Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009141.1 Hibiscus syriacus cultivar Beakdansim tig00112649_pilon, 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: 919200
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:760920 original size:20 final size:21
Alignment explanation
Indices: 760895--760940 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
760885 ATCCAGGCGA
760895 CATAC-GGGAGACATACGAGC
1 CATACGGGGAGACATACGAGC
*
760915 CATACGGGGTGACATACGAGC
1 CATACGGGGAGACATACGAGC
760936 CATAC
1 CATAC
760941 AAGCCATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.13
Consensus pattern (21 bp):
CATACGGGGAGACATACGAGC
Found at i:760939 original size:9 final size:9
Alignment explanation
Indices: 760927--760966 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
760917 TACGGGGTGA
760927 CATACGAGC
1 CATACGAGC
*
760936 CATACAAGC
1 CATACGAGC
760945 CATATACGAGC
1 C--ATACGAGC
760956 CATACGAGC
1 CATACGAGC
760965 CA
1 CA
760967 ATGGAGAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (9 bp):
CATACGAGC
Found at i:760953 original size:20 final size:20
Alignment explanation
Indices: 760928--760966 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
760918 ACGGGGTGAC
760928 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
760948 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
760967 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:761037 original size:32 final size:32
Alignment explanation
Indices: 760997--761078 Score: 155
Period size: 32 Copynumber: 2.6 Consensus size: 32
760987 TATTATACGA
760997 GGAGAGGTAGCCATGCAGACGAGCCAGCCAAT
1 GGAGAGGTAGCCATGCAGACGAGCCAGCCAAT
761029 GGAGAGGTAGCCATGCAGACGAGCCAGCCAAT
1 GGAGAGGTAGCCATGCAGACGAGCCAGCCAAT
*
761061 GGAGAGGTCGCCATGCAG
1 GGAGAGGTAGCCATGCAG
761079 TCTGGGCGAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.29, C:0.24, G:0.37, T:0.10
Consensus pattern (32 bp):
GGAGAGGTAGCCATGCAGACGAGCCAGCCAAT
Found at i:761102 original size:29 final size:29
Alignment explanation
Indices: 761065--761130 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
761055 GCCAATGGAG
**
761065 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGCAGTCCCGGCGACCTTGT
*
761094 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGCAGTCCCGGCGACCTTGT
761123 AGGTCGCC
1 AGGTCGCC
761131 CCGGCGTCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGCAGTCCCGGCGACCTTGT
Found at i:761656 original size:45 final size:47
Alignment explanation
Indices: 761591--761680 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 47
761581 TTATATAGTT
*
761591 AAAAATAATTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATATAA
1 AAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAA
*
761635 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAA-TAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
761681 TTGTTTGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 5 0.12
45 15 0.38
46 5 0.12
47 7 0.17
48 8 0.20
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (47 bp):
AAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:761757 original size:32 final size:32
Alignment explanation
Indices: 761721--761796 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 32
761711 TTAGTTAGTA
761721 AGTTTATTAGTAG-TATA-TTATAATGAAAAAAT
1 AGTTTATTAGTAGTTATAGTTAT-AT-AAAAAAT
*
761753 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAAAT
*
761786 ATTTTATTAGT
1 AGTTTATTAGT
761797 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
32 11 0.28
33 19 0.49
34 5 0.13
35 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (32 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAAAT
Found at i:761874 original size:16 final size:16
Alignment explanation
Indices: 761842--761888 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
761832 TTTAAAAAGT
*
761842 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
761858 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
761874 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
761889 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:761883 original size:15 final size:14
Alignment explanation
Indices: 761863--761893 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
761853 GTTTATTAGT
761863 TTATTATATTATAAG
1 TTATTATATTA-AAG
761878 TTATTATATTAAAG
1 TTATTATATTAAAG
761892 TT
1 TT
761894 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:764580 original size:8 final size:8
Alignment explanation
Indices: 764533--764608 Score: 58
Period size: 8 Copynumber: 10.2 Consensus size: 8
764523 AAATCATTAC
764533 TAAATCAT
1 TAAATCAT
*
764541 CAAATCAT
1 TAAATCAT
764549 TAAAT-ATT
1 TAAATCA-T
764557 TAAATCAT
1 TAAATCAT
*
764565 T-AGT-AT
1 TAAATCAT
764571 TAAATCAT
1 TAAATCAT
*
764579 T-AGT-AT
1 TAAATCAT
764585 TAAATCAT
1 TAAATCAT
*
764593 T-AGT-AT
1 TAAATCAT
764599 TAAATCAT
1 TAAATCAT
764607 TA
1 TA
764609 TTATAAATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
6 9 0.17
7 13 0.25
8 29 0.56
9 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (8 bp):
TAAATCAT
Found at i:764604 original size:152 final size:149
Alignment explanation
Indices: 764132--764768 Score: 1145
Period size: 149 Copynumber: 4.3 Consensus size: 149
764122 ATTACTAAAT
764132 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
1 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
*
764197 TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAT
66 TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
764262 ATCATTATTAAATCATTAG
131 ATCATTATTAAATCATTAG
764281 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
1 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
764346 TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
66 TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
*
764411 ATCATTATTAAATTATTAG
131 ATCATTATTAAATCATTAG
764430 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
1 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
*
764495 TAAAATAATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
66 TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
764560 ATCATTAGTATTAAATCATTAG
131 ATCA-T--TATTAAATCATTAG
*
764582 TATTAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
1 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
*
764647 TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
66 TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
764712 ATCATTATTAAATCATTAG
131 ATCATTATTAAATCATTAG
* * *
764731 TATTAAATCA-T--TATTAAATCATTAGTATTAAATCATTA
1 TATGAAATCATTAGTATTAAATCATTATTA-TAAATAATTA
764769 GTATTAAATC
Statistics
Matches: 475, Mismatches: 9, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
146 15 0.03
147 9 0.02
148 1 0.00
149 304 0.64
150 1 0.00
151 1 0.00
152 144 0.30
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (149 bp):
TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
ATCATTATTAAATCATTAG
Found at i:764704 original size:301 final size:298
Alignment explanation
Indices: 764132--764768 Score: 1145
Period size: 301 Copynumber: 2.1 Consensus size: 298
764122 ATTACTAAAT
764132 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
1 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
* *
764197 TAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAT
66 TAAAATAATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
764262 ATCATTATTAAATCATTAGTATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAAT
131 ATCATTATTAAATCATTAGTATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAAT
764327 AATAACTAAATAATTATTATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCAT
196 AATAACTAAATAATTATTATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCAT
*
764392 CAAATCATTAAATATTTAAATCATTATTAAATTATTAG
261 CAAATCATTAAATATTTAAATCATTATTAAATCATTAG
764430 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
1 TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
764495 TAAAATAATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
66 TAAAATAATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
*
764560 ATCATTAGTATTAAATCATTAGTATTAAATCATTAGTATTAAATCATTATTATAAATAATTACTA
131 ATCA-T--TATTAAATCATTAGTATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTA
*
764625 AATAATAACTAAATAATTATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAAT
193 AATAATAACTAAATAATTATTATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAAT
764690 CATCAAATCATTAAATATTTAAATCATTATTAAATCATTAG
258 CATCAAATCATTAAATATTTAAATCATTATTAAATCATTAG
* * *
764731 TATTAAATCA-T--TATTAAATCATTAGTATTAAATCATTA
1 TATGAAATCATTAGTATTAAATCATTATTA-TAAATAATTA
764769 GTATTAAATC
Statistics
Matches: 327, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
298 147 0.45
299 10 0.03
300 1 0.00
301 169 0.52
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (298 bp):
TATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAATAATAACTAAATAATTATTA
TAAAATAATTATTATAATAATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAA
ATCATTATTAAATCATTAGTATGAAATCATTAGTATTAAATCATTATTATAAATAATTACTAAAT
AATAACTAAATAATTATTATAAAATCATTATTATAATAATTATTATCAAATCATTACTAAATCAT
CAAATCATTAAATATTTAAATCATTATTAAATCATTAG
Found at i:764807 original size:25 final size:24
Alignment explanation
Indices: 764715--764881 Score: 84
Period size: 25 Copynumber: 6.9 Consensus size: 24
764705 TATTTAAATC
764715 ATTATTAAATCATTAGTATTA-AA
1 ATTATTAAATCATTAGTATTATAA
764738 TCATTATTAAATCATTAGTA-T-TAA
1 --ATTATTAAATCATTAGTATTATAA
* * *
764762 ATCATT-AGT-ATTAAATCATTACTAA
1 ATTATTAAATCATT-AGT-ATTA-TAA
764787 ATTATTAAATCATTAGTA-T-TAA
1 ATTATTAAATCATTAGTATTATAA
* *
764809 ATCATTAAAT-ATTTAAATCATTATTAA
1 ATTATTAAATCA-TT-AGT-ATTA-TAA
* * *
764836 ATCATT-AGT-ATTAAATCATTACTAA
1 ATTATTAAATCATT-AGT-ATTA-TAA
764861 ATTATTAAATCATTAGTATTA
1 ATTATTAAATCATTAGTATTA
764882 AATCATTAGT
Statistics
Matches: 113, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
20 3 0.03
21 5 0.04
22 20 0.18
23 3 0.03
24 5 0.04
25 51 0.45
26 11 0.10
27 15 0.13
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTATTAAATCATTAGTATTATAA
Found at i:764893 original size:14 final size:14
Alignment explanation
Indices: 764053--764889 Score: 331
Period size: 14 Copynumber: 60.3 Consensus size: 14
764043 AATCATTATT
*
764053 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
764067 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
764083 ---ATTATTAAATC
1 ATTATTATTAAATC
*
764094 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
764108 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
764122 ATTACTAAATTATGAAATC
1 A-T--T--ATTATTAAATC
*
764141 ATTAGTATTAAATC
1 ATTATTATTAAATC
764155 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
764167 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
764178 A--ATAACTAAATA
1 ATTATTATTAAATC
*
764190 ATTATTATAAAATC
1 ATTATTATTAAATC
*
764204 ATTATTA-T-AATA
1 ATTATTATTAAATC
*
764216 ATTATTATCAAATC
1 ATTATTATTAAATC
*
764230 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
* *
764249 ATTAAATATT-TAT-
1 ATT-ATTATTAAATC
*
764262 ATCATTATTAAATC
1 ATTATTATTAAATC
* *
764276 ATTAGTATGAAATC
1 ATTATTATTAAATC
*
764290 ATTAGTATTAAATC
1 ATTATTATTAAATC
764304 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
764316 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
764327 A--ATAACTAAATA
1 ATTATTATTAAATC
*
764339 ATTATTATAAAATC
1 ATTATTATTAAATC
*
764353 ATTATTA-T-AATA
1 ATTATTATTAAATC
*
764365 ATTATTATCAAATC
1 ATTATTATTAAATC
*
764379 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
*
764398 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
*
764414 ---ATTATTAAATT
1 ATTATTATTAAATC
* *
764425 ATTAGTATGAAATC
1 ATTATTATTAAATC
*
764439 ATTAGTATTAAATC
1 ATTATTATTAAATC
764453 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
764465 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
764476 A--ATAACTAAATA
1 ATTATTATTAAATC
* *
764488 ATTATTATAAAATA
1 ATTATTATTAAATC
*
764502 ATTATTA-T-AATA
1 ATTATTATTAAATC
*
764514 ATTATTATCAAATC
1 ATTATTATTAAATC
*
764528 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
*
764547 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
*
764563 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
764577 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
764591 ATTAGTATTAAATC
1 ATTATTATTAAATC
764605 ATTATTA-TAAAT-
1 ATTATTATTAAATC
*
764617 A--ATTACTAAAT-
1 ATTATTATTAAATC
* * *
764628 A--ATAACTAAATA
1 ATTATTATTAAATC
*
764640 ATTATTATAAAATC
1 ATTATTATTAAATC
*
764654 ATTATTA-T-AATG
1 ATTATTATTAAATC
*
764666 ATTATTATCAAATC
1 ATTATTATTAAATC
*
764680 ATTACTAAATCATCAAATC
1 ATTA-T---T-ATTAAATC
*
764699 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
764715 ---ATTATTAAATC
1 ATTATTATTAAATC
*
764726 ATTAGTATTAAATC
1 ATTATTATTAAATC
764740 ---ATTATTAAATC
1 ATTATTATTAAATC
*
764751 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
764765 ATTAGTATTAAATC
1 ATTATTATTAAATC
764779 ATTACTAAATTATTAAATC
1 A-T--T--ATTATTAAATC
*
764798 ATTAGTATTAAATC
1 ATTATTATTAAATC
*
764812 ATTAAATATTTAAATC
1 ATT-ATTA-TTAAATC
764828 ---ATTATTAAATC
1 ATTATTATTAAATC
*
764839 ATTAGTATTAAATC
1 ATTATTATTAAATC
764853 ATTACTAAATTATTAAATC
1 A-T--T--ATTATTAAATC
*
764872 ATTAGTATTAAATC
1 ATTATTATTAAATC
764886 ATTA
1 ATTA
764890 GTATCCAACG
Statistics
Matches: 657, Mismatches: 79, Indels: 174
0.72 0.09 0.19
Matches are distributed among these distances:
10 16 0.02
11 97 0.15
12 66 0.10
13 24 0.04
14 301 0.46
15 21 0.03
16 42 0.06
17 3 0.00
18 7 0.01
19 76 0.12
20 4 0.01
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (14 bp):
ATTATTATTAAATC
Found at i:766739 original size:26 final size:24
Alignment explanation
Indices: 766679--766739 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
766669 TACTAATATT
*
766679 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
766703 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
766730 ATTTAATAAT
1 A-TTAATAAT
766740 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:767564 original size:21 final size:21
Alignment explanation
Indices: 767531--767579 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
767521 AATATAATAT
*
767531 ATAACTTAAACTAACCAACTA
1 ATAACTTAAACTAACAAACTA
* *
767552 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
767573 ATTAACT
1 A-TAACT
767580 AGATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:768100 original size:12 final size:12
Alignment explanation
Indices: 768083--768107 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
768073 TCCATGGCGA
768083 CCTACCACCTAC
1 CCTACCACCTAC
768095 CCTACCACCTAC
1 CCTACCACCTAC
768107 C
1 C
768108 ATGTCGTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.60, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTACCACCTAC
Found at i:768134 original size:29 final size:29
Alignment explanation
Indices: 768101--768171 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
768091 CTACCCTACC
768101 ACCTACCATGTCGTCGGGACTCCATGGCG
1 ACCTACCATGTCGTCGGGACTCCATGGCG
768130 ACCTACCATGTCGTCGGGACTCCATGGCG
1 ACCTACCATGTCGTCGGGACTCCATGGCG
768159 ACCTACCATGTCG
1 ACCTACCATGTCG
768172 CCGGCAACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.18, C:0.35, G:0.25, T:0.21
Consensus pattern (29 bp):
ACCTACCATGTCGTCGGGACTCCATGGCG
Found at i:768359 original size:31 final size:31
Alignment explanation
Indices: 768324--768388 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
768314 CCCATGCATA
768324 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
1 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
768355 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
1 GCACCAAAGCAGCATCAGCGAGCAACAGCGG
768386 GCA
1 GCA
768389 AAGAACCAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.29, T:0.03
Consensus pattern (31 bp):
GCACCAAAGCAGCATCAGCGAGCAACAGCGG
Found at i:770755 original size:21 final size:21
Alignment explanation
Indices: 770700--770756 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
770690 GACAAGACAC
* * *
770700 ATATGATGGCACAACCCAGGA
1 ATATAATGTCACATCCCAGGA
*
770721 ATATCATGTCACATCCCAGGA
1 ATATAATGTCACATCCCAGGA
770742 ATATAATGTCACATC
1 ATATAATGTCACATC
770757 AGTACTTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (21 bp):
ATATAATGTCACATCCCAGGA
Found at i:771151 original size:22 final size:22
Alignment explanation
Indices: 771126--771169 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
771116 TTTGTTGTAA
* *
771126 TCTGTCTAATCTAAAAAATTAT
1 TCTGTCAAACCTAAAAAATTAT
*
771148 TCTGTCAAACCTAAAAAGTTAT
1 TCTGTCAAACCTAAAAAATTAT
771170 ATATTCTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (22 bp):
TCTGTCAAACCTAAAAAATTAT
Found at i:776210 original size:2 final size:2
Alignment explanation
Indices: 776203--776248 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
776193 TTGCATGCTC
776203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
776245 AT AT
1 AT AT
776249 TGTGTTTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:776858 original size:16 final size:17
Alignment explanation
Indices: 776818--776858 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
776808 AGCAATTTAT
776818 TTTCA-TTTATTTATTA
1 TTTCATTTTATTTATTA
* *
776834 TTACTTTTTA-TTATTA
1 TTTCATTTTATTTATTA
776850 TTTCATTTT
1 TTTCATTTT
776859 CTTTTATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCATTTTATTTATTA
Found at i:777028 original size:36 final size:38
Alignment explanation
Indices: 776948--777034 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 38
776938 TTATGTATAT
* * *
776948 TATATATATATATATATATATTACTTTTTTTTTTCACA
1 TATATATATATATATATATATTACATTTATTTATCACA
776986 TATATATATATATAT-TAT-TTACATTTATTTATCATCA
1 TATATATATATATATATATATTACATTTATTTATCA-CA
*
777023 T-TATATGTATAT
1 TATATATATATAT
777035 TTTTTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
36 23 0.52
37 6 0.14
38 15 0.34
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (38 bp):
TATATATATATATATATATATTACATTTATTTATCACA
Found at i:777285 original size:19 final size:19
Alignment explanation
Indices: 777263--777308 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
777253 CTTATCATTA
* *
777263 TTATTTTTTCTCATTTTAT
1 TTATTTTTACTCATCTTAT
777282 TTA-TTTTACTCATCTTAT
1 TTATTTTTACTCATCTTAT
*
777300 TCATTTTTA
1 TTATTTTTA
777309 TCTTGACCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTTACTCATCTTAT
Found at i:778765 original size:15 final size:15
Alignment explanation
Indices: 778745--778892 Score: 181
Period size: 15 Copynumber: 9.5 Consensus size: 15
778735 TAATAAGGTT
778745 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
778760 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
778775 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
778790 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
778805 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
778820 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
778835 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
778854 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
778872 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
778886 ATTTATT
1 ATTTATT
778893 ATTATGGATT
Statistics
Matches: 119, Mismatches: 6, Indels: 16
0.84 0.04 0.11
Matches are distributed among these distances:
14 14 0.12
15 85 0.71
16 4 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:778862 original size:22 final size:22
Alignment explanation
Indices: 778837--778937 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
778827 TTAAAATAAA
*
778837 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
778859 TTATTTTAAAATAATTTATTTAAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * *
778883 ATAATTTATTATTATGGATTGAT
1 TTATTTTA-AAATATGGATTGAT
778906 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
778928 TTATTTTAAA
1 TTATTTTAAA
778938 TAATTTATTA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:778933 original size:54 final size:54
Alignment explanation
Indices: 778872--780487 Score: 1121
Period size: 54 Copynumber: 29.4 Consensus size: 54
778862 TTTTAAAATA
* *
778872 ATTTATTTAAAATAATTTATTATTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
778926 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
778980 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
779034 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * **
779088 ATTTATTATT--GTAGTTGTA-T-GGATTGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATT-TTAAATAATT-TATTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * ***
779141 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
779198 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
779252 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
* ** *
779316 ATTGATTTTAAATAAAATATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
779370 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *** *
779414 ATTAGTATGGATTAATTTATTT-TAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTA
1 ATT--TAT--TTTAAATAATTTAT-TAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
* ***
779476 ATTTATTTTAAATAATTTATTAGTATGGATTCATTTATTTTAAAATACAAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
779530 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATACGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
779584 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * * * *** *
779634 ATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATTGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
779696 AATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
** ** * ** * * *
779760 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
* * * *
779814 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
*
779868 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
779922 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
* * * ***
779980 ATTTATTTT-AA-AA--TA-T-GTATTGATTTA-TTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
**
780028 ATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
780082 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
780136 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * * * *** *
780186 ATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATTGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
780248 AATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
780302 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * * ***
780352 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTTTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGA--T-TTATTTTA-AAATATGGATTG
780414 A--TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
780466 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
780488 TTGTAGTTGT
Statistics
Matches: 1249, Mismatches: 181, Indels: 264
0.74 0.11 0.16
Matches are distributed among these distances:
44 6 0.00
46 2 0.00
47 5 0.00
48 57 0.05
49 14 0.01
50 63 0.05
51 4 0.00
52 52 0.04
53 38 0.03
54 633 0.51
55 30 0.02
56 33 0.03
57 34 0.03
58 104 0.08
59 19 0.02
60 31 0.02
61 2 0.00
62 45 0.04
63 11 0.01
64 66 0.05
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:778955 original size:32 final size:32
Alignment explanation
Indices: 778917--780377 Score: 354
Period size: 32 Copynumber: 47.7 Consensus size: 32
778907 TATTTTAAAA
778917 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
778949 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
778971 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779003 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
779025 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
779057 TATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 TATGGATTGATTTATTTT-AAATA---ATTTA-TTAG
* ** * * * * *
779094 TATTGTAGTTGTATGGATTGATTGATTTATTT-TAAA
1 TA-TGGA-TTG-ATTTATT--TTAAATAATTTATTAG
** ** * ** * * *
779130 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAA
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAG
*
779163 TATGGATTGATTTA--TT--AT--TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAATTTA-TTAG
779189 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779221 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779243 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779275 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* ** *
779307 TATGGATTGATTGATTTTAAATAAAATATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
**
779339 TATGGATTGATTTATTTTAAA-ATATGGATT-G
1 TATGGATTGATTTATTTTAAATA-ATTTATTAG
** * * *
779370 -ATTTATT-ATTGTAGTTGTATGGATTGATTTATT--
1 TATGGATTGATT-TA-TT-T-T-AAATAATTTATTAG
* * * * * *
779403 T-T-AAATAATTTATTAGTATGGATTAATTTATTTTAAAA
1 TATGGATTGATTTATT--T-T-AAATAATTTA--TT--AG
*
779441 TATGGATTGATTTA--TT--AT--TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAATTTA-TTAG
*
779467 TATGGATTAATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
779499 TATGGATTCATTTATTTT-AA-AA--TA-CA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779525 -A---ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
779553 TATGTATTGATTTATTTT-AA-AA--TA--CG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779579 -A---ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
779607 TATGTATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
779639 TATGGATTGATTTATTTTAAAATATGAATTGATT--
1 TATGGATTGATTTATTTT--AA-AT-AATTTATTAG
* * *
779673 TAT-TATTGTAGTTGTATTGATTGAATTA-TT-TTA-
1 TATGGATTG-A-TT-TATT--TTAAATAATTTATTAG
* * * * ** * *
779706 AAT-AATTTA-TTAGTATGGATTGATTTATT--
1 TATGGATTGATTTA-TTTTAAATAATTTATTAG
* * * * * * *
779735 T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATT--T-T-AAATAATTTA--TT--AG
779773 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779805 TATGGATTGATTTATTTT--A-AA---A-TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
779829 TA--GATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
779859 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
**
779891 TATGGATTGATTTATTTTAAA-ATATGGATT-G
1 TATGGATTGATTTATTTTAAATA-ATTTATTAG
** * * *
779922 -ATTTATT-ATTGTAGTTGTATGGATTGATTTATT--
1 TATGGATTGATT-TA-TT-T-T-AAATAATTTATTAG
* * * * * * *
779955 T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATT--T-T-AAATAATTTA--TT--AG
* *
779993 TATGTATTGATTTA--TT--AT--TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAATTTA-TTAG
780019 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
**
780051 TATATATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
780073 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
780105 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
780127 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
780159 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
780191 TATGGATTGATTTATTTTAAAATATGAATTGATT--
1 TATGGATTGATTTATTTT--AA-AT-AATTTATTAG
* * * * *
780225 TAT-TATTGTAGTTGTATTGATTGAATTATTT-TAAA
1 TATGGATTG-A-TT-TATT--TTAAATAATTTATTAG
** ** * ** * * *
780260 TAATTTATTAGTATGGA-TTGATTTATTTTA-AAA
1 T-ATGGATT-G-ATTTATTTTAAATAATTTATTAG
780293 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
780325 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
780357 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
780378 ATATGGATTG
Statistics
Matches: 1093, Mismatches: 141, Indels: 390
0.67 0.09 0.24
Matches are distributed among these distances:
22 107 0.10
23 23 0.02
24 7 0.01
25 14 0.01
26 61 0.06
27 3 0.00
28 38 0.03
29 29 0.03
30 44 0.04
31 51 0.05
32 493 0.45
33 49 0.04
34 36 0.03
35 19 0.02
36 53 0.05
37 11 0.01
38 17 0.02
39 6 0.01
40 28 0.03
41 2 0.00
42 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:778974 original size:22 final size:22
Alignment explanation
Indices: 778949--778991 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
778939 AATTTATTAG
778949 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
778971 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
778992 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:779028 original size:22 final size:22
Alignment explanation
Indices: 779003--779045 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
778993 AATTTATTAG
779003 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
779025 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
779046 TAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:779155 original size:18 final size:18
Alignment explanation
Indices: 779132--779179 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
779122 ATTTTAAATA
*
779132 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
779150 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
779172 ATTTATTA
1 ATTTATTA
779180 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:779246 original size:22 final size:22
Alignment explanation
Indices: 779221--779263 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
779211 AATTTATTAG
779221 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
779243 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
779264 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:779246 original size:80 final size:80
Alignment explanation
Indices: 778872--780125 Score: 1144
Period size: 80 Copynumber: 15.2 Consensus size: 80
778862 TTTTAAAATA
* *
778872 ATTTATTTAAAATAATTTATTATTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--
778937 ATAATTTATTAGTATGGATTG
63 AT--TTTATT-GTATGGATTG
* * *
778958 ATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA
***
779013 TTTATTTTAAAATATGGATTG
60 TTTATTTTATTGTATGGATTG
*
779034 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
*
779098 GTAGTTGTATGGATTGATTG
66 TTA-TTGTAT-G---GATTG
779118 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
*
779182 GTAGTTGTATGGATTG
66 TTA-TTGTATGGATTG
779198 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--
779263 ATAATTTATTAGTATGGATTG
63 AT--TTTATT-GTATGGATTG
* * * *
779284 ATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTTAAATAAAATATTTGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAAAATA--TGGATTGATTTA
***
779349 TTTATTTTAAAATATGGATTG
60 TTTATTTTATTGTATGGATTG
* * * *
779370 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTA
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTT
***
779428 ATTTATTTTAAAATATGGATTG
59 ATTTATTTTATTGTATGGATTG
* * * * *
779450 ATTTA--TT--AT--TGTAGTT-GTATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTC
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTT
*** ***
779508 ATTTATTTTAAAATACAAATTG
59 ATTTATTTTATTGTATGGATTG
* * *
779530 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATACGAATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--
*
779595 ATAATTTATTAGTATGTATTG
63 AT--TTTATT-GTATGGATTG
* *
779616 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
* *
779680 GTAGTTGTATTGATTG
66 TTA-TTGTATGGATTG
* * * *
779696 AATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA
***
779761 TTTATTTTAAAATATGGATTG
60 TTTATTTTATTGTATGGATTG
*
779782 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--
779847 ATAATTTATTAGTATGGATTG
63 AT--TTTATT-GTATGGATTG
*
779868 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
*
779932 GTAGTTGTATGGATTG
66 TTA-TTGTATGGATTG
*
779948 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGTATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
*
780012 GTAGTTGTATGGATTG
66 TTA-TTGTATGGATTG
**
780028 ATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--
780093 ATAATTTATTTGTATGGATTG
63 AT--TTTA-TTGTATGGATTG
780114 ATTTATTTTAAA
1 ATTTATTTTAAA
780126 ATATGGATTG
Statistics
Matches: 1015, Mismatches: 79, Indels: 148
0.82 0.06 0.12
Matches are distributed among these distances:
76 33 0.03
77 12 0.01
78 4 0.00
79 15 0.01
80 422 0.42
81 21 0.02
82 31 0.03
83 6 0.01
84 98 0.10
85 21 0.02
86 317 0.31
87 14 0.01
89 2 0.00
90 7 0.01
91 3 0.00
92 9 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
TTATTGTATGGATTG
Found at i:779435 original size:22 final size:23
Alignment explanation
Indices: 779410--779483 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
779400 ATTTTAAATA
779410 ATTTAT-TAGTATGGATTAATTT
1 ATTTATATAGTATGGATTAATTT
* * *
779432 ATTT-TAAAATATGGATTGATTT
1 ATTTATATAGTATGGATTAATTT
* *
779454 ATTATTGTAGTTGTATGGATTAATTT
1 A-T-TTATA-TAGTATGGATTAATTT
779480 ATTT
1 ATTT
779484 TAAATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 1 0.03
22 18 0.45
23 1 0.03
24 4 0.10
25 3 0.08
26 13 0.32
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (23 bp):
ATTTATATAGTATGGATTAATTT
Found at i:779776 original size:22 final size:22
Alignment explanation
Indices: 779751--779793 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
779741 AATTTATTAG
779751 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
779773 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
779794 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:780130 original size:22 final size:22
Alignment explanation
Indices: 780105--780147 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
780095 AATTTATTTG
780105 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
780127 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
780148 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:780296 original size:22 final size:22
Alignment explanation
Indices: 780271--780313 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
780261 AATTTATTAG
780271 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
780293 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
780314 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:780408 original size:300 final size:302
Alignment explanation
Indices: 779691--780423 Score: 1202
Period size: 300 Copynumber: 2.4 Consensus size: 302
779681 TAGTTGTATT
*
779691 GATTGAATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
779756 ATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
66 ATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATTTATT-GTATGGATTGATTTATT
779821 TTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTT
127 TTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTT
* *
779886 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATT
192 ATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGAAT
779951 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
257 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* * *
779997 TATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATA
1 GATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
*
780055 TATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTAT
65 GATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATTTA-TTGTATGGATTGATTTAT
*
780120 TTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATT
126 TTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATT
*
780185 TATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATTGATTGAA
191 TATTTGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGAA
780250 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
256 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
*
780297 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
780362 ATTGATTTATTTTAAAATATGGATTGATTTA-TT-AT-TTTAGTTGTATGGATTGA--TATTTTA
66 ATTGATTTATTTTAAAATATGGATTGATTTATTTAATATTTA-TTGTATGGATTGATTTATTTTA
780422 AA
130 AA
780424 TAATTTATTA
Statistics
Matches: 403, Mismatches: 15, Indels: 26
0.91 0.03 0.06
Matches are distributed among these distances:
298 9 0.02
300 299 0.74
301 4 0.01
302 6 0.01
304 6 0.01
305 2 0.00
306 77 0.19
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (302 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGG
ATTGATTTATTTTAAAATATGGATTGATTTATTTAATATTTATTGTATGGATTGATTTATTTTAA
AATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTT
GTATGGATTGATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATGGATTGAATTATT
TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
Found at i:780460 original size:22 final size:22
Alignment explanation
Indices: 780435--780477 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
780425 AATTTATTAG
780435 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
780457 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
780478 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:780512 original size:166 final size:165
Alignment explanation
Indices: 780073--780487 Score: 769
Period size: 166 Copynumber: 2.5 Consensus size: 165
780063 TATTTTAAAA
*
780073 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGA-TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
780138 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
65 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
780203 TATTTTAAAATATGAATTGATTTATTATTGTAGTTG
130 TATTTTAAAATATGAATTGATTTATTATTGTAGTTG
*
780239 TATTGATTGAATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTG-ATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
780304 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
65 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATT
* *
780369 TATTTTAAAATATGGATTGATTTATTATTTTAGTTG
130 TATTTTAAAATATGAATTGATTTATTATTGTAGTTG
780405 TATGGATTGA-TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
1 TATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
780469 TATTTTAAATAATTTATTA
66 TATTTTAAATAATTTATTA
780488 TTGTAGTTGT
Statistics
Matches: 243, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
164 73 0.30
165 1 0.00
166 168 0.69
167 1 0.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (165 bp):
TATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTT
ATTTTAAAATATGAATTGATTTATTATTGTAGTTG
Found at i:780512 original size:552 final size:555
Alignment explanation
Indices: 778917--780512 Score: 2171
Period size: 552 Copynumber: 2.9 Consensus size: 555
778907 TATTTTAAAA
778917 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
778982 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
*
779047 AATTTATTTGTATGGATTGATTTATTTT--A-AA---A----TATGGATTG----A-TTT---AT
131 AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAAT
* * *
779094 -T--ATTG---TA--GTTGTA--TGGATTGATTGATTTATTTTAAATAATTTATTAGTATGGATT
196 ATGAATTGATTTATTATTGTAGTTGTATTGATTGAATTATTTTAAATAATTTATTAGTATGGATT
*
779149 GATTTATTTTAAAATATGGATTGATTTA-TT-AT-TGTAGTT-GTATGGATTGATTTATTTTAAA
261 GATTTATTTTAAAATATGGATTGATTTATTTAATATTTA-TTAGTATGGATTGATTTATTTTAAA
779210 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
325 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATTTATTAG
*
779275 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTTAAATAAAATATTTGT
387 TATGGATTGA-TTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---T-AAA-A----T
779340 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
441 ATGGATTGATTTATTTT--AA-AT--A---ATTTATTATTGTAGTTGTAT-G---GATTTATTTT
779405 AAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
494 AAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
* * ***
779467 TATGGATTAATTTATTTTAAATAATTTATTAGTATGGATTCATTTATTTTAAAATACAAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* * *
779532 TTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATACGAATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
*
779597 AATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAAT
131 AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAAT
779662 ATGAATTGATTTATTATTGTAGTTGTATTGATTGAATTATTTTAAATAATTTATTAGTATGGATT
196 ATGAATTGATTTATTATTGTAGTTGTATTGATTGAATTATTTTAAATAATTTATTAGTATGGATT
* * * * *
779727 GATTTATTTTAAATAATTTATTAGTATGGATTGATTT-AT-TTTA-AAATATGGATTGATTTATT
261 GATTTATTTT-AA-AA--TA-T-GGATTGATTTATTTAATATTTATTAGTATGGATTGATTTATT
*
779789 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTT
320 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATTT
*
779854 ATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGA
382 ATTAGTATGGATTGA-TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGA
* * * *
779919 TTGATTTA--TT--AT--TGTA--GTTGTA--TGGATTGATTTATTTTAAATAATTTATTAGTAT
446 TTGATTTATTTTAAATAATTTATTATTGTAGTTGTATGGATTTATTTTAAATAATTTATTAGTAT
* *
779974 GGATTGATTTATTTTAAAATATGTATTGATTTATTATTGTAGTTG
511 GGATTAATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
**
780019 TATGGATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
780084 TTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
780149 AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAAT
131 AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAAT
780214 ATGAATTGATTTATTATTGTAGTTGTATTGATTGAATTATTTTAAATAATTTATTAGTATGGATT
196 ATGAATTGATTTATTATTGTAGTTGTATTGATTGAATTATTTTAAATAATTTATTAGTATGGATT
780279 GATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
261 GATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATTTATTAGTATGGATTGATTTATTTTA
*
780344 AATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TT-AT-TTTAGTT-G
323 AATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAATATTTA-TTAG
780405 TATGGATTGA-TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
387 TATGGATTGATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATT
780469 TATTTTAAATAATTTATTATTGTAGTTGTATGGA-TTA-TTTAAAT
452 TATTTTAAATAATTTATTATTGTAGTTGTATGGATTTATTTTAAAT
780513 TTCAGTATTG
Statistics
Matches: 941, Mismatches: 52, Indels: 104
0.86 0.05 0.09
Matches are distributed among these distances:
544 55 0.06
546 25 0.03
547 6 0.01
548 6 0.01
549 2 0.00
550 155 0.16
551 6 0.01
552 408 0.43
553 5 0.01
554 6 0.01
556 5 0.01
558 5 0.01
560 12 0.01
564 1 0.00
565 3 0.00
567 2 0.00
568 2 0.00
569 1 0.00
571 4 0.00
572 2 0.00
574 16 0.02
576 5 0.01
578 51 0.05
579 5 0.01
580 3 0.00
582 2 0.00
583 4 0.00
584 137 0.15
585 7 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (555 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
AATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAAT
ATGAATTGATTTATTATTGTAGTTGTATTGATTGAATTATTTTAAATAATTTATTAGTATGGATT
GATTTATTTTAAAATATGGATTGATTTATTTAATATTTATTAGTATGGATTGATTTATTTTAAAT
AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAATATTTATTAGTATG
GATTGATTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
TTAAATAATTTATTATTGTAGTTGTATGGATTTATTTTAAATAATTTATTAGTATGGATTAATTT
ATTTTAAAATATGGATTGATTTATTATTGTAGTTG
Found at i:780537 original size:31 final size:31
Alignment explanation
Indices: 780502--780560 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
780492 AGTTGTATGG
* * *
780502 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAATATTGCAAAACTAAA
780533 ATTATTTAAATCTCAATATTGCAAAACT
1 ATTATTTAAATCTCAATATTGCAAAACT
780561 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAATATTGCAAAACTAAA
Found at i:784605 original size:95 final size:95
Alignment explanation
Indices: 784441--784622 Score: 314
Period size: 95 Copynumber: 1.9 Consensus size: 95
784431 ATATTATTTA
*
784441 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACTCCCCGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACTCCCCGGCTTTATGGATAAG
784506 ATTCAGCTAACCTGATAAAGGTGATTATAC
66 ATTCAGCTAACCTGATAAAGGTGATTATAC
*
784536 TATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAA-TGCCCTGGCTTTATGGATA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAACT-CCCCGGCTTTATGGATA
784599 AGATTCAGCTAACCTGATAAAGGT
64 AGATTCAGCTAACCTGATAAAGGT
784623 CTTTACATAT
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
94 2 0.02
95 81 0.98
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACTCCCCGGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:786490 original size:36 final size:36
Alignment explanation
Indices: 786439--786521 Score: 148
Period size: 36 Copynumber: 2.3 Consensus size: 36
786429 ATTGACCCAA
*
786439 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
*
786475 CTTGAAACAATTTTTGTCTCTCTTGAGACAATTTCC
1 CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
786511 CTTGAAACAAA
1 CTTGAAACAAA
786522 ATCTTTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (36 bp):
CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCC
Found at i:786506 original size:21 final size:21
Alignment explanation
Indices: 786439--786508 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
786429 ATTGACCCAA
*
786439 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAATTTTTGTCTCT
* *
786460 CTTGAGAC-A--GTT-TC-C-
1 CTTGAAACAATTTTTGTCTCT
786475 CTTGAAACAATTTTTGTCTCT
1 CTTGAAACAATTTTTGTCTCT
*
786496 CTTGAGACAATTT
1 CTTGAAACAATTT
786509 CCCTTGAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
15 7 0.18
16 2 0.05
17 2 0.05
18 4 0.11
19 2 0.05
20 2 0.05
21 19 0.50
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (21 bp):
CTTGAAACAATTTTTGTCTCT
Found at i:788336 original size:16 final size:15
Alignment explanation
Indices: 788292--788336 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
788282 AGCAGTTTCT
788292 TTTCATTTATTTATTA
1 TTTCATTT-TTTATTA
* *
788308 TTACTTTTTTTATTA
1 TTTCATTTTTTATTA
788323 TTTCATTTTCTTAT
1 TTTCATTTT-TTAT
788337 CTATATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCATTTTTTATTA
Found at i:788369 original size:2 final size:2
Alignment explanation
Indices: 788364--788484 Score: 60
Period size: 2 Copynumber: 62.5 Consensus size: 2
788354 CTTTTATCGT
* *
788364 TA TA TA TA TA TA TA TA TA TA TA CA T- TA TA CT- TA T- TA TT TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A
** * * *
788405 T- TA CC TT TA TG TA TA T- TA TA TA TA TA TA TA TA T- TA CT- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
788444 TT TT TA T- TA TT TCA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
788485 TATTTCCATT
Statistics
Matches: 93, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
1 8 0.09
2 81 0.87
3 4 0.04
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:788770 original size:19 final size:19
Alignment explanation
Indices: 788748--788793 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
788738 CTTATCATTA
* *
788748 TTATTTTTTCTCATTTTAT
1 TTATTTTTACTCATCTTAT
788767 TTA-TTTTACTCATCTTAT
1 TTATTTTTACTCATCTTAT
*
788785 TCATTTTTA
1 TTATTTTTA
788794 TCTTGGCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTTACTCATCTTAT
Found at i:791015 original size:17 final size:18
Alignment explanation
Indices: 790993--791026 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
790983 ATCATATTAG
790993 TTTTTT-TATAATTTGAC
1 TTTTTTCTATAATTTGAC
*
791010 TTTTTTCTATACTTTGA
1 TTTTTTCTATAATTTGA
791027 GCTCAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTTTCTATAATTTGAC
Found at i:791823 original size:13 final size:14
Alignment explanation
Indices: 791805--791834 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
791795 AGTTGGACAA
791805 TCTTCATATGCA-G
1 TCTTCATATGCACG
791818 TCTTCATATGCACG
1 TCTTCATATGCACG
791832 TCT
1 TCT
791835 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (14 bp):
TCTTCATATGCACG
Found at i:793631 original size:19 final size:18
Alignment explanation
Indices: 793608--793662 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
793598 TACATATTAT
793608 TATTTTTTGTTATTTTTA
1 TATTTTTTGTTATTTTTA
* *
793626 TAATTTTGTTTTTTTTTTTA
1 T-ATTTT-TTGTTATTTTTA
*
793646 CTTTTTTTTGTTATTTT
1 -TATTTTTTGTTATTTT
793663 CTTTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.45
20 14 0.48
21 1 0.03
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.80
Consensus pattern (18 bp):
TATTTTTTGTTATTTTTA
Found at i:793654 original size:17 final size:18
Alignment explanation
Indices: 793610--793668 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
793600 CATATTATTA
* *
793610 TTTTTTGTTATTTTTATAA
1 TTTTTT-TTATTTTTTTAC
793629 TTTTGTTTT-TTTTTTTAC
1 TTTT-TTTTATTTTTTTAC
* *
793647 TTTTTTTTGTTATTTT-C
1 TTTTTTTTATTTTTTTAC
793664 TTTTT
1 TTTTT
793669 CTTTTCCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 10 0.29
18 17 0.49
19 6 0.17
20 2 0.06
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTTTTATTTTTTTAC
Found at i:793673 original size:22 final size:22
Alignment explanation
Indices: 793629--793673 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
793619 ATTTTTATAA
793629 TTTTGTTTTTTTTTTTACTTTT
1 TTTTGTTTTTTTTTTTACTTTT
793651 TTTTGTTATTTTCTTTTT-CTTTT
1 TTTTGTT-TTTT-TTTTTACTTTT
793674 CCTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 9 0.43
24 5 0.24
ACGTcount: A:0.04, C:0.07, G:0.04, T:0.84
Consensus pattern (22 bp):
TTTTGTTTTTTTTTTTACTTTT
Found at i:801258 original size:82 final size:82
Alignment explanation
Indices: 801121--801285 Score: 267
Period size: 82 Copynumber: 2.0 Consensus size: 82
801111 CATTTTTACA
* * * * *
801121 TTTTAGCTTTTCGAAGATACTATCTAGCATGATTTTAAAGACTCGTGTCAAAACAAACACTTGTT
1 TTTTAGCTGTTAGAAGATACTATCTAGCAAGATTTTAAAGACTCCTGTCAAAACAAACACCTGTT
801186 AAACATGTTAATCTGCT
66 AAACATGTTAATCTGCT
*
801203 TTTTAGCTGTTAGAAGATACTATCTAGCAAGATTTTAAAGACTCCTGTCAAAACAATCACCTGTT
1 TTTTAGCTGTTAGAAGATACTATCTAGCAAGATTTTAAAGACTCCTGTCAAAACAAACACCTGTT
*
801268 AAATATGTTAATCTGCT
66 AAACATGTTAATCTGCT
801285 T
1 T
801286 CAACATGGAC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.36
Consensus pattern (82 bp):
TTTTAGCTGTTAGAAGATACTATCTAGCAAGATTTTAAAGACTCCTGTCAAAACAAACACCTGTT
AAACATGTTAATCTGCT
Found at i:803986 original size:29 final size:29
Alignment explanation
Indices: 803892--803978 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
803882 ACCATTATGA
* *
803892 GGTTTTATACCCAACTTAATTAAGAAATA
1 GGTTTTATCCCCAACTTAATTAAGAAATT
803921 GGTTTTATCCCCAACTTAATTAAGAAATT
1 GGTTTTATCCCCAACTTAATTAAGAAATT
803950 GGTTTTATCCCCAACTTAATTAAGAAATT
1 GGTTTTATCCCCAACTTAATTAAGAAATT
803979 TCTTTTATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (29 bp):
GGTTTTATCCCCAACTTAATTAAGAAATT
Found at i:805135 original size:2 final size:2
Alignment explanation
Indices: 805128--805156 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
805118 AAAAGAGTGT
805128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
805157 TACTTTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:806868 original size:16 final size:18
Alignment explanation
Indices: 806847--806887 Score: 68
Period size: 16 Copynumber: 2.4 Consensus size: 18
806837 GAAATTGGCT
806847 TTTATTTAATA-T-TTTA
1 TTTATTTAATATTATTTA
806863 TTTATTTAATATTATTTA
1 TTTATTTAATATTATTTA
806881 TTTATTT
1 TTTATTT
806888 TCTAAATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.48
17 1 0.04
18 11 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATATTATTTA
Found at i:812745 original size:35 final size:35
Alignment explanation
Indices: 812669--812746 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
812659 AATGGTAATA
* * * *
812669 AACAAAATTAACCAAAATACATTAACAAAAAGTCC
1 AACAAATTTAACAAAAATAAATTAACAAAAAGTAC
812704 AACAAATTTAACAAAAATAAATTAA-AATAAA-TAC
1 AACAAATTTAACAAAAATAAATTAACAA-AAAGTAC
812738 AACCAAATT
1 AA-CAAATT
812747 AATGAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.16
35 31 0.84
ACGTcount: A:0.63, C:0.15, G:0.01, T:0.21
Consensus pattern (35 bp):
AACAAATTTAACAAAAATAAATTAACAAAAAGTAC
Found at i:816867 original size:19 final size:19
Alignment explanation
Indices: 816839--816880 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
816829 AAAACCAGAA
*
816839 CCCC-AGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
816857 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGATT
816876 CCCCT
1 CCCCT
816881 TCAAAGGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.14, C:0.33, G:0.31, T:0.21
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:821016 original size:117 final size:116
Alignment explanation
Indices: 820799--821017 Score: 282
Period size: 117 Copynumber: 1.9 Consensus size: 116
820789 CTTTTAAATC
*
820799 AAATTTTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTTCAT
1 AAATTTTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCAT
* *
820864 TTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTAGTTTAATTTGA
66 TTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTAGTTTAATTTGA
* * * *
820915 AAATTTATTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACTCCTT-TCTCAACATTT
1 AAATTT-TTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACATTT
* * **
820978 CATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
63 CATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
821018 ATTATTTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
116 8 0.09
117 76 0.86
118 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (116 bp):
AAATTTTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCAT
TTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTAGTTTAATTTGA
Found at i:823769 original size:17 final size:18
Alignment explanation
Indices: 823740--823787 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
823730 GCAAAAAAAA
*
823740 TTAATTAAA-TAAAATA-
1 TTAAATAAATTAAAATAC
*
823756 TTAAA-AAATTTAAATAC
1 TTAAATAAATTAAAATAC
823773 TTAAATAAATTAAAA
1 TTAAATAAATTAAAA
823788 ACAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 5 0.19
18 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATAAATTAAAATAC
Found at i:824319 original size:17 final size:18
Alignment explanation
Indices: 824288--824327 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
824278 AAATTATAAA
824288 ATATTAAATTTAAAATTT
1 ATATTAAATTTAAAATTT
*
824306 TTATTAAA-TTAAAATTT
1 ATATTAAATTTAAAATTT
824323 ATATT
1 ATATT
824328 TTGATCTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTAAATTTAAAATTT
Found at i:828236 original size:19 final size:19
Alignment explanation
Indices: 828199--828249 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
828189 TTTACATTCT
*
828199 TTTTTTTTATTGAATTTTA-A
1 TTTTTTTT-TT-AACTTTACA
828219 TATTTTTTTTTAACTTTACA
1 T-TTTTTTTTTAACTTTACA
*
828239 TTCTTTTTTTA
1 TTTTTTTTTTA
828250 TTGAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 15 0.56
20 5 0.19
21 7 0.26
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTTTTTAACTTTACA
Found at i:828262 original size:21 final size:21
Alignment explanation
Indices: 828200--828262 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
828190 TTACATTCTT
* *
828200 TTTTTTTATTGAATTTTAATA
1 TTTTTTTATTGAATTTTATTC
*
828221 TTTTTTT-TT-AACTTTACATTC
1 TTTTTTTATTGAA-TTT-TATTC
828242 TTTTTTTATTGAATTTTATTC
1 TTTTTTTATTGAATTTTATTC
828263 ACTTTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 20 0.59
22 5 0.15
23 2 0.06
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTTTATTGAATTTTATTC
Found at i:831286 original size:18 final size:19
Alignment explanation
Indices: 831263--831315 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
831253 TAGATCGGAT
*
831263 ATTTAAATATAAACTTT-A
1 ATTTAAATATAAAATTTAA
831281 ATTT-AATA-AAAATTTCAA
1 ATTTAAATATAAAATTT-AA
*
831299 ATTTAAATATAATATTT
1 ATTTAAATATAAAATTT
831316 TATAACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 9 0.31
19 4 0.14
20 6 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATATAAAATTTAA
Found at i:833460 original size:4 final size:4
Alignment explanation
Indices: 833418--833442 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
833408 TAAAATATGA
833418 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
833443 AATAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:834643 original size:21 final size:21
Alignment explanation
Indices: 834614--834667 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
834604 AATATGTAAA
* *
834614 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATATTCCAAAT
834635 TCGCGTTGCGATATTCCAAAT
1 TCGCGTTGCGATATTCCAAAT
834656 TCGCGTTGCGAT
1 TCGCGTTGCGAT
834668 GTCAAATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATATTCCAAAT
Found at i:834675 original size:19 final size:21
Alignment explanation
Indices: 834614--834698 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 21
834604 AATATGTAAA
* **
834614 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATAGTCCAAAT
*
834635 TCGCGTTGCGATATTCCAAAT
1 TCGCGTTGCGATAGTCCAAAT
834656 TCGCGTTGCGAT-GT-CAAAT
1 TCGCGTTGCGATAGTCCAAAT
* ***
834675 TCTCAACGCGATAGT-CAAAT
1 TCGCGTTGCGATAGTCCAAAT
834695 TCGC
1 TCGC
834699 AACACGATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 13 0.24
20 11 0.20
21 31 0.56
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAAT
Found at i:834733 original size:19 final size:20
Alignment explanation
Indices: 834669--834759 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
834659 CGTTGCGATG
* *
834669 TCAAATTCTCAACGCG-ATAG
1 TCAAATTCGCAACGCGAAT-T
* *
834689 TCAAATTCGCAACACG-ATAG
1 TCAAATTCGCAACGCGAAT-T
*
834709 TCAAATTCGCAAC-TGAATT
1 TCAAATTCGCAACGCGAATT
834728 TCAAATTCGCAACGCGAATT
1 TCAAATTCGCAACGCGAATT
*
834748 T-AATTTCGCAAC
1 TCAAATTCGCAAC
834760 AGGTTTTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
19 24 0.38
20 39 0.62
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (20 bp):
TCAAATTCGCAACGCGAATT
Found at i:834748 original size:20 final size:20
Alignment explanation
Indices: 834663--834744 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
834653 AATTCGCGTT
*
834663 GCGAT-GTCAAATTCTCAAC
1 GCGATAGTCAAATTCGCAAC
834682 GCGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
*
834702 ACGATAGTCAAATTCGCAAC
1 GCGATAGTCAAATTCGCAAC
* *
834722 -TGA-ATTTCAAATTCGCAAC
1 GCGATA-GTCAAATTCGCAAC
834741 GCGA
1 GCGA
834745 ATTTAATTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.02
19 20 0.36
20 34 0.62
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
GCGATAGTCAAATTCGCAAC
Found at i:835527 original size:12 final size:12
Alignment explanation
Indices: 835506--835539 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
835496 ACCACATTTC
*
835506 CAATACCAAACA
1 CAATATCAAACA
835518 CAATATCAAACA
1 CAATATCAAACA
*
835530 CAATCTCAAA
1 CAATATCAAA
835540 ACCCACATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:835692 original size:24 final size:24
Alignment explanation
Indices: 835665--835718 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
835655 GTATTCGAAA
*
835665 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* *
835689 TTTGATCTTGATCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
835713 TTTGAT
1 TTTGAT
835719 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:837524 original size:18 final size:18
Alignment explanation
Indices: 837501--837536 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
837491 AAGCAAAAGG
*
837501 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
837519 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
837537 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:837878 original size:20 final size:20
Alignment explanation
Indices: 837853--837894 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
837843 CGCGAAATAA
837853 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
837873 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
837893 GC
1 GC
837895 AACGCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTATC
Found at i:838725 original size:39 final size:39
Alignment explanation
Indices: 838682--838770 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
838672 TCCGATGCTC
838682 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
838721 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
838760 ATCAAAATCTA
1 ATCAAAATCTA
838771 CAACTTGAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (39 bp):
ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:839065 original size:20 final size:20
Alignment explanation
Indices: 839040--839097 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
839030 GCAAAGCTTA
*
839040 TTTCGCGTTGTGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
839060 TTTCGCGTTGCAAATTTAAC
1 TTTCGCGTTGCGAATTTGAC
839080 TTTCGCGTTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
839098 TACCTTCAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:841360 original size:13 final size:13
Alignment explanation
Indices: 841339--841370 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
841329 GGGTTTCTTC
*
841339 AACATAAAGACAA
1 AACAAAAAGACAA
841352 AACAAAAAGACAA
1 AACAAAAAGACAA
841365 AACAAA
1 AACAAA
841371 GACAATTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.16, G:0.06, T:0.03
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:841619 original size:22 final size:22
Alignment explanation
Indices: 841584--841634 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
841574 GATGGAGATA
841584 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
* * *
841606 GATGGATTTTGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
841628 GACGGAT
1 GACGGAT
841635 ATCGCCGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.43, T:0.25
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:841787 original size:20 final size:20
Alignment explanation
Indices: 841762--841823 Score: 97
Period size: 20 Copynumber: 3.0 Consensus size: 20
841752 GCGTAAAAGT
*
841762 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
841782 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
*
841802 ATTTGGAATATCGCGTTGCGA
1 ATTT-GACTATCGCGTTGCGA
841823 A
1 A
841824 ATTAGAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:841815 original size:21 final size:20
Alignment explanation
Indices: 841771--841823 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
841761 TATTTGACTT
*
841771 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGAATA
841791 TCGCGTTGCGAATTTGGAATA
1 TCGCGTTGCGAATTT-GAATA
841812 TCGCGTTGCGAA
1 TCGCGTTGCGAA
841824 ATTAGAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGAATA
Found at i:841866 original size:20 final size:21
Alignment explanation
Indices: 841816--841867 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
841806 GGAATATCGC
841816 GTTGCGAAATT-AGAAACTGG
1 GTTGCGAAATTGAGAAACTGG
*
841836 GTTGCAAAATTGA-AAACTGG
1 GTTGCGAAATTGAGAAACTGG
*
841856 GTTGCGGAATTG
1 GTTGCGAAATTG
841868 TAATTCGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.27
Consensus pattern (21 bp):
GTTGCGAAATTGAGAAACTGG
Found at i:843874 original size:2 final size:2
Alignment explanation
Indices: 843823--843854 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
843813 ACCATATACA
843823 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
843855 TCATATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:847229 original size:265 final size:256
Alignment explanation
Indices: 846759--847233 Score: 729
Period size: 265 Copynumber: 1.8 Consensus size: 256
846749 TTTTTATTAT
846759 TTCGGGTCGGGTCGGGTGAAACTTTATTTTTGTCAGGTCGGGTCGGTTTTTTTAAGTGTGATATT
1 TTCGGGTCGGGTCGGGTGAAACTTTATTTTTGTCAGGTCGGGTCGGTTTTTTTAAGTGTGATATT
* * *
846824 CGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCAACCCGAAAATATATATAATTTTACC
66 CGAGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCAACCCGAAAAAATATATAATTATACC
* *
846889 TTATATATTTAGGAATAATTACAATAATATCCCTCTATATATAATTTTTTTCAATTAAGTCACTG
131 TTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATG
846954 TTTCTATTGAATAAAAATAATTGTTTATTATTTCAGTCGGATCGAATTTCTAATTCATATA
196 TTTCTATTGAATAAAAATAATTGTTTATTATTTCAGTCGGATCGAATTTCTAATTCATATA
* *
847015 TTCGGGTCGGGTCGGGTGAAACTTTATTTTTTTCGGGTCGGGTCTGG-TTTTTTAAGTGTGATAT
1 TTCGGGTCGGGTCGGGTGAAACTTTATTTTTGTCAGGTCGGGTC-GGTTTTTTTAAGTGTGATA-
*
847079 TTGGGTCGAGTCGGGTCGGGTTCGGGTTTAGGGTGAAAAA-ACCGGACCAGACCCGAAAAAATAT
64 -T---TCGAGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATA-C---CCA-ACCCGAAAAAATAT
* *
847143 ATAATTATACCTTATATATTTAGGAATAATTATAATAATACCCCTCTCTATATAATTTTTTTCAA
120 ATAATTATACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAA
* *
847208 TTAAGTCAATTTTTTTATTGAATAAA
185 TTAAGTCAATGTTTCTATTGAATAAA
847234 TTTTTTATTA
Statistics
Matches: 196, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
256 58 0.30
257 2 0.01
258 1 0.01
260 1 0.01
261 34 0.17
264 3 0.02
265 97 0.49
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (256 bp):
TTCGGGTCGGGTCGGGTGAAACTTTATTTTTGTCAGGTCGGGTCGGTTTTTTTAAGTGTGATATT
CGAGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCAACCCGAAAAAATATATAATTATACC
TTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCAATG
TTTCTATTGAATAAAAATAATTGTTTATTATTTCAGTCGGATCGAATTTCTAATTCATATA
Found at i:847657 original size:43 final size:43
Alignment explanation
Indices: 847600--847682 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
847590 ATCTGACATG
*
847600 TCTGCGAACAAAACAGAATATGGAATTGGATTCCAATTCCATT
1 TCTGCCAACAAAACAGAATATGGAATTGGATTCCAATTCCATT
* *
847643 TCTGCCAACCAAACAGAATATGGAATTGGATTTCAATTCC
1 TCTGCCAACAAAACAGAATATGGAATTGGATTCCAATTCC
847683 TGACAGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (43 bp):
TCTGCCAACAAAACAGAATATGGAATTGGATTCCAATTCCATT
Found at i:847693 original size:17 final size:18
Alignment explanation
Indices: 847671--847716 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
847661 TATGGAATTG
*
847671 GATTTCAATTCC-TGACA
1 GATTTCAATTCCTTCACA
847688 GATTTCAATTCCTTCACA
1 GATTTCAATTCCTTCACA
*
847706 GATTTTAATTC
1 GATTTCAATTC
847717 TCTAAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (18 bp):
GATTTCAATTCCTTCACA
Found at i:848519 original size:20 final size:20
Alignment explanation
Indices: 848460--848519 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
848450 GCAATTTTCC
848460 TAAATCGCAATGCGATTAC-G
1 TAAATCGCAATGCGATT-CTG
*
848480 TAAATCGCAATGCGAATCTG
1 TAAATCGCAATGCGATTCTG
* *
848500 TAAATCGCAAAGAGATTCTG
1 TAAATCGCAATGCGATTCTG
848520 ACTATCGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (20 bp):
TAAATCGCAATGCGATTCTG
Found at i:848999 original size:20 final size:20
Alignment explanation
Indices: 848974--849062 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
848964 CAACGCGGAA
848974 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
848994 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* * *
849014 ATCACAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
849034 ATCGCAGCGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
849054 ATCGCAACG
1 ATCGCAACG
849063 AGAGAATCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 55 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:849095 original size:19 final size:19
Alignment explanation
Indices: 849067--849173 Score: 125
Period size: 19 Copynumber: 5.8 Consensus size: 19
849057 GCAACGAGAG
*
849067 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
849086 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
849105 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
849124 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
*
849138 AATCGGAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
849158 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
849174 TAGTTTCGCG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
14 7 0.09
16 5 0.07
17 2 0.03
18 3 0.04
19 47 0.64
20 10 0.14
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:849123 original size:38 final size:35
Alignment explanation
Indices: 849045--849173 Score: 122
Period size: 38 Copynumber: 3.7 Consensus size: 35
849035 TCGCAGCGCG
** * *
849045 GAAATGACTATCGCAA-CGAGA-GAATCACAATGC
1 GAAATGAAAATCGCAAGCGAAATGAATCGCAATGC
*
849078 GAAATGAAAATCGTAATGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAA-GCGAAATG--AATCGCAATGC
* *
849116 GAAATGAAAATCGCAA-CG-AGTGAATCGGAATGC
1 GAAATGAAAATCGCAAGCGAAATGAATCGCAATGC
849149 GAAAATGAAAATCGCAACGCGAAAT
1 G-AAATGAAAATCGCAA-GCGAAAT
849174 TAGTTTCGCG
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
33 24 0.31
34 15 0.19
35 7 0.09
36 5 0.06
37 2 0.03
38 25 0.32
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (35 bp):
GAAATGAAAATCGCAAGCGAAATGAATCGCAATGC
Found at i:849202 original size:20 final size:20
Alignment explanation
Indices: 849177--849278 Score: 86
Period size: 20 Copynumber: 5.8 Consensus size: 20
849167 GCGAAATTAG
*
849177 TTTCGCGTTGCGATTTTCAT
1 TTTCGCATTGCGATTTTCAT
849197 TTTCGCATTGCGA--TTCA-
1 TTTCGCATTGCGATTTTCAT
*
849214 -CTCG--TTGCGATTTTCAT
1 TTTCGCATTGCGATTTTCAT
849231 TTTCGCATTGCGA--TTCA-
1 TTTCGCATTGCGATTTTCAT
*
849248 -CTCG--TTGCGATTTTCA-
1 TTTCGCATTGCGATTTTCAT
849264 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
849279 CTCTCATTGC
Statistics
Matches: 66, Mismatches: 5, Indels: 23
0.70 0.05 0.24
Matches are distributed among these distances:
14 12 0.18
16 14 0.21
17 3 0.05
18 11 0.17
19 8 0.12
20 18 0.27
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.45
Consensus pattern (20 bp):
TTTCGCATTGCGATTTTCAT
Found at i:849273 original size:33 final size:34
Alignment explanation
Indices: 849182--849311 Score: 199
Period size: 34 Copynumber: 3.9 Consensus size: 34
849172 ATTAGTTTCG
849182 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
849216 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
849250 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* ** * *
849283 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
849312 AGTCTGTTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
33 29 0.33
34 60 0.67
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:849291 original size:67 final size:68
Alignment explanation
Indices: 849182--849311 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 68
849172 ATTAGTTTCG
* ** *
849182 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTTCGCATTGCGATTC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCATTGCGATAGTCATTTCCGCATTGCGATTC
849247 ACT
66 ACT
* *
849250 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCTCATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCATTGCGATAGTCATTTCCGCATTGCGAT
849312 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
67 42 0.75
68 14 0.25
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (68 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCATTGCGATAGTCATTTCCGCATTGCGATTC
ACT
Found at i:849496 original size:34 final size:34
Alignment explanation
Indices: 849453--849548 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
849443 ATTAGTTTCG
849453 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
849487 CGTTGCGATTTTCATTTT-GCATTACGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
849520 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
849549 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.52
34 26 0.48
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:849631 original size:237 final size:237
Alignment explanation
Indices: 849216--849656 Score: 846
Period size: 237 Copynumber: 1.9 Consensus size: 237
849206 GCGATTCACT
*
849216 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTACGATTCT
*
849281 CTCATTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCATATTGAA
66 CTCATTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAA
849346 ATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATT
131 ATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATT
849411 AAACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCG
196 AAACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCG
*
849453 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTTGCATTACGATTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTACGATTCT
*
849518 CTCGTTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAA
66 CTCATTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAA
849583 ATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATT
131 ATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATT
849648 AAACAAATC
196 AAACAAATC
849657 AACATTTACA
Statistics
Matches: 200, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
237 200 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (237 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTACGATTCT
CTCATTGCGATAGTCATTTCCGCGTTGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAA
ATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACAAATATTATGTACACATCAATT
AAACAAATCGAAAATGAAAATCGCAACGCGAAATTAGTTTCG
Found at i:849669 original size:14 final size:14
Alignment explanation
Indices: 849650--849686 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
849640 CATCAATTAA
849650 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
849664 ACAAATCATCTTTT
1 ACAAATCAACATTT
849678 ACAAATCAA
1 ACAAATCAA
849687 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:851647 original size:20 final size:20
Alignment explanation
Indices: 851624--851671 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
851614 AAACTTAAAT
851624 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* **
851644 TCGCAATGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
851664 TCGCAACG
1 TCGCAACG
851672 AGAGAATCGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:851741 original size:20 final size:20
Alignment explanation
Indices: 851716--851765 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
851706 GATTCTTTCG
851716 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
851736 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
851756 TTGCGATAGT
1 TTGCGATAGT
851766 AAACTATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:853668 original size:20 final size:20
Alignment explanation
Indices: 853645--853698 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
853635 GAAACTTTAA
*
853645 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
853665 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
853685 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
853699 TGAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:853747 original size:20 final size:20
Alignment explanation
Indices: 853722--853810 Score: 142
Period size: 20 Copynumber: 4.5 Consensus size: 20
853712 GCGATTCTCT
853722 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
853742 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
*
853762 CATTGCGATAGTCAAATTCC
1 CATTGCGATAGTCAAATTCG
**
853782 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCAAATTCG
*
853802 CTTTGCGAT
1 CATTGCGAT
853811 TCACTCGTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (20 bp):
CATTGCGATAGTCAAATTCG
Found at i:854422 original size:20 final size:21
Alignment explanation
Indices: 854399--854455 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
854389 CGATAGTCAG
*
854399 ATTCGCATTGTGATTTACGT-
1 ATTCGCATTGCGATTTACGTA
*
854419 ATTCGCATTGCGATTTATGTA
1 ATTCGCATTGCGATTTACGTA
854440 ATT-GCATTGCGATTTA
1 ATTCGCATTGCGATTTA
854456 GGAAAATCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACGTA
Found at i:854474 original size:21 final size:21
Alignment explanation
Indices: 854448--854494 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
854438 TAATTGCATT
854448 GCGATTTAGGAAAATCGCAAC
1 GCGATTTAGGAAAATCGCAAC
* * *
854469 GCGATTTTGGGAAATCGCAAT
1 GCGATTTAGGAAAATCGCAAC
854490 GCGAT
1 GCGAT
854495 AGTCAGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (21 bp):
GCGATTTAGGAAAATCGCAAC
Found at i:857919 original size:14 final size:15
Alignment explanation
Indices: 857892--857920 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
857882 GTTTCCCAGA
857892 TTTGATAAATTATAT
1 TTTGATAAATTATAT
857907 TTTGATAAA-TATAT
1 TTTGATAAATTATAT
857921 GTATTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TTTGATAAATTATAT
Found at i:858457 original size:13 final size:13
Alignment explanation
Indices: 858441--858479 Score: 62
Period size: 12 Copynumber: 3.0 Consensus size: 13
858431 TATTCATAAA
858441 AAATATTTAAAAT
1 AAATATTTAAAAT
858454 AAATATTT-AAAT
1 AAATATTTAAAAT
858466 AAATATTGTAAAAT
1 AAATATT-TAAAAT
858480 TAAAGAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 9 0.38
14 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
AAATATTTAAAAT
Found at i:859486 original size:13 final size:13
Alignment explanation
Indices: 859470--859497 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
859460 GTTGTTTGAC
859470 ATGGTTTTGGTTG
1 ATGGTTTTGGTTG
859483 ATGGTTTTGGTTG
1 ATGGTTTTGGTTG
859496 AT
1 AT
859498 ATTGGTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.54
Consensus pattern (13 bp):
ATGGTTTTGGTTG
Found at i:861639 original size:9 final size:9
Alignment explanation
Indices: 861625--861694 Score: 63
Period size: 9 Copynumber: 7.4 Consensus size: 9
861615 GGATCTTATA
861625 AAAAATATT
1 AAAAATATT
*
861634 AAAAATTTT
1 AAAAATATT
861643 AAGAAAT-TT
1 AA-AAATATT
*
861652 ATAAATATT
1 AAAAATATT
861661 AGAAAATTATT
1 A-AAAA-TATT
861672 -AAAATATT
1 AAAAATATT
861680 CATAAAATATT
1 -A-AAAATATT
861691 AAAA
1 AAAA
861695 TTAAAACATA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
8 8 0.16
9 23 0.45
10 8 0.16
11 12 0.24
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATATT
Found at i:861678 original size:19 final size:19
Alignment explanation
Indices: 861626--861695 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
861616 GATCTTATAA
* *
861626 AAAATATTAAAAATTTTAAG
1 AAAATATT-AAAATATTCAG
861646 -AAAT-TTATAAATATT-AG
1 AAAATATTA-AAATATTCAG
*
861663 AAAATTATTAAAATATTCAT
1 AAAA-TATTAAAATATTCAG
861683 AAAATATTAAAAT
1 AAAATATTAAAAT
861696 TAAAACATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
17 3 0.07
18 11 0.26
19 21 0.49
20 8 0.19
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAATATTAAAATATTCAG
Found at i:866834 original size:24 final size:26
Alignment explanation
Indices: 866802--866849 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
866792 CAGTTCCCAC
* *
866802 TTTGCTATTATTGT-TTG-TGCTGAG
1 TTTGATATTACTGTGTTGTTGCTGAG
866826 TTTGATATTACTGTGTTGTTGCTG
1 TTTGATATTACTGTGTTGTTGCTG
866850 CAGAAATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 3 0.15
26 5 0.25
ACGTcount: A:0.12, C:0.08, G:0.25, T:0.54
Consensus pattern (26 bp):
TTTGATATTACTGTGTTGTTGCTGAG
Found at i:869005 original size:28 final size:26
Alignment explanation
Indices: 868957--869014 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
868947 AGGGGTGCAC
*
868957 AAAAAATCTGAATATCCGATTTTGCGAA
1 AAAAAATCCGAATATCCGA-TTTG-GAA
*
868985 AAAAATATCCGAA-ATCGGATTTGGAA
1 AAAAA-ATCCGAATATCCGATTTGGAA
869011 AAAA
1 AAAA
869015 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.26
27 4 0.15
28 10 0.37
29 6 0.22
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (26 bp):
AAAAAATCCGAATATCCGATTTGGAA
Found at i:869104 original size:23 final size:24
Alignment explanation
Indices: 869063--869115 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
869053 TTATTTTAAT
*
869063 CGGTTTGGAGAAAAAAACCTAGAC
1 CGGTTTGGAGAAAAAAACCTAAAC
869087 CGGTTTGGAG-AAAAAACCTAAAC
1 CGGTTTGGAGAAAAAAACCTAAAC
869110 CGGTTT
1 CGGTTT
869116 TTATCCGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (24 bp):
CGGTTTGGAGAAAAAAACCTAAAC
Found at i:870120 original size:21 final size:21
Alignment explanation
Indices: 870096--870135 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
870086 TTTATTTTAT
870096 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
870117 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
870136 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:870183 original size:33 final size:33
Alignment explanation
Indices: 870130--870228 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
870120 TTTGTTTCAA
870130 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
870162 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
870195 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
870228 T
1 T
870229 ATGTTAAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:870257 original size:13 final size:13
Alignment explanation
Indices: 870214--870268 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
870204 TTGGAAGTAT
870214 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
870227 TTATGTTAAGTT-AA
1 TTAAG-T-ATTTCAA
870241 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
870254 TTAAGTATTTGAA
1 TTAAGTATTTCAA
870267 TT
1 TT
870269 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:870490 original size:21 final size:21
Alignment explanation
Indices: 870464--870520 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
870454 TGGAGCGTGG
*
870464 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
* *
870485 GGGAATCAGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
870506 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
870521 AAGTGTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:873694 original size:10 final size:10
Alignment explanation
Indices: 873679--873703 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
873669 CAAAACAAGA
873679 TAAATGAAAT
1 TAAATGAAAT
873689 TAAATGAAAT
1 TAAATGAAAT
873699 TAAAT
1 TAAAT
873704 TAAACGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (10 bp):
TAAATGAAAT
Found at i:873951 original size:72 final size:69
Alignment explanation
Indices: 873762--873980 Score: 236
Period size: 72 Copynumber: 3.2 Consensus size: 69
873752 ATAATATATA
* * * *
873762 AAAAATATTTTTT--AAACTATATATTATA-CTTAAAAACGTTTTCAAAACTATATATTATATAG
1 AAAAATGTTTTTTAAAAACTATA-ATTATATTTTAAAAATGTTTTCAAAACTATATATTATATAA
873824 TTTTC
65 TTTTC
* *
873829 AAAAATG-ATTTTAAAAA-TATAA-TATAAGTTTTTAAAAATGTTTTTTAAAACTATATATTATA
1 AAAAATGTTTTTTAAAAACTATAATTAT-A--TTTTAAAAATG-TTTTCAAAACTATATATTATA
873891 TAAAATTTTC
62 T--AATTTTC
* *
873901 AAAAATGTTTTTTAAAAACTATACATTATATTTTCAAAATGGTTTCAAAACTATATATTATATAA
1 AAAAATGTTTTTTAAAAACTATA-ATTATATTTTAAAAATGTTTTCAAAACTATATATTATATAA
*
873966 CTTTC
65 TTTTC
873971 -AAAATGTTTT
1 AAAAATGTTTT
873981 AAAACTTATA
Statistics
Matches: 128, Mismatches: 11, Indels: 24
0.79 0.07 0.15
Matches are distributed among these distances:
65 3 0.02
66 6 0.05
67 10 0.08
68 3 0.02
69 18 0.14
70 27 0.21
72 33 0.26
73 19 0.15
74 4 0.03
75 2 0.02
76 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (69 bp):
AAAAATGTTTTTTAAAAACTATAATTATATTTTAAAAATGTTTTCAAAACTATATATTATATAAT
TTTC
Found at i:873971 original size:35 final size:35
Alignment explanation
Indices: 873799--874012 Score: 174
Period size: 34 Copynumber: 5.9 Consensus size: 35
873789 ACTTAAAAAC
*
873799 GTTTTCAAAACTATATATTATATAGTTTTCAAAAATG
1 GTTTT-AAAACTATATATTATATAATTTTC-AAAATG
* *
873836 ATTTTAAAA--ATATA--ATATAAGTTTTTAAAAATG
1 GTTTTAAAACTATATATTATATAA--TTTTCAAAATG
*
873869 TTTTTTAAAACTATATATTATATAAAATTTTCAAAAATG
1 -GTTTTAAAACTATATATTATAT--AATTTTC-AAAATG
* *
873908 TTTTTTAAAAACTATACA-T-TAT-ATTTTCAAAATG
1 -GTTTT-AAAACTATATATTATATAATTTTCAAAATG
* *
873942 GTTTCAAAACTATATATTATATAACTTTCAAAAT-
1 GTTTTAAAACTATATATTATATAATTTTCAAAATG
873976 GTTTTAAAACTTATATATTGTATATAAGTTTTCAAAA
1 GTTTTAAAAC-TATATA-T-TATATAA-TTTTCAAAA
874013 ACATTTTTAA
Statistics
Matches: 147, Mismatches: 12, Indels: 35
0.76 0.06 0.18
Matches are distributed among these distances:
32 15 0.10
33 10 0.07
34 35 0.24
35 22 0.15
36 10 0.07
37 11 0.07
38 19 0.13
39 13 0.09
40 12 0.08
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (35 bp):
GTTTTAAAACTATATATTATATAATTTTCAAAATG
Found at i:874039 original size:108 final size:105
Alignment explanation
Indices: 873812--874039 Score: 248
Period size: 108 Copynumber: 2.1 Consensus size: 105
873802 TTCAAAACTA
* *
873812 TATATTATATAGTTTTCAAAAATGATTTTAAAAATATAATATAAGTTTTTAAAAATGTTTTTTAA
1 TATATTATATA-TTTTCAAAAATGATTTCAAAAATATAATATAAG-CTTTAAAAATG-TTTTTAA
** *
873877 AACTATATATTATATAAAATTTTCAAAAATGTTTTTTAAAAAC
63 AACTATATATTATATAAAATTTTCAAAAACATTTTTAAAAAAC
* * *
873920 TATA-CATTATATTTTC-AAAATGGTTTCAAAACTATATATTATATAA-CTTTCAAAATG-TTTT
1 TATATTA-TATATTTTCAAAAATGATTTCAAAA--ATATA--ATATAAGCTTTAAAAATGTTTTT
* *
873981 AAAACTTATATATTGTATATAAGTTTTCAAAAACATTTTTAAAAAAC
61 AAAAC-TATATATTATATA-AAATTTTCAAAAACATTTTTAAAAAAC
874028 TATATTATATAT
1 TATATTATATAT
874040 ATATATTCGG
Statistics
Matches: 101, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
106 22 0.22
107 18 0.18
108 54 0.53
109 1 0.01
110 6 0.06
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (105 bp):
TATATTATATATTTTCAAAAATGATTTCAAAAATATAATATAAGCTTTAAAAATGTTTTTAAAAC
TATATATTATATAAAATTTTCAAAAACATTTTTAAAAAAC
Found at i:874122 original size:2 final size:2
Alignment explanation
Indices: 874103--874144 Score: 59
Period size: 2 Copynumber: 20.5 Consensus size: 2
874093 TTTTCAAAAA
874103 AT AT ACT AT AT -T ACT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A
874145 GACGAAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 1 0.03
2 32 0.86
3 4 0.11
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:874965 original size:250 final size:246
Alignment explanation
Indices: 874651--875285 Score: 654
Period size: 250 Copynumber: 2.5 Consensus size: 246
874641 AGCTGAATGA
* *
874651 AATCGAACTCGAA-GGTCTTTGGTAGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
1 AATCGAACTCGAAGGGTC-TT--T-GGCAGATAACCCTTCTCGACTTAAGCTATGCTGTAAATGA
* * *
874715 TGTGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGCCTTTGGTTGGTAGATAACCCTTCTCGACT
62 TGTGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGGCCTTTGGTTGGAAGATAACCCTTCTAGACT
* *
874780 TAAGTTATATTGCAAAAGATGTACCCTCGAAGT-TGAGTATAATCGAACTCAAAGGTCTTTTGGT
127 TAAGTTATACTGCAAAAGATGTACCCTCGAA-TCTGAGTATAATCAAACTCAAAGGTC-TTT-G-
* * * * *
874844 GACAGATAACCCTTAT-AACCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGT
188 G-CAGATAACCCTTATCAA-CTTAAGCTATGATGCAAATGATGTG-CCTCAAAGCTGAGCGT
* *
874905 AATCGAACTTG-AGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATACTGTAAATGATGTG
1 AATCGAACTCGAAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGTAAATGATGTG
* * ** * **
874969 CCTTGGAGCTGAGCGTTGTCGAACTTTAAGGTCTTTTTTTGGAAGATAACCCTTCTAGACTTAAG
66 CCTTAGAGCTGAGCGTAGTCGAACTCAAAGGCCTTTGGTTGGAAGATAACCCTTCTAGACTTAAG
* * * * * * * *
875034 TTGTACTGCAGATGATGTGCCCTCGAATCTGAGTGTAATTAAACTCGAGGGTCTTTGGCAGATAA
131 TTATACTGCAAAAGATGTACCCTCGAATCTGAGTATAATCAAACTCAAAGGTCTTTGGCAGATAA
* * * ***
875099 CTCTTCTCGACTTAAGCTATGATGCAAATGATGTGCCTTGGAGCTGAGCGT
196 CCCTTATCAACTTAAGCTATGATGCAAATGATGTGCCTCAAAGCTGAGCGT
* * * * * * *
875150 AGTCGAACTCGAAGGTTTTTTGTCACAGATAACCCTTCTAG-CTTTGAGTTATGCTGTAAATGAT
1 AATCGAACTCGAAGGGTCTTTG--GCAGATAACCCTTCTCGAC-TTAAGCTATGCTGTAAATGAT
* * * *
875214 ATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-T-GACAGATAACCCTTCTAGCC
63 GTGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGG-CCTTTGGTTGGA-AGATAACCCTTCTAGAC
*
875277 TTGAGTTAT
126 TTAAGTTAT
875286 GCTGTAAATG
Statistics
Matches: 317, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
245 21 0.07
246 41 0.13
247 5 0.02
248 87 0.27
249 7 0.02
250 138 0.44
251 1 0.00
253 3 0.01
254 14 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (246 bp):
AATCGAACTCGAAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGTAAATGATGTG
CCTTAGAGCTGAGCGTAGTCGAACTCAAAGGCCTTTGGTTGGAAGATAACCCTTCTAGACTTAAG
TTATACTGCAAAAGATGTACCCTCGAATCTGAGTATAATCAAACTCAAAGGTCTTTGGCAGATAA
CCCTTATCAACTTAAGCTATGATGCAAATGATGTGCCTCAAAGCTGAGCGT
Done.