AAATAAAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
17 32 0.63
18 16 0.31
19 3 0.06
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (17 bp):
TTTTTATTTTTATTTTA
Found at i:9309679 original size:58 final size:58
Alignment explanation
Indices: 9309530--9309868 Score: 434
Period size: 58 Copynumber: 5.8 Consensus size: 58
9309520 AAATAAAAAA
*
9309530 TTCCAAGAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT
1 TTCCAA-AAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
*** *
9309589 TT-C-AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAT
1 TTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* *
9309645 TTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTGAAAAATAAATT
1 TTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-T
* * * * *
9309704 TTCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGT
1 TTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-T
*
9309764 TTCAAAAAAAGAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
1 TTC--CAAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
* *
9309825 TTCCAAAAAAGTTTTTTTG-GAGAAAAGTTGAAAGTATCAATTTT
1 TTCCAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
9309869 TCCTACACGA
Statistics
Matches: 245, Mismatches: 26, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
56 47 0.19
57 4 0.02
58 79 0.32
59 54 0.22
60 7 0.03
61 4 0.02
62 8 0.03
63 42 0.17
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (58 bp):
TTCCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
Found at i:9316645 original size:30 final size:30
Alignment explanation
Indices: 9316611--9316699 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
9316601 ATTTATTTAT
* *
9316611 GTTAAGAGTTTATTTA-AGTATAAATTAAAG
1 GTTAAAAGTTTATTTAGA-TACAAATTAAAG
9316641 GTTAATAA-TTTATTTAGATACAAATTAAAG
1 GTTAA-AAGTTTATTTAGATACAAATTAAAG
* * * **
9316671 TTTAAAAGTTCATTTGGATGTAAATTAAA
1 GTTAAAAGTTTATTTAGATACAAATTAAA
9316700 AATTAAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 45 0.92
31 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (30 bp):
GTTAAAAGTTTATTTAGATACAAATTAAAG
Found at i:9321780 original size:21 final size:20
Alignment explanation
Indices: 9321746--9321784 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9321736 ATAAAATATA
9321746 TATTTTAATTTTATTAAATT
1 TATTTTAATTTTATTAAATT
*
9321766 TATTTATATTTTTATTAAA
1 TATTT-TAATTTTATTAAA
9321785 ATTTTAAATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTAATTTTATTAAATT
Found at i:9330496 original size:215 final size:215
Alignment explanation
Indices: 9330118--9330514 Score: 722
Period size: 215 Copynumber: 1.8 Consensus size: 215
9330108 GAATGTGAAT
*
9330118 ACAATATAATCTAGTTTTATCCACCGACAACATATGGAATGATTAGTTTATGCCACAATTTTCAT
1 ACAATATAATCTAGTTTTATCCACCGACAACATATGGAATGATAAGTTTATGCCACAATTTTCAT
*
9330183 GAGCTGTTGAGGCCATGGTCAGCAAACTTATTATTTGAAATCAAGGCAAACAACAGATTCATTTT
66 GAGCTGTTGAGGCCATGGTCAGCAAACCTATTATTTGAAATCAAGGCAAACAACAGATTCATTTT
* * *
9330248 GCAAGCATCGAGCATGTGCTTGTGATTCCCCAAAAAGAAAGAGATTAAAAAGTTTATGCCACAAT
131 GCAAGCATCAAGCATGTGCTAGTGATCCCCCAAAAAGAAAGAGATTAAAAAGTTTATGCCACAAT
9330313 TTTCATGAGCTGTTGAGGCC
196 TTTCATGAGCTGTTGAGGCC
9330333 ACAATATAATCTAGTTTTATCCACCGACAACATATGGAATGATAAGTTTATGCCACAATTTTCAT
1 ACAATATAATCTAGTTTTATCCACCGACAACATATGGAATGATAAGTTTATGCCACAATTTTCAT
** *
9330398 GAGCTGTTGAGGCGGTGGTCAGCAAACCTATTATTTGAAATCAAGGCAAACATCAGATTCATTTT
66 GAGCTGTTGAGGCCATGGTCAGCAAACCTATTATTTGAAATCAAGGCAAACAACAGATTCATTTT
9330463 GCAAGCATCAAGCATGTGCTAGTGATCCCCCAAAAAGAAAGAGATTAAAAAG
131 GCAAGCATCAAGCATGTGCTAGTGATCCCCCAAAAAGAAAGAGATTAAAAAG
9330515 ACACAAAAAA
Statistics
Matches: 174, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
215 174 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (215 bp):
ACAATATAATCTAGTTTTATCCACCGACAACATATGGAATGATAAGTTTATGCCACAATTTTCAT
GAGCTGTTGAGGCCATGGTCAGCAAACCTATTATTTGAAATCAAGGCAAACAACAGATTCATTTT
GCAAGCATCAAGCATGTGCTAGTGATCCCCCAAAAAGAAAGAGATTAAAAAGTTTATGCCACAAT
TTTCATGAGCTGTTGAGGCC
Found at i:9337574 original size:14 final size:15
Alignment explanation
Indices: 9337541--9337578 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
9337531 CACAATTAAA
9337541 AAATATAAAAATTAC
1 AAATATAAAAATTAC
*
9337556 AAATATTAAAATT-C
1 AAATATAAAAATTAC
9337570 AAATATAAA
1 AAATATAAA
9337579 CTTATCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATAAAAATTAC
Found at i:9346428 original size:35 final size:36
Alignment explanation
Indices: 9346359--9346428 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
9346349 GCCATCCTTT
*
9346359 AGATTCTCACCTTCAAATAATATAAGTTCGATTTTA
1 AGATTCTCACCTTCAAATAATATAAGTTCAATTTTA
9346395 AGATTCTCACCTTCAAATAATA-AAGTTCAATTTT
1 AGATTCTCACCTTCAAATAATATAAGTTCAATTTT
9346429 TGGGCATTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 11 0.33
36 22 0.67
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (36 bp):
AGATTCTCACCTTCAAATAATATAAGTTCAATTTTA
Found at i:9350142 original size:33 final size:33
Alignment explanation
Indices: 9350100--9350167 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
9350090 CTTATGGGTG
9350100 TGTATGTTTGTTTGTGAGTGGACTAGAGGAGAC
1 TGTATGTTTGTTTGTGAGTGGACTAGAGGAGAC
9350133 TGTATGTTTGTTTGTGAGTGGACTAGAGGAGAC
1 TGTATGTTTGTTTGTGAGTGGACTAGAGGAGAC
9350166 TG
1 TG
9350168 AGAGGGTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.21, C:0.06, G:0.37, T:0.37
Consensus pattern (33 bp):
TGTATGTTTGTTTGTGAGTGGACTAGAGGAGAC
Found at i:9355277 original size:17 final size:18
Alignment explanation
Indices: 9355255--9355289 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9355245 TGTCATTCAA
9355255 ATTTGCAT-CCATTTATC
1 ATTTGCATGCCATTTATC
*
9355272 ATTTGCATGTCATTTATC
1 ATTTGCATGCCATTTATC
9355290 TTACCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (18 bp):
ATTTGCATGCCATTTATC
Found at i:9365973 original size:15 final size:15
Alignment explanation
Indices: 9365953--9365982 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9365943 AATGTATTTG
*
9365953 AGAGAGAGAGAGAGA
1 AGAGAGAGAAAGAGA
9365968 AGAGAGAGAAAGAGA
1 AGAGAGAGAAAGAGA
9365983 GGCACATACA
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:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
AGAGAGAGAAAGAGA
Found at i:9366065 original size:2 final size:2
Alignment explanation
Indices: 9366060--9366085 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9366050 GTATGTGTCC
9366060 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
9366086 TTGTATGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9366844 original size:22 final size:24
Alignment explanation
Indices: 9366805--9366854 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
9366795 AAAACTGCAC
9366805 AAGGAGGAGAGGAAGAGAAAGAGAT
1 AAGGAGGAGAGG-AGAGAAAGAGAT
* *
9366830 AAGGAGG-GAGG-GAGACAGGGAT
1 AAGGAGGAGAGGAGAGAAAGAGAT
9366852 AAG
1 AAG
9366855 AGAGACAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
24 4 0.17
25 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.48, T:0.04
Consensus pattern (24 bp):
AAGGAGGAGAGGAGAGAAAGAGAT
Found at i:9369753 original size:2 final size:2
Alignment explanation
Indices: 9369746--9369775 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9369736 AGAGAAATGA
9369746 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
9369776 GTTTCAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9372074 original size:32 final size:30
Alignment explanation
Indices: 9371996--9372074 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
9371986 GCAACCATGA
*
9371996 GAGTCACTAAGTGCTATAAGGTGGAGCCGT
1 GAGTCACTAAGTGCTACAAGGTGGAGCCGT
* * * *
9372026 GACTC-CCAAGTGCTACATGGTGGGGCCGT
1 GAGTCACTAAGTGCTACAAGGTGGAGCCGT
9372055 GGGAGTCACTAAGTGCTACA
1 --GAGTCACTAAGTGCTACA
9372075 CAGTGGTCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 20 0.51
30 4 0.10
31 4 0.10
32 11 0.28
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.22
Consensus pattern (30 bp):
GAGTCACTAAGTGCTACAAGGTGGAGCCGT
Found at i:9375612 original size:2 final size:2
Alignment explanation
Indices: 9375605--9375667 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
9375595 TACATGTAAA
9375605 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9375647 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
9375668 CCGGGAGATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9375888 original size:22 final size:22
Alignment explanation
Indices: 9375848--9375889 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9375838 TAATTAAAAT
* * *
9375848 TTTAATAAAAGTTATATATAAA
1 TTTAATAAAAATAAAATATAAA
9375870 TTTAATAAAAATAAAATATA
1 TTTAATAAAAATAAAATATA
9375890 TATTATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TTTAATAAAAATAAAATATAAA
Found at i:9377050 original size:25 final size:24
Alignment explanation
Indices: 9377022--9377086 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
9377012 TAAATATTTT
9377022 TATTTTGTATATTATTAAAAATAAA
1 TATTTT-TATATTATTAAAAATAAA
* *
9377047 TATTTTTAATATT-TCAATAATAAA
1 TATTTTT-ATATTATTAAAAATAAA
*
9377071 TAATTTTATATTATTA
1 TATTTTTATATTATTA
9377087 TTATTATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.15
24 18 0.53
25 11 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTTTATATTATTAAAAATAAA
Found at i:9377289 original size:17 final size:16
Alignment explanation
Indices: 9377266--9377308 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
9377256 TTAATATAAA
9377266 ATATAAATATTTTAAT
1 ATATAAATATTTTAAT
9377282 ACTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
9377299 A-ATAAATATT
1 ATATAAATATT
9377309 ATTATTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:9377502 original size:25 final size:25
Alignment explanation
Indices: 9377473--9377538 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
9377463 TTCTTGAATA
*
9377473 TTAATAGTTTTAATGATAAATAA-TT
1 TTAATA-TTTTAATAATAAATAATTT
9377498 TTAATATACTTTAATAATAAATAATTT
1 TTAATAT--TTTAATAATAAATAATTT
9377525 TTAATATTTTAATA
1 TTAATATTTTAATA
9377539 CTTATATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 1 0.03
25 13 0.35
26 14 0.38
27 9 0.24
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (25 bp):
TTAATATTTTAATAATAAATAATTT
Found at i:9377711 original size:7 final size:7
Alignment explanation
Indices: 9377699--9377765 Score: 80
Period size: 7 Copynumber: 9.0 Consensus size: 7
9377689 TTCTATTTTA
9377699 TTTTATT
1 TTTTATT
9377706 TTTTATTT
1 TTTTA-TT
9377714 TTTTATT
1 TTTTATT
9377721 TTTTATT
1 TTTTATT
*
9377728 TTGTATT
1 TTTTATT
9377735 TTTATATT
1 TTT-TATT
*
9377743 TTGTATTT
1 TTTTA-TT
9377751 TATTTATT
1 T-TTTATT
9377759 TTTTATT
1 TTTTATT
9377766 ACTATTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
7 30 0.58
8 19 0.37
9 3 0.06
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:9377717 original size:15 final size:15
Alignment explanation
Indices: 9377699--9377765 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
9377689 TTCTATTTTA
9377699 TTTTA-TTTTTTATT
1 TTTTATTTTTTTATT
9377713 TTTT-TATTTTTTATT
1 TTTTAT-TTTTTTATT
* *
9377728 TTGTATTTTTATATT
1 TTTTATTTTTTTATT
*
9377743 TTGTATTTTATTTATT
1 TTTTATTTT-TTTATT
9377759 TTTTATT
1 TTTTATT
9377766 ACTATTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.09
15 29 0.64
16 12 0.27
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTATTTTTTTATT
Found at i:9377727 original size:22 final size:22
Alignment explanation
Indices: 9377699--9377762 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 22
9377689 TTCTATTTTA
9377699 TTTTATTTTTTATTTTTTTATT
1 TTTTATTTTTTATTTTTTTATT
* *
9377721 TTTTATTTTGTATTTTTATATT
1 TTTTATTTTTTATTTTTTTATT
*
9377743 TTGTATTTTATTTATTTTTT
1 TTTTA-TTT-TTTATTTTTT
9377763 ATTACTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 24 0.69
23 3 0.09
24 8 0.23
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (22 bp):
TTTTATTTTTTATTTTTTTATT
Found at i:9377854 original size:35 final size:34
Alignment explanation
Indices: 9377749--9377856 Score: 116
Period size: 31 Copynumber: 3.2 Consensus size: 34
9377739 TATTTTGTAT
* *
9377749 TTTATTTATTTTTTATTACTATTTATTAATATATAT-
1 TTTA-TTATTATTTA-T-CTATTAATTAATATATATC
* *
9377785 TTTTTTATTATTTATCTGTTAA-T-ATATATA-C
1 TTTATTATTATTTATCTATTAATTAATATATATC
9377816 TTTATTATTATTTATCTATTAATTAATATATTATC
1 TTTATTATTATTTATCTATTAATTAATATA-TATC
9377851 TTTATT
1 TTTATT
9377857 TTTTTTCTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
31 27 0.44
32 2 0.03
33 10 0.16
34 3 0.05
35 16 0.26
36 3 0.05
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (34 bp):
TTTATTATTATTTATCTATTAATTAATATATATC
Found at i:9378738 original size:10 final size:10
Alignment explanation
Indices: 9378709--9378824 Score: 64
Period size: 10 Copynumber: 11.6 Consensus size: 10
9378699 TTTCATTTAT
9378709 TTATTTATTA
1 TTATTTATTA
9378719 TTATTATTATTA
1 TTA-T-TTATTA
9378731 TTATTTATTGA
1 TTATTTATT-A
* **
9378742 TTAGATTAGAA
1 TTA-TTTATTA
*
9378753 TTATTTAGTA
1 TTATTTATTA
*
9378763 TTTTTTATT-
1 TTATTTATTA
9378772 TTATTTTATT-
1 TTA-TTTATTA
*
9378782 TTATTCTATTT
1 TTATT-TATTA
*
9378793 TTATCT-TTA
1 TTATTTATTA
*
9378802 TT-TTTATTT
1 TTATTTATTA
9378811 TTATTT-TT-
1 TTATTTATTA
9378819 TTATTT
1 TTATTT
9378825 TCTTTAAATA
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
8 8 0.09
9 14 0.16
10 37 0.44
11 14 0.16
12 12 0.14
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (10 bp):
TTATTTATTA
Found at i:9378775 original size:5 final size:5
Alignment explanation
Indices: 9378765--9378825 Score: 63
Period size: 5 Copynumber: 11.8 Consensus size: 5
9378755 ATTTAGTATT
*
9378765 TTTTA TTTTA TTTTA TTTTA TTCTA TTTTTA TCTTTA TTTTTA TTTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA -TTTTA TTTTA
9378812 TATTT- TTTTA TTTT
1 T-TTTA TTTTA TTTT
9378826 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
4 4 0.08
5 32 0.65
6 12 0.24
7 1 0.02
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9378825 original size:6 final size:6
Alignment explanation
Indices: 9378764--9378818 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
9378754 TATTTAGTAT
* *
9378764 TTTTTA -TTTTA -TTTTA -TTTTA -TTCTA TTTTTA TCTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
9378808 TTTTTA TTTTT
1 TTTTTA TTTTT
9378819 TTATTTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 19 0.43
6 25 0.57
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:9378909 original size:63 final size:63
Alignment explanation
Indices: 9378842--9379014 Score: 240
Period size: 63 Copynumber: 2.7 Consensus size: 63
9378832 ATAAAATTCC
9378842 AAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCTA
1 AAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCTA
* * * * *
9378905 AAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAATTTTTTTTT
1 AAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCTA
* * * * *
9378968 AAAAAAGAGTTTTTTTGAA-AAAAAATTGAAAGTATCAATTTTCCTTG
1 AAAAAAAAATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTTCCTTG
9379015 TATGAAAGCA
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 96 0.99
64 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.39
Consensus pattern (63 bp):
AAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCTA
Found at i:9389516 original size:14 final size:13
Alignment explanation
Indices: 9389472--9389546 Score: 75
Period size: 13 Copynumber: 5.8 Consensus size: 13
9389462 CTTGAAAAAA
9389472 AAAGAGAAAAAATG
1 AAAGA-AAAAAATG
**
9389486 AAATTAAAAAATG
1 AAAGAAAAAAATG
9389499 AAAGAAAAAAATG
1 AAAGAAAAAAATG
9389512 AAA-AGAAAAAA--
1 AAAGA-AAAAAATG
9389523 AAAGAAAAAAAGTG
1 AAAGAAAAAAA-TG
*
9389537 AATGAAAAAA
1 AAAGAAAAAA
9389547 GAGGACTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 9 0.18
12 2 0.04
13 28 0.55
14 12 0.24
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAGAAAAAAATG
Found at i:9390794 original size:44 final size:43
Alignment explanation
Indices: 9390578--9390918 Score: 261
Period size: 41 Copynumber: 8.0 Consensus size: 43
9390568 AAGTTATGAT
* * *
9390578 GCCTCTGTTTAGAGGAGC-AATCTATTTTT-CAAAGTTG-TGA
1 GCCTCTGTTTAGAGGAGCTTATTTATTTTTCCAAAGTCGTTGA
** * * * *
9390618 TGCCTCTAATTAGAGGAGC-AATTTACTTTTCAAAAGTTGTTGA
1 -GCCTCTGTTTAGAGGAGCTTATTTATTTTTCCAAAGTCGTTGA
* * * * *
9390661 GCCTCTGTTCAGA-TAGC-AATTTACTTTTCAAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTATTTATTTTTCCAAAGTCGTTGA
* * * * *
9390702 GCCTCTGATTAGAGGAGCCT-TTTATTTTT-AAAAGTTGTTAA
1 GCCTCTGTTTAGAGGAGCTTATTTATTTTTCCAAAGTCGTTGA
**
9390743 GTTTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGC-TTATTTATTTTTCCAAAGTCGTTGA
* *
9390787 GCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCTGAAA-TCGTTGA
1 GCCTCTGTTTAGAGGAGC-TTATTTATTTTTC-CAAAGTCGTTGA
* * * *
9390831 GCCTCTATTTAGAGGAG-TTATTTATTTTTTCAAAATCATTGA
1 GCCTCTGTTTAGAGGAGCTTATTTATTTTTCCAAAGTCGTTGA
* * * * * *
9390873 GCCTCTGCTTAGATGAGCCTTCGTTTATTCTTCCAAAATTGTTGA
1 GCCTCTGTTTAGAGGAG-CTT-ATTTATTTTTCCAAAGTCGTTGA
9390918 G
1 G
9390919 TATCTATTAT
Statistics
Matches: 247, Mismatches: 41, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
41 90 0.36
42 60 0.24
43 12 0.05
44 63 0.26
45 22 0.09
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (43 bp):
GCCTCTGTTTAGAGGAGCTTATTTATTTTTCCAAAGTCGTTGA
Found at i:9390878 original size:86 final size:87
Alignment explanation
Indices: 9390685--9390901 Score: 237
Period size: 86 Copynumber: 2.5 Consensus size: 87
9390675 AGCAATTTAC
* * **
9390685 TTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGC-CT-TTTA-TTTTTAAAAGTTGTTAAGTTT
1 TTTTCAAAA-TCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTTAAAAGTCGTTAAGCCT
*
9390747 CTGTTTAGAGGAGCTTTATTTATT
65 CTATTTAGAGGAGC-TTATTTATT
* * * * *
9390771 TTTCCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTTCTGAAA-TCGTTGAGCCT
1 TTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTT-TAAAAGTCGTTAAGCCT
9390835 CTATTTAGAGGAG-TTATTTATT
65 CTATTTAGAGGAGCTTATTTATT
* * * *
9390857 TTTTCAAAATCATTGAGCCTCTGCTTAGATGAGCCTTCGTTTATT
1 TTTTCAAAATCGTTGAGCCTCTGATTAGAGGAG-CTTTGTTTATT
9390902 CTTCCAAAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
85 24 0.22
86 45 0.41
87 14 0.13
88 23 0.21
89 4 0.04
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (87 bp):
TTTTCAAAATCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTTAAAAGTCGTTAAGCCTC
TATTTAGAGGAGCTTATTTATT
Found at i:9391157 original size:11 final size:11
Alignment explanation
Indices: 9391141--9391209 Score: 61
Period size: 11 Copynumber: 5.9 Consensus size: 11
9391131 CATTTCATTC
9391141 TATTTTTATTT
1 TATTTTTATTT
*
9391152 TATTTTATTTTT
1 TATTTT-TATTT
9391164 TATTTTTGTATTT
1 TA-TTTT-TATTT
9391177 TATATTTTA-TT
1 TAT-TTTTATTT
9391188 TATTATTTA-TT
1 TATT-TTTATTT
9391199 TATTATTTATT
1 TATT-TTTATT
9391210 ACTATTTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
10 1 0.02
11 26 0.52
12 10 0.20
13 13 0.26
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:9391175 original size:8 final size:7
Alignment explanation
Indices: 9391154--9391209 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
9391144 TTTTATTTTA
9391154 TTTTATT
1 TTTTATT
9391161 TTTTATT
1 TTTTATT
9391168 TTTGTA--
1 TTT-TATT
*
9391174 TTTTATA
1 TTTTATT
9391181 TTTTATT
1 TTTTATT
*
9391188 TATTATT
1 TTTTATT
9391195 TATTTATT
1 T-TTTATT
*
9391203 ATTTATT
1 TTTTATT
9391210 ACTATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.05
6 3 0.07
7 29 0.71
8 7 0.17
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (7 bp):
TTTTATT
Found at i:9391177 original size:20 final size:19
Alignment explanation
Indices: 9391143--9391253 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 19
9391133 TTTCATTCTA
9391143 TTTTTA-TT-TTATTTTAT
1 TTTTTATTTATTATTTTAT
*
9391160 TTTTTATTTTTGTATTTTAT
1 TTTTTATTTAT-TATTTTAT
*
9391180 ATTTTATTTATTA-TTTAT
1 TTTTTATTTATTATTTTAT
*
9391198 TTATTATTTATTACTATTTAT
1 TTTTTATTTATTA-T-TTTAT
*
9391219 TAATATATATTTATTATTATTAT
1 T--T-TTTATTTATTATT-TTAT
*
9391242 TTATCTATTTAT
1 TT-TTTATTTAT
9391254 ATATATACTT
Statistics
Matches: 77, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
17 6 0.08
18 18 0.23
19 3 0.04
20 17 0.22
21 16 0.21
22 1 0.01
23 7 0.09
24 9 0.12
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (19 bp):
TTTTTATTTATTATTTTAT
Found at i:9391190 original size:31 final size:31
Alignment explanation
Indices: 9391141--9391199 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9391131 CATTTCATTC
*
9391141 TATTTTTATTTTATTTTATTTTTTATTTTTG
1 TATTTTTATTTTATTTTATTATTTATTTTTG
9391172 TATTTTATATTTTA-TTTATTATTTATTT
1 TATTTT-TATTTTATTTTATTATTTATTT
9391200 ATTATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (31 bp):
TATTTTTATTTTATTTTATTATTTATTTTTG
Found at i:9391202 original size:27 final size:26
Alignment explanation
Indices: 9391145--9391281 Score: 97
Period size: 27 Copynumber: 5.2 Consensus size: 26
9391135 TCATTCTATT
*
9391145 TTTATTT-TATTTTATTTTTTATTT-
1 TTTATTTATATTTTATTTATTATTTA
9391169 TTGTATTTTATATTTTATTTATTATTTA
1 TT-TA-TTTATATTTTATTTATTATTTA
* * *
9391197 TTTATTATTTATTACTATTTATTA-ATA
1 TTTATT-TATATT-TTATTTATTATTTA
*
9391224 TATATTTATTATTATTATTTATCTATTTA
1 TTTATTTA-TATT-TTATTTAT-TATTTA
* *
9391253 --TATATATACTTTA-TTATTATTTA
1 TTTATTTATATTTTATTTATTATTTA
*
9391276 TCTATT
1 TTTATT
9391282 ATTATTATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
23 6 0.07
24 6 0.07
25 8 0.09
26 9 0.10
27 47 0.52
28 13 0.14
29 2 0.02
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.69
Consensus pattern (26 bp):
TTTATTTATATTTTATTTATTATTTA
Found at i:9391233 original size:31 final size:32
Alignment explanation
Indices: 9391184--9391286 Score: 121
Period size: 31 Copynumber: 3.3 Consensus size: 32
9391174 TTTTATATTT
9391184 TATTTATTAT-T-TATTTATTATTTA-TTA-C
1 TATTTATTATATATATTTATTATTTATTTATC
9391212 TATTTATTAATATATATTTATTATTATTATTTATC
1 TATTTATT-ATATATATTTATTA-T-TTATTTATC
9391247 TATTTA-TATATATACTTTATTA-TTATTTATC
1 TATTTATTATATATA-TTTATTATTTATTTATC
9391278 TA-TTATTAT
1 TATTTATTAT
9391287 TATTGTTTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
28 8 0.12
29 2 0.03
30 4 0.06
31 23 0.35
32 1 0.02
33 10 0.15
34 11 0.17
35 7 0.11
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (32 bp):
TATTTATTATATATATTTATTATTTATTTATC
Found at i:9391266 original size:48 final size:44
Alignment explanation
Indices: 9391177--9391304 Score: 134
Period size: 48 Copynumber: 2.8 Consensus size: 44
9391167 TTTTGTATTT
*
9391177 TATAT-TTTATTTATTATTTATTTATTATTTATTACTATTTATTAA
1 TATATATTTA-TTATTA-TTATTTATTATTTATTAATATTTATTAA
*
9391222 TATATATTTATTATTATTATTTATCTATTTATATATATACTTTATTAT
1 TATATATTTATTATTATTATTTAT-TATTTAT-TA-ATA-TTTATTAA
* * *
9391270 TATTTATCTATTATTATTATTGT-TTATCTATTAAT
1 TATATATTTATTATTATTATT-TATTATTTATTAAT
9391305 TAATATATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
44 8 0.11
45 20 0.28
46 8 0.11
47 8 0.11
48 27 0.38
49 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (44 bp):
TATATATTTATTATTATTATTTATTATTTATTAATATTTATTAA
Found at i:9391301 original size:17 final size:17
Alignment explanation
Indices: 9391179--9391322 Score: 95
Period size: 17 Copynumber: 8.2 Consensus size: 17
9391169 TTGTATTTTA
9391179 TATT-TTATTTAT-TATT
1 TATTATTATTTATCTA-T
9391195 TATTTATTATTTATTACTATT
1 TA-TTATTATTTA-T-CTA-T
* * *
9391216 TATTAATATATATTTAT
1 TATTATTATTTATCTAT
9391233 TATTATTATTTATCTA-
1 TATTATTATTTATCTAT
*
9391249 T-TTA-TATATATACT-T
1 TATTATTATTTAT-CTAT
9391264 TATTATTATTTATCTAT
1 TATTATTATTTATCTAT
9391281 TATTATTATTGTTTATCTAT
1 TATTATTA---TTTATCTAT
*
9391301 TAATTAATATATTATCT-T
1 T-ATTATTAT-TTATCTAT
9391319 TATT
1 TATT
9391323 TTTTTTCTTT
Statistics
Matches: 104, Mismatches: 9, Indels: 29
0.73 0.06 0.20
Matches are distributed among these distances:
14 6 0.06
15 6 0.06
16 8 0.08
17 34 0.33
18 12 0.12
19 8 0.08
20 18 0.17
21 12 0.12
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (17 bp):
TATTATTATTTATCTAT
Found at i:9391347 original size:10 final size:9
Alignment explanation
Indices: 9391321--9391346 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9391311 ATTATCTTTA
9391321 TTTTTTTTC
1 TTTTTTTTC
9391330 TTTTTTTTC
1 TTTTTTTTC
9391339 TTTTTTTT
1 TTTTTTTT
9391347 TTTCTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Done.