Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 201 of 205
Found at i:59579750 original size:15 final size:16
Alignment explanation
Indices: 59579714--59579752 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
59579704 GATGGAACTC
59579714 TAGAAAACTTAGGTTA
1 TAGAAAACTTAGGTTA
59579730 TAGAAAACTTAGGTT-
1 TAGAAAACTTAGGTTA
59579745 TAGAAAAC
1 TAGAAAAC
59579753 CTCTAACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (16 bp):
TAGAAAACTTAGGTTA
Found at i:59583602 original size:92 final size:91
Alignment explanation
Indices: 59583445--59583653 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
59583435 TTGATTTTAG
* * *
59583445 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
59583510 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
59583537 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
59583601 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
59583629 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
59583654 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:59583616 original size:24 final size:25
Alignment explanation
Indices: 59583581--59583628 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
59583571 TTATGAAATT
59583581 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
59583605 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
59583629 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:59583818 original size:18 final size:17
Alignment explanation
Indices: 59583790--59583824 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59583780 ATTATTAAGA
*
59583790 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59583807 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59583825 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59583958 original size:156 final size:157
Alignment explanation
Indices: 59583780--59584093 Score: 594
Period size: 156 Copynumber: 2.0 Consensus size: 157
59583770 AAGAATATTG
59583780 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
*
59583845 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATA
66 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
*
59583910 ATCATTTACCAAAACAATTTTCTGCTA
131 ATCATTTACCAAAACAATTTTATGCTA
*
59583937 ATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
59584001 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
59584066 ATCATTTACCAAAACAATTTTATGCTA
131 ATCATTTACCAAAACAATTTTATGCTA
59584093 A
1 A
59584094 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
156 150 0.97
157 4 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATCATTTACCAAAACAATTTTATGCTA
Found at i:59583974 original size:18 final size:18
Alignment explanation
Indices: 59583946--59583994 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
59583936 AATTATAAGA
59583946 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
59583963 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
59583979 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
59583995 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:59583980 original size:16 final size:16
Alignment explanation
Indices: 59583946--59584000 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
59583936 AATTATAAGA
59583946 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
59583963 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
59583979 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
59583993 ATGTTTAA
1 AT-TTTAA
59584001 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:59584198 original size:16 final size:16
Alignment explanation
Indices: 59584177--59584212 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
59584167 GATTAGCTAT
59584177 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
59584193 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
59584209 TACA
1 TACA
59584213 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59585327 original size:21 final size:21
Alignment explanation
Indices: 59585298--59585337 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
59585288 AAAACTTTAA
59585298 AAATAATAATAATTATAAACT
1 AAATAATAATAATTATAAACT
* * *
59585319 AAATTATAATTATTTTAAA
1 AAATAATAATAATTATAAA
59585338 TATGTAATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAATAATAATTATAAACT
Found at i:59592943 original size:25 final size:26
Alignment explanation
Indices: 59592901--59592981 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 26
59592891 TCATCCTAGA
* *
59592901 AAAAATACAAAGTA-ATAAAAATATG
1 AAAAATAAAAAATATATAAAAATATG
* * *
59592926 -AAATTAAAAATTATAT-AAATTATG
1 AAAAATAAAAAATATATAAAAATATG
*
59592950 AAAAATAAAAAATAT-TAAAAATATT
1 AAAAATAAAAAATATATAAAAATATG
59592975 AAAAATA
1 AAAAATA
59592982 TATTAAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
24 18 0.40
25 27 0.60
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (26 bp):
AAAAATAAAAAATATATAAAAATATG
Found at i:59592971 original size:9 final size:9
Alignment explanation
Indices: 59592928--59592998 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
59592918 AAAATATGAA
59592928 ATTAAAAAT
1 ATTAAAAAT
*
59592937 -TATATAAATT
1 AT-TA-AAAAT
*
59592947 ATGAAAAAT
1 ATTAAAAAT
59592956 A--AAAAAT
1 ATTAAAAAT
59592963 ATTAAAAAT
1 ATTAAAAAT
59592972 ATTAAAAATAT
1 ATT-AAAA-AT
59592983 ATTAAAAAT
1 ATTAAAAAT
59592992 ATATAAA
1 AT-TAAA
59592999 GTTATATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
7 7 0.14
8 1 0.02
9 20 0.39
10 17 0.33
11 6 0.12
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:59592984 original size:11 final size:10
Alignment explanation
Indices: 59592955--59592995 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
59592945 TTATGAAAAA
59592955 TAAAAAATAT
1 TAAAAAATAT
59592965 T-AAAAATAT
1 TAAAAAATAT
59592974 TAAAAATATAT
1 TAAAAA-ATAT
59592985 TAAAAATATAT
1 TAAAAA-ATAT
59592996 AAAGTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.31
10 5 0.17
11 15 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:59595335 original size:27 final size:25
Alignment explanation
Indices: 59595274--59595335 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 25
59595264 TTAAACTAAT
*
59595274 ATAAAATTAAAAGTAATAATTTTGTA
1 ATAAAA-TAAAAGTAATAATTTTCTA
*
59595300 AGAATAAATAAAAGTAATAATGTTTTCTA
1 A-TA-AAATAAAAGTAATAA--TTTTCTA
59595329 ATAAAAT
1 ATAAAAT
59595336 TATTAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
26 1 0.03
27 17 0.59
28 4 0.14
29 7 0.24
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (25 bp):
ATAAAATAAAAGTAATAATTTTCTA
Found at i:59595666 original size:29 final size:30
Alignment explanation
Indices: 59595624--59595685 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
59595614 TAATAAAGAT
*
59595624 AAAATTATACTTTAAACTCTT-AAAATTATA
1 AAAATTATAATTTAAAC-CTTAAAAATTATA
*
59595654 AAAATT-TAATTTAATCCTTCAAAAATTATA
1 AAAATTATAATTTAAACCTT-AAAAATTATA
59595684 AA
1 AA
59595686 GATATAGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 8 0.29
30 17 0.61
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATTATAATTTAAACCTTAAAAATTATA
Found at i:59601725 original size:98 final size:98
Alignment explanation
Indices: 59601602--59601781 Score: 297
Period size: 98 Copynumber: 1.8 Consensus size: 98
59601592 AGGAAATATT
* * * * *
59601602 GTTTGGGATTTTAAAGGAATTGTGCCGTAACGTATTGGGTGTGATTTCTTAAATCTTGGATAAGT
1 GTTTGAGATTTTAAAGGAATCGTGCCCTAACGCATTGGGTGTGATTTCTTAAATATTGGATAAGT
59601667 GAATGTTCTTTTAAAGTAAAGGAAATATTCTGA
66 GAATGTTCTTTTAAAGTAAAGGAAATATTCTGA
*
59601700 GTTTGAGATTTTAGAGGAATCGTGCCCTAACGCATTGGGTGTGATTTCTTAAATATTGGATAAGT
1 GTTTGAGATTTTAAAGGAATCGTGCCCTAACGCATTGGGTGTGATTTCTTAAATATTGGATAAGT
*
59601765 GGATGTTCTTTTAAAGT
66 GAATGTTCTTTTAAAGT
59601782 TTTATTGCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 75 1.00
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (98 bp):
GTTTGAGATTTTAAAGGAATCGTGCCCTAACGCATTGGGTGTGATTTCTTAAATATTGGATAAGT
GAATGTTCTTTTAAAGTAAAGGAAATATTCTGA
Found at i:59606939 original size:8 final size:8
Alignment explanation
Indices: 59606928--59606987 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
59606918 TTTAAATATG
59606928 TTTTATAA
1 TTTTATAA
59606936 TTTTTTATAA
1 --TTTTATAA
59606946 -TTTATTAGA
1 TTTTA-TA-A
*
59606955 CTTTTATAT
1 -TTTTATAA
59606964 TTTTATAA
1 TTTTATAA
59606972 TATTTATAA
1 T-TTTATAA
59606981 TTTTATA
1 TTTTATA
59606988 TCAATTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 4 0.09
8 16 0.37
9 9 0.21
10 10 0.23
11 4 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (8 bp):
TTTTATAA
Found at i:59606943 original size:10 final size:9
Alignment explanation
Indices: 59606831--59606999 Score: 101
Period size: 9 Copynumber: 17.9 Consensus size: 9
59606821 TCAATTAAAG
*
59606831 TTTTTATGA
1 TTTTTATAA
* *
59606840 TTTTTTTTA
1 TTTTTATAA
59606849 TTTTTATAA
1 TTTTTATAA
*
59606858 GTTTATATAA
1 -TTTTTATAA
* *
59606868 -TTTAATAC
1 TTTTTATAA
59606876 TTTTTATAA
1 TTTTTATAA
59606885 TTTTTATAGAA
1 TTTTTAT--AA
* *
59606896 TTTTCATACG
1 TTTTTATA-A
59606906 TTTTTATAAA
1 TTTTTAT-AA
* *
59606916 ATTTTAAATA
1 TTTTTATA-A
59606926 TGTTTTATAA
1 T-TTTTATAA
59606936 TTTTTTATAA
1 -TTTTTATAA
*
59606946 TTTATTA-GA
1 TTT-TTATAA
*
59606955 CTTTTAT-A
1 TTTTTATAA
59606963 TTTTTATAA
1 TTTTTATAA
*
59606972 TATTTATAA
1 TTTTTATAA
59606981 TTTTATATCAA
1 TTTT-TAT-AA
59606992 TTTTTATA
1 TTTTTATA
59607000 TATACTTTAA
Statistics
Matches: 123, Mismatches: 23, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
8 15 0.12
9 48 0.39
10 38 0.31
11 22 0.18
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:59608591 original size:16 final size:16
Alignment explanation
Indices: 59608570--59608603 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59608560 TACTATAGTG
*
59608570 AAATGACTTTATGATT
1 AAATGACTTTATAATT
*
59608586 AAATGAGTTTATAATT
1 AAATGACTTTATAATT
59608602 AA
1 AA
59608604 TAAGCGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (16 bp):
AAATGACTTTATAATT
Found at i:59613680 original size:14 final size:15
Alignment explanation
Indices: 59613654--59613682 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59613644 CATATCAAAT
59613654 TTCTATGTATTTCAC
1 TTCTATGTATTTCAC
59613669 TTCTAT-TATTTCAC
1 TTCTATGTATTTCAC
59613683 CAACATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.21, G:0.03, T:0.55
Consensus pattern (15 bp):
TTCTATGTATTTCAC
Found at i:59618849 original size:27 final size:26
Alignment explanation
Indices: 59618818--59618912 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 26
59618808 TATGAATCGA
*
59618818 TTATATGAAAGTAGATATATTAAATGG
1 TTATATGAAA-TAGATATATGAAATGG
59618845 TTATATGGAAATAGATATATGAAATGG
1 TTATAT-GAAATAGATATATGAAATGG
* *
59618872 TTATATG-AATCAGTTATATGGAAATAG
1 TTATATGAAAT-AGATATAT-GAAATGG
*
59618899 ATATATGAAATAGA
1 TTATATGAAATAGA
59618913 ACATTGGATA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.05
26 8 0.14
27 41 0.69
28 7 0.12
ACGTcount: A:0.45, C:0.01, G:0.19, T:0.35
Consensus pattern (26 bp):
TTATATGAAATAGATATATGAAATGG
Found at i:59618868 original size:13 final size:13
Alignment explanation
Indices: 59618819--59618912 Score: 91
Period size: 13 Copynumber: 7.0 Consensus size: 13
59618809 ATGAATCGAT
59618819 TATATGAAAGTAGA
1 TATATGAAA-TAGA
* * *
59618833 TATATTAAATGGT
1 TATATGAAATAGA
59618846 TATATGGAAATAGA
1 TATAT-GAAATAGA
* *
59618860 TATATGAAATGGT
1 TATATGAAATAGA
*
59618873 TATATG-AATCAGT
1 TATATGAAAT-AGA
59618886 TATATGGAAATAGA
1 TATAT-GAAATAGA
59618900 TATATGAAATAGA
1 TATATGAAATAGA
59618913 ACATTGGATA
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
12 3 0.05
13 34 0.52
14 26 0.39
15 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.19, T:0.34
Consensus pattern (13 bp):
TATATGAAATAGA
Found at i:59618877 original size:40 final size:40
Alignment explanation
Indices: 59618819--59618912 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
59618809 ATGAATCGAT
*
59618819 TATATGAAAGTAGATATATTAAAT-GGTTATATGGAAATAGA
1 TATATGAAA-TAGATATA-TAAATCAGTTATATGGAAATAGA
* * *
59618860 TATATGAAATGGTTATATGAATCAGTTATATGGAAATAGA
1 TATATGAAATAGATATATAAATCAGTTATATGGAAATAGA
59618900 TATATGAAATAGA
1 TATATGAAATAGA
59618913 ACATTGGATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.09
40 33 0.72
41 9 0.20
ACGTcount: A:0.46, C:0.01, G:0.19, T:0.34
Consensus pattern (40 bp):
TATATGAAATAGATATATAAATCAGTTATATGGAAATAGA
Found at i:59618926 original size:67 final size:67
Alignment explanation
Indices: 59618808--59618936 Score: 156
Period size: 67 Copynumber: 1.9 Consensus size: 67
59618798 AAAATGAATG
* ***
59618808 TATGAATCGATTATATGAAAGTAGATATATTAAATGGTTATATGGAAATAGATATATGAAATGGT
1 TATGAATCGATTATATGAAAGTAGATATATGAAATGAACATATGGAAATAGATATATGAAATGGT
59618873 TA
66 TA
* *
59618875 TATGAATC-AGTTATATGGAAA-TAGATATATGAAATAGAACAT-TGGATATAGATATTTGAAAT
1 TATGAATCGA-TTATAT-GAAAGTAGATATATGAAAT-GAACATATGGAAATAGATATATGAAAT
59618937 AAAATGTGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
66 1 0.02
67 45 0.85
68 7 0.13
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (67 bp):
TATGAATCGATTATATGAAAGTAGATATATGAAATGAACATATGGAAATAGATATATGAAATGGT
TA
Found at i:59623921 original size:44 final size:44
Alignment explanation
Indices: 59623871--59623979 Score: 191
Period size: 44 Copynumber: 2.5 Consensus size: 44
59623861 GGATCATATT
* * *
59623871 TATCACTTGTCATTTGTCCCTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
59623915 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
59623959 TATCACTTATCACTTGTCACT
1 TATCACTTATCACTTGTCACT
59623980 TGTCACTTGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (44 bp):
TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
Found at i:59623980 original size:14 final size:14
Alignment explanation
Indices: 59623961--59623998 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
59623951 GCTAAAGCTA
59623961 TCACTTATCACTTG
1 TCACTTATCACTTG
*
59623975 TCACTTGTCACTTG
1 TCACTTATCACTTG
*
59623989 TCACTAATCA
1 TCACTTATCA
59623999 GATAAGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (14 bp):
TCACTTATCACTTG
Found at i:59623988 original size:58 final size:58
Alignment explanation
Indices: 59623917--59624042 Score: 207
Period size: 58 Copynumber: 2.2 Consensus size: 58
59623907 GCTAAAGCTA
* * *
59623917 TCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTG
1 TCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
*
59623975 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
1 TCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
*
59624033 TCACTGATCA
1 TCACTTATCA
59624043 GAAGTACTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (58 bp):
TCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTCATCACTTG
Found at i:59637935 original size:9 final size:9
Alignment explanation
Indices: 59637921--59637963 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
59637911 TTTGGTTAAA
59637921 AATTACCCG
1 AATTACCCG
59637930 AATTACCCG
1 AATTACCCG
59637939 AATTACCCG
1 AATTACCCG
*
59637948 AATTAACCG
1 AATTACCCG
59637957 AATTACC
1 AATTACC
59637964 GAAAAATACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:59644514 original size:43 final size:44
Alignment explanation
Indices: 59644453--59644543 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 44
59644443 ACATGCAACT
59644453 AGAACCATCAAAGAAACAACTAAAAACCCATAAACCCAGAAAA-
1 AGAACCATCAAAGAAACAACTAAAAACCCATAAACCCAGAAAAG
59644496 AGAACCATCAAAGAAACAACTAAAAACCCATAAACCCAGAAAAG
1 AGAACCATCAAAGAAACAACTAAAAACCCATAAACCCAGAAAAG
59644540 AGAA
1 AGAA
59644544 AGTCGTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.60, C:0.24, G:0.09, T:0.07
Consensus pattern (44 bp):
AGAACCATCAAAGAAACAACTAAAAACCCATAAACCCAGAAAAG
Found at i:59644967 original size:6 final size:6
Alignment explanation
Indices: 59644956--59644990 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
59644946 ATGAATCATC
* *
59644956 AAAATT AAAATT AAAACT AAAACT AAAACT AAAAC
1 AAAACT AAAACT AAAACT AAAACT AAAACT AAAAC
59644991 GTACCTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAACT
Found at i:59648336 original size:51 final size:51
Alignment explanation
Indices: 59648274--59648498 Score: 213
Period size: 51 Copynumber: 4.4 Consensus size: 51
59648264 TTCGGCGGTT
* * * * *
59648274 TGCACATAGTACCACCCATGTGACCATTGTCATCTGATACACGTAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGCCATCTGATACACATAGTAGCC
* * * * * * * *
59648325 TACACATAGTACTACACACGTGATCA-AGCCTTCCGATTCACGTAGTAGCT
1 TGCACATAGTACTACACACGTGACCATTGCCATCTGATACACATAGTAGCC
* ** *
59648375 TGCACATAGTACTACACACGCGACCAAGGCCAT-TCGGTACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCATTGCCATCT-GATACACATAGTAGCC
* * *
59648426 TGCACATAGTACTACACATGTGACCATTATCTATC-GATACACATAGTAGCC
1 TGCACATAGTACTACACACGTGACCATT-GCCATCTGATACACATAGTAGCC
* *
59648477 TGCACTTAGTACTACATACGTG
1 TGCACATAGTACTACACACGTG
59648499 TTAACAGGTA
Statistics
Matches: 139, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
50 41 0.29
51 95 0.68
52 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TGCACATAGTACTACACACGTGACCATTGCCATCTGATACACATAGTAGCC
Found at i:59651277 original size:17 final size:17
Alignment explanation
Indices: 59651255--59651294 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
59651245 AGGTTCTGTT
59651255 CATTCTTTTTACAACTC
1 CATTCTTTTTACAACTC
59651272 CATTCTTTTTACAACTC
1 CATTCTTTTTACAACTC
59651289 CATTCT
1 CATTCT
59651295 ACTGCAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (17 bp):
CATTCTTTTTACAACTC
Found at i:59653644 original size:14 final size:15
Alignment explanation
Indices: 59653627--59653667 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
59653617 TTTTAATTTT
59653627 ATTTTAATAATAA-A
1 ATTTTAATAATAATA
59653641 ATTTTAA-AATAATA
1 ATTTTAATAATAATA
59653655 ATTTTAAGTAATA
1 ATTTTAA-TAATA
59653668 TTCTTCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
16 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTTTAATAATAATA
Found at i:59656515 original size:22 final size:22
Alignment explanation
Indices: 59656490--59656538 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
59656480 GCATGTCTTT
* *
59656490 AGACAAAAGCATGTTTGTCTCG
1 AGACAAAAGCATATATGTCTCG
*
59656512 AGACAAAAGCCTATATGTCTCG
1 AGACAAAAGCATATATGTCTCG
59656534 AGACA
1 AGACA
59656539 TGACCTGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
AGACAAAAGCATATATGTCTCG
Found at i:59667070 original size:21 final size:21
Alignment explanation
Indices: 59667031--59667070 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
59667021 CAAGTAACGT
*
59667031 AAAATGAACTTGGAAACAAGA
1 AAAATGAACTTCGAAACAAGA
59667052 AAAATGAAC-TCGAATACAA
1 AAAATGAACTTCGAA-ACAA
59667071 TTGCTGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.57, C:0.12, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAATGAACTTCGAAACAAGA
Found at i:59674980 original size:30 final size:31
Alignment explanation
Indices: 59674936--59675000 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
59674926 AAAGAAACTT
*
59674936 AATAGTTCAGTGACTTAAATAAAAAGTTTTG
1 AATAGTTCAGTGACTTAAATAAAAAGTTTTA
*
59674967 AATAGTT-AGTGACTTAAATGAAAAGTTTTA
1 AATAGTTCAGTGACTTAAATAAAAAGTTTTA
59674997 AATA
1 AATA
59675001 ATTTATTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (31 bp):
AATAGTTCAGTGACTTAAATAAAAAGTTTTA
Found at i:59675872 original size:14 final size:14
Alignment explanation
Indices: 59675853--59675879 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59675843 ATGTTGTAAG
59675853 ATGTAGCAATGGTA
1 ATGTAGCAATGGTA
59675867 ATGTAGCAATGGT
1 ATGTAGCAATGGT
59675880 TTTGAGCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (14 bp):
ATGTAGCAATGGTA
Found at i:59679260 original size:9 final size:10
Alignment explanation
Indices: 59679246--59679330 Score: 70
Period size: 9 Copynumber: 8.7 Consensus size: 10
59679236 ACCAAAGGTT
59679246 TAAATAA-AA
1 TAAATAATAA
*
59679255 TAAATAAAAA
1 TAAATAATAA
* **
59679265 TGAATAGGAA
1 TAAATAATAA
*
59679275 GAAATAATAA
1 TAAATAATAA
*
59679285 T-AATAATGA
1 TAAATAATAA
59679294 T-AATAATAA
1 TAAATAATAA
59679303 T-AATAATAA
1 TAAATAATAA
59679312 TAAACTCAATAA
1 TAAA-T-AATAA
59679324 TAAATAA
1 TAAATAA
59679331 AATGATGGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
9 32 0.52
10 19 0.31
11 2 0.03
12 9 0.15
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (10 bp):
TAAATAATAA
Found at i:59679326 original size:3 final size:3
Alignment explanation
Indices: 59679277--59679314 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
59679267 AATAGGAAGA
*
59679277 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
59679315 ACTCAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59683404 original size:25 final size:25
Alignment explanation
Indices: 59683376--59683653 Score: 138
Period size: 25 Copynumber: 11.2 Consensus size: 25
59683366 AAGCCCTTCC
* *
59683376 GAGCCATGTAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
** * * *
59683401 GAGCTGTATAACAGGAAGCTCTTGC
1 GAGCCATATAACGGGAAGCTCATGA
* * *
59683426 GAGCCA-ATTATCTGGAAGCTTAT-A
1 GAGCCATA-TAACGGGAAGCTCATGA
* *
59683450 CGAGCCATA-AACAGGAAGCTCATGC
1 -GAGCCATATAACGGGAAGCTCATGA
* * *
59683475 GAGCCAAATATCGAGAAGCTCATGA
1 GAGCCATATAACGGGAAGCTCATGA
** * *
59683500 GAGCCATATATTGGAAAGCTCGTGA
1 GAGCCATATAACGGGAAGCTCATGA
* * *
59683525 TAGCCATATAATGGGAAGCTCAAGA
1 GAGCCATATAACGGGAAGCTCATGA
**
59683550 GAGCCAT-TAATCGATAAGCTCATGA
1 GAGCCATATAA-CGGGAAGCTCATGA
* *** *
59683575 GATCCA-AGTGTTGGGAAGCTCGTGA
1 GAGCCATA-TAACGGGAAGCTCATGA
* *
59683600 GAGCCA-AGTATCGGGAAGCTCGTGA
1 GAGCCATA-TAACGGGAAGCTCATGA
* * * *
59683625 GAACCAAATATC-GGAACGCTCATAA
1 GAGCCATATAACGGGAA-GCTCATGA
59683650 GAGC
1 GAGC
59683654 TGTGGTGGGT
Statistics
Matches: 192, Mismatches: 51, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
24 26 0.14
25 163 0.85
26 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:59683476 original size:49 final size:49
Alignment explanation
Indices: 59683390--59683507 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
59683380 CATGTAACGG
* ** * *
59683390 GAAGCTCATGTGAGCTGTATAACAGGAAGCTCTTGCGAGCCAATTATCTG-
1 GAAGCTCATGAGAGCCATA-AACAGGAAGCTCATGCGAGCCAAATATC-GA
*
59683440 GAAGCTTAT-ACGAGCCATAAACAGGAAGCTCATGCGAGCCAAATATCGA
1 GAAGCTCATGA-GAGCCATAAACAGGAAGCTCATGCGAGCCAAATATCGA
59683489 GAAGCTCATGAGAGCCATA
1 GAAGCTCATGAGAGCCATA
59683508 TATTGGAAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
48 1 0.02
49 42 0.72
50 15 0.26
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (49 bp):
GAAGCTCATGAGAGCCATAAACAGGAAGCTCATGCGAGCCAAATATCGA
Found at i:59683646 original size:75 final size:74
Alignment explanation
Indices: 59683463--59683653 Score: 192
Period size: 75 Copynumber: 2.5 Consensus size: 74
59683453 GCCATAAACA
* *
59683463 GGAAGCTCATGCGAGCCAAATATCGAGAAGCTCATGAGAGCCATATATTGGAAAGCTCGTGATAG
1 GGAAGCTCATGAGAGCCAAATATCG-GAAGCTCATGAGAGCCATATATTGGAAAGCTCGTGAGAG
59683528 CCATATAATG
65 CCATATAATG
* * * * * *
59683538 GGAAGCTCAAGAGAGCC-ATTAATCGATAAGCTCATGAGATCCA-AGTGTTGGGAAGCTCGTGAG
1 GGAAGCTCATGAGAGCCAAAT-ATCG-GAAGCTCATGAGAGCCATA-TATTGGAAAGCTCGTGAG
59683601 AGCCA-AGT-ATCG
63 AGCCATA-TAAT-G
* * *
59683613 GGAAGCTCGTGAGAACCAAATATCGGAACGCTCATAAGAGC
1 GGAAGCTCATGAGAGCCAAATATCGGAA-GCTCATGAGAGC
59683654 TGTGGTGGGT
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
74 8 0.08
75 85 0.89
76 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.19
Consensus pattern (74 bp):
GGAAGCTCATGAGAGCCAAATATCGGAAGCTCATGAGAGCCATATATTGGAAAGCTCGTGAGAGC
CATATAATG
Found at i:59692849 original size:63 final size:63
Alignment explanation
Indices: 59692731--59692849 Score: 150
Period size: 63 Copynumber: 1.9 Consensus size: 63
59692721 TTTCTAGTTT
* * * **
59692731 TTTTTATATTTTTACAAAAAAATTATTAAAGAGTATAGTGGTCATTTGAGTATTTTATTTTTA
1 TTTTTATACTTTCACAAAAAAATTATTAAAGAGTACAGTGGTCATTTGAACATTTTATTTTTA
* * *
59692794 TTTTTATACTTTCAC-AAAAAATCTATTAAAGGGTACATTTGTCATTTGAACATTTT
1 TTTTTATACTTTCACAAAAAAAT-TATTAAAGAGTACAGTGGTCATTTGAACATTTT
59692850 TTCCTTATGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
62 7 0.15
63 40 0.85
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (63 bp):
TTTTTATACTTTCACAAAAAAATTATTAAAGAGTACAGTGGTCATTTGAACATTTTATTTTTA
Found at i:59699320 original size:41 final size:43
Alignment explanation
Indices: 59699205--59699375 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
59699195 ACATAGGATT
* * * *
59699205 TCGATATGTGTTTTCGTGTAAGACCGC-ATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACATTGGCA
* * *
59699248 TCAACT-TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGA-TATGTGATTACGTGTAAGACCCTGTCTGGGACATTGGCA
* * *
59699291 TCG-TATTTGATT-TGTGTAAGACCCTGTCTGGGACAGTGGCA
1 TCGATATGTGATTACGTGTAAGACCCTGTCTGGGACATTGGCA
* *
59699332 TCGATATGTGATTACATGTAAGACCAC-GTCTGGGATATTGGCA
1 TCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACATTGGCA
59699375 T
1 T
59699376 TGTACGAGTC
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 30 0.28
42 13 0.12
43 61 0.58
44 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCCTGTCTGGGACATTGGCA
Found at i:59699363 original size:84 final size:84
Alignment explanation
Indices: 59699220--59699375 Score: 210
Period size: 84 Copynumber: 1.9 Consensus size: 84
59699210 ATGTGTTTTC
* * *
59699220 GTGTAAGACCGCATCTGGGACGTTGGCATCAACTTGTGTTTACGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCGCATCTGGGACGTTGGCATCAACTTGTGATTACATGTAAGACCACGTCTGGGACA
59699285 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
* *
59699304 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGATTACATGTAAGACCACGTCTGGG
1 GTGTAAGACCGC-ATCTGGGAC-GTTGGCATCAACT-TGTGATTACATGTAAGACCACGTCTGGG
*
59699366 ATATTGGCAT
63 ACATTGGCAT
59699376 TGTACGAGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 60 0.95
85 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (84 bp):
GTGTAAGACCGCATCTGGGACGTTGGCATCAACTTGTGATTACATGTAAGACCACGTCTGGGACA
TTGGCATCGTATTTGATTT
Found at i:59702217 original size:23 final size:24
Alignment explanation
Indices: 59702157--59702291 Score: 97
Period size: 23 Copynumber: 5.9 Consensus size: 24
59702147 TTTCCACCGA
*
59702157 AGTGCCA-T-TCACTTGCGC-CGT
1 AGTGCCACTATCACTTGCACTCGT
*
59702178 AGTGCCACTA-CTGCTTGCACT-GT
1 AGTGCCACTATC-ACTTGCACTCGT
* *
59702201 AGTGCCTCTGTCACTTGCA-TCGT
1 AGTGCCACTATCACTTGCACTCGT
* * *
59702224 AGCGTCACAATCACTTGCA-TCGT
1 AGTGCCACTATCACTTGCACTCGT
* * * *
59702247 AATGCCTCTGTCACTTGCAC-CAT
1 AGTGCCACTATCACTTGCACTCGT
59702270 AGTGCCACTATCACTTTGCACT
1 AGTGCCACTATCAC-TTGCACT
59702292 ATAACACTTC
Statistics
Matches: 85, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
21 7 0.08
22 3 0.04
23 68 0.80
24 7 0.08
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (24 bp):
AGTGCCACTATCACTTGCACTCGT
Found at i:59702225 original size:46 final size:47
Alignment explanation
Indices: 59702165--59702285 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 47
59702155 GAAGTGCCAT
* * * *
59702165 TCACTTGCGCCGTAGTGCCACTACT-GCTTGCA-CTGTAGTGCCTCTG
1 TCACTTGCACCGTAGTGCCACTAATCACTTGCATC-GTAATGCCTCTG
* * *
59702211 TCACTTGCATCGTAGCGTCAC-AATCACTTGCATCGTAATGCCTCTG
1 TCACTTGCACCGTAGTGCCACTAATCACTTGCATCGTAATGCCTCTG
*
59702257 TCACTTGCACCATAGTGCCACT-ATCACTT
1 TCACTTGCACCGTAGTGCCACTAATCACTT
59702286 TGCACTATAA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.03
46 58 0.95
47 1 0.02
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.31
Consensus pattern (47 bp):
TCACTTGCACCGTAGTGCCACTAATCACTTGCATCGTAATGCCTCTG
Found at i:59702327 original size:23 final size:23
Alignment explanation
Indices: 59702257--59702332 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
59702247 AATGCCTCTG
**
59702257 TCACTTGCACCATAGTGCCACTA
1 TCACTTGCACCATAGTGTTACTA
* ***
59702280 TCACTTTGCACTATAACACTT-CTA
1 TCAC-TTGCACCAT-AGTGTTACTA
59702304 TCACTTGCACCATAGTGTTACTA
1 TCACTTGCACCATAGTGTTACTA
59702327 TCACTT
1 TCACTT
59702333 TTCCTATTGG
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
22 3 0.08
23 21 0.52
24 15 0.38
25 1 0.03
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.34
Consensus pattern (23 bp):
TCACTTGCACCATAGTGTTACTA
Found at i:59704518 original size:9 final size:9
Alignment explanation
Indices: 59704504--59704552 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
59704494 GTTAAACGAA
59704504 TCGAGTTAT
1 TCGAGTTAT
*
59704513 TCGAGTTAA
1 TCGAGTTAT
59704522 TCGAGTTAT
1 TCGAGTTAT
*
59704531 TCGAGTTAA
1 TCGAGTTAT
59704540 TCGAGTTAT
1 TCGAGTTAT
59704549 TCGA
1 TCGA
59704553 ATAACTCGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:59704561 original size:18 final size:18
Alignment explanation
Indices: 59704502--59704552 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
59704492 GAGTTAAACG
59704502 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
59704520 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
59704538 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
59704553 ATAACTCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:59704561 original size:27 final size:27
Alignment explanation
Indices: 59704504--59704561 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
59704494 GTTAAACGAA
* * * *
59704504 TCGAGTTATTCGAGTTAATCGAGTTAT
1 TCGAGTTAATCGAGTTAATCGAATAAC
*
59704531 TCGAGTTAATCGAGTTATTCGAATAAC
1 TCGAGTTAATCGAGTTAATCGAATAAC
59704558 TCGA
1 TCGA
59704562 ATAATTCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (27 bp):
TCGAGTTAATCGAGTTAATCGAATAAC
Found at i:59704821 original size:30 final size:31
Alignment explanation
Indices: 59704787--59704846 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
59704777 AAACCTTTTA
*
59704787 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
59704817 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
59704847 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:59706620 original size:101 final size:102
Alignment explanation
Indices: 59706498--59706682 Score: 304
Period size: 101 Copynumber: 1.8 Consensus size: 102
59706488 AAAGTGATGG
*
59706498 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AGA-A-TGATAGGTCGCATGTCTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-ATAGTGAT-GGTCACATGTCTAG
59706560 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
59706599 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTCTAGTA
59706664 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
59706683 TGAACCGGTA
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGTGATGGTCACATGTCTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:59706628 original size:51 final size:49
Alignment explanation
Indices: 59706495--59706690 Score: 214
Period size: 51 Copynumber: 3.9 Consensus size: 49
59706485 GTGAAAGTGA
* *
59706495 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-T
* * * * *
59706545 AGGTCGCATGTCTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * * *
59706595 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
* *
59706645 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
59706691 TATCATTAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
50 41 0.34
51 77 0.65
52 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
Found at i:59706684 original size:26 final size:26
Alignment explanation
Indices: 59706604--59706684 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
59706594 TTCGATCACG
59706604 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
59706630 CGTGTA-T-CGAATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
59706655 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
59706681 TGTG
1 TGTG
59706685 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:59706929 original size:16 final size:16
Alignment explanation
Indices: 59706908--59706939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59706898 TGATTGAAAG
*
59706908 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
59706924 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
59706940 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:59716042 original size:22 final size:24
Alignment explanation
Indices: 59716010--59716053 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
59716000 TTAATTTCTA
59716010 TTTTATGATTT-AAGAAATAAATG
1 TTTTATGATTTAAAGAAATAAATG
*
59716033 TTTTAT-ATTTAAAGTAATAAA
1 TTTTATGATTTAAAGAAATAAA
59716054 AATAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (24 bp):
TTTTATGATTTAAAGAAATAAATG
Found at i:59721993 original size:23 final size:23
Alignment explanation
Indices: 59721962--59722013 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
59721952 ACGTACTTTC
* * *
59721962 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
59721985 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
59722008 TTACAG
1 TTACAG
59722014 CTTTCAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:59726604 original size:3 final size:3
Alignment explanation
Indices: 59726596--59726628 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
59726586 ATGTTACATG
*
59726596 GAA GAA GAA GAA GAT GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
59726629 CAAAAGACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:59727977 original size:16 final size:16
Alignment explanation
Indices: 59727953--59727995 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
59727943 CAAACCCGAT
*
59727953 AAAATCTGAACCTGAA
1 AAAACCTGAACCTGAA
*
59727969 AAGAA-CTGAATCTGAA
1 AA-AACCTGAACCTGAA
59727985 AAAACCTGAAC
1 AAAACCTGAAC
59727996 TCAAAAAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.51, C:0.19, G:0.14, T:0.16
Consensus pattern (16 bp):
AAAACCTGAACCTGAA
Found at i:59730279 original size:13 final size:13
Alignment explanation
Indices: 59730261--59730300 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
59730251 AGTTCTTCAT
59730261 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
59730274 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
59730287 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
59730300 T
1 T
59730301 TTAGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:59733854 original size:20 final size:19
Alignment explanation
Indices: 59733809--59733861 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
59733799 TTGATTGCCA
59733809 GTAAAATATTTTA-TTTTT
1 GTAAAATATTTTACTTTTT
*
59733827 GAAAAATATTTTACTTTTCT
1 GTAAAATATTTTACTTTT-T
*
59733847 GTAAAATAATTTACT
1 GTAAAATATTTTACT
59733862 GAAAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 12 0.40
19 4 0.13
20 14 0.47
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (19 bp):
GTAAAATATTTTACTTTTT
Found at i:59736643 original size:18 final size:17
Alignment explanation
Indices: 59736620--59736654 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
59736610 CAAGGATAGG
*
59736620 GGAAGGGGAAGGGGAAGA
1 GGAA-GGGAAAGGGAAGA
59736638 GGAAGGGAAAGGGAAGA
1 GGAAGGGAAAGGGAAGA
59736655 TCAGTGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (17 bp):
GGAAGGGAAAGGGAAGA
Found at i:59736652 original size:6 final size:6
Alignment explanation
Indices: 59736617--59736650 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
59736607 TGTCAAGGAT
* *
59736617 AGGGGA AGGGGA AGGGGA AGAGGA AGGGAA AGGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGG
59736651 AAGATCAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:59739496 original size:20 final size:21
Alignment explanation
Indices: 59739458--59739496 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
59739448 AATATACCAA
59739458 ACATATTTAATCAATTATACT
1 ACATATTTAATCAATTATACT
59739479 ACAT-TTTAAT-AATCTATA
1 ACATATTTAATCAAT-TATA
59739497 AGCATCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.44
Consensus pattern (21 bp):
ACATATTTAATCAATTATACT
Found at i:59739864 original size:16 final size:17
Alignment explanation
Indices: 59739843--59739880 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
59739833 GCCCATTCAG
*
59739843 AATAAGCAAAAATAA-A
1 AATAAGAAAAAATAATA
59739859 AATAAGAAAAAATAATA
1 AATAAGAAAAAATAATA
59739876 AATAA
1 AATAA
59739881 AATTAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
AATAAGAAAAAATAATA
Found at i:59746817 original size:87 final size:88
Alignment explanation
Indices: 59746704--59746898 Score: 313
Period size: 88 Copynumber: 2.2 Consensus size: 88
59746694 AAACCCAAAC
* * *
59746704 TAAAATTCATTATTAAAAACAAAATTATTATAAATTCAAAAAATATTTA-AAATAAATAAAAAAT
1 TAAAATT-TTTATTAAAAATAAAATTATTATAAATTCAAAAAATA-TTAGAAAGAAATAAAAAAT
59746768 -AAAAAATAAAATTTATAGAAGACT
64 AAAAAAATAAAATTTATAGAAGACT
* *
59746792 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAACTATTAGAAAGAAATTAAAAATAA
1 TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAATATTAGAAAGAAATAAAAAATAA
59746857 AAAAATAAAATTTATAGAAGACT
66 AAAAATAAAATTTATAGAAGACT
59746880 TAAAATTTTTATTAAAAAT
1 TAAAATTTTTATTAAAAAT
59746899 TACTAAAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
86 3 0.03
87 47 0.47
88 50 0.50
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (88 bp):
TAAAATTTTTATTAAAAATAAAATTATTATAAATTCAAAAAATATTAGAAAGAAATAAAAAATAA
AAAAATAAAATTTATAGAAGACT
Found at i:59746921 original size:19 final size:19
Alignment explanation
Indices: 59746893--59746929 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
59746883 AATTTTTATT
59746893 AAAAATTACTA-AAAAATC
1 AAAAATTACTAGAAAAATC
59746911 AAAACATTACTAGAAAAAT
1 AAAA-ATTACTAGAAAAAT
59746930 ATTAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.65, C:0.11, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAAATTACTAGAAAAATC
Found at i:59750096 original size:24 final size:24
Alignment explanation
Indices: 59750069--59750121 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
59750059 ATTAGTGAGT
59750069 TAAATAAACTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
* *
59750093 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAATAC
59750117 TAAAT
1 TAAAT
59750122 CTTCTAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAATAC
Found at i:59752065 original size:24 final size:24
Alignment explanation
Indices: 59752038--59752089 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59752028 TTAGTAAGTC
*
59752038 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
59752062 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
59752086 AAAT
1 AAAT
59752090 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:59752254 original size:48 final size:49
Alignment explanation
Indices: 59752174--59752272 Score: 182
Period size: 48 Copynumber: 2.0 Consensus size: 49
59752164 AACAGAGTCT
59752174 TTTGAGTTAAAGAGAGAGAAAAGAAAAAGAGAAAATGGACTAAGAAAGAA
1 TTTGAGTTAAAGAGAGAG-AAAGAAAAAGAGAAAATGGACTAAGAAAGAA
59752224 TTTGAGTTAAAGAGAGAG-AAGAAAAAGAGAAAATGGACTAAGAAAGAA
1 TTTGAGTTAAAGAGAGAGAAAGAAAAAGAGAAAATGGACTAAGAAAGAA
59752272 T
1 T
59752273 GTATTTATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 31 0.63
50 18 0.37
ACGTcount: A:0.57, C:0.02, G:0.26, T:0.15
Consensus pattern (49 bp):
TTTGAGTTAAAGAGAGAGAAAGAAAAAGAGAAAATGGACTAAGAAAGAA
Found at i:59752564 original size:16 final size:15
Alignment explanation
Indices: 59752534--59752571 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
59752524 GCCCTGAGTA
59752534 GAAAAAGAAAAAAAG
1 GAAAAAGAAAAAAAG
*
59752549 GAAAATGAAGAAAAAG
1 GAAAAAGAA-AAAAAG
59752565 GAAAAAG
1 GAAAAAG
59752572 GTTTGTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
GAAAAAGAAAAAAAG
Found at i:59754645 original size:45 final size:45
Alignment explanation
Indices: 59754577--59754672 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
59754567 AAATATATTG
* ** *
59754577 GTGGATGAACCATCCGTTTGTGTAGATAAAAGCTGCTAATACGTT
1 GTGGATGAACCATCCATCAGTGTAGATAAAACCTGCTAATACGTT
* *
59754622 GTGGATGAACTATCCATCAGTGTAGATAAAACCTGCTAGTACGTT
1 GTGGATGAACCATCCATCAGTGTAGATAAAACCTGCTAATACGTT
59754667 GTGGAT
1 GTGGAT
59754673 AAAACGCTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
GTGGATGAACCATCCATCAGTGTAGATAAAACCTGCTAATACGTT
Found at i:59763118 original size:25 final size:25
Alignment explanation
Indices: 59763060--59763118 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
59763050 ACAATGCTAA
*
59763060 ATATTATTTTAACAAATAAAAACATT
1 ATATT-TTTTAACAAATAAAAACACT
59763086 ATACATTTTTTAA-AGAATAAAAACACT
1 AT--ATTTTTTAACA-AATAAAAACACT
59763113 ATATTT
1 ATATTT
59763119 GAATCCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 4 0.14
26 3 0.10
27 19 0.66
28 3 0.10
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (25 bp):
ATATTTTTTAACAAATAAAAACACT
Found at i:59766102 original size:24 final size:25
Alignment explanation
Indices: 59766065--59766111 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
59766055 ATCACAATAT
*
59766065 TTTTATAAATATTT-TAATTATTTA
1 TTTTATAAATATTTAAAATTATTTA
59766089 TTTTAT-AATCATTTAAAATTATT
1 TTTTATAAAT-ATTTAAAATTATT
59766112 GATTATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 10 0.50
25 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTATAAATATTTAAAATTATTTA
Found at i:59767590 original size:12 final size:12
Alignment explanation
Indices: 59767573--59767597 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59767563 AACTAATTTG
59767573 TTCTGCCTCCAC
1 TTCTGCCTCCAC
59767585 TTCTGCCTCCAC
1 TTCTGCCTCCAC
59767597 T
1 T
59767598 AATCTATGCT
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:0.08, C:0.48, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCTGCCTCCAC
Found at i:59769814 original size:15 final size:15
Alignment explanation
Indices: 59769794--59769822 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59769784 TTATTTATAT
59769794 TTTATATTATATAAA
1 TTTATATTATATAAA
59769809 TTTATATTATATAA
1 TTTATATTATATAA
59769823 TTAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATTATATAAA
Found at i:59769831 original size:22 final size:22
Alignment explanation
Indices: 59769786--59769832 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
59769776 ATTTTGAGTT
* *
59769786 ATTTATATTTTATATTATATAA
1 ATTTATATTATATATTATAAAA
59769808 ATTTATATTATATAATTA-AAAA
1 ATTTATATTATAT-ATTATAAAA
59769830 ATT
1 ATT
59769833 ACTAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTATATTATATATTATAAAA
Found at i:59782378 original size:13 final size:13
Alignment explanation
Indices: 59782360--59782384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59782350 TCAGGCCATG
59782360 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
59782373 TTTTTTCTTTTT
1 TTTTTTCTTTTT
59782385 AAGGAAAAGT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:59787024 original size:5 final size:5
Alignment explanation
Indices: 59787009--59787038 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
59786999 TGAAAGGACC
59787009 ATATAT ATATT ATATT ATATT ATATT ATAT
1 ATAT-T ATATT ATATT ATATT ATATT ATAT
59787039 ATTATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:59795355 original size:24 final size:23
Alignment explanation
Indices: 59795309--59795356 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
59795299 CGATTTATCA
* *
59795309 CATTTTTATTGGCAGCTTGTCTG
1 CATTTTTACTGGCAGATTGTCTG
*
59795332 CATTTTTACTGGCAGAATTTTCTG
1 CATTTTTACTGGCAG-ATTGTCTG
59795356 C
1 C
59795357 GTATTGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.46
Consensus pattern (23 bp):
CATTTTTACTGGCAGATTGTCTG
Found at i:59798618 original size:42 final size:42
Alignment explanation
Indices: 59798559--59798699 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 42
59798549 AAGAGTGGTT
59798559 GTTTTATCTGCAAATATGTTGTGCATCCATAACCCA-ATGACA
1 GTTTTATCTGCAAATATGTTGTGCATCCATAACCCAGATG-CA
* ** * *
59798601 GTTTTATTTGCAAATATGTTGTGCATCCACCACCTAGTTGCA
1 GTTTTATCTGCAAATATGTTGTGCATCCATAACCCAGATGCA
* * * *
59798643 ATTTTATCTACAAATATGATGTGCATCCATAACCTAG-TAGCA
1 GTTTTATCTGCAAATATGTTGTGCATCCATAACCCAGAT-GCA
*
59798685 ATTTTATCTGCAAAT
1 GTTTTATCTGCAAAT
59798700 GTTTTATCTA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 82 0.96
43 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (42 bp):
GTTTTATCTGCAAATATGTTGTGCATCCATAACCCAGATGCA
Found at i:59805523 original size:128 final size:128
Alignment explanation
Indices: 59805233--59805569 Score: 504
Period size: 128 Copynumber: 2.7 Consensus size: 128
59805223 TTGATTATGT
* *
59805233 GTATGTATGATATGTGACATGCATCTAATGTATGTAAGATATGTCAATATTTTATATATGTATGT
1 GTATGTATGATATGTGATATGCATCTAATGTATGTATGATATGTCAATATTTTATATATGTATGT
*
59805298 ATGTCATGATATGCATGTAACAGACTTTAATATATATACATGACATGTAACTAACTTTATTAA
66 ATGTCATGATATGCATGTAACAGACTTCAATATATATACATGACATGTAACTAACTTTATTAA
* *
59805361 GTATGTATGATATGTGTTATGCATGTAATGTATGTATGATATGTCAATATTTTATATATGTATGT
1 GTATGTATGATATGTGATATGCATCTAATGTATGTATGATATGTCAATATTTTATATATGTATGT
* *
59805426 ATGTCATGATATGCATGTAACAGACTTCAATATATATGCATGATATGTAACTAACTTTATTAA
66 ATGTCATGATATGCATGTAACAGACTTCAATATATATACATGACATGTAACTAACTTTATTAA
* * * * *
59805489 GTATGTATGATATGTGATATGCAT-AAGATTTATGTATGATATGT--ATGTATGTATGTATGTAT
1 GTATGTATGATATGTGATATGCATCTA-ATGTATGTATGATATGTCAATAT-TTTATATATGTAT
*
59805551 GTATGT-ATG-TATGTATGTA
64 GTATGTCATGATATGCATGTA
59805570 TGTATGTATG
Statistics
Matches: 193, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
125 9 0.05
126 6 0.03
127 18 0.09
128 160 0.83
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.42
Consensus pattern (128 bp):
GTATGTATGATATGTGATATGCATCTAATGTATGTATGATATGTCAATATTTTATATATGTATGT
ATGTCATGATATGCATGTAACAGACTTCAATATATATACATGACATGTAACTAACTTTATTAA
Found at i:59805535 original size:4 final size:4
Alignment explanation
Indices: 59805519--59805787 Score: 511
Period size: 4 Copynumber: 66.5 Consensus size: 4
59805509 GCATAAGATT
59805519 TATG TATG ATATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG -TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
59805568 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
59805616 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
59805664 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
59805712 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
59805760 TATG TATG TATG TATG TAATG ATATG TA
1 TATG TATG TATG TATG T-ATG -TATG TA
59805788 ACATACTTAA
Statistics
Matches: 262, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
4 251 0.96
5 10 0.04
6 1 0.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:59816649 original size:16 final size:17
Alignment explanation
Indices: 59816621--59816652 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
59816611 AATTATTATT
59816621 AAATAAGTTTTTTTTCG
1 AAATAAGTTTTTTTTCG
59816638 AAATAA-TTTTTTTTC
1 AAATAAGTTTTTTTTC
59816653 TGATGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
AAATAAGTTTTTTTTCG
Found at i:59827377 original size:16 final size:17
Alignment explanation
Indices: 59827356--59827395 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
59827346 AAATCATTAA
*
59827356 AAATATAAAAAAT-TGT
1 AAATATAAAAAATGTAT
*
59827372 AAATATAAAATATGTAT
1 AAATATAAAAAATGTAT
59827389 AAATATA
1 AAATATA
59827396 TATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATATAAAAAATGTAT
Found at i:59827393 original size:17 final size:16
Alignment explanation
Indices: 59827351--59827395 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
59827341 TAAAAAAATC
*
59827351 ATTAAAAATATAAAAA
1 ATTATAAATATAAAAA
* *
59827367 ATTGTAAATATAAAAT
1 ATTATAAATATAAAAA
59827383 ATGTATAAATATA
1 AT-TATAAATATA
59827396 TATATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATTATAAATATAAAAA
Found at i:59827498 original size:20 final size:21
Alignment explanation
Indices: 59827452--59827511 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
59827442 TTGTACAAAA
* *
59827452 ATAATAATTATTAAAAATTTT
1 ATAAAAATTATTAAAAATTGT
* *
59827473 ATAAAATTTATTAGAAATTGT
1 ATAAAAATTATTAAAAATTGT
59827494 A-AAAAATTATTAAAAATT
1 ATAAAAATTATTAAAAATT
59827512 AAAAATAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
ATAAAAATTATTAAAAATTGT
Found at i:59827512 original size:10 final size:10
Alignment explanation
Indices: 59827457--59827512 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
59827447 CAAAAATAAT
59827457 AATTATTAAA
1 AATTATTAAA
59827467 AATT-TTATAA
1 AATTATTA-AA
*
59827477 AATTTATTAGA
1 AA-TTATTAAA
* *
59827488 AATTGTAAAA
1 AATTATTAAA
59827498 AATTATTAAA
1 AATTATTAAA
59827508 AATTA
1 AATTA
59827513 AAAATAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 3 0.08
10 26 0.70
11 5 0.14
12 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (10 bp):
AATTATTAAA
Found at i:59829635 original size:26 final size:27
Alignment explanation
Indices: 59829580--59829634 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
59829570 CGCATAAGTG
* *
59829580 AATATTATTATAAAATTTTAAAGTTAA
1 AATATTATTATAAAATTTAAAACTTAA
*
59829607 AATATATATTATAATA-TTAAAACTTAA
1 AATAT-TATTATAAAATTTAAAACTTAA
59829634 A
1 A
59829635 TGTTAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AATATTATTATAAAATTTAAAACTTAA
Found at i:59830662 original size:42 final size:41
Alignment explanation
Indices: 59830626--59830767 Score: 134
Period size: 41 Copynumber: 3.6 Consensus size: 41
59830616 TTCGACTTCG
* *
59830626 AGTCGATGAGACATTGGGTGTCAATTTACTATTTCGAATTA
1 AGTCGATGAGACAGTGGGTGCCAATTTACTATTTCGAATTA
* * *
59830667 ATTCGATGAGGCAGTGGGTGCCAATTTAC---TTCG-ATTT
1 AGTCGATGAGACAGTGGGTGCCAATTTACTATTTCGAATTA
* * * *
59830704 AGCCGATGAGACACTGGGTGCCAATTTATTACTTCGAATT-
1 AGTCGATGAGACAGTGGGTGCCAATTTACTATTTCGAATTA
* *
59830744 A-TCCGATGAGGCACTGGGTGCCAA
1 AGT-CGATGAGACAGTGGGTGCCAA
59830768 ACTGTTGTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
37 27 0.32
38 4 0.05
40 25 0.30
41 28 0.33
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (41 bp):
AGTCGATGAGACAGTGGGTGCCAATTTACTATTTCGAATTA
Found at i:59830750 original size:40 final size:40
Alignment explanation
Indices: 59830629--59830767 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
59830619 GACTTCGAGT
* * * * *
59830629 CGATGAGACATTGGGTGTCAATTTACTATTTCGAATTAATT
1 CGATGAGACACTGGGTGCCAATTTATTACTTCGAATT-ATC
* * * *
59830670 CGATGAGGCAGTGGGTGCCAA--T-TTACTTCGATTTAGC
1 CGATGAGACACTGGGTGCCAATTTATTACTTCGAATTATC
59830707 CGATGAGACACTGGGTGCCAATTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGCCAATTTATTACTTCGAATTATC
*
59830747 CGATGAGGCACTGGGTGCCAA
1 CGATGAGACACTGGGTGCCAA
59830768 ACTGTTGTGT
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 20 0.24
38 9 0.11
39 2 0.02
40 33 0.40
41 18 0.22
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGCCAATTTATTACTTCGAATTATC
Found at i:59839397 original size:19 final size:19
Alignment explanation
Indices: 59839373--59839416 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
59839363 AAAATCTAAT
*
59839373 TTAATAAAATAATATTTTA
1 TTAATAAAATAAAATTTTA
* *
59839392 TTAATATATTAAAATTTTA
1 TTAATAAAATAAAATTTTA
*
59839411 ATAATA
1 TTAATA
59839417 TGTTAATGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATAAAATAAAATTTTA
Found at i:59839417 original size:19 final size:19
Alignment explanation
Indices: 59839386--59839422 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59839376 ATAAAATAAT
*
59839386 ATTTTATTAATATATTAAA
1 ATTTTAATAATATATTAAA
*
59839405 ATTTTAATAATATGTTAA
1 ATTTTAATAATATATTAA
59839423 TGTATTACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
ATTTTAATAATATATTAAA
Found at i:59839718 original size:15 final size:15
Alignment explanation
Indices: 59839695--59839724 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59839685 GCCCTTCTAC
*
59839695 TATATTATATAATAT
1 TATAGTATATAATAT
59839710 TATAGTATATAATAT
1 TATAGTATATAATAT
59839725 AACATACGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TATAGTATATAATAT
Found at i:59840398 original size:40 final size:38
Alignment explanation
Indices: 59840347--59840468 Score: 120
Period size: 40 Copynumber: 3.1 Consensus size: 38
59840337 AACGACACTA
*
59840347 AAAATCAAGCATTAGCGGCGCTTTTACAAAAATGCCGCT
1 AAAATCAAGCATTAGCGGCGCTTTT-CAAAAACGCCGCT
* * * **
59840386 AAAGATCGAGCATTAACGGCTCATTTTGGAAAACGCCGCT
1 AAA-ATCAAGCATTAGCGGCGC-TTTTCAAAAACGCCGCT
* *
59840426 AAAATTAAGCATTAGCGGCG-TTTTCCAAAAAGCGCCGCA
1 AAAATCAAGCATTAGCGGCGCTTTT-CAAAAA-CGCCGCT
59840465 AAAA
1 AAAA
59840469 ACCTAAGCCC
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
37 4 0.06
38 4 0.06
39 26 0.39
40 28 0.42
41 4 0.06
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (38 bp):
AAAATCAAGCATTAGCGGCGCTTTTCAAAAACGCCGCT
Found at i:59840583 original size:41 final size:41
Alignment explanation
Indices: 59840509--59840720 Score: 291
Period size: 41 Copynumber: 5.1 Consensus size: 41
59840499 TTTTGGCGAA
*
59840509 TTTAGCGGCGTTTTTGAAAAAAGTGCCGCTAATGCTCGATCC
1 TTTAGCGGCGTTTTTG-AAAAAGCGCCGCTAATGCTCGATCC
*
59840551 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGTTCGATCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGATCC
* * * *
59840592 TTTAGCGGCATTTTTGGAAAAGCGCCACTAATGCTCGAGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGATCC
**
59840633 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGATCC
* * * *
59840674 TTTAACGGCGTTTTGGGAAAAGCGTCGCTAATGCTCG-TACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGAT-CC
59840715 TTTAGC
1 TTTAGC
59840721 TAGGGGTGAG
Statistics
Matches: 152, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 136 0.89
42 16 0.11
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGATCC
Found at i:59840804 original size:9 final size:9
Alignment explanation
Indices: 59840790--59840820 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
59840780 GTTAAACGAA
59840790 TCGAGTTAT
1 TCGAGTTAT
*
59840799 TCGAGTTAA
1 TCGAGTTAT
59840808 TCGAGTTAT
1 TCGAGTTAT
59840817 TCGA
1 TCGA
59840821 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:59841723 original size:41 final size:41
Alignment explanation
Indices: 59841671--59841829 Score: 219
Period size: 41 Copynumber: 3.9 Consensus size: 41
59841661 TGCTCACCCC
* *
59841671 TACCTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCG
1 TACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCG
* *
59841712 TACCTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCG
1 TACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCG
** ** *
59841753 GGCCTTTAGTAGCGTTTTTGGAAAAGCGCCGCTAATGCTTG
1 TACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCG
**
59841794 TACCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAT
1 TACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAT
59841830 AAAAAAATCT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (41 bp):
TACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCG
Found at i:59841786 original size:82 final size:82
Alignment explanation
Indices: 59841673--59841829 Score: 251
Period size: 82 Copynumber: 1.9 Consensus size: 82
59841663 CTCACCCCTA
* * * *
59841673 CCTTTAGCGGCGTTTTTGGGAAAGCGTCGCTAATGCTCGTACCTTTAGCGGCGTTTTTGAAAAAG
1 CCTTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCTCGTACCTTTAGCGGCGTTTTTAAAAAAG
59841738 CACCGCTAATGCTCGGG
66 CACCGCTAATGCTCGGG
* *
59841755 CCTTTAGTAGCGTTTTTGGAAAAGCGCCGCTAATGCTTGTACCTTTAGCGGCGTTTTTAAAAAAG
1 CCTTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCTCGTACCTTTAGCGGCGTTTTTAAAAAAG
*
59841820 CGCCGCTAAT
66 CACCGCTAAT
59841830 AAAAAAATCT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (82 bp):
CCTTTAGCAGCGTTTTTGGAAAAGCGCCGCTAATGCTCGTACCTTTAGCGGCGTTTTTAAAAAAG
CACCGCTAATGCTCGGG
Found at i:59842509 original size:28 final size:26
Alignment explanation
Indices: 59842446--59842510 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
59842436 AGGGTTATAG
*
59842446 GAAAAT-ATTATAAATATTGAAATTC
1 GAAAATAATTATAAATATTGAAATTA
*
59842471 GAATAAAAATTATTAAATATT-AAATTTTA
1 GAA-AATAATTA-TAAATATTGAAA--TTA
59842500 GAAAATAATTA
1 GAAAATAATTA
59842511 AGTGAAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 7 0.22
28 15 0.47
29 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
GAAAATAATTATAAATATTGAAATTA
Found at i:59846129 original size:24 final size:24
Alignment explanation
Indices: 59846097--59846150 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
59846087 GGGAAAAGTA
* *
59846097 AGTTC-TTTCTGTATGTGTTGAAC
1 AGTTCATTTCTGCATGTATTGAAC
* *
59846120 GGTTCATTTCTGCATGTATTTAAC
1 AGTTCATTTCTGCATGTATTGAAC
59846144 AGTTCAT
1 AGTTCAT
59846151 CTTTCACCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.20, C:0.15, G:0.19, T:0.46
Consensus pattern (24 bp):
AGTTCATTTCTGCATGTATTGAAC
Found at i:59847277 original size:43 final size:42
Alignment explanation
Indices: 59847139--59847278 Score: 172
Period size: 43 Copynumber: 3.3 Consensus size: 42
59847129 GTTATATTTA
* *
59847139 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTTTTGGTTTT
1 TAGCGGCGTTTGTGGGAAAAGCGC-GCTAAAGGTCTTGGTCTT
** *
59847182 TAGCGGTATTTGTGGGAAAAGTGCCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCTTGGTCTT
* * *
59847225 TAGCAGCGTTTGTGGGAAAAGCGTCGTTAAAGGTCGTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCG-CGCTAAAGGTCTTGGTCTT
*
59847268 TAACGGCGTTT
1 TAGCGGCGTTT
59847279 TTCGCGGCGC
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 81 0.99
44 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.33
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAAGCGCGCTAAAGGTCTTGGTCTT
Found at i:59847761 original size:22 final size:20
Alignment explanation
Indices: 59847735--59847784 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
59847725 AAACCCATTT
* *
59847735 AATTAAATATTATTAATAAAA
1 AATTAAAAATTAATAA-AAAA
59847756 ATATTAAAAATTAATAAAAAA
1 A-ATTAAAAATTAATAAAAAA
59847777 AATTAAAA
1 AATTAAAA
59847785 GTAAATCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 6 0.23
22 13 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAAAATTAATAAAAAA
Found at i:59848001 original size:25 final size:25
Alignment explanation
Indices: 59847946--59848008 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
59847936 TATGTTATTA
* *
59847946 TATATTTTACAT-TATGATTAAATT
1 TATATTTTACATATATAAATAAATT
*
59847970 TAAATTTTACATATATAAATAAATAT
1 TATATTTTACATATATAAATAAAT-T
*
59847996 T-TATTTTATATAT
1 TATATTTTACATAT
59848009 TTATTATACA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 11 0.34
25 19 0.59
26 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (25 bp):
TATATTTTACATATATAAATAAATT
Found at i:59849952 original size:18 final size:18
Alignment explanation
Indices: 59849929--59849964 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
59849919 CTTCCGCAGA
59849929 TTGATTCGTTCAAGATGG
1 TTGATTCGTTCAAGATGG
*
59849947 TTGATTCGTTCAGGATGG
1 TTGATTCGTTCAAGATGG
59849965 CAACAATGAG
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:0.19, C:0.11, G:0.31, T:0.39
Consensus pattern (18 bp):
TTGATTCGTTCAAGATGG
Found at i:59851100 original size:352 final size:352
Alignment explanation
Indices: 59850456--59851508 Score: 2097
Period size: 352 Copynumber: 3.0 Consensus size: 352
59850446 ATTAAAAGAA
59850456 GAGTATGCTATGACATCCAATGTGAGTTCAATCATAAGAAAATCAGTGCAAACGATTTAAGCATA
1 GAGTATGCTATGACATCCAATGTGAGTTCAATCATAAGAAAATCAGTGCAAACGATTTAAGCATA
59850521 CAGAAGTATGTCACACAGAAATAATTTACAGAACCAATATCTACATATCGATGTTTTAGATCATT
66 CAGAAGTATGTCACACAGAAATAATTTACAGAACCAATATCTACATATCGATGTTTTAGATCATT
59850586 CAAAATTCATGTATGTATATGTCATATAAAAAATTCCAATTTTGTATGCACATGTTTTTATGGAT
131 CAAAATTCATGTATGTATATGTCATATAAAAAATTCCAATTTTGTATGCACATGTTTTTATGGAT
59850651 TCCATACAGTTTCGATTTTAACAAAAACGATCCTACCTCACCGCTACACACCATAATGGGAGTTC
196 TCCATACAGTTTCGATTTTAACAAAAACGATCCTACCTCACCGCTACACACCATAATGGGAGTTC
59850716 CCTTGAACTCCACCCAACAACACACTGGATTGTGGCTTAGCCACTAATGGTTTGCAGATAAACTA
261 CCTTGAACTCCACCCAACAACACACTGGATTGTGGCTTAGCCACTAATGGTTTGCAGATAAACTA
59850781 CTAATGGTTGTGAACACACAACAATGT
326 CTAATGGTTGTGAACACACAACAATGT
59850808 GAGTATGCTATGACATCCAATGTGAGTTCAATCATAAGAAAATCAGTGCAAACGATTTAAGCATA
1 GAGTATGCTATGACATCCAATGTGAGTTCAATCATAAGAAAATCAGTGCAAACGATTTAAGCATA
59850873 CAGAAGTATGTCACACAGAAATAATTTACAGAACCAATATCTACATATCGATGTTTTAGATCATT
66 CAGAAGTATGTCACACAGAAATAATTTACAGAACCAATATCTACATATCGATGTTTTAGATCATT
59850938 CAAAATTCATGTATGTATATGTCATATAAAAAATTCCAATTTTGTATGCACATGTTTTTATGGAT
131 CAAAATTCATGTATGTATATGTCATATAAAAAATTCCAATTTTGTATGCACATGTTTTTATGGAT
59851003 TCCATACAGTTTCGATTTTAACAAAAACGATCCTACCTCACCGCTACACACCATAATGGGAGTTC
196 TCCATACAGTTTCGATTTTAACAAAAACGATCCTACCTCACCGCTACACACCATAATGGGAGTTC
59851068 CCTTGAACTCCACCCAACAACACACTGGATTGTGGCTTAGCCACTAATGGTTTGCAGATAAACTA
261 CCTTGAACTCCACCCAACAACACACTGGATTGTGGCTTAGCCACTAATGGTTTGCAGATAAACTA
59851133 CTAATGGTTGTGAACACACAACAATGT
326 CTAATGGTTGTGAACACACAACAATGT
59851160 GAGTATGCTATGACATCCAATGTGAGTTCAATCATAAGAAAATCAGTGCAAACGATTTAAGCATA
1 GAGTATGCTATGACATCCAATGTGAGTTCAATCATAAGAAAATCAGTGCAAACGATTTAAGCATA
59851225 CAGAAGTATGTCACACAGAAATAATTTACAGAACCAATATCTACATATCGATGTTTTAGATCATT
66 CAGAAGTATGTCACACAGAAATAATTTACAGAACCAATATCTACATATCGATGTTTTAGATCATT
59851290 CAAAATTCATGTATGTATATGTCATATAAAAAATTCCAATTTTGTATGCACATGTTTTTATGGAT
131 CAAAATTCATGTATGTATATGTCATATAAAAAATTCCAATTTTGTATGCACATGTTTTTATGGAT
59851355 TCCATACAGTTTCGATTTTAACAAAAACGATCCTACCTCACCGCTACACACCATAATGGGAGTTC
196 TCCATACAGTTTCGATTTTAACAAAAACGATCCTACCTCACCGCTACACACCATAATGGGAGTTC
59851420 CCTTGAACTCCACCCAACAACACACTGGATTGTGGCTTAGCCACTAATGGTTTGCAGATAAACTA
261 CCTTGAACTCCACCCAACAACACACTGGATTGTGGCTTAGCCACTAATGGTTTGCAGATAAACTA
*
59851485 TTAATGGTTGTGAACACACAACAA
326 CTAATGGTTGTGAACACACAACAA
59851509 AAATTCTGCA
Statistics
Matches: 700, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
352 700 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (352 bp):
GAGTATGCTATGACATCCAATGTGAGTTCAATCATAAGAAAATCAGTGCAAACGATTTAAGCATA
CAGAAGTATGTCACACAGAAATAATTTACAGAACCAATATCTACATATCGATGTTTTAGATCATT
CAAAATTCATGTATGTATATGTCATATAAAAAATTCCAATTTTGTATGCACATGTTTTTATGGAT
TCCATACAGTTTCGATTTTAACAAAAACGATCCTACCTCACCGCTACACACCATAATGGGAGTTC
CCTTGAACTCCACCCAACAACACACTGGATTGTGGCTTAGCCACTAATGGTTTGCAGATAAACTA
CTAATGGTTGTGAACACACAACAATGT
Found at i:59851663 original size:45 final size:46
Alignment explanation
Indices: 59851561--59851672 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 46
59851551 CAAAATCTTA
* **
59851561 CAGATGAAATCTGCCTTTGACTGTGGATTACACAACATTTAACCAG
1 CAGATGAAATCTGCCTTTGGCTGTGGATTACACAACAAATAACCAG
* * *
59851607 TAAATGAAATCTGCCTTTGGCTGTGGA-TACACAACAAAT-AGCACG
1 CAGATGAAATCTGCCTTTGGCTGTGGATTACACAACAAATAACCA-G
*
59851652 CAGATGGAATCTGCCTTTGGC
1 CAGATGAAATCTGCCTTTGGC
59851673 GGTGAGTACA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
44 3 0.05
45 29 0.52
46 24 0.43
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (46 bp):
CAGATGAAATCTGCCTTTGGCTGTGGATTACACAACAAATAACCAG
Found at i:59862218 original size:27 final size:28
Alignment explanation
Indices: 59862187--59862250 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
59862177 AATAACCAAA
* *
59862187 ATACCCCTAA-AGAGTA-AAATGACTATT
1 ATACCCCTAATA-AATAGAAATGACCATT
*
59862214 TTACCCCTAATAAATAGAAATGACCATT
1 ATACCCCTAATAAATAGAAATGACCATT
59862242 ATACCCCTA
1 ATACCCCTA
59862251 GAGGTAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (28 bp):
ATACCCCTAATAAATAGAAATGACCATT
Found at i:59862422 original size:26 final size:26
Alignment explanation
Indices: 59862383--59862437 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
59862373 TGGAGGAAGT
* *
59862383 ATACTGTTATTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
59862409 ATACTATTACTGGCAGTTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
59862435 ATA
1 ATA
59862438 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:59864031 original size:41 final size:41
Alignment explanation
Indices: 59863986--59864071 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
59863976 GTAAAAACTA
*
59863986 AAAACTAAAATAATTTATAATCCACTCCTTATATAATTAGG
1 AAAACGAAAATAATTTATAATCCACTCCTTATATAATTAGG
*** *
59864027 AAAACGAGTTTAATTTATAATCTACTCCTTATATAATTAGG
1 AAAACGAAAATAATTTATAATCCACTCCTTATATAATTAGG
59864068 AAAA
1 AAAA
59864072 GGTCTCAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (41 bp):
AAAACGAAAATAATTTATAATCCACTCCTTATATAATTAGG
Found at i:59879325 original size:73 final size:73
Alignment explanation
Indices: 59879206--59879466 Score: 504
Period size: 73 Copynumber: 3.6 Consensus size: 73
59879196 TATTATTATT
* *
59879206 TGGATGTAATGATGTAACTTAGTTGTATTTCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59879271 ATTTTAAG
66 ATTTTAAG
59879279 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59879344 ATTTTAAG
66 ATTTTAAG
59879352 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
59879417 ATTTTAAG
66 ATTTTAAG
59879425 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTG
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTG
59879467 CAAGTTGTAA
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 186 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:59883690 original size:3 final size:3
Alignment explanation
Indices: 59883682--59883731 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
59883672 ATCACATGTT
59883682 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
59883730 TT
1 TT
59883732 TGGATGTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:59894371 original size:24 final size:24
Alignment explanation
Indices: 59894344--59894395 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59894334 TTAGTAAGTC
*
59894344 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
59894368 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
59894392 AAAT
1 AAAT
59894396 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:59895737 original size:38 final size:38
Alignment explanation
Indices: 59895686--59895761 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
59895676 TCGCATAAAG
59895686 AGTTTCTAACCTTTTCCACAAGGCGAATGAGGTCTTCT
1 AGTTTCTAACCTTTTCCACAAGGCGAATGAGGTCTTCT
*
59895724 AGTTTCTAACCTTTTCTACAAGGCGAATGAGGTCTTCT
1 AGTTTCTAACCTTTTCCACAAGGCGAATGAGGTCTTCT
59895762 CCATCAACAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (38 bp):
AGTTTCTAACCTTTTCCACAAGGCGAATGAGGTCTTCT
Found at i:59900743 original size:21 final size:21
Alignment explanation
Indices: 59900717--59900763 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
59900707 GGTATAGCAA
59900717 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
59900738 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
59900759 GATCA
1 GATCA
59900764 ATATTTAAGC
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:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:59900881 original size:20 final size:19
Alignment explanation
Indices: 59900854--59900905 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
59900844 TCCATTTTTA
59900854 TTTT-TTCATTTTTCATTT
1 TTTTCTTCATTTTTCATTT
59900872 TTTTCATTCATTTTTTCATTT
1 TTTTC-TTCA-TTTTTCATTT
59900893 TTTTCTTC-TTTTT
1 TTTTCTTCATTTTT
59900906 TTCATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.29
20 7 0.23
21 15 0.48
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTTCATTTTTCATTT
Found at i:59900917 original size:21 final size:21
Alignment explanation
Indices: 59900858--59900910 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
59900848 TTTTTATTTT
59900858 TTCA-TTTTTCATTTTTTTCA
1 TTCATTTTTTCATTTTTTTCA
59900878 TTCATTTTTTCATTTTTTTC-
1 TTCATTTTTTCATTTTTTTCA
*
59900898 TTCTTTTTTTCAT
1 TTCATTTTTTCAT
59900911 CATTTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCATTTTTTCATTTTTTTCA
Found at i:59900919 original size:12 final size:12
Alignment explanation
Indices: 59900866--59900919 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
59900856 TTTTCATTTT
59900866 TCATTTTTTTCA
1 TCATTTTTTTCA
59900878 TTCA--TTTTT--
1 -TCATTTTTTTCA
*
59900887 TCATTTTTTTCT
1 TCATTTTTTTCA
59900899 TC-TTTTTTTCA
1 TCATTTTTTTCA
59900910 TCATTTTTTT
1 TCATTTTTTT
59900920 GTACGAGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
8 3 0.09
10 5 0.14
11 15 0.43
12 9 0.26
13 3 0.09
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (12 bp):
TCATTTTTTTCA
Found at i:59901816 original size:20 final size:20
Alignment explanation
Indices: 59901786--59901824 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
59901776 CTATTTTGAC
59901786 TTTGATTTTTTTTATATTTTT
1 TTTGATTTTTTTTAT-TTTTT
59901807 TTTG-TTTTTTTTATTTTT
1 TTTGATTTTTTTTATTTTT
59901825 GATTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (20 bp):
TTTGATTTTTTTTATTTTTT
Found at i:59901823 original size:15 final size:16
Alignment explanation
Indices: 59901805--59901839 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
59901795 TTTTATATTT
*
59901805 TTTTTG-TTTTTTTTA
1 TTTTTGATTTTTTTCA
59901820 TTTTTGATTTTTTTCA
1 TTTTTGATTTTTTTCA
59901836 TTTT
1 TTTT
59901840 CATTTTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTTGATTTTTTTCA
Done.