Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 127 of 129
Found at i:23180376 original size:22 final size:21
Alignment explanation
Indices: 23180326--23180398 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
23180316 TAATAAATTA
* *
23180326 ATGATAACAAAATAATAAATGC
1 ATGATAACATAATAGTAAAT-C
*
23180348 ATAATAACATAATAGTAAATC
1 ATGATAACATAATAGTAAATC
** *
23180369 ATTGATAATTTAATAGTAAATT
1 A-TGATAACATAATAGTAAATC
23180391 AGTGATAA
1 A-TGATAA
23180399 TTTAATTGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 2 0.05
22 40 0.95
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (21 bp):
ATGATAACATAATAGTAAATC
Found at i:23180399 original size:22 final size:22
Alignment explanation
Indices: 23180357--23180413 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
23180347 CATAATAACA
* *
23180357 TAATAGTAAATCATTGATAATT
1 TAATAGTAAATTAGTGATAATT
23180379 TAATAGTAAATTAGTGATAATT
1 TAATAGTAAATTAGTGATAATT
*
23180401 TAATTGTAAATTA
1 TAATAGTAAATTA
23180414 ATTAATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.42
Consensus pattern (22 bp):
TAATAGTAAATTAGTGATAATT
Found at i:23180497 original size:22 final size:22
Alignment explanation
Indices: 23180468--23180598 Score: 118
Period size: 22 Copynumber: 6.0 Consensus size: 22
23180458 ACACATTATC
*
23180468 CATAATTTAGTAATAAATCATT
1 CATAATTTAATAATAAATCATT
* * * *
23180490 AACAATTTAATAGTAAATTATT
1 CATAATTTAATAATAAATCATT
* *
23180512 CATAACTTAGTAATAAATCATT
1 CATAATTTAATAATAAATCATT
* * *
23180534 CATAAGTTAATAGTAAATCAAT
1 CATAATTTAATAATAAATCATT
** * *
23180556 GTTAATTTAGTAGTAAATCATT
1 CATAATTTAATAATAAATCATT
* *
23180578 GATAATTTAATAATATATCAT
1 CATAATTTAATAATAAATCAT
23180599 GAATAGCTTA
Statistics
Matches: 85, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 85 1.00
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.40
Consensus pattern (22 bp):
CATAATTTAATAATAAATCATT
Found at i:23180510 original size:44 final size:43
Alignment explanation
Indices: 23180462--23180589 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 43
23180452 TTTATTACAC
*
23180462 ATTATCCATAATTTAGTAATAAATCATTAACAATTTAATAGTAA
1 ATTAT-CATAATTTAGTAATAAATCATTAATAATTTAATAGTAA
* * *
23180506 ATTATTCATAACTTAGTAATAAATCATTCATAAGTTAATAGTAA
1 ATTA-TCATAATTTAGTAATAAATCATTAATAATTTAATAGTAA
* ** * *
23180550 ATCAATGTTAATTTAGTAGTAAATCATTGATAATTTAATA
1 AT-TATCATAATTTAGTAATAAATCATTAATAATTTAATA
23180590 ATATATCATG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
44 69 0.97
45 2 0.03
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (43 bp):
ATTATCATAATTTAGTAATAAATCATTAATAATTTAATAGTAA
Found at i:23180610 original size:44 final size:43
Alignment explanation
Indices: 23180469--23180639 Score: 144
Period size: 44 Copynumber: 3.9 Consensus size: 43
23180459 CACATTATCC
* * * * * *
23180469 ATAATTTAGTAATAAATCATTAACAATTTAATAGTAAATTATTC
1 ATAACTTAGTAATAAATCATTGATAATTTAATAATAAATCA-TG
* * *
23180513 ATAACTTAGTAATAAATCATTCATAAGTTAATAGTAAATCAATG
1 ATAACTTAGTAATAAATCATTGATAATTTAATAATAAATC-ATG
* * * *
23180557 TTAATTTAGTAGTAAATCATTGATAATTTAATAATATATCATG
1 ATAACTTAGTAATAAATCATTGATAATTTAATAATAAATCATG
* ** * * *
23180600 AATAGCTTAGTGGTAAATTACTGATAATATAATAATAAAT
1 -ATAACTTAGTAATAAATCATTGATAATTTAATAATAAAT
23180640 TAATAATAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.03
44 100 0.96
45 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (43 bp):
ATAACTTAGTAATAAATCATTGATAATTTAATAATAAATCATG
Found at i:23180643 original size:11 final size:11
Alignment explanation
Indices: 23180629--23180654 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23180619 ACTGATAATA
23180629 TAATAATAAAT
1 TAATAATAAAT
23180640 TAATAATAAAT
1 TAATAATAAAT
23180651 TAAT
1 TAAT
23180655 TGTCAATCAT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAATAAAT
Found at i:23180996 original size:22 final size:21
Alignment explanation
Indices: 23180956--23181015 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
23180946 CTAGAAGGTT
* **
23180956 AATTATTAAAATTACATCAAG
1 AATTACTAAAATTTTATCAAG
* *
23180977 AGGTTACTAAAATTTTATCAAT
1 A-ATTACTAAAATTTTATCAAG
*
23180999 AATTACCAAAATTTTAT
1 AATTACTAAAATTTTAT
23181016 TAAAAGTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTACTAAAATTTTATCAAG
Found at i:23181045 original size:48 final size:47
Alignment explanation
Indices: 23180985--23181087 Score: 113
Period size: 48 Copynumber: 2.1 Consensus size: 47
23180975 AGAGGTTACT
*
23180985 AAAATTTTATCAATAA-TTACCAAAATTTTA-TTAAAAGTTA-TCAAAATC
1 AAAATTATATCAA-AAGTTACC-AAATTTTACTT-AAA-TTAGTCAAAATC
* *
23181033 AAAATTATATCAAAAGTTATCAAATTTTACTTATATTATGTCAAAATC
1 AAAATTATATCAAAAGTTACCAAATTTTACTTAAATTA-GTCAAAATC
23181081 AAAATTA
1 AAAATTA
23181088 AATTAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
46 3 0.06
47 12 0.25
48 33 0.69
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (47 bp):
AAAATTATATCAAAAGTTACCAAATTTTACTTAAATTAGTCAAAATC
Found at i:23181047 original size:27 final size:27
Alignment explanation
Indices: 23181005--23181056 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
23180995 CAATAATTAC
* *
23181005 CAAAATTTTATTAAAAGTTATCAAAAT
1 CAAAATTATATCAAAAGTTATCAAAAT
23181032 CAAAATTATATCAAAAGTTATCAAA
1 CAAAATTATATCAAAAGTTATCAAA
23181057 TTTTACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (27 bp):
CAAAATTATATCAAAAGTTATCAAAAT
Found at i:23181540 original size:10 final size:9
Alignment explanation
Indices: 23181521--23181556 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
23181511 ATTCATAAAT
23181521 AATAAATTA
1 AATAAATTA
23181530 AATATAATTA
1 AATA-AATTA
23181540 AATAAATTTA
1 AATAAA-TTA
23181550 AATAAAT
1 AATAAAT
23181557 CAAACATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AATAAATTA
Found at i:23181566 original size:25 final size:25
Alignment explanation
Indices: 23181538--23181585 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23181528 TAAATATAAT
* *
23181538 TAAATAAATTTAAATAAATCAAACA
1 TAAATAAATATAAACAAATCAAACA
*
23181563 TAAATAAATATAAACGAATCAAA
1 TAAATAAATATAAACAAATCAAA
23181586 TAAATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (25 bp):
TAAATAAATATAAACAAATCAAACA
Found at i:23187660 original size:33 final size:33
Alignment explanation
Indices: 23187580--23187660 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
23187570 ACACCGTAGC
* *
23187580 TATGATAATTA-GTATATTTATATTATATAAAA
1 TATGAAAATTATGTATATTTAGATTATATAAAA
* ***
23187612 TATAAAAAATT-TGTATATTTAGATTATATTTTA
1 TAT-GAAAATTATGTATATTTAGATTATATAAAA
23187645 TATGAAAATTATGTAT
1 TATGAAAATTATGTAT
23187661 TATTGTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
32 9 0.23
33 30 0.77
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (33 bp):
TATGAAAATTATGTATATTTAGATTATATAAAA
Found at i:23195807 original size:2 final size:2
Alignment explanation
Indices: 23195800--23195835 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
23195790 AATTTTTCCA
*
23195800 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23195836 CTACATGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23212961 original size:145 final size:145
Alignment explanation
Indices: 23212707--23213000 Score: 543
Period size: 145 Copynumber: 2.0 Consensus size: 145
23212697 AGAAAATGGA
**
23212707 ATTTGCTCCAAGAAACTGGATAAAATCTGCATTGCATAACAACAAAATCACTAGAAATTGATAAA
1 ATTTGCTCCAAGAAACCAGATAAAATCTGCATTGCATAACAACAAAATCACTAGAAATTGATAAA
23212772 CCATATAATAGCAAAGCAGACTGAGCACCAGTACCATAAAGAAGAAATACAACTATAATTTTGAT
66 CCATATAATAGCAAAGCAGACTGAGCACCAGTACCATAAAGAAGAAATACAACTATAATTTTGAT
23212837 CCTAATGAAAATAAG
131 CCTAATGAAAATAAG
*
23212852 ATTTGCTCCAAGAAACCAGATAAAATCTGCATTGCATAACAACAAATTCACTAGAAATTGATAAA
1 ATTTGCTCCAAGAAACCAGATAAAATCTGCATTGCATAACAACAAAATCACTAGAAATTGATAAA
**
23212917 CCATATAATAGCAAAGCAGACTGAGTGCCAGTACCATAAAGAAGAAATACAACTATAATTTTGAT
66 CCATATAATAGCAAAGCAGACTGAGCACCAGTACCATAAAGAAGAAATACAACTATAATTTTGAT
23212982 CCTAATGAAAATAAG
131 CCTAATGAAAATAAG
23212997 ATTT
1 ATTT
23213001 CACATCCTAA
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (145 bp):
ATTTGCTCCAAGAAACCAGATAAAATCTGCATTGCATAACAACAAAATCACTAGAAATTGATAAA
CCATATAATAGCAAAGCAGACTGAGCACCAGTACCATAAAGAAGAAATACAACTATAATTTTGAT
CCTAATGAAAATAAG
Found at i:23214740 original size:91 final size:91
Alignment explanation
Indices: 23214585--23214767 Score: 321
Period size: 91 Copynumber: 2.0 Consensus size: 91
23214575 ATCAAAATAT
*
23214585 TACTCTCCAAATCAATAATATTTTCACTTTTTAATCAATTTTGGAACAAGGTAAAGAAAATGAAT
1 TACTCTCCAAATCAATAATAATTTCACTTTTTAATCAATTTTGGAACAAGGTAAAGAAAATGAAT
* *
23214650 CAAGATTAATGGGGCTTACAAGTTGG
66 CAAGATTAATGGGACTTACAAGCTGG
* *
23214676 TACTCTCCAAATCAATAATAATTTCACTTTTTAATCAATTTTGGAACAAGGTAGAGAAGATGAAT
1 TACTCTCCAAATCAATAATAATTTCACTTTTTAATCAATTTTGGAACAAGGTAAAGAAAATGAAT
23214741 CAAGATTAATGGGACTTACAAGCTGG
66 CAAGATTAATGGGACTTACAAGCTGG
23214767 T
1 T
23214768 TAACTGAATC
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (91 bp):
TACTCTCCAAATCAATAATAATTTCACTTTTTAATCAATTTTGGAACAAGGTAAAGAAAATGAAT
CAAGATTAATGGGACTTACAAGCTGG
Found at i:23217030 original size:11 final size:10
Alignment explanation
Indices: 23217014--23217052 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
23217004 AAGAAACGCG
*
23217014 AAAAAAGGAA
1 AAAAAAAGAA
23217024 AAAAAAA-AA
1 AAAAAAAGAA
23217033 AAAAAAAGAA
1 AAAAAAAGAA
23217043 AAAGAAAAGA
1 AAA-AAAAGA
23217053 GAATTGTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 9 0.35
10 11 0.42
11 6 0.23
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:23221257 original size:16 final size:17
Alignment explanation
Indices: 23221209--23221284 Score: 50
Period size: 18 Copynumber: 4.4 Consensus size: 17
23221199 TTTATATTTG
23221209 ATTTTATCATAACA-TATA
1 ATTTTAT-ATAA-ATTATA
* *
23221227 ATTTTATGTATATTAT-
1 ATTTTATATAAATTATA
*
23221243 ATTTTATATAAATTAAAA
1 ATTTTATATAAATT-ATA
* *
23221261 AATTTATATTTAA-TATA
1 ATTTTATA-TAAATTATA
23221278 ATTTTAT
1 ATTTTAT
23221285 TAAGTAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
16 13 0.29
17 14 0.31
18 15 0.33
19 3 0.07
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (17 bp):
ATTTTATATAAATTATA
Found at i:23222121 original size:13 final size:13
Alignment explanation
Indices: 23222103--23222127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23222093 ATTTACTTAA
23222103 TTATATTAAAATT
1 TTATATTAAAATT
23222116 TTATATTAAAAT
1 TTATATTAAAAT
23222128 AATAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATTAAAATT
Found at i:23224049 original size:17 final size:18
Alignment explanation
Indices: 23224029--23224065 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
23224019 TTTAAAAAAT
*
23224029 ATTATTTTTTAA-TATAA
1 ATTATATTTTAATTATAA
23224046 ATTATATTTTAATTATAA
1 ATTATATTTTAATTATAA
23224064 AT
1 AT
23224066 ATAATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATATTTTAATTATAA
Found at i:23229502 original size:99 final size:99
Alignment explanation
Indices: 23229327--23229522 Score: 304
Period size: 99 Copynumber: 2.0 Consensus size: 99
23229317 AAACAAATAC
* * *
23229327 AATCTATGAGAATGAACATCTGTGGAATGCCAATAGCATAGTGATTTACCAGCGGCTTCCACCGG
1 AATCTATGAGAATAAACAACTGTGGAATGCCAATAGCATAGTGATTTACCAGCGGCTTCCACCAG
23229392 TCAAACAACCACTAGATTGAAATATATCACCTAG
66 TCAAACAACCACTAGATTGAAATATATCACCTAG
* * * *
23229426 AATCTGTGAGAATAAACAACTGTGGAATGCTAATAGCATAGTGGTTTACCTGCGGCTTCCACCAG
1 AATCTATGAGAATAAACAACTGTGGAATGCCAATAGCATAGTGATTTACCAGCGGCTTCCACCAG
*
23229491 TCAAA-AGACCACTAGGTTGAAATATATCACCT
66 TCAAACA-ACCACTAGATTGAAATATATCACCT
23229523 TCAAGGGTGA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 1 0.01
99 87 0.99
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (99 bp):
AATCTATGAGAATAAACAACTGTGGAATGCCAATAGCATAGTGATTTACCAGCGGCTTCCACCAG
TCAAACAACCACTAGATTGAAATATATCACCTAG
Found at i:23233415 original size:64 final size:61
Alignment explanation
Indices: 23233342--23233459 Score: 157
Period size: 64 Copynumber: 1.9 Consensus size: 61
23233332 TATTTTTATT
*
23233342 ATATAAAATAT-TAATTTATTTTATTATATAAAAATTATATATCATAATTTTTATTAATATAAAA
1 ATATAAAATATAT-ATTTATTTAATTATAT-AAAATT-TAT-TCATAATTTTTATTAATATAAAA
* * *
23233406 ATATAAAATATATATTTATTTAATTTTATTAAATTTATTTATAATTTTTATTAA
1 ATATAAAATATATATTTATTTAATTATATAAAATTTATTCATAATTTTTATTAA
23233460 AATTTTAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
61 15 0.31
62 3 0.06
63 5 0.10
64 25 0.51
65 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.53
Consensus pattern (61 bp):
ATATAAAATATATATTTATTTAATTATATAAAATTTATTCATAATTTTTATTAATATAAAA
Found at i:23244683 original size:3 final size:3
Alignment explanation
Indices: 23244675--23244714 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
23244665 TTTGGCTTTA
* *
23244675 TAT TAT TAT TAT TAT TAT TGT TGT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23244715 TGCAAAGGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23250239 original size:21 final size:20
Alignment explanation
Indices: 23250213--23250255 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
23250203 TTATATAAAA
23250213 AATTTTTAATTT-ATCGATTTT
1 AATTTTT-ATTTAATC-ATTTT
23250234 AATTTTTATTTAATCATTTT
1 AATTTTTATTTAATCATTTT
23250254 AA
1 AA
23250256 ATAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTTATTTAATCATTTT
Found at i:23255884 original size:20 final size:19
Alignment explanation
Indices: 23255859--23255905 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
23255849 GTGTTTGGAA
23255859 AAAGAAAAAAAAATAGAACG
1 AAAGAAAAAAAAATAGAA-G
* *
23255879 AAAGAAAGAAAAATAGTAG
1 AAAGAAAAAAAAATAGAAG
23255898 AAAGAAAA
1 AAAGAAAA
23255906 TAAGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.06
Consensus pattern (19 bp):
AAAGAAAAAAAAATAGAAG
Found at i:23255898 original size:23 final size:21
Alignment explanation
Indices: 23255859--23255913 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
23255849 GTGTTTGGAA
*
23255859 AAAGAAA-AAAAAATAGAACG
1 AAAGAAAGAAAAAATAGAAAG
23255879 AAAGAAAGAAAAATAGTAGAAAG
1 AAAGAAAGAAAAA-A-TAGAAAG
23255902 AAA-ATAAGAAAA
1 AAAGA-AAGAAAA
23255914 GAGAAGGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.23
21 5 0.17
22 2 0.07
23 16 0.53
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.07
Consensus pattern (21 bp):
AAAGAAAGAAAAAATAGAAAG
Found at i:23258059 original size:3 final size:3
Alignment explanation
Indices: 23258047--23258076 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23258037 TAAATAGTAC
23258047 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23258077 TGTTTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:23260054 original size:95 final size:95
Alignment explanation
Indices: 23259888--23260068 Score: 283
Period size: 95 Copynumber: 1.9 Consensus size: 95
23259878 AACAATATCA
* * *
23259888 AACTGTAATGGACAGTATCCTGGATTTATGATAATTTAGTGTGTATCATTGTTGAGGCATATAAA
1 AACTGTAACGGACAGTATCCTGGATTTATGATAATTTAGCGTGTATCATCGTTGAGGCATATAAA
*
23259953 CGCTCTACTTTCTTCTTTATTTTCGATGAT
66 CACTCTACTTTCTTCTTTATTTTCGATGAT
* * *
23259983 AACTGTAACGGACAGTGTCCTGGATTTGTGATATTTTAGCGTGTATCATCGTTGAGGCATATAAT
1 AACTGTAACGGACAGTATCCTGGATTTATGATAATTTAGCGTGTATCATCGTTGAGGCATATAA-
23260048 A-ACTCTACTTTCTTCTTTATT
65 ACACTCTACTTTCTTCTTTATT
23260069 CTTAAGTGAC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 77 0.99
96 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (95 bp):
AACTGTAACGGACAGTATCCTGGATTTATGATAATTTAGCGTGTATCATCGTTGAGGCATATAAA
CACTCTACTTTCTTCTTTATTTTCGATGAT
Found at i:23297604 original size:2 final size:2
Alignment explanation
Indices: 23297599--23297652 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
23297589 AAAGAAAAGT
* * * *
23297599 CA CA CA CA TA CA CA GA CA CA GA CA CA GA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
23297641 CA CA CA CA CA CA
1 CA CA CA CA CA CA
23297653 TATATATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.43, G:0.06, T:0.02
Consensus pattern (2 bp):
CA
Found at i:23298039 original size:3 final size:3
Alignment explanation
Indices: 23298025--23298065 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
23298015 GGCATTGAGA
*
23298025 AAT AAC 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 AA
23298066 GAAAGAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:23298074 original size:3 final size:3
Alignment explanation
Indices: 23298068--23298098 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23298058 AATAATAAGA
23298068 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
23298099 TGATGATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:23310856 original size:17 final size:16
Alignment explanation
Indices: 23310831--23310864 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23310821 AGTCGTATGG
23310831 ACAAATTATGAATCAAA
1 ACAAATTATGAA-CAAA
*
23310848 ACAACTTATGAACAAA
1 ACAAATTATGAACAAA
23310864 A
1 A
23310865 TGAATGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (16 bp):
ACAAATTATGAACAAA
Found at i:23317225 original size:55 final size:55
Alignment explanation
Indices: 23317137--23317247 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
23317127 AGCATCACAC
* * *
23317137 ATAGTGCATCAAAGGCTGGTGCCACAAATATCTTCCATATGAAAGTAGGGAGCAA
1 ATAGTACATCAAAGGCTGGTGCCACAAACATCTTCCATATGAAAGTAGAGAGCAA
*
23317192 ATAGTACATCAAAGGCTGGTGTCACAAACATCTTCCATATGAAAGTAGAGAGCAA
1 ATAGTACATCAAAGGCTGGTGCCACAAACATCTTCCATATGAAAGTAGAGAGCAA
23317247 A
1 A
23317248 AAAAGGTCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.22
Consensus pattern (55 bp):
ATAGTACATCAAAGGCTGGTGCCACAAACATCTTCCATATGAAAGTAGAGAGCAA
Found at i:23323745 original size:39 final size:39
Alignment explanation
Indices: 23323685--23323779 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
23323675 GGGAACTACC
* *
23323685 ACTTGAAGGTGGCAGCATTGTGGAT-CTCTGGGAGCTATA
1 ACTTGAAGGTGGCAGCATTGTGG-TGCTCTGAGAGCTAGA
** * *
23323724 ACTTGAAGGTGGCAGGGTTGTGGTGTTCTGAGAGCTAGC
1 ACTTGAAGGTGGCAGCATTGTGGTGCTCTGAGAGCTAGA
*
23323763 ACTTGAAGATGGCAGCA
1 ACTTGAAGGTGGCAGCA
23323780 GTGTCGAGAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
38 1 0.02
39 45 0.98
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (39 bp):
ACTTGAAGGTGGCAGCATTGTGGTGCTCTGAGAGCTAGA
Found at i:23323798 original size:39 final size:39
Alignment explanation
Indices: 23323755--23323932 Score: 257
Period size: 39 Copynumber: 4.6 Consensus size: 39
23323745 GGTGTTCTGA
* * *
23323755 GAGCTAGCACTTGAAGATGGCAGCAGTGTCGAGATCAGG
1 GAGCTAGCACTTGAAGATGGAAGCAGTGTTGAGTTCAGG
23323794 GAGCTAGCACTTGAAGATGGAAGCAGTGTTGAGTTCAGG
1 GAGCTAGCACTTGAAGATGGAAGCAGTGTTGAGTTCAGG
*
23323833 GAGCTAGCACTTGAAGATAGAAGCAGTGTTGAGTTCAGG
1 GAGCTAGCACTTGAAGATGGAAGCAGTGTTGAGTTCAGG
* * * * *
23323872 GAGCTAGCACTAGAAGATGGCAGCAATCTAGAGTTCAGG
1 GAGCTAGCACTTGAAGATGGAAGCAGTGTTGAGTTCAGG
* *
23323911 GAGCTAGAACTTGAAGGTGGAA
1 GAGCTAGCACTTGAAGATGGAA
23323933 ATAAAGGATG
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 125 1.00
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.20
Consensus pattern (39 bp):
GAGCTAGCACTTGAAGATGGAAGCAGTGTTGAGTTCAGG
Found at i:23323837 original size:78 final size:78
Alignment explanation
Indices: 23323665--23323926 Score: 274
Period size: 78 Copynumber: 3.4 Consensus size: 78
23323655 TGATGTCAAC
* * * * * ** * **
23323665 GTAGAGTTCAGGGAACTACCACTTGAAGGTGGCAGCATTGTGGATCTCTGGGAGCTATAACTTGA
1 GTAGAGTTCAGGGAGCTAGCACTTGAAGATGGCAGCAGTGTCGAGATCAGGGAGCTAGCACTTGA
* *
23323730 AGGTGGCAG-GGTT
66 AGATGGCAGCAG-T
* * * *
23323743 GTGGTGTTCTGAGAGCTAGCACTTGAAGATGGCAGCAGTGTCGAGATCAGGGAGCTAGCACTTGA
1 GTAGAGTTCAGGGAGCTAGCACTTGAAGATGGCAGCAGTGTCGAGATCAGGGAGCTAGCACTTGA
*
23323808 AGATGGAAGCAGT
66 AGATGGCAGCAGT
* * * * * *
23323821 GTTGAGTTCAGGGAGCTAGCACTTGAAGATAGAAGCAGTGTTGAGTTCAGGGAGCTAGCACTAGA
1 GTAGAGTTCAGGGAGCTAGCACTTGAAGATGGCAGCAGTGTCGAGATCAGGGAGCTAGCACTTGA
*
23323886 AGATGGCAGCAAT
66 AGATGGCAGCAGT
* *
23323899 CTAGAGTTCAGGGAGCTAGAACTTGAAG
1 GTAGAGTTCAGGGAGCTAGCACTTGAAG
23323927 GTGGAAATAA
Statistics
Matches: 152, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
78 151 0.99
79 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (78 bp):
GTAGAGTTCAGGGAGCTAGCACTTGAAGATGGCAGCAGTGTCGAGATCAGGGAGCTAGCACTTGA
AGATGGCAGCAGT
Found at i:23340836 original size:8 final size:8
Alignment explanation
Indices: 23340823--23340848 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23340813 AAAAGGTTTT
23340823 ATGCATAC
1 ATGCATAC
23340831 ATGCATAC
1 ATGCATAC
23340839 ATGCATAC
1 ATGCATAC
23340847 AT
1 AT
23340849 TGCCTTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (8 bp):
ATGCATAC
Found at i:23341085 original size:25 final size:25
Alignment explanation
Indices: 23341057--23341107 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
23341047 CTAGATGAGA
*
23341057 ACCTTAGAAAATGGTTTATATGACC
1 ACCTTAGAAAATGGTTGATATGACC
*
23341082 ACCTTAGAAGATGGTTGATATGACC
1 ACCTTAGAAAATGGTTGATATGACC
23341107 A
1 A
23341108 ACTGTTGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (25 bp):
ACCTTAGAAAATGGTTGATATGACC
Found at i:23343073 original size:60 final size:59
Alignment explanation
Indices: 23343003--23343419 Score: 241
Period size: 62 Copynumber: 6.9 Consensus size: 59
23342993 CAAATAAATA
* * *
23343003 AAAAATTAAAACTTTAAAAAAATATATTTTTGAATAAAAATTGAAAGTATTAATTTTTTTT
1 AAAAA-TAAAAATTTAAAAAAATATATTTTTGAA-AAAAGTTGAAAGTATCAATTTTTTTT
** * * * *
23343064 AAAAATAAAAATTTTTAAAAATATATTTTTAAAGAAAAGTTAAAAATATCAATTTTTTTC
1 AAAAATAAAAATTTAAAAAAATATATTTTTGAA-AAAAGTTGAAAGTATCAATTTTTTTT
* * * *
23343124 AAGAATAAAAATTTCAAAAAAAAATTATTTTTGAGAGAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAATAAAAATTT-AAAAAAATA-TATTTTTGA-AAAAAGTTGAAAGTATCAATTTTTTTT
* * * ** * * * *
23343186 GAAAATAAAAATTTTCAAAAAAAAAAACATTTAAAGAAAAGTTGAAAGTAACAATTTTTCTC
1 AAAAATAAAAA-TTT-AAAAAAATATATTTTTGAA-AAAAGTTGAAAGTATCAATTTTTTTT
* * * ** * * ** **
23343248 GAAAATAAAATTTTTCAAAAAATAT-TTTAAGGAAAAA-TTAAAAAAATCAATTTTTCGT
1 AAAAATAAAA-ATTTAAAAAAATATATTTTTGAAAAAAGTTGAAAGTATCAATTTTTTTT
* ** * ** ** * * * *
23343306 GAAAATAAAACCTCAAAAAAGCAT-TTTAAGGAAAAA-CTAAAAGTATCAATTTTCTTT
1 AAAAATAAAAATTTAAAAAAATATATTTTTGAAAAAAGTTGAAAGTATCAATTTTTTTT
* * * * *
23343363 GAAAATAAGATTTTCAAGAAAA-ACATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
1 AAAAATAAAAATTT-AAAAAAATATATTTTTGA-AAAAAGTTGAAAGTATCAATTTTT
23343420 CTTGTATAAA
Statistics
Matches: 276, Mismatches: 70, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
57 46 0.17
58 34 0.12
59 9 0.03
60 75 0.27
61 19 0.07
62 79 0.29
63 14 0.05
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (59 bp):
AAAAATAAAAATTTAAAAAAATATATTTTTGAAAAAAGTTGAAAGTATCAATTTTTTTT
Found at i:23343082 original size:62 final size:62
Alignment explanation
Indices: 23343015--23343272 Score: 256
Period size: 62 Copynumber: 4.2 Consensus size: 62
23343005 AAATTAAAAC
* * * * * *
23343015 TTTAAAAAAATATATTTTTGAATAAAAATTGAAAGTATTAATTTTTTTTAAAAATAAAAATT
1 TTTAAAAAAATATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATT
* * * *
23343077 TTT--AAAAATATATTTTTAAAGAAAAGTTAAAAATATCAATTTTTTTCAAGAATAAAAA-T
1 TTTAAAAAAATATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATT
* * * **
23343136 TTCAAAAAAAAATTATTTTT-GAGAGAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATT
1 TTTAAAAAAATA-TATTTTTAAAGA-AAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATT
* * * ** * *
23343199 TTCAAAAAAAAAAACATTTAAAGAAAAGTTGAAAGTAACAATTTTTCTCGAAAAT-AAAATT
1 TTTAAAAAAATATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATT
*
23343260 TTTCAAAAAATAT
1 TTTAAAAAAATAT
23343273 TTTAAGGAAA
Statistics
Matches: 163, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
59 3 0.02
60 47 0.29
61 24 0.15
62 73 0.45
63 16 0.10
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (62 bp):
TTTAAAAAAATATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAAAATT
Found at i:23343093 original size:14 final size:15
Alignment explanation
Indices: 23343059--23343096 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
23343049 GTATTAATTT
23343059 TTTTTAAAAATAAAAA
1 TTTTTAAAAAT-AAAA
*
23343075 TTTTTAAAAAT-ATA
1 TTTTTAAAAATAAAA
23343089 TTTTTAAA
1 TTTTTAAA
23343097 GAAAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
16 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTTTAAAAATAAAA
Found at i:23343169 original size:122 final size:125
Alignment explanation
Indices: 23343018--23343269 Score: 307
Period size: 122 Copynumber: 2.0 Consensus size: 125
23343008 TTAAAACTTT
* * *
23343018 AAAAAAATATATTTTTGAATAAAAATTGAAAGTATTAATTTTTTTTAAAAATAAAAATTTT-TAA
1 AAAAAAATATATTTTTGAATAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTTAAAA
* * ** * *
23343082 AAATATATTTTTAAAGAAAAGTTAAAAATATCAATTTTTTTC-AAGAATAAAA-ATTTCAA
66 AAAAAAACATTTAAAGAAAAGTTAAAAATAACAATTTTTCTCGAA-AATAAAATATTTCAA
* * *
23343141 AAAAAAAT-TATTTTTGAGA-GAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTTTCAA
1 AAAAAAATATATTTTTGA-ATAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTT-AA
* * *
23343204 AAAAAAAAACATTTAAAGAAAAGTTGAAAGTAACAATTTTTCTCGAAAATAAAATTTTTCAA
64 AAAAAAAAACATTTAAAGAAAAGTTAAAAATAACAATTTTTCTCGAAAATAAAATATTTCAA
23343266 AAAA
1 AAAA
23343270 TATTTTAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
122 45 0.41
123 9 0.08
124 43 0.39
125 12 0.11
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (125 bp):
AAAAAAATATATTTTTGAATAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTTAAAA
AAAAAAACATTTAAAGAAAAGTTAAAAATAACAATTTTTCTCGAAAATAAAATATTTCAA
Found at i:23347342 original size:15 final size:15
Alignment explanation
Indices: 23347314--23347385 Score: 74
Period size: 17 Copynumber: 4.5 Consensus size: 15
23347304 AATAATGGGT
*
23347314 AAAAAAAGATGAAAGAG
1 AAAAAAA-AGGAAA-AG
23347331 AAAAAAAA-GAAAAG
1 AAAAAAAAGGAAAAG
*
23347345 AGAAAAAAAGAAAAGAG
1 A-AAAAAAAGGAAA-AG
23347362 AAAAAAAAAGGAAAAG
1 -AAAAAAAAGGAAAAG
23347378 AAAAAAAA
1 AAAAAAAA
23347386 ATGAAAATGA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
14 3 0.06
15 19 0.39
16 6 0.12
17 20 0.41
18 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (15 bp):
AAAAAAAAGGAAAAG
Found at i:23347368 original size:33 final size:33
Alignment explanation
Indices: 23347314--23347431 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
23347304 AATAATGGGT
*
23347314 AAAAAAAGATGAAAGAG--AAAAAAAAGAAAAGAG
1 AAAAAAAGA--AAAGAGAAAAAAAAAAGAAAAGAA
*
23347347 AAAAAAAGAAAAGAGAAAAAAAAAGGAAAAGAA
1 AAAAAAAGAAAAGAGAAAAAAAAAAGAAAAGAA
*
23347380 AAAAAAATGAAAATGAAAGAATAAAAAAAATGAAAAAAA
1 AAAAAAA-GAAAA-G--AGAA-AAAAAAAA-GAAAAGAA
23347419 ATAAAAAATGAAA
1 A-AAAAAA-GAAA
23347432 GATGAAAGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
31 6 0.08
33 30 0.42
34 5 0.07
35 1 0.01
37 4 0.06
38 7 0.10
39 8 0.11
40 11 0.15
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (33 bp):
AAAAAAAGAAAAGAGAAAAAAAAAAGAAAAGAA
Found at i:23347397 original size:17 final size:15
Alignment explanation
Indices: 23347314--23347419 Score: 97
Period size: 16 Copynumber: 6.4 Consensus size: 15
23347304 AATAATGGGT
23347314 AAAAAAAGATGAAAGAGA
1 AAAAAAAGA--AAAGA-A
*
23347332 AAAAAAAGAAAAGAG
1 AAAAAAAGAAAAGAA
23347347 AAAAAAAGAAAAGAGAA
1 AAAAAAAG-AAA-AGAA
23347364 AAAAAAAGGAAAAGAA
1 AAAAAAA-GAAAAGAA
23347380 AAAAAAATGAAAATGAA
1 AAAAAAA-GAAAA-GAA
23347397 AGAATAAAA-AAAATGAA
1 A-AA-AAAAGAAAA-GAA
23347414 AAAAAA
1 AAAAAA
23347420 TAAAAAATGA
Statistics
Matches: 79, Mismatches: 3, Indels: 15
0.81 0.03 0.15
Matches are distributed among these distances:
15 11 0.14
16 26 0.33
17 26 0.33
18 12 0.15
19 4 0.05
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAAAAAGAAAAGAA
Found at i:23347424 original size:17 final size:15
Alignment explanation
Indices: 23347329--23347431 Score: 80
Period size: 16 Copynumber: 6.3 Consensus size: 15
23347319 AAGATGAAAG
*
23347329 AGAAAAAAAAGAAAAG
1 AGAAAAAAAA-AAAAA
* *
23347345 AGAAAAAAAGAAAAG
1 AGAAAAAAAAAAAAA
*
23347360 AGAAAAAAAAAGGAAA
1 AGAAAAAAAAA-AAAA
23347376 AGAAAAAAAAATGAAAA
1 AGAAAAAAAAA--AAAA
*
23347393 TGAAAGAATAAAAAAAA
1 AGAAA-AA-AAAAAAAA
*
23347410 TGAAAAAAAATAAAAA
1 AGAAAAAAAA-AAAAA
23347426 ATGAAA
1 A-GAAA
23347432 GATGAAAGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
15 18 0.24
16 29 0.39
17 21 0.28
18 2 0.03
19 4 0.05
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (15 bp):
AGAAAAAAAAAAAAA
Found at i:23347425 original size:41 final size:40
Alignment explanation
Indices: 23347362--23347440 Score: 115
Period size: 40 Copynumber: 1.9 Consensus size: 40
23347352 AAGAAAAGAG
*
23347362 AAAAAAAAAGGAAAAGAAAAAAAAATGAAA-ATGAAAGAAT
1 AAAAAAAAA-GAAAAAAAAAAAAAATGAAAGATGAAAGAAT
*
23347402 AAAAAAAATGAAAAAAAATAAAAAATGAAAGATGAAAGA
1 AAAAAAAAAGAAAAAAAA-AAAAAATGAAAGATGAAAGA
23347441 TGAAAATGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
39 8 0.23
40 19 0.54
41 8 0.23
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (40 bp):
AAAAAAAAAGAAAAAAAAAAAAAATGAAAGATGAAAGAAT
Found at i:23348548 original size:16 final size:17
Alignment explanation
Indices: 23348529--23348570 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
23348519 TTTTTTGTAT
23348529 TTTATGTATT-TTATTA
1 TTTATGTATTATTATTA
23348545 TTTAT-TATTATTATTA
1 TTTATGTATTATTATTA
23348561 -TTATGTATTA
1 TTTATGTATTA
23348571 ATATATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTATGTATTATTATTA
Found at i:23348552 original size:19 final size:19
Alignment explanation
Indices: 23348530--23348570 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23348520 TTTTTGTATT
*
23348530 TTATGTATT-TTATTATTTA
1 TTAT-TATTATTATTATGTA
23348549 TTATTATTATTATTATGTA
1 TTATTATTATTATTATGTA
23348568 TTA
1 TTA
23348571 ATATATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTATTATTATTATTATGTA
Found at i:23348665 original size:25 final size:25
Alignment explanation
Indices: 23348597--23348674 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
23348587 ATTTATTTTT
* *
23348597 TTTTATTTAGAATAGATT-TATATCTA
1 TTTTATTTA-TATAG-TTATATATTTA
23348623 TTTTATTTATATAGTTATATATTTA
1 TTTTATTTATATAGTTATATATTTA
23348648 TTATTA-TTATATTA-TTAT-TATTT-
1 TT-TTATTTATA-TAGTTATATATTTA
23348671 TTTT
1 TTTT
23348675 GTAATATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.04
23 2 0.04
24 7 0.15
25 22 0.47
26 14 0.30
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTATTTATATAGTTATATATTTA
Found at i:23349677 original size:11 final size:11
Alignment explanation
Indices: 23349627--23349782 Score: 62
Period size: 11 Copynumber: 14.3 Consensus size: 11
23349617 TTTTTTTGAA
23349627 TTTTT-TTTA-
1 TTTTTATTTAT
*
23349636 TTTTCATTTAT
1 TTTTTATTTAT
*
23349647 TTATTTATTT-G
1 TT-TTTATTTAT
23349658 TTTTT-TTTAT
1 TTTTTATTTAT
23349668 TTTTTATTTAT
1 TTTTTATTTAT
**
23349679 TAGATTAGGTTTAT
1 T-TTTTA--TTTAT
**
23349693 TTAATATTCT-T
1 TTTTTATT-TAT
* *
23349704 TTTATCTTTAT
1 TTTTTATTTAT
23349715 TTTATT-TTTAT
1 TTT-TTATTTAT
23349726 TTTTGT-TTTA-
1 TTTT-TATTTAT
* *
23349736 CTTTTCTTTAT
1 TTTTTATTTAT
23349747 TTTTTATTT-T
1 TTTTTATTTAT
*
23349757 TCTTTATTT-T
1 TTTTTATTTAT
23349767 TTTATTATTTTAT
1 TTT-TTA-TTTAT
23349780 TTT
1 TTT
23349783 CTTTAAATAA
Statistics
Matches: 114, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
9 8 0.07
10 33 0.29
11 46 0.40
12 14 0.12
13 7 0.06
14 6 0.05
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:23349724 original size:17 final size:16
Alignment explanation
Indices: 23349702--23349782 Score: 76
Period size: 17 Copynumber: 5.0 Consensus size: 16
23349692 TTTAATATTC
23349702 TTTTTATCTTTATTTT
1 TTTTTATCTTTATTTT
* *
23349718 ATTTTTATTTTTGTTTT
1 -TTTTTATCTTTATTTT
**
23349735 ACTTT-TCTTTATTTT
1 TTTTTATCTTTATTTT
*
23349750 TTATTTTTCTTTATTTT
1 TT-TTTATCTTTATTTT
23349767 TTTATTAT-TTTATTTT
1 TTT-TTATCTTTATTTT
23349783 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
15 8 0.15
16 15 0.29
17 29 0.56
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTATCTTTATTTT
Found at i:23349750 original size:28 final size:25
Alignment explanation
Indices: 23349714--23349787 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
23349704 TTTATCTTTA
*
23349714 TTTTA-TTTTTATTTTTGTTTTACTTT
1 TTTTATTTTTTATTTTT-CTTTA-TTT
23349740 TCTTTATTTTTTATTTTTCTTTATTT
1 T-TTTATTTTTTATTTTTCTTTATTT
23349766 TTTTATTATTTTA-TTTTCTTTA
1 TTTTATT-TTTTATTTTTCTTTA
23349788 AATAAAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 15 0.34
26 10 0.23
27 8 0.18
28 11 0.25
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (25 bp):
TTTTATTTTTTATTTTTCTTTATTT
Found at i:23349949 original size:118 final size:118
Alignment explanation
Indices: 23349809--23350085 Score: 373
Period size: 118 Copynumber: 2.3 Consensus size: 118
23349799 AAATTTCCAA
* * *
23349809 AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATTAATTTTCCTTAAAAAT-AAATTTTCAAAAA
1 AAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAA
* * *
23349872 AAAGGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCT-TAAAAGTAAATTTTC
65 AAA-GATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTAAAAAAATAAA-TTTC
* * *
23349927 AAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAA
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAA
* *
23349992 AATATTTTTAGGAAAAATTTGAAAGTATCAATTTTTCTAAAAAAATAAATTTC
66 AAGATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTAAAAAAATAAATTTC
*
23350045 AAAAAAATATTTTTTGAGAAAAAGTTGAAAGTACCAATTTT
1 AAAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT
23350086 TCTCACATAA
Statistics
Matches: 141, Mismatches: 13, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
117 3 0.02
118 86 0.61
119 52 0.37
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (118 bp):
AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAA
AAGATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTAAAAAAATAAATTTC
Found at i:23350073 original size:59 final size:59
Alignment explanation
Indices: 23349809--23350088 Score: 345
Period size: 60 Copynumber: 4.7 Consensus size: 59
23349799 AAATTTCCAA
* * * *
23349809 AAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * *
23349867 AAAAAAA-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGTAAATTTTC
1 AAAAAAATA--TTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
* * * *
23349927 AAAAAAATA-TTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCC
1 AAAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT--AAATTTTC
* * *
23349987 AAAAAAATATTTTTAG-GAAAAATTTGAAAGTATCAATTTTTCTAAAAAAATAAA-TTTC
1 AAAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCT-TAAAAATAAATTTTC
*
23350045 AAAAAAATATTTTTTGAGAAAAAGTTGAAAGTACCAATTTTTCT
1 AAAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCT
23350089 CACATAAGAA
Statistics
Matches: 192, Mismatches: 21, Indels: 17
0.83 0.09 0.07
Matches are distributed among these distances:
57 1 0.01
58 61 0.32
59 33 0.17
60 86 0.45
61 11 0.06
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
AAAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
Found at i:23350755 original size:34 final size:34
Alignment explanation
Indices: 23350717--23350960 Score: 303
Period size: 34 Copynumber: 7.2 Consensus size: 34
23350707 TTTCAAATGT
* *
23350717 GAATCTGAAAGCTTTATGAATCTTCAATTCTTAC
1 GAATCTGAAAACTTTATGAATCTTCAATTCTTGC
*
23350751 GAATCT-AAGAACTTTATGAATCTCCAATTCTTGC
1 GAATCTGAA-AACTTTATGAATCTTCAATTCTTGC
* *
23350785 GAATCTGAAAACTTTATGAATCTTCAATTTTTGT
1 GAATCTGAAAACTTTATGAATCTTCAATTCTTGC
* *
23350819 GAATTTGAAAACTTTATGAATTTTCAATTCTTGC
1 GAATCTGAAAACTTTATGAATCTTCAATTCTTGC
* ** * *
23350853 GAATCT-AAAAGCCTTGCGAATCTTTAATTCTCGC
1 GAATCTGAAAA-CTTTATGAATCTTCAATTCTTGC
* ** * *
23350887 GAATCTGAAAGCTTTGCGAATCTTTAATTCTTAC
1 GAATCTGAAAACTTTATGAATCTTCAATTCTTGC
23350921 GAATCTGAAAACTTTATGAATCTTCAATTCTTGC
1 GAATCTGAAAACTTTATGAATCTTCAATTCTTGC
23350955 GAATCT
1 GAATCT
23350961 TCAATTCTTG
Statistics
Matches: 180, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
33 6 0.03
34 169 0.94
35 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (34 bp):
GAATCTGAAAACTTTATGAATCTTCAATTCTTGC
Found at i:23350805 original size:17 final size:17
Alignment explanation
Indices: 23350785--23350839 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
23350775 CAATTCTTGC
23350785 GAATCTGAAAACTTTAT
1 GAATCTGAAAACTTTAT
** ** *
23350802 GAATCTTCAATTTTTGT
1 GAATCTGAAAACTTTAT
*
23350819 GAATTTGAAAACTTTAT
1 GAATCTGAAAACTTTAT
23350836 GAAT
1 GAAT
23350840 TTTCAATTCT
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (17 bp):
GAATCTGAAAACTTTAT
Found at i:23350868 original size:17 final size:17
Alignment explanation
Indices: 23350848--23350909 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
23350838 ATTTTCAATT
23350848 CTTGCGAATCTAAAAGC
1 CTTGCGAATCTAAAAGC
** **
23350865 CTTGCGAATCTTTAATT
1 CTTGCGAATCTAAAAGC
* *
23350882 CTCGCGAATCTGAAAGC
1 CTTGCGAATCTAAAAGC
*
23350899 TTTGCGAATCT
1 CTTGCGAATCT
23350910 TTAATTCTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (17 bp):
CTTGCGAATCTAAAAGC
Found at i:23350923 original size:17 final size:17
Alignment explanation
Indices: 23350903--23350977 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
23350893 GAAAGCTTTG
*
23350903 CGAATCTTTAATTCTTA
1 CGAATCTTCAATTCTTA
* **
23350920 CGAATC-TGAAAACTTTA
1 CGAATCTTCAATTC-TTA
* *
23350937 TGAATCTTCAATTCTTG
1 CGAATCTTCAATTCTTA
*
23350954 CGAATCTTCAATTCTTG
1 CGAATCTTCAATTCTTA
23350971 CGAATCT
1 CGAATCT
23350978 GAAAATTTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 4 0.09
17 39 0.83
18 4 0.09
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (17 bp):
CGAATCTTCAATTCTTA
Found at i:23350942 original size:51 final size:51
Alignment explanation
Indices: 23350887--23351032 Score: 134
Period size: 51 Copynumber: 2.9 Consensus size: 51
23350877 TAATTCTCGC
*
23350887 GAATCTGAAAGCT-TTGCGAATCTTTAATTCTTACGAATCTGAAAACTTTAT
1 GAATCTGAAA-CTCTTGCGAATCTTCAATTCTTACGAATCTGAAAACTTTAT
** * * * *
23350938 GAATCTTCAATTCTTGCGAATCTTCAATTCTTGCGAATCTGAAAATTTTGT
1 GAATCTGAAACTCTTGCGAATCTTCAATTCTTACGAATCTGAAAACTTTAT
* ** * * * *
23350989 GAACCTCTAATTCTCGTGAATC-TCTAATTCTTATGAATCTGAAA
1 GAATCTGAAACTCTTGCGAATCTTC-AATTCTTACGAATCTGAAA
23351033 GTTTTTACGA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
50 3 0.04
51 76 0.96
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (51 bp):
GAATCTGAAACTCTTGCGAATCTTCAATTCTTACGAATCTGAAAACTTTAT
Found at i:23351065 original size:17 final size:17
Alignment explanation
Indices: 23350937--23351067 Score: 93
Period size: 17 Copynumber: 7.6 Consensus size: 17
23350927 GAAAACTTTA
*
23350937 TGAATCTTCAATTCTTG
1 TGAATCTCCAATTCTTG
* *
23350954 CGAATCTTCAATTCTTG
1 TGAATCTCCAATTCTTG
* **
23350971 CGAATCTGAAAATT-TTG
1 TGAATCT-CCAATTCTTG
* * *
23350988 TGAACCTCTAATTCTCG
1 TGAATCTCCAATTCTTG
* *
23351005 TGAATCTCTAATTCTTA
1 TGAATCTCCAATTCTTG
** * *
23351022 TGAATCTGAAAGTTTTTA
1 TGAATCTCCAA-TTCTTG
*
23351040 CGAATCTCCAATTCTTG
1 TGAATCTCCAATTCTTG
23351057 TGAATCTCCAA
1 TGAATCTCCAA
23351068 AACTTGCAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
16 4 0.04
17 70 0.77
18 17 0.19
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (17 bp):
TGAATCTCCAATTCTTG
Found at i:23353441 original size:61 final size:62
Alignment explanation
Indices: 23353312--23353447 Score: 161
Period size: 61 Copynumber: 2.2 Consensus size: 62
23353302 ATTATTTTTG
* * * *
23353312 AAAATAAAAATTTTAAAAAAATATTTTTTTGAGAAAAAAATTGAAAGTATTAATTTTTCTCA
1 AAAATAAAAATTTCAAAAAAATATTTTTTTGAGAAAAAAATTGAAAATATCAATTTTCCTCA
* ** *
23353374 AGAATAAAAATTTCAAAAAAA-ATTATTTTTGAG-GGAAAGTTGAAAATATCAATTTTCCT-A
1 AAAATAAAAATTTCAAAAAAATATT-TTTTTGAGAAAAAAATTGAAAATATCAATTTTCCTCA
23353434 TAAAATAAAAATTT
1 -AAAATAAAAATTT
23353448 TTTTAAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 1 0.02
61 35 0.56
62 27 0.43
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.36
Consensus pattern (62 bp):
AAAATAAAAATTTCAAAAAAATATTTTTTTGAGAAAAAAATTGAAAATATCAATTTTCCTCA
Found at i:23353478 original size:61 final size:62
Alignment explanation
Indices: 23353409--23353552 Score: 145
Period size: 61 Copynumber: 2.3 Consensus size: 62
23353399 TTTTTGAGGG
* ** *
23353409 AAAGTTGAAAATATCAATTTTCCTAT-AAAATAAAAATTTTT-TTAAAAAAATA-TTTTAAGAAA
1 AAAGTTGAAAATATCAATTTTCAT-TGAAAAT-AAAATTTTTGAAAAAAAAACATTTTTAA-AAA
* * *
23353471 AAA-TTG-AAATAATTAATATTCATTGGAAATAAAATTTTTGAAAAAAAAACATTTTTAAAAA
1 AAAGTTGAAAAT-ATCAATTTTCATTGAAAATAAAATTTTTGAAAAAAAAACATTTTTAAAAA
*
23353532 AAAGTTGAAAGTATCAATTTT
1 AAAGTTGAAAATATCAATTTT
23353553 TTTTTAAATA
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
60 14 0.21
61 30 0.45
62 19 0.29
63 3 0.05
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (62 bp):
AAAGTTGAAAATATCAATTTTCATTGAAAATAAAATTTTTGAAAAAAAAACATTTTTAAAAA
Found at i:23355536 original size:18 final size:19
Alignment explanation
Indices: 23355496--23355538 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
23355486 TAGTAGAAAG
***
23355496 AAAGGATGGTAAGAAAGGC
1 AAAGGATGGTAAGAAACAA
23355515 AAAGGATGG-AAGAAACAA
1 AAAGGATGGTAAGAAACAA
23355533 AAAGGA
1 AAAGGA
23355539 ATCAATTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.56, C:0.05, G:0.33, T:0.07
Consensus pattern (19 bp):
AAAGGATGGTAAGAAACAA
Found at i:23358013 original size:23 final size:24
Alignment explanation
Indices: 23357987--23358033 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
23357977 ATTAATAAAA
23357987 TATTTTTTTAAAATATAAA-ATAT
1 TATTTTTTTAAAATATAAATATAT
*
23358010 TATTTTTTTAATATATAAATATAT
1 TATTTTTTTAAAATATAAATATAT
23358034 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTTTTTAAAATATAAATATAT
Found at i:23358384 original size:2 final size:2
Alignment explanation
Indices: 23358377--23358401 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23358367 TTCTCTTAAT
23358377 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23358402 GGTAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23359140 original size:7 final size:7
Alignment explanation
Indices: 23359128--23359154 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23359118 GTAAAAGAAA
23359128 TGGTAAC
1 TGGTAAC
23359135 TGGTAAC
1 TGGTAAC
23359142 TGGTAAC
1 TGGTAAC
23359149 TGGTAA
1 TGGTAA
23359155 TGGAACAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (7 bp):
TGGTAAC
Found at i:23359597 original size:2 final size:2
Alignment explanation
Indices: 23359592--23359635 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
23359582 TCTCTCTATT
*
23359592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23359633 TA T
1 TA T
23359636 GTGCACGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23360555 original size:2 final size:2
Alignment explanation
Indices: 23360548--23360580 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23360538 TACATGTGCT
*
23360548 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23360581 TATTGATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23362229 original size:21 final size:20
Alignment explanation
Indices: 23362201--23362239 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23362191 TTTTTAGTAT
23362201 TTATTTGTTTCATTTGTGCC
1 TTATTTGTTTCATTTGTGCC
*
23362221 TTATGTTGTTTTATTTGTG
1 TTAT-TTGTTTCATTTGTG
23362240 TTATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.08, G:0.18, T:0.64
Consensus pattern (20 bp):
TTATTTGTTTCATTTGTGCC
Found at i:23370081 original size:2 final size:2
Alignment explanation
Indices: 23370074--23370098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23370064 CATAACGAAC
23370074 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23370099 TCAGGTTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23376033 original size:17 final size:17
Alignment explanation
Indices: 23376011--23376048 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
23376001 CATAAAATTA
*
23376011 ATATATATAAATATTTT
1 ATATATATAAATATATT
*
23376028 ATATATATATATATATT
1 ATATATATAAATATATT
23376045 ATAT
1 ATAT
23376049 GTTGGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATATAAATATATT
Found at i:23380244 original size:3 final size:3
Alignment explanation
Indices: 23380236--23380279 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
23380226 ATTTTAAGAG
*
23380236 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23380280 TCACAATTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23381366 original size:21 final size:21
Alignment explanation
Indices: 23381336--23381377 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23381326 ATTTAATAAA
* *
23381336 AAAGACAAAAACACAAAAAAT
1 AAAGAAAAAAACAAAAAAAAT
*
23381357 AAAGAAAAAAATAAAAAAAAT
1 AAAGAAAAAAACAAAAAAAAT
23381378 TCATTGAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.81, C:0.07, G:0.05, T:0.07
Consensus pattern (21 bp):
AAAGAAAAAAACAAAAAAAAT
Found at i:23381765 original size:24 final size:26
Alignment explanation
Indices: 23381732--23381781 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
23381722 ATACATATAT
23381732 AAATAAAA-TT-ATATAAATAATTAA
1 AAATAAAATTTAATATAAATAATTAA
* *
23381756 AAATATAATTTAATATATATAATTAA
1 AAATAAAATTTAATATAAATAATTAA
23381782 GACAATGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 2 0.09
26 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
AAATAAAATTTAATATAAATAATTAA
Found at i:23387010 original size:19 final size:19
Alignment explanation
Indices: 23386983--23387021 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
23386973 AAAAAGTATG
23386983 ATTTATTTCAAATAATTAT
1 ATTTATTTCAAATAATTAT
*
23387002 ATTTGTTTCAAATAATTAT
1 ATTTATTTCAAATAATTAT
23387021 A
1 A
23387022 AATTCATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTATTTCAAATAATTAT
Found at i:23392329 original size:15 final size:15
Alignment explanation
Indices: 23392309--23392337 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23392299 GTAAACAGAT
23392309 GTTATGGTGTACCAC
1 GTTATGGTGTACCAC
23392324 GTTATGGTGTACCA
1 GTTATGGTGTACCA
23392338 AATTCTATCT
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:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (15 bp):
GTTATGGTGTACCAC
Found at i:23396546 original size:2 final size:2
Alignment explanation
Indices: 23396539--23396569 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23396529 AACTCCATAA
*
23396539 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23396570 AACAAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:23396643 original size:3 final size:3
Alignment explanation
Indices: 23396635--23396665 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23396625 TTAATCCCTC
23396635 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23396666 GAATTTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23398085 original size:33 final size:35
Alignment explanation
Indices: 23398041--23398107 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 35
23398031 TGAATCAAAT
*
23398041 ATTAAAATATTTAAATTT-AATTC-GTTCGATAAA
1 ATTAAAATATTTAAATTTAAATTCAATTCGATAAA
*
23398074 ATTAAACTATTTAAATTTAAATTCAATTCGATAA
1 ATTAAAATATTTAAATTTAAATTCAATTCGATAA
23398108 TAAATAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 17 0.57
34 5 0.17
35 8 0.27
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (35 bp):
ATTAAAATATTTAAATTTAAATTCAATTCGATAAA
Found at i:23401450 original size:32 final size:33
Alignment explanation
Indices: 23401414--23401479 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
23401404 GAAAGTTTTA
23401414 TTTGGTATTGTGATATTAAATA-TTGACCTCTC
1 TTTGGTATTGTGATATTAAATATTTGACCTCTC
23401446 TTTGGTATTGTGATATTAAATATTTGACCTCTC
1 TTTGGTATTGTGATATTAAATATTTGACCTCTC
23401479 T
1 T
23401480 ATGCGCAGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (33 bp):
TTTGGTATTGTGATATTAAATATTTGACCTCTC
Found at i:23415284 original size:2 final size:2
Alignment explanation
Indices: 23415277--23415306 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23415267 TCTTGCAATG
23415277 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23415307 TTATTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23417841 original size:2 final size:2
Alignment explanation
Indices: 23417834--23417858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23417824 GGCTCTTAAT
23417834 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
23417859 AATAATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23421586 original size:3 final size:3
Alignment explanation
Indices: 23421578--23421624 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
23421568 CCATTGGCAT
* * *
23421578 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA ACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
23421625 TATTATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:23422807 original size:51 final size:51
Alignment explanation
Indices: 23422752--23422852 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
23422742 GAACATCCCC
* ** *
23422752 ACTCTTTGGTGAGTTCCT-AAAATTTATTAAACAAATTTTAAGATTATCTCG
1 ACTCTTTGGTAAAATCCTAAAAAATT-TTAAACAAATTTTAAGATTATCTCG
* *
23422803 ACTCTTTGGTAAAATCTTAAAAAATTTTAAACAAGTTTTAAGATTATCTC
1 ACTCTTTGGTAAAATCCTAAAAAATTTTAAACAAATTTTAAGATTATCTC
23422853 AATTTTGGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.86
52 6 0.14
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.41
Consensus pattern (51 bp):
ACTCTTTGGTAAAATCCTAAAAAATTTTAAACAAATTTTAAGATTATCTCG
Found at i:23422878 original size:51 final size:53
Alignment explanation
Indices: 23422769--23422878 Score: 129
Period size: 51 Copynumber: 2.1 Consensus size: 53
23422759 GGTGAGTTCC
* * *
23422769 TAAAATTTATTAAACAAATTTTAAGATTATCTCGACTCTTTGGTAAAATCTTAA
1 TAAAA-TTATTAAACAAATTTTAAGATTATCTCGAATCTTTGGCAAAATCTAAA
* *
23422823 -AAAATT-TTAAACAAGTTTTAAGATTATCTC-AAT-TTTGGCAAGATCCTAAA
1 TAAAATTATTAAACAAATTTTAAGATTATCTCGAATCTTTGGCAAAAT-CTAAA
23422873 TAAAAT
1 TAAAAT
23422879 CATTTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
49 9 0.18
50 6 0.12
51 28 0.57
52 2 0.04
53 4 0.08
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (53 bp):
TAAAATTATTAAACAAATTTTAAGATTATCTCGAATCTTTGGCAAAATCTAAA
Found at i:23423500 original size:17 final size:19
Alignment explanation
Indices: 23423457--23423502 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
23423447 TTTTTAGGTC
*
23423457 TTTATTTTATTTTAGTTTCA
1 TTTA-TTTATTCTAGTTTCA
23423477 TTT-TTTATTCTA-TTT-A
1 TTTATTTATTCTAGTTTCA
23423493 TTTATTTATT
1 TTTATTTATT
23423503 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 4 0.17
17 9 0.38
18 8 0.33
20 3 0.12
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATTTATTCTAGTTTCA
Found at i:23423526 original size:3 final size:3
Alignment explanation
Indices: 23423520--23423576 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
23423510 AATTATTACC
*
23423520 AAT AAT AAT -AT AA- AAT AAG AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23423566 AAT AAT AAT AA
1 AAT AAT AAT AA
23423577 CATCATAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:23423612 original size:14 final size:13
Alignment explanation
Indices: 23423529--23423641 Score: 52
Period size: 15 Copynumber: 8.2 Consensus size: 13
23423519 CAATAATAAT
*
23423529 ATAAAATAAGAATA
1 ATAAAATAA-AAAA
*
23423543 ATAATAATAATAATA
1 ATAA-AATAA-AAAA
*
23423558 ATAATAATAATAATA
1 ATAA-AATAA-AAAA
23423573 ATAACATCATAAAAAA
1 ATAA-A--ATAAAAAA
*
23423589 ATAACATAAAAAA
1 ATAAAATAAAAAA
* *
23423602 TTAAAAT-TAAAA
1 ATAAAATAAAAAA
* *
23423614 TTAAAA-CAAAAA
1 ATAAAATAAAAAA
23423626 ATAAAA-AGAAAAA
1 ATAAAATA-AAAAA
23423639 ATA
1 ATA
23423642 TGCGAAACGG
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
12 19 0.23
13 21 0.25
14 4 0.05
15 29 0.35
16 7 0.08
17 4 0.05
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:23424452 original size:3 final size:3
Alignment explanation
Indices: 23424444--23424477 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23424434 TGTTTTAAAG
23424444 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23424478 TAAACAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23424748 original size:39 final size:38
Alignment explanation
Indices: 23424691--23425092 Score: 383
Period size: 39 Copynumber: 10.3 Consensus size: 38
23424681 AGAGGCTATA
*
23424691 AAACTTTAAATTCAAAAAGCTCATCTCACTAGAGGCAAC
1 AAACTTTAAATTC-AAAAGCTCATCTCACCAGAGGCAAC
* * * * * *
23424730 GAACTTTTAAATTCAAAAGCCCCTTTAACCAAAGGCAAC
1 AAAC-TTTAAATTCAAAAGCTCATCTCACCAGAGGCAAC
*
23424769 GAACTTTAAATTCAAAAGGCTCATCTCACCAGAGGCAAC
1 AAACTTTAAATTCAAAA-GCTCATCTCACCAGAGGCAAC
*
23424808 AAACTTTAAATTTAAAAAGCTCATCTCACCAGAGGCAAC
1 AAACTTTAAA-TTCAAAAGCTCATCTCACCAGAGGCAAC
** *
23424847 AAACTTTAAATTCAAAAGGCTCCCCTCACCAGAGGTAAC
1 AAACTTTAAATTCAAAA-GCTCATCTCACCAGAGGCAAC
* * *
23424886 AAACTTTAAATGTTAAAAAACTTC-TCTCACCAGAGGTAAC
1 AAACTTTAAA--TTCAAAAGC-TCATCTCACCAGAGGCAAC
* * * * *
23424926 AAACTTTAAATCTAAAAATCTCATTTAACCAAAGGCAAC
1 AAACTTTAAAT-TCAAAAGCTCATCTCACCAGAGGCAAC
* * * * *
23424965 AAACTTTAAATTCAAAAAGCTCCTTTAACCAAAAGCAAC
1 AAACTTTAAATTC-AAAAGCTCATCTCACCAGAGGCAAC
* * * * * * *
23425004 ATACTTTAAATTTTAAAAGCTCCTTTAACGAAAGGCAAC
1 AAACTTTAAA-TTCAAAAGCTCATCTCACCAGAGGCAAC
* *
23425043 AAACTTTAAATTAAAAAGGCTCATCTGACCAGAGGCAAC
1 AAACTTTAAATTCAAAA-GCTCATCTCACCAGAGGCAAC
23425082 AAACTTTAAAT
1 AAACTTTAAAT
23425093 GGCTCCTTTA
Statistics
Matches: 310, Mismatches: 41, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
38 29 0.09
39 230 0.74
40 43 0.14
41 8 0.03
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (38 bp):
AAACTTTAAATTCAAAAGCTCATCTCACCAGAGGCAAC
Found at i:23425024 original size:196 final size:196
Alignment explanation
Indices: 23424691--23425093 Score: 515
Period size: 196 Copynumber: 2.1 Consensus size: 196
23424681 AGAGGCTATA
* * * * *
23424691 AAACTTTAAAT-TCAAAAAGCTCATCTCACTAGAGGCAACGAACTTTTAAATTCAAAAGCCCCTT
1 AAACTTTAAATGTCAAAAAACTCATCTCACCAGAGGCAACAAACTTTTAAATTAAAAAGCCCATT
* * * * *
23424755 TAACCAAAGGCAACGAACTTTAAATTCAAAAGGCTCATCTCACCAGAGGCAACAAACTTTAAATT
66 TAACCAAAGGCAACAAACTTTAAATTCAAAAAGCTCATCTAACCAAAAGCAACAAACTTTAAATT
* * * * *
23424820 TAAAAAGCTCATCTCACCAGAGGCAACAAACTTTAAATTCAAAAGGCTCCCCTCACCAGAGGTAA
131 TAAAAAGCTCATCTAACCAAAGGCAACAAACTTTAAATTAAAAAGGCTCACCTCACCAGAGGCAA
23424885 C
196 C
* * * *
23424886 AAACTTTAAATGTTAAAAAACTTC-TCTCACCAGAGGTAACAAAC-TTTAAATCTAAAAATCTCA
1 AAACTTTAAATGTCAAAAAAC-TCATCTCACCAGAGGCAACAAACTTTTAAAT-TAAAAAGCCCA
* * *
23424949 TTTAACCAAAGGCAACAAACTTTAAATTCAAAAAGCTCCTTTAACCAAAAGCAACATACTTTAAA
64 TTTAACCAAAGGCAACAAACTTTAAATTCAAAAAGCTCATCTAACCAAAAGCAACAAACTTTAAA
* * * * * *
23425014 TTTTAAAAGCTCCTTTAACGAAAGGCAACAAACTTTAAATTAAAAAGGCTCATCTGACCAGAGGC
129 TTTAAAAAGCTCATCTAACCAAAGGCAACAAACTTTAAATTAAAAAGGCTCACCTCACCAGAGGC
23425079 AAC
194 AAC
23425082 AAACTTTAAATG
1 AAACTTTAAATG
23425094 GCTCCTTTAA
Statistics
Matches: 177, Mismatches: 28, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
195 18 0.10
196 157 0.89
197 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (196 bp):
AAACTTTAAATGTCAAAAAACTCATCTCACCAGAGGCAACAAACTTTTAAATTAAAAAGCCCATT
TAACCAAAGGCAACAAACTTTAAATTCAAAAAGCTCATCTAACCAAAAGCAACAAACTTTAAATT
TAAAAAGCTCATCTAACCAAAGGCAACAAACTTTAAATTAAAAAGGCTCACCTCACCAGAGGCAA
C
Found at i:23425097 original size:33 final size:33
Alignment explanation
Indices: 23425060--23425125 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
23425050 AAATTAAAAA
* *
23425060 GGCTCATCTGACCAGAGGCAACAAACTTTAAAT
1 GGCTCATCTAACCAAAGGCAACAAACTTTAAAT
* *
23425093 GGCTCCTTTAACCAAAGGCAACAAACTTTAAAT
1 GGCTCATCTAACCAAAGGCAACAAACTTTAAAT
23425126 TAAAAATCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (33 bp):
GGCTCATCTAACCAAAGGCAACAAACTTTAAAT
Found at i:23435998 original size:17 final size:17
Alignment explanation
Indices: 23435963--23436010 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
23435953 GTAAAAATAT
*
23435963 AAAATAACAATAATAATAA
1 AAAATAAC-ATCATAA-AA
23435982 TAATAATAACATCATAAAA
1 -AA-AATAACATCATAAAA
23436001 AAAATAACAT
1 AAAATAACAT
23436011 AAAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 8 0.31
18 2 0.08
19 2 0.08
20 8 0.31
21 6 0.23
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATAACATCATAAAA
Found at i:23436011 original size:14 final size:14
Alignment explanation
Indices: 23435994--23436028 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
23435984 ATAATAACAT
23435994 CATAAAAAAAATAA
1 CATAAAAAAAATAA
23436008 CAT-AAAAAAATAA
1 CATAAAAAAAATAA
23436021 CATTAAAA
1 CA-TAAAA
23436029 GCAACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.63
14 4 0.21
15 3 0.16
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (14 bp):
CATAAAAAAAATAA
Found at i:23436016 original size:13 final size:14
Alignment explanation
Indices: 23435998--23436028 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
23435988 TAACATCATA
23435998 AAAAAAATAACA-T
1 AAAAAAATAACATT
23436011 AAAAAAATAACATT
1 AAAAAAATAACATT
23436025 AAAA
1 AAAA
23436029 GCAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAAATAACATT
Found at i:23436053 original size:25 final size:24
Alignment explanation
Indices: 23436006--23436090 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
23435996 TAAAAAAAAT
* *
23436006 AACATAAAAAAATAACATTAAAAGC
1 AACA-AAAAAAATAAAATAAAAAGC
* *
23436031 AACAAAAAAAATCAAAATCAAAATC
1 AACAAAAAAAAT-AAAATAAAAAGC
* *
23436056 AA-AACAAAAAATAAAAAGAAAAAGA
1 AACAA-AAAAAAT-AAAATAAAAAGC
*
23436081 AACGAAAAAA
1 AACAAAAAAA
23436091 CTTGCGAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 10 0.21
25 37 0.77
26 1 0.02
ACGTcount: A:0.75, C:0.11, G:0.05, T:0.09
Consensus pattern (24 bp):
AACAAAAAAAATAAAATAAAAAGC
Found at i:23436437 original size:20 final size:20
Alignment explanation
Indices: 23436393--23436444 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
23436383 TTCAGTCGTT
23436393 GAAAAATTCAAACGGTCACC
1 GAAAAATTCAAACGGTCACC
* ***
23436413 AAAAAATTCAAACGGTTGTC
1 GAAAAATTCAAACGGTCACC
23436433 GAAAAATTCAAA
1 GAAAAATTCAAA
23436445 TTTTTTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.19
Consensus pattern (20 bp):
GAAAAATTCAAACGGTCACC
Found at i:23439652 original size:20 final size:20
Alignment explanation
Indices: 23439614--23439652 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23439604 ATATGTTTCA
*
23439614 TTTTATTTTTATTTCAATTT
1 TTTTATTTTTATTTAAATTT
23439634 TTTTA-TTTTATTCTAAATT
1 TTTTATTTTTATT-TAAATT
23439653 CACCATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATTTAAATTT
Found at i:23439861 original size:4 final size:4
Alignment explanation
Indices: 23439846--23439906 Score: 63
Period size: 4 Copynumber: 15.2 Consensus size: 4
23439836 TCAATCATGT
* **
23439846 ATAA ATTAA ATAA ATAA ATAA A-AGC ATAA ATAA CCAA ATAA ATAA ATAA
1 ATAA A-TAA ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
23439895 ATAA AT-A ATAA A
1 ATAA ATAA ATAA A
23439907 AACCAAAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 4 0.09
4 38 0.81
5 5 0.11
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:23440943 original size:3 final size:3
Alignment explanation
Indices: 23440937--23440983 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
23440927 AAAATAGATA
* *
23440937 ATG ATG ATG ATG ATG ATG ATT ATG ATG ATG ATA ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
23440984 AATAATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.28, T:0.36
Consensus pattern (3 bp):
ATG
Found at i:23440988 original size:3 final size:3
Alignment explanation
Indices: 23440982--23441030 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
23440972 GATGATGATG
23440982 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23441030 A
1 A
23441031 ACTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23441945 original size:81 final size:81
Alignment explanation
Indices: 23441849--23442008 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 81
23441839 CTGGATTTAT
* * ** *
23441849 GACAAAGTAACCAATTCATAGTTTGAGGACTT-TAGGTTCGCAGTAGAGTAAATAATTCACA-AT
1 GACAAAGTAACCAATTCATAGTTTGAGGA-TTCTAGATTCACAACAAAGTAAATAATTCACAGAT
23441912 GAAAGGACTTTAGATTAC
65 GAAA-GACTTTAGATTAC
* * *
23441930 GACAAAGTAATCAATTCATAGTTTGAGGATTCTAGATTCACAACAAAGTAAATGATTCACAGTTG
1 GACAAAGTAACCAATTCATAGTTTGAGGATTCTAGATTCACAACAAAGTAAATAATTCACAGATG
23441995 AAAGACTTTAGATT
66 AAAGACTTTAGATT
23442009 CATAACAGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 2 0.03
81 62 0.90
82 5 0.07
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (81 bp):
GACAAAGTAACCAATTCATAGTTTGAGGATTCTAGATTCACAACAAAGTAAATAATTCACAGATG
AAAGACTTTAGATTAC
Found at i:23441988 original size:41 final size:41
Alignment explanation
Indices: 23441895--23442027 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
23441885 TTCGCAGTAG
* * *
23441895 AGTAAATAATTCACA-ATGAAAGGACTTTAGATT-ACGACAA
1 AGTAAATGATTCACAGTTGAAA-GACTTTAGATTCACAACAA
* * *
23441935 AGT-AATCAATTCATAGTTTG-AGGA-TTCTAGATTCACAACAA
1 AGTAAAT-GATTCACAG-TTGAAAGACTT-TAGATTCACAACAA
* *
23441976 AGTAAATGATTCACAGTTGAAAGACTTTAGATTCATAACAG
1 AGTAAATGATTCACAGTTGAAAGACTTTAGATTCACAACAA
23442017 AGTAAATGATT
1 AGTAAATGATT
23442028 TATAATTGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.07
40 21 0.28
41 43 0.57
42 7 0.09
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (41 bp):
AGTAAATGATTCACAGTTGAAAGACTTTAGATTCACAACAA
Found at i:23442061 original size:41 final size:41
Alignment explanation
Indices: 23441962--23442054 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 41
23441952 TTGAGGATTC
* * * *
23441962 TAGATTCACAACAAAGTAAATGATTCACAGTTGAAAGACTT
1 TAGATTCATAACAGAGTAAATGATTCACAATTGAAAAACTT
* * *
23442003 TAGATTCATAACAGAGTAAATGATTTATAATTGAAAAATTT
1 TAGATTCATAACAGAGTAAATGATTCACAATTGAAAAACTT
*
23442044 TGGATTCATAA
1 TAGATTCATAA
23442055 TGGAGTACAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (41 bp):
TAGATTCATAACAGAGTAAATGATTCACAATTGAAAAACTT
Found at i:23449894 original size:14 final size:16
Alignment explanation
Indices: 23449875--23449916 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 16
23449865 ATTGGCCCAA
23449875 TTTTATTTTTA-T-TT
1 TTTTATTTTTATTATT
23449889 TTTTATTTATTATTATT
1 TTTTATTT-TTATTATT
23449906 TATTTATTTTT
1 T-TTTATTTTT
23449917 TGGGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.33
15 3 0.12
16 1 0.04
17 5 0.21
18 7 0.29
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTTATTATT
Found at i:23449899 original size:18 final size:18
Alignment explanation
Indices: 23449876--23449914 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23449866 TTGGCCCAAT
* *
23449876 TTTATTTTTATTTTTTTA
1 TTTATTATTATTTATTTA
23449894 TTTATTATTATTTATTTA
1 TTTATTATTATTTATTTA
23449912 TTT
1 TTT
23449915 TTTGGGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATTATTATTTATTTA
Found at i:23450913 original size:8 final size:8
Alignment explanation
Indices: 23450894--23450924 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
23450884 TTCAAACCAA
23450894 AAAAATAT
1 AAAAATAT
23450902 -AAAATAT
1 AAAAATAT
23450909 AAAAATAT
1 AAAAATAT
23450917 AAAAATAT
1 AAAAATAT
23450925 TTGGAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:23461811 original size:7 final size:8
Alignment explanation
Indices: 23461801--23461839 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
23461791 GAAAAAATTG
23461801 AAAAAATAA
1 AAAAAAT-A
23461810 AAAAAATA
1 AAAAAATA
23461818 AAAAAAT-
1 AAAAAATA
23461825 AAAAAATGA
1 AAAAAAT-A
23461834 AAAAAA
1 AAAAAA
23461840 AGTAGGAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
8 8 0.29
9 13 0.46
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:23461814 original size:17 final size:15
Alignment explanation
Indices: 23461792--23461838 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
23461782 TATGCTTGAG
23461792 AAAAAATTGAAAAAAT
1 AAAAAA-TGAAAAAAT
*
23461808 AAAAAAAATAAAAAAAT
1 --AAAAAATGAAAAAAT
23461825 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
23461839 AAGTAGGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 13 0.48
17 8 0.30
18 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAAAAAT
Found at i:23461836 original size:8 final size:8
Alignment explanation
Indices: 23461791--23461838 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
23461781 CTATGCTTGA
23461791 GAAAAAATT
1 GAAAAAA-T
23461800 GAAAAAAT
1 GAAAAAAT
*
23461808 AAAAAAAAT
1 -GAAAAAAT
*
23461817 AAAAAAAT
1 GAAAAAAT
23461825 -AAAAAAT
1 GAAAAAAT
23461832 GAAAAAA
1 GAAAAAA
23461839 AAGTAGGAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
7 7 0.19
8 15 0.42
9 14 0.39
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (8 bp):
GAAAAAAT
Found at i:23461839 original size:17 final size:16
Alignment explanation
Indices: 23461792--23461840 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
23461782 TATGCTTGAG
*
23461792 AAAAAATTGAAAAAATA
1 AAAAAAATGAAAAAA-A
23461809 AAAAAAAT-AAAAAAA
1 AAAAAAATGAAAAAAA
*
23461824 TAAAAAATGAAAAAAA
1 AAAAAAATGAAAAAAA
23461840 A
1 A
23461841 GTAGGAGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.29
16 13 0.46
17 7 0.25
ACGTcount: A:0.84, C:0.00, G:0.04, T:0.12
Consensus pattern (16 bp):
AAAAAAATGAAAAAAA
Found at i:23462627 original size:33 final size:33
Alignment explanation
Indices: 23462562--23462627 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
23462552 CCAGCATTTA
* * * *
23462562 CATAGCATGCATTGCATTTCTAAATGTCTAGTG
1 CATAGCATACACTGCATTTCAAAAGGTCTAGTG
* *
23462595 CATAGCATACACTGCATTTGAAAAGGTTTAGTG
1 CATAGCATACACTGCATTTCAAAAGGTCTAGTG
23462628 TAGGGATGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (33 bp):
CATAGCATACACTGCATTTCAAAAGGTCTAGTG
Found at i:23462950 original size:85 final size:84
Alignment explanation
Indices: 23462842--23463029 Score: 220
Period size: 85 Copynumber: 2.2 Consensus size: 84
23462832 ATCAAGGGGC
*
23462842 ATTTATTTTTTCAAAATTATGTTGCCTCTATTTA-AAGGAGTAATTTATTTTCCT-AAAGTTCTG
1 ATTTATTTTTTCAAAATTATGTTGCCTCTATTTAGAA-GAGCAATTTATTTTCCTCAAAG-T-TG
23462905 TTG-CCTCTATTTAAAGGAGCA
63 TTGACCTCTATTTAAAGGAGCA
* * * *
23462926 ATTTATTTTTTTCAAAGTTCTGTTGTCTCTATTTAGAAGAGCAATTTATTTTTCTCAAAGTTGTT
1 ATTTA-TTTTTTCAAAATTATGTTGCCTCTATTTAGAAGAGCAATTTATTTTCCTCAAAGTTGTT
* *
23462991 GAACCTCTATTTAGAGGAGCTTT
65 G-ACCTCTATTTAAAGGAGC--A
*
23463014 GTTTATTTTTTCAAAA
1 ATTTATTTTTTCAAAA
23463030 AAAAAAAAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
84 10 0.11
85 42 0.48
86 22 0.25
87 10 0.11
88 4 0.05
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.47
Consensus pattern (84 bp):
ATTTATTTTTTCAAAATTATGTTGCCTCTATTTAGAAGAGCAATTTATTTTCCTCAAAGTTGTTG
ACCTCTATTTAAAGGAGCA
Found at i:23462957 original size:43 final size:43
Alignment explanation
Indices: 23462842--23463010 Score: 213
Period size: 43 Copynumber: 4.0 Consensus size: 43
23462832 ATCAAGGGGC
* * *
23462842 ATTTATTTTT-TCAAAATTATGTTGCCTCTATTTAAAGGAGTA
1 ATTTATTTTTCTCAAAGTTCTGTTGCCTCTATTTAAAGGAGCA
*
23462884 ATTTATTTTCCT-AAAGTTCTGTTGCCTCTATTTAAAGGAGCA
1 ATTTATTTTTCTCAAAGTTCTGTTGCCTCTATTTAAAGGAGCA
* *
23462926 ATTTATTTTTTTCAAAGTTCTGTTGTCTCTATTTAGAA-GAGCA
1 ATTTATTTTTCTCAAAGTTCTGTTGCCTCTATTTA-AAGGAGCA
*
23462969 ATTTATTTTTCTCAAAG-T-TGTTGAACCTCTATTTAGAGGAGC
1 ATTTATTTTTCTCAAAGTTCTGTTG--CCTCTATTTAAAGGAGC
23463011 TTTGTTTATT
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
41 5 0.05
42 48 0.43
43 56 0.50
44 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (43 bp):
ATTTATTTTTCTCAAAGTTCTGTTGCCTCTATTTAAAGGAGCA
Found at i:23463764 original size:15 final size:15
Alignment explanation
Indices: 23463744--23463776 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
23463734 ATTTTTTTGG
23463744 TTTTTTTAA-TTTAA
1 TTTTTTTAATTTTAA
23463758 TTTTTTTAATTTTAA
1 TTTTTTTAATTTTAA
23463773 TTTT
1 TTTT
23463777 ATTTGTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTAATTTTAA
Found at i:23463792 original size:23 final size:21
Alignment explanation
Indices: 23463736--23463795 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
23463726 CGTTTCCAAT
23463736 TTTTTTGGTTT-TTTTAATTTA
1 TTTTTT-GTTTATTTTAATTTA
* *
23463757 ATTTTT-TTAATTTTAATTTTA
1 TTTTTTGTTTATTTTAA-TTTA
23463778 TTTGTTTGTTTATTTTAA
1 TTT-TTTGTTTATTTTAA
23463796 GAGTATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 11 0.35
22 3 0.10
23 9 0.29
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTTGTTTATTTTAATTTA
Found at i:23465434 original size:9 final size:9
Alignment explanation
Indices: 23465420--23465449 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
23465410 GATATTTTAT
23465420 TAATTAAAA
1 TAATTAAAA
23465429 TAATTAAAA
1 TAATTAAAA
23465438 TATATTAAAA
1 TA-ATTAAAA
23465448 TA
1 TA
23465450 TAAAAGCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:23465446 original size:10 final size:10
Alignment explanation
Indices: 23465422--23465451 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
23465412 TATTTTATTA
23465422 ATTAAAATA-
1 ATTAAAATAT
23465431 ATTAAAATAT
1 ATTAAAATAT
23465441 ATTAAAATAT
1 ATTAAAATAT
23465451 A
1 A
23465452 AAAGCTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:23468209 original size:21 final size:21
Alignment explanation
Indices: 23468185--23468228 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23468175 CATTTGCCAC
*
23468185 TATTTGTTT-TTATTTATTTAT
1 TATTTGTTTGTT-GTTATTTAT
23468206 TATTTGTTTGTTGTTATTTAT
1 TATTTGTTTGTTGTTATTTAT
23468227 TA
1 TA
23468229 GTTTTTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (21 bp):
TATTTGTTTGTTGTTATTTAT
Found at i:23468299 original size:3 final size:3
Alignment explanation
Indices: 23468286--23468322 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
23468276 AAGACTTTAT
23468286 TTA TTA TTTA TTA TT- TTA -TA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23468323 TGTTACCCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Done.