Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 94 of 109
Found at i:18906096 original size:34 final size:34
Alignment explanation
Indices: 18906023--18906108 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
18906013 GTCGTTAACA
* * *
18906023 ATAAAGATCAAAATACTAATAAATTTCATAAATG
1 ATAATGATCAAAATATTAATAAATTTCATAAATC
* *
18906057 TTAATGATCAAAATATTAATAAATTTCATAATTC
1 ATAATGATCAAAATATTAATAAATTTCATAAATC
18906091 ATAATG-TCAAAAT-TTAAT
1 ATAATGATCAAAATATTAAT
18906109 TACAAACAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 5 0.11
33 7 0.15
34 34 0.74
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (34 bp):
ATAATGATCAAAATATTAATAAATTTCATAAATC
Found at i:18906967 original size:2 final size:2
Alignment explanation
Indices: 18906962--18906986 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18906952 GATTTTTTAT
18906962 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18906987 TGAAACTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18908383 original size:27 final size:27
Alignment explanation
Indices: 18908345--18908396 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18908335 TTAAAACGTG
*
18908345 TGACATAACACTTCGAAGTTTCATTTT
1 TGACATAACACTTCCAAGTTTCATTTT
*
18908372 TGACATAGCACTTCCAAGTTTCATT
1 TGACATAACACTTCCAAGTTTCATT
18908397 CCATCATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (27 bp):
TGACATAACACTTCCAAGTTTCATTTT
Found at i:18908488 original size:18 final size:18
Alignment explanation
Indices: 18908461--18908499 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
18908451 ACTCACAAAT
18908461 TTGGACAGAAAAGAGTGG
1 TTGGACAGAAAAGAGTGG
*
18908479 TTGGATAGAAAAGAGTGG
1 TTGGACAGAAAAGAGTGG
18908497 TTG
1 TTG
18908500 AGCTCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.38, T:0.23
Consensus pattern (18 bp):
TTGGACAGAAAAGAGTGG
Found at i:18910299 original size:14 final size:15
Alignment explanation
Indices: 18910267--18910301 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18910257 TTACAGATAA
18910267 AAAATTTTAAATGTT
1 AAAATTTTAAATGTT
18910282 AAAATTTTAAAT-TT
1 AAAATTTTAAATGTT
18910296 AAAATT
1 AAAATT
18910302 GATCAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (15 bp):
AAAATTTTAAATGTT
Found at i:18910582 original size:16 final size:18
Alignment explanation
Indices: 18910561--18910601 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
18910551 TTACTCTTTA
*
18910561 TTTTATCACCTTTT-T-T
1 TTTTATCACATTTTATGT
18910577 TTTTATC-CATTTTATGT
1 TTTTATCACATTTTATGT
18910594 TTTTATCA
1 TTTTATCA
18910602 AAGGTACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.17, C:0.15, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTATCACATTTTATGT
Found at i:18915046 original size:33 final size:33
Alignment explanation
Indices: 18914997--18915063 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
18914987 AACCAAATCA
** *
18914997 GCCTCTAAAGCCACTTCTGAGATCTTTTCGTCT
1 GCCTCTAAAGCCACTTCCAAGATCTTTTCATCT
* *
18915030 GCCTCTGAAGCTACTTCCAAGATCTTTTCATCT
1 GCCTCTAAAGCCACTTCCAAGATCTTTTCATCT
18915063 G
1 G
18915064 TCCCATCTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (33 bp):
GCCTCTAAAGCCACTTCCAAGATCTTTTCATCT
Found at i:18915431 original size:31 final size:33
Alignment explanation
Indices: 18915374--18915437 Score: 114
Period size: 31 Copynumber: 2.0 Consensus size: 33
18915364 AACCATCCAT
18915374 AACCATGAAAAGAAGGGGATAATTTTGATTTAC
1 AACCATGAAAAGAAGGGGATAATTTTGATTTAC
18915407 AACCATGAAAAGAA-GGG-TAATTTTGATTTAC
1 AACCATGAAAAGAAGGGGATAATTTTGATTTAC
18915438 CTGGCAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 14 0.45
32 3 0.10
33 14 0.45
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (33 bp):
AACCATGAAAAGAAGGGGATAATTTTGATTTAC
Found at i:18918659 original size:5 final size:5
Alignment explanation
Indices: 18918651--18918682 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
18918641 TCATTCTTCC
*
18918651 TCTTT TCTTT CCTTT TCTTT TCTTT TCTTT TC
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TC
18918683 CCCTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (5 bp):
TCTTT
Found at i:18921307 original size:14 final size:14
Alignment explanation
Indices: 18921278--18921315 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
18921268 ACTAGATACC
18921278 TTTTTATTTTTCAAA
1 TTTTTA-TTTTCAAA
18921293 TTTTTCATTTT-AAA
1 TTTTT-ATTTTCAAA
18921307 TTTTTATTT
1 TTTTTATTT
18921316 AAAAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 8 0.36
15 9 0.41
16 1 0.05
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTATTTTCAAA
Found at i:18923487 original size:66 final size:65
Alignment explanation
Indices: 18923381--18923580 Score: 256
Period size: 66 Copynumber: 3.0 Consensus size: 65
18923371 GGCTTAGTTC
* * * *
18923381 GTCTTTTCTCATCTCTCTTCTACGAGTCAAGTATTTGTTGGACTAAATGTCAGCCGATTATTATT
1 GTCTTTTCTCATATCTCTTCTATGAGTCAAGTA-TTGTTGGACCAAATGTCAGCCGATTATTACT
18923446 T
65 T
* * *
18923447 GTCTTTTCTTATATCTCTTCTATGAGTCAAGTATTCGTTGGACCACATGTCTGCCGATTATTACT
1 GTCTTTTCTCATATCTCTTCTATGAGTCAAGTATT-GTTGGACCAAATGTCAGCCGATTATTACT
18923512 T
65 T
* * * * * *
18923513 GTATTTTCTGATATCTCTTCTATAAGTCAAGTACTTGTTGGACCAGATGTCAGCTGCTTATTACT
1 GTCTTTTCTCATATCTCTTCTATGAGTCAAGTA-TTGTTGGACCAAATGTCAGCCGATTATTACT
18923578 T
65 T
18923579 GT
1 GT
18923581 GTTCAGGTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
65 2 0.02
66 114 0.97
67 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (65 bp):
GTCTTTTCTCATATCTCTTCTATGAGTCAAGTATTGTTGGACCAAATGTCAGCCGATTATTACTT
Found at i:18925904 original size:25 final size:25
Alignment explanation
Indices: 18925874--18925943 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
18925864 TTAATATAAC
*
18925874 TATTAAAA-CATTAAAAATTATTTAT
1 TATTAAAATCATT-AAAATTACTTAT
* *
18925899 TATTAAAATTATTGAAATTACTTAT
1 TATTAAAATCATTAAAATTACTTAT
* *
18925924 TATTAAAATTATTAATATTA
1 TATTAAAATCATTAAAATTA
18925944 AAAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 36 0.92
26 3 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (25 bp):
TATTAAAATCATTAAAATTACTTAT
Found at i:18925944 original size:15 final size:16
Alignment explanation
Indices: 18925908--18925946 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
18925898 TTATTAAAAT
* *
18925908 TATTGAAATTACTTAT
1 TATTAAAATTACTTAA
18925924 TATTAAAATTA-TTAA
1 TATTAAAATTACTTAA
18925939 TATTAAAA
1 TATTAAAA
18925947 AATAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (16 bp):
TATTAAAATTACTTAA
Found at i:18925954 original size:17 final size:17
Alignment explanation
Indices: 18925928--18926010 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 17
18925918 ACTTATTATT
*
18925928 AAAATTATTAATATTAA
1 AAAATAATTAATATTAA
*
18925945 AAAATAATTATATTTTAA
1 AAAATAATTA-ATATTAA
*
18925963 TAATAATATTTAATATTAA
1 -AA-AATAATTAATATTAA
* *
18925982 AATATTATGTTAAT-TTAA
1 AA-AATA-ATTAATATTAA
*
18926000 AAAATACTTAA
1 AAAATAATTAA
18926011 AATAAAATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
16 4 0.07
17 12 0.22
18 18 0.33
19 13 0.24
20 7 0.13
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
AAAATAATTAATATTAA
Found at i:18925955 original size:20 final size:18
Alignment explanation
Indices: 18925933--18926005 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 18
18925923 TTATTAAAAT
18925933 TATTAATATTAAAAAAT-A
1 TATTAAT-TTAAAAAATAA
* *
18925951 -ATTATATTTTAATAATAA
1 TATTA-ATTTAAAAAATAA
* *
18925969 TATTTAATATTAAAATATTA
1 TA-TTAAT-TTAAAAAATAA
*
18925989 TGTTAATTTAAAAAATA
1 TATTAATTTAAAAAATA
18926006 CTTAAAATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
17 11 0.27
18 11 0.27
19 8 0.20
20 11 0.27
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
TATTAATTTAAAAAATAA
Found at i:18926076 original size:18 final size:18
Alignment explanation
Indices: 18926045--18926093 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
18926035 TATCATTTAT
18926045 TAATA-TATTATATTAATA
1 TAATATTATT-TATTAATA
18926063 GT-ATATTATTTATTAATA
1 -TAATATTATTTATTAATA
18926081 TAATATTATTTAT
1 TAATATTATTTAT
18926094 AAGAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 22 0.79
19 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TAATATTATTTATTAATA
Found at i:18930063 original size:65 final size:65
Alignment explanation
Indices: 18929985--18930113 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 65
18929975 TAATTCATCT
* * **
18929985 TTTCTCATATCTCTTCCACGAGTCAAGTACTTGTTAGACCAAATGTTAGGTGATTATTACTTGTC
1 TTTCTCATATCTCTTCCAAGAGTCAAGTACTTGTTAGACCAAATGTCAACTGATTATTACTTGTC
* * * *
18930050 TTTCTCATCTCTCTTCTAAGAGTCAAGTACTTGTTGGACCAAATGTCAACTGCTTATTACTTGT
1 TTTCTCATATCTCTTCCAAGAGTCAAGTACTTGTTAGACCAAATGTCAACTGATTATTACTTGT
18930114 GTTCAGGTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (65 bp):
TTTCTCATATCTCTTCCAAGAGTCAAGTACTTGTTAGACCAAATGTCAACTGATTATTACTTGTC
Found at i:18931567 original size:62 final size:61
Alignment explanation
Indices: 18931501--18931680 Score: 204
Period size: 61 Copynumber: 2.9 Consensus size: 61
18931491 AAAAACGCCT
*
18931501 TAAATAATCATCTTTAAAATGTATCAAGAGATTATTTAAGGCTTTTTTATCCAAAAATACCC
1 TAAATAATC-TCTTTAAAATATATCAAGAGATTATTTAAGGCTTTTTTATCCAAAAATACCC
* * * * * *
18931563 TAAATAATGCTCTTTAAAA-AAAT-ATGAGGATTATTT-ATGATATTTTTGTCCAAAAATACCT
1 TAAATAAT-CTCTTTAAAATATATCAAGA-GATTATTTAAGGCT-TTTTTATCCAAAAATACCC
* * *
18931624 TAAATAATCCCTTCAAAATATATCAAGAGATTAGTTAAGGCATTTTTTATCCAAAAA
1 TAAATAATCTCTTTAAAATATATCAAGAGATTATTTAAGGC-TTTTTTATCCAAAAA
18931681 CATCTTATAT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
60 14 0.15
61 45 0.47
62 35 0.36
63 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.37
Consensus pattern (61 bp):
TAAATAATCTCTTTAAAATATATCAAGAGATTATTTAAGGCTTTTTTATCCAAAAATACCC
Found at i:18931656 original size:61 final size:61
Alignment explanation
Indices: 18931480--18931703 Score: 213
Period size: 62 Copynumber: 3.7 Consensus size: 61
18931470 TATTTAAAAT
** ** *
18931480 ATTTTTTATTTAAAAACGCCTTAAATAATCATCTTTAAAATGTATCAAGAGATTATTTAAGG
1 ATTTTTTATCCAAAAATACCTTAAATAATC-TCTTTAAAATATATCAAGAGATTATTTAAGG
* * * * *
18931542 CTTTTTTATCCAAAAATACCCTAAATAATGCTCTTTAAAA-AAAT-ATGAGGATTATTT-ATG
1 ATTTTTTATCCAAAAATACCTTAAATAAT-CTCTTTAAAATATATCAAGA-GATTATTTAAGG
* * * *
18931602 ATATTTTTGTCCAAAAATACCTTAAATAATCCCTTCAAAATATATCAAGAGATTAGTTAAGG
1 AT-TTTTTATCCAAAAATACCTTAAATAATCTCTTTAAAATATATCAAGAGATTATTTAAGG
* * * *
18931664 CATTTTTTATCCAAAAACATCTTATATGATC-CTTTAAAAT
1 -ATTTTTTATCCAAAAATACCTTAAATAATCTCTTTAAAAT
18931704 TTTTGAAGGG
Statistics
Matches: 130, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
60 14 0.11
61 53 0.41
62 60 0.46
63 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (61 bp):
ATTTTTTATCCAAAAATACCTTAAATAATCTCTTTAAAATATATCAAGAGATTATTTAAGG
Found at i:18931988 original size:17 final size:17
Alignment explanation
Indices: 18931966--18931998 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18931956 AGATGGATAA
18931966 AAAAAAAAAATAAATAG
1 AAAAAAAAAATAAATAG
*
18931983 AAAAAAAATATAAATA
1 AAAAAAAAAATAAATA
18931999 AGGCGGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAAAAAATAAATAG
Found at i:18935468 original size:27 final size:26
Alignment explanation
Indices: 18935428--18935546 Score: 80
Period size: 27 Copynumber: 4.4 Consensus size: 26
18935418 GGTAGGCCCA
*
18935428 TTTTGTTTTGTATTTTATATTTTATTAT
1 TTTTATTTT-TATTTTAT-TTTTATTAT
18935456 TTTTATTTTTATTTTATTTTGTATCT-T
1 TTTTATTTTTATTTTATTTT-TAT-TAT
* *
18935483 ATGTATTTATTA-TTTATTATTTATTAT
1 TTTTATTT-TTATTTTATT-TTTATTAT
** * * *
18935510 TACTATTTATTAATATATATTTATTAT
1 TTTTATTT-TTATTTTATTTTTATTAT
*
18935537 TATTATTTTT
1 TTTTATTTTT
18935547 TTATCTGTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.08
27 52 0.68
28 18 0.24
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTTATTTTTATTTTATTTTTATTAT
Found at i:18935498 original size:7 final size:7
Alignment explanation
Indices: 18935448--18935627 Score: 100
Period size: 7 Copynumber: 26.3 Consensus size: 7
18935438 TATTTTATAT
18935448 TTTATTA
1 TTTATTA
18935455 TTT-TTA
1 TTTATTA
18935461 TTT-TTA
1 TTTATTA
18935467 -TT-TTA
1 TTTATTA
18935472 TTT-TGTA
1 TTTAT-TA
18935479 TCTTATGTA
1 T-TTAT-TA
18935488 TTTATTA
1 TTTATTA
18935495 TTTATTA
1 TTTATTA
18935502 TTTATTA
1 TTTATTA
*
18935509 -TTACTA
1 TTTATTA
18935515 TTTATTA
1 TTTATTA
*
18935522 -ATATATA
1 TTTAT-TA
18935529 TTTATTA
1 TTTATTA
18935536 -TTATTA
1 TTTATTA
*
18935542 TTTTTTTA
1 -TTTATTA
* *
18935550 TCTGTTA
1 TTTATTA
*
18935557 -ATATT-
1 TTTATTA
*
18935562 TGTATT-
1 TTTATTA
18935568 TATTATTA
1 T-TTATTA
18935576 TTTATCTA
1 TTTAT-TA
18935584 TTTA-TA
1 TTTATTA
*
18935590 TATTATAA
1 T-TTATTA
18935598 TTTATCTA
1 TTTAT-TA
18935606 -TTATTA
1 TTTATTA
18935612 TTT-TTA
1 TTTATTA
18935618 TTTATCTA
1 TTTAT-TA
18935626 TT
1 TT
18935628 AATATTTTGA
Statistics
Matches: 141, Mismatches: 13, Indels: 37
0.74 0.07 0.19
Matches are distributed among these distances:
5 5 0.04
6 45 0.32
7 58 0.41
8 28 0.20
9 5 0.04
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:18935502 original size:3 final size:3
Alignment explanation
Indices: 18935489--18935633 Score: 60
Period size: 3 Copynumber: 43.7 Consensus size: 3
18935479 TCTTATGTAT
* *
18935489 TTA TTA TTTA TTA TTTA TTA TTA CTA TTTA TTA ATA TATA TTTA TTA
1 TTA TTA -TTA TTA -TTA TTA TTA TTA -TTA TTA TTA T-TA -TTA TTA
* * *
18935536 TTA TTA TT- TTT TTA TCTG TTA ATA TT- TGTA TTTA TTA TTA TTTA TCTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA -TTA TTA TTA -TTA T-TA
* * *
18935584 TTTA TATA TTA TAA TTTA TCTA TTA TTA TTT TTA TTTA TCTA TTA ATA
1 -TTA T-TA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA
18935632 TT
1 TT
18935634 TTGATTTATC
Statistics
Matches: 109, Mismatches: 15, Indels: 36
0.68 0.09 0.22
Matches are distributed among these distances:
2 3 0.03
3 66 0.61
4 37 0.34
5 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:18935635 original size:20 final size:20
Alignment explanation
Indices: 18935568--18935683 Score: 115
Period size: 20 Copynumber: 5.5 Consensus size: 20
18935558 TATTTGTATT
*
18935568 TATTATTATTTATCTATTTATA
1 TATTTTTATTTATCTA-TTA-A
* * *
18935590 TATTATAATTTATCTATTAT
1 TATTTTTATTTATCTATTAA
18935610 TATTTTTATTTATCTATTAA
1 TATTTTTATTTATCTATTAA
* *
18935630 TATTTTGATTTATCTGATTAT
1 TATTTTTATTTATCT-ATTAA
* *
18935651 TTTCTTTTAATTATCTATTAA
1 TAT-TTTTATTTATCTATTAA
18935672 TATTTTTTATTT
1 TA-TTTTTATTT
18935684 GATTTTTATT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
20 31 0.40
21 21 0.27
22 26 0.33
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTTTTATTTATCTATTAA
Found at i:18935700 original size:42 final size:42
Alignment explanation
Indices: 18935577--18935677 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
18935567 TTATTATTAT
* * * *
18935577 TTATCTATTTATATATTATAATTTATCT-ATTATTAT-TTTTAT
1 TTATCTA-TTA-ATATTTTGATTTATCTGATTATTTTCTTTTAA
18935619 TTATCTATTAATATTTTGATTTATCTGATTATTTTCTTTTAA
1 TTATCTATTAATATTTTGATTTATCTGATTATTTTCTTTTAA
18935661 TTATCTATTAATATTTT
1 TTATCTATTAATATTTT
18935678 TTATTTGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
40 14 0.26
41 10 0.19
42 29 0.55
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (42 bp):
TTATCTATTAATATTTTGATTTATCTGATTATTTTCTTTTAA
Found at i:18936539 original size:10 final size:10
Alignment explanation
Indices: 18936524--18936595 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
18936514 TTTTTTTTTC
18936524 ATTTATTATT
1 ATTTATTATT
18936534 ATTTATTTATT
1 ATTTA-TTATT
18936545 -TATTATTATT
1 AT-TTATTATT
* *
18936555 GTTTAATATT
1 ATTTATTATT
* *
18936565 TTTTATTTTT
1 ATTTATTATT
* *
18936575 CTTTATTTTT
1 ATTTATTATT
18936585 ATTTTATTATT
1 A-TTTATTATT
18936596 TTATTTTCTT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
10 34 0.67
11 17 0.33
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (10 bp):
ATTTATTATT
Found at i:18936550 original size:7 final size:7
Alignment explanation
Indices: 18936529--18936596 Score: 56
Period size: 7 Copynumber: 10.3 Consensus size: 7
18936519 TTTTCATTTA
18936529 TTATTAT
1 TTATTAT
18936536 TTATTTAT
1 TTA-TTAT
18936544 TTATTA-
1 TTATTAT
*
18936550 TTATTGT
1 TTATTAT
*
18936557 TTAATAT
1 TTATTAT
*
18936564 TTTTTAT
1 TTATTAT
*
18936571 TT-TTCT
1 TTATTAT
18936577 TTATT-T
1 TTATTAT
18936583 TTA-T-T
1 TTATTAT
18936588 TTATTAT
1 TTATTAT
18936595 TT
1 TT
18936597 TATTTTCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 5 0.10
6 15 0.30
7 23 0.46
8 7 0.14
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (7 bp):
TTATTAT
Found at i:18936596 original size:14 final size:14
Alignment explanation
Indices: 18936525--18936602 Score: 52
Period size: 17 Copynumber: 5.2 Consensus size: 14
18936515 TTTTTTTTCA
18936525 TTTATTATTATTTA-
1 TTTATTATT-TTTAT
*
18936539 TTTATTTATTATTATT
1 TTTA-TTATTTTTA-T
*
18936555 GTTTAATATTTTTTATT
1 -TTTATTA-TTTTTA-T
*
18936572 TTTCTTTATTTTTAT
1 TTT-ATTATTTTTAT
18936587 TTTATTA-TTTTAT
1 TTTATTATTTTTAT
18936600 TTT
1 TTT
18936603 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
13 9 0.17
14 10 0.19
15 9 0.17
16 11 0.21
17 13 0.25
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTATTATTTTTAT
Found at i:18936778 original size:60 final size:59
Alignment explanation
Indices: 18936615--18936775 Score: 261
Period size: 60 Copynumber: 2.7 Consensus size: 59
18936605 TTAAATAAAA
*
18936615 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTT
1 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTT
* *
18936674 TCTAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TT
1 T-TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTT
* *
18936733 TTCAAAAATAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
18936776 TTCTGCATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
58 38 0.40
59 4 0.04
60 52 0.55
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (59 bp):
TTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGCTT
Found at i:18948346 original size:41 final size:41
Alignment explanation
Indices: 18948289--18948583 Score: 337
Period size: 41 Copynumber: 7.1 Consensus size: 41
18948279 TAGATGAGCC
* *
18948289 AGAGGAGCCATTTATTTTTCAAAGTTGTTGAACCTCTGATT
1 AGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATT
* *
18948330 AGAGGAGTCATTTATTTTTCAAAGTCATTGAGCCTCTGATT
1 AGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATT
* *
18948371 AGAGAAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTGATT
1 AGAGGAGC--CATTTATTTTTCAAAGTCGTTGAGCCTCTGATT
* * * *
18948414 AGAGGAGCCATTTATTTTCCAAAGTCATTGAACCTCTGTTT
1 AGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATT
*
18948455 AAAGGAG-C-TTTATTCATTTTCAAAGTCGTTGAGCCTCTGATT
1 AGAGGAGCCATTTA-T--TTTTCAAAGTCGTTGAGCCTCTGATT
* * * * *
18948497 ACAAGAGCCGTTTATTTTTCAAAGTCATTGAGCCTCTGTTT
1 AGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATT
*
18948538 AGAGGAG-C-TTTATTCATTTTCAAAGTCGTTGAGCCTCTGAAT
1 AGAGGAGCCATTTA-T--TTTTCAAAGTCGTTGAGCCTCTGATT
18948580 AGAG
1 AGAG
18948584 AAGCTTTATT
Statistics
Matches: 216, Mismatches: 28, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.04
40 4 0.02
41 106 0.49
42 54 0.25
43 40 0.19
44 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (41 bp):
AGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATT
Found at i:18948495 original size:83 final size:83
Alignment explanation
Indices: 18948304--18948583 Score: 434
Period size: 83 Copynumber: 3.4 Consensus size: 83
18948294 AGCCATTTAT
* * * *
18948304 TTTTCAAAGTTGTTGAACCTCTGATTAGAGGAGTCATTTATTTTTCAAAGTCATTGAGCCTCTGA
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGAGCCTCTGT
* *
18948369 TTAGAGAAGCTTTATTTA
66 TTAGAGGAGCTTTATTCA
* *
18948387 TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTCCAAAGTCATTGAACCTCTG
1 -TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGAGCCTCTG
*
18948452 TTTAAAGGAGCTTTATTCA
65 TTTAGAGGAGCTTTATTCA
* * *
18948471 TTTTCAAAGTCGTTGAGCCTCTGATTACAAGAGCCGTTTATTTTTCAAAGTCATTGAGCCTCTGT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGAGCCTCTGT
18948536 TTAGAGGAGCTTTATTCA
66 TTAGAGGAGCTTTATTCA
*
18948554 TTTTCAAAGTCGTTGAGCCTCTGAATAGAG
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAG
18948584 AAGCTTTATT
Statistics
Matches: 178, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
83 104 0.58
84 74 0.42
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (83 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCATTGAGCCTCTGT
TTAGAGGAGCTTTATTCA
Found at i:18948619 original size:65 final size:66
Alignment explanation
Indices: 18948538--18948669 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
18948528 GCCTCTGTTT
18948538 AGAGGAGCTTTATTCATTTTCAAAGTCG-TTGAGCCTCTGAATAGAGAAGCTTTATTCATTTTCA
1 AGAGGAGCTTTATTCATTTTCAAAGTCGTTTGAGCCTCTGAATAGAGAAGCTTTATTCATTTTCA
18948602 A
66 A
* *
18948603 AGAGGAGCTTTATTCATTTTCAAAGTCGTTTGAGCCTCTGATTAGAGGAGCTTTATTCATTTTCA
1 AGAGGAGCTTTATTCATTTTCAAAGTCGTTTGAGCCTCTGAATAGAGAAGCTTTATTCATTTTCA
18948668 A
66 A
18948669 A
1 A
18948670 ATCGTTAAGC
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 28 0.44
66 36 0.56
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (66 bp):
AGAGGAGCTTTATTCATTTTCAAAGTCGTTTGAGCCTCTGAATAGAGAAGCTTTATTCATTTTCA
A
Found at i:18948637 original size:27 final size:23
Alignment explanation
Indices: 18948580--18948627 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
18948570 GCCTCTGAAT
*
18948580 AGAGAAGCTTTATTCATTTTCAA
1 AGAGGAGCTTTATTCATTTTCAA
18948603 AGAGGAGCTTTATTCATTTTCAA
1 AGAGGAGCTTTATTCATTTTCAA
18948626 AG
1 AG
18948628 TCGTTTGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (23 bp):
AGAGGAGCTTTATTCATTTTCAA
Found at i:18948694 original size:42 final size:43
Alignment explanation
Indices: 18948603--18948695 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
18948593 TCATTTTCAA
* *
18948603 AGAGGAGCTTTATTCATTTTCAAAGTCGTTTGAGCCTCTGATT
1 AGAGGAGCTTTATTCATTTTCAAAATCGTTTAAGCCTCTGATT
18948646 AGAGGAGCTTTATTCATTTTCAAAATCG-TTAAGCCTCTGATT
1 AGAGGAGCTTTATTCATTTTCAAAATCGTTTAAGCCTCTGATT
*
18948688 ATAGGAGC
1 AGAGGAGC
18948696 ATTGTTTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 20 0.43
43 27 0.57
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (43 bp):
AGAGGAGCTTTATTCATTTTCAAAATCGTTTAAGCCTCTGATT
Found at i:18948940 original size:7 final size:7
Alignment explanation
Indices: 18948925--18948978 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
18948915 GCCCATTTTT
*
18948925 TTTTGTA
1 TTTTATA
18948932 TTTTATA
1 TTTTATA
18948939 TTTTAT-
1 TTTTATA
*
18948945 TATTATTA
1 TTTTA-TA
18948953 TTTTATA
1 TTTTATA
18948960 TTTTATA
1 TTTTATA
18948967 TTTT-TA
1 TTTTATA
18948973 TTTTAT
1 TTTTAT
18948979 TTTGTATCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 10 0.24
7 27 0.66
8 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:18948956 original size:21 final size:20
Alignment explanation
Indices: 18948930--18948996 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 20
18948920 TTTTTTTTTG
18948930 TATTTTATATTTTATTATTAT
1 TATTTTATATTTTA-TATTAT
*
18948951 TATTTTATATTTTATATTTT
1 TATTTTATATTTTATATTAT
*
18948971 TATTTTAT-TTTGTATCTTAT
1 TATTTTATATTT-TATATTAT
18948991 GTATTT
1 -TATTT
18948997 ATTATTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 19 0.46
21 19 0.46
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (20 bp):
TATTTTATATTTTATATTAT
Found at i:18949004 original size:7 final size:7
Alignment explanation
Indices: 18948940--18949125 Score: 84
Period size: 7 Copynumber: 27.7 Consensus size: 7
18948930 TATTTTATAT
18948940 TTTATTA
1 TTTATTA
18948947 -TTATTA
1 TTTATTA
18948953 TTT-TATA
1 TTTAT-TA
18948960 TTT-TATA
1 TTTAT-TA
18948967 TTT-TTA
1 TTTATTA
18948973 -TT-TTA
1 TTTATTA
18948978 TTT-TGTA
1 TTTAT-TA
18948985 TCTTATGTA
1 T-TTAT-TA
18948994 TTTATTA
1 TTTATTA
18949001 TTTATT-
1 TTTATTA
*
18949007 TAT-TTA
1 TTTATTA
18949013 TTTATTA
1 TTTATTA
*
18949020 -TTACTA
1 TTTATTA
18949026 TTTATTA
1 TTTATTA
*
18949033 -ATATATA
1 TTTAT-TA
18949040 TTTATTA
1 TTTATTA
18949047 TTT-TT-
1 TTTATTA
*
18949052 TTGATCT-
1 TTTAT-TA
* *
18949059 GTTAATA
1 TTTATTA
*
18949066 TTT-GTA
1 TTTATTA
18949072 TTTATTA
1 TTTATTA
18949079 TTTATCTA
1 TTTAT-TA
18949087 TTTA-TA
1 TTTATTA
*
18949093 TATTATAA
1 T-TTATTA
18949101 TTTATCTA
1 TTTAT-TA
18949109 -TTATTA
1 TTTATTA
18949115 TTT-TTA
1 TTTATTA
18949121 TTTAT
1 TTTAT
18949126 CTGTTAATAT
Statistics
Matches: 143, Mismatches: 15, Indels: 42
0.71 0.08 0.21
Matches are distributed among these distances:
5 9 0.06
6 44 0.31
7 67 0.47
8 18 0.13
9 5 0.03
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:18949005 original size:4 final size:4
Alignment explanation
Indices: 18948969--18949125 Score: 58
Period size: 4 Copynumber: 38.2 Consensus size: 4
18948959 ATTTTATATT
* *
18948969 TTTA TTTTA TTT- TGTA TCTTA TGTA TTTA -TTA TTTA TTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
18949017 -TTA TTACTA TTTA TTAATA TATA TTTA -TTA TTTT TTTGA TCTG TTAA
1 TTTA TT--TA TTTA TT--TA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA
* * * *
18949064 TATT- TGTA TTTA -TTA TTTA TCTA TTTA TATA TTATAA TTTA TCTA -TTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA
*
18949112 TTATT TTTA TTTA T
1 TT-TA TTTA TTTA T
18949126 CTGTTAATAT
Statistics
Matches: 111, Mismatches: 24, Indels: 35
0.65 0.14 0.21
Matches are distributed among these distances:
3 17 0.15
4 69 0.62
5 15 0.14
6 10 0.09
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:18949048 original size:21 final size:18
Alignment explanation
Indices: 18948940--18949125 Score: 86
Period size: 19 Copynumber: 10.1 Consensus size: 18
18948930 TATTTTATAT
18948940 TTTATTA-TTATTATTT-
1 TTTATTATTTATTATTTA
*
18948956 TATATT-TTATATT-TTTA
1 TTTATTATT-TATTATTTA
*
18948973 TTTTATT-TTGTATCTTATGTA
1 -TTTATTATT-TA--TTATTTA
18948994 TTTATTATTTATTTATTTA
1 TTTATTATTTA-TTATTTA
*
18949013 TTTATTA-TTACTATTTA
1 TTTATTATTTATTATTTA
*
18949030 TTAATATATATTTATTATTTT
1 TT--TAT-TATTTATTATTTA
* *
18949051 TTTGATCTGTTAATATT-TGTA
1 TTT-AT-TATT--TATTATTTA
18949072 TTTATTATTTATCTATTTA
1 TTTATTATTTAT-TATTTA
* * *
18949091 TATATTA-TAATTTATCTA
1 TTTATTATTTA-TTATTTA
18949109 -TTATTATTT-TTATTTA
1 TTTATTATTTATTATTTA
18949125 T
1 T
18949126 CTGTTAATAT
Statistics
Matches: 129, Mismatches: 21, Indels: 39
0.68 0.11 0.21
Matches are distributed among these distances:
16 15 0.12
17 20 0.16
18 21 0.16
19 30 0.23
20 19 0.15
21 20 0.16
22 4 0.03
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTATTATTTATTATTTA
Found at i:18949123 original size:20 final size:20
Alignment explanation
Indices: 18949070--18949186 Score: 99
Period size: 20 Copynumber: 5.5 Consensus size: 20
18949060 TTAATATTTG
18949070 TATTTATTATTTATCTATTTAT
1 TATTT-TTATTTATCTA-TTAT
* *
18949092 ATATTATAATTTATCTATTAT
1 -TATTTTTATTTATCTATTAT
* *
18949113 TATTTTTATTTATCTGTTAA
1 TATTTTTATTTATCTATTAT
*
18949133 TATTTTGATTTATCTGATTAT
1 TATTTTTATTTATCT-ATTAT
* * * *
18949154 TTTCTTTTAATTATCTCTTAA
1 TAT-TTTTATTTATCTATTAT
18949175 TATTTTTTATTT
1 TA-TTTTTATTT
18949187 GATTTTTATT
Statistics
Matches: 75, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
20 30 0.40
21 20 0.27
22 21 0.28
23 4 0.05
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (20 bp):
TATTTTTATTTATCTATTAT
Found at i:18949124 original size:42 final size:41
Alignment explanation
Indices: 18949070--18949207 Score: 124
Period size: 42 Copynumber: 3.4 Consensus size: 41
18949060 TTAATATTTG
*
18949070 TATTTATTATTTATCTATTTATATATTATAATTTATCT-ATTAT
1 TATTT-TTATTTATCT-GTTA-ATATTATAATTTATCTGATTAT
* *
18949113 TATTTTTATTTATCTGTTAATATTTTGATTTATCTGATTAT
1 TATTTTTATTTATCTGTTAATATTATAATTTATCTGATTAT
* * * * *
18949154 TTTCTTTTAATTATCTCTTAATATT-T--TTTATTTGATTTT
1 TAT-TTTTATTTATCTGTTAATATTATAATTTATCTGATTAT
*
18949193 TATTTTT-TTTTTCTG
1 TATTTTTATTTATCTG
18949208 CTGAGATTGG
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
37 5 0.06
38 4 0.05
39 13 0.16
40 14 0.17
41 11 0.14
42 29 0.36
43 5 0.06
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (41 bp):
TATTTTTATTTATCTGTTAATATTATAATTTATCTGATTAT
Found at i:18949485 original size:12 final size:12
Alignment explanation
Indices: 18949468--18949525 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
18949458 AGGAATCAGT
18949468 GAAAATTTTTTG
1 GAAAATTTTTTG
*
18949480 GAAAATTTTTTT
1 GAAAATTTTTTG
* *
18949492 TATGAATTTTTTTG
1 GA--AAATTTTTTG
18949506 G-AAA-TTTTTG
1 GAAAATTTTTTG
18949516 GAAAATTTTT
1 GAAAATTTTT
18949526 AGATTTCGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 7 0.19
11 5 0.14
12 16 0.44
14 8 0.22
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (12 bp):
GAAAATTTTTTG
Found at i:18950029 original size:4 final size:4
Alignment explanation
Indices: 18950022--18950047 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18950012 TTTTTTTATT
18950022 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
18950048 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:18950088 original size:6 final size:6
Alignment explanation
Indices: 18950077--18950122 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
18950067 TGTTTAATAT
*
18950077 TTTTTA TTTTTA TTTTCA TTTTTA -TTTTA -TTTTA TTATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -T-TTTTA TTTT
18950123 CTTTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 10 0.29
6 19 0.54
7 1 0.03
8 5 0.14
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:18950100 original size:18 final size:18
Alignment explanation
Indices: 18950074--18950122 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
18950064 AATTGTTTAA
18950074 TATTTTTTATTTTTATTT
1 TATTTTTTATTTTTATTT
18950092 TCA-TTTTTA-TTTTATTT
1 T-ATTTTTTATTTTTATTT
18950109 TATTATTTTATTTT
1 TATT-TTTTATTTT
18950123 CTTTAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.04
17 10 0.37
18 12 0.44
19 4 0.15
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
TATTTTTTATTTTTATTT
Found at i:18950184 original size:30 final size:29
Alignment explanation
Indices: 18950150--18950244 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 29
18950140 AAAAATATTT
18950150 TTGAAAAAAAGTTGAAAGTATCAATTTTCC
1 TTGAAAAAAAGTTGAAA-TATCAATTTTCC
* *
18950180 TTGAAAATAAGCTTTCTAAA-A--AATATTT--
1 TTGAAAAAAAG--TT-GAAATATCAAT-TTTCC
*
18950208 TTGAGAAAAAGTTGAAAATATCAATTTTCC
1 TTGAAAAAAAGTTG-AAATATCAATTTTCC
18950238 TTGAAAA
1 TTGAAAA
18950245 TAAGCTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 20
0.65 0.08 0.27
Matches are distributed among these distances:
26 5 0.10
27 1 0.02
28 12 0.24
29 6 0.12
30 19 0.39
31 1 0.02
32 2 0.04
33 3 0.06
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (29 bp):
TTGAAAAAAAGTTGAAATATCAATTTTCC
Found at i:18950201 original size:58 final size:57
Alignment explanation
Indices: 18950139--18950414 Score: 277
Period size: 58 Copynumber: 4.7 Consensus size: 57
18950129 ATAAAATTCA
18950139 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTT-T
* *
18950197 AAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAGCTTTTT
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGC-TTTT
* * * *
18950255 AAAAAAATATATTTTTGGAAAAAAGTCGAAAGTATCAATTTTCCTTAAAAACAAG-TTTT
1 --AAAAA-ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTT
* * * * * * * ** **
18950314 CAAAAGTGAATTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAAATTAAA
1 AAAAAAT--ATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGCTT-TT
*
18950375 AAAAATATATTTTTGGAAAATAA-TTGAAAGTATCAATTTT
1 AAAAA-ATATTTTT-GAAAAAAAGTTGAAAGTATCAATTTT
18950415 TTCTGCACAA
Statistics
Matches: 180, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
56 1 0.01
57 4 0.02
58 85 0.47
59 9 0.05
60 29 0.16
61 51 0.28
62 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTT
Found at i:18950269 original size:119 final size:117
Alignment explanation
Indices: 18950138--18950414 Score: 330
Period size: 119 Copynumber: 2.4 Consensus size: 117
18950128 AATAAAATTC
* *
18950138 AAAAAA-ATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAA
1 AAAAAATATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAG-TTT-TAAAAA
* *** *
18950202 AT-ATTTTTG-AGAAAAAGTTGAAAA-TATCAATTTTCCTTGAAAATAAGCTTTTTA
64 ATAATTTTTGAAG-AAAAGTT-AAAAGTATCAATTTTCCTCGAAAATAA-AAATTAA
* * * *
18950256 AAAAAATATATTTTTGGAAAAAAGTCGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCAAAAGT
1 AAAAAATATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTAAAAAAT
* *
18950321 GAATTTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAAAAATTAA
66 -AATTTTTGAAGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAATTAA
*
18950374 AAAAAATATATTTTTGGAAAATAA-TTGAAAGTATCAATTTT
1 AAAAAATATATTTTT-GAAAAAAAGTTGAAAGTATCAATTTT
18950415 TTCTGCACAA
Statistics
Matches: 137, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
117 6 0.04
118 47 0.34
119 82 0.60
120 2 0.01
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (117 bp):
AAAAAATATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTAAAAAAT
AATTTTTGAAGAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAAATTAA
Found at i:18961191 original size:42 final size:41
Alignment explanation
Indices: 18961121--18961307 Score: 270
Period size: 42 Copynumber: 4.5 Consensus size: 41
18961111 CAAGGAGTAT
* *
18961121 TTTA-TTTTCAAAAGTTGTGGTTCATCTGTTTAGAAGAGCAA
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAAGAGCAA
*
18961162 TTTATTTTTCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTTCAAAGTTGTGG-TGCCTCTGTTTAGAAGAGCAA
*
18961204 TTTTATTTTTCAAAGTTGTGGTGCCTCGGTTTA-AAGGAGCAA
1 -TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAA-GAGCAA
*
18961246 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCAA
18961287 TTTATTTTTTCAAAGTTGTGG
1 TTTA-TTTTTCAAAGTTGTGG
18961308 GAGCAATTTG
Statistics
Matches: 133, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
41 56 0.42
42 57 0.43
43 20 0.15
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCAA
Found at i:18961328 original size:27 final size:27
Alignment explanation
Indices: 18961280--18961334 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
18961270 TCTGTTTAGA
* *
18961280 GGAGCAATTTATTTTTTCAAAGTTGTG
1 GGAGCAATTTAGTTTTTCAAAGTGGTG
18961307 GGAGCAATTT-GTTTTTCAAAAGTGGTG
1 GGAGCAATTTAGTTTTTC-AAAGTGGTG
18961334 G
1 G
18961335 TGCCTCTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.40
Consensus pattern (27 bp):
GGAGCAATTTAGTTTTTCAAAGTGGTG
Found at i:18961355 original size:69 final size:68
Alignment explanation
Indices: 18961239--18961372 Score: 205
Period size: 69 Copynumber: 2.0 Consensus size: 68
18961229 TCGGTTTAAA
* * ** *
18961239 GGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTT
1 GGAGCAATTTATTTTTCAAAGTGGTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGTT
18961304 GTG
66 GTG
*
18961307 GGAGCAATTTGTTTTTCAAAAGTGGTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGT
1 GGAGCAATTTATTTTTC-AAAGTGGTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGT
18961372 T
65 T
18961373 ATGGTGCCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
68 16 0.27
69 43 0.73
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (68 bp):
GGAGCAATTTATTTTTCAAAGTGGTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGTT
GTG
Found at i:18961431 original size:42 final size:42
Alignment explanation
Indices: 18961307--18961477 Score: 163
Period size: 42 Copynumber: 4.1 Consensus size: 42
18961297 CAAAGTTGTG
* * *
18961307 GGAGCAATTTGTTTTTCAAAAGTGGTGGTGCCTCTGTTTAAA
1 GGAGCAATTTATTTTTCAAAAGTGATGGTGCCTCTGTTTAGA
** * *
18961349 AAAGCAATTTACTTTTTC-AAAGTTATGGTGCCTCTATTTAGA
1 GGAGCAATTTA-TTTTTCAAAAGTGATGGTGCCTCTGTTTAGA
* *
18961391 GGAGCAATTTATTTTTCAAAAGTGCTGGTGCCTTTGTTTAGA
1 GGAGCAATTTATTTTTCAAAAGTGATGGTGCCTCTGTTTAGA
* * *
18961433 GAAG-TATTTAATTTTTTC-AAAGTCAT--TAGCCTCTGTTTAGA
1 GGAGCAATTT-A-TTTTTCAAAAGTGATGGT-GCCTCTGTTTAGA
18961474 GGAG
1 GGAG
18961478 TTTTATTTAC
Statistics
Matches: 105, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 25 0.24
42 67 0.64
43 12 0.11
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (42 bp):
GGAGCAATTTATTTTTCAAAAGTGATGGTGCCTCTGTTTAGA
Found at i:18961442 original size:152 final size:153
Alignment explanation
Indices: 18961156--18961455 Score: 421
Period size: 152 Copynumber: 2.0 Consensus size: 153
18961146 CTGTTTAGAA
* * **
18961156 GAGCAATTTATTTTTCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGCAATTTTATTTTTCAAAGTT
1 GAGCAATTTATTTTTCAAAGTGGTGGTTGCCTCTGTTTAAAAAAGCAATTTTATTTTTCAAAGTT
* * *
18961221 GTGGTGCCTCGGTTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCA
66 ATGGTGCCTCGATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCA
18961286 ATTT-ATTTTTTCAAAGTTGTGG
131 ATTTAATTTTTTCAAAGTTGTGG
*
18961308 GAGCAATTTGTTTTTCAAAAGTGGTGG-TGCCTCTGTTTAAAAAAGCAA-TTTACTTTTTCAAAG
1 GAGCAATTTATTTTTC-AAAGTGGTGGTTGCCTCTGTTTAAAAAAGCAATTTTA-TTTTTCAAAG
* * *
18961371 TTATGGTGCCTCTATTTAGAGGAGCAATTTATTTTTCAAAAG-TGCTGGTGCCTTTGTTTAGAGA
64 TTATGGTGCCTCGATTTAAAGGAGCAATTTATTTTTC-AAAGTTG-TGGTGCCTCTGTTTAGAGA
*
18961435 AG-TATTTAATTTTTTCAAAGT
127 AGCAATTTAATTTTTTCAAAGT
18961456 CATTAGCCTC
Statistics
Matches: 131, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
151 4 0.03
152 82 0.63
153 45 0.34
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (153 bp):
GAGCAATTTATTTTTCAAAGTGGTGGTTGCCTCTGTTTAAAAAAGCAATTTTATTTTTCAAAGTT
ATGGTGCCTCGATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGAAGCA
ATTTAATTTTTTCAAAGTTGTGG
Found at i:18961449 original size:84 final size:83
Alignment explanation
Indices: 18961307--18961477 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 83
18961297 CAAAGTTGTG
* *
18961307 GGAGCAATTTGTTTTTCAAAAGTGGTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGT
1 GGAGCAATTTATTTTTCAAAAGTGCTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGT
*
18961372 TATGGT-GCCTCTATTTAGA
66 CAT--TAGCCTCTATTTAGA
* * * * *
18961391 GGAGCAATTTATTTTTCAAAAGTGCTGGTGCCTTTGTTTAGAGAAG-TATTTAATTTTTTCAAAG
1 GGAGCAATTTATTTTTCAAAAGTGCTGGTGCCTCTGTTTAAAAAAGCAATTT-ACTTTTTCAAAG
*
18961455 TCATTAGCCTCTGTTTAGA
65 TCATTAGCCTCTATTTAGA
18961474 GGAG
1 GGAG
18961478 TTTTATTTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
82 1 0.01
83 20 0.26
84 55 0.72
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (83 bp):
GGAGCAATTTATTTTTCAAAAGTGCTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGT
CATTAGCCTCTATTTAGA
Found at i:18961467 original size:194 final size:193
Alignment explanation
Indices: 18961125--18961477 Score: 482
Period size: 194 Copynumber: 1.8 Consensus size: 193
18961115 GAGTATTTTA
* * * * *
18961125 TTTTCAAAAGTTGTGGTTCATCTGTTTAGAAGAGCAATTTATTTTTCAAAGTTGTGGTTGCCTCT
1 TTTTCAAAAGTGGTGGTGCATCTGTTTAAAAAAGCAATTTATTTTTCAAAGTTATGGTTGCCTCT
* *
18961190 GTTTAGAGGAGCAATTTTATTTTTCAAAGTTGTGGTGCCTCGGTTTAAAGGAGCAATTTATTTTT
66 ATTTAGAGGAGCAATTTTATTTTTCAAAGTTGTGGTGCCTCGGTTTAAAGAAGCAATTTATTTTT
**
18961255 CAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGGAGCAATTTGT
131 CAAAGTCAT-GTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGGAGCAATTTGT
*
18961319 TTTTCAAAAGTGGTGGTGCCTCTGTTTAAAAAAGCAATTTACTTTTTCAAAGTTATGG-TGCCTC
1 TTTTCAAAAGTGGTGGTGCATCTGTTTAAAAAAGCAATTTA-TTTTTCAAAGTTATGGTTGCCTC
** * *
18961383 TATTTAGAGGAGCAA-TTTATTTTTCAAAAG-TGCTGGTGCCTTTGTTTAGAGAAG-TATTTAAT
65 TATTTAGAGGAGCAATTTTATTTTTC-AAAGTTG-TGGTGCCTCGGTTTAAAGAAGCAATTT-A-
18961445 TTTTTCAAAGTCAT-TAGCCTCTGTTTAGAGGAG
126 TTTTTCAAAGTCATGT-GCCTCTGTTTAGAGGAG
18961478 TTTTATTTAC
Statistics
Matches: 139, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
193 17 0.12
194 95 0.68
195 27 0.19
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (193 bp):
TTTTCAAAAGTGGTGGTGCATCTGTTTAAAAAAGCAATTTATTTTTCAAAGTTATGGTTGCCTCT
ATTTAGAGGAGCAATTTTATTTTTCAAAGTTGTGGTGCCTCGGTTTAAAGAAGCAATTTATTTTT
CAAAGTCATGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTTGTGGGAGCAATTTGT
Found at i:18968946 original size:42 final size:40
Alignment explanation
Indices: 18968894--18968971 Score: 102
Period size: 42 Copynumber: 1.9 Consensus size: 40
18968884 AACGGTAAAA
* *
18968894 TAATTTATTAATTTAATATAATAAATAAATAAATTTAATTAT
1 TAATTAATTAATTTAATAAAAT-AATAAAT-AATTTAATTAT
* *
18968936 TAATTAATTAATTTTATAAAATATTAAATAATTTAA
1 TAATTAATTAATTTAATAAAATAATAAATAATTTAA
18968972 AATTTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 7 0.22
41 6 0.19
42 19 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (40 bp):
TAATTAATTAATTTAATAAAATAATAAATAATTTAATTAT
Found at i:18970549 original size:78 final size:78
Alignment explanation
Indices: 18970447--18970594 Score: 235
Period size: 78 Copynumber: 1.9 Consensus size: 78
18970437 TAGAAAGTTG
* * * *
18970447 AATGTAAATGCAAAAGTATGGATGTGATTTTGTGATTTATGAAAGTGAAGCTGAGATGGGATTGT
1 AATGAAAATGCAAAAGTATAGATGTGATTTTGTGATGTATGAAAGTGAAGCAGAGATGGGATTGT
18970512 ATAGAAGAGAAAA
66 ATAGAAGAGAAAA
*
18970525 AATGAAAATGCAAAAGT-TCAGATGTGATTTTGTGATGTATGAAAGTGAAGCAGGGATGGGATTG
1 AATGAAAATGCAAAAGTAT-AGATGTGATTTTGTGATGTATGAAAGTGAAGCAGAGATGGGATTG
18970589 TATAGA
65 TATAGA
18970595 TGTTTATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
77 1 0.02
78 63 0.98
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.29
Consensus pattern (78 bp):
AATGAAAATGCAAAAGTATAGATGTGATTTTGTGATGTATGAAAGTGAAGCAGAGATGGGATTGT
ATAGAAGAGAAAA
Found at i:18992280 original size:21 final size:22
Alignment explanation
Indices: 18992237--18992286 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
18992227 TGAGATGTTT
18992237 CTTTTTTAATAATTAATTTTGTA
1 CTTTTTTAATAATT-ATTTTGTA
18992260 CTTTTTT-ATAATT-TTTATGTA
1 CTTTTTTAATAATTATTT-TGTA
*
18992281 GTTTTT
1 CTTTTT
18992287 GACATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 9 0.36
22 6 0.24
23 7 0.28
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.66
Consensus pattern (22 bp):
CTTTTTTAATAATTATTTTGTA
Found at i:18992761 original size:28 final size:28
Alignment explanation
Indices: 18992701--18992762 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
18992691 AAATAAAAAT
18992701 TTATTTGGATACAAATTAAAAAATAAGG
1 TTATTTGGATACAAATTAAAAAATAAGG
*
18992729 ATATTTGGATAC-AA-TAAAAATATAAAGG
1 TTATTTGGATACAAATTAAAAA-AT-AAGG
18992757 TTATTT
1 TTATTT
18992763 TAAAAGGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.20
27 4 0.13
28 20 0.67
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (28 bp):
TTATTTGGATACAAATTAAAAAATAAGG
Found at i:18993126 original size:21 final size:21
Alignment explanation
Indices: 18993101--18993141 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
18993091 CAAATTATCA
18993101 TATTA-AATTCTAAACAAATCT
1 TATTAGAATTCTAAA-AAATCT
18993122 TATTAGGAATTCTAAAAAAT
1 TATTA-GAATTCTAAAAAAT
18993142 AAGTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 4 0.22
23 9 0.50
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (21 bp):
TATTAGAATTCTAAAAAATCT
Found at i:18993710 original size:22 final size:25
Alignment explanation
Indices: 18993691--18993741 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
18993681 TGAAATTAAA
*
18993691 AATAA-TAATAAAATTTATTATAAT
1 AATAATTAAAAAAATTTATTATAAT
*
18993715 TATAATTAAAAAAATTTA-TATTAAT
1 AATAATTAAAAAAATTTATTA-TAAT
18993740 AA
1 AA
18993742 ATTTCATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATAATTAAAAAAATTTATTATAAT
Found at i:18994125 original size:2 final size:2
Alignment explanation
Indices: 18994118--18994147 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18994108 CAAATGCAAG
*
18994118 AT AT AT AT AC 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
18994148 TTCTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18998406 original size:18 final size:18
Alignment explanation
Indices: 18998385--18998435 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
18998375 ATTAAGATTT
18998385 TATTAAATATAAATTAAA
1 TATTAAATATAAATTAAA
*
18998403 TATTAAATATTAATTTAAA
1 TATTAAATA-TAAATTAAA
18998422 TA--AAATAATAAATT
1 TATTAAAT-ATAAATT
18998436 TCAAAAGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 9 0.31
18 10 0.34
19 10 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTAAATATAAATTAAA
Found at i:18998427 original size:24 final size:25
Alignment explanation
Indices: 18998385--18998434 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
18998375 ATTAAGATTT
* *
18998385 TATTAAATATAAATTAAATATTAAA
1 TATTAAATATAAATAAAATAATAAA
*
18998410 TATT-AATTTAAATAAAATAATAAA
1 TATTAAATATAAATAAAATAATAAA
18998434 T
1 T
18998435 TTCAAAAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TATTAAATATAAATAAAATAATAAA
Found at i:19001350 original size:19 final size:19
Alignment explanation
Indices: 19001307--19001368 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
19001297 GAGATTTATG
*
19001307 AAATTATAAGTATAA--AA
1 AAATTATAATTATAATTAA
19001324 AAATTATAATTATAATTAA
1 AAATTATAATTATAATTAA
* *
19001343 ATATTATATTTAT-ATTAAA
1 AAATTATAATTATAATT-AA
19001362 AAATTAT
1 AAATTAT
19001369 TGAATAATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 14 0.37
18 3 0.08
19 21 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AAATTATAATTATAATTAA
Found at i:19001636 original size:62 final size:57
Alignment explanation
Indices: 19001564--19001677 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
19001554 GGATAAAAGA
* *
19001564 TAAATTAAAAA--ATAAAAAAAACTATAATAAAACTTAATAAGGGCATATCATTGCT
1 TAAATTAAAAATTAAAAAAAAAACTATAATAAAACTTAATAAGGGCATATCATTACT
* *
19001619 TAAATTAAAAATTAAAAAAAAAACTATAGTAGAACTTAATAAGGGCATATCATTACT
1 TAAATTAAAAATTAAAAAAAAAACTATAATAAAACTTAATAAGGGCATATCATTACT
19001676 TA
1 TA
19001678 TCCATTTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 11 0.21
57 42 0.79
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (57 bp):
TAAATTAAAAATTAAAAAAAAAACTATAATAAAACTTAATAAGGGCATATCATTACT
Found at i:19002645 original size:11 final size:11
Alignment explanation
Indices: 19002631--19002669 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19002621 TTTGTAAATT
19002631 ATTTAAATTTA
1 ATTTAAATTTA
**
19002642 ATTTAAATAAA
1 ATTTAAATTTA
*
19002653 ATTTAAATTTG
1 ATTTAAATTTA
19002664 ATTTAA
1 ATTTAA
19002670 TTATTATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:19002800 original size:19 final size:18
Alignment explanation
Indices: 19002771--19002806 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19002761 AATTAATCAA
19002771 ATTTTTATATTTAAATAT
1 ATTTTTATATTTAAATAT
*
19002789 ATTTTTATTATTTTAATA
1 ATTTTTA-TATTTAAATA
19002807 AATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTATATTTAAATAT
Found at i:19002893 original size:25 final size:25
Alignment explanation
Indices: 19002835--19002893 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
19002825 TAAATTCAAA
*
19002835 TTTAAATATAAATAATTAAGTTTTT
1 TTTAAATATAAATAATTAAATTTTT
*
19002860 ATTAAATATAAA-AATTAAATTTATT
1 TTTAAATATAAATAATTAAATTT-TT
*
19002885 TTTACATAT
1 TTTAAATAT
19002894 TGATAGAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTAAATATAAATAATTAAATTTTT
Found at i:19002994 original size:14 final size:13
Alignment explanation
Indices: 19002963--19003000 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
19002953 AAAACTTAAT
19002963 TAAA-TTTAAA-C
1 TAAATTTTAAATC
19002974 TAAATTTTAAATC
1 TAAATTTTAAATC
19002987 TCAAATTTTAAATC
1 T-AAATTTTAAATC
19003001 AAGTTTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.17
12 6 0.25
13 2 0.08
14 12 0.50
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (13 bp):
TAAATTTTAAATC
Found at i:19005585 original size:26 final size:26
Alignment explanation
Indices: 19005549--19005611 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
19005539 CTTTGTCATT
19005549 CACTCACACATGCATGCAGCCACGCA
1 CACTCACACATGCATGCAGCCACGCA
* **
19005575 CACTCACACATGCATGCAGCCGCGTG
1 CACTCACACATGCATGCAGCCACGCA
19005601 CACTCACACAT
1 CACTCACACAT
19005612 TTGCTTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.29, C:0.41, G:0.16, T:0.14
Consensus pattern (26 bp):
CACTCACACATGCATGCAGCCACGCA
Found at i:19029524 original size:23 final size:23
Alignment explanation
Indices: 19029485--19029534 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
19029475 AAATTATATG
*
19029485 TTTTTAATACTTCAA-TTTATTA
1 TTTTTAATACTTCAATTTTATAA
* *
19029507 TTTTTTATATTTCAAATTTTATAA
1 TTTTTAATACTTC-AATTTTATAA
19029531 TTTT
1 TTTT
19029535 ACAATTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
23 2 0.09
24 10 0.43
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTAATACTTCAATTTTATAA
Found at i:19032443 original size:18 final size:18
Alignment explanation
Indices: 19032420--19032455 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19032410 TTACCATTTG
19032420 CATCTCTTTCTCTATCCC
1 CATCTCTTTCTCTATCCC
19032438 CATCTCTTTCTCTATCCC
1 CATCTCTTTCTCTATCCC
19032456 AGATTGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.44, G:0.00, T:0.44
Consensus pattern (18 bp):
CATCTCTTTCTCTATCCC
Found at i:19037103 original size:20 final size:21
Alignment explanation
Indices: 19037078--19037131 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
19037068 AGTATTTATA
*
19037078 AATTGATTATGAT-ATGTAAT
1 AATTGATTATGATAATATAAT
19037098 AATTGATTAT-ATAGATATAAT
1 AATTGATTATGATA-ATATAAT
*
19037119 ATTTGATTATGAT
1 AATTGATTATGAT
19037132 TTTAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 10 0.34
21 15 0.52
22 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (21 bp):
AATTGATTATGATAATATAAT
Found at i:19037992 original size:22 final size:21
Alignment explanation
Indices: 19037967--19038035 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
19037957 TTATTTAGTG
19037967 ATTTATTTATTTATATATCTTT
1 ATTTATTTATTTAT-TATCTTT
* *
19037989 ATTTATTTCTTAATTATCTTT
1 ATTTATTTATTTATTATCTTT
*
19038010 AGTTTAGTTTATTTTTTAT-TTT
1 A-TTTA-TTTATTTATTATCTTT
19038032 ATTT
1 ATTT
19038036 TTTTTAAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.28
22 20 0.50
23 9 0.22
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTATTTATTTATTATCTTT
Found at i:19038729 original size:16 final size:16
Alignment explanation
Indices: 19038679--19038739 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 16
19038669 TTTTAAATTA
*
19038679 TTATTTAATTTTACATT
1 TTATTTAATTTTATA-T
19038696 TATATATATAATTTTTATAT
1 T-TAT-T-TAA-TTTTATAT
19038716 TTATTTAATTTTATAT
1 TTATTTAATTTTATAT
19038732 TTATTTAA
1 TTATTTAA
19038740 AAAATAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
16 16 0.41
17 4 0.10
18 4 0.10
19 4 0.10
20 5 0.13
21 6 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTTAATTTTATAT
Found at i:19044923 original size:22 final size:23
Alignment explanation
Indices: 19044881--19044936 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
19044871 TTTAGATTAA
*
19044881 AATCTTTAAAATTTTTGAATGTG
1 AATCTTTAAAATTTTTAAATGTG
*
19044904 AATCTTTGAAA-TTTTAAATGTG
1 AATCTTTAAAATTTTTAAATGTG
*
19044926 AATCTCTAAAA
1 AATCTTTAAAA
19044937 CCTTTCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (23 bp):
AATCTTTAAAATTTTTAAATGTG
Found at i:19044930 original size:90 final size:90
Alignment explanation
Indices: 19044800--19044965 Score: 219
Period size: 90 Copynumber: 1.8 Consensus size: 90
19044790 ATAATATTTG
* ** * *
19044800 AATTTTAGAAGTTAATATTTGAAATTTTTTTATGTGAATCTCTAAAACTTTTCGAATACAAAAT-
1 AATTTTAGAAGTGAATATTTGAAATTTTTAAATGTGAATCTCTAAAACCTTTCAAATAC-AAATC
19044864 TTTAAATTTTAGATTAAAATCTTTAA
65 TTTAAATTTTAGATTAAAATCTTTAA
* * *
19044890 AATTTTTGAATGTGAATCTTTGAAA-TTTTAAATGTGAATCTCTAAAACCTTTCAAATTCAAATC
1 AATTTTAGAA-GTGAATATTTGAAATTTTTAAATGTGAATCTCTAAAACCTTTCAAATACAAATC
*
19044954 TTTGAATTTTAG
65 TTTAAATTTTAG
19044966 GTCAAATATA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
89 4 0.06
90 49 0.75
91 12 0.18
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (90 bp):
AATTTTAGAAGTGAATATTTGAAATTTTTAAATGTGAATCTCTAAAACCTTTCAAATACAAATCT
TTAAATTTTAGATTAAAATCTTTAA
Found at i:19045410 original size:30 final size:31
Alignment explanation
Indices: 19045362--19045425 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
19045352 AAAAAAATCT
* *
19045362 AAAAAATTCAACATAAATTTAAA-TTTTTCTA
1 AAAAAATTCAACAAAAATTAAAACTTTTT-TA
*
19045393 AAAAAATT-AAGAAAAATTAAAACTTTTTTA
1 AAAAAATTCAACAAAAATTAAAACTTTTTTA
19045423 AAA
1 AAA
19045426 TCTCAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (31 bp):
AAAAAATTCAACAAAAATTAAAACTTTTTTA
Found at i:19045670 original size:19 final size:19
Alignment explanation
Indices: 19045642--19045692 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
19045632 TTAAATATTT
19045642 TTTAAA-TTTTTAAAAAAA
1 TTTAAATTTTTTAAAAAAA
*
19045660 TTTAAATTTTTTATTAAAAA
1 TTTAAATTTTTTA-AAAAAA
*
19045680 -TAAAATTTTTTAA
1 TTTAAATTTTTTAA
19045693 TTTTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.21
19 17 0.61
20 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAATTTTTTAAAAAAA
Found at i:19045873 original size:26 final size:26
Alignment explanation
Indices: 19045826--19045919 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 26
19045816 TATTCAAAAA
* * *
19045826 TTTTAGATTTTTTTTTACTTTTCAGTT
1 TTTTA-ATTTTTTTATAATTTTCAATT
* * **
19045853 TTTTAATTTTTTTATGATTTTTAAAA
1 TTTTAATTTTTTTATAATTTTCAATT
*
19045879 TTTTAATTTTTATTAAAATTTTCAATTT
1 TTTTAATTTTT-TTATAATTTTCAA-TT
19045907 TTTCTAATTTTTT
1 TTT-TAATTTTTT
19045920 AAATTATCAT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
26 25 0.48
27 15 0.29
28 4 0.08
29 8 0.15
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTAATTTTTTTATAATTTTCAATT
Found at i:19045907 original size:19 final size:18
Alignment explanation
Indices: 19045873--19045908 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
19045863 TTTATGATTT
19045873 TTAAAATTTTAATTTTTA
1 TTAAAATTTTAATTTTTA
19045891 TTAAAATTTTCAATTTTT
1 TTAAAATTTT-AATTTTT
19045909 TCTAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAAATTTTAATTTTTA
Found at i:19045921 original size:27 final size:27
Alignment explanation
Indices: 19045886--19045972 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
19045876 AAATTTTAAT
19045886 TTTTATTAAAATTTTCAATTTTTTCTAA
1 TTTT-TTAAAATTTTCAATTTTTTCTAA
* * * *
19045914 TTTTTT-AAATTATCATAATTTGTATAA
1 TTTTTTAAAATTTTCA-ATTTTTTCTAA
*
19045941 TTTTTGAAAATATTTC-ATTTTTTC--A
1 TTTTTTAAAAT-TTTCAATTTTTTCTAA
19045966 TTTTTTA
1 TTTTTTA
19045973 TATATTTTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
25 7 0.15
26 8 0.17
27 20 0.43
28 8 0.17
29 3 0.07
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTTTAAAATTTTCAATTTTTTCTAA
Found at i:19046027 original size:29 final size:30
Alignment explanation
Indices: 19045995--19046062 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
19045985 TTTTCTAAAA
*
19045995 ATTTTTTATAATCTT-TTAAAACTATTT-AG-
1 ATTTTTTATAAT-TTATTAAAAAT-TTTGAGA
*
19046024 ATTTTTTTTAATTTATTAAAAATTTTGAGA
1 ATTTTTTATAATTTATTAAAAATTTTGAGA
19046054 ATTTTTTAT
1 ATTTTTTAT
19046063 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 5 0.15
29 20 0.61
30 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (30 bp):
ATTTTTTATAATTTATTAAAAATTTTGAGA
Found at i:19046538 original size:36 final size:37
Alignment explanation
Indices: 19046482--19046554 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
19046472 CTAAAAATTA
*
19046482 CAATTGCAAATCTTTGAAA-TTATTTGTCAATCTTTT
1 CAATTGCAAATCTTTAAAATTTATTTGTCAATCTTTT
*
19046518 CAATTGCAAAAT-TTTAAAATTTTATTTGTGAATCTTT
1 CAATTGC-AAATCTTTAAAA-TTTATTTGTCAATCTTT
19046555 GAAATCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 4 0.12
38 15 0.47
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (37 bp):
CAATTGCAAATCTTTAAAATTTATTTGTCAATCTTTT
Found at i:19047559 original size:11 final size:11
Alignment explanation
Indices: 19047545--19047580 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
19047535 TTTAATAATT
*
19047545 TTTTATTTTTA
1 TTTTGTTTTTA
*
19047556 TTTTGTTTTTG
1 TTTTGTTTTTA
19047567 TTTTGTTTTTA
1 TTTTGTTTTTA
19047578 TTT
1 TTT
19047581 ATGTAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.83
Consensus pattern (11 bp):
TTTTGTTTTTA
Found at i:19047991 original size:12 final size:12
Alignment explanation
Indices: 19047960--19048004 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
19047950 TTTGATATTA
*
19047960 ATTTTAATTTTG
1 ATTTTAGTTTTG
*
19047972 ATTTT--TTTAG
1 ATTTTAGTTTTG
19047982 -TTTTAGTTTTG
1 ATTTTAGTTTTG
19047993 ATTTTAGTTTTG
1 ATTTTAGTTTTG
19048005 TGAGTCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 4 0.14
10 4 0.14
11 4 0.14
12 16 0.57
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (12 bp):
ATTTTAGTTTTG
Found at i:19048955 original size:22 final size:21
Alignment explanation
Indices: 19048907--19048956 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
19048897 CCAATCACAG
** *
19048907 GTTTTTCTTTTTTTTTATTTT
1 GTTTTTCCCTTTTTTGATTTT
19048928 GATTTTTCCCTTTTTTGATTTTT
1 G-TTTTTCCCTTTTTTGA-TTTT
19048951 GTTTTT
1 GTTTTT
19048957 TATTCTCGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.06, C:0.08, G:0.08, T:0.78
Consensus pattern (21 bp):
GTTTTTCCCTTTTTTGATTTT
Found at i:19049177 original size:20 final size:20
Alignment explanation
Indices: 19049152--19049190 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19049142 TGCATTAATT
19049152 GCATGATATATTATATTATG
1 GCATGATATATTATATTATG
*
19049172 GCATGATATATTGTATTAT
1 GCATGATATATTATATTAT
19049191 TATTGCATGG
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:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
GCATGATATATTATATTATG
Found at i:19050229 original size:13 final size:13
Alignment explanation
Indices: 19050211--19050235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19050201 ATGAGAGTAA
19050211 TTTTAATATTAAT
1 TTTTAATATTAAT
19050224 TTTTAATATTAA
1 TTTTAATATTAA
19050236 ATTTATTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATATTAAT
Found at i:19051069 original size:21 final size:21
Alignment explanation
Indices: 19051043--19051093 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
19051033 TTATTTAGTG
*
19051043 ATTTATTTCTT-ATATATTTTT
1 ATTTATTTCTTAAT-TATCTTT
19051064 ATTTATTTCTTAATTATCTTT
1 ATTTATTTCTTAATTATCTTT
19051085 ACTTTATTT
1 A-TTTATTT
19051094 TAATTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTATTTCTTAATTATCTTT
Found at i:19051157 original size:6 final size:6
Alignment explanation
Indices: 19051146--19051180 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
19051136 AGTTGAAAAA
19051146 GGGTGT GGGTGT GGGTGT GGGTGT GGGTGT GGGTG
1 GGGTGT GGGTGT GGGTGT GGGTGT GGGTGT GGGTG
19051181 AGGTTGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (6 bp):
GGGTGT
Found at i:19051361 original size:12 final size:13
Alignment explanation
Indices: 19051337--19051365 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19051327 TTTAAAATTA
19051337 TTTTGAAGATAAT
1 TTTTGAAGATAAT
19051350 TTTTGAAG-TAAT
1 TTTTGAAGATAAT
19051362 TTTT
1 TTTT
19051366 TATTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTTTGAAGATAAT
Found at i:19054854 original size:21 final size:20
Alignment explanation
Indices: 19054811--19054855 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
19054801 AAATTTTTAT
***
19054811 TTTTTTATATTTTAAACTTA
1 TTTTTTATATTTTAAAAAAA
19054831 TTTTTTATGATTTTAAAAAAA
1 TTTTTTAT-ATTTTAAAAAAA
19054852 TTTT
1 TTTT
19054856 AATATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTTATATTTTAAAAAAA
Found at i:19054891 original size:25 final size:24
Alignment explanation
Indices: 19054848--19054911 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
19054838 TGATTTTAAA
* **
19054848 AAAATTTTAATATTAAAAATCA-T
1 AAAATTTTAATTTTAAAAAAAATT
19054871 AAAATTTTAATTTTATTAAAAAAATT
1 AAAATTTTAATTTTA--AAAAAAATT
19054897 AAAA-TTTAATTTTAA
1 AAAATTTTAATTTTAA
19054912 CTAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 15 0.43
25 15 0.43
26 5 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAATTTTAATTTTAAAAAAAATT
Found at i:19055729 original size:2 final size:2
Alignment explanation
Indices: 19055718--19055755 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
19055708 AAACCCAAAT
19055718 TA TA -A TA TA 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 TA TA TA TA TA T
19055756 TAAAAAGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19061743 original size:32 final size:32
Alignment explanation
Indices: 19061702--19061764 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
19061692 TTTATATAAA
19061702 ATATAATATAAA-TATATAAATT-TTAATATTTT
1 ATATAATATAAATTAT-TAAATTATTAA-ATTTT
*
19061734 ATATGATATAAATTATTAAATTATTAAATTT
1 ATATAATATAAATTATTAAATTATTAAATTT
19061765 ATTAAAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (32 bp):
ATATAATATAAATTATTAAATTATTAAATTTT
Found at i:19062603 original size:82 final size:83
Alignment explanation
Indices: 19062501--19062656 Score: 244
Period size: 82 Copynumber: 1.9 Consensus size: 83
19062491 TACATAAATT
* * *
19062501 AATTAGATTAAATTTTAAAATTATTATAGTGTTATTAAAATTTATACAGCAAG-AGAAAATCGCT
1 AATTAGATTAAATTTTAAAATTATTATAGAGTGATTAAAATTTATACAACAAGCA-AAAATCGCT
*
19062565 TTGCATTATATAAAGAACC
65 TTACATTATATAAAGAACC
*
19062584 AATTAG-TTAAATTTTAAAATTATTATAGAGTGATTAAAATTTATACAACAAGCAAAAATGGCTT
1 AATTAGATTAAATTTTAAAATTATTATAGAGTGATTAAAATTTATACAACAAGCAAAAATCGCTT
19062648 TACATTATA
66 TACATTATA
19062657 AAGTATAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
82 60 0.90
83 7 0.10
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (83 bp):
AATTAGATTAAATTTTAAAATTATTATAGAGTGATTAAAATTTATACAACAAGCAAAAATCGCTT
TACATTATATAAAGAACC
Found at i:19063451 original size:4 final size:4
Alignment explanation
Indices: 19063437--19063482 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
19063427 ATGAATGGTT
* * * *
19063437 CATA TATA CATA CATA CATA CATA CATA CATA TATA TATA TATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA
19063483 CATGAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (4 bp):
CATA
Found at i:19063552 original size:13 final size:14
Alignment explanation
Indices: 19063523--19063556 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
19063513 ATTTGTTTCA
*
19063523 TTGAAAATAGTTTT
1 TTGAAAATAGATTT
19063537 TTGAAAATA-ATTT
1 TTGAAAATAGATTT
19063550 TTGAAAA
1 TTGAAAA
19063557 ATGGATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
TTGAAAATAGATTT
Found at i:19064060 original size:16 final size:16
Alignment explanation
Indices: 19064023--19064060 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
19064013 ATTTATTAAA
19064023 ATAT-TTAAAATTATT
1 ATATATTAAAATTATT
19064038 -TATTATTAAAATTATT
1 ATA-TATTAAAATTATT
19064054 ATATATT
1 ATATATT
19064061 CTAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.10
15 1 0.05
16 15 0.75
17 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATTAAAATTATT
Found at i:19064073 original size:47 final size:43
Alignment explanation
Indices: 19064022--19064127 Score: 110
Period size: 47 Copynumber: 2.4 Consensus size: 43
19064012 TATTTATTAA
19064022 AATATTTAAAATTATTTATTATTAAAATTATTATATATTCTAATAAT
1 AATATTTAAAATTATTTATTATTAAAA-TATTAT-TA-T-TAATAAT
* * * *
19064069 AATATTTAATATTA--AATTATTAAAATATTATTATTATTATT
1 AATATTTAAAATTATTTATTATTAAAATATTATTATTAATAAT
19064110 AATATTTTAAAA-TATTTA
1 AATA-TTTAAAATTATTTA
19064128 AAATAGCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
41 11 0.22
42 7 0.14
43 3 0.06
44 6 0.12
45 10 0.20
47 13 0.26
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (43 bp):
AATATTTAAAATTATTTATTATTAAAATATTATTATTAATAAT
Found at i:19064097 original size:37 final size:34
Alignment explanation
Indices: 19064030--19064131 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 34
19064020 AAAATATTTA
* *
19064030 AAATTATTTATTATTAAAATTATT-ATATATTCTA
1 AAATTATTTAATATTAAAATTATTAAAATATT-TA
19064064 ATAATAATATTTAATATT-AAATTATTAAAATA-TT-
1 A-AAT--TATTTAATATTAAAATTATTAAAATATTTA
* *
19064098 --ATTA-TTATTATTAATATT-TTAAAATATTTA
1 AAATTATTTAATATTAAAATTATTAAAATATTTA
19064128 AAAT
1 AAAT
19064132 AGCATTACTT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
28 15 0.27
29 8 0.15
31 2 0.04
32 2 0.04
34 1 0.02
35 4 0.07
36 9 0.16
37 14 0.25
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (34 bp):
AAATTATTTAATATTAAAATTATTAAAATATTTA
Found at i:19064736 original size:9 final size:8
Alignment explanation
Indices: 19064697--19064735 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
19064687 ATTTGATTTG
19064697 ATTAAAATT
1 ATTAAAA-T
19064706 ATTAAAAT
1 ATTAAAAT
*
19064714 ATTTAAA-
1 ATTAAAAT
19064721 ATTAAAAT
1 ATTAAAAT
19064729 ATTAAAA
1 ATTAAAA
19064736 AAATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 14 0.52
9 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTAAAAT
Found at i:19064736 original size:15 final size:15
Alignment explanation
Indices: 19064706--19064736 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19064696 GATTAAAATT
*
19064706 ATTAAAATATTTAAA
1 ATTAAAATATTAAAA
19064721 ATTAAAATATTAAAA
1 ATTAAAATATTAAAA
19064736 A
1 A
19064737 AATTTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAATATTAAAA
Found at i:19065413 original size:30 final size:30
Alignment explanation
Indices: 19065329--19065435 Score: 119
Period size: 30 Copynumber: 3.6 Consensus size: 30
19065319 TATTACACTC
* * *
19065329 AAATAAATTCTTAACT-TTTAATTTATATCT
1 AAATAAACTCTTAA-TATTTAATTTGTATTT
* *
19065359 AAATAAACTTTTAACATTTAATTTGTATTT
1 AAATAAACTCTTAATATTTAATTTGTATTT
* *
19065389 AAATAAA-TCTTTAATATTTAATTTGCACTT
1 AAATAAACTC-TTAATATTTAATTTGTATTT
19065419 AAATAAACTCTTAATAT
1 AAATAAACTCTTAATAT
19065436 AAAACAATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.02
30 62 0.95
31 2 0.03
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (30 bp):
AAATAAACTCTTAATATTTAATTTGTATTT
Found at i:19079285 original size:3 final size:3
Alignment explanation
Indices: 19079279--19079313 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
19079269 ATTGTTCTTC
19079279 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19079314 ATGAAACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19082909 original size:19 final size:19
Alignment explanation
Indices: 19082885--19082924 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
19082875 ATTTTTATTT
* *
19082885 TATAAAAATTTAAAATATA
1 TATAAAAATTAAAAAAATA
19082904 TATAAAAATTAAAAAAATA
1 TATAAAAATTAAAAAAATA
19082923 TA
1 TA
19082925 ATTCAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTAAAAAAATA
Found at i:19087325 original size:20 final size:19
Alignment explanation
Indices: 19087299--19087340 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
19087289 TTGAACTAAA
*
19087299 TTATATAT-TTTTTAATTT
1 TTATATATATTTTAAATTT
19087317 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
19087336 TTATA
1 TTATA
19087341 AAATAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:19088136 original size:22 final size:22
Alignment explanation
Indices: 19088097--19088141 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19088087 TAATCTTAAA
* *
19088097 TAAAATTTTTAATATTTATTAT
1 TAAAATTTTAAATATTTAATAT
19088119 TAAAATTTTAAA-ATTTTAATAT
1 TAAAATTTTAAATA-TTTAATAT
19088141 T
1 T
19088142 TATTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAAATTTTAAATATTTAATAT
Found at i:19088165 original size:30 final size:27
Alignment explanation
Indices: 19088092--19088171 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 27
19088082 TTAATTAATC
19088092 TTAAATAAAAT-TTTTAATATTTATTA
1 TTAAATAAAATATTTTAATATTTATTA
*
19088118 TTAAAATTTTAAA-ATTTTAATATTTATTTA
1 TT-AAA--TAAAATATTTTAATATTTA-TTA
*
19088148 TTAAATGAAATATATTTTATTATT
1 TTAAAT-AAA-ATATTTTAATATT
19088172 GATTGATAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
26 2 0.05
27 4 0.09
28 2 0.05
29 20 0.47
30 15 0.35
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
TTAAATAAAATATTTTAATATTTATTA
Found at i:19090414 original size:37 final size:37
Alignment explanation
Indices: 19090364--19090445 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
19090354 CATGCCTGTT
19090364 CTCGTAGATGTACTGTGAGAGAACAAAGAAGTTTGAC
1 CTCGTAGATGTACTGTGAGAGAACAAAGAAGTTTGAC
*
19090401 CTCGTAGATGTACTGTGAGAGAAGAAAGAAGTTTGAC
1 CTCGTAGATGTACTGTGAGAGAACAAAGAAGTTTGAC
19090438 CTCGTAGA
1 CTCGTAGA
19090446 GTTAGTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.24
Consensus pattern (37 bp):
CTCGTAGATGTACTGTGAGAGAACAAAGAAGTTTGAC
Found at i:19093259 original size:25 final size:25
Alignment explanation
Indices: 19093215--19093267 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
19093205 ATTTAGAGAA
*
19093215 AATTTTTCACTTAGAGATTTCTTAAG
1 AATTTTTCACTTAGAAATTTC-TAAG
*
19093241 AATTTTTCA-TTTGAAATTTCTAAG
1 AATTTTTCACTTAGAAATTTCTAAG
19093265 AAT
1 AAT
19093268 CTTATTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 9 0.36
26 9 0.36
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (25 bp):
AATTTTTCACTTAGAAATTTCTAAG
Found at i:19093558 original size:17 final size:17
Alignment explanation
Indices: 19093536--19093583 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
19093526 AAAAATACTA
19093536 AAAATAAATAAACACAT
1 AAAATAAATAAACACAT
* *
19093553 AAAATAAATAAATAAGAT
1 AAAATAAATAAA-CACAT
*
19093571 AAAATAAAAAAAC
1 AAAATAAATAAAC
19093584 CAAAGAACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAACACAT
Found at i:19093572 original size:18 final size:17
Alignment explanation
Indices: 19093536--19093582 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
19093526 AAAAATACTA
*
19093536 AAAATAAATAAACACAT
1 AAAATAAATAAAAACAT
*
19093553 AAAATAAATAAATAAGAT
1 AAAATAAATAAA-AACAT
19093571 AAAATAAA-AAAA
1 AAAATAAATAAAA
19093583 CCAAAGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 15 0.56
18 11 0.41
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAAAACAT
Found at i:19093944 original size:20 final size:20
Alignment explanation
Indices: 19093919--19093964 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
19093909 AATGATCTAC
*
19093919 CGAAAATTAAAAAAATACGT
1 CGAAAACTAAAAAAATACGT
*
19093939 CGAAAACTGAAAAAATACGT
1 CGAAAACTAAAAAAATACGT
19093959 CGAAAA
1 CGAAAA
19093965 ATTTAAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (20 bp):
CGAAAACTAAAAAAATACGT
Found at i:19094332 original size:19 final size:19
Alignment explanation
Indices: 19094294--19094333 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19094284 ATTATCTTCT
* *
19094294 AAAATAAAAATTATATTAA
1 AAAATAAAAATTAAAATAA
*
19094313 AAAATAATAATTAAAATAA
1 AAAATAAAAATTAAAATAA
19094332 AA
1 AA
19094334 TTCAGAACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATAAAAATTAAAATAA
Found at i:19095099 original size:4 final size:4
Alignment explanation
Indices: 19095092--19095122 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
19095082 TGTGTGTGTG
*
19095092 TAGA TAGA TAGA TAGA TAAA TAGA TAGA TAG
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG
19095123 GGTTGTACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
TAGA
Found at i:19097948 original size:13 final size:13
Alignment explanation
Indices: 19097930--19097971 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
19097920 TGGATGTGGC
19097930 AAGCTATGAAATT
1 AAGCTATGAAATT
19097943 AAGCTATGAAATT
1 AAGCTATGAAATT
*
19097956 AAGCCAT-AAATT
1 AAGCTATGAAATT
19097968 AAGC
1 AAGC
19097972 CATGTGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (13 bp):
AAGCTATGAAATT
Found at i:19099095 original size:24 final size:27
Alignment explanation
Indices: 19099068--19099128 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
19099058 TATTTGATGT
19099068 ATAATATTAT-AATAG-GATAAA-AAA
1 ATAATATTATAAATAGAGATAAATAAA
* *
19099092 ATAATATTATAAATAGAGTTAAATTAA
1 ATAATATTATAAATAGAGATAAATAAA
19099119 ATAATATTAT
1 ATAATATTAT
19099129 TTTATATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 10 0.31
25 5 0.16
26 5 0.16
27 12 0.38
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (27 bp):
ATAATATTATAAATAGAGATAAATAAA
Done.