Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 72 of 91
Found at i:11935425 original size:22 final size:22
Alignment explanation
Indices: 11935372--11935437 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
11935362 AGTAGTAGAT
* *
11935372 TATTAATAAATTAGTAGTAAAA
1 TATTAATAATTTAATAGTAAAA
* *
11935394 TAAGTGATAATTTAATAGTAAAA
1 T-ATTAATAATTTAATAGTAAAA
11935417 TATTAATAATTTAATAGTAAA
1 TATTAATAATTTAATAGTAAA
11935438 TCATTTATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTAATAATTTAATAGTAAAA
Found at i:11935833 original size:21 final size:21
Alignment explanation
Indices: 11935772--11936012 Score: 138
Period size: 21 Copynumber: 11.6 Consensus size: 21
11935762 ATTACCATAG
*
11935772 TATATCATAAG-TTACTAAAAT
1 TATATCA-AAGATTACCAAAAT
* *
11935793 TACATCAATAGATTATCAAAAT
1 TATATCAA-AGATTACCAAAAT
* *
11935815 TTTATCAAAAATTACC-AAAT
1 TATATCAAAGATTACCAAAAT
* * * * *
11935835 TGTATGAATGATTGCAAAAAT
1 TATATCAAAGATTACCAAAAT
*
11935856 TATATCATAAGTTTACC-AAAT
1 TATATCA-AAGATTACCAAAAT
* * *
11935877 TGTATCAATGATT-GCAAAAGT
1 TATATCAAAGATTACCAAAA-T
* *
11935898 TATATCATAAG-TCACCAAACT
1 TATATCA-AAGATTACCAAAAT
* * *
11935919 AATATCAAAGGTTATCAAAAT
1 TATATCAAAGATTACCAAAAT
* *
11935940 TGTATCAAATATTACCAAAAGT
1 TATATCAAAGATTACCAAAA-T
* * *
11935962 T-TATCAAAGGTTATCAAACT
1 TATATCAAAGATTACCAAAAT
* *
11935982 TTTAACAAAG-TTACCAAAA-
1 TATATCAAAGATTACCAAAAT
11936001 TATATCAAAGAT
1 TATATCAAAGAT
11936013 AATTAAAATC
Statistics
Matches: 162, Mismatches: 46, Indels: 25
0.70 0.20 0.11
Matches are distributed among these distances:
19 9 0.06
20 35 0.22
21 91 0.56
22 27 0.17
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (21 bp):
TATATCAAAGATTACCAAAAT
Found at i:11936098 original size:3 final size:3
Alignment explanation
Indices: 11936090--11936120 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11936080 TTATTAGGTT
*
11936090 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11936121 CATCATCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11936112 original size:15 final size:15
Alignment explanation
Indices: 11936092--11936123 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11936082 ATTAGGTTTT
11936092 ATTATTATTATTATC
1 ATTATTATTATTATC
11936107 ATTATTATTATTATC
1 ATTATTATTATTATC
11936122 AT
1 AT
11936124 CATCATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTATTATTATC
Found at i:11936125 original size:3 final size:3
Alignment explanation
Indices: 11936119--11936156 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11936109 TATTATTATT
11936119 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
11936157 AATATCTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:11936798 original size:21 final size:21
Alignment explanation
Indices: 11936774--11936813 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11936764 GTTTATCAAT
*
11936774 AATTATTAAAAGTATATTATA
1 AATTACTAAAAGTATATTATA
*
11936795 AATTACTAAAATTATATTA
1 AATTACTAAAAGTATATTA
11936814 AAGGTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
AATTACTAAAAGTATATTATA
Found at i:11936823 original size:25 final size:26
Alignment explanation
Indices: 11936795--11936846 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
11936785 GTATATTATA
*
11936795 AATTACTAAAATTATATTAA-AGGTT
1 AATTACTAAAATTACATTAAGAGGTT
11936820 AATTACTAAAATTACATTAAGAGGTT
1 AATTACTAAAATTACATTAAGAGGTT
11936846 A
1 A
11936847 TCAACATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (26 bp):
AATTACTAAAATTACATTAAGAGGTT
Found at i:11937600 original size:12 final size:13
Alignment explanation
Indices: 11937579--11937611 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11937569 TCATATTTTC
*
11937579 ATTTTGATACG-A
1 ATTTTTATACGTA
11937591 ATTTTTATACGTA
1 ATTTTTATACGTA
11937604 ATTTTTAT
1 ATTTTTAT
11937612 TATTACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (13 bp):
ATTTTTATACGTA
Found at i:11940562 original size:14 final size:13
Alignment explanation
Indices: 11940543--11940573 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
11940533 GGTTTAAAAA
11940543 TATTATTATATTTT
1 TATTATTAT-TTTT
11940557 TATTATTATTTTT
1 TATTATTATTTTT
11940570 TATT
1 TATT
11940574 TTTTCTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTATTATTTTT
Found at i:11942990 original size:24 final size:24
Alignment explanation
Indices: 11942903--11942990 Score: 58
Period size: 24 Copynumber: 3.7 Consensus size: 24
11942893 TATTTAAAAA
11942903 ATTT-TTAAAAATT-TTTTTAATTT
1 ATTTATTAAAAATTATTTTTAA-TT
* *
11942926 AATTTACT-AAAATTATTATTTGA-T
1 -ATTTATTAAAAATTATT-TTTAATT
****
11942950 ATATTATTATTTTTTATTTTTAATT
1 AT-TTATTAAAAATTATTTTTAATT
11942975 ATTTATTAAAAATTAT
1 ATTTATTAAAAATTAT
11942991 CATTTGTCAT
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
23 2 0.04
24 29 0.63
25 11 0.24
26 4 0.09
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (24 bp):
ATTTATTAAAAATTATTTTTAATT
Found at i:11943071 original size:25 final size:22
Alignment explanation
Indices: 11943012--11943072 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 22
11943002 AAAATAATTA
11943012 ATAATTTTTAAATTTTATAAAT
1 ATAATTTTTAAATTTTATAAAT
*
11943034 ATTAATTAATTTAAATTTTTTATTACAT
1 A-TAATT--TTTAAA--TTTTA-TAAAT
11943062 ATAATTTTTAA
1 ATAATTTTTAA
11943073 TGTAATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 1 0.03
23 5 0.16
25 11 0.34
27 10 0.31
28 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
ATAATTTTTAAATTTTATAAAT
Found at i:11943237 original size:3 final size:3
Alignment explanation
Indices: 11943229--11943258 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11943219 TTAATTTGAC
*
11943229 CAT CAT CAT CAT CAT CAT TAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
11943259 TGTTATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:11943272 original size:3 final size:3
Alignment explanation
Indices: 11943261--11943326 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
11943251 ATCATCATTG
*
11943261 TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11943309 TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA
11943327 ATCGGTGCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11956808 original size:21 final size:20
Alignment explanation
Indices: 11956730--11956799 Score: 72
Period size: 22 Copynumber: 3.4 Consensus size: 20
11956720 AAAACATAAA
*
11956730 AGTAAATCATTATAACTTAAT
1 AGTAAAT-ATGATAACTTAAT
11956751 AGTTAACCA-ATGATAACTTAAT
1 AG-TAA--ATATGATAACTTAAT
11956773 AGTAAATATGAATAACTTAAT
1 AGTAAATATG-ATAACTTAAT
11956794 A-TAAAT
1 AGTAAAT
11956800 TACTGATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
19 1 0.02
20 8 0.19
21 16 0.37
22 17 0.40
24 1 0.02
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (20 bp):
AGTAAATATGATAACTTAAT
Found at i:11956914 original size:11 final size:10
Alignment explanation
Indices: 11956846--11956928 Score: 53
Period size: 11 Copynumber: 7.8 Consensus size: 10
11956836 TAGTAATTGG
**
11956846 TAATAAATTT
1 TAATAAATAA
11956856 TAA-AAATAA
1 TAATAAATAA
11956865 TAA-AAATTAA
1 TAATAAA-TAA
11956875 GTAATAAAATCAA
1 -TAAT-AAAT-AA
*
11956888 TAATAACATAG
1 TAATAA-ATAA
*
11956899 CAATAAATACA
1 TAATAAATA-A
11956910 TAATAATATAA
1 TAATAA-ATAA
11956921 TAATAAAT
1 TAATAAAT
11956929 CATTTATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
9 10 0.17
10 11 0.19
11 23 0.39
12 10 0.17
13 5 0.08
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (10 bp):
TAATAAATAA
Found at i:11958393 original size:22 final size:22
Alignment explanation
Indices: 11958363--11958501 Score: 113
Period size: 22 Copynumber: 6.4 Consensus size: 22
11958353 AATAATTTAG
*
11958363 TAATAAATTATTTATAGATAAA
1 TAATAAATTATTTATAAATAAA
* *
11958385 TGATAAATTATTTATAAATTAA
1 TAATAAATTATTTATAAATAAA
* * *
11958407 TAATAAATTAATGATAAATTTAA
1 TAATAAATTATTTATAAA-TAAA
* * *
11958430 TAATCAATTA-TTATAATTTAA
1 TAATAAATTATTTATAAATAAA
* *
11958451 TAATAAATTATTAATAACT-AA
1 TAATAAATTATTTATAAATAAA
* * *
11958472 TAGTAAATCATTAATAACAT-AA
1 TAATAAATTATTTATAA-ATAAA
11958494 TAATAAAT
1 TAATAAAT
11958502 AAATATATAA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.31
22 55 0.56
23 13 0.13
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (22 bp):
TAATAAATTATTTATAAATAAA
Found at i:11958403 original size:11 final size:11
Alignment explanation
Indices: 11958387--11958511 Score: 94
Period size: 11 Copynumber: 11.4 Consensus size: 11
11958377 TAGATAAATG
* *
11958387 ATAAATTATTT
1 ATAAATTAATA
11958398 ATAAATTAATA
1 ATAAATTAATA
*
11958409 ATAAATTAATG
1 ATAAATTAATA
11958420 ATAAATTTAATA
1 ATAAA-TTAATA
* *
11958432 ATCAATT-ATT
1 ATAAATTAATA
*
11958442 ATAATTTAATA
1 ATAAATTAATA
*
11958453 ATAAATTATTA
1 ATAAATTAATA
*
11958464 AT-AACTAATA
1 ATAAATTAATA
* * *
11958474 GTAAATCATTA
1 ATAAATTAATA
11958485 ATAACA-TAATA
1 ATAA-ATTAATA
*
11958496 ATAAATAAATA
1 ATAAATTAATA
11958507 TATAA
1 -ATAA
11958512 TTATCAATTA
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
10 15 0.17
11 58 0.67
12 14 0.16
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:11958420 original size:33 final size:33
Alignment explanation
Indices: 11958354--11958467 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 33
11958344 TCAGTACTTA
* * * * *
11958354 ATAATTTAGTAATAAATTATTTATAGATAAATG
1 ATAAATTATTAATAAATTAATTATAAATTAATG
* *
11958387 ATAAATTATTTATAAATTAATAATAAATTAATG
1 ATAAATTATTAATAAATTAATTATAAATTAATG
* * * *
11958420 ATAAATTTAATAATCAATT-ATTATAATTTAATA
1 ATAAA-TTATTAATAAATTAATTATAAATTAATG
11958453 ATAAATTATTAATAA
1 ATAAATTATTAATAA
11958468 CTAATAGTAA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
32 8 0.12
33 47 0.72
34 10 0.15
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.43
Consensus pattern (33 bp):
ATAAATTATTAATAAATTAATTATAAATTAATG
Found at i:11958797 original size:22 final size:22
Alignment explanation
Indices: 11958769--11958810 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11958759 TAACATAGTA
11958769 AAAAAATCAAG-GATAATTTAAT
1 AAAAAAT-AAGTGATAATTTAAT
*
11958791 AAAAAATAAGTGATAGTTTA
1 AAAAAATAAGTGATAATTTA
11958811 GTTGTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (22 bp):
AAAAAATAAGTGATAATTTAAT
Found at i:11959858 original size:21 final size:21
Alignment explanation
Indices: 11959834--11959876 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11959824 TAATTATGTT
11959834 ATTTTTAGGTATAATCTTATA
1 ATTTTTAGGTATAATCTTATA
*
11959855 ATTTTTAGTTATAATCTTATA
1 ATTTTTAGGTATAATCTTATA
11959876 A
1 A
11959877 CAACCGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTTTAGGTATAATCTTATA
Found at i:11960809 original size:21 final size:20
Alignment explanation
Indices: 11960783--11960861 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 20
11960773 AGTAATTAAT
*
11960783 ATAACTTAATAGTAATTATCA
1 ATAACTTAATAGTAATCAT-A
* *
11960804 ATAACTTATTATTAATCAGTA
1 ATAACTTAATAGTAATCA-TA
11960825 ATAACTTAATAGTAAATCATA
1 ATAACTTAATAGT-AATCATA
*
11960846 GATAACTTAGTAGTAA
1 -ATAACTTAATAGTAA
11960862 ACTAGTACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
21 31 0.63
22 18 0.37
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.37
Consensus pattern (20 bp):
ATAACTTAATAGTAATCATA
Found at i:11960850 original size:22 final size:22
Alignment explanation
Indices: 11960783--11960947 Score: 89
Period size: 22 Copynumber: 7.8 Consensus size: 22
11960773 AGTAATTAAT
*
11960783 ATAACTTAATAGT-AATTATCA-
1 ATAACTTAATAGTAAATCAT-AG
* *
11960804 ATAACTTATTA-TTAATCAGTA-
1 ATAACTTAATAGTAAATCA-TAG
11960825 ATAACTTAATAGTAAATCATAG
1 ATAACTTAATAGTAAATCATAG
*
11960847 ATAACTTAGTAGTAAA-C-TAG
1 ATAACTTAATAGTAAATCATAG
* * *
11960867 -T-ACTTAATAATAATTGA-ATG
1 ATAACTTAATAGTAAATCATA-G
* ** * * *
11960887 ATAATTTTGTAGTCAATAATTG
1 ATAACTTAATAGTAAATCATAG
11960909 ATAACTTAATAGTAAATCAGTA-
1 ATAACTTAATAGTAAATCA-TAG
**
11960931 ATAACAAAATAGTAAAT
1 ATAACTTAATAGTAAAT
11960948 ACATTAAGAA
Statistics
Matches: 108, Mismatches: 25, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
18 10 0.09
19 2 0.02
20 5 0.05
21 29 0.27
22 61 0.56
23 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATAG
Found at i:11961059 original size:22 final size:22
Alignment explanation
Indices: 11961034--11961104 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
11961024 CTTATTTAAA
*
11961034 AATCAATAATAATTTAGTAGTT
1 AATCAATGATAATTTAGTAGTT
* *
11961056 AATCATTGATAATTTAGTA-AT
1 AATCAATGATAATTTAGTAGTT
* * *
11961077 AATCAATGATAACTTAATAGTA
1 AATCAATGATAATTTAGTAGTT
11961099 AATCAA
1 AATCAA
11961105 GTTTGGTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 17 0.43
22 23 0.57
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (22 bp):
AATCAATGATAATTTAGTAGTT
Found at i:11961103 original size:43 final size:44
Alignment explanation
Indices: 11961007--11961104 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 44
11960997 AACTACATAG
* * *
11961007 TAGTAAATCAAAGATAACTTATTTAAAAATCAATAATAATTTAG
1 TAGTAAATCAAAGATAACTTATGTAAAAATCAATAATAACTTAA
* ** * * *
11961051 TAGTTAATCATTGATAATTTA-GTAATAATCAATGATAACTTAA
1 TAGTAAATCAAAGATAACTTATGTAAAAATCAATAATAACTTAA
11961094 TAGTAAATCAA
1 TAGTAAATCAA
11961105 GTTTGGTTTA
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
43 26 0.60
44 17 0.40
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (44 bp):
TAGTAAATCAAAGATAACTTATGTAAAAATCAATAATAACTTAA
Found at i:11961438 original size:20 final size:20
Alignment explanation
Indices: 11961397--11961454 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
11961387 AAAAATTAAG
*
11961397 TAGTAAATTCATGATAACATAA
1 TAGTAAATT-AT-ATAATATAA
11961419 TAGTAAATTATATAATATAA
1 TAGTAAATTATATAATATAA
*
11961439 TAATAAATTAT-TAATA
1 TAGTAAATTATATAATA
11961455 ACTAAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 18 0.53
21 2 0.06
22 9 0.26
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TAGTAAATTATATAATATAA
Found at i:11961462 original size:22 final size:21
Alignment explanation
Indices: 11961400--11961478 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
11961390 AATTAAGTAG
* * *
11961400 TAAATTCATGATAACATAATAG
1 TAAATT-ATAATAATATAATAA
11961422 TAAATTAT-ATAATATAATAA
1 TAAATTATAATAATATAATAA
11961442 TAAATTATTAATAACTA-AATAA
1 TAAATTA-TAATAA-TATAATAA
*
11961464 TAAATCAATAATAAT
1 TAAAT-TATAATAAT
11961479 GTAGTAACTA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
20 17 0.34
21 4 0.08
22 26 0.52
23 3 0.06
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAATTATAATAATATAATAA
Found at i:11961673 original size:22 final size:22
Alignment explanation
Indices: 11961639--11961681 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11961629 CTATTCAACA
11961639 ATAATAGTAAATCATTCATAAC
1 ATAATAGTAAATCATTCATAAC
* * *
11961661 ATAATGGTTAATCATTTATAA
1 ATAATAGTAAATCATTCATAA
11961682 ATTAGTATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAATAGTAAATCATTCATAAC
Found at i:11961717 original size:22 final size:21
Alignment explanation
Indices: 11961692--11961773 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
11961682 ATTAGTATAA
* * *
11961692 AAATTATTGATAATTTAGTAGT
1 AAATTATTGATAACTTA-AAAT
* *
11961714 AAATTATTAATAGCTTAAAAT
1 AAATTATTGATAACTTAAAAT
*
11961735 AAATTATTGATAACATAATAAT
1 AAATTATTGATAACTTAA-AAT
* *
11961757 AAATCAAT-ATAACTTAA
1 AAATTATTGATAACTTAA
11961774 TTGTTAAATT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
21 25 0.52
22 23 0.48
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (21 bp):
AAATTATTGATAACTTAAAAT
Found at i:11962194 original size:23 final size:23
Alignment explanation
Indices: 11962165--11962252 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 23
11962155 TTTAGTGTAA
11962165 TAGTAAATAATTGATAAATTTAG
1 TAGTAAATAATTGATAAATTTAG
* ** *
11962188 TAGTAAATCATAAATAAA-TTAA
1 TAGTAAATAATTGATAAATTTAG
*
11962210 TAGTTAATTAA-TGAT-AATTTAG
1 TAG-TAAATAATTGATAAATTTAG
* *
11962232 TAGTTAATCATTGA-AAATTTA
1 TAGTAAATAATTGATAAATTTA
11962253 AAAGTTAATC
Statistics
Matches: 49, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
21 6 0.12
22 23 0.47
23 20 0.41
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (23 bp):
TAGTAAATAATTGATAAATTTAG
Found at i:11962226 original size:22 final size:22
Alignment explanation
Indices: 11962162--11962269 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
11962152 AATTTTAGTG
*
11962162 TAATAGTAAAT-AATTGATAAATT
1 TAATAGTTAATCAA-TGATAAA-T
* * *
11962185 TAGTAGTAAATC-ATAAATAAAT
1 TAATAGTTAATCAAT-GATAAAT
* *
11962207 TAATAGTTAATTAATGATAATT
1 TAATAGTTAATCAATGATAAAT
* *
11962229 TAGTAGTTAATCATTGA-AAATT
1 TAATAGTTAATCAATGATAAA-T
*
11962251 TAAAAGTTAATCAAT-ATAA
1 TAATAGTTAATCAATGATAA
11962270 CTTGTAGTAA
Statistics
Matches: 66, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.05
22 45 0.68
23 18 0.27
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (22 bp):
TAATAGTTAATCAATGATAAAT
Found at i:11962259 original size:44 final size:44
Alignment explanation
Indices: 11962176--11962281 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 44
11962166 AGTAAATAAT
* *
11962176 TGATAAATTTAGTAGTAAATCATAAATAAATTAATAGTTAATTAA
1 TGAT-AATTTAGTAGTAAATCATAAATAAATTAAAAGTTAATCAA
* * *
11962221 TGATAATTTAGTAGTTAATCATTGAA-AATTTAAAAGTTAATCAA
1 TGATAATTTAGTAGTAAATCA-TAAATAAATTAAAAGTTAATCAA
*
11962265 T-ATAACTT-GTAGTAAAT
1 TGATAATTTAGTAGTAAAT
11962282 AATCGATAAC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 8 0.15
43 6 0.11
44 32 0.60
45 7 0.13
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (44 bp):
TGATAATTTAGTAGTAAATCATAAATAAATTAAAAGTTAATCAA
Found at i:11962742 original size:2 final size:2
Alignment explanation
Indices: 11962735--11962760 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11962725 CCAATTTGTT
11962735 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11962761 AACAACGGCA
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):
TA
Found at i:11964225 original size:22 final size:22
Alignment explanation
Indices: 11964197--11964241 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11964187 CACTAAGGGC
*
11964197 ACTAACATTGTTTATAGGAAGA
1 ACTAACATTGTTTATAGAAAGA
11964219 ACTAACATTGTTTATAGAAAGA
1 ACTAACATTGTTTATAGAAAGA
11964241 A
1 A
11964242 AATCATACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (22 bp):
ACTAACATTGTTTATAGAAAGA
Found at i:11968965 original size:23 final size:21
Alignment explanation
Indices: 11968939--11968990 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 21
11968929 TTAATCAATT
11968939 ATAATTTAATAATAAAAATATTG
1 ATAATTTAATAATAAAAA-A-TG
*
11968962 ATAACTTAATAATAAAAAATG
1 ATAATTTAATAATAAAAAATG
11968983 ATAATTTA
1 ATAATTTA
11968991 GTAGTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
22 1 0.04
23 17 0.63
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAATTTAATAATAAAAAATG
Found at i:11968998 original size:66 final size:65
Alignment explanation
Indices: 11968926--11969075 Score: 153
Period size: 66 Copynumber: 2.3 Consensus size: 65
11968916 GATAACTAAA
* * *
11968926 TAGTTAATCAATTATAATTTAATAATAAAAATATTGATAACTTAATAATAAAAAATG-ATAAT-T
1 TAGTTAATCAATTATAATTTAACAATAAAAATAGTGAT-ACATAATAAT--AAAATGTATAATAT
11968989 TAG
63 TAG
* * ** *
11968992 TAGTTAAT-AATTGATAACTTAGCAATAAATTTGGTGATACATAATAATAAAATGTATAATACTT
1 TAGTTAATCAATT-ATAATTTAACAATAAAAATAGTGATACATAATAATAAAATGTATAATA-TT
11969056 AG
64 AG
*
11969058 TAGTAAATCAATTATAAT
1 TAGTTAATCAATTATAAT
11969076 ATTATAGTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
63 6 0.09
64 5 0.07
65 13 0.19
66 41 0.59
67 4 0.06
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (65 bp):
TAGTTAATCAATTATAATTTAACAATAAAAATAGTGATACATAATAATAAAATGTATAATATTAG
Found at i:11969008 original size:43 final size:43
Alignment explanation
Indices: 11968876--11969012 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 43
11968866 AATTATTAAA
* *
11968876 AACTTAAAAATAAATCAATG-TAATTTAGTAGTT-ATGATCTGAT
1 AACTTAATAATAAA-CAATGATAATTTAGTAGTTAATAAT-TGAT
* * * * * * * *
11968919 AACTAAATAGTTAATCAATTATAATTTAATAATAAAAATATTGAT
1 AACTTAATA-ATAAACAATGATAATTTAGTAGTTAATA-ATTGAT
*
11968964 AACTTAATAATAAAAAATGATAATTTAGTAGTTAATAATTGAT
1 AACTTAATAATAAACAATGATAATTTAGTAGTTAATAATTGAT
11969007 AACTTA
1 AACTTA
11969013 GCAATAAATT
Statistics
Matches: 71, Mismatches: 19, Indels: 8
0.72 0.19 0.08
Matches are distributed among these distances:
43 23 0.32
44 33 0.46
45 13 0.18
46 2 0.03
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (43 bp):
AACTTAATAATAAACAATGATAATTTAGTAGTTAATAATTGAT
Found at i:11969013 original size:22 final size:22
Alignment explanation
Indices: 11968844--11969012 Score: 78
Period size: 22 Copynumber: 7.7 Consensus size: 22
11968834 AATAACAGTA
* *
11968844 AATAATTGATAACTTCATAATT
1 AATAATTGATAACTTAATAGTT
* * * * * *
11968866 AATTATTAAAAACTTAAAAATA
1 AATAATTGATAACTTAATAGTT
* *
11968888 AATCAA-TG-TAATTTAGTAGTT
1 AAT-AATTGATAACTTAATAGTT
* *
11968909 -ATGATCTGATAACTAAATAGTT
1 AATAAT-TGATAACTTAATAGTT
* * *
11968931 AATCAATT-ATAATTTAATAATA
1 AAT-AATTGATAACTTAATAGTT
* *
11968953 AAAATATTGATAACTTAATA-AT
1 AATA-ATTGATAACTTAATAGTT
* * * *
11968975 AAAAAATGATAATTTAGTAGTT
1 AATAATTGATAACTTAATAGTT
11968997 AATAATTGATAACTTA
1 AATAATTGATAACTTA
11969013 GCAATAAATT
Statistics
Matches: 104, Mismatches: 34, Indels: 18
0.67 0.22 0.12
Matches are distributed among these distances:
19 1 0.01
20 2 0.02
21 22 0.21
22 63 0.61
23 14 0.13
24 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
AATAATTGATAACTTAATAGTT
Found at i:11969127 original size:22 final size:22
Alignment explanation
Indices: 11969102--11969221 Score: 104
Period size: 22 Copynumber: 5.6 Consensus size: 22
11969092 CATAACAACA
* *
11969102 TAATAGTAAATTAAGGATAACT
1 TAATAGTAAATCAATGATAACT
*
11969124 TAATA--AAA--AAGTGATAATT
1 TAATAGTAAATCAA-TGATAACT
* * *
11969143 TAGTAGTTAATCATTGATAACT
1 TAATAGTAAATCAATGATAACT
* * *
11969165 TAGTAATAAATCAATAATAACT
1 TAATAGTAAATCAATGATAACT
* *
11969187 TAATAATATATCAATGATAACT
1 TAATAGTAAATCAATGATAACT
11969209 TAATAGTAAATCA
1 TAATAGTAAATCA
11969222 GTTTAATAGT
Statistics
Matches: 78, Mismatches: 15, Indels: 10
0.76 0.15 0.10
Matches are distributed among these distances:
18 2 0.03
19 10 0.13
20 3 0.04
21 2 0.03
22 60 0.77
23 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.34
Consensus pattern (22 bp):
TAATAGTAAATCAATGATAACT
Found at i:11969468 original size:44 final size:44
Alignment explanation
Indices: 11969409--11969513 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
11969399 TAAATAAATG
* * *
11969409 ATAACTTTGTGGTAAATGTATAG-TAA-TATAATAGTAAATTACTA
1 ATAACTTAGTAGTAAAT-TATAGATAACT-TAATAGTAAATCACTA
* *
11969453 ATAAGTTAGTAGTAAATTATTGATAACTTAATAGTAAATCACTA
1 ATAACTTAGTAGTAAATTATAGATAACTTAATAGTAAATCACTA
*
11969497 ATAACTTAGTTGTAAAT
1 ATAACTTAGTAGTAAAT
11969514 CAGTTATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 4 0.08
44 47 0.90
45 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (44 bp):
ATAACTTAGTAGTAAATTATAGATAACTTAATAGTAAATCACTA
Found at i:11969514 original size:22 final size:22
Alignment explanation
Indices: 11969440--11969537 Score: 97
Period size: 22 Copynumber: 4.5 Consensus size: 22
11969430 AGTAATATAA
* *
11969440 TAGTAAATTACTAATAAGTTAG
1 TAGTAAATCACTAATAACTTAG
* * * *
11969462 TAGTAAATTATTGATAACTTAA
1 TAGTAAATCACTAATAACTTAG
11969484 TAGTAAATCACTAATAACTTAG
1 TAGTAAATCACTAATAACTTAG
* * * *
11969506 TTGTAAATCAGTTATAATTTAG
1 TAGTAAATCACTAATAACTTAG
*
11969528 TTGTAAATCA
1 TAGTAAATCA
11969538 ATTAATCATT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
TAGTAAATCACTAATAACTTAG
Found at i:11969534 original size:44 final size:44
Alignment explanation
Indices: 11969437--11969537 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
11969427 TATAGTAATA
* * *
11969437 TAATAGTAAATTACTAATAAGTTAGTAGTAAATTATTGATAACT
1 TAATAGTAAATCACTAATAACTTAGTAGTAAATCATTGATAACT
* *
11969481 TAATAGTAAATCACTAATAACTTAGTTGTAAATCAGTT-ATAATT
1 TAATAGTAAATCACTAATAACTTAGTAGTAAATCA-TTGATAACT
* *
11969525 TAGTTGTAAATCA
1 TAATAGTAAATCA
11969538 ATTAATCATT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 47 0.96
45 2 0.04
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (44 bp):
TAATAGTAAATCACTAATAACTTAGTAGTAAATCATTGATAACT
Found at i:11969596 original size:22 final size:22
Alignment explanation
Indices: 11969545--11969587 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11969535 TCAATTAATC
11969545 ATTGATAACATTATAGTAAATT
1 ATTGATAACATTATAGTAAATT
11969567 ATTGATAA-ATTAGTAGTAAAT
1 ATTGATAACATTA-TAGTAAAT
11969588 CTGTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (22 bp):
ATTGATAACATTATAGTAAATT
Found at i:11969624 original size:44 final size:44
Alignment explanation
Indices: 11969576--11969728 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 44
11969566 TATTGATAAA
11969576 TTAGTAGTAAATCTGTTATAATTTTATAATTAATCATTAGTAAC
1 TTAGTAGTAAATCTGTTATAATTTTATAATTAATCATTAGTAAC
* * * * * * *
11969620 TTAGTAGTAAATCAT-TTGTAGATTAGTGATAAATCATTTATAAATCGATAAA
1 TTAGTAGTAAATC-TGTTATA-ATT--T--T--ATAATTAATCATTAG-TAAC
*
11969672 TTAGTAGTAAAT-TCGTTATAATTTGATAATTAATCATTAGTAAC
1 TTAGTAGTAAATCT-GTTATAATTTTATAATTAATCATTAGTAAC
*
11969716 TTAGTAGTTAATC
1 TTAGTAGTAAATC
11969729 ATTTATAGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 23
0.68 0.13 0.19
Matches are distributed among these distances:
44 31 0.38
45 14 0.17
47 1 0.01
49 2 0.02
50 1 0.01
51 13 0.16
52 19 0.23
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (44 bp):
TTAGTAGTAAATCTGTTATAATTTTATAATTAATCATTAGTAAC
Found at i:11969630 original size:96 final size:100
Alignment explanation
Indices: 11969462--11969771 Score: 277
Period size: 96 Copynumber: 3.2 Consensus size: 100
11969452 AATAAGTTAG
* * ** * * ** * *
11969462 TAGTAAATTATTGATAACTTAATAGTAAATCACTAATAA-CTTAGTTGTAAATCAGTTA-TAATT
1 TAGTAAATTATTGATAAATTAGTAGTAAATCTGTTATAATTTTA-TAATTAATCA-TTAGTAACT
* *
11969525 TAGTTGTAAATCA-AT-TA-ATCATTGAT-AA-CATT
64 TAGTAGTAAATCATATGTAGATCAGTGATAAATCATT
11969557 ATAGTAAATTATTGATAAATTAGTAGTAAATCTGTTATAATTTTATAATTAATCATTAGTAACTT
1 -TAGTAAATTATTGATAAATTAGTAGTAAATCTGTTATAATTTTATAATTAATCATTAGTAACTT
* *
11969622 AGTAGTAAATCATTTGTAGATTAGTGATAAATCATT
65 AGTAGTAAATCATATGTAGATCAGTGATAAATCATT
* *
11969658 TA-T-AA--ATCGATAAATTAGTAGTAAAT-TCGTTATAATTTGATAATTAATCATTAGTAACTT
1 TAGTAAATTATTGATAAATTAGTAGTAAATCT-GTTATAATTTTATAATTAATCATTAGTAACTT
* * * * * *
11969718 AGTAGTTAATCATTTATAGATTAATGATAAATGATT
65 AGTAGTAAATCATATGTAGATCAGTGATAAATCATT
* *
11969754 TA-TAAATTAGTAATAAAT
1 TAGTAAATTATTGATAAAT
11969772 CAATGATAAT
Statistics
Matches: 180, Mismatches: 23, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
95 4 0.02
96 143 0.79
97 6 0.03
98 4 0.02
99 15 0.08
100 4 0.02
101 4 0.02
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (100 bp):
TAGTAAATTATTGATAAATTAGTAGTAAATCTGTTATAATTTTATAATTAATCATTAGTAACTTA
GTAGTAAATCATATGTAGATCAGTGATAAATCATT
Found at i:11969635 original size:22 final size:22
Alignment explanation
Indices: 11969607--11969657 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
11969597 TTTTATAATT
11969607 AATCATTAGTA-ACTTAGT-AGTA
1 AATCATTAGTAGA-TTAGTGA-TA
*
11969629 AATCATTTGTAGATTAGTGATA
1 AATCATTAGTAGATTAGTGATA
11969651 AATCATT
1 AATCATT
11969658 TATAAATCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (22 bp):
AATCATTAGTAGATTAGTGATA
Found at i:11969645 original size:66 final size:66
Alignment explanation
Indices: 11969537--11969662 Score: 154
Period size: 66 Copynumber: 1.9 Consensus size: 66
11969527 GTTGTAAATC
*
11969537 AATTAATCATTGATAACATTATAGTAAATTATTGATAAATTAGT-AGTAAATC-TGTTATAATTT
1 AATTAATCATTGATAACATTATAGTAAATCATTGATAAATTAGTGA-TAAATCAT-TTATAATTT
11969600 TAT
64 TAT
*
11969603 AATTAATCATT-AGTAAC-TTAGTAGTAAATCATTTG-TAGATTAGTGATAAATCATTTATAA
1 AATTAATCATTGA-TAACATTA-TAGTAAATCA-TTGATAAATTAGTGATAAATCATTTATAA
11969663 ATCGATAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
65 4 0.08
66 44 0.83
67 5 0.09
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (66 bp):
AATTAATCATTGATAACATTATAGTAAATCATTGATAAATTAGTGATAAATCATTTATAATTTTA
T
Found at i:11969670 original size:118 final size:117
Alignment explanation
Indices: 11969439--11969684 Score: 266
Period size: 118 Copynumber: 2.1 Consensus size: 117
11969429 TAGTAATATA
* *
11969439 ATAGTAAATTACTAATAAGTTAGTAGTAAATTATTGATAACTTAATAGTAAATCACTAATAACTT
1 ATAGTAAATTACTAATAAATTAGTAGTAAATTATTGATAACTTAATAATAAATCACTAATAACTT
* * *
11969504 AGTTGTAAATCAGTTATAATTTAGTTGTAAATCAATTAATCATTGATAACATT
66 AGTAGTAAATCAGTTATAATTTAGTTGTAAATCAATTAATAATCGATAA-ATT
* * * * * * * *
11969557 ATAGTAAATTATTGATAAATTAGTAGTAAATCTGTT-ATAATTTTATAATTAATCATTAGTAACT
1 ATAGTAAATTACTAATAAATTAGTAGTAAAT-TATTGATAACTTAATAATAAATCACTAATAACT
* * *
11969621 TAGTAGTAAATCATTTGTAGA-TTAG-TGATAAATC-ATTTATAAATCGATAAATT
65 TAGTAGTAAATCAGTTATA-ATTTAGTTG-TAAATCAATTAAT-AATCGATAAATT
11969674 AGTAGTAAATT
1 A-TAGTAAATT
11969685 CGTTATAATT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
117 11 0.10
118 92 0.86
119 4 0.04
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (117 bp):
ATAGTAAATTACTAATAAATTAGTAGTAAATTATTGATAACTTAATAATAAATCACTAATAACTT
AGTAGTAAATCAGTTATAATTTAGTTGTAAATCAATTAATAATCGATAAATT
Found at i:11969814 original size:21 final size:22
Alignment explanation
Indices: 11969666--11969845 Score: 93
Period size: 22 Copynumber: 8.2 Consensus size: 22
11969656 TTTATAAATC
* *
11969666 GATAAATTAGTAGTAAATTCGTT
1 GATAATTTAGTAGTAAA-TCATT
* *
11969689 -ATAATTT-GATAATTAATCATT
1 GATAATTTAG-TAGTAAATCATT
* *
11969710 -AGTAACTTAGTAGTTAATCATT
1 GA-TAATTTAGTAGTAAATCATT
* * *
11969732 TATAGA-TTAAT-GATAAATGATT
1 GATA-ATTTAGTAG-TAAATCATT
* * * *
11969754 TATAAATTAGTAATAAATCAAT
1 GATAATTTAGTAGTAAATCATT
** **
11969776 GATAATTTAGTAACAAATTGTT
1 GATAATTTAGTAGTAAATCATT
11969798 -ATAATTTAGTAGTAAATCATT
1 GATAATTTAGTAGTAAATCATT
* *
11969819 GATAACTTAGTAGTAAGTCATT
1 GATAATTTAGTAGTAAATCATT
*
11969841 AATAA
1 GATAA
11969846 CATGGCAGTA
Statistics
Matches: 122, Mismatches: 26, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
21 25 0.20
22 94 0.77
23 3 0.02
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
GATAATTTAGTAGTAAATCATT
Found at i:11970291 original size:22 final size:22
Alignment explanation
Indices: 11970245--11970413 Score: 90
Period size: 22 Copynumber: 7.9 Consensus size: 22
11970235 AGCTTTATCA
*
11970245 ATAACTTAATAGTTAA-C-TAGTG
1 ATAACTTAATAGTAAATCATA--G
11970267 ATAACTTAATAGTAAATCATAG
1 ATAACTTAATAGTAAATCATAG
* *
11970289 ATAACTTAGTATTAAA-C-TAG
1 ATAACTTAATAGTAAATCATAG
* *
11970309 -T-ACTTAATAATAAATGA-ATG
1 ATAACTTAATAGTAAATCATA-G
* ** * *
11970329 ATAATTTTGTAGTCAATAATTA-
1 ATAACTTAATAGTAAATCA-TAG
11970351 ATAACTTAATAGTAAATCAGTA-
1 ATAACTTAATAGTAAATCA-TAG
11970373 ATAA-TATAATAGTAAATGCATA-
1 ATAACT-TAATAGTAAAT-CATAG
* *
11970395 ATAACTTAGTAATAAATCA
1 ATAACTTAATAGTAAATCA
11970414 ATTATAATAT
Statistics
Matches: 115, Mismatches: 20, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
18 11 0.10
19 2 0.02
20 4 0.03
21 5 0.04
22 86 0.75
23 4 0.03
24 3 0.03
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATAG
Found at i:11970397 original size:44 final size:44
Alignment explanation
Indices: 11970349--11970458 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
11970339 AGTCAATAAT
*
11970349 TAATAACTTAATAGTAAATCAGTAATAATATAATAGTAAATGCA
1 TAATAACTTAATAGTAAATCAATAATAATATAATAGTAAATGCA
* * * * *
11970393 TAATAACTTAGTAATAAATCAATTATAATATAGTTGTAAATGCA
1 TAATAACTTAATAGTAAATCAATAATAATATAATAGTAAATGCA
*
11970437 TAACT-ACATAATAGTAAATCAA
1 TAA-TAACTTAATAGTAAATCAA
11970459 GGATAACTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 55 0.98
45 1 0.02
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (44 bp):
TAATAACTTAATAGTAAATCAATAATAATATAATAGTAAATGCA
Found at i:11970609 original size:22 final size:21
Alignment explanation
Indices: 11970584--11970634 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11970574 TAAATTATAA
*
11970584 ATAATTTAGTGGTAAATAAATG
1 ATAATTTAGT-ATAAATAAATG
* *
11970606 ATAATTTGGTATAAATAATTG
1 ATAATTTAGTATAAATAAATG
11970627 ATAATTTA
1 ATAATTTA
11970635 ATAGTTAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
ATAATTTAGTATAAATAAATG
Found at i:11970873 original size:20 final size:22
Alignment explanation
Indices: 11970838--11970877 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
11970828 ATTAAGTAGT
11970838 TAAATTCATGATAATATAATAG
1 TAAATTCATGATAATATAATAG
11970860 TAAATT-AT-ATAATATAAT
1 TAAATTCATGATAATATAAT
11970878 TACTAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATTCATGATAATATAATAG
Found at i:11971537 original size:44 final size:44
Alignment explanation
Indices: 11971488--11971592 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
11971478 AATTAAGGAT
* * * *
11971488 AGCTTAATAAAAAATAAATGACAACTT-AGTAGTTAATTATTGAT
1 AGCTTAATAATAAATAAATAACAACTTCA-TAGTAAATTATTGAC
* * * *
11971532 TGCTTAGTAATAAATTAATAATAACTTCATAGTAAATTATTGAC
1 AGCTTAATAATAAATAAATAACAACTTCATAGTAAATTATTGAC
*
11971576 AACTTAATAATAAATAA
1 AGCTTAATAATAAATAA
11971593 GTTTTAGTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.35
Consensus pattern (44 bp):
AGCTTAATAATAAATAAATAACAACTTCATAGTAAATTATTGAC
Found at i:11971671 original size:22 final size:21
Alignment explanation
Indices: 11971600--11971799 Score: 98
Period size: 22 Copynumber: 9.0 Consensus size: 21
11971590 TAAGTTTTAG
*
11971600 TTTAATAATAAATAATTGATAAA
1 TTTAATAGTAAATAA-TGAT-AA
* * * *
11971623 TTTAGTAGTAAATCATAAACAA
1 TTTAATAGTAAATAAT-GATAA
*
11971645 CTTAATAGTAAATCAATGATAA
1 TTTAATAGTAAAT-AATGATAA
* * *
11971667 TTTAATAGTTAATAATTAAAAA
1 TTTAATAGTAAATAA-TGATAA
*
11971689 TTTAAAAGTAAATGAAT-ATAA
1 TTTAATAGTAAAT-AATGATAA
* * *
11971710 CTTAGTAATAAATAATCGATAA
1 TTTAATAGTAAATAAT-GATAA
* * * *
11971732 CTTGATAGTTAATTAGTGATAA
1 TTTAATAG-TAAATAATGATAA
*
11971754 TTAGGTAATAGTAAATCATGGATAA
1 TT---TAATAGTAAATAAT-GATAA
*
11971779 TTTAATA-TAAATTAATAATAA
1 TTTAATAGTAAA-TAATGATAA
11971800 CCTGGTAGTG
Statistics
Matches: 132, Mismatches: 33, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
20 3 0.02
21 22 0.17
22 67 0.51
23 23 0.17
24 5 0.04
25 12 0.09
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.36
Consensus pattern (21 bp):
TTTAATAGTAAATAATGATAA
Found at i:11971671 original size:67 final size:66
Alignment explanation
Indices: 11971574--11971724 Score: 153
Period size: 67 Copynumber: 2.3 Consensus size: 66
11971564 TAAATTATTG
** * * **
11971574 ACAACTTAATAATAAATAAGTTTTAGTTTAATAATAAATAATTGATAAATTTAGTAGTAAATCAT
1 ACAACTTAATAATAAATAAGTGATAATTTAATAATAAATAATT-AAAAATTTAAAAGTAAATCAT
11971639 AA
65 AA
* * * *
11971641 ACAACTTAATAGTAAATCAA-TGATAATTTAATAGTTAATAATTAAAAATTTAAAAGTAAATGA-
1 ACAACTTAATAATAAAT-AAGTGATAATTTAATAATAAATAATTAAAAATTTAAAAGTAAATCAT
*
11971704 AT
65 AA
* *
11971706 ATAACTTAGTAATAAATAA
1 ACAACTTAATAATAAATAA
11971725 TCGATAACTT
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
64 2 0.03
65 15 0.22
66 16 0.23
67 34 0.49
68 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (66 bp):
ACAACTTAATAATAAATAAGTGATAATTTAATAATAAATAATTAAAAATTTAAAAGTAAATCATA
A
Found at i:11972025 original size:22 final size:22
Alignment explanation
Indices: 11971976--11972026 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
11971966 ATAACATTAC
11971976 AATAAATCACTAATAAGTTAAT
1 AATAAATCACTAATAAGTTAAT
** * * *
11971998 TGTAAATCAGTGATAATTTAAT
1 AATAAATCACTAATAAGTTAAT
11972020 AATAAAT
1 AATAAAT
11972027 TACTTAATCG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (22 bp):
AATAAATCACTAATAAGTTAAT
Found at i:11972117 original size:44 final size:44
Alignment explanation
Indices: 11972040--11972210 Score: 120
Period size: 44 Copynumber: 3.9 Consensus size: 44
11972030 TTAATCGTTT
* *
11972040 ATAACTTTGTAATAAAATCATT-GTGAAATTAGTAGTAAACTAATC
1 ATAACTTTATAATAAAATCATTAAT-AAATTAGTAGTAAA-TAATC
* * * * *
11972085 ATAACTTTATAAT-AAATCATTAATAATTTAGTATTAATTTAGC
1 ATAACTTTATAATAAAATCATTAATAAATTAGTAGTAAATAATC
* * * * * *
11972128 AAAATTTTAGTAGT-AGATTATTAATAAATTAGTAG-AAATAAGTG
1 ATAACTTTA-TAATAAAATCATTAATAAATTAGTAGTAAATAA-TC
* *
11972172 ATAA-TTTAATAGTAAAAT-ATTAATAATTTAGTAGTAAAT
1 ATAACTTT-ATAATAAAATCATTAATAAATTAGTAGTAAAT
11972211 CATTTATATA
Statistics
Matches: 99, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
43 36 0.36
44 50 0.51
45 13 0.13
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (44 bp):
ATAACTTTATAATAAAATCATTAATAAATTAGTAGTAAATAATC
Found at i:11972159 original size:22 final size:22
Alignment explanation
Indices: 11972068--11972210 Score: 103
Period size: 22 Copynumber: 6.5 Consensus size: 22
11972058 CATTGTGAAA
* * *
11972068 TTAGTAGTAAACTAATCATAACT
1 TTAGTAGTAAATTATTAATAA-T
* *
11972091 TTA-TAATAAATCATTAATAAT
1 TTAGTAGTAAATTATTAATAAT
* * **
11972112 TTAGTATTAATTTAGCAA-AATT
1 TTAGTAGTAAATTATTAATAA-T
* *
11972134 TTAGTAGTAGATTATTAATAAA
1 TTAGTAGTAAATTATTAATAAT
* * *
11972156 TTAGTAG-AAATAAGTGATAAT
1 TTAGTAGTAAATTATTAATAAT
* *
11972177 TTAATAGTAAAATATTAATAAT
1 TTAGTAGTAAATTATTAATAAT
11972199 TTAGTAGTAAAT
1 TTAGTAGTAAAT
11972211 CATTTATATA
Statistics
Matches: 88, Mismatches: 28, Indels: 9
0.70 0.22 0.07
Matches are distributed among these distances:
21 21 0.24
22 62 0.70
23 5 0.06
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (22 bp):
TTAGTAGTAAATTATTAATAAT
Found at i:11972489 original size:21 final size:21
Alignment explanation
Indices: 11972465--11972504 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11972455 GTTTATCAAT
*
11972465 AATTATTAAAAGTATATTATA
1 AATTACTAAAAGTATATTATA
*
11972486 AATTACTAAAATTATATTA
1 AATTACTAAAAGTATATTA
11972505 AAGGTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
AATTACTAAAAGTATATTATA
Found at i:11972514 original size:25 final size:26
Alignment explanation
Indices: 11972486--11972537 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
11972476 GTATATTATA
*
11972486 AATTACTAAAATTATATTAA-AGGTT
1 AATTACTAAAATTACATTAAGAGGTT
11972511 AATTACTAAAATTACATTAAGAGGTT
1 AATTACTAAAATTACATTAAGAGGTT
11972537 A
1 A
11972538 TCAACATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (26 bp):
AATTACTAAAATTACATTAAGAGGTT
Found at i:11974235 original size:631 final size:618
Alignment explanation
Indices: 11972936--11974340 Score: 2075
Period size: 631 Copynumber: 2.3 Consensus size: 618
11972926 TACATCACTA
* * * * * * * * * *
11972936 AAAGCAGTAACGTCGTTCATAGAAAGAGAAACATATA-CAATTAATAGAGCTGGAAACTTTAGCA
1 AAAGCACTAACATTGTTCATATAAAGAGAAACATACAGAAACTAATAAAGATGAAAACTTTAGCA
* * * *
11973000 CATGCTGATTTTCAATTTTTGAATAGTGGATAATATTTATAAGTTGTATGCTTGTGATAAAATGT
66 CATGCT--TTTTCAATTTTT-AATAGTGGATAATATATATAATTTGCATGCTTGTGATAAAATAT
**
11973065 TCAGCCTGCCAATCTTGAATAATTACAAGTACTATATTTTATTGCCTCTTAATTATGTGTAGATT
128 TCAGCCCACCAATCTTGAATAATTACAAGTACTATATTTTATTGCCTCTTAATTATGTGTAGATT
* * * * * * *
11973130 TATCAATTTAAAATATGATACAGTAATACAATAAAAAAACGATAAGAAAAAATTACTAATATAAC
193 TATCAATTTAAAACAAGATACAATAACACAATAAAAAAACAATAAGAAAAAATTACAAAGATAAC
*
11973195 ATGATTTAAAATTTTAGTAAAACTATATAAGAATTTAACAAAATAAAAAATGTATTTCATATTTT
258 ATAATTTAAAATTTTAGTAAAACTATATAAGAATTTAACAAAATAAAAAATGTATTTCATATTTT
* *
11973260 CATTTTGATACGTAATTTTTATTTTTACCAAATCTAACTATATTTGGTAAACATAAATAGAAAAT
323 CATTTTAATACGTAATTTTCATTTTTACCAAATCTAACTATATTTGGTAAACATAAATAGAAAAT
11973325 GATGTAAGACTAAATCAATCCAAAGAGATAAAAAGCACATGATGTCACAAGGCTCATAGAGAGAG
388 GATGTAAGACTAAATCAATCCAAAGAGATAAAAAGCACATGATGTCACAAGGCTCATAGAGAGAG
* * *
11973390 TTTGAGATTTAATTCTGTTGATTCATGTAATCATCTATAAAACATTGCATTTAATAAATATGAAT
453 TTTGAGATTTAATTCTGTTGATTCATATAATCATATATAAAACATTACATTTAATAAATATGAAT
*
11973455 TCAAATCTCAACACCTTCATTTTTTTTTCAATCCCCAAATTAACGCCTTACAAAGAAATCTCTTA
518 TCAAATCTCAACACCTTCATTTTTTTTTCAATCCCCAAATCAACGCCTTACAAAGAAATCTCTTA
11973520 GGTGTTGCACTCCCATTTCGCAATTTCACACCAACC
583 GGTGTTGCACTCCCATTTCGCAATTTCACACCAACC
*
11973556 AAAGCACTAACATTGTTCATATAAAGAGAAACATACAGAAACTAATAAAGATGAAAACTTTAGCT
1 AAAGCACTAACATTGTTCATATAAAGAGAAACATACAGAAACTAATAAAGATGAAAACTTTAGCA
11973621 CATGCTTTTTCAATTTTTAATAGTGGATAATATATATAATTTGCATGCTTGTGATAAAATATTCA
66 CATGCTTTTTCAATTTTTAATAGTGGATAATATATATAATTTGCATGCTTGTGATAAAATATTCA
11973686 GCCCACCAATCTTGAATAATTACAAGTACTATATTTTATTGCCTCTTAATTATGTGTAGATTTAT
131 GCCCACCAATCTTGAATAATTACAAGTACTATATTTTATTGCCTCTTAATTATGTGTAGATTTAT
* * * *
11973751 CAATTTAAAACAAGATACAATGACATAATAAAAAAAACAATAAGAAAAACTTACAAAGGTAACAT
196 CAATTTAAAACAAGATACAATAACACAAT-AAAAAAACAATAAGAAAAAATTACAAAGATAACAT
* *
11973816 AATTTAAAATTTTAGTAAAACTATATAAGAATTTAATAAAATAAAAAATGTATTTCATATTTTTA
260 AATTTAAAATTTTAGTAAAACTATATAAGAATTTAACAAAATAAAAAATGTATTTCATATTTTCA
* *
11973881 TTTTAATACG-AATTCTAACATGCCATTTTTGTGATTGCCAGATCTAACTGTATTTGGTGAAA-A
325 TTTTAATACGTAATT-T----T--CA-TTTT-T-A---CCAAATCTAACTATATTTGGT-AAACA
* *
11973944 TAAATAGAAAATGATGTAATACTAAATCAATCCAAAGTGATAAAAAGCACATGATGTCACAAGGC
376 TAAATAGAAAATGATGTAAGACTAAATCAATCCAAAGAGATAAAAAGCACATGATGTCACAAGGC
11974009 TCATAGAGAGAGTTTGAGATTTAATTCTGTTGATTCATATAATCATATATAAAACATTACATTTA
441 TCATAGAGAGAGTTTGAGATTTAATTCTGTTGATTCATATAATCATATATAAAACATTACATTTA
* * *
11974074 ATAAATATGAATTCAAATCTCAACACTTTCAATTTTTTTTTCAATCCCCAAATCGATGCCTTACA
506 ATAAATATGAATTCAAATCTCAACACCTTC-ATTTTTTTTTCAATCCCCAAATCAACGCCTTACA
* * * * * *
11974139 AGGGAATTTCTTAGGTGTTGCACTCCCATTTTGTAA-TTCACACCAACT
570 AAGAAATCTCTTAGGTGTTGCACTCCCATTTCGCAATTTCACACCAACC
* * ** * *
11974187 AAAGGCACTAACATTGTTCATATTAAGAGATACATTTAG-AAGTAATAAAGATGGAAACTTTAGC
1 AAA-GCACTAACATTGTTCATATAAAGAGAAACATACAGAAACTAATAAAGATGAAAACTTTAGC
*
11974251 ACATGC-TTTTCAATTTTTAATAGTGGATAATATATATAATTTGCATGCCTGTGATAAAATATTC
65 ACATGCTTTTTCAATTTTTAATAGTGGATAATATATATAATTTGCATGCTTGTGATAAAATATTC
11974315 AGCCCACCAATCTTGAATAATTACAA
130 AGCCCACCAATCTTGAATAATTACAA
11974341 CTAATGTGGC
Statistics
Matches: 709, Mismatches: 58, Indels: 26
0.89 0.07 0.03
Matches are distributed among these distances:
618 133 0.19
619 114 0.16
620 32 0.05
621 27 0.04
623 1 0.00
625 1 0.00
626 4 0.01
627 1 0.00
628 1 0.00
630 83 0.12
631 216 0.30
632 96 0.14
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (618 bp):
AAAGCACTAACATTGTTCATATAAAGAGAAACATACAGAAACTAATAAAGATGAAAACTTTAGCA
CATGCTTTTTCAATTTTTAATAGTGGATAATATATATAATTTGCATGCTTGTGATAAAATATTCA
GCCCACCAATCTTGAATAATTACAAGTACTATATTTTATTGCCTCTTAATTATGTGTAGATTTAT
CAATTTAAAACAAGATACAATAACACAATAAAAAAACAATAAGAAAAAATTACAAAGATAACATA
ATTTAAAATTTTAGTAAAACTATATAAGAATTTAACAAAATAAAAAATGTATTTCATATTTTCAT
TTTAATACGTAATTTTCATTTTTACCAAATCTAACTATATTTGGTAAACATAAATAGAAAATGAT
GTAAGACTAAATCAATCCAAAGAGATAAAAAGCACATGATGTCACAAGGCTCATAGAGAGAGTTT
GAGATTTAATTCTGTTGATTCATATAATCATATATAAAACATTACATTTAATAAATATGAATTCA
AATCTCAACACCTTCATTTTTTTTTCAATCCCCAAATCAACGCCTTACAAAGAAATCTCTTAGGT
GTTGCACTCCCATTTCGCAATTTCACACCAACC
Found at i:11975184 original size:7 final size:7
Alignment explanation
Indices: 11975169--11975200 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
11975159 TTTAAAAATA
11975169 TTTTT-T
1 TTTTTAT
11975175 TTTTTAT
1 TTTTTAT
11975182 TTTTTAT
1 TTTTTAT
11975189 TTTTTAT
1 TTTTTAT
11975196 TTTTT
1 TTTTT
11975201 CTTTGTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTAT
Found at i:11977625 original size:18 final size:16
Alignment explanation
Indices: 11977602--11977635 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
11977592 TTTGTCATAA
11977602 AAATAATTAATAAATTTT
1 AAATAATT--TAAATTTT
11977620 AAATAATTTAAATTTT
1 AAATAATTTAAATTTT
11977636 TTATTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATAATTTAAATTTT
Found at i:11979187 original size:21 final size:22
Alignment explanation
Indices: 11979162--11979214 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11979152 TAAATTATAA
*
11979162 TAAAATATT-TAATATGATATT
1 TAAAATATTCTAATACGATATT
*
11979183 TAAAAATTTTCTAATACGATATT
1 T-AAAATATTCTAATACGATATT
*
11979206 TAAATTATT
1 TAAAATATT
11979215 AATTTTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 13 0.50
23 12 0.46
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAAATATTCTAATACGATATT
Found at i:11979198 original size:23 final size:22
Alignment explanation
Indices: 11979163--11979209 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
11979153 AAATTATAAT
*
11979163 AAAATATTTAATATGATATTTA
1 AAAATATTTAATACGATATTTA
*
11979185 AAAATTTTCTAATACGATATTTA
1 AAAATATT-TAATACGATATTTA
11979208 AA
1 AA
11979210 TTATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
AAAATATTTAATACGATATTTA
Found at i:11981724 original size:15 final size:15
Alignment explanation
Indices: 11981704--11981732 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11981694 TAAACTTTTG
11981704 GGCTCAAGTGGTGTA
1 GGCTCAAGTGGTGTA
11981719 GGCTCAAGTGGTGT
1 GGCTCAAGTGGTGT
11981733 CTAAATACTC
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:0.17, C:0.14, G:0.41, T:0.28
Consensus pattern (15 bp):
GGCTCAAGTGGTGTA
Found at i:11986289 original size:17 final size:17
Alignment explanation
Indices: 11986264--11986296 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11986254 GTTGCACAAA
11986264 AAAAGAGAA-AAAAAGT
1 AAAAGAGAAGAAAAAGT
11986280 AAAAGAAGAAGAAAAAG
1 AAAAG-AGAAGAAAAAG
11986297 AAGATTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAAGAGAAGAAAAAGT
Found at i:11988215 original size:3 final size:3
Alignment explanation
Indices: 11988207--11988291 Score: 78
Period size: 3 Copynumber: 31.0 Consensus size: 3
11988197 TACGTCATAT
* * *
11988207 TTA TTA TTA -TA TCA -TA TTA -TA TTA -CA TTA -TA TTA -TA CTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11988248 TTA -TA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11988292 ATTTGATTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
2 14 0.20
3 55 0.80
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:11988226 original size:10 final size:10
Alignment explanation
Indices: 11988211--11988291 Score: 72
Period size: 10 Copynumber: 7.5 Consensus size: 10
11988201 TCATATTTAT
*
11988211 TATTATATCA
1 TATTATATTA
11988221 TATTATATTA
1 TATTATATTA
*
11988231 CATTATATTA
1 TATTATATTA
*
11988241 TACTATATTA
1 TATTATATTA
*
11988251 TACTATTATTA
1 TATTA-TATTA
11988262 TTATTATTATTA
1 -TATTA-TATTA
11988274 TTATTATTATTA
1 -TATTA-TATTA
11988286 TTATTA
1 -TATTA
11988292 ATTTGATTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
10 31 0.48
11 5 0.08
12 28 0.44
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTATATTA
Found at i:11988237 original size:20 final size:19
Alignment explanation
Indices: 11988201--11988250 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
11988191 TATCATTACG
11988201 TCATATT-TATT-ATTATA
1 TCATATTATATTAATTATA
11988218 TCATATTATATTACATTATA
1 TCATATTATATTA-ATTATA
* *
11988238 TTATACTATATTA
1 TCATATTATATTA
11988251 TACTATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 4 0.14
20 17 0.61
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TCATATTATATTAATTATA
Found at i:11988275 original size:18 final size:16
Alignment explanation
Indices: 11988171--11988291 Score: 86
Period size: 18 Copynumber: 7.2 Consensus size: 16
11988161 AGTATAATAC
* *
11988171 ATTATACTATTATTTT
1 ATTATATTATTATTAT
* *
11988187 ATTATATCATTACGTCAT
1 ATTATATTATTA--TTAT
11988205 ATT-TATTATTATATCAT
1 ATTATATTATTAT-T-AT
*
11988222 ATTATATTA-CATTAT
1 ATTATATTATTATTAT
*
11988237 ATTATACTA-TATTAT
1 ATTATATTATTATTAT
*
11988252 ACTATTATTATTATTATT
1 ATTA-TATTATTATTA-T
11988270 ATTATTATTATTATTATT
1 ATTA-TATTATTATTA-T
11988288 ATTA
1 ATTA
11988292 ATTTGATTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
15 19 0.22
16 15 0.18
17 19 0.22
18 32 0.38
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.57
Consensus pattern (16 bp):
ATTATATTATTATTAT
Found at i:11989121 original size:7 final size:8
Alignment explanation
Indices: 11989111--11989154 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
11989101 CATTTTTTGA
11989111 TTTTATTT
1 TTTTATTT
11989119 TTTTATTT
1 TTTTATTT
*
11989127 ATTTTATAT
1 -TTTTATTT
*
11989136 TTTGATTT
1 TTTTATTT
11989144 TTATTATTT
1 TT-TTATTT
11989153 TT
1 TT
11989155 AGTTTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 16 0.53
9 14 0.47
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTATTT
Found at i:11989148 original size:12 final size:11
Alignment explanation
Indices: 11989080--11989162 Score: 53
Period size: 12 Copynumber: 7.1 Consensus size: 11
11989070 GAATCACAGT
*
11989080 TTTTTTTTTCTA
1 TTTTTATTT-TA
* *
11989092 TTTTAATTTCA
1 TTTTTATTTTA
11989103 TTTTTTGATTTTA
1 -TTTTT-ATTTTA
*
11989116 TTTTTTTATTTA
1 TTTTTAT-TTTA
11989128 TTTTATATTTTGA
1 TTTT-TATTTT-A
11989141 TTTTTA--TTA
1 TTTTTATTTTA
11989150 TTTTTAGTTTTA
1 TTTTTA-TTTTA
11989162 T
1 T
11989163 CTATTTCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
9 7 0.12
10 2 0.04
11 2 0.04
12 33 0.59
13 12 0.21
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:11989161 original size:38 final size:39
Alignment explanation
Indices: 11989119--11989203 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 39
11989109 GATTTTATTT
*
11989119 TTTTATTTATTTTATATTT-TGATTTTTATTA-TT-TTTAG
1 TTTTATTTATTTCAT-TTTATGA-TTTTATTAGTTATTTAG
* *
11989157 TTTTATCTATTTCATTTTACTGATTTTATTAGTTATTTAT
1 TTTTATTTATTTCATTTTA-TGATTTTATTAGTTATTTAG
11989197 TTTTATT
1 TTTTATT
11989204 AAGTGATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 3 0.08
38 21 0.54
39 5 0.13
40 10 0.26
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.71
Consensus pattern (39 bp):
TTTTATTTATTTCATTTTATGATTTTATTAGTTATTTAG
Found at i:11989168 original size:31 final size:30
Alignment explanation
Indices: 11989105--11989168 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
11989095 TAATTTCATT
* *
11989105 TTTTGATTTTATTTTTTTATTTATTTTATA
1 TTTTGATTTTATTTTTTTAGTTATTATATA
*
11989135 TTTTGATTTTTATTATTTTTAGTT-TTATCTA
1 TTTTGA-TTTTATT-TTTTTAGTTATTATATA
11989166 TTT
1 TTT
11989169 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 6 0.21
31 15 0.52
32 8 0.28
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.75
Consensus pattern (30 bp):
TTTTGATTTTATTTTTTTAGTTATTATATA
Found at i:11989446 original size:7 final size:6
Alignment explanation
Indices: 11989421--11989468 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
11989411 ATTTTTTAAG
* *
11989421 AAAATA AAAATA AAAA-A AAAGTA AAAACA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
11989468 A
1 A
11989469 TTTTTATCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:11989654 original size:39 final size:39
Alignment explanation
Indices: 11989611--11989746 Score: 139
Period size: 39 Copynumber: 3.4 Consensus size: 39
11989601 CTACCACAAC
11989611 TTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAG
1 TTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAG
** * * * *
11989650 TTAATAGTAAATCATAAATAACTTAATAA-TATATCAATGGTAAC
1 TTAATAGTAAATCA-ATTTAA--TAGTAATTA-ATTAAT--AAAG
*
11989694 TTAATAGTAAATCAGTTTAATAGTAATTAATTAATAAAG
1 TTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAG
*
11989733 TTAGTAGTAAATCA
1 TTAATAGTAAATCA
11989747 TAAATAACTT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
39 29 0.38
40 4 0.05
41 12 0.16
42 12 0.16
43 3 0.04
44 16 0.21
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (39 bp):
TTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAG
Found at i:11989669 original size:23 final size:23
Alignment explanation
Indices: 11989613--11989670 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
11989603 ACCACAACTT
* * *
11989613 AATAGTAAATCAATTTAATAGTA
1 AATAATAAATAAAGTTAATAGTA
* *
11989636 ATTAATTAATAAAGTTAATAGTA
1 AATAATAAATAAAGTTAATAGTA
*
11989659 AATCATAAATAA
1 AATAATAAATAA
11989671 CTTAATAATA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (23 bp):
AATAATAAATAAAGTTAATAGTA
Found at i:11989707 original size:22 final size:23
Alignment explanation
Indices: 11989618--11989707 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 23
11989608 AACTTAATAG
* *
11989618 TAAATCAATTTAATAGT-AATTAA
1 TAAAT-AACTTAATAGTAAATCAA
* *
11989641 TTAATAAAGTTAATAGTAAATC-A
1 TAAAT-AACTTAATAGTAAATCAA
* *
11989664 TAAATAACTTAATAATATATCAA
1 TAAATAACTTAATAGTAAATCAA
**
11989687 T-GGTAACTTAATAGTAAATCA
1 TAAATAACTTAATAGTAAATCA
11989708 GTTTAATAGT
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
22 29 0.55
23 21 0.40
24 3 0.06
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (23 bp):
TAAATAACTTAATAGTAAATCAA
Found at i:11989747 original size:83 final size:82
Alignment explanation
Indices: 11989608--11989764 Score: 287
Period size: 83 Copynumber: 1.9 Consensus size: 82
11989598 GATCTACCAC
11989608 AACTTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAGTTAATAGTAAATCATAAATAACT
1 AACTTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAGTTAATAGTAAATCATAAATAACT
11989673 TAATAATATATCAATGGT
66 TAAT-ATATATCAATGGT
* *
11989691 AACTTAATAGTAAATCAGTTTAATAGTAATTAATTAATAAAGTTAGTAGTAAATCATAAATAACT
1 AACTTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAGTTAATAGTAAATCATAAATAACT
11989756 TAATATATA
66 TAATATATA
11989765 GTAAATCAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 5 0.07
83 67 0.93
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (82 bp):
AACTTAATAGTAAATCAATTTAATAGTAATTAATTAATAAAGTTAATAGTAAATCATAAATAACT
TAATATATATCAATGGT
Found at i:11989931 original size:44 final size:44
Alignment explanation
Indices: 11989883--11989987 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
11989873 GAAAACTAAG
* *
11989883 TAGTAAATAAATAATAATGTT-GTAGTAAATGTA-TAATAA-TATAA
1 TAGTAAATTACTAATAA-GTTAGTAGTAAAT-TATTAATAACT-TAA
*
11989927 TAGTAAATTACTAATAAGTTAGTAGTAAATTATTGATAACTTAA
1 TAGTAAATTACTAATAAGTTAGTAGTAAATTATTAATAACTTAA
11989971 TAGTAAATTACTAATAA
1 TAGTAAATTACTAATAA
11989988 CTTAATTGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
43 5 0.09
44 49 0.89
45 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (44 bp):
TAGTAAATTACTAATAAGTTAGTAGTAAATTATTAATAACTTAA
Found at i:11989957 original size:22 final size:22
Alignment explanation
Indices: 11989881--11989987 Score: 103
Period size: 22 Copynumber: 4.9 Consensus size: 22
11989871 TTGAAAACTA
* *
11989881 AGTAGTAAATAAATAATAATGTT
1 AGTAGTAAATTACTAATAA-GTT
11989904 -GTAGTAAATGTA-TAATAA-TAT
1 AGTAGTAAAT-TACTAATAAGT-T
*
11989925 AATAGTAAATTACTAATAAGTT
1 AGTAGTAAATTACTAATAAGTT
* * *
11989947 AGTAGTAAATTATTGATAACTT
1 AGTAGTAAATTACTAATAAGTT
*
11989969 AATAGTAAATTACTAATAA
1 AGTAGTAAATTACTAATAA
11989988 CTTAATTGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.01
21 3 0.04
22 64 0.91
23 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (22 bp):
AGTAGTAAATTACTAATAAGTT
Found at i:11989988 original size:22 final size:22
Alignment explanation
Indices: 11989905--11990000 Score: 115
Period size: 22 Copynumber: 4.4 Consensus size: 22
11989895 AATAATGTTG
11989905 TAGTAAATGTA-TAATAA-TATAA
1 TAGTAAAT-TACTAATAACT-TAA
* *
11989927 TAGTAAATTACTAATAAGTTAG
1 TAGTAAATTACTAATAACTTAA
* *
11989949 TAGTAAATTATTGATAACTTAA
1 TAGTAAATTACTAATAACTTAA
11989971 TAGTAAATTACTAATAACTTAA
1 TAGTAAATTACTAATAACTTAA
*
11989993 TTGTAAAT
1 TAGTAAAT
11990001 CAATGATAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.03
22 61 0.95
23 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (22 bp):
TAGTAAATTACTAATAACTTAA
Found at i:11989999 original size:44 final size:44
Alignment explanation
Indices: 11989924--11990022 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
11989914 TATAATAATA
* * * *
11989924 TAATAGTAAATTACTAATAAGTTAGTAGTAAATTATTGATAACT
1 TAATAGTAAATTACTAATAACTTAATAGTAAATCAATGATAACT
* *
11989968 TAATAGTAAATTACTAATAACTTAATTGTAAATCAATGATAATT
1 TAATAGTAAATTACTAATAACTTAATAGTAAATCAATGATAACT
*
11990012 TAATTGTAAAT
1 TAATAGTAAAT
11990023 CAATTAATCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (44 bp):
TAATAGTAAATTACTAATAACTTAATAGTAAATCAATGATAACT
Found at i:11990009 original size:22 final size:22
Alignment explanation
Indices: 11989951--11990026 Score: 89
Period size: 22 Copynumber: 3.5 Consensus size: 22
11989941 TAAGTTAGTA
* * *
11989951 GTAAATTATTGATAACTTAATA
1 GTAAATCAATGATAACTTAATT
* * *
11989973 GTAAATTACTAATAACTTAATT
1 GTAAATCAATGATAACTTAATT
*
11989995 GTAAATCAATGATAATTTAATT
1 GTAAATCAATGATAACTTAATT
11990017 GTAAATCAAT
1 GTAAATCAAT
11990027 TAATCATTGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (22 bp):
GTAAATCAATGATAACTTAATT
Found at i:11990098 original size:74 final size:74
Alignment explanation
Indices: 11989958--11990098 Score: 167
Period size: 74 Copynumber: 1.9 Consensus size: 74
11989948 GTAGTAAATT
* * **
11989958 ATTGATAACTTAATAGTAAATTACTAATAACTTAATTGTAAATCAATGATAATTTAATTGTAAAT
1 ATTGATAACTTAATAGTAAATTACTAATAAATTAATAGTAAATCAATGATAATTTAATAATAAAT
11990023 CAATTAATC
66 CAATTAATC
* * * * * * *
11990032 ATTGATAACTTTATAGTAAATTA-TCGATAAATTAGTAGTAAGTCCATTATAATTTAATAATTAA
1 ATTGATAACTTAATAGTAAATTACT-AATAAATTAATAGTAAATCAATGATAATTTAATAATAAA
11990096 TCA
65 TCA
11990099 TTAGTTACTT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
73 1 0.02
74 54 0.98
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (74 bp):
ATTGATAACTTAATAGTAAATTACTAATAAATTAATAGTAAATCAATGATAATTTAATAATAAAT
CAATTAATC
Found at i:11990126 original size:44 final size:43
Alignment explanation
Indices: 11990058--11990248 Score: 126
Period size: 44 Copynumber: 4.4 Consensus size: 43
11990048 TAAATTATCG
* *
11990058 ATAAATTAGTAGTAAGTCCATTATAATTTAATAATTAATCA-TT
1 ATAAATTAGTAGTAAAT-CATTATAATTTAATAATAAATCATTT
* * * *
11990101 AGTTACTTAGTAGTAAATCATTTATAGA-TTAGTGATAAATCATTT
1 A-TAAATTAGTAGTAAATCA-TTATA-ATTTAATAATAAATCATTT
* * *
11990146 ATAAATTAGTAATAAATCAATGATAATTTAATAACAAAT--TGTT
1 ATAAATTAGTAGTAAATC-ATTATAATTTAATAATAAATCAT-TT
* * * * *
11990189 AT-AATCTAGTAGTAAATCATTGATAACTT-GTAGTAAGTCATTA
1 ATAAAT-TAGTAGTAAATCATT-ATAATTTAATAATAAATCATTT
11990232 AT-AATATAGTAGTAAAT
1 ATAAAT-TAGTAGTAAAT
11990249 AAATGAAAAC
Statistics
Matches: 115, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
42 11 0.10
43 42 0.37
44 57 0.50
45 5 0.04
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.39
Consensus pattern (43 bp):
ATAAATTAGTAGTAAATCATTATAATTTAATAATAAATCATTT
Found at i:11990132 original size:22 final size:21
Alignment explanation
Indices: 11990107--11990248 Score: 103
Period size: 22 Copynumber: 6.6 Consensus size: 21
11990097 CATTAGTTAC
11990107 TTAGTAGTAAATCATTTATAGA
1 TTAGTAGTAAATCATTTATA-A
11990129 TTAGT-GATAAATCATTTATAAA
1 TTAGTAG-TAAATCATTTAT-AA
* * *
11990151 TTAGTAATAAATCAATGATAA
1 TTAGTAGTAAATCATTTATAA
* **
11990172 TTTAATAACAAAT--TGTTATAA
1 -TTAGTAGTAAATCAT-TTATAA
*
11990193 TCTAGTAGTAAATCATTGATAA
1 T-TAGTAGTAAATCATTTATAA
* *
11990215 CTT-GTAGTAAGTCATTAATAA
1 -TTAGTAGTAAATCATTTATAA
11990236 TATAGTAGTAAAT
1 T-TAGTAGTAAAT
11990249 AAATGAAAAC
Statistics
Matches: 95, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
20 2 0.02
21 33 0.35
22 57 0.60
23 3 0.03
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (21 bp):
TTAGTAGTAAATCATTTATAA
Found at i:11990527 original size:22 final size:22
Alignment explanation
Indices: 11990493--11990537 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11990483 CTCCATATTT
* * *
11990493 CATAGTTGTAAATCCATAATAA
1 CATAGTAGAAAATCAATAATAA
*
11990515 CATAGTAGAAAATCAATGATAA
1 CATAGTAGAAAATCAATAATAA
11990537 C
1 C
11990538 TTAATAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (22 bp):
CATAGTAGAAAATCAATAATAA
Found at i:11991004 original size:24 final size:24
Alignment explanation
Indices: 11990977--11991022 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11990967 TTAGTTATTT
11990977 ATTTAGTA-TTTTAATTATTTTGAA
1 ATTT-GTATTTTTAATTATTTTGAA
* *
11991001 ATTTTTATTTTTCATTATTTTG
1 ATTTGTATTTTTAATTATTTTG
11991023 CATCGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (24 bp):
ATTTGTATTTTTAATTATTTTGAA
Found at i:11991521 original size:16 final size:16
Alignment explanation
Indices: 11991487--11991529 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
11991477 TTAATTTTCA
* *
11991487 TAATTATTATATTATAT
1 TAATTTTTA-ATTAAAT
11991504 TAATTTTTAATTAAAT
1 TAATTTTTAATTAAAT
*
11991520 TAAATTTTAA
1 TAATTTTTAA
11991530 AATGAGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTTTTAATTAAAT
Found at i:11992553 original size:22 final size:22
Alignment explanation
Indices: 11992462--11992849 Score: 208
Period size: 22 Copynumber: 18.0 Consensus size: 22
11992452 AAAGTAGACA
* * *
11992462 ATTGATAACTTAGTAATTAATC
1 ATTGATAACTTAATAGTAAATC
* * * * *
11992484 ATTAAAAATTTAAAAGT-AATT
1 ATTGATAACTTAATAGTAAATC
11992505 ATT-ATAACTTAATAGT-AATC
1 ATTGATAACTTAATAGTAAATC
*
11992525 ATCGATAACTTAATAGTAAATC
1 ATTGATAACTTAATAGTAAATC
11992547 ATTGATAACTTAATAGT-AATC
1 ATTGATAACTTAATAGTAAATC
* * *
11992568 ATCGATAATTTAATAATAAATC
1 ATTGATAACTTAATAGTAAATC
*
11992590 ATAGATAACTTAATAGTAAA-C
1 ATTGATAACTTAATAGTAAATC
* * * *
11992611 -TAG-T-ACTTAGTAATAAATG
1 ATTGATAACTTAATAGTAAATC
* * ** * *
11992630 AATGATAATTTTGTAGTTAATA
1 ATTGATAACTTAATAGTAAATC
11992652 ATTGATAACTTAATAGTAAATC
1 ATTGATAACTTAATAGTAAATC
* * *
11992674 AGTAATAACATAATAGTAAATC
1 ATTGATAACTTAATAGTAAATC
* * *
11992696 A-TAATAACTTAGTAATAAATC
1 ATTGATAACTTAATAGTAAATC
* *
11992717 AATT-ATAA-TATAGTTGTAAATGC
1 -ATTGATAACT-TAATAGTAAAT-C
* * *
11992740 A-TAATTACATAATAGTAAATC
1 ATTGATAACTTAATAGTAAATC
** * * *
11992761 AAGGATAACTTATTA-AAAATT
1 ATTGATAACTTAATAGTAAATC
* * * ** *
11992782 AGTAATAATTTTGGTAGTTAATC
1 ATTGATAA-CTTAATAGTAAATC
* * *
11992805 ATTGATAATTTAGTAATAAATC
1 ATTGATAACTTAATAGTAAATC
*
11992827 AATGATAACTTAATAGTAAATC
1 ATTGATAACTTAATAGTAAATC
11992849 A
1 A
11992850 ATTTTGGTTT
Statistics
Matches: 278, Mismatches: 72, Indels: 32
0.73 0.19 0.08
Matches are distributed among these distances:
18 11 0.04
19 1 0.00
20 19 0.07
21 69 0.25
22 167 0.60
23 11 0.04
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
ATTGATAACTTAATAGTAAATC
Found at i:11992562 original size:43 final size:43
Alignment explanation
Indices: 11992508--11992717 Score: 203
Period size: 43 Copynumber: 4.9 Consensus size: 43
11992498 AGTAATTATT
*
11992508 ATAACTTAATAGTAATCATCGATAACTTAATAGTAAATCATTG
1 ATAACTTAATAGTAATCATCGATAACTTAATAATAAATCATTG
* *
11992551 ATAACTTAATAGTAATCATCGATAATTTAATAATAAATCATAG
1 ATAACTTAATAGTAATCATCGATAACTTAATAATAAATCATTG
* * * * *
11992594 ATAACTTAATAGTAAAC-TAG-T-ACTTAGTAATAAATGAATG
1 ATAACTTAATAGTAATCATCGATAACTTAATAATAAATCATTG
* ** * * * * *
11992634 ATAATTTTGTAGTTAATAATTGATAACTTAATAGTAAATCAGTA
1 ATAACTTAATAG-TAATCATCGATAACTTAATAATAAATCATTG
* * *
11992678 ATAACATAATAGTAAATCAT-AATAACTTAGTAATAAATCA
1 ATAACTTAATAGT-AATCATCGATAACTTAATAATAAATCA
11992718 ATTATAATAT
Statistics
Matches: 133, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
40 23 0.17
41 4 0.03
42 4 0.03
43 75 0.56
44 27 0.20
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (43 bp):
ATAACTTAATAGTAATCATCGATAACTTAATAATAAATCATTG
Found at i:11992700 original size:62 final size:62
Alignment explanation
Indices: 11992528--11992761 Score: 154
Period size: 65 Copynumber: 3.7 Consensus size: 62
11992518 AGTAATCATC
* * * *
11992528 GATAACTTAATAGTAAATCATTGATAACTTAATAGTAATCATCGATAATTTAATAATAAATCATA
1 GATAACTTAATAGTAAATCAGTAATAACATAATAGTAA--ATC-ATAATTTAATAATAAATAATA
* * * * * * ** * * *
11992593 GATAACTTAATAGTAAA-CTAGTACTTA-GTAATAAATGAATGATAATTTTGTAGTTAATAATT
1 GATAACTTAATAGTAAATC-AGTAATAACATAAT-AGTAAATCATAATTTAATAATAAATAATA
*
11992655 GATAACTTAATAGTAAATCAGTAATAACATAATAGTAAATCATAATAACTTAGTAATAAATCAAT
1 GATAACTTAATAGTAAATCAGTAATAACATAATAGTAAATCATAAT---TTAATAATAAAT-AAT
11992720 -
62 A
* * * *
11992720 TATAA-TATAGTTGTAAATGCA-TAATTACATAATAGTAAATCA
1 GATAACT-TAATAGTAAAT-CAGTAATAACATAATAGTAAATCA
11992762 AGGATAACTT
Statistics
Matches: 132, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
62 48 0.36
63 7 0.05
64 6 0.05
65 66 0.50
66 5 0.04
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (62 bp):
GATAACTTAATAGTAAATCAGTAATAACATAATAGTAAATCATAATTTAATAATAAATAATA
Found at i:11993184 original size:20 final size:21
Alignment explanation
Indices: 11993143--11993214 Score: 83
Period size: 22 Copynumber: 3.4 Consensus size: 21
11993133 AAAAATTAAG
11993143 TAGTAAATTCATGATAACATAA
1 TAGTAAATT-ATGATAACATAA
*
11993165 TAGTAAATTAT-ATAATATAA
1 TAGTAAATTATGATAACATAA
* *
11993185 TAGTAAATTATCGATTACTTAA
1 TAGTAAATTAT-GATAACATAA
*
11993207 TAATAAAT
1 TAGTAAAT
11993215 CAATAATAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 19 0.44
21 2 0.05
22 22 0.51
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.38
Consensus pattern (21 bp):
TAGTAAATTATGATAACATAA
Found at i:11993208 original size:42 final size:41
Alignment explanation
Indices: 11993143--11993222 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
11993133 AAAAATTAAG
* *
11993143 TAGTAAATTCATGATAACATAATAGTAAATTATATAATATAA
1 TAGTAAATTCATGATAACATAATAATAAATCA-ATAATATAA
* *
11993185 TAGTAAATT-ATCGATTACTTAATAATAAATCAATAATA
1 TAGTAAATTCAT-GATAACATAATAATAAATCAATAATA
11993223 ACGTAGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 8 0.24
42 25 0.76
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (41 bp):
TAGTAAATTCATGATAACATAATAATAAATCAATAATATAA
Found at i:11993296 original size:30 final size:30
Alignment explanation
Indices: 11993256--11993312 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11993246 TTTAGTTGCA
11993256 AATCAATGATAA-TTTAGTAATAAATTAGTT
1 AATCAATGATAACTTTA-TAATAAATTAGTT
*
11993286 AATCATTGATAACTTTATAATAAATTA
1 AATCAATGATAACTTTATAATAAATTA
11993313 TTGATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (30 bp):
AATCAATGATAACTTTATAATAAATTAGTT
Found at i:11993315 original size:22 final size:22
Alignment explanation
Indices: 11993281--11993473 Score: 76
Period size: 22 Copynumber: 8.7 Consensus size: 22
11993271 AGTAATAAAT
* *
11993281 TAGTTAATCATTGATAACTTTA
1 TAGTAAATTATTGATAACTTTA
* *
11993303 TAATAAATTATTGATAA-ATTA
1 TAGTAAATTATTGATAACTTTA
*
11993324 CTAGTAAATAACTT-ATAACTTTA
1 -TAGTAAATTA-TTGATAACTTTA
* * *
11993347 TAGTAAACTATTAATAA-TTCA
1 TAGTAAATTATTGATAACTTTA
* * * *
11993368 GTGGT-AACTATTCA-ACAATTTAA
1 -TAGTAAATTATTGATA-ACTTT-A
* * * *
11993391 TAGTAAATCATTCATAACATAA
1 TAGTAAATTATTGATAACTTTA
* * *
11993413 TAGTTAATTATTTATAAATTAGTA
1 TAGTAAATTATTGATAACTT--TA
*
11993437 TA-AAAATTATTGATAA-TTTA
1 TAGTAAATTATTGATAACTTTA
*
11993457 GTCGTAAATTATTGATA
1 -TAGTAAATTATTGATA
11993474 GCTTAAAATA
Statistics
Matches: 127, Mismatches: 30, Indels: 28
0.69 0.16 0.15
Matches are distributed among these distances:
20 3 0.02
21 18 0.14
22 76 0.60
23 26 0.20
24 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (22 bp):
TAGTAAATTATTGATAACTTTA
Found at i:11993874 original size:22 final size:22
Alignment explanation
Indices: 11993849--11994106 Score: 125
Period size: 22 Copynumber: 11.6 Consensus size: 22
11993839 TTACTAATAT
*
11993849 ATTAATGATAACTTCATAGTAA
1 ATTAATGATAACTTAATAGTAA
11993871 ATTAGA-GATAACTTAATAGTAA
1 ATTA-ATGATAACTTAATAGTAA
* ** ***
11993893 ATCAATTTTTGTTTAATAGTAA
1 ATTAATGATAACTTAATAGTAA
* *
11993915 A-TAATTGATAATTTTAGTAGTAA
1 ATTAA-TGATAA-CTTAATAGTAA
*
11993938 ATT-ATAAATAACTTAATAGTAA
1 ATTAAT-GATAACTTAATAGTAA
* * * *
11993960 ATCAATGATAATTTAGTAGTTA
1 ATTAATGATAACTTAATAGTAA
* * * * * *
11993982 ATCATTAAAAATTTAAAAGTAA
1 ATTAATGATAACTTAATAGTAA
* *
11994004 ATCAAT-ATAACTTAGTAGTAA
1 ATTAATGATAACTTAATAGTAA
* * *
11994025 A-TAATTGATGACTTGATAGTTA
1 ATTAA-TGATAACTTAATAGTAA
* *
11994047 ATTACTGATAATTAGTTAATAGTAA
1 ATTAATGAT-A--ACTTAATAGTAA
* *
11994072 A-TCATGGATAATTTAATA-TAA
1 ATTAAT-GATAACTTAATAGTAA
11994093 ATTAATGATAACTT
1 ATTAATGATAACTT
11994107 GGTAGTGAAT
Statistics
Matches: 174, Mismatches: 47, Indels: 31
0.69 0.19 0.12
Matches are distributed among these distances:
20 2 0.01
21 27 0.16
22 107 0.61
23 21 0.12
24 4 0.02
25 13 0.07
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
ATTAATGATAACTTAATAGTAA
Found at i:11993954 original size:45 final size:44
Alignment explanation
Indices: 11993905--11994026 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
11993895 CAATTTTTGT
*
11993905 TTAATAGTAAAT-AATTGATAATTTTAGTAGTAAATTA-TAAATAAC
1 TTAATAGTAAATCAA-TGATAA-TTTAGTAGTAAATCATTAAA-AAC
* *
11993950 TTAATAGTAAATCAATGATAATTTAGTAGTTAATCATTAAAAAT
1 TTAATAGTAAATCAATGATAATTTAGTAGTAAATCATTAAAAAC
* *
11993994 TTAAAAGTAAATCAAT-ATAACTTAGTAGTAAAT
1 TTAATAGTAAATCAATGATAATTTAGTAGTAAAT
11994027 AATTGATGAC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
43 15 0.22
44 30 0.43
45 22 0.32
46 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (44 bp):
TTAATAGTAAATCAATGATAATTTAGTAGTAAATCATTAAAAAC
Found at i:11993995 original size:67 final size:65
Alignment explanation
Indices: 11993864--11994026 Score: 164
Period size: 67 Copynumber: 2.5 Consensus size: 65
11993854 TGATAACTTC
* ** ** * *
11993864 ATAGTAAATTAGAGATAACTTAATAGTAAATCAATTTTTGTTTAATAGTAAATAATTGATAATTT
1 ATAGTAAATTA-AAATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATAATT-AAAAATT
11993929 TA
64 TA
* * * *
11993931 GTAGTAAATTATAAATAACTTAATAGTAAATCAATGATAATTTAGTAGTTAATCATTAAAAATTT
1 ATAGTAAATTA-AAATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATAATTAAAAATTT
11993996 A
65 A
* * * *
11993997 AAAGTAAATCAATATAACTTAGTAGTAAAT
1 ATAGTAAATTAAAATAACTTAATAGTAAAT
11994027 AATTGATGAC
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
65 17 0.22
66 15 0.19
67 47 0.59
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (65 bp):
ATAGTAAATTAAAATAACTTAATAGTAAATCAATGATAATTTAATAGTAAATAATTAAAAATTTA
Found at i:11994003 original size:44 final size:44
Alignment explanation
Indices: 11993904--11994112 Score: 156
Period size: 43 Copynumber: 4.7 Consensus size: 44
11993894 TCAATTTTTG
*
11993904 TTTAATAGTAAAT-AATTGATAATTTTAGTAGTAAATTATAAATAA
1 TTTAATAGTAAATCAA-TGATAA-TTTAGTAGTAAATCATAAATAA
* *
11993949 CTTAATAGTAAATCAATGATAATTTAGTAGTTAATCATTAAA-AA
1 TTTAATAGTAAATCAATGATAATTTAGTAGTAAATCA-TAAATAA
* * * ** *
11993993 TTTAAAAGTAAATCAAT-ATAACTTAGTAGTAAATAATTGATGA
1 TTTAATAGTAAATCAATGATAATTTAGTAGTAAATCATAAATAA
* * * * * * **
11994036 CTTGATAGTTAATTACTGATAATTAGTTAATAGTAAATCATGGATAA
1 TTTAATAGTAAATCAATGATAA-T--TTAGTAGTAAATCATAAATAA
* * *
11994083 TTTAATA-TAAATTAATGATAACTTGGTAGT
1 TTTAATAGTAAATCAATGATAATTTAGTAGT
11994113 GAATTATATT
Statistics
Matches: 128, Mismatches: 29, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
42 2 0.02
43 34 0.27
44 34 0.27
45 22 0.17
46 14 0.11
47 22 0.17
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.39
Consensus pattern (44 bp):
TTTAATAGTAAATCAATGATAATTTAGTAGTAAATCATAAATAA
Found at i:11994126 original size:32 final size:33
Alignment explanation
Indices: 11994090--11994153 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
11994080 TAATTTAATA
* *
11994090 TAAATTAATGATAAC-TTGGTAGTGAAT-TATAT
1 TAAATCAATGATAACATT-GTAGTAAATGTATAT
11994122 TAAATCAATGATAACATTGTAGTAAATGTATA
1 TAAATCAATGATAACATTGTAGTAAATGTATA
11994154 ATAATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.38
Consensus pattern (33 bp):
TAAATCAATGATAACATTGTAGTAAATGTATAT
Found at i:11994224 original size:22 final size:22
Alignment explanation
Indices: 11994199--11994260 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
11994189 AAATTAACAG
* * *
11994199 TAACTTAGTATTTAATCACTTA
1 TAACTTAGTAATAAATCACTAA
11994221 TAACATTA-TAATAAATCACTAA
1 TAAC-TTAGTAATAAATCACTAA
* **
11994243 TAAGTTAGTTGTAAATCA
1 TAACTTAGTAATAAATCA
11994261 ATGATATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 3 0.09
22 26 0.81
23 3 0.09
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (22 bp):
TAACTTAGTAATAAATCACTAA
Found at i:11994310 original size:22 final size:21
Alignment explanation
Indices: 11994285--11994355 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
11994275 TAAATTACTT
11994285 AATCATTAATAACTTTGTAATA
1 AATCATT-ATAACTTTGTAATA
* * *
11994307 AATCATTGTGAA-ATTGTAGTA
1 AATCATTAT-AACTTTGTAATA
* *
11994328 AATTAATTATAACTTTATAATA
1 AA-TCATTATAACTTTGTAATA
11994350 AATCAT
1 AATCAT
11994356 CAATAATTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (21 bp):
AATCATTATAACTTTGTAATA
Found at i:11994411 original size:22 final size:23
Alignment explanation
Indices: 11994386--11994496 Score: 93
Period size: 22 Copynumber: 4.9 Consensus size: 23
11994376 ATCAAAATTT
11994386 TAGTAGTAAATTATTAATAA-AG
1 TAGTAGTAAATTATTAATAATAG
* *
11994408 TAGTAGTAAATTAATGATAATA-
1 TAGTAGTAAATTATTAATAATAG
* * *
11994430 TAATTGTAAAGTATTAATAATTTAG
1 TAGTAGTAAATTATTAATAA--TAG
* * * *
11994455 TAGTAATAAATCATTTAT-ATAT
1 TAGTAGTAAATTATTAATAATAG
*
11994477 TAGTAGTAAATTATTGATAA
1 TAGTAGTAAATTATTAATAA
11994497 CATAATAATA
Statistics
Matches: 67, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
22 50 0.75
23 2 0.03
24 3 0.04
25 12 0.18
ACGTcount: A:0.47, C:0.01, G:0.12, T:0.41
Consensus pattern (23 bp):
TAGTAGTAAATTATTAATAATAG
Found at i:11994486 original size:47 final size:43
Alignment explanation
Indices: 11994385--11994518 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 43
11994375 GATCAAAATT
* *
11994385 TTAGTAGTAAATTATTAATAAAGTAGTAGTAAATTAATGATAA
1 TTAGTAGTAAATTATTAATAAAGTAGTAATAAATCAATGATAA
* * * * *
11994428 TATAATTGTAAAGTATTAATAATTTAGTAGTAATAAATCATTTATATA
1 T-TAGTAGTAAATTATTAATAA---AGTAGTAATAAATCAATGATA-A
* * *
11994476 TTAGTAGTAAATTATTGATAACA-TAATAATAAATCAATAATAA
1 TTAGTAGTAAATTATTAATAA-AGTAGTAATAAATCAATGATAA
11994519 CTTAATTTTC
Statistics
Matches: 71, Mismatches: 15, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.03
44 33 0.46
45 1 0.01
47 33 0.46
48 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (43 bp):
TTAGTAGTAAATTATTAATAAAGTAGTAATAAATCAATGATAA
Found at i:11994863 original size:21 final size:21
Alignment explanation
Indices: 11994792--11994863 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
11994782 TTTATCGATG
*
11994792 ATTACC-AAATTATATCATAA
1 ATTACCAAAATTATATCAAAA
* * * *
11994812 GTTACTAAAATTACATCAATAG
1 ATTACCAAAATTATATCAA-AA
* *
11994834 ATTATCAAAATTTTATCAAAA
1 ATTACCAAAATTATATCAAAA
11994855 ATTACCAAA
1 ATTACCAAA
11994864 TTCTATTAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 3
0.72 0.23 0.06
Matches are distributed among these distances:
20 4 0.11
21 19 0.50
22 15 0.39
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (21 bp):
ATTACCAAAATTATATCAAAA
Found at i:11994903 original size:42 final size:41
Alignment explanation
Indices: 11994798--11994946 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 41
11994788 GATGATTACC
* *
11994798 AAATTATATCATAAGTTACTAAAATTAC-ATCAATAGATTATC-A
1 AAATTATATCATAAGTTAC-CAAATT-CTATCAAT-GATT-GCAA
* * * *
11994841 AAATTTTATCAAAAATTACCAAATTCTATTAATGATTGCAA
1 AAATTATATCATAAGTTACCAAATTCTATCAATGATTGCAA
* *
11994882 AAATTATATCATAAGTTTACCAAATTGTGTCAATGATTGCAA
1 AAATTATATCATAAG-TTACCAAATTCTATCAATGATTGCAA
*
11994924 AAGTTATATCATAAGTTACCAAA
1 AAATTATATCATAAGTTACCAAA
11994947 CTAATATTGA
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 1 0.01
41 26 0.29
42 47 0.52
43 16 0.18
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (41 bp):
AAATTATATCATAAGTTACCAAATTCTATCAATGATTGCAA
Found at i:11994906 original size:21 final size:20
Alignment explanation
Indices: 11994793--11994946 Score: 64
Period size: 21 Copynumber: 7.4 Consensus size: 20
11994783 TTATCGATGA
11994793 TTACCAAATTATATCATAAG
1 TTACCAAATTATATCATAAG
* *
11994813 TTACTAAAATTACATCA-ATAG
1 TTAC-CAAATTATATCATA-AG
* * * *
11994834 ATTATCAAAATTTTATCAAAAA
1 -TTA-CCAAATTATATCATAAG
*
11994856 TTACCAAATTCTAT--TAATG
1 TTACCAAATTATATCATAA-G
* *
11994875 ATTGCAAAAATTATATCATAAG
1 -TTAC-CAAATTATATCATAAG
* * *
11994897 TTTACCAAATTGTGTCA-ATG
1 -TTACCAAATTATATCATAAG
* *
11994917 ATTGCAAAAGTTATATCATAAG
1 -TTACCAAA-TTATATCATAAG
11994939 TTACCAAA
1 TTACCAAA
11994947 CTAATATTGA
Statistics
Matches: 96, Mismatches: 26, Indels: 23
0.66 0.18 0.16
Matches are distributed among these distances:
18 2 0.02
20 25 0.26
21 44 0.46
22 20 0.21
23 5 0.05
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (20 bp):
TTACCAAATTATATCATAAG
Found at i:11995015 original size:21 final size:21
Alignment explanation
Indices: 11994956--11995040 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
11994946 ACTAATATTG
*
11994956 AAGGTTATCAAAATTGTATCA
1 AAGGTTATCAAAATTTTATCA
** *
11994977 AATATTA-CTAAAAGTTTATCA
1 AAGGTTATC-AAAATTTTATCA
* *
11994998 AAGGTTATCAAACTTTTAACA
1 AAGGTTATCAAAATTTTATCA
*
11995019 AA-GTTATCAAAA-TATATCA
1 AAGGTTATCAAAATTTTATCA
11995038 AAG
1 AAG
11995041 ATAATTAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
19 7 0.14
20 10 0.20
21 31 0.63
22 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (21 bp):
AAGGTTATCAAAATTTTATCA
Found at i:11995026 original size:20 final size:21
Alignment explanation
Indices: 11994991--11995029 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11994981 TTACTAAAAG
*
11994991 TTTATCAAAGGTTATCAAACT
1 TTTAACAAAGGTTATCAAACT
11995012 TTTAACAAA-GTTATCAAA
1 TTTAACAAAGGTTATCAAA
11995030 ATATATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.36
Consensus pattern (21 bp):
TTTAACAAAGGTTATCAAACT
Found at i:11995991 original size:15 final size:16
Alignment explanation
Indices: 11995971--11996003 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11995961 AACAAAACAT
11995971 ATCAAAAGT-TATCAA
1 ATCAAAAGTATATCAA
*
11995986 ATCAAAATTATATCAA
1 ATCAAAAGTATATCAA
11996002 AT
1 AT
11996004 ATTATCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (16 bp):
ATCAAAAGTATATCAA
Found at i:11996064 original size:3 final size:3
Alignment explanation
Indices: 11996056--11996083 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11996046 CTATTAGAAT
11996056 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11996084 AAAAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11998261 original size:16 final size:17
Alignment explanation
Indices: 11998242--11998284 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
11998232 AAAGGTGTGT
*
11998242 AAAAAA-GAAAAAAATGA
1 AAAAAATGAAAAGAAT-A
11998259 AAAAAATGAAAAGAA-A
1 AAAAAATGAAAAGAATA
11998275 AAAAAATGAA
1 AAAAAATGAA
11998285 GACCTAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 11 0.46
17 6 0.25
18 7 0.29
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAAATGAAAAGAATA
Found at i:11998262 original size:10 final size:9
Alignment explanation
Indices: 11998242--11998284 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
11998232 AAAGGTGTGT
11998242 AAAAAA-GA
1 AAAAAATGA
11998250 AAAAAATGA
1 AAAAAATGA
11998259 AAAAAATGA
1 AAAAAATGA
*
11998268 AAAGAA--A
1 AAAAAATGA
11998275 AAAAAATGA
1 AAAAAATGA
11998284 A
1 A
11998285 GACCTAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 6 0.20
8 6 0.20
9 18 0.60
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (9 bp):
AAAAAATGA
Found at i:11999038 original size:55 final size:55
Alignment explanation
Indices: 11998954--11999059 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
11998944 CACTTATCAC
* * * *
11998954 TCATTCGATCTTGGCTCAGTCCAAATCATTTTCTTGACTCGTAATTTCATCTTGA
1 TCATTCAATCTTGGCTCAGTCCAAATCATTTTCCTAACTCGCAATTTCATCTTGA
* *
11999009 TCATTCAATCTTGGTTCAGTCTAAATCATTTTCCTAACTCGCAATTTCATC
1 TCATTCAATCTTGGCTCAGTCCAAATCATTTTCCTAACTCGCAATTTCATC
11999060 CTGGTCATCT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.24, C:0.25, G:0.10, T:0.42
Consensus pattern (55 bp):
TCATTCAATCTTGGCTCAGTCCAAATCATTTTCCTAACTCGCAATTTCATCTTGA
Found at i:11999484 original size:66 final size:66
Alignment explanation
Indices: 11999361--11999489 Score: 186
Period size: 66 Copynumber: 2.0 Consensus size: 66
11999351 TTGTCTCGGT
* * * *
11999361 CATTCATCTTCGACCTTGACTTGATCCTGGTCACTTTATCTTTTAAACTCGCCATTTCGTCCCAG
1 CATTCATCTTCGACCTTGACTCGATCCTGGTCACTTTATCTTTCAAACTCACCATTTCATCCCAG
11999426 C
66 C
* * **
11999427 CATTCATCTTCGACCTTGACTCGATCCTTGTCGCTTTATCTTTCAAACTCATGATTTCATCCC
1 CATTCATCTTCGACCTTGACTCGATCCTGGTCACTTTATCTTTCAAACTCACCATTTCATCCC
11999490 GATCATCCGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.39
Consensus pattern (66 bp):
CATTCATCTTCGACCTTGACTCGATCCTGGTCACTTTATCTTTCAAACTCACCATTTCATCCCAG
C
Found at i:11999863 original size:5 final size:5
Alignment explanation
Indices: 11999807--11999930 Score: 59
Period size: 5 Copynumber: 23.2 Consensus size: 5
11999797 TTGGTATTGT
* * * * * * *
11999807 TATTA TAGTA TATTA TGTTCA TAGTA TAATA CATTA TTTTA TTATTT TATTA
1 TATTA TATTA TATTA TATT-A TATTA TATTA TATTA TATTA -TATTA TATTA
* * * *
11999859 TATTA TTACGTCA TATTTA TTATTA TATCA TATTA TATTA CATTA TACTA
1 TATTA -TA--TTA TA-TTA -TATTA TATTA TATTA TATTA TATTA TATTA
* *
11999909 TACTA TATTA TACTA TTATTA T
1 TATTA TATTA TATTA -TATTA T
11999931 TATTTTTTTC
Statistics
Matches: 88, Mismatches: 24, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
5 65 0.74
6 17 0.19
7 4 0.05
8 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:11999881 original size:17 final size:18
Alignment explanation
Indices: 11999854--11999898 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
11999844 TTTATTATTT
*
11999854 TATTATATTATTACGTCA
1 TATTATATTATTACATCA
*
11999872 TATT-TATTATTATATCA
1 TATTATATTATTACATCA
11999889 TATTATATTA
1 TATTATATTA
11999899 CATTATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATATTATTACATCA
Done.