Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 94 of 106
Found at i:19861001 original size:3 final size:3
Alignment explanation
Indices: 19860993--19861052 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
19860983 CTTGAGTGAC
* * *
19860993 AGA AGA AGA AGA AGA AGA GGA AGA CGA AGA CGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
19861041 AGA AGA AGA AGA
1 AGA AGA AGA AGA
19861053 GGATGAGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.62, C:0.03, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19864171 original size:17 final size:17
Alignment explanation
Indices: 19864149--19864183 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19864139 CTAAATTCAC
*
19864149 ATATATAATTTATATAT
1 ATATATAAATTATATAT
19864166 ATATATAAATTATATAT
1 ATATATAAATTATATAT
19864183 A
1 A
19864184 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATAAATTATATAT
Found at i:19864185 original size:11 final size:11
Alignment explanation
Indices: 19864165--19864207 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
19864155 AATTTATATA
19864165 TATATATAAAT
1 TATATATAAAT
19864176 TATATATAAAT
1 TATATATAAAT
* *
19864187 TAAAAATAAAACT
1 TATATAT-AAA-T
19864200 TATATATA
1 TATATATA
19864208 TTTTATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 16 0.62
12 4 0.15
13 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
TATATATAAAT
Found at i:19865665 original size:90 final size:89
Alignment explanation
Indices: 19865565--19865735 Score: 261
Period size: 90 Copynumber: 1.9 Consensus size: 89
19865555 ATCTTTCTTC
* *
19865565 TTTTTTAAAGATAATAAAAGAGAAACGAAATGTCTTGAAAATTTGTATTGAATTCATACATTTTT
1 TTTTTTAAAGATAATAAAAGAGAAACGAAATGTCTTGAAAATTTGTATTGAATCCATACACTTTT
*
19865630 AATCCCGATCTTTCTTCCTTTCGT
66 AATCCCCATCTTTCTTCCTTTCGT
* ** *
19865654 TTTTTTCAAAGATAATCAAAGATTAACGAAATGTTTTGAAAATTTGTATTGAATCCATACACTTT
1 TTTTTT-AAAGATAATAAAAGAGAAACGAAATGTCTTGAAAATTTGTATTGAATCCATACACTTT
*
19865719 TAATCCCCATTTTTCTT
65 TAATCCCCATCTTTCTT
19865736 GTAACAGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 6 0.08
90 67 0.92
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (89 bp):
TTTTTTAAAGATAATAAAAGAGAAACGAAATGTCTTGAAAATTTGTATTGAATCCATACACTTTT
AATCCCCATCTTTCTTCCTTTCGT
Found at i:19865943 original size:15 final size:15
Alignment explanation
Indices: 19865923--19865952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19865913 CAATTTTTCA
*
19865923 AGTTATTATTGTTTG
1 AGTTATTAATGTTTG
19865938 AGTTATTAATGTTTG
1 AGTTATTAATGTTTG
19865953 GCATGTGATG
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:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (15 bp):
AGTTATTAATGTTTG
Found at i:19866155 original size:27 final size:28
Alignment explanation
Indices: 19866107--19866161 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
19866097 CTCTAGTATA
19866107 TAGTTAAAATAAATCACATAAAATTAAT
1 TAGTTAAAATAAATCACATAAAATTAAT
* *
19866135 TAGTTAAAA-AATTCACATAAACTTAAT
1 TAGTTAAAATAAATCACATAAAATTAAT
19866162 CAATGCGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.33
Consensus pattern (28 bp):
TAGTTAAAATAAATCACATAAAATTAAT
Found at i:19871474 original size:20 final size:20
Alignment explanation
Indices: 19871449--19871486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19871439 TGACTTTAAC
19871449 AAATTTAATATTAAAATTTA
1 AAATTTAATATTAAAATTTA
**
19871469 AAATTTGTTATTAAAATT
1 AAATTTAATATTAAAATT
19871487 CCATGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AAATTTAATATTAAAATTTA
Found at i:19871842 original size:21 final size:21
Alignment explanation
Indices: 19871814--19871929 Score: 72
Period size: 21 Copynumber: 5.4 Consensus size: 21
19871804 ATTGCTTTTG
*
19871814 ATAAAATTTTAATAACTTCTT
1 ATAAAATTTTAATAACTTATT
* * * *
19871835 ATACAATTTTAGTAATTTATG
1 ATAAAATTTTAATAACTTATT
* ** * *
19871856 ATATAATTTTGGTAATTTTTT
1 ATAAAATTTTAATAACTTATT
* *
19871877 ATAAAATTTTAATAACCTTGTG
1 ATAAAATTTTAATAA-CTTATT
**
19871899 ATGAAAATTTTTGTAACCTT-TT
1 AT-AAAATTTTAATAA-CTTATT
19871921 ATAAAATTT
1 ATAAAATTT
19871930 ATCCTAAGGT
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
21 52 0.69
22 8 0.11
23 15 0.20
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (21 bp):
ATAAAATTTTAATAACTTATT
Found at i:19872041 original size:22 final size:22
Alignment explanation
Indices: 19872016--19872193 Score: 122
Period size: 22 Copynumber: 8.1 Consensus size: 22
19872006 ATAAAATGAT
* *
19872016 TTATCAATGATTGATAATTAAA
1 TTATCAATGATTTATTATTAAA
* * *
19872038 TTATTATTGATTTATTATTATA
1 TTATCAATGATTTATTATTAAA
* * *
19872060 TTATCAGTGATTTACTATTAAG
1 TTATCAATGATTTATTATTAAA
* * *
19872082 CTATCAATGATATATTACTAAA
1 TTATCAATGATTTATTATTAAA
* * *
19872104 TTATCAATGCTTTACTACTAAA
1 TTATCAATGATTTATTATTAAA
* * * * *
19872126 TTAACATTGATTTACTACTAAT
1 TTATCAATGATTTATTATTAAA
* * * *
19872148 TTTTAAATGATTTACTACTAAA
1 TTATCAATGATTTATTATTAAA
* * *
19872170 TTATGATTAATTTATTATTAAA
1 TTATCAATGATTTATTATTAAA
19872192 TT
1 TT
19872194 GTTGATGATT
Statistics
Matches: 121, Mismatches: 35, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 121 1.00
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.47
Consensus pattern (22 bp):
TTATCAATGATTTATTATTAAA
Found at i:19872080 original size:44 final size:43
Alignment explanation
Indices: 19872016--19872186 Score: 146
Period size: 44 Copynumber: 3.9 Consensus size: 43
19872006 ATAAAATGAT
* * * *
19872016 TTATCAATGATTGA-TAATTAAATTATTATTGATTTATTATTATA
1 TTATCAATGATTTACT-ACTAAATTATCATTGATTTATTACTA-A
* * ** * *
19872060 TTATCAGTGATTTACTATTAAGCTATCAATGATATATTACTAAA
1 TTATCAATGATTTACTACTAAATTATCATTGATTTATTACT-AA
* * *
19872104 TTATCAATGCTTTACTACTAAATTAACATTGATTTACTACTAA
1 TTATCAATGATTTACTACTAAATTATCATTGATTTATTACTAA
* * * *
19872147 TTTTTAAATGATTTACTACTAAATTATGATTAATTTATTA
1 -TTATCAATGATTTACTACTAAATTATCATTGATTTATTA
19872187 TTAAATTGTT
Statistics
Matches: 100, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
43 2 0.02
44 96 0.96
45 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (43 bp):
TTATCAATGATTTACTACTAAATTATCATTGATTTATTACTAA
Found at i:19872192 original size:66 final size:66
Alignment explanation
Indices: 19872034--19872193 Score: 167
Period size: 66 Copynumber: 2.4 Consensus size: 66
19872024 GATTGATAAT
* * * * * *
19872034 TAAATTATTATTGATTTATTATTATATTATCAGTGATTTACTATTAAGCTATCAATGATATATTA
1 TAAATTATCATTGATTTATTATTAAATTAACAGTGATTTACTACTAAGCTATAAATGATATACTA
19872099 C
66 C
* * * * * ** * *
19872100 TAAATTATCAATGCTTTACTACTAAATTAACATTGATTTACTACTAATTTTTAAATGATTTACTA
1 TAAATTATCATTGATTTATTATTAAATTAACAGTGATTTACTACTAAGCTATAAATGATATACTA
19872165 C
66 C
* *
19872166 TAAATTATGATTAATTTATTATTAAATT
1 TAAATTATCATTGATTTATTATTAAATT
19872194 GTTGATGATT
Statistics
Matches: 73, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
66 73 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (66 bp):
TAAATTATCATTGATTTATTATTAAATTAACAGTGATTTACTACTAAGCTATAAATGATATACTA
C
Found at i:19872287 original size:22 final size:22
Alignment explanation
Indices: 19872215--19872287 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
19872205 GCTGCGTACC
* **
19872215 AAGTTACTGATGATTTGTTATA
1 AAGTTATTGATGATTTACTATA
* * *
19872237 AAATTA-TAACTGATTTACTATT
1 AAGTTATTGA-TGATTTACTATA
*
19872259 AATTTATTGATGATTTACTATA
1 AAGTTATTGATGATTTACTATA
19872281 AAGTTAT
1 AAGTTAT
19872288 CAATGATTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 2 0.05
22 36 0.90
23 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (22 bp):
AAGTTATTGATGATTTACTATA
Found at i:19872293 original size:22 final size:22
Alignment explanation
Indices: 19872237--19872300 Score: 51
Period size: 22 Copynumber: 2.9 Consensus size: 22
19872227 ATTTGTTATA
*
19872237 AAATTAT-AACTGATTTACTATT
1 AAATTATCAA-TGATTTACTACT
* **
19872259 AATTTATTGATGATTTACTA-T
1 AAATTATCAATGATTTACTACT
*
19872280 AAAGTTATCAATGATTAACTA
1 AAA-TTATCAATGATTTACTA
19872301 ACTTACTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 3 0.09
22 30 0.88
23 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (22 bp):
AAATTATCAATGATTTACTACT
Found at i:19872328 original size:22 final size:22
Alignment explanation
Indices: 19872303--19872418 Score: 92
Period size: 22 Copynumber: 5.3 Consensus size: 22
19872293 ATTAACTAAC
*
19872303 TTACTATTAAATTATTACTGAT
1 TTACTATTAAATTATTAATGAT
* * *
19872325 TTACAACTAAATTATTATTGAT
1 TTACTATTAAATTATTAATGAT
* * *
19872347 TTACTACTAAGTTATTAATAAT
1 TTACTATTAAATTATTAATGAT
* *
19872369 TTA-TATCAAAATTATTAATAAT
1 TTACTAT-TAAATTATTAATGAT
* **
19872391 TTATTATTATGTTATT-ATGTAT
1 TTACTATTAAATTATTAATG-AT
19872413 TTACTA
1 TTACTA
19872419 CATGTTTTCA
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
21 4 0.05
22 69 0.91
23 3 0.04
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (22 bp):
TTACTATTAAATTATTAATGAT
Found at i:19872362 original size:44 final size:43
Alignment explanation
Indices: 19872293--19872416 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 43
19872283 GTTATCAATG
* * *
19872293 ATTAACTAACTTACTATTAAATTATTACTGATTTACAACTAAATT
1 ATTAA-TAATTTACTATTAAGTTATTA-TGATTTACAACAAAATT
* * * * * *
19872338 ATTATTGATTTACTACTAAGTTATTAATAATTTATATCAAAATT
1 ATTAATAATTTACTATTAAGTTATT-ATGATTTACAACAAAATT
* *
19872382 ATTAATAATTTATTATTATGTTATTATGTATTTAC
1 ATTAATAATTTACTATTAAGTTATTATG-ATTTAC
19872417 TACATGTTTT
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
43 2 0.03
44 54 0.89
45 5 0.08
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (43 bp):
ATTAATAATTTACTATTAAGTTATTATGATTTACAACAAAATT
Found at i:19872500 original size:22 final size:22
Alignment explanation
Indices: 19872452--19872504 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19872442 TAGTTTCGAT
* *
19872452 TATTTACTACAAAATCATCACA
1 TATTTATTACAAAATCAACACA
*
19872474 TATTTATTACAAAATTAAC-CA
1 TATTTATTACAAAATCAACACA
19872495 TGATTTATTA
1 T-ATTTATTA
19872505 TTAAGTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.40
Consensus pattern (22 bp):
TATTTATTACAAAATCAACACA
Found at i:19872587 original size:22 final size:22
Alignment explanation
Indices: 19872503--19872591 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 22
19872493 CATGATTTAT
*
19872503 TATTAAGTTATT-ACTTATTTA-
1 TATTAAGTTATTCA-TTATTAAC
* * * * *
19872524 TATTAAATTATCCATGATTTAT
1 TATTAAGTTATTCATTATTAAC
19872546 TATTAAGTTA-TCATTAATTAAC
1 TATTAAGTTATTCATT-ATTAAC
*
19872568 TATTAAGTTATTGATTATTAAC
1 TATTAAGTTATTCATTATTAAC
19872590 TA
1 TA
19872592 CTACTAAGTA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
21 19 0.35
22 32 0.58
23 4 0.07
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.51
Consensus pattern (22 bp):
TATTAAGTTATTCATTATTAAC
Found at i:19872720 original size:67 final size:66
Alignment explanation
Indices: 19872648--19872772 Score: 173
Period size: 67 Copynumber: 1.9 Consensus size: 66
19872638 TATTATTAAT
* *
19872648 TTTACTATTAAGTTATTTA-TAATTTAATACTAAGTTTATTAATTGATT-ACTATTAAATTGAAA
1 TTTACTATTAAGTTA-TCACTAATTTAATACTAAG-TTATCAATT-ATTAACTATTAAATTGAAA
19872711 TTGA
63 TTGA
* *
19872715 TTTACTATTAAGTTATCACTAATTTATTATTAAGTTATCAATTATTAACTATTAAATT
1 TTTACTATTAAGTTATCACTAATTTAATACTAAGTTATCAATTATTAACTATTAAATT
19872773 ATGACTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
65 3 0.06
66 21 0.40
67 28 0.54
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (66 bp):
TTTACTATTAAGTTATCACTAATTTAATACTAAGTTATCAATTATTAACTATTAAATTGAAATTG
A
Found at i:19872739 original size:22 final size:22
Alignment explanation
Indices: 19872714--19872783 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
19872704 ATTGAAATTG
*
19872714 ATTTACTATTAAGTTATCACTA
1 ATTTACTATTAAGTTATCACTT
* *
19872736 ATTTATTATTAAGTTATCAATT
1 ATTTACTATTAAGTTATCACTT
* * *
19872758 ATTAACTATTAAATTATGACTT
1 ATTTACTATTAAGTTATCACTT
19872780 ATTT
1 ATTT
19872784 TTTATTAACC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCACTT
Found at i:19873224 original size:22 final size:22
Alignment explanation
Indices: 19873199--19873710 Score: 151
Period size: 22 Copynumber: 23.7 Consensus size: 22
19873189 TTATCACTGT
*
19873199 TTTACAATTAAATTATTAATAA
1 TTTACTATTAAATTATTAATAA
* * *
19873221 TTTACTCTTACATTATTAGTAA
1 TTTACTATTAAATTATTAATAA
* *
19873243 TTTATTATTAAGTTA-T--TAA
1 TTTACTATTAAATTATTAATAA
* * *
19873262 TTTGCTACTAAATTATCAATAA
1 TTTACTATTAAATTATTAATAA
* *
19873284 TTTACTATTATATT-TTTATATA
1 TTTACTATTAAATTATTAATA-A
* * ** * * *
19873306 TTTATTGTTATGTTATCATTTA
1 TTTACTATTAAATTATTAATAA
* *
19873328 TTTACTACTT-AATTTTTAATTA
1 TTTACTA-TTAAATTATTAATAA
* * * *
19873350 TTTATCT-TAAAATTATCATTGA
1 TTTA-CTATTAAATTATTAATAA
* * * *
19873372 TTTATTACTAAATTTTTTATAA
1 TTTACTATTAAATTATTAATAA
* * * *
19873394 TTTACTACTAAGTTATTATTGA
1 TTTACTATTAAATTATTAATAA
19873416 TTTA-TATTAAATTATGT-ATAA
1 TTTACTATTAAATTAT-TAATAA
* * *
19873437 TTTTCTATTAAATTATTATTGA
1 TTTACTATTAAATTATTAATAA
* * * * * *
19873459 TTAATTATTATACTATTGATGA
1 TTTACTATTAAATTATTAATAA
* * *
19873481 TTTATTATTAAATTA-TATTGA
1 TTTACTATTAAATTATTAATAA
* * **
19873502 TTTATTTTTATGTT-TTCAATAA
1 TTTACTATTAAATTATT-AATAA
* * * * *
19873524 ATAACTACTAAATTATCAATTA
1 TTTACTATTAAATTATTAATAA
* * * *
19873546 TTTATTACTAATTTA-TAATTTA
1 TTTACTATTAAATTATTAA-TAA
* * *
19873568 TTTACTATTAAGTTATTTATTA
1 TTTACTATTAAATTATTAATAA
19873590 -TT--TATT--ATTATTAATTAA
1 TTTACTATTAAATTATTAA-TAA
* * * * *
19873608 -TTACCATTAAACTGA-AACTGA
1 TTTACTATTAAA-TTATTAATAA
* *
19873629 TTTACTATTAAATTATCATTAA
1 TTTACTATTAAATTATTAATAA
* * *
19873651 TTTACTATTAAGTTATCATTAA
1 TTTACTATTAAATTATTAATAA
* *
19873673 TTTATTATTAAGTTATTAATAA
1 TTTACTATTAAATTATTAATAA
* * *
19873695 TTAACTACTAAGTTAT
1 TTTACTATTAAATTAT
19873711 CATTTATTTT
Statistics
Matches: 352, Mismatches: 113, Indels: 50
0.68 0.22 0.10
Matches are distributed among these distances:
17 6 0.02
18 4 0.01
19 18 0.05
20 3 0.01
21 46 0.13
22 264 0.75
23 11 0.03
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTACTATTAAATTATTAATAA
Found at i:19873453 original size:43 final size:43
Alignment explanation
Indices: 19873205--19873696 Score: 170
Period size: 44 Copynumber: 11.4 Consensus size: 43
19873195 CTGTTTTACA
* * * * *
19873205 ATTAAATTATTAATAATTTACTCTTACATTATTAGTAATTTATT
1 ATTAAATTATT-ATAATTTTCTATTAAATTATTATTGATTTATT
* * * * * * *
19873249 ATTAAGTTA-T-TAATTTGCTACTAAATTATCAATAATTTACT
1 ATTAAATTATTATAATTTTCTATTAAATTATTATTGATTTATT
* * * ** * * *
19873290 ATTATATTTTTATATATTTAT-TGTTATGTTATCATTTATTTACT
1 ATTAAATTATTATA-ATTT-TCTATTAAATTATTATTGATTTATT
* * * *
19873334 ACTT-AATTTTTAATTATTTATCT-TAAAATTATCATTGATTTATT
1 A-TTAAATTATT-ATAATTT-TCTATTAAATTATTATTGATTTATT
* * * * *
19873378 ACTAAATTTTTTATAATTTACTACTAAGTTATTATTGATTTA-T
1 ATTAAA-TTATTATAATTTTCTATTAAATTATTATTGATTTATT
*
19873421 ATTAAATTATGTATAATTTTCTATTAAATTATTATTGATTAATT
1 ATTAAATTAT-TATAATTTTCTATTAAATTATTATTGATTTATT
* * *
19873465 ATTATACTATTGATGATTTAT-TATTAAATTA-TATTGATTTATT
1 ATTAAATTATT-ATAATTT-TCTATTAAATTATTATTGATTTATT
* ** * ** * *
19873508 TTTATGTT-TTCAATAAATAACTACTAAATTATCAATT-ATTTATT
1 ATTAAATTATT--ATAATTTTCTATTAAATTAT-TATTGATTTATT
* * * * * *
19873552 ACTAATTTATAATTTATTTACTATTAAGTTATTTATT-ATTTATT
1 ATTAAATTATTA-TAATTTTCTATTAAATTA-TTATTGATTTATT
* * * * * * *
19873596 ATT--ATTAAT-TAA-TTACCATTAAACTGA-AACTGATTTACT
1 ATTAAATTATTATAATTTTCTATTAAA-TTATTATTGATTTATT
* * * * *
19873635 ATTAAATTATCATTAATTTACTATTAAGTTATCATTAATTTATT
1 ATTAAATTATTA-TAATTTTCTATTAAATTATTATTGATTTATT
*
19873679 ATTAAGTTATTAATAATT
1 ATTAAATTATT-ATAATT
19873697 AACTACTAAG
Statistics
Matches: 333, Mismatches: 85, Indels: 60
0.70 0.18 0.13
Matches are distributed among these distances:
38 2 0.01
39 18 0.05
40 4 0.01
41 34 0.10
42 9 0.03
43 75 0.23
44 174 0.52
45 17 0.05
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (43 bp):
ATTAAATTATTATAATTTTCTATTAAATTATTATTGATTTATT
Found at i:19873676 original size:44 final size:44
Alignment explanation
Indices: 19873628--19873746 Score: 143
Period size: 44 Copynumber: 2.8 Consensus size: 44
19873618 ACTGAAACTG
* * *
19873628 ATTTACTATTAAATTATCATTAATTTACTATTAAGTTATCATTA
1 ATTTATTATTAAGTTATCATTAATTTACTACTAAGTTATCATTA
* * * *
19873672 ATTTATTATTAAGTTATTAATAATTAACTACTAAGTTATCATTT
1 ATTTATTATTAAGTTATCATTAATTTACTACTAAGTTATCATTA
* *
19873716 ATTT-TTGTTAAGTTATC-TTAATTTAGTACTA
1 ATTTATTATTAAGTTATCATTAATTTACTACTA
19873747 CGCTATGTTC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 11 0.17
43 11 0.17
44 41 0.65
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (44 bp):
ATTTATTATTAAGTTATCATTAATTTACTACTAAGTTATCATTA
Found at i:19873689 original size:11 final size:11
Alignment explanation
Indices: 19873634--19873690 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
19873624 ACTGATTTAC
*
19873634 TATTAAATTAT
1 TATTAAGTTAT
* * *
19873645 CATTAATTTAC
1 TATTAAGTTAT
19873656 TATTAAGTTAT
1 TATTAAGTTAT
* *
19873667 CATTAATTTAT
1 TATTAAGTTAT
19873678 TATTAAGTTAT
1 TATTAAGTTAT
19873689 TA
1 TA
19873691 ATAATTAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (11 bp):
TATTAAGTTAT
Found at i:19873899 original size:22 final size:22
Alignment explanation
Indices: 19873854--19873920 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
19873844 ATTATCATTC
* *
19873854 ATTTATTATTAAGTTATTACTA
1 ATTTACTATTAAGTTATGACTA
19873876 ATTTACTATTAAGTTATCGA-TA
1 ATTTACTATTAAGTTAT-GACTA
* *
19873898 A-TTACTACTAAATTAT-ACTA
1 ATTTACTATTAAGTTATGACTA
19873918 ATT
1 ATT
19873921 ACATTTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 14 0.37
22 19 0.50
23 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATGACTA
Found at i:19875569 original size:5 final size:5
Alignment explanation
Indices: 19875561--19875614 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
19875551 TTATTTAAAG
*
19875561 AAATA AAATA AAA-A AAATAA AAATA AAGA-A AAATA AACTAA AAATA
1 AAATA AAATA AAATA AAAT-A AAATA AA-ATA AAATA AAAT-A AAATA
19875607 AAATA AAA
1 AAATA AAA
19875615 AATATTAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
4 5 0.12
5 27 0.64
6 10 0.24
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (5 bp):
AAATA
Found at i:19875603 original size:11 final size:10
Alignment explanation
Indices: 19875561--19875615 Score: 67
Period size: 11 Copynumber: 5.3 Consensus size: 10
19875551 TTATTTAAAG
19875561 AAATAAAATAA
1 AAAT-AAATAA
19875572 AAA-AAATAA
1 AAATAAATAA
*
19875581 AAATAAAGAA
1 AAATAAATAA
19875591 AAATAAACTAA
1 AAATAAA-TAA
19875602 AAATAAAATAA
1 AAAT-AAATAA
19875613 AAA
1 AAA
19875616 ATATTAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 9 0.23
10 12 0.31
11 15 0.38
12 3 0.08
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.15
Consensus pattern (10 bp):
AAATAAATAA
Found at i:19875624 original size:26 final size:27
Alignment explanation
Indices: 19875565--19875613 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
19875555 TTAAAGAAAT
19875565 AAAATAAA--AAAAATAAAAATAAAGA
1 AAAATAAACTAAAAATAAAAATAAAGA
19875590 AAAATAAACTAAAAAT-AAAATAAA
1 AAAATAAACTAAAAATAAAAATAAA
19875614 AAATATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 8 0.36
26 8 0.36
27 6 0.27
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (27 bp):
AAAATAAACTAAAAATAAAAATAAAGA
Found at i:19875676 original size:7 final size:7
Alignment explanation
Indices: 19875647--19875689 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
19875637 ATTAACAAAT
19875647 AATAAT-
1 AATAATA
19875653 AATAATA
1 AATAATA
*
19875660 AATGAT-
1 AATAATA
19875666 AATAATA
1 AATAATA
19875673 AATAAATA
1 AAT-AATA
19875681 AATAATA
1 AATAATA
19875688 AA
1 AA
19875690 AATTGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 11 0.34
7 14 0.44
8 7 0.22
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:19876905 original size:42 final size:41
Alignment explanation
Indices: 19876859--19877296 Score: 367
Period size: 42 Copynumber: 10.5 Consensus size: 41
19876849 TCAGATGTTT
19876859 ACGACTTTGAAATTAAATAAA-GCTCTTCTAAACAGAGGCTCA
1 ACGACTTTGAAA--AAATAAATGCTCTTCTAAACAGAGGCTCA
* *
19876901 ACGACTTTTG-AAAAATAAATGGCTCTTCTAATCAAAGGCTCA
1 ACGAC-TTTGAAAAAATAAAT-GCTCTTCTAAACAGAGGCTCA
* *
19876943 ACGACTTTGGAAAAATAAATTGCTCTTCTAAACAAAGGCTCA
1 ACGACTTTGAAAAAATAAA-TGCTCTTCTAAACAGAGGCTCA
* *
19876985 ACGACTTTG--AAAATAAATTGCTCCTCTAATCAGAGGCTCA
1 ACGACTTTGAAAAAATAAA-TGCTCTTCTAAACAGAGGCTCA
* * * * *
19877025 ACCATTTTGAAAAAATAAATTGTTCCTCTAAATAGAGGCTCA
1 ACGACTTTGAAAAAATAAA-TGCTCTTCTAAACAGAGGCTCA
* * *
19877067 ACCACTTTG--AAAATAAATGGCTCATCTAATCAGAGGCTCA
1 ACGACTTTGAAAAAATAAAT-GCTCTTCTAAACAGAGGCTCA
19877107 ACGACTTTTG-AAAAATAAATTGCTCTTCTAAACAGAGGCTCA
1 ACGAC-TTTGAAAAAATAAA-TGCTCTTCTAAACAGAGGCTCA
** * * *
19877149 ATAACTTTGAAAAATATAACCAAAGCTCATCTAATCAGAGGCTCA
1 ACGACTTTGAAAAA-AT-A--AATGCTCTTCTAAACAGAGGCTCA
** * *
19877194 ATAACTTTTAAAAAATAAATGCTCCTCTAAACAGAGGCATCGTA
1 ACGACTTTGAAAAAATAAATGCTCTTCTAAACAGAGGC-TC--A
* * * * * *
19877238 AC--TTTTG-AAAAGTAAATTGCTCCTCTAAATAGAGGCAACC
1 ACGACTTTGAAAAAATAAA-TGCTCTTCTAAACAGAGGC-TCA
19877278 ACGACTTTG-AAAAATAAAT
1 ACGACTTTGAAAAAATAAAT
19877297 TGCTTCTTAA
Statistics
Matches: 337, Mismatches: 37, Indels: 45
0.80 0.09 0.11
Matches are distributed among these distances:
39 1 0.00
40 73 0.22
41 39 0.12
42 176 0.52
43 9 0.03
44 5 0.01
45 32 0.09
46 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (41 bp):
ACGACTTTGAAAAAATAAATGCTCTTCTAAACAGAGGCTCA
Found at i:19877023 original size:82 final size:82
Alignment explanation
Indices: 19876840--19877300 Score: 463
Period size: 82 Copynumber: 5.5 Consensus size: 82
19876830 TTGATCAAAA
* **
19876840 CTCCTCTAATCAGATG-TTTACGACTTTGAAATTAAATAAA--GCTCTTCTAAACAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAA--AAATAAATTGCTCTTCTAAACAGAGGCTCAA
19876902 CGACTTTTGAAAAATAAATGG
64 CGAC-TTTG-AAAATAAATGG
* * * *
19876923 CTCTTCTAATCAAAGGCTCAACGACTTTGGAAAAATAAATTGCTCTTCTAAACAAAGGCTCAACG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCTTCTAAACAGAGGCTCAACG
*
19876988 ACTTTGAAAATAAATTG
66 ACTTTGAAAATAAATGG
* * * * * *
19877005 CTCCTCTAATCAGAGGCTCAACCATTTTGAAAAAATAAATTGTTCCTCTAAATAGAGGCTCAACC
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCTTCTAAACAGAGGCTCAACG
19877070 ACTTTGAAAATAAATGG
66 ACTTTGAAAATAAATGG
* *
19877087 CTCATCTAATCAGAGGCTCAACGACTTTTG-AAAAATAAATTGCTCTTCTAAACAGAGGCTCAAT
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAAATAAATTGCTCTTCTAAACAGAGGCTCAAC
* **
19877151 AACTTTGAAAAATATAACCAAAG
65 GACTTTG--AAA-ATAA--ATGG
* ** * *
19877174 CTCATCTAATCAGAGGCTCAATAACTTTTAAAAAATAAA-TGCTCCTCTAAACAGAGGCATCGTA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCTTCTAAACAGAGGC-TC--A
* *
19877238 AC--TTTTGAAAAGTAAATTG
63 ACGACTTTGAAAA-TAAATGG
* *
19877257 CTCCTCTAAAT-AGAGGCAACCACGACTTTG-AAAAATAAATTGCT
1 CTCCTCT-AATCAGAGGC-TCAACGACTTTGAAAAAATAAATTGCT
19877301 TCTTAACAAT
Statistics
Matches: 318, Mismatches: 43, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
82 146 0.46
83 44 0.14
84 55 0.17
85 10 0.03
86 21 0.07
87 40 0.13
89 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (82 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCTTCTAAACAGAGGCTCAACG
ACTTTGAAAATAAATGG
Found at i:19879046 original size:22 final size:22
Alignment explanation
Indices: 19879021--19879065 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19879011 CTTTCATATA
* *
19879021 TTTTTTATTTTCTCTTTTTTTC
1 TTTTTTATTTTCACTTTTGTTC
*
19879043 TTTTTTTTTTTCACTTTTGTTC
1 TTTTTTATTTTCACTTTTGTTC
19879065 T
1 T
19879066 CTCTTTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTTATTTTCACTTTTGTTC
Found at i:19879072 original size:22 final size:22
Alignment explanation
Indices: 19879028--19879073 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
19879018 ATATTTTTTA
* * * *
19879028 TTTTCTCTTTTTTTCTTTTTTT
1 TTTTCACTTTTGTTCTCTCTTT
19879050 TTTTCACTTTTGTTCTCTCTTT
1 TTTTCACTTTTGTTCTCTCTTT
19879072 TT
1 TT
19879074 CATCCATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCACTTTTGTTCTCTCTTT
Found at i:19879473 original size:24 final size:24
Alignment explanation
Indices: 19879428--19879474 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
19879418 TGCTTGTGGT
* * *
19879428 ATTTTTCTTTTCTCTATTTCTTTC
1 ATTTTGCTTTACTCTATCTCTTTC
*
19879452 ATTTTGCTTTACTTTATCTCTTT
1 ATTTTGCTTTACTCTATCTCTTT
19879475 GAGACATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.68
Consensus pattern (24 bp):
ATTTTGCTTTACTCTATCTCTTTC
Found at i:19883292 original size:114 final size:114
Alignment explanation
Indices: 19883091--19883359 Score: 398
Period size: 114 Copynumber: 2.3 Consensus size: 114
19883081 TTGTGCAGGA
*
19883091 AAAATTGATACTTTCAACTTTTCTTCAAAA-ATCCATTTTTGAAAACTTATTTTTAAAAAAAATT
1 AAAATTGATACTTTCAACTTTTCTTCAAAATAT---TTTTTGAAAACTTATTTTCAAAAAAAATT
* *
19883155 GATACTTTCAACTTTTTCGCAAAAATATTTTTTGGAAAGCTTATTTTCAA-G
63 GATACTTTCAACTTTTCCGCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
* *
19883206 AAAATTGATACTTTCAACTTTTCTTCAAAATATTTTTTAGAAAGCTTATTTTCAAGAAAAATTGA
1 AAAATTGATACTTTCAACTTTTCTTCAAAATATTTTTT-GAAAACTTATTTTCAAAAAAAATTGA
*
19883271 TACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
65 TACTTTCAACTTTTCCGCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
** *
19883321 AAAATTGACGCTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCTTC-AAAATATTTTTT
19883360 TTGAATTTTA
Statistics
Matches: 141, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
113 5 0.04
114 68 0.48
115 54 0.38
116 14 0.10
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (114 bp):
AAAATTGATACTTTCAACTTTTCTTCAAAATATTTTTTGAAAACTTATTTTCAAAAAAAATTGAT
ACTTTCAACTTTTCCGCAAAAATATTTTTTAGAAAGCTTATTTTCAAGG
Found at i:19883372 original size:58 final size:58
Alignment explanation
Indices: 19883089--19883359 Score: 397
Period size: 58 Copynumber: 4.7 Consensus size: 58
19883079 TTTTGTGCAG
* * *
19883089 GAAAAATTGATACTTTCAACTTTTCTTCAAAAATCCA-TTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTAGAAAGCTTATTTTCAA
* * * *
19883147 AAAAAATTGATACTTTCAACTTTTTCGCAAAAATATTTTTTGGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
*
19883205 G-AAAATTGATACTTTCAACTTTTCTTC-AAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
19883261 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
* **
19883319 GGAAAATTGACGCTTTCAACTTTTCCTCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
19883360 TTGAATTTTA
Statistics
Matches: 194, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
56 30 0.15
57 53 0.27
58 111 0.57
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
Found at i:19883394 original size:12 final size:11
Alignment explanation
Indices: 19883377--19883414 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
19883367 TTATTTAAAG
19883377 AAAATAAATAA
1 AAAATAAATAA
19883388 TAAAATAAATAA
1 -AAAATAAATAA
*
19883400 AAAAT-ATTAA
1 AAAATAAATAA
19883410 AAAAT
1 AAAAT
19883415 TCTAATCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 5 0.20
12 11 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:19883439 original size:3 final size:3
Alignment explanation
Indices: 19883426--19883465 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
19883416 CTAATCTAAT
*
19883426 TAA TAAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19883466 ATAAATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19884306 original size:12 final size:12
Alignment explanation
Indices: 19884282--19884325 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
19884272 AGAAAAGAAG
*
19884282 AAAAGAAAAAAT
1 AAAATAAAAAAT
*
19884294 AAAATAAACAAT
1 AAAATAAAAAAT
19884306 AAAATAAAAAAT
1 AAAATAAAAAAT
19884318 AATAATAA
1 AA-AATAA
19884326 TAAGGATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 23 0.82
13 5 0.18
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:19884629 original size:15 final size:16
Alignment explanation
Indices: 19884609--19884638 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19884599 TTAGTCACCT
19884609 TTAAAATTTT-TTAAA
1 TTAAAATTTTATTAAA
19884624 TTAAAATTTTATTAA
1 TTAAAATTTTATTAA
19884639 GGGTTTAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAAATTTTATTAAA
Found at i:19885681 original size:124 final size:126
Alignment explanation
Indices: 19885452--19885682 Score: 313
Period size: 124 Copynumber: 1.8 Consensus size: 126
19885442 TATTTAATCC
* * * * * ** *
19885452 CTTATTTAAGGTATTTTTGGACAACAAATGCTTTAAATAATCCCTTTTAAAATGTATCAGTGGAT
1 CTTATTTAAGGTATTTTTCGACAACAAATACCTTAAATAATCCCCTTTAAAATATATCAGACGAA
* * **
19885517 TTTTTTAAGGCATTTTTAGTCTAAAAATGCCTTAAATAATACACATCAAATTTTTATTTGG
66 TTTTTCAAAGCATTTTTAGTCTAAAAACACCTTAAATAATACACATCAAATTTTTATTTGG
*
19885578 CTTATTTAAGGTATTTTTCGATAA-AAATACCTTAAATAATCCCCTTTAAAATATATCA-ACGAA
1 CTTATTTAAGGTATTTTTCGACAACAAATACCTTAAATAATCCCCTTTAAAATATATCAGACGAA
* *
19885641 TTTTTCAAAGCGTTTTTAGTCTAAAAACATCTTAAATAATAC
66 TTTTTCAAAGCATTTTTAGTCTAAAAACACCTTAAATAATAC
19885683 CTTTCAATTT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
124 38 0.42
125 30 0.33
126 22 0.24
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (126 bp):
CTTATTTAAGGTATTTTTCGACAACAAATACCTTAAATAATCCCCTTTAAAATATATCAGACGAA
TTTTTCAAAGCATTTTTAGTCTAAAAACACCTTAAATAATACACATCAAATTTTTATTTGG
Found at i:19886602 original size:38 final size:38
Alignment explanation
Indices: 19886549--19886632 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 38
19886539 ATTTTTGATC
19886549 AAAAA-TA-TATTAAATAATC-CCTTTTAAAAAAATATT
1 AAAAATTATTATTAAATAATCTCC-TTTAAAAAAATATT
*
19886585 AGAAATTATTATTAAATAATCTCCTTTAAAAAAATATT
1 AAAAATTATTATTAAATAATCTCCTTTAAAAAAATATT
19886623 AAAAATTATT
1 AAAAATTATT
19886633 TAAGTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 4 0.09
37 2 0.05
38 35 0.81
39 2 0.05
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (38 bp):
AAAAATTATTATTAAATAATCTCCTTTAAAAAAATATT
Found at i:19890107 original size:24 final size:24
Alignment explanation
Indices: 19890080--19890134 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
19890070 TGAAGATAGA
*
19890080 GCAAGTAAGTTTCATAAATGCAAT
1 GCAAGTAAGTTTCATAAATACAAT
*
19890104 GCAAGTAAGTTTCATGAATACAAT
1 GCAAGTAAGTTTCATAAATACAAT
19890128 GCAAGTA
1 GCAAGTA
19890135 TCTCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (24 bp):
GCAAGTAAGTTTCATAAATACAAT
Found at i:19891115 original size:52 final size:52
Alignment explanation
Indices: 19891011--19891115 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
19891001 TATAACCATA
* *
19891011 CAAACTTATCTATTAAAAATCCCTCTTCTCTTAGAATTCTTCTTCTGCAAGT
1 CAAACTTACCTATTAAAAATCCCTCTTCTCTTAGAATTCTTATTCTGCAAGT
* * * *
19891063 CAAACTTACCTATTAAAAATCTCTTTTCTCTTAGAATTCTTATTTTGTAAGT
1 CAAACTTACCTATTAAAAATCCCTCTTCTCTTAGAATTCTTATTCTGCAAGT
19891115 C
1 C
19891116 TTCTTGTCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.43
Consensus pattern (52 bp):
CAAACTTACCTATTAAAAATCCCTCTTCTCTTAGAATTCTTATTCTGCAAGT
Found at i:19891995 original size:52 final size:52
Alignment explanation
Indices: 19891917--19892020 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
19891907 ATAATCATAT
* * *
19891917 AAACTTGCCTATTAAAAATCTTTTTCCTTTTAGAATTCTTCATCTACAAGTC
1 AAACTTGCCTATTAAAAATCTTTTTCCTCTTAAAATTATTCATCTACAAGTC
* *
19891969 AAACTTGCCTATTAAAAATCTTTTTCCTCTTAAAATTATTCTTCTGCAAGTC
1 AAACTTGCCTATTAAAAATCTTTTTCCTCTTAAAATTATTCATCTACAAGTC
19892021 TTTTTATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (52 bp):
AAACTTGCCTATTAAAAATCTTTTTCCTCTTAAAATTATTCATCTACAAGTC
Found at i:19900558 original size:2 final size:2
Alignment explanation
Indices: 19900551--19900597 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
19900541 ATTTGTTATG
* * *
19900551 AT AT AT AT AT AT AT AT AT TT AA AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19900593 GAT AT
1 -AT AT
19900598 TTTTAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:19900578 original size:18 final size:18
Alignment explanation
Indices: 19900555--19900589 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19900545 GTTATGATAT
19900555 ATATATATATATATTTAA
1 ATATATATATATATTTAA
19900573 ATATATATATATATTTA
1 ATATATATATATATTTA
19900590 TATGATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATATATATATATTTAA
Found at i:19900619 original size:25 final size:26
Alignment explanation
Indices: 19900590--19900639 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
19900580 TATATATTTA
*
19900590 TATGATATTTTTAA-TAAAATAAAAT
1 TATGAAATTTTTAAGTAAAATAAAAT
19900615 TATGAAATTTTTAAGTTAAAATAAA
1 TATGAAATTTTTAAG-TAAAATAAA
19900640 TAATTTCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.59
27 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (26 bp):
TATGAAATTTTTAAGTAAAATAAAAT
Found at i:19904935 original size:30 final size:30
Alignment explanation
Indices: 19904854--19904928 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
19904844 ATTAGATTAG
* **
19904854 ATTAAAAATTAAAATTTTATTTAAATACAA
1 ATTAAAAGTTAAAAACTTATTTAAATACAA
* *
19904884 ATTAAAAGTTAAAAACTTATTTAGATATAA
1 ATTAAAAGTTAAAAACTTATTTAAATACAA
*
19904914 ATTAAGAGTTAAAAA
1 ATTAAAAGTTAAAAA
19904929 GCTATTTGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (30 bp):
ATTAAAAGTTAAAAACTTATTTAAATACAA
Found at i:19905358 original size:2 final size:2
Alignment explanation
Indices: 19905351--19905380 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19905341 AATTTTCATG
*
19905351 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19905381 AAAAAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19918648 original size:6 final size:6
Alignment explanation
Indices: 19918594--19918709 Score: 64
Period size: 6 Copynumber: 19.5 Consensus size: 6
19918584 GGTAAGTTTA
* * * * * *
19918594 TATTTT T-TTAT TATTTT TATTAT TATTATT T-TTTG TATTTCA CATTTC
1 TATTTT TATTTT TATTTT TATTTT TATT-TT TATTTT TATTT-T TATTTT
* *
19918642 TATTTC TATTTT TATTTT TATTTT TATTATT T-TTATT GT-TTTT TATATT
1 TATTTT TATTTT TATTTT TATTTT TATT-TT TATT-TT -TATTTT TATTTT
*
19918691 T-TTTT T-CTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TAT
19918710 CTTAGGTATT
Statistics
Matches: 88, Mismatches: 14, Indels: 16
0.75 0.12 0.14
Matches are distributed among these distances:
5 15 0.17
6 61 0.69
7 12 0.14
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:19918674 original size:21 final size:21
Alignment explanation
Indices: 19918648--19918709 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
19918638 TTTCTATTTC
19918648 TATTTTTATTTTTATTTTTAT
1 TATTTTTATTTTTATTTTTAT
*
19918669 TATTTTTATTGTTT-TTTATAT
1 TATTTTTATT-TTTATTTTTAT
19918690 T-TTTTT-TCTTTTATTTTTAT
1 TATTTTTAT-TTTTATTTTTAT
19918710 CTTAGGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 4 0.11
20 12 0.33
21 17 0.47
22 3 0.08
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (21 bp):
TATTTTTATTTTTATTTTTAT
Found at i:19918684 original size:10 final size:9
Alignment explanation
Indices: 19918594--19918693 Score: 57
Period size: 9 Copynumber: 11.1 Consensus size: 9
19918584 GGTAAGTTTA
19918594 TATT-TTTT
1 TATTATTTT
19918602 TATTATTTT
1 TATTATTTT
*
19918611 TATTATTAT
1 TATTATTTT
19918620 TATT-TTTT
1 TATTATTTT
**
19918628 GTATTTCACATT
1 -TA-TT-ATTTT
* *
19918640 T-CTATTTC
1 TATTATTTT
19918648 TATT-TTTAT
1 TATTATTT-T
*
19918657 TTTTATTTT
1 TATTATTTT
19918666 TATTATTTT
1 TATTATTTT
*
19918675 TATTGTTTT
1 TATTATTTT
19918684 T-TATATTTT
1 TAT-TATTTT
19918693 T
1 T
19918694 TTTCTTTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
8 14 0.20
9 47 0.68
10 5 0.07
11 1 0.01
12 2 0.03
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (9 bp):
TATTATTTT
Found at i:19918694 original size:9 final size:8
Alignment explanation
Indices: 19918594--19918707 Score: 54
Period size: 9 Copynumber: 12.9 Consensus size: 8
19918584 GGTAAGTTTA
19918594 TATTTTTT
1 TATTTTTT
19918602 TATTATTTT
1 TATT-TTTT
*
19918611 TATTATTAT
1 TATT-TTTT
19918620 TATTTTTT
1 TATTTTTT
19918628 GTATTTCACATTT
1 -TATTT----TTT
19918641 CTATTTCTATT
1 -TATTT-T-TT
19918652 T-TTATTTT
1 TATT-TTTT
19918660 TATTTTTAT
1 TATTTTT-T
19918669 TATTTTTAT
1 TATTTTT-T
*
19918678 T-GTTTTT
1 TATTTTTT
19918685 TATATTTTT
1 TAT-TTTTT
*
19918694 T-TTCTTT
1 TATTTTTT
19918701 TATTTTT
1 TATTTTT
19918708 ATCTTAGGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
7 7 0.08
8 22 0.26
9 43 0.51
10 3 0.04
11 2 0.02
13 8 0.09
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (8 bp):
TATTTTTT
Found at i:19919623 original size:12 final size:12
Alignment explanation
Indices: 19919603--19919634 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
19919593 CTTCCCCCTC
19919603 CGAGCCGATAGT
1 CGAGCCGATAGT
*
19919615 CGAGTCGATAGT
1 CGAGCCGATAGT
19919627 CGAGCCGA
1 CGAGCCGA
19919635 GGTCTCAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.34, T:0.16
Consensus pattern (12 bp):
CGAGCCGATAGT
Found at i:19919742 original size:13 final size:13
Alignment explanation
Indices: 19919724--19919750 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19919714 TTTTTTTGAA
19919724 TTTATTTATTTAT
1 TTTATTTATTTAT
19919737 TTTATTTATTTAT
1 TTTATTTATTTAT
19919750 T
1 T
19919751 AGATTAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:19919745 original size:17 final size:18
Alignment explanation
Indices: 19919723--19919837 Score: 64
Period size: 18 Copynumber: 6.4 Consensus size: 18
19919713 TTTTTTTTGA
19919723 ATTTATTTATTTA-TTTT
1 ATTTATTTATTTATTTTT
**
19919740 ATTTATTTA-TTA-GATT
1 ATTTATTTATTTATTTTT
*
19919756 AGGTTTATTTA-ATATTCTTT
1 A--TTTATTTATTTATT-TTT
*
19919776 -TTATCTTTATTTTATTTTT
1 ATT-TATTTA-TTTATTTTT
*
19919795 ATTT-TTGT-TTTACTTTT
1 ATTTATT-TATTTATTTTT
* *
19919812 CTTTATTTTTTTATTTTT
1 ATTTATTTATTTATTTTT
19919830 ATTTATTT
1 ATTTATTT
19919838 TCACTTTTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
16 6 0.08
17 23 0.30
18 34 0.45
19 5 0.07
20 8 0.11
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTATTTTT
Found at i:19919790 original size:11 final size:10
Alignment explanation
Indices: 19919774--19919838 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
19919764 TTAATATTCT
19919774 TTTTATCTTTA
1 TTTT-TCTTTA
*
19919785 TTTTATTTTTA
1 TTTT-TCTTTA
*
19919796 TTTTTGTTTTA
1 TTTTT-CTTTA
*
19919807 CTTTTCTTTA
1 TTTTTCTTTA
19919817 -TTTT-TTTA
1 TTTTTCTTTA
*
19919825 TTTTTATTTA
1 TTTTTCTTTA
19919835 TTTT
1 TTTT
19919839 CACTTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
8 4 0.08
9 8 0.17
10 13 0.27
11 23 0.48
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:19919794 original size:6 final size:6
Alignment explanation
Indices: 19919773--19919850 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
19919763 TTTAATATTC
* * * *
19919773 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
* *
19919819 TTTTTA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
19919851 GTTTCATTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 4 0.07
5 10 0.18
6 40 0.71
7 2 0.04
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:19919834 original size:18 final size:18
Alignment explanation
Indices: 19919785--19919838 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
19919775 TTTATCTTTA
*
19919785 TTTTATTTTTATTT-TTG
1 TTTTATTTTTATTTATTT
* *
19919802 TTTTACTTTTCTTTATTT
1 TTTTATTTTTATTTATTT
19919820 TTTTATTTTTATTTATTT
1 TTTTATTTTTATTTATTT
19919838 T
1 T
19919839 CACTTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTATTTATTT
Found at i:19919855 original size:16 final size:15
Alignment explanation
Indices: 19919813--19919856 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
19919803 TTTACTTTTC
*
19919813 TTTATTTTTTT-ATT
1 TTTATTTTTTTCACT
19919827 TTTATTTATTTTCACT
1 TTTATTT-TTTTCACT
19919843 TTTATTTTGTTTCA
1 TTTATTTT-TTTCA
19919857 TTATTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 14 0.54
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTCACT
Found at i:19919924 original size:27 final size:27
Alignment explanation
Indices: 19919894--19919985 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 27
19919884 AAAAAAATAT
19919894 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTGAGGAAAAGTTGAAAGTATCA
** * *
19919921 ATTTTCCTTGAAAATCAAAGTTTCCAAAGAAT--
1 A-TTT--TTGAGGA--AAAG-TT-GAAAGTATCA
19919953 ATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTGAGGAAAAGTTGAAAGTATCA
19919980 ATTTTT
1 ATTTTT
19919986 CTTAAAAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
25 6 0.12
26 2 0.04
27 11 0.23
28 3 0.06
29 5 0.10
30 5 0.10
31 3 0.06
32 5 0.10
33 2 0.04
34 6 0.12
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:19919956 original size:59 final size:58
Alignment explanation
Indices: 19919885--19920159 Score: 344
Period size: 58 Copynumber: 4.7 Consensus size: 58
19919875 ATAAAAATAA
19919885 AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC
1 AAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTC
* * * * *
19919945 CAAAGAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTC
* * *
19920003 AAAAATCA-ACTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTC
1 AAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAG-TTTC
* *
19920063 AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTT---AATAAATTTTT
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTC
*
19920118 AAAAAAATAAATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19920160 TTCTGCACAA
Statistics
Matches: 188, Mismatches: 19, Indels: 19
0.83 0.08 0.08
Matches are distributed among these distances:
55 11 0.06
56 3 0.02
57 32 0.17
58 49 0.26
59 48 0.26
60 45 0.24
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTC
Found at i:19919999 original size:117 final size:117
Alignment explanation
Indices: 19919865--19920159 Score: 384
Period size: 117 Copynumber: 2.5 Consensus size: 117
19919855 CATTATTCTA
* *
19919865 TTTTCTT-TAAATAAAAATAAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TTTTCTTAAAAAT-AAAATTAAAAAAATA-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
19919929 TGAAAATCAAAG-TTTCCAAAGAATATTTTTGAGG-AAAAGTTGAAAGTATCAAT
64 TGAAAATAAAAGTTTTCAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAAT
** * *
19919982 TTTTCTTAAAAATAAAATTTCAAAAATCAACTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT
1 TTTTCTTAAAAATAAAATTAAAAAAAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
19920047 GAAAATAAAAGTTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAT
65 GAAAATAAAAGTTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAT
* ** *
19920100 TTTCCTTAATAAAT--TTTTAAAAAAATAAATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 TTTTCTTAA-AAATAAAATTAAAAAAAT-AATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19920160 TTCTGCACAA
Statistics
Matches: 155, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
117 102 0.66
118 49 0.32
119 4 0.03
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (117 bp):
TTTTCTTAAAAATAAAATTAAAAAAATAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
AAAATAAAAGTTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAT
Found at i:19920057 original size:32 final size:31
Alignment explanation
Indices: 19919904--19920059 Score: 91
Period size: 32 Copynumber: 5.2 Consensus size: 31
19919894 ATTTTTGAGG
19919904 AAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAAGTTGAAAGTATCAATTTT-CTTGAAAAT
* * * **
19919936 CAAAGTTTCCAAAGAAT--A-TTT-TTG--AGG
1 AAAAG-TT-GAAAGTATCAATTTTCTTGAAAAT
*
19919963 AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
1 AAAAGTTGAAAGTATCAA-TTTTCTTGAAAAT
* * * * *
19919995 AAAATTTCAAA-AATCAA-CTT-TTG-AGA-
1 AAAAGTTGAAAGTATCAATTTTCTTGAAAAT
19920021 AAAAGTTGAAAGTATCAATTTTCCTTGAAAAT
1 AAAAGTTGAAAGTATCAATTTT-CTTGAAAAT
19920053 AAAAGTT
1 AAAAGTT
19920060 TTCAAAAAAA
Statistics
Matches: 87, Mismatches: 22, Indels: 30
0.63 0.16 0.22
Matches are distributed among these distances:
25 6 0.07
26 11 0.13
27 13 0.15
28 4 0.05
29 8 0.09
30 5 0.06
31 10 0.11
32 22 0.25
33 2 0.02
34 6 0.07
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (31 bp):
AAAAGTTGAAAGTATCAATTTTCTTGAAAAT
Found at i:19926866 original size:15 final size:15
Alignment explanation
Indices: 19926847--19926882 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
19926837 AAATGATGGA
19926847 AAAAAATGAAAAAATG
1 AAAAAA-GAAAAAATG
*
19926863 AAAAAAGAAAAAGTG
1 AAAAAAGAAAAAATG
19926878 AAAAA
1 AAAAA
19926883 GGAGGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAAAGAAAAAATG
Found at i:19926882 original size:31 final size:31
Alignment explanation
Indices: 19926822--19926882 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
19926812 ATACTATGCT
**
19926822 TGAAAAAATGAAAAAAAATGATGGAAAAAAA
1 TGAAAAAATGAAAAAAAAAAATGGAAAAAAA
19926853 TGAAAAAATGAAAAAAGAAAAA-GTGAAAAA
1 TGAAAAAATGAAAAAA-AAAAATG-GAAAAA
19926883 GGAGGACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.11
Consensus pattern (31 bp):
TGAAAAAATGAAAAAAAAAAATGGAAAAAAA
Found at i:19926883 original size:8 final size:8
Alignment explanation
Indices: 19926847--19926882 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
19926837 AAATGATGGA
19926847 AAAAAATG
1 AAAAAATG
19926855 AAAAAATG
1 AAAAAATG
19926863 AAAAAA-G
1 AAAAAATG
*
19926870 AAAAAGTG
1 AAAAAATG
19926878 AAAAA
1 AAAAA
19926883 GGAGGACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:19927936 original size:41 final size:41
Alignment explanation
Indices: 19927885--19928019 Score: 200
Period size: 41 Copynumber: 3.3 Consensus size: 41
19927875 ATGATTGTCA
*
19927885 AGGAGTAATTTACTTTCTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCTAAAGTCGTGGTGCCTCTGTTTAG
* *
19927926 AGGAGCAATTTA-TTTTTCAAAGTCGTAGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCT-AAAGTCGTGGTGCCTCTGTTTAG
* *
19927967 AGGAACAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCTAAAGTCGTGGTGCCTCTGTTTAG
*
19928008 AGGAGTAATTTA
1 AGGAGCAATTTA
19928020 TTTTTTTTCA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
40 4 0.05
41 76 0.92
42 3 0.04
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCTAAAGTCGTGGTGCCTCTGTTTAG
Found at i:19928310 original size:12 final size:12
Alignment explanation
Indices: 19928289--19928451 Score: 84
Period size: 12 Copynumber: 13.1 Consensus size: 12
19928279 AGTCTATATA
19928289 TTTT-TTATTAT
1 TTTTATTATTAT
19928300 TTTTATTATTATT
1 TTTTATTATTA-T
*
19928313 TTTGTATT-TCACAT
1 TTT-TATTAT--TAT
*
19928327 TTCTATT-TCTAT
1 TTTTATTAT-TAT
*
19928339 TTTTATTTTTAT
1 TTTTATTATTAT
*
19928351 TATTATTATTAT
1 TTTTATTATTAT
*
19928363 TATTATTATTAT
1 TTTTATTATTAT
19928375 TGTTTATATATT-T
1 T-TTTAT-TATTAT
* *
19928388 TTTTTTTTTTAT
1 TTTTATTATTAT
*
19928400 TTTTA-TCTTAGT
1 TTTTATTATTA-T
*
19928412 ATTTATTATTTAT
1 TTTTATTA-TTAT
**
19928425 TAATATGTATATAT
1 TTTTAT-TAT-TAT
*
19928439 CTTTATTATTAT
1 TTTTATTATTAT
19928451 T
1 T
19928452 ATTAATTTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
11 11 0.09
12 57 0.49
13 26 0.22
14 22 0.19
15 1 0.01
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:19928355 original size:3 final size:3
Alignment explanation
Indices: 19928336--19928455 Score: 66
Period size: 3 Copynumber: 38.7 Consensus size: 3
19928326 TTTCTATTTC
* * *
19928336 TAT TTT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* * * * * * *
19928382 ATAT T-T TTT TTT TTT TAT TTT TA- TCT TAG TATT TAT TATT TAT TAA
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
19928428 TAT GTAT ATAT CT-T TAT TAT TAT TAT TA
1 TAT -TAT -TAT -TAT TAT TAT TAT TAT TA
19928456 ATTTTTTTAA
Statistics
Matches: 92, Mismatches: 17, Indels: 16
0.74 0.14 0.13
Matches are distributed among these distances:
2 4 0.04
3 71 0.77
4 17 0.18
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:19929443 original size:11 final size:10
Alignment explanation
Indices: 19929427--19929491 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
19929417 TTAATATTCT
19929427 TTTTATCTTTA
1 TTTT-TCTTTA
*
19929438 TTTTATTTTTA
1 TTTT-TCTTTA
*
19929449 TTTTTGTTTTA
1 TTTTT-CTTTA
*
19929460 CTTTTCTTTA
1 TTTTTCTTTA
19929470 -TTTT-TTTA
1 TTTTTCTTTA
*
19929478 TTTTTATTTA
1 TTTTTCTTTA
19929488 TTTT
1 TTTT
19929492 CACTTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
8 4 0.08
9 8 0.17
10 13 0.27
11 23 0.48
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:19929447 original size:6 final size:6
Alignment explanation
Indices: 19929426--19929503 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
19929416 TTTAATATTC
* * * *
19929426 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTC TTTATT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA
* *
19929472 TTTTTA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
19929504 GTTTCATTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
4 4 0.07
5 10 0.18
6 40 0.71
7 2 0.04
ACGTcount: A:0.14, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:19929448 original size:17 final size:16
Alignment explanation
Indices: 19929426--19929484 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
19929416 TTTAATATTC
*
19929426 TTTTTATCTTTATTTTA
1 TTTTTATATTT-TTTTA
*
19929443 TTTTTATTTTTGTTTTA
1 TTTTTATATTT-TTTTA
*
19929460 CTTTTCTTTATTTTTTTA
1 -TTTT-TATATTTTTTTA
19929478 TTTTTAT
1 TTTTTAT
19929485 TTATTTTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.06
17 19 0.54
18 9 0.26
19 5 0.14
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTATATTTTTTTA
Found at i:19929487 original size:18 final size:18
Alignment explanation
Indices: 19929438--19929491 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
19929428 TTTATCTTTA
*
19929438 TTTTATTTTTATTT-TTG
1 TTTTATTTTTATTTATTT
* *
19929455 TTTTACTTTTCTTTATTT
1 TTTTATTTTTATTTATTT
19929473 TTTTATTTTTATTTATTT
1 TTTTATTTTTATTTATTT
19929491 T
1 T
19929492 CACTTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTATTTATTT
Found at i:19929508 original size:16 final size:15
Alignment explanation
Indices: 19929466--19929509 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
19929456 TTTACTTTTC
*
19929466 TTTATTTTTTT-ATT
1 TTTATTTTTTTCACT
19929480 TTTATTTATTTTCACT
1 TTTATTT-TTTTCACT
19929496 TTTATTTTGTTTCA
1 TTTATTTT-TTTCA
19929510 TTATTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 14 0.54
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTCACT
Found at i:19929684 original size:59 final size:57
Alignment explanation
Indices: 19929537--19929866 Score: 379
Period size: 57 Copynumber: 5.7 Consensus size: 57
19929527 AATAAAAATA
* *
19929537 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAA--TTTC
1 AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAAGTTTTC
* ***
19929594 AAAAAAGGGT-TTTTTAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
1 AAAAAA--ATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAAGTTTTC
* *
19929654 -AAAGAATATTTTTGGGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTC
1 AAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAAGTTTTC
*
19929713 AAAAAAATATTTTTGGGGAAAAGCTGAAAGTATCAATTTTCCTT--AATAAA-TTTTC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAGTTTTC
19929768 AAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAG-TTTC
1 AAAAAAAT--ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAAGTTTTC
* *
19929828 AAAAGAATATTTTTTGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTT
19929867 TCCTACAGAA
Statistics
Matches: 237, Mismatches: 20, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
55 13 0.05
56 4 0.02
57 96 0.41
58 19 0.08
59 47 0.20
60 55 0.23
61 3 0.01
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAGTTTTC
Found at i:19929844 original size:176 final size:172
Alignment explanation
Indices: 19929537--19929866 Score: 450
Period size: 176 Copynumber: 1.9 Consensus size: 172
19929527 AATAAAAATA
* * **
19929537 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTCAAAAAAGG
1 AAAAAAATATTTTTGAGGAAAAGCTAAAAGTATCAATTTTCCTTAAAAAT--ATTTCAAAAAAAA
* *
19929602 GTTTTTTAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAGAATATTTTT
64 ATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAGAATATTTTT
19929667 GGGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTC
129 -GG-AAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTC
* *
19929713 AAAAAAATATTTTTGGGGAAAAGCTGAAAGTATCAATTTTCCTTAATAAAT-TTTCAAAAAAATA
1 AAAAAAATATTTTTGAGGAAAAGCTAAAAGTATCAATTTTCCTTAA-AAATATTTC-AAAAAA-A
** *
19929777 AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATTAAAG-TTTCAAAAGAATATTT
63 AATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC-AAAGAATA-TT
*
19929840 TTTGGAAAAGTTGAAAGTATCAATTTT
126 TTTGGAAAAATTGAAAGTATCAATTTT
19929867 TCCTACAGAA
Statistics
Matches: 137, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
174 29 0.21
175 25 0.18
176 79 0.58
177 4 0.03
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (172 bp):
AAAAAAATATTTTTGAGGAAAAGCTAAAAGTATCAATTTTCCTTAAAAATATTTCAAAAAAAAAT
TTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCAAAGAATATTTTTGG
AAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTTC
Found at i:19933921 original size:14 final size:14
Alignment explanation
Indices: 19933904--19933956 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
19933894 TTATTTGTAA
19933904 TAATAAATTTTAAT
1 TAATAAATTTTAAT
19933918 TAAT-AATTTCATAAATT
1 TAATAAATTT--T-AA-T
*
19933935 TAATATATTTTAAT
1 TAATAAATTTTAAT
19933949 TAATAAAT
1 TAATAAAT
19933957 AAAATTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 5 0.16
14 12 0.38
15 3 0.09
16 3 0.09
17 5 0.16
18 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATAAATTTTAAT
Found at i:19933958 original size:27 final size:28
Alignment explanation
Indices: 19933904--19933965 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
19933894 TTATTTGTAA
*
19933904 TAATAAATTTTAATTAATAATTTCATAAATT
1 TAATAAATTTTAATTAATAA--T-ATAAAAT
*
19933935 TAATATATTTTAATTAATAA-ATAAAAT
1 TAATAAATTTTAATTAATAATATAAAAT
19933962 TAAT
1 TAAT
19933966 TCGTGCGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.34
31 19 0.66
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TAATAAATTTTAATTAATAATATAAAAT
Found at i:19934063 original size:28 final size:28
Alignment explanation
Indices: 19934000--19934065 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
19933990 AGTATACTAT
**
19934000 ATATAATAATAATTTTGTATTATATTTT
1 ATATAATAATAATTTTGTATTATATTAA
* *
19934028 TTAAAATAATAATTTTGTATTATATTAA
1 ATATAATAATAATTTTGTATTATATTAA
*
19934056 ATGTAATAAT
1 ATATAATAAT
19934066 TGATAATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (28 bp):
ATATAATAATAATTTTGTATTATATTAA
Found at i:19935883 original size:2 final size:2
Alignment explanation
Indices: 19935878--19935905 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19935868 ACACACACAC
19935878 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
19935906 TCAGTGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19945871 original size:16 final size:16
Alignment explanation
Indices: 19945852--19945889 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
19945842 ATTTATATTT
19945852 TTTGCAATCACAGTAA
1 TTTGCAATCACAGTAA
* *
19945868 TTTGTAATCACAGTAT
1 TTTGCAATCACAGTAA
19945884 TTTGCA
1 TTTGCA
19945890 TAATGTGAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (16 bp):
TTTGCAATCACAGTAA
Found at i:19949883 original size:32 final size:33
Alignment explanation
Indices: 19949847--19949912 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
19949837 TTATTAAAAT
*
19949847 TTTATATAT-AATTTATATTTATAAAT-AATAAA
1 TTTATACATAAATTT-TATTTATAAATAAATAAA
* *
19949879 TTTATACATAAATTTTTTTTATAATTAAATAAA
1 TTTATACATAAATTTTATTTATAAATAAATAAA
19949912 T
1 T
19949913 CATAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (33 bp):
TTTATACATAAATTTTATTTATAAATAAATAAA
Found at i:19950129 original size:2 final size:2
Alignment explanation
Indices: 19950122--19950148 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19950112 AAAATCAACT
19950122 TC 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 TC T
19950149 TTTGTCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19958392 original size:17 final size:18
Alignment explanation
Indices: 19958370--19958410 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
19958360 TCTTTCATAA
19958370 TAAAAAGAG-AAG-TGTAT
1 TAAAAAGAGAAAGAT-TAT
19958387 TAAAAAGAGAAAGATTAT
1 TAAAAAGAGAAAGATTAT
19958405 TAAAAA
1 TAAAAA
19958411 AAAAAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 12 0.55
19 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (18 bp):
TAAAAAGAGAAAGATTAT
Found at i:19960144 original size:9 final size:9
Alignment explanation
Indices: 19960130--19960158 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19960120 GAGAGAATAT
19960130 TTAATACAA
1 TTAATACAA
19960139 TTAATACAA
1 TTAATACAA
19960148 TTAAT-CAA
1 TTAATACAA
19960156 TTA
1 TTA
19960159 TAATTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAATACAA
Found at i:19963098 original size:2 final size:2
Alignment explanation
Indices: 19963091--19963120 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19963081 CATTTATTAA
19963091 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19963121 CCCCCCCCCC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19965576 original size:17 final size:18
Alignment explanation
Indices: 19965549--19965584 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
19965539 ATTTTAAGTG
19965549 AGTGAAAAAGAATAAATA
1 AGTGAAAAAGAATAAATA
19965567 AGTG-AAAAGAATAAATA
1 AGTGAAAAAGAATAAATA
19965584 A
1 A
19965585 TCTTTGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (18 bp):
AGTGAAAAAGAATAAATA
Found at i:19965943 original size:21 final size:20
Alignment explanation
Indices: 19965919--19965957 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
19965909 TGTGGGTGAA
19965919 AAAAATTATATTTTCAAAAAT
1 AAAAATTATATTTT-AAAAAT
*
19965940 AAAAATTTTATTTTAAAA
1 AAAAATTATATTTTAAAA
19965958 GAAATAATCA
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:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTATATTTTAAAAAT
Found at i:19967031 original size:2 final size:2
Alignment explanation
Indices: 19967024--19967062 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
19967014 ATAACGATAC
* * *
19967024 AT AT AT AT AT TT AC AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19967063 GCTCAACAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19967038 original size:14 final size:14
Alignment explanation
Indices: 19967020--19967062 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
19967010 GAGTATAACG
19967020 ATACATATATATAT
1 ATACATATATATAT
*
19967034 TTACATATATATAT
1 ATACATATATATAT
* *
19967048 ATATATGTATATAT
1 ATACATATATATAT
19967062 A
1 A
19967063 GCTCAACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (14 bp):
ATACATATATATAT
Found at i:19971102 original size:64 final size:64
Alignment explanation
Indices: 19970969--19971091 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
19970959 GAGAGACTTG
**
19970969 CAATA-ATGGATTGTTTCCTTGTAAAGATGCAGATACTAAAATTTCAAATATCAGGATATCATT
1 CAATATATGGATACTTTCCTTGTAAAGATGCAGATACTAAAATTTCAAATATCAGGATATCATT
* * *
19971032 CCATATATGGATACTTTCCTTGTAAAGATGCAGATATTAAGAA-TTCAAATTTCAGGATAT
1 CAATATATGGATACTTTCCTTGTAAAGATGCAGATACTAA-AATTTCAAATATCAGGATAT
19971092 ACATGAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
63 4 0.08
64 47 0.89
65 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (64 bp):
CAATATATGGATACTTTCCTTGTAAAGATGCAGATACTAAAATTTCAAATATCAGGATATCATT
Found at i:19976157 original size:20 final size:20
Alignment explanation
Indices: 19976120--19976157 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19976110 TAAATTATGT
*
19976120 TAATTATATTATTAAAAAAC
1 TAATTATATTATCAAAAAAC
*
19976140 TAATTAT-TTATCATAAAA
1 TAATTATATTATCAAAAAA
19976158 TAAATAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTATATTATCAAAAAAC
Found at i:19977207 original size:2 final size:2
Alignment explanation
Indices: 19977200--19977226 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19977190 TCAGTAAGTC
19977200 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
19977227 ATGTACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:19979767 original size:21 final size:21
Alignment explanation
Indices: 19979743--19979793 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
19979733 CCCGAAATTA
19979743 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
19979764 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
19979785 AT-AAATATT
1 ATAAAATATT
19979794 TAAAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:19979802 original size:16 final size:16
Alignment explanation
Indices: 19979781--19979837 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
19979771 ATTATTTTTT
*
19979781 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
19979797 AAATATAATTATATAA
1 AAATATAAATATATAA
*
19979813 ATATATATAA-ATA-AA
1 AAATATA-AATATATAA
19979828 AAAT-TAAATA
1 AAATATAAATA
19979838 ATTAATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 5 0.15
16 23 0.68
17 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:19979828 original size:30 final size:30
Alignment explanation
Indices: 19979759--19979829 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
19979749 TATTATTTTT
* * *
19979759 TAAATATAAAATATTATTTTTTAAATATAAA
1 TAAATA-AAAATATAATTATATAAATATAAA
** *
19979790 TATTTAAAAATATAATTATATAAATATATA
1 TAAATAAAAATATAATTATATAAATATAAA
19979820 TAAATAAAAA
1 TAAATAAAAA
19979830 ATTAAATAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TAAATAAAAATATAATTATATAAATATAAA
Found at i:19979832 original size:26 final size:25
Alignment explanation
Indices: 19979783--19979867 Score: 86
Period size: 24 Copynumber: 3.4 Consensus size: 25
19979773 TATTTTTTAA
*
19979783 ATATAAATAT-TTAAAAATATAATT
1 ATATAAATATATTAAAAATAAAATT
19979807 ATATAAATATATATAAATAA-AAAATT
1 ATATAAATATAT-TAAA-AATAAAATT
* *
19979833 AAATAATTA-ATTAAAAATAAAATT
1 ATATAAATATATTAAAAATAAAATT
*
19979857 TTATATAATAT
1 ATATA-AATAT
19979868 CGGGTCAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
23 2 0.04
24 23 0.47
25 6 0.12
26 16 0.33
27 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
ATATAAATATATTAAAAATAAAATT
Found at i:19983387 original size:16 final size:17
Alignment explanation
Indices: 19983351--19983388 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
19983341 AGATGAGGTA
*
19983351 ATTTTAATTCTTTGTTC
1 ATTTTTATTCTTTGTTC
19983368 -TTTTTATT-TTTGTTC
1 ATTTTTATTCTTTGTTC
19983383 ATTTTT
1 ATTTTT
19983389 TATCTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (17 bp):
ATTTTTATTCTTTGTTC
Found at i:19988815 original size:64 final size:64
Alignment explanation
Indices: 19988615--19988809 Score: 300
Period size: 64 Copynumber: 3.0 Consensus size: 64
19988605 TTAATAGGTC
* * * *
19988615 TTCCATAAATGGATAGTTTCCTTGCAAAGATGCAGATACTAAAAATTCAAATAGCAGGATATCA
1 TTCCATATATGGATACTTTCCTTGTAAAGATGCAGATACTAAAAATTCAAATATCAGGATATCA
* * *
19988679 TTCCATATATGGATACTTTCCTTGTGAAGATGCCGATACTAAAAATTCAAATATCAGGATATCT
1 TTCCATATATGGATACTTTCCTTGTAAAGATGCAGATACTAAAAATTCAAATATCAGGATATCA
* *
19988743 TTCCATATATGGATACTTTCCTTGTAAAGATGCAGATATTAAGAATTCAAATATCAGGATATACA
1 TTCCATATATGGATACTTTCCTTGTAAAGATGCAGATACTAAAAATTCAAATATCAGGATAT-CA
19988808 TT
1 TT
19988810 AATATACCTT
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 115 0.97
65 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.33
Consensus pattern (64 bp):
TTCCATATATGGATACTTTCCTTGTAAAGATGCAGATACTAAAAATTCAAATATCAGGATATCA
Found at i:19991987 original size:2 final size:2
Alignment explanation
Indices: 19991975--19992004 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19991965 CAATTGCTAA
*
19991975 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19992005 ATTTGGTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:19994762 original size:21 final size:23
Alignment explanation
Indices: 19994693--19994771 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 23
19994683 TTAAACTATG
*
19994693 TTAATTATATTACTAAAA-AAATAA
1 TTAATT-TATTA-TAAAATAATTAA
19994717 TT-ATTTATTATAAAATAATTAA
1 TTAATTTATTATAAAATAATTAA
* *
19994739 TTAATTTTTTA-AAAAT-ATTTA
1 TTAATTTATTATAAAATAATTAA
19994760 TT-ATTTAATTAT
1 TTAATTT-ATTAT
19994772 TACTTATGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
20 4 0.09
21 14 0.30
22 17 0.36
23 10 0.21
24 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAATTTATTATAAAATAATTAA
Found at i:20000378 original size:23 final size:22
Alignment explanation
Indices: 20000348--20000390 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
20000338 CAACAATTTG
20000348 ATAAATTTTAAT-ATTTTAAAAA
1 ATAAA-TTTAATAATTTTAAAAA
20000370 ATAATATTTAATAATTTTAAA
1 ATAA-ATTTAATAATTTTAAA
20000391 TTTTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTTAATAATTTTAAAAA
Found at i:20000386 original size:40 final size:38
Alignment explanation
Indices: 20000322--20000399 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 38
20000312 TGCAATTAAA
* *
20000322 TTTAAAAAATGATGTTCAACAATTTGATAAATTTTAATAT
1 TTTAAAAAATAATATTCAACAATTT--TAAATTTTAATAT
* *
20000362 TTTAAAAAATAATATTTAATAATTTTAAATTTTAATAT
1 TTTAAAAAATAATATTCAACAATTTTAAATTTTAATAT
20000400 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 13 0.38
40 21 0.62
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (38 bp):
TTTAAAAAATAATATTCAACAATTTTAAATTTTAATAT
Found at i:20001880 original size:16 final size:18
Alignment explanation
Indices: 20001859--20001895 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20001849 ATTATTCTTC
20001859 TTTAAAGT-TT-ATATAA
1 TTTAAAGTATTAATATAA
*
20001875 TTTAAATTATTAATATAA
1 TTTAAAGTATTAATATAA
20001893 TTT
1 TTT
20001896 TTAATGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAAGTATTAATATAA
Found at i:20007512 original size:2 final size:2
Alignment explanation
Indices: 20007507--20007532 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20007497 AAAAATGTCC
20007507 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
20007533 TCCACAATTT
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:20011338 original size:14 final size:15
Alignment explanation
Indices: 20011315--20011347 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20011305 ATACTTTAAT
20011315 TTTTTCTGAAAAATA
1 TTTTTCTGAAAAATA
*
20011330 TTTTT-TGAAATATA
1 TTTTTCTGAAAAATA
20011344 TTTT
1 TTTT
20011348 ATTTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTTCTGAAAAATA
Found at i:20011384 original size:57 final size:57
Alignment explanation
Indices: 20011274--20011384 Score: 163
Period size: 57 Copynumber: 1.9 Consensus size: 57
20011264 TCCTTAACTA
* *
20011274 TTTTTGAAATATTTTTATTTTAAGAAAATTAATACTTTAATTTTTTCTGAAAAATAT
1 TTTTTGAAATATTTTTATTTTAAGAAAATTAATACTTTAATTTTTTATAAAAAATAT
*
20011331 TTTTTGAAATATATTTTA-TTTAA-AAAATTAATATTTTAATTTTTATATAAAAAA
1 TTTTTGAAATAT-TTTTATTTTAAGAAAATTAATACTTTAATTTTT-TATAAAAAA
20011385 ATTACTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
56 20 0.41
57 24 0.49
58 5 0.10
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (57 bp):
TTTTTGAAATATTTTTATTTTAAGAAAATTAATACTTTAATTTTTTATAAAAAATAT
Found at i:20011560 original size:270 final size:268
Alignment explanation
Indices: 20011152--20011645 Score: 710
Period size: 270 Copynumber: 1.8 Consensus size: 268
20011142 TCATCATCGG
*
20011152 ATTATTTAAAAAAAAAATTAAATTCCAAGATCAACTTTTGCTAAGAATTCCCTTATTTTATTTTA
1 ATTATTTAAAAAAAAAATTAAATTCCAAGATCAACTTTTCCTAAGAATTCCCTTATTTTATTTTA
* * * *
20011217 GAAGAAATAGTATTTTTATTTGAGAAAAATTAATACGCACAACTTTTTCCTTAACTATTTTTGAA
66 GAAGAAATAGTATATTTATTTAAAAAAAATTAACACGCACAACTTTTTCCTTAACTATTTTTGAA
* * *
20011282 ATATTTTTATTTTAAGAAAATTAATACTTTAATTTTTTCTGAAAAA-TATTTTTTGAAATATATT
131 ATATTTTTATTTTAAAAAAATTAATAC-TTAACTTTTTCT-AAAAACTATTTTTTAAAATATATT
*
20011346 TTATTT-A-AAAAATTAATATTTTAATTTTTATATAAAAAAATTACTATTTCTCTTGCAGAGACA
194 TTATTTAAGAAAAATTAATATTTCAATTTTTATATAAAAAAATTACTATTTCTCTTGCAGAGACA
20011409 CCATCGATGA
259 CCATCGATGA
* * **
20011419 ATTATTT-AAAAAAAAATTAAATTTCAAGATCAACTTTTCCTGAGAATTCTTTATTTTATTTTAT
1 ATTATTTAAAAAAAAAATTAAATTCCAAGATCAACTTTTCCTAAGAATTC----CCTTATTTTAT
** *
20011483 TTTAGAAGAAATAGTA-ATTTACTTTAAAAAAAATTAACACTTATAACTTTTTCCTTAACTATTT
62 TTTAGAAGAAATAGTATATTTA-TTTAAAAAAAATTAACACGCACAACTTTTTCCTTAACTATTT
* * *
20011547 TTGAAATATTTTTATTTTAAAAAAATTGATACTTCACTTTTTCTAAAAACTCTTTTTTAAAATAT
126 TTGAAATATTTTTATTTTAAAAAAATTAATACTTAACTTTTTCTAAAAACTATTTTTTAAAATAT
*
20011612 ATTTTATTTAAGAAAAATTTATATTTCAATTTTT
191 ATTTTATTTAAGAAAAATTAATATTTCAATTTTT
20011646 TCAAACATTA
Statistics
Matches: 199, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
266 39 0.20
267 7 0.04
268 5 0.03
269 36 0.18
270 92 0.46
271 20 0.10
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (268 bp):
ATTATTTAAAAAAAAAATTAAATTCCAAGATCAACTTTTCCTAAGAATTCCCTTATTTTATTTTA
GAAGAAATAGTATATTTATTTAAAAAAAATTAACACGCACAACTTTTTCCTTAACTATTTTTGAA
ATATTTTTATTTTAAAAAAATTAATACTTAACTTTTTCTAAAAACTATTTTTTAAAATATATTTT
ATTTAAGAAAAATTAATATTTCAATTTTTATATAAAAAAATTACTATTTCTCTTGCAGAGACACC
ATCGATGA
Found at i:20011620 original size:57 final size:57
Alignment explanation
Indices: 20011539--20011750 Score: 179
Period size: 57 Copynumber: 3.7 Consensus size: 57
20011529 CTTTTTCCTT
* *
20011539 AACTA-TTTTTGAAATATTTTTATTTTAA-AAAAATTGATACTTCACTTTTTCTAAA
1 AACTATTTTTTAAAATATTTTTATTTTAAGAAAAATTGATATTTCACTTTTTCTAAA
* * * *
20011594 AACTCTTTTTTAAAATATATTTTA-TTTAAGAAAAATTTATATTTCAATTTTT-T-CA
1 AACTATTTTTTAAAATAT-TTTTATTTTAAGAAAAATTGATATTTCACTTTTTCTAAA
** * * *
20011649 AAC-ATTATTGGAAATATTATTTTTTTTATTTA-AAAAATTGATATTTCAACTCTTTTTCAAAA
1 AACTATT-TTTTAAA-A-TATTTTTATT-TTAAGAAAAATTGATATTTC-A--CTTTTTCTAAA
*
20011711 AAATATTTTTTAAAAT-TTTTTATTTTTAAGAAAAATTGAT
1 AACTATTTTTTAAAATATTTTTA-TTTTAAGAAAAATTGAT
20011751 GCTCAAAAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 27
0.72 0.12 0.16
Matches are distributed among these distances:
54 2 0.02
55 13 0.11
56 22 0.18
57 42 0.35
58 4 0.03
59 8 0.07
60 18 0.15
61 1 0.01
62 8 0.07
63 3 0.02
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (57 bp):
AACTATTTTTTAAAATATTTTTATTTTAAGAAAAATTGATATTTCACTTTTTCTAAA
Found at i:20012028 original size:58 final size:58
Alignment explanation
Indices: 20011907--20012047 Score: 156
Period size: 58 Copynumber: 2.4 Consensus size: 58
20011897 ATTTTTTATT
* * * * * * *
20011907 TTTTTAAAAAAATTGATATTTTTAATTTTTCCTCAAAAAATATTTTTTAAAAATTTCAT
1 TTTTAAAAAAAATTAATA-TTTCAAATTTTCCTAAAAAAATAATTTTTAAAAATTTCAA
* * * *
20011966 TTTTAAAAAAAATTAATATTTCAAATTTTCCTAAAAAAATAATTTTTGAGATTTTTAA
1 TTTTAAAAAAAATTAATATTTCAAATTTTCCTAAAAAAATAATTTTTAAAAATTTCAA
* *
20012024 TTTTAAGAAAAATTAATACTTCAA
1 TTTTAAAAAAAATTAATATTTCAA
20012048 CTTTCCTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
58 53 0.77
59 16 0.23
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (58 bp):
TTTTAAAAAAAATTAATATTTCAAATTTTCCTAAAAAAATAATTTTTAAAAATTTCAA
Found at i:20012111 original size:18 final size:18
Alignment explanation
Indices: 20012090--20012137 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
20012080 AATATTTTAC
20012090 TTTTGAAAAA-TATATATT
1 TTTTGAAAAATTAT-TATT
**
20012108 TTTTGAATTATTATTATT
1 TTTTGAAAAATTATTATT
*
20012126 TTTTAAAAAATT
1 TTTTGAAAAATT
20012138 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TTTTGAAAAATTATTATT
Found at i:20020573 original size:9 final size:9
Alignment explanation
Indices: 20020559--20020592 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
20020549 CTAATACCTG
20020559 AGAAGAAGC
1 AGAAGAAGC
20020568 AGAAGAAGC
1 AGAAGAAGC
20020577 AGAAGAAGC
1 AGAAGAAGC
20020586 AGAAGAA
1 AGAAGAA
20020593 TCAGCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.59, C:0.09, G:0.32, T:0.00
Consensus pattern (9 bp):
AGAAGAAGC
Found at i:20035765 original size:5 final size:5
Alignment explanation
Indices: 20035755--20035780 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20035745 AATCAAAGAC
20035755 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
20035781 AGATAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:20046510 original size:2 final size:2
Alignment explanation
Indices: 20046503--20046530 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
20046493 AGGGTATTTC
20046503 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
20046531 TTGGTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20046909 original size:8 final size:8
Alignment explanation
Indices: 20046881--20046922 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
20046871 ATATTCGTTG
20046881 TTTATTAT
1 TTTATTAT
20046889 ATTTATATAAT
1 -TTTAT-T-AT
20046900 TTTATTAT
1 TTTATTAT
20046908 TTT-TTAT
1 TTTATTAT
20046915 TTTATTAT
1 TTTATTAT
20046923 AATTATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.23
8 9 0.30
9 6 0.20
10 6 0.20
11 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTATTAT
Found at i:20050071 original size:31 final size:31
Alignment explanation
Indices: 20050010--20050072 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
20050000 TATTAATAAT
* *
20050010 TTATATATTTATATTATATTTTATATAAAAA
1 TTATATATTTATATTATATTTGATAAAAAAA
20050041 TTATATA-TTATAATT-TATATTGATAAAAAAA
1 TTATATATTTAT-ATTATAT-TTGATAAAAAAA
20050072 T
1 T
20050073 ATAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (31 bp):
TTATATATTTATATTATATTTGATAAAAAAA
Found at i:20050175 original size:22 final size:22
Alignment explanation
Indices: 20050132--20050172 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20050122 AAATTTTAAA
20050132 TTATAATATTATTATTATTTAT
1 TTATAATATTATTATTATTTAT
* *
20050154 TTATATTATTTTTA-TATTT
1 TTATAATATTATTATTATTT
20050173 TATCACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TTATAATATTATTATTATTTAT
Found at i:20051796 original size:2 final size:2
Alignment explanation
Indices: 20051791--20051844 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
20051781 ATAATTTGTC
* *
20051791 AT AT AT AT AT AT AT AG AT AT AT AG AT AT A- 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
*
20051832 AT AT AT GT AT AT A
1 AT AT AT AT AT AT A
20051845 ATGGATGAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:20056128 original size:21 final size:21
Alignment explanation
Indices: 20056102--20056143 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20056092 TTGCAGAGAG
20056102 TCATTTTAGGTTACTAATGCA
1 TCATTTTAGGTTACTAATGCA
20056123 TCATTTTAGGTTACTAATGCA
1 TCATTTTAGGTTACTAATGCA
20056144 ACAGCCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
TCATTTTAGGTTACTAATGCA
Done.