Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 53 of 171
Found at i:21638077 original size:13 final size:13
Alignment explanation
Indices: 21638071--21638131 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
21638061 ATTACTAATT
21638071 ATTATTAATATTA
1 ATTATTAATATTA
*
21638084 ATTATTAATAGGT-
1 ATTATTAATA-TTA
*
21638097 ATTATTAAAGTCATTT
1 ATTATT-AA-T-ATTA
*
21638113 ATTATTATTATTA
1 ATTATTAATATTA
21638126 ATTATT
1 ATTATT
21638132 CAATGTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 25 0.64
14 4 0.10
15 3 0.08
16 7 0.18
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (13 bp):
ATTATTAATATTA
Found at i:21638614 original size:25 final size:24
Alignment explanation
Indices: 21638581--21638627 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
21638571 GTAGTAGGGT
21638581 AAGGTGGAGCTGGTGATGGCAGGA
1 AAGGTGGAGCTGGTGATGGCAGGA
*
21638605 AAGGTTGGAGCTGGTGGTGGCAG
1 AAGG-TGGAGCTGGTGATGGCAG
21638628 CAATCATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.21, C:0.09, G:0.51, T:0.19
Consensus pattern (24 bp):
AAGGTGGAGCTGGTGATGGCAGGA
Found at i:21638850 original size:11 final size:12
Alignment explanation
Indices: 21638836--21638874 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
21638826 TATAATAATT
21638836 TTAAATTCAAA-
1 TTAAATTCAAAC
*
21638847 TTAAATTCAAAT
1 TTAAATTCAAAC
21638859 TTAAATT-AAAC
1 TTAAATTCAAAC
21638870 TTAAA
1 TTAAA
21638875 CTTAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
TTAAATTCAAAC
Found at i:21638879 original size:17 final size:17
Alignment explanation
Indices: 21638822--21638924 Score: 95
Period size: 17 Copynumber: 6.1 Consensus size: 17
21638812 TATTTTACTG
*
21638822 AATTTATAA-TAATTTTA
1 AATTTA-AATTAAATTTA
* *
21638839 AATTCAAATTAAATTCA
1 AATTTAAATTAAATTTA
*
21638856 AATTTAAATTAAACTTA
1 AATTTAAATTAAATTTA
*
21638873 AACTT-AA-TAAATTTA
1 AATTTAAATTAAATTTA
*
21638888 AATTTAAAATAAATTTA
1 AATTTAAATTAAATTTA
**
21638905 AATTTTAAAACAAATTTA
1 AA-TTTAAATTAAATTTA
21638923 AA
1 AA
21638925 ATGGTTTGGT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
15 11 0.15
16 6 0.08
17 39 0.54
18 16 0.22
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTAAATTAAATTTA
Found at i:21638900 original size:26 final size:26
Alignment explanation
Indices: 21638855--21638905 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21638845 AATTAAATTC
*
21638855 AAATTTAAATTAAACTTAAACTTAAT
1 AAATTTAAATTAAACATAAACTTAAT
*
21638881 AAATTTAAATTTAAA-ATAAATTTAA
1 AAATTTAAA-TTAAACATAAACTTAA
21638906 ATTTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATTTAAATTAAACATAAACTTAAT
Found at i:21638913 original size:7 final size:6
Alignment explanation
Indices: 21638835--21638909 Score: 66
Period size: 6 Copynumber: 12.5 Consensus size: 6
21638825 TTATAATAAT
* * *
21638835 TTTAAA TTCAAA -TTAAA TTCAAA TTTAAA -TTAAA CTTAAA CTTAATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TT--TAAA
*
21638884 TTTAAA TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
21638910 TAAAACAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
5 13 0.23
6 36 0.64
7 1 0.02
8 2 0.04
9 4 0.07
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:21642333 original size:13 final size:13
Alignment explanation
Indices: 21642315--21642341 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21642305 AACGTGATCA
21642315 CGGGTTGCTTGTT
1 CGGGTTGCTTGTT
21642328 CGGGTTGCTTGTT
1 CGGGTTGCTTGTT
21642341 C
1 C
21642342 TCAAACGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.37, T:0.44
Consensus pattern (13 bp):
CGGGTTGCTTGTT
Found at i:21643138 original size:20 final size:20
Alignment explanation
Indices: 21643096--21643134 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21643086 TAAATTACTT
*
21643096 TTTATAATATAGTTTTTAGA
1 TTTATAATATAGATTTTAGA
21643116 TTTATAATATA-ATTTTAGA
1 TTTATAATATAGATTTTAGA
21643135 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTATAATATAGATTTTAGA
Found at i:21643580 original size:26 final size:25
Alignment explanation
Indices: 21643516--21643582 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
21643506 ATGTAAACAT
* * *
21643516 TAAAAACTGTTAAAATAACTATATA
1 TAAAAATTATTAAAATAAATATATA
*
21643541 TAAAAATTAATAAATATAAATATATA
1 TAAAAATTATTAAA-ATAAATATATA
* * *
21643567 TATATATTTTTAAAAT
1 TAAAAATTATTAAAAT
21643583 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (25 bp):
TAAAAATTATTAAAATAAATATATA
Found at i:21645716 original size:29 final size:29
Alignment explanation
Indices: 21645660--21645716 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
21645650 GAACGAAAAA
**
21645660 AATATTTACACAAATAATTCAAGTTAAAT
1 AATATTTACACAAATAATTCAAAATAAAT
** *
21645689 AATATTTACTTAAATAATTTAAAATAAA
1 AATATTTACACAAATAATTCAAAATAAA
21645717 CAGTAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (29 bp):
AATATTTACACAAATAATTCAAAATAAAT
Found at i:21646036 original size:59 final size:55
Alignment explanation
Indices: 21645943--21646069 Score: 141
Period size: 59 Copynumber: 2.3 Consensus size: 55
21645933 TTTTACATTA
** *
21645943 AAAAAATA-TTTTTTAAGTGTTTGCCAATCAATAGC-CATCACCCAAAAAATACGAAT
1 AAAAAATATTTTTTTTTGTGTTTGCCAAGCAATAGCTCA-CACCC-AAAAA-ACGAAT
* * *
21645999 AAAAAATTAGTTTTTTTTTGTGTTTGTCAAGCCATAGCTGACACCCAAAAAACGAAT
1 AAAAAA-TA-TTTTTTTTTGTGTTTGCCAAGCAATAGCTCACACCCAAAAAACGAAT
21646056 AAAAAATATTTTTT
1 AAAAAATATTTTTT
21646070 GGGGTGTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
55 6 0.10
56 8 0.13
57 14 0.23
58 5 0.08
59 27 0.44
60 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (55 bp):
AAAAAATATTTTTTTTTGTGTTTGCCAAGCAATAGCTCACACCCAAAAAACGAAT
Found at i:21646782 original size:56 final size:56
Alignment explanation
Indices: 21646648--21646781 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 56
21646638 ATTATTTGCT
* * *
21646648 AAACACCCTCAAAAAATATTTTTAAATCTGAGAAATGTGGTATAGGTCATTGGGTTGC
1 AAACA-CC-CAAAAAATATTTTTAAATCTGAAAAAAGTGGTATAGGTCATTGGGTGGC
* * *
21646706 AAATACCTAAAAAATATTTTTAAATCTGAAAAAAGTGGTGTAGGTCATT-GGTGGC
1 AAACACCCAAAAAATATTTTTAAATCTGAAAAAAGTGGTATAGGTCATTGGGTGGC
21646761 AAACACCCAAAAAATATTTTT
1 AAACACCCAAAAAATATTTTT
21646782 TTATTCGTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
55 24 0.35
56 38 0.56
57 2 0.03
58 4 0.06
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (56 bp):
AAACACCCAAAAAATATTTTTAAATCTGAAAAAAGTGGTATAGGTCATTGGGTGGC
Found at i:21646999 original size:114 final size:113
Alignment explanation
Indices: 21646705--21646999 Score: 266
Period size: 114 Copynumber: 2.6 Consensus size: 113
21646695 CATTGGGTTG
** * * * * *
21646705 CAAATACCTAAAAAATATTTTTAAATCTGAAAAAA-GTGGTGTAGGTCATTG-GTGGCAAACACC
1 CAAATACAAAAAAAATATTTTTAAATGT-AAAAAAGGTGGTGTCGGTCATAGTGTGACAGACACC
* *
21646768 CAAAAAATATTTTTTTATTCGTATTTTTTGGATGTTGTTCATGGCTAGA
65 CAAAAAATAATTTTTTATTCGTATTTTTTGGATGTGGTTCATGGCTAGA
* ** *
21646817 CAAACACAAAAAAAAATATTTTTGGACTTGT--AAAAGG-GAGTGTCGGTCATGACT-TGACAGA
1 CAAATAC-AAAAAAAATATTTTT--AAATGTAAAAAAGGTG-GTGTCGGTCAT-AGTGTGACAGA
* *
21646878 CATCCAAAAGAACTAATTTTTTATTCGTA-TTTTT-GAGTGTCGGTT-ATGGCTTGA
61 CACCCAAAA-AA-TAATTTTTTATTCGTATTTTTTGGA-TGT-GGTTCATGGCTAGA
* * * *
21646932 CAAATACAAAAAAAATATTTTTTAATGTAAAAAAGGTGGTGTCGGTTATAGTGTGTCAGAGACCC
1 CAAATACAAAAAAAATATTTTTAAATGTAAAAAAGGTGGTGTCGGTCATAGTGTGACAGACACCC
21646997 AAA
66 AAA
21647000 TTGTTTTTTA
Statistics
Matches: 144, Mismatches: 24, Indels: 28
0.73 0.12 0.14
Matches are distributed among these distances:
112 14 0.10
113 26 0.18
114 58 0.40
115 28 0.19
116 18 0.12
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (113 bp):
CAAATACAAAAAAAATATTTTTAAATGTAAAAAAGGTGGTGTCGGTCATAGTGTGACAGACACCC
AAAAAATAATTTTTTATTCGTATTTTTTGGATGTGGTTCATGGCTAGA
Found at i:21647704 original size:34 final size:34
Alignment explanation
Indices: 21647666--21647744 Score: 158
Period size: 34 Copynumber: 2.3 Consensus size: 34
21647656 CTAATATTTT
21647666 ATATATTTTTATAATTTCAAAAATAATAATAGAA
1 ATATATTTTTATAATTTCAAAAATAATAATAGAA
21647700 ATATATTTTTATAATTTCAAAAATAATAATAGAA
1 ATATATTTTTATAATTTCAAAAATAATAATAGAA
21647734 ATATATTTTTA
1 ATATATTTTTA
21647745 AAATAAGTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (34 bp):
ATATATTTTTATAATTTCAAAAATAATAATAGAA
Found at i:21649721 original size:3 final size:3
Alignment explanation
Indices: 21649713--21649755 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
21649703 ACTCATAAAT
21649713 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
21649756 CATAATTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21650484 original size:19 final size:19
Alignment explanation
Indices: 21650442--21650484 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
21650432 TTTTTATTAA
21650442 AAATCATATTTTTTACATTT
1 AAAT-ATATTTTTTACATTT
21650462 -AATATATTTTTTA-ATTT
1 AAATATATTTTTTACATTT
21650479 CAAATA
1 -AAATA
21650485 CATGGTGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATATATTTTTTACATTT
Found at i:21652739 original size:6 final size:6
Alignment explanation
Indices: 21652728--21652767 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
21652718 AAATAAATAA
* * *
21652728 TAAATT TAAATT TAAATT TTATTT TAAATT TGAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
21652768 ATGTCCCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
TAAATT
Found at i:21653703 original size:29 final size:29
Alignment explanation
Indices: 21653681--21653760 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
21653671 CCTTATTTTA
21653681 TTTAAAAATTACATTTTAACCTTGAACCT
1 TTTAAAAATTACATTTTAACCTTGAACCT
* * * *
21653710 TTTCAAAATTACATTTTAACCCTCAAACT
1 TTTAAAAATTACATTTTAACCTTGAACCT
**
21653739 TTCCCAAAATTACATTTTAACC
1 TT-TAAAAATTACATTTTAACC
21653761 CCTAAACTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 27 0.60
30 18 0.40
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.39
Consensus pattern (29 bp):
TTTAAAAATTACATTTTAACCTTGAACCT
Found at i:21653876 original size:29 final size:29
Alignment explanation
Indices: 21653685--21653947 Score: 284
Period size: 30 Copynumber: 8.9 Consensus size: 29
21653675 ATTTTATTTA
* * *
21653685 AAAATTACATTTTAA-CCTTGAACCTTTTC
1 AAAATTACATTTTAACCCCT-AAACTTTCC
21653714 AAAATTACATTTTAA-CCCTCAAACTTTCCC
1 AAAATTACATTTTAACCCCT-AAACTTT-CC
21653744 AAAATTACATTTTAACCCCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAAC-TTTCC
*
21653774 AAAATTTA-ATTTTGACCCCTAAACTTTTCC
1 AAAA-TTACATTTTAACCCCTAAAC-TTTCC
* * *
21653804 AAAAGTGCATTTTAACCTCTAAACTTTTCC
1 AAAATTACATTTTAACCCCTAAAC-TTTCC
* *
21653834 AAACTTACATTTTAACCCCCAAACTTTCC
1 AAAATTACATTTTAACCCCTAAACTTTCC
* *
21653863 AAAATCACACTTTAACCCC-AAACTTTCCC
1 AAAATTACATTTTAACCCCTAAACTTT-CC
* * *
21653892 AAAATCACACTTTAACCCCTAAACATTCC
1 AAAATTACATTTTAACCCCTAAACTTTCC
21653921 TAAAATTACATTTT-ACCCCTAAACTTT
1 -AAAATTACATTTTAACCCCTAAACTTT
21653948 TTTAAAATTA
Statistics
Matches: 205, Mismatches: 21, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
28 7 0.03
29 81 0.40
30 107 0.52
31 10 0.05
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAACTTTCC
Found at i:21665944 original size:62 final size:62
Alignment explanation
Indices: 21665875--21666000 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
21665865 AAGCGGAAGC
*
21665875 AACAAAAGTTGAAAGAATTCAAAAGATGAACATAGCCACAGAAAAGCAAGAACACAAGAGAG
1 AACAAAAGTTGAAAGAACTCAAAAGATGAACATAGCCACAGAAAAGCAAGAACACAAGAGAG
21665937 AACAAAAGTTGAAAGAACTCAAAAGATGAACATAGCCACAGAAAAGCAAGAACACAAGAGAG
1 AACAAAAGTTGAAAGAACTCAAAAGATGAACATAGCCACAGAAAAGCAAGAACACAAGAGAG
21665999 AA
1 AA
21666001 TGTTTGAGTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.57, C:0.15, G:0.19, T:0.09
Consensus pattern (62 bp):
AACAAAAGTTGAAAGAACTCAAAAGATGAACATAGCCACAGAAAAGCAAGAACACAAGAGAG
Found at i:21671322 original size:171 final size:171
Alignment explanation
Indices: 21671037--21671386 Score: 646
Period size: 171 Copynumber: 2.0 Consensus size: 171
21671027 TAGAGCCTAT
21671037 TGTCGAGAGAGTCGTGATATAAAGGATAGGATAGGATGTCACGACATCAAGCCAAAATCGTGACA
1 TGTCGAGAGAGTCGTGATATAAAGGATAGGATAGGATGTCACGACATCAAGCCAAAATCGTGACA
*
21671102 GAGCTTTCAAGGTCGTGATAGCCCTAAAGGTGTTGAAGTGAAGAAATTGGAGCCATCACCAGTGA
66 AAGCTTTCAAGGTCGTGATAGCCCTAAAGGTGTTGAAGTGAAGAAATTGGAGCCATCACCAGTGA
*
21671167 TGTTGCGATACTGAGACTCCCAAAAGCCAAAATTGTGCCAC
131 TGCTGCGATACTGAGACTCCCAAAAGCCAAAATTGTGCCAC
* * * *
21671208 TGTCGAGAGAGTCGTGATATCAAGGATAGGATAGGATGTCATGACATCGAGTCAAAATCGTGACA
1 TGTCGAGAGAGTCGTGATATAAAGGATAGGATAGGATGTCACGACATCAAGCCAAAATCGTGACA
21671273 AAGCTTTCAAGGTCGTGATAGCCCTAAAGGTGTTGAAGTGAAGAAATTGGAGCCATCACCAGTGA
66 AAGCTTTCAAGGTCGTGATAGCCCTAAAGGTGTTGAAGTGAAGAAATTGGAGCCATCACCAGTGA
21671338 TGCTGCGATACTGAGACTCCCAAAAGCCAAAATTGTGCCAC
131 TGCTGCGATACTGAGACTCCCAAAAGCCAAAATTGTGCCAC
21671379 TGTCGAGA
1 TGTCGAGA
21671387 TTGTCACGAC
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 173 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.22
Consensus pattern (171 bp):
TGTCGAGAGAGTCGTGATATAAAGGATAGGATAGGATGTCACGACATCAAGCCAAAATCGTGACA
AAGCTTTCAAGGTCGTGATAGCCCTAAAGGTGTTGAAGTGAAGAAATTGGAGCCATCACCAGTGA
TGCTGCGATACTGAGACTCCCAAAAGCCAAAATTGTGCCAC
Found at i:21671593 original size:23 final size:21
Alignment explanation
Indices: 21671553--21671602 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
21671543 TATGCATGTT
*
21671553 TTATTTGTAATTGGATGTATA
1 TTATTTGTAATTGAATGTATA
*
21671574 TTATTTGTCGAATTGAATGTTTA
1 TTATTTGT--AATTGAATGTATA
*
21671597 ATATTT
1 TTATTT
21671603 CAATTGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.33
23 16 0.67
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (21 bp):
TTATTTGTAATTGAATGTATA
Found at i:21673765 original size:103 final size:101
Alignment explanation
Indices: 21673609--21673909 Score: 423
Period size: 103 Copynumber: 3.0 Consensus size: 101
21673599 CTGATTTATT
* *
21673609 GGTTGAAGTGGGAGACTTGTTATGAAGATTGGTTTGAAATCGGATCCAAAAATCGAGCCTGAAGC
1 GGTTTAAGTGGGAGACTTGTTTTGAAGATT-G-TTGAAATCGGATCCAAAAATCGAGCCTGAAGC
*
21673674 TAGGTAAATCGAAACGACAATTTTAAATATTCAGTCTA
64 TAGGTAAATCGAAACGATAATTTTAAATATTCAGTCTA
*
21673712 GGTTTAAGTGGGAGACTTGTTTTGAATATTGATTAGAAATCGGATCCAAAAATCGAGCCTGAAGC
1 GGTTTAAGTGGGAGACTTGTTTTGAAGATTG-TT-GAAATCGGATCCAAAAATCGAGCCTGAAGC
*
21673777 TAGGTAAATCGAAACGATAATTTTAAATATTCAATCTA
64 TAGGTAAATCGAAACGATAATTTTAAATATTCAGTCTA
* *
21673815 GGTTTAAGTGGGAGACTT-TTTATG--GATT-TTGAAATCGGGAT-AAAAAATCGAGCCTGAAGA
1 GGTTTAAGTGGGAGACTTGTTT-TGAAGATTGTTGAAATC-GGATCCAAAAATCGAGCCTGAAGC
* * *
21673875 TAGGTCAATTGAAACAATAATTTTAAATATTCAGT
64 TAGGTAAATCGAAACGATAATTTTAAATATTCAGT
21673910 TAAAATTTAA
Statistics
Matches: 182, Mismatches: 13, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
98 54 0.30
99 6 0.03
101 3 0.02
102 6 0.03
103 113 0.62
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (101 bp):
GGTTTAAGTGGGAGACTTGTTTTGAAGATTGTTGAAATCGGATCCAAAAATCGAGCCTGAAGCTA
GGTAAATCGAAACGATAATTTTAAATATTCAGTCTA
Found at i:21677526 original size:58 final size:59
Alignment explanation
Indices: 21677459--21677743 Score: 422
Period size: 59 Copynumber: 4.9 Consensus size: 59
21677449 TTCGGGAGTA
* *
21677459 AAAAT-GTAATTTTTGGTGAAA-CAGGGGTT-AAAATAGAATTTTGAAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGT
*
21677516 AAAATGGTAATTTTTGGTGGAATCGGGGTTAAAAATGGAATTTT-AGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGA-AAAGTTTAGGGGT
21677575 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAA-TTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-GAAAAGTTTAGGGGT
* * *
21677634 TAAATGGTAATTTTTGG-GAAATCGAGGTTAAAAATGGAATCTTGGAAAA-TTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAAT-TTTGAAAAGTTTAGGGGT
*
21677692 CAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTT
21677744 CGAGGGTCAA
Statistics
Matches: 209, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
57 5 0.02
58 81 0.39
59 119 0.57
60 3 0.01
61 1 0.00
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGT
Found at i:21677639 original size:28 final size:29
Alignment explanation
Indices: 21677548--21677705 Score: 114
Period size: 28 Copynumber: 5.4 Consensus size: 29
21677538 TCGGGGTTAA
* * *
21677548 AAATGG-AATTTTAGAAAGTTTAGGGGTA
1 AAATGGTAATTTTGGAAAATTTAGGGGTT
* *
21677576 AAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAATGGTAA-TTTTGG-AAAATTTAGGGGTT
21677605 AAAAATGG-AATTTTGGAAAATTTAGGGGTT
1 --AAATGGTAATTTTGGAAAATTTAGGGGTT
* * *
21677635 AAATGGTAATTTTTGGGAAA--TCGAGGTT
1 AAATGGTAA-TTTTGGAAAATTTAGGGGTT
* *
21677663 AAAAATGG-AATCTTGGAAAATTTAGGGGTC
1 --AAATGGTAATTTTGGAAAATTTAGGGGTT
21677693 AAATGGTAATTTT
1 AAATGGTAATTTT
21677706 TGGTGAAATC
Statistics
Matches: 100, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
28 35 0.35
29 23 0.23
30 34 0.34
31 8 0.08
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AAATGGTAATTTTGGAAAATTTAGGGGTT
Found at i:21677657 original size:117 final size:118
Alignment explanation
Indices: 21677459--21677743 Score: 436
Period size: 117 Copynumber: 2.4 Consensus size: 118
21677449 TTCGGGAGTA
* *
21677459 AAAAT-GTAATTTTTGGTGAAA-CAGGGGTT-AAAATAGAATTTTGAAAAGTTTGGGGGTAAAAT
1 AAAATGGTAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAAAT
* * * *
21677521 GGTAATTTTTGGTGGAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGT
65 GGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTAGAAAATTTAGGGGT
*
21677575 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAA-TTTAGGGGTTAAAT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTT-GAAAAGTTTAGGGGTAAAAT
*
21677639 GGTAATTTTTGG-GAAATCGAGGTTAAAAATGGAATCTTGGAAAATTTAGGGGT
65 GGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTAGAAAATTTAGGGGT
*
21677692 CAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTT
21677744 CGAGGGTCAA
Statistics
Matches: 155, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
116 10 0.06
117 103 0.66
118 37 0.24
119 5 0.03
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (118 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTAGGGGTAAAATG
GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTAGAAAATTTAGGGGT
Found at i:21679502 original size:14 final size:14
Alignment explanation
Indices: 21679477--21679525 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
21679467 TAAATTTGAT
21679477 TTGGGCCATTTGTAA
1 TTGGGCC-TTTGTAA
21679492 TTGGGCCTTTGTAA
1 TTGGGCCTTTGTAA
* *
21679506 TTGGG-CTTTTTAT
1 TTGGGCCTTTGTAA
21679519 TTGGGCC
1 TTGGGCC
21679526 CCCTTGTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 11 0.35
14 13 0.42
15 7 0.23
ACGTcount: A:0.12, C:0.14, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGCCTTTGTAA
Found at i:21679522 original size:13 final size:13
Alignment explanation
Indices: 21679485--21679524 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
21679475 ATTTGGGCCA
21679485 TTTGTAATTGGGCC
1 TTTGTAATTGGG-C
21679499 TTTGTAATTGGGC
1 TTTGTAATTGGGC
* *
21679512 TTTTTATTTGGGC
1 TTTGTAATTGGGC
21679525 CCCCTTGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.12, C:0.10, G:0.28, T:0.50
Consensus pattern (13 bp):
TTTGTAATTGGGC
Found at i:21679599 original size:17 final size:17
Alignment explanation
Indices: 21679577--21679664 Score: 89
Period size: 17 Copynumber: 5.5 Consensus size: 17
21679567 TTATTTATAA
*
21679577 AAATTTTAATTTAAAAT
1 AAATTTAAATTTAAAAT
* *
21679594 AAATTTAAACTTAAATT
1 AAATTTAAATTTAAAAT
21679611 AAATTTAAA-TT----T
1 AAATTTAAATTTAAAAT
*
21679623 -AATTTAAATTTAATAT
1 AAATTTAAATTTAAAAT
*
21679639 AAATCTAAATTTAAAAT
1 AAATTTAAATTTAAAAT
21679656 AAATTTAAA
1 AAATTTAAA
21679665 AGGGTCCGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
11 8 0.14
12 3 0.05
16 3 0.05
17 45 0.76
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTTAAATTTAAAAT
Found at i:21679665 original size:11 final size:11
Alignment explanation
Indices: 21679593--21679664 Score: 81
Period size: 11 Copynumber: 6.4 Consensus size: 11
21679583 TAATTTAAAA
*
21679593 TAAATTTAAACT
1 TAAA-TTAAATT
21679605 TAAATTAAATT
1 TAAATTAAATT
*
21679616 TAAATTTAATT
1 TAAATTAAATT
* *
21679627 TAAATTTAATA
1 TAAATTAAATT
21679638 TAAATCTAAATT
1 TAAAT-TAAATT
*
21679650 TAAAATAAATT
1 TAAATTAAATT
21679661 TAAA
1 TAAA
21679665 AGGGTCCGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
11 41 0.77
12 12 0.23
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:21680419 original size:21 final size:21
Alignment explanation
Indices: 21680393--21680432 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21680383 TACTTCTTAA
21680393 GTTCAATTTTAAATATTTATC
1 GTTCAATTTTAAATATTTATC
21680414 GTTCAATTTTAAATATTTA
1 GTTCAATTTTAAATATTTA
21680433 CTGTTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (21 bp):
GTTCAATTTTAAATATTTATC
Found at i:21684144 original size:38 final size:37
Alignment explanation
Indices: 21684098--21684192 Score: 154
Period size: 38 Copynumber: 2.5 Consensus size: 37
21684088 CACATTACCT
21684098 TTTTGTTTGCTTAAAAAGAACCCAGTTAAAATTGTCTC
1 TTTTGTTTGCTTAAAAAGAACCCAGTTAAAATTG-CTC
* * *
21684136 TTTTGTTTGCTTAAAAAAAACCCAGTTCACATTGCTC
1 TTTTGTTTGCTTAAAAAGAACCCAGTTAAAATTGCTC
21684173 TTTTGTTTGCTTAAAAAGAA
1 TTTTGTTTGCTTAAAAAGAA
21684193 TCCAATGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 22 0.42
38 31 0.58
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (37 bp):
TTTTGTTTGCTTAAAAAGAACCCAGTTAAAATTGCTC
Found at i:21686311 original size:16 final size:16
Alignment explanation
Indices: 21686287--21686319 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21686277 AACAAGAGGA
*
21686287 CAAATTAACTTTAGTG
1 CAAAGTAACTTTAGTG
21686303 CAAAGTAACTTTAGTG
1 CAAAGTAACTTTAGTG
21686319 C
1 C
21686320 TGGAAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (16 bp):
CAAAGTAACTTTAGTG
Found at i:21689398 original size:26 final size:27
Alignment explanation
Indices: 21689358--21689489 Score: 112
Period size: 28 Copynumber: 4.8 Consensus size: 27
21689348 ATTTAAAATG
21689358 TTTTTTTTTAATTTTTAAGAGACTCAA
1 TTTTTTTTTAATTTTTAAGAGACTCAA
* *
21689385 -TTTTTTTT-AGTTTTAAAAG-C-CAA
1 TTTTTTTTTAATTTTTAAGAGACTCAA
* *
21689408 TTTTTTTTTATCAATTATTAAGAGATCTTAA
1 -TTTTTTTT-T-AATTTTTAAGAGA-CTCAA
*
21689439 TTTTTTTTTAATTTTTAAGA-ACACAAA
1 TTTTTTTTTAATTTTTAAGAGACTC-AA
*
21689466 TTTTTTTTACCAATTTTTAAGAGA
1 TTTTTTTT--TAATTTTTAAGAGA
21689490 TTTAAATTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
23 3 0.04
24 1 0.01
25 16 0.19
26 10 0.12
27 11 0.13
28 18 0.22
29 12 0.14
30 10 0.12
31 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.54
Consensus pattern (27 bp):
TTTTTTTTTAATTTTTAAGAGACTCAA
Found at i:21689444 original size:31 final size:30
Alignment explanation
Indices: 21689406--21689518 Score: 101
Period size: 28 Copynumber: 3.8 Consensus size: 30
21689396 TTTAAAAGCC
*
21689406 AATTTTTTTTTATCAATTATTAAGAGATCTT
1 AATTTTTTTTT-TCAATTTTTAAGAGATCTT
**
21689437 AA-TTTTTTTTT-AATTTTTAAGA-A-CACA
1 AATTTTTTTTTTCAATTTTTAAGAGATC-TT
**
21689464 AATTTTTTTTACCAATTTTTAAGAGAT-TT
1 AATTTTTTTTTTCAATTTTTAAGAGATCTT
*
21689493 AAATTTTTATTTTTCAACTTTTAAGA
1 -AATTTTT-TTTTTCAATTTTTAAGA
21689519 AATTTAAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
26 1 0.02
27 3 0.05
28 17 0.26
29 12 0.18
30 16 0.25
31 16 0.25
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (30 bp):
AATTTTTTTTTTCAATTTTTAAGAGATCTT
Found at i:21689471 original size:29 final size:29
Alignment explanation
Indices: 21689439--21689519 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 29
21689429 GAGATCTTAA
21689439 TTTTTTTTT-AATTTTTAAGAACACAAAT
1 TTTTTTTTTCAATTTTTAAGAACACAAAT
** ***
21689467 TTTTTTTACCAATTTTTAAGAGATTTAAAT
1 TTTTTTTTTCAATTTTTAAGA-ACACAAAT
*
21689497 TTTTATTTTTCAACTTTTAAGAA
1 TTTT-TTTTTCAATTTTTAAGAA
21689520 ATTTAAAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 7 0.17
29 11 0.26
30 10 0.24
31 14 0.33
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.54
Consensus pattern (29 bp):
TTTTTTTTTCAATTTTTAAGAACACAAAT
Found at i:21689480 original size:57 final size:57
Alignment explanation
Indices: 21689367--21689519 Score: 165
Period size: 57 Copynumber: 2.7 Consensus size: 57
21689357 GTTTTTTTTT
* * * *
21689367 AATTTTTAAGAGA-CTCAA-TTTTTTTT-AGTTTTAA-AAGCCAATTTTTTTTTATC
1 AATTTTTAAGAGATCTTAATTTTTTTTTAACTTTTAAGAAGCCAAATTTTTTTTACC
* *
21689420 AATTATTAAGAGATCTTAATTTTTTTTTAATTTTTAAGAA-CACAAATTTTTTTTACC
1 AATTTTTAAGAGATCTTAATTTTTTTTTAACTTTTAAGAAGC-CAAATTTTTTTTACC
21689477 AATTTTTAAGAGAT-TTAAATTTTTATTTTTCAACTTTTAAGAA
1 AATTTTTAAGAGATCTT-AA-TTTT-TTTTT-AACTTTTAAGAA
21689520 ATTTAAAACT
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
53 12 0.14
54 4 0.05
55 8 0.10
56 10 0.12
57 30 0.36
58 4 0.05
59 5 0.06
60 11 0.13
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.52
Consensus pattern (57 bp):
AATTTTTAAGAGATCTTAATTTTTTTTTAACTTTTAAGAAGCCAAATTTTTTTTACC
Found at i:21689524 original size:31 final size:30
Alignment explanation
Indices: 21689463--21689526 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
21689453 TTAAGAACAC
* *
21689463 AAATTTTTTTTACCAATTTTTAAGAGATTT
1 AAATTTTTTTTACCAACTTTTAAGAAATTT
**
21689493 AAATTTTTATTTTTCAACTTTTAAGAAATTT
1 AAATTTTT-TTTACCAACTTTTAAGAAATTT
21689524 AAA
1 AAA
21689527 ACTGGATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (30 bp):
AAATTTTTTTTACCAACTTTTAAGAAATTT
Found at i:21690483 original size:18 final size:18
Alignment explanation
Indices: 21690457--21690491 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21690447 TTTTCAATTG
*
21690457 TAATCAATTTAAAATTTT
1 TAATCAATTAAAAATTTT
*
21690475 TAATTAATTAAAAATTT
1 TAATCAATTAAAAATTT
21690492 GTTTTCATCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATCAATTAAAAATTTT
Found at i:21696002 original size:50 final size:50
Alignment explanation
Indices: 21695927--21696026 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
21695917 TCAATGTGGT
21695927 TGAAAATTGATAGATTCAATGGCCATAAAAAAATATTATAAAAAGAAAAA
1 TGAAAATTGATAGATTCAATGGCCATAAAAAAATATTATAAAAAGAAAAA
*
21695977 TGAAAATTGATGGATTCAATGGCCATAAAAAAATATTATAAAAAGAAAAA
1 TGAAAATTGATAGATTCAATGGCCATAAAAAAATATTATAAAAAGAAAAA
21696027 AAAAACCTGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.24
Consensus pattern (50 bp):
TGAAAATTGATAGATTCAATGGCCATAAAAAAATATTATAAAAAGAAAAA
Found at i:21699787 original size:20 final size:21
Alignment explanation
Indices: 21699762--21699803 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
21699752 ATTATTATTA
*
21699762 TTATTTGTCTTAATT-AAGCT
1 TTATTTGTCATAATTAAAGCT
*
21699782 TTATTTTTCATAATTAAAGCT
1 TTATTTGTCATAATTAAAGCT
21699803 T
1 T
21699804 AAACGTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.55
Consensus pattern (21 bp):
TTATTTGTCATAATTAAAGCT
Found at i:21707339 original size:21 final size:21
Alignment explanation
Indices: 21707315--21707375 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
21707305 AACAGGACAA
*
21707315 TTGACGTGGCCAGTTAACTAG
1 TTGATGTGGCCAGTTAACTAG
*
21707336 TTGATGTGACCAGTTAACTAG
1 TTGATGTGGCCAGTTAACTAG
* *
21707357 CTAATGTGGCCAGTTAACT
1 TTGATGTGGCCAGTTAACT
21707376 TGTCATGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (21 bp):
TTGATGTGGCCAGTTAACTAG
Found at i:21707662 original size:28 final size:28
Alignment explanation
Indices: 21707609--21707672 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
21707599 CATCATTCTT
* * *
21707609 TTTTTGTTTTTTAATAAATGGCCCAATA
1 TTTTTATTTTTTAATAAATGGACCAAAA
*
21707637 TTTTTATTTTTTGCATAAAT-GACCAAAA
1 TTTTTATTTTTT-AATAAATGGACCAAAA
21707665 TGTTTTAT
1 T-TTTTAT
21707673 ACAATCTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (28 bp):
TTTTTATTTTTTAATAAATGGACCAAAA
Found at i:21710758 original size:1 final size:1
Alignment explanation
Indices: 21710752--21710776 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
21710742 ACATAATTAC
21710752 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
21710777 CCATAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21715780 original size:45 final size:45
Alignment explanation
Indices: 21715716--21715806 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
21715706 TAAATGCACT
21715716 CAAAAATTGTTGAAGCCACAGCCTGGGTTTACCTGACCATGACAA
1 CAAAAATTGTTGAAGCCACAGCCTGGGTTTACCTGACCATGACAA
*
21715761 CAAAAATTGTTGAAGCCACAGCTTGGGTTTACCTGACCATGACAA
1 CAAAAATTGTTGAAGCCACAGCCTGGGTTTACCTGACCATGACAA
21715806 C
1 C
21715807 GTTATATAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (45 bp):
CAAAAATTGTTGAAGCCACAGCCTGGGTTTACCTGACCATGACAA
Found at i:21719952 original size:4 final size:4
Alignment explanation
Indices: 21719939--21719977 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
21719929 TGATTTGAAG
*
21719939 GAAA -AAA GAAA GAAAA AAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAA
21719978 GGAAGGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.10
4 25 0.81
5 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:21720427 original size:11 final size:11
Alignment explanation
Indices: 21720411--21720437 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21720401 ATTTGATTGA
21720411 TTTTTTGTTTT
1 TTTTTTGTTTT
21720422 TTTTTTGTTTT
1 TTTTTTGTTTT
21720433 TTTTT
1 TTTTT
21720438 AATATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:21730916 original size:13 final size:13
Alignment explanation
Indices: 21730895--21730943 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
21730885 ATGATTTTAA
21730895 ATTTATTAAAATT
1 ATTTATTAAAATT
*
21730908 ATTTTTTAAAATAT
1 ATTTATTAAAAT-T
*
21730922 AAAATTATTAAAATT
1 --ATTTATTAAAATT
21730937 ATTTATT
1 ATTTATT
21730944 TGAAATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 17 0.59
14 1 0.03
15 1 0.03
16 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTATTAAAATT
Found at i:21730934 original size:29 final size:31
Alignment explanation
Indices: 21730892--21730959 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 31
21730882 CAAATGATTT
*
21730892 TAAATTTATTAAAATTATTT-TTTAAAAT-A
1 TAAAATTATTAAAATTATTTATTTAAAATAA
*
21730921 TAAAATTATTAAAATTATTTATTTGAAATAA
1 TAAAATTATTAAAATTATTTATTTAAAATAA
21730952 TAAAATTA
1 TAAAATTA
21730960 AAATAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 19 0.54
30 7 0.20
31 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTATTTAAAATAA
Found at i:21730960 original size:28 final size:28
Alignment explanation
Indices: 21730898--21730969 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
21730888 ATTTTAAATT
21730898 TATTAAAATTATTTTTTAAAATATAAAA
1 TATTAAAATTATTTTTTAAAATATAAAA
*
21730926 TTATTAAAATTATTTATTTGAAATA-ATAAA
1 -TATTAAAATTATTT-TTTAAAATATA-AAA
*
21730956 -ATTAAAATAATTTT
1 TATTAAAATTATTTT
21730970 AATTTACAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.03
28 12 0.31
29 15 0.38
30 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (28 bp):
TATTAAAATTATTTTTTAAAATATAAAA
Found at i:21731003 original size:11 final size:12
Alignment explanation
Indices: 21730979--21731010 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
21730969 TAATTTACAA
21730979 TTTCATCATCTT
1 TTTCATCATCTT
21730991 TTTCATC-TCTT
1 TTTCATCATCTT
21731002 TTTCATCAT
1 TTTCATCAT
21731011 TTTAATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTCATCATCTT
Found at i:21732023 original size:21 final size:22
Alignment explanation
Indices: 21731994--21732036 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
21731984 AAAATAATTT
21731994 AAATATTTT-AT-ATTTTAAAA
1 AAATATTTTAATAATTTTAAAA
21732014 AAATAATTTTAATAATTTTAAAA
1 AAAT-ATTTTAATAATTTTAAAA
21732037 TTATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATTTTAATAATTTTAAAA
Found at i:21732025 original size:30 final size:29
Alignment explanation
Indices: 21731961--21732033 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
21731951 AATTAAATTT
*
21731961 ATTTAATAATTTTATTATTTCAAAAAATA
1 ATTTAATAATTTTATTATTTAAAAAAATA
21731990 ATTTAA-ATATTTTA-TATTTTAAAAAAATA
1 ATTTAATA-ATTTTATTA-TTTAAAAAAATA
21732019 ATTTTAATAATTTTA
1 A-TTTAATAATTTTA
21732034 AAATTATTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.08
29 24 0.62
30 11 0.28
31 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTAATAATTTTATTATTTAAAAAAATA
Found at i:21739868 original size:36 final size:34
Alignment explanation
Indices: 21739827--21739898 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
21739817 GATTTGTCTG
21739827 TTTTCTCTCTTA-ATTAGAGTTTTGTTGTTT-TTTAAT
1 TTTTCTCTCTTAGATT-GA--TTTG-TGTTTATTTAAT
*
21739863 TTTTCTCTTTTAGATTGATTTGTGTTTATTTAAT
1 TTTTCTCTCTTAGATTGATTTGTGTTTATTTAAT
21739897 TT
1 TT
21739899 GTAAGGCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 5 0.15
34 12 0.36
36 13 0.39
37 3 0.09
ACGTcount: A:0.17, C:0.07, G:0.11, T:0.65
Consensus pattern (34 bp):
TTTTCTCTCTTAGATTGATTTGTGTTTATTTAAT
Found at i:21744296 original size:20 final size:22
Alignment explanation
Indices: 21744271--21744311 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21744261 AACATTCGAT
21744271 ATTTGA-ATTT-AATTTTTTTA
1 ATTTGATATTTAAATTTTTTTA
21744291 ATTTGATATTTAAATTTTTTT
1 ATTTGATATTTAAATTTTTTT
21744312 TAGCTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
ATTTGATATTTAAATTTTTTTA
Found at i:21744852 original size:92 final size:91
Alignment explanation
Indices: 21744756--21744932 Score: 207
Period size: 92 Copynumber: 1.9 Consensus size: 91
21744746 AAATTATATG
* * ** *
21744756 CCAAATTAGGAAAAAAAGTCAAGTTCAGG-TACCAAATTGGA-C-TTTCAAAAATGTTAAATACT
1 CCAAATTAAGAAAAAAAGTCAAGTT-AGGTTACC-AATTGGACCAATAAAAAAAT-TTAAATACC
*
21744818 AATTTAAGGAAAAAGTGTCAAGTTTAGGTA
63 AAATTAA-GAAAAAGTGTCAAGTTTAGGTA
** * *
21744848 CCAAATTAAGAAAAATTGTCAAGTTTGGTTACCAATTGGACCAATAAAAAAATTTAAGTACCAAA
1 CCAAATTAAGAAAAAAAGTCAAGTTAGGTTACCAATTGGACCAATAAAAAAATTTAAATACCAAA
21744913 TTAAGAAAAAGTGTCAAGTT
66 TTAAGAAAAAGTGTCAAGTT
21744933 CATATACAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
91 25 0.35
92 40 0.56
93 7 0.10
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (91 bp):
CCAAATTAAGAAAAAAAGTCAAGTTAGGTTACCAATTGGACCAATAAAAAAATTTAAATACCAAA
TTAAGAAAAAGTGTCAAGTTTAGGTA
Found at i:21744861 original size:31 final size:32
Alignment explanation
Indices: 21744821--21744882 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
21744811 AAATACTAAT
21744821 TTAAGGAAAAAGTGTCAAGTTTAGG-TACCAAA
1 TTAAGGAAAAAGTGTCAAGTTT-GGTTACCAAA
*
21744853 TTAA-GAAAAATTGTCAAGTTTGGTTACCAA
1 TTAAGGAAAAAGTGTCAAGTTTGGTTACCAA
21744883 TTGGACCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 2 0.07
31 22 0.79
32 4 0.14
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (32 bp):
TTAAGGAAAAAGTGTCAAGTTTGGTTACCAAA
Found at i:21747489 original size:6 final size:6
Alignment explanation
Indices: 21747478--21747503 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21747468 TATTAAATTG
21747478 ATTCTA ATTCTA ATTCTA ATTCTA AT
1 ATTCTA ATTCTA ATTCTA ATTCTA AT
21747504 AGATTGATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTCTA
Found at i:21752607 original size:3 final size:3
Alignment explanation
Indices: 21752599--21752631 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21752589 AATGTTCATA
21752599 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21752632 CTGAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21762336 original size:17 final size:17
Alignment explanation
Indices: 21762314--21762349 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21762304 AGGGCCACAA
21762314 AAAAAATAAAATTAAGC
1 AAAAAATAAAATTAAGC
* *
21762331 AAAAAATCAAATTACGC
1 AAAAAATAAAATTAAGC
21762348 AA
1 AA
21762350 TGTGTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.11, G:0.06, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAATTAAGC
Found at i:21763305 original size:20 final size:20
Alignment explanation
Indices: 21763280--21763337 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
21763270 GTACGATAAT
21763280 TTTTATAATTTTTTTATGAA
1 TTTTATAATTTTTTTATGAA
* * *
21763300 TTTTAT-ATTTATTTA-CAT
1 TTTTATAATTTTTTTATGAA
*
21763318 TTTGTATAATTTTCTTATGA
1 TTT-TATAATTTTTTTATGA
21763338 CTTTATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 4 0.14
19 11 0.38
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTTATGAA
Found at i:21763399 original size:19 final size:20
Alignment explanation
Indices: 21763377--21763422 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
21763367 TTTCTATATA
21763377 TTTTATAAAATTTT-ACAAT
1 TTTTATAAAATTTTAACAAT
**
21763396 TTTT-TTTAATTTTAACAAT
1 TTTTATAAAATTTTAACAAT
21763415 TTTTATAA
1 TTTTATAA
21763423 TTTTTTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 7 0.33
19 13 0.62
20 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTATAAAATTTTAACAAT
Found at i:21763423 original size:18 final size:18
Alignment explanation
Indices: 21763385--21763426 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
21763375 TATTTTATAA
*
21763385 AATTTTACAATTTTTTTT
1 AATTTTACAATTTTTTAT
21763403 AATTTTAACAA-TTTTTAT
1 AATTTT-ACAATTTTTTAT
21763421 AATTTT
1 AATTTT
21763427 TTTATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTACAATTTTTTAT
Found at i:21763451 original size:28 final size:27
Alignment explanation
Indices: 21763371--21763455 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 27
21763361 TCCATATTTC
*
21763371 TATATATTTTATAAAATTTTACAATTTTTT
1 TATA-ATTTTAAAAAATTTT--AATTTTTT
**
21763401 T-TAATTTTAACAATTTTTATAATTTTTT
1 TATAATTTTAA-AAAATTT-TAATTTTTT
21763429 TATAATTTTAAATAAATTTTAATTTTT
1 TATAATTTTAAA-AAATTTTAATTTTT
21763456 ATATTATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
28 24 0.52
29 20 0.43
30 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (27 bp):
TATAATTTTAAAAAATTTTAATTTTTT
Found at i:21766606 original size:23 final size:22
Alignment explanation
Indices: 21766492--21766658 Score: 92
Period size: 23 Copynumber: 7.2 Consensus size: 22
21766482 AAATACTTAA
*
21766492 CAGTAAGCACACAAGTGCTGGATAAA
1 CAGTAAGCACACAAGTGC---A-AAT
21766518 CAGTAAGCACACACAGTGC-AAT
1 CAGTAAGCACACA-AGTGCAAAT
*
21766540 CCAATAAGCACACACAGTGC-AAT
1 -CAGTAAGCACACA-AGTGCAAAT
* * * *
21766563 CAATAGGCGCACATAGCGCAAAT
1 CAGTAAGCACACA-AGTGCAAAT
*
21766586 CAGTAGGCACACAAGGTGCAAAAT
1 CAGTAAGCACACAA-GTGC-AAAT
* *
21766610 -AGTAAGCACGCAAAGTG-AGAAA
1 CAGTAAGCACAC-AAGTGCA-AAT
21766632 CAGTAAGCACACAAAGTGCGAAA-
1 CAGTAAGCACAC-AAGTGC-AAAT
21766655 CAGT
1 CAGT
21766659 TAGCGCGCTA
Statistics
Matches: 118, Mismatches: 13, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.01
22 20 0.17
23 70 0.59
24 8 0.07
25 1 0.01
26 13 0.11
27 5 0.04
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.13
Consensus pattern (22 bp):
CAGTAAGCACACAAGTGCAAAT
Found at i:21768492 original size:22 final size:22
Alignment explanation
Indices: 21768465--21768520 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
21768455 TAATTTATTT
21768465 TTAAAAATTATAAAAAAAAATA
1 TTAAAAATTATAAAAAAAAATA
*
21768487 TTAAAAATTATAAAAAAAATTA
1 TTAAAAATTATAAAAAAAAATA
21768509 -TAGAAAATTATA
1 TTA-AAAATTATA
21768521 TAAGAATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
TTAAAAATTATAAAAAAAAATA
Found at i:21768522 original size:12 final size:12
Alignment explanation
Indices: 21768467--21768523 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 12
21768457 ATTTATTTTT
21768467 AAAAATTATA-A
1 AAAAATTATATA
* *
21768478 AAAAA-AATATT
1 AAAAATTATATA
21768489 AAAAATTATA-A
1 AAAAATTATATA
*
21768500 AAAAAAT-TATA
1 AAAAATTATATA
*
21768511 GAAAATTATATA
1 AAAAATTATATA
21768523 A
1 A
21768524 GAATTATTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
10 5 0.15
11 22 0.65
12 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (12 bp):
AAAAATTATATA
Found at i:21768620 original size:18 final size:17
Alignment explanation
Indices: 21768594--21768640 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 17
21768584 AATTTTAAAC
21768594 TTTTTATAAAATATATA
1 TTTTTATAAAATATATA
*
21768611 TTTTTAATAATTTATATATA
1 TTTTT-ATAA--AATATATA
21768631 TTTTTATAAA
1 TTTTTATAAA
21768641 TTTCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 5 0.20
18 4 0.16
19 4 0.16
20 12 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTTATAAAATATATA
Found at i:21768654 original size:17 final size:17
Alignment explanation
Indices: 21768632--21768665 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21768622 TTATATATAT
21768632 TTTTATAA-ATTTCTAAA
1 TTTTATAATATTT-TAAA
21768649 TTTTATAATATTTTAAA
1 TTTTATAATATTTTAAA
21768666 AAATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATAATATTTTAAA
Found at i:21769042 original size:10 final size:10
Alignment explanation
Indices: 21769011--21769128 Score: 57
Period size: 10 Copynumber: 11.6 Consensus size: 10
21769001 TATTCATAGA
21769011 TTTATAATAT
1 TTTATAATAT
*
21769021 TTAATAA-AT
1 TTTATAATAT
21769030 TTTATAAT-T
1 TTTATAATAT
21769039 TTT-TCAATAT
1 TTTAT-AATAT
* *
21769049 TTTCTAAAAT
1 TTTATAATAT
*
21769059 TTCTA-AAAAT
1 TT-TATAATAT
*
21769069 ATATATAATAT
1 -TTTATAATAT
* *
21769080 TTTTTCATATT
1 TTTATAATA-T
*
21769091 TTTCTTAATAT
1 TTT-ATAATAT
*
21769102 ATTAATAATATT
1 -TTTATAATA-T
21769114 TTTATAA-AT
1 TTTATAATAT
21769123 TTTATA
1 TTTATA
21769129 TCACTTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
8 1 0.01
9 22 0.26
10 30 0.36
11 23 0.27
12 8 0.10
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTATAATAT
Found at i:21769234 original size:31 final size:31
Alignment explanation
Indices: 21769181--21769263 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
21769171 TTAGATAATT
*
21769181 TAAAAATTAATTAAATCC-TTATA-AAATAAA
1 TAAAAAATAATTAAA-CCTTTATATAAATAAA
* *
21769211 TAAATAAATATTTAAACCTTTATATAAATAAT
1 TAAA-AAATAATTAAACCTTTATATAAATAAA
*
21769243 TAAAAATTAATTAAACCTTTA
1 TAAAAAATAATTAAACCTTTA
21769264 GTAATTTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 6 0.13
31 29 0.64
32 10 0.22
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.37
Consensus pattern (31 bp):
TAAAAAATAATTAAACCTTTATATAAATAAA
Found at i:21774885 original size:58 final size:59
Alignment explanation
Indices: 21774646--21774981 Score: 570
Period size: 59 Copynumber: 5.7 Consensus size: 59
21774636 ACCCGAGGGC
* *
21774646 AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
21774705 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
21774764 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
**
21774823 AAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATTTAGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
**
21774881 AAAATGGTAATTTTTAGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC-GGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* *
21774939 AAAATGGTAATTTTCAGTGAAATCGGGGTT-AAAATGTAATTTT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT
21774982 GGTAAAGTTT
Statistics
Matches: 267, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
57 12 0.04
58 88 0.33
59 167 0.63
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
Found at i:21775413 original size:161 final size:159
Alignment explanation
Indices: 21775139--21775442 Score: 434
Period size: 161 Copynumber: 1.9 Consensus size: 159
21775129 TGAAAATCTT
* **
21775139 GAAAAATTTTGGACCAATTTTGTAATTAAATAAAAGTCGATTCAAGGATTAAATTAAAACAAAAA
1 GAAAAATTATGGACCAATTTCATAATTAAATAAAAGTCGATTCAAGGATTAAATTAAAACAAAAA
**
21775204 AAATAAAAAGGACTAAATGCAGAAAATAATCAAAACATGACACGTGGCAACCTCTGGTGCAGTCA
66 AAATAAAAAGGACTAAATGCAGAAAATAATCAAAACATGACACGTGGCAACCTCTGGCACAGTCA
21775269 AAAAGTCAAAGGATCAGTTTATAAACCTC
131 AAAAGTCAAAGGATCAGTTTATAAACCTC
* **
21775298 GAAAAATTATGGAGCCAATTTCATAATTAAA-ACAAAGTTGATT-TGGGATTAAATTAAAACAAA
1 GAAAAATTATGGA-CCAATTTCATAATTAAATA-AAAGTCGATTCAAGGATTAAATTAAAACAAA
* * *
21775361 TTAAAAATGAAAAGGACTAAATGCA-TAAATAATCCAATACATGACACGTGGCAACCTCTGGCAC
64 --AAAAATAAAAAGGACTAAATGCAGAAAATAAT-CAAAACATGACACGTGGCAACCTCTGGCAC
*
21775425 AGTCAAACAGTCAAAGGA
126 AGTCAAAAAGTCAAAGGA
21775443 CTAATTATAA
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
159 31 0.24
160 31 0.24
161 66 0.52
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.23
Consensus pattern (159 bp):
GAAAAATTATGGACCAATTTCATAATTAAATAAAAGTCGATTCAAGGATTAAATTAAAACAAAAA
AAATAAAAAGGACTAAATGCAGAAAATAATCAAAACATGACACGTGGCAACCTCTGGCACAGTCA
AAAAGTCAAAGGATCAGTTTATAAACCTC
Found at i:21776105 original size:19 final size:19
Alignment explanation
Indices: 21776083--21776126 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21776073 CCCCTTTTCA
21776083 TTTTATTC-TGTTCTTTATT
1 TTTTATTCTTGTTCTTT-TT
* *
21776102 TTTTGTTCTTTTTCTTTTT
1 TTTTATTCTTGTTCTTTTT
21776121 TTTTAT
1 TTTTAT
21776127 CCTTATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTATTCTTGTTCTTTTT
Found at i:21777098 original size:29 final size:29
Alignment explanation
Indices: 21777062--21777136 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
21777052 GGATCATTGT
21777062 AATTTGGGTCACTTGTAAAATTTGGACTC
1 AATTTGGGTCACTTGTAAAATTTGGACTC
*** * * *
21777091 AATTTGGGTTTTTTTTAAGATTTGGGCTC
1 AATTTGGGTCACTTGTAAAATTTGGACTC
*
21777120 AATTTGGG-CCCTTGTAA
1 AATTTGGGTCACTTGTAA
21777137 TTGGACATTG
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.43
Consensus pattern (29 bp):
AATTTGGGTCACTTGTAAAATTTGGACTC
Found at i:21777190 original size:6 final size:6
Alignment explanation
Indices: 21777179--21777244 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
21777169 TTTAATCTTT
*
21777179 ATTTAA ATTTAA ATTTAA A-TTAA ATTTAA ATATCT-A ATTTTA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA
* *
21777227 A-ATAA ATCTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
21777245 CAAATTTAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
5 10 0.20
6 36 0.71
7 4 0.08
8 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:21777201 original size:11 final size:11
Alignment explanation
Indices: 21777179--21777209 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
21777169 TTTAATCTTT
21777179 ATTTAAATTTAA
1 ATTTAAA-TTAA
21777191 ATTTAAATTAA
1 ATTTAAATTAA
21777202 ATTTAAAT
1 ATTTAAAT
21777210 ATCTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:21777621 original size:69 final size:69
Alignment explanation
Indices: 21777520--21778399 Score: 1329
Period size: 69 Copynumber: 12.8 Consensus size: 69
21777510 GCTCTTCAGG
* * *
21777520 GAGATAGAGACTTTGCTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
1 GAGATAAAGAC-TTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
* *
21777585 TCTCG
65 TTTCA
21777590 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT-ACCGTTGCTCTTACTTCAA
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGA-CGTTGCTCTTACTTCAA
21777654 TTTCA
65 TTTCA
** *
21777659 GAGATAAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
21777724 TTCA
66 TTCA
** * *
21777728 GAGATAAAGACCCGATATCCAACTCTACTCCAATTTCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA-
**
21777793 TTTTG
65 TTTCA
* *
21777798 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTTAAGAGGATGCCGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
21777863 TTCA
66 TTCA
* *
21777867 GAGATAAAGACTTGATATCCAACTCTACTTCAATTCCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
21777932 TTCA
66 TTCA
* ** *
21777936 GAGATGAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
*
21778001 TTCG
66 TTCA
*
21778005 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
21778070 TTCA
66 TTCA
* *
21778074 GAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
21778139 TTCA
66 TTCA
* * * * *
21778143 GAGATGAAGA-TGTGTTATCC-ATTCTGCTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAA
1 GAGATAAAGACT-TGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
*
21778206 TTTCG
65 TTTCA
*
21778211 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
21778276 TTCA
66 TTCA
* *
21778280 GAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
21778345 TTCA
66 TTCA
* * * *
21778349 GAGATGAAGA-TGTGTTATCC-ACTCTACTTCAATTTCAAGGGGTTGACGTTG
1 GAGATAAAGACT-TGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
21778400 AGATCTGCAA
Statistics
Matches: 742, Mismatches: 61, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
68 88 0.12
69 582 0.78
70 72 0.10
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (69 bp):
GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
TTCA
Found at i:21778030 original size:277 final size:276
Alignment explanation
Indices: 21777520--21778399 Score: 1374
Period size: 277 Copynumber: 3.2 Consensus size: 276
21777510 GCTCTTCAGG
* * *
21777520 GAGATAGAGACTTTGCTATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
1 GAGATAAAGAC-TTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA
* *
21777585 TCTCGGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT-ACCGTTGCTCTTAC
65 TTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGA-CGTTGCTCTTAC
21777649 TTCAATTTCAGAGATAAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTC
129 TTCAATTTCAGAGATAAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTC
* *
21777714 TTACTTCAATTTCAGAGATAAAGACCCGATATCCAACTCTACTCCAATTTCGAGAGGATGACGTT
194 TTACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTT
**
21777779 GCTCTTACTTCAATTTTTG
259 GCTCTTACTTCAA-TTTCA
* *
21777798 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTTAAGAGGATGCCGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* *
21777863 TTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTCCGAGAGGATGACGTTGCTCTTACTT
66 TTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTT
*
21777928 CAATTTCAGAGATGAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTT
131 CAATTTCAGAGATAAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTT
* * * *
21777993 ACTTCAATTTCGGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAACGTTGC
196 ACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGC
21778058 TCTTACTTCAATTTCA
261 TCTTACTTCAATTTCA
* *
21778074 GAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAAT
1 GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
* * * * *
21778139 TTCAGAGATGAAGA-TGTGTTATCC-ATTCTGCTTCAATTTCAAGGGGATGACGTTGCTCTTACT
66 TTCAGAGATAAAGACT-TGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACT
* ** * *
21778202 TCAATTTCGGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCT
130 TCAATTTCAGAGATAAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCT
21778267 TACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTG
195 TACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTG
21778332 CTCTTACTTCAATTTCA
260 CTCTTACTTCAATTTCA
* * * *
21778349 GAGATGAAGA-TGTGTTATCC-ACTCTACTTCAATTTCAAGGGGTTGACGTTG
1 GAGATAAAGACT-TGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
21778400 AGATCTGCAA
Statistics
Matches: 554, Mismatches: 45, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
274 28 0.05
275 188 0.34
276 84 0.15
277 243 0.44
278 11 0.02
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (276 bp):
GAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAAT
TTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTT
CAATTTCAGAGATAAAGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTT
ACTTCAATTTCAGAGATAAAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGC
TCTTACTTCAATTTCA
Found at i:21778273 original size:206 final size:207
Alignment explanation
Indices: 21777536--21778399 Score: 1462
Period size: 206 Copynumber: 4.2 Consensus size: 207
21777526 GAGACTTTGC
* *
21777536 TATCCAACTTTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATCTCGGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
21777601 TTGATATCCAACTCTACTTCAATTTCAAGAGGATACCGTTGCTCTTACTTCAATTTCAGAGATAA
66 TTGATATCCAACTCTACTTCAATTTCAAGAGGATACCGTTGCTCTTACTTCAATTTCAGAGATAA
*
21777666 AGACCCGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
131 AGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
*
21777731 ATAAAGACCCGA
196 ATGAAGACCCGA
* * *
21777743 TATCCAACTCTACTCCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTTTGGAGATAAAGA
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAA-TTTCGGAGATAAAGA
* *
21777808 CTTGATATCCAACTCTACTTCAATTTTAAGAGGATGCCGTTGCTCTTACTTCAATTTCAGAGATA
65 CTTGATATCCAACTCTACTTCAATTTCAAGAGGATACCGTTGCTCTTACTTCAATTTCAGAGATA
* *
21777873 AAGACTTGATATCCAACTCTACTTCAATTCCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
130 AAGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGA
21777938 GATGAAGACCCGA
195 GATGAAGACCCGA
*
21777951 TATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
*
21778016 TTGATATCCAACTCTACTTCAATTTCAAGAGGATAACGTTGCTCTTACTTCAATTTCAGAGATAA
66 TTGATATCCAACTCTACTTCAATTTCAAGAGGATACCGTTGCTCTTACTTCAATTTCAGAGATAA
21778081 AGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
131 AGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
*** *
21778146 ATGAAGATGTGT
196 ATGAAGACCCGA
* * *
21778158 TATCC-ATTCTGCTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
*
21778222 TTGATATCCAACTCTACTTCAATTTCAAGAGGATGCCGTTGCTCTTACTTCAATTTCAGAGATAA
66 TTGATATCCAACTCTACTTCAATTTCAAGAGGATACCGTTGCTCTTACTTCAATTTCAGAGATAA
21778287 AGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
131 AGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
*** *
21778352 ATGAAGATGTGT
196 ATGAAGACCCGA
* *
21778364 TATCC-ACTCTACTTCAATTTCAAGGGGTTGACGTTG
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTG
21778400 AGATCTGCAA
Statistics
Matches: 625, Mismatches: 31, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
206 228 0.36
207 199 0.32
208 198 0.32
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (207 bp):
TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
TTGATATCCAACTCTACTTCAATTTCAAGAGGATACCGTTGCTCTTACTTCAATTTCAGAGATAA
AGACCTGATATCCAACTCTACTTCAATTTCGAGAGGATGACGTTGCTCTTACTTCAATTTCAGAG
ATGAAGACCCGA
Found at i:21786841 original size:16 final size:16
Alignment explanation
Indices: 21786802--21786841 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
21786792 GCTATCTAAG
*
21786802 CTTTCAACTCAGCCTC
1 CTTTCAAGTCAGCCTC
21786818 CTTTCAAGT-AGCTCTC
1 CTTTCAAGTCAGC-CTC
21786834 CTTTCAAG
1 CTTTCAAG
21786842 GCGTTTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.20, C:0.35, G:0.10, T:0.35
Consensus pattern (16 bp):
CTTTCAAGTCAGCCTC
Found at i:21790471 original size:29 final size:29
Alignment explanation
Indices: 21790438--21790657 Score: 148
Period size: 29 Copynumber: 7.5 Consensus size: 29
21790428 GGGGGTAATA
21790438 TAAAATGGTAATTTTCGATGAAATCAGGG
1 TAAAATGGTAATTTTCGATGAAATCAGGG
** * *
21790467 TAAAAATGG-AATTTTAAAAG-ATTCGAGGG
1 T-AAAATGGTAATTTTCGATGAAATC-AGGG
* *
21790496 TAAAATGGTAATTTTCGGTGAAATCGGGG
1 TAAAATGGTAATTTTCGATGAAATCAGGG
** * *
21790525 TTAAAAATGG-AATTTTAAAAG-ATTCAGGGG
1 -T-AAAATGGTAATTTTCGATGAAATCA-GGG
* *
21790555 TAAAATGGTAATTTTCGGTGAAATCGAGGT
1 TAAAATGGTAATTTTCGATGAAATC-AGGG
** * * *
21790585 TAAAAATGG-AATTTTAAAAG-ATTCGGGGG
1 T-AAAATGGTAATTTTCGATGAAATC-AGGG
*
21790614 TAAAATGGTAATTTTCGATGAAATCGGGG
1 TAAAATGGTAATTTTCGATGAAATCAGGG
21790643 TTAAAAT-GTAATTTT
1 -TAAAATGGTAATTTT
21790658 GGTAAAGTTT
Statistics
Matches: 144, Mismatches: 33, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
28 24 0.17
29 62 0.43
30 43 0.30
31 15 0.10
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (29 bp):
TAAAATGGTAATTTTCGATGAAATCAGGG
Found at i:21790549 original size:59 final size:59
Alignment explanation
Indices: 21790319--21790657 Score: 433
Period size: 59 Copynumber: 5.7 Consensus size: 59
21790309 ACTCGGGGGC
* **
21790319 AAAATGGTAATTTT-GGTAAAATTAGGGTT-AAAATGGAATTTTAAAAGATTCG-GGGAT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGG-T
** * *
21790376 AAAATGGTAAATTTT-GGCAAAATCGGGGTTAAAAATAGAA-TTTAAAAGATTCGGGGGTAATAT
1 AAAATGGT-AATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGG-----T
* *
21790439 AAAATGGTAATTTTCGATGAAATCAGGG-TAAAAATGGAATTTTAAAAGATTCGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
21790497 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTC-AGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGA-GGGT
* *
21790556 AAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
* *
21790615 AAAATGGTAATTTTCGATGAAATCGGGGTT-AAAATGTAATTTT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTT
21790658 GGTAAAGTTT
Statistics
Matches: 253, Mismatches: 17, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
57 8 0.03
58 71 0.28
59 123 0.49
62 16 0.06
63 35 0.14
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
Found at i:21790710 original size:118 final size:118
Alignment explanation
Indices: 21790314--21790657 Score: 416
Period size: 121 Copynumber: 2.9 Consensus size: 118
21790304 TGGATACTCG
* * * *
21790314 GGGGCAAAATGGTAATTTT-GGTAAAAT-TAGGGTTAAAATGGAATTTTAAAAGATTCG-GGGAT
1 GGGGTAAAATGATAATTTTCGGTAAAATCGAGGGTAAAAATGGAATTTTAAAAGATTCGAGGG-T
* * *
21790376 AAAATGGTAAATTTTGGCA--AAATCGGGGTTAAAAATAGAA-TTTAAAAGATTCG
65 AAAATGGT-AATTTTCG-ATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCA
* * *
21790429 GGGGTAATATAAAATGGTAATTTTCGATGAAATC-AGGGTAAAAATGGAATTTTAAAAGATTCGA
1 GGGG-----TAAAATGATAATTTTCGGTAAAATCGAGGGTAAAAATGGAATTTTAAAAGATTCGA
*
21790493 GGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCA
61 GGGTAAAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCA
* * * *
21790551 GGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTA
1 GGGGTAAAATGATAATTTTCGGTAAAATCGAGGGTAAAAATGGAATTTTAAAAGATTCGAGGGTA
*
21790616 AAATGGTAATTTTCGATGAAATCGGGGTT-AAAATGTAATTTT
66 AAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTT
21790658 GGTAAAGTTT
Statistics
Matches: 204, Mismatches: 13, Indels: 22
0.85 0.05 0.09
Matches are distributed among these distances:
115 4 0.02
117 36 0.18
118 61 0.30
120 21 0.10
121 63 0.31
122 19 0.09
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.31
Consensus pattern (118 bp):
GGGGTAAAATGATAATTTTCGGTAAAATCGAGGGTAAAAATGGAATTTTAAAAGATTCGAGGGTA
AAATGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCA
Found at i:21790719 original size:30 final size:31
Alignment explanation
Indices: 21790637--21790721 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 31
21790627 TTCGATGAAA
* *
21790637 TCGGGGTTAAAATGTA-ATTTTGGTAAAGTT
1 TCGGGGTCAAAATGTATATTTTGGAAAAGTT
21790667 TCGGGGTCAAAA-GTATAATTTTGGAAAAGTT
1 TCGGGGTCAAAATGTAT-ATTTTGGAAAAGTT
*
21790698 T-GGGGTCAAAATGTATTTTTTGGA
1 TCGGGGTCAAAATGTATATTTTGGA
21790722 CAATTTAGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
29 3 0.06
30 28 0.57
31 18 0.37
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.38
Consensus pattern (31 bp):
TCGGGGTCAAAATGTATATTTTGGAAAAGTT
Found at i:21791037 original size:160 final size:162
Alignment explanation
Indices: 21790829--21791121 Score: 466
Period size: 161 Copynumber: 1.8 Consensus size: 162
21790819 AATTTTTGGA
*
21790829 CCAATTTTGTAATTAAATAAAAGTCGATTCAAGGATTAAATTAAAACAAATTAAAAATAAAAAGG
1 CCAATTTCGTAATTAAATAAAAGTCGATTCAAGGATTAAATTAAAACAAATTAAAAATAAAAAGG
**
21790894 ACTAAATGCAAAAATAATCCAA-AAATGACACGTGGCAACCTCTGGTGCAGTCAAAAAGTCAAAG
66 ACTAAATGCAAAAATAATCCAATAAATGACACGTGGCAACCTCTGGCACAGTCAAAAAGTCAAAG
21790958 GACCAGTTTATAAACCTCGAAAAATTATGGGG
131 GACCAGTTTATAAACCTCGAAAAATTATGGGG
* ** *
21790990 CCAATTTCGTAATTAAA-ACAAAGTTGATT-TGGGATTAAATTAAAACAAATTAAAAATGAAAAG
1 CCAATTTCGTAATTAAATA-AAAGTCGATTCAAGGATTAAATTAAAACAAATTAAAAATAAAAAG
* * *
21791053 GACTAAATGCATAAATAATCCAATACATGACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAA
65 GACTAAATGCAAAAATAATCCAATAAATGACACGTGGCAACCTCTGGCACAGTCAAAAAGTCAAA
21791118 GGAC
130 GGAC
21791122 TAAATTATAA
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
160 54 0.45
161 66 0.55
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (162 bp):
CCAATTTCGTAATTAAATAAAAGTCGATTCAAGGATTAAATTAAAACAAATTAAAAATAAAAAGG
ACTAAATGCAAAAATAATCCAATAAATGACACGTGGCAACCTCTGGCACAGTCAAAAAGTCAAAG
GACCAGTTTATAAACCTCGAAAAATTATGGGG
Found at i:21791207 original size:161 final size:160
Alignment explanation
Indices: 21790854--21791218 Score: 409
Period size: 161 Copynumber: 2.3 Consensus size: 160
21790844 AATAAAAGTC
*
21790854 GATTCAAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAAAAATAATCCAAAAA
1 GATT-AAGGATTAAATTAAAACAAATTAAAAATGAAAAGGACTAAATGCAAAAATAATCCAAAAA
** ** *
21790919 TGACACGTGGCAACCTCTGGTGCAGTCAAAAAGTCAAAGGACCAGTTTATAAACCTCGAAAAATT
65 TGACACGTGGCAACCTCTGGCACAGTCAAAAAGTCAAAGGACCAAATTATAAACCTCAAAAAATT
** * * * *
21790984 ATGGGGCCAATTTCGTAATTAAAACAAAGTT
130 ACAGGGCAAATTTCGCAAATAAAACAAAGAT
** * *
21791015 GATTTGGGATTAAATTAAAACAAATTAAAAATGAAAAGGACTAAATGCATAAATAATCCAATACA
1 GATTAAGGATTAAATTAAAACAAATTAAAAATGAAAAGGACTAAATGCAAAAATAATCCAA-AAA
* *
21791080 TGACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAA-CT-AATTAAAA
65 TGACACGTGGCAACCTCTGGCACAGTCAAAAAGTCAAAGGACCAAATTATAAACCTCAA--AAAA
21791143 TTACAGGGCAAATTT-GCAAATAATTAA-AAAGAT
128 TTACAGGGCAAATTTCGCAAATAA--AACAAAGAT
* * * *
21791176 GCCA-TAAGGACTAAATTGAAGCAAA-TAAAAATGTGAAAGGACT
1 G--ATTAAGGATTAAATTAAAACAAATTAAAAATG-AAAAGGACT
21791219 GATTGCGCAA
Statistics
Matches: 172, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
159 1 0.01
160 61 0.35
161 83 0.48
162 26 0.15
163 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (160 bp):
GATTAAGGATTAAATTAAAACAAATTAAAAATGAAAAGGACTAAATGCAAAAATAATCCAAAAAT
GACACGTGGCAACCTCTGGCACAGTCAAAAAGTCAAAGGACCAAATTATAAACCTCAAAAAATTA
CAGGGCAAATTTCGCAAATAAAACAAAGAT
Found at i:21791790 original size:19 final size:19
Alignment explanation
Indices: 21791768--21791811 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
21791758 CCCCTTTTCA
21791768 TTTTATTCTGTTCTTTATT
1 TTTTATTCTGTTCTTTATT
* * *
21791787 TTTTGTTCTTTTCTTTTTT
1 TTTTATTCTGTTCTTTATT
21791806 TTTTAT
1 TTTTAT
21791812 CCTTATTGAA
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:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTATTCTGTTCTTTATT
Found at i:21792749 original size:15 final size:17
Alignment explanation
Indices: 21792729--21792763 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
21792719 GGGTCAAAAA
21792729 TGGGTCA-TTGT-AATT
1 TGGGTCACTTGTAAATT
21792744 TGGGTCACTTGTAAATT
1 TGGGTCACTTGTAAATT
21792761 TGG
1 TGG
21792764 ACTCAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 4 0.22
17 7 0.39
ACGTcount: A:0.20, C:0.09, G:0.29, T:0.43
Consensus pattern (17 bp):
TGGGTCACTTGTAAATT
Found at i:21792868 original size:6 final size:6
Alignment explanation
Indices: 21792857--21792923 Score: 75
Period size: 6 Copynumber: 11.2 Consensus size: 6
21792847 TTTAATCTTT
*
21792857 ATTTAA ATTTAA ATTTAA A-TTAA ATTTAA ATATCTAA TTTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA ATTTAA ATTTAA
* *
21792906 A-ATAA ATCTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
21792924 CAAATTTAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 9 0.17
6 37 0.71
7 2 0.04
8 4 0.08
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:21792928 original size:27 final size:25
Alignment explanation
Indices: 21792898--21792947 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
21792888 ATCTAATTTT
21792898 AAATTTA-AAATAAATCTAAATTTAAAC
1 AAATTTAGAAA-AAATC--AATTTAAAC
21792925 AAATTTAGAAAAAATCAATTTAA
1 AAATTTAGAAAAAATCAATTTAA
21792948 CTCAAAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.32
27 12 0.55
28 3 0.14
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (25 bp):
AAATTTAGAAAAAATCAATTTAAAC
Found at i:21796654 original size:59 final size:58
Alignment explanation
Indices: 21796582--21796722 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 58
21796572 ATTTTGGACT
*
21796582 TTCGAGGGTTAAAAATGTAATTTTTGGTGAAA-GAAGGGTCAAAAATGGAATCTTGGAAAG
1 TTCGCGGG-TAAAAATGTAATTTTTGGTGAAACG-A-GGTCAAAAATGGAATCTTGGAAAG
* * * *
21796642 TTTGCGGGT-AAAATGGTGATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG
1 TTCGCGGGTAAAAAT-GTAATTTTTGGTGAAA-CGAGGTCAAAAATGGAATCTTGGAAAG
* *
21796701 TTCGGGGGTAAAAATATAATTT
1 TTCGCGGGTAAAAATGTAATTT
21796723 ATGAACAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
58 5 0.07
59 50 0.74
60 12 0.18
61 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (58 bp):
TTCGCGGGTAAAAATGTAATTTTTGGTGAAACGAGGTCAAAAATGGAATCTTGGAAAG
Found at i:21796712 original size:29 final size:29
Alignment explanation
Indices: 21796616--21796715 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
21796606 TGGTGAAAGA
* *
21796616 AGGGTCAAAAATGGAATCTTGGAAAGTTTG
1 AGGGT-AAAAATGGAATTTTGGAAAGTTCG
* *
21796646 CGGGT-AAAATGGTGATTTTTGGTGAAA--TCG
1 AGGGTAAAAAT-G-GAATTTT-G-GAAAGTTCG
*
21796676 AGGTTAAAAATGGAATTTTGGAAAGTTCG
1 AGGGTAAAAATGGAATTTTGGAAAGTTCG
*
21796705 GGGGTAAAAAT
1 AGGGTAAAAAT
21796716 ATAATTTATG
Statistics
Matches: 54, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
27 4 0.07
28 6 0.11
29 19 0.35
30 15 0.28
31 6 0.11
32 4 0.07
ACGTcount: A:0.35, C:0.05, G:0.31, T:0.29
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTGGAAAGTTCG
Found at i:21797796 original size:21 final size:20
Alignment explanation
Indices: 21797751--21797797 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
21797741 TAATATTATT
21797751 ATTTAAAATTAATTAATACC
1 ATTTAAAATTAATTAATACC
*
21797771 ATTTAAAACTTTAGTTAATA-C
1 ATTTAAAA--TTAATTAATACC
21797792 ATTTAA
1 ATTTAA
21797798 TATATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 7 0.29
22 9 0.38
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTTAAAATTAATTAATACC
Found at i:21798592 original size:17 final size:17
Alignment explanation
Indices: 21798572--21798616 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
21798562 TTTCAAATGT
21798572 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
21798589 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
*
21798605 ATTTAAAATTAA
1 ATTTAAATTTAA
21798617 TCTCAAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:21800955 original size:3 final size:3
Alignment explanation
Indices: 21800947--21800985 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
21800937 CTTAATCGGG
21800947 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21800986 GCTGCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21807661 original size:53 final size:54
Alignment explanation
Indices: 21807577--21807681 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 54
21807567 ATGAAGAAAC
* * * * *
21807577 TGGACGTTTCCAAGAATCCCAGTTCACGGAAACTCCGTTTCAGGATATCAACGT
1 TGGACGTGTACAAGAATCCCAGTTCACGGAAACGCCATTTCAGGAGATCAACGT
21807631 TGGACGTGTACAAGAA-CCCAGTTC-CAGGAAACGCCATTTCAGGAGATCAAC
1 TGGACGTGTACAAGAATCCCAGTTCAC-GGAAACGCCATTTCAGGAGATCAAC
21807682 AACGCCAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.02
53 30 0.67
54 14 0.31
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (54 bp):
TGGACGTGTACAAGAATCCCAGTTCACGGAAACGCCATTTCAGGAGATCAACGT
Found at i:21807727 original size:3 final size:3
Alignment explanation
Indices: 21807714--21807743 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21807704 AGATCAAGGT
21807714 AGA AGA A-A AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
21807744 AGAACCAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:21807781 original size:36 final size:36
Alignment explanation
Indices: 21807741--21807814 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
21807731 AGAAGAAGAA
*
21807741 GAAAGAACCAGA-AGTCAGGACTTTTCATTCTATAGG
1 GAAAGAA-CAGAGAGTCAGGACTTTTCACTCTATAGG
* * *
21807777 GAAAGAACAGAGAGTGAGGGCTTTTCACTCTGTAGG
1 GAAAGAACAGAGAGTCAGGACTTTTCACTCTATAGG
21807813 GA
1 GA
21807815 CTGGAACGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (36 bp):
GAAAGAACAGAGAGTCAGGACTTTTCACTCTATAGG
Found at i:21820837 original size:24 final size:25
Alignment explanation
Indices: 21820810--21820856 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
21820800 TGTCAAATTT
*
21820810 AAATACTAAAATAGA-AAAAAATAC
1 AAATACGAAAATAGAGAAAAAATAC
21820834 AAATACGAAAATAGAGAAAAAAT
1 AAATACGAAAATAGAGAAAAAAT
21820857 TATATTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.70, C:0.06, G:0.09, T:0.15
Consensus pattern (25 bp):
AAATACGAAAATAGAGAAAAAATAC
Found at i:21833245 original size:65 final size:65
Alignment explanation
Indices: 21833164--21833295 Score: 237
Period size: 65 Copynumber: 2.0 Consensus size: 65
21833154 TTTATGCACA
* * *
21833164 GTACCATATAAAATCCAATCCCGACTAAGGAAATTGTGAATAGGTTAAAATCGATCTTACTTAGT
1 GTACCATAAAAAATCCAATCCCGACTAACGAAATTGTGAATAGGTTAAAATCGATCTTACCTAGT
21833229 GTACCATAAAAAATCCAATCCCGACTAACGAAATTGTGAATAGGTTAAAATCGATCTTACCTAGT
1 GTACCATAAAAAATCCAATCCCGACTAACGAAATTGTGAATAGGTTAAAATCGATCTTACCTAGT
21833294 GT
1 GT
21833296 CCAAACCCCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (65 bp):
GTACCATAAAAAATCCAATCCCGACTAACGAAATTGTGAATAGGTTAAAATCGATCTTACCTAGT
Found at i:21834584 original size:30 final size:30
Alignment explanation
Indices: 21834540--21834774 Score: 106
Period size: 30 Copynumber: 7.6 Consensus size: 30
21834530 GGGGTTAAAA
*
21834540 TTAAAATGGCAATTTTCGGTGAAATCGGGG
1 TTAAAATGGCAATTTTAGGTGAAATCGGGG
** **
21834570 TTAAGAATGG-AATTTTAGAAG-CTTCGGGG
1 TTAA-AATGGCAATTTTAGGTGAAATCGGGG
* * *
21834599 GTAAAATGGTAATTTTTGGTGAAATCGGGG
1 TTAAAATGGCAATTTTAGGTGAAATCGGGG
*** *
21834629 TTAAAAATGG-AATTTTAAAAG-ATTCGAGGG
1 TT-AAAATGGCAATTTTAGGTGAAATCG-GGG
* * * *
21834659 -TAAAATGGTAATTTTCGATGAAATAGGGGTTG
1 TTAAAATGGCAATTTTAGGTGAAAT-CGGG--G
* * *
21834691 TTAAAGACGG-AATTTTAGTTAGAAGCTTCGGGG
1 TTAAA-ATGGCAATTTTAGGT-GAA--ATCGGGG
* *
21834724 TGTAAAATGGTAATTTTTGTGTGAAATCGGGG
1 T-TAAAATGGCAATTTTAG-GTGAAATCGGGG
21834756 TTTTAAAATGG-AATTTTAG
1 --TTAAAATGGCAATTTTAG
21834775 AAGTTTTGGG
Statistics
Matches: 153, Mismatches: 32, Indels: 38
0.69 0.14 0.17
Matches are distributed among these distances:
28 12 0.08
29 30 0.20
30 33 0.22
31 13 0.08
32 14 0.09
33 25 0.16
34 21 0.14
35 4 0.03
36 1 0.01
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.34
Consensus pattern (30 bp):
TTAAAATGGCAATTTTAGGTGAAATCGGGG
Found at i:21834598 original size:29 final size:29
Alignment explanation
Indices: 21834564--21834673 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 29
21834554 TTCGGTGAAA
*
21834564 TCGGGGTTAAGAATGG-AATTTTAGAAGCT
1 TCGGGGTTAA-AATGGTAATTTTAGAAGAT
* * ** *
21834593 TCGGGGGTAAAATGGTAATTTTTGGTGAAA
1 TCGGGGTTAAAATGGTAATTTTAGAAG-AT
*
21834623 TCGGGGTTAAAAATGG-AATTTTAAAAGAT
1 TCGGGGTT-AAAATGGTAATTTTAGAAGAT
21834652 TCGAGGG-TAAAATGGTAATTTT
1 TCG-GGGTTAAAATGGTAATTTT
21834674 CGATGAAATA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
28 12 0.19
29 28 0.44
30 17 0.27
31 7 0.11
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33
Consensus pattern (29 bp):
TCGGGGTTAAAATGGTAATTTTAGAAGAT
Found at i:21834638 original size:59 final size:59
Alignment explanation
Indices: 21834541--21834777 Score: 276
Period size: 59 Copynumber: 3.8 Consensus size: 59
21834531 GGGTTAAAAT
* *
21834541 TAAAATGGCAATTTTCGGTGAAATCGGGGTTAAGAATGGAATTTTAGAAGCTTCGGGGG
1 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* * * *
21834600 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGAGGG
1 TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
* * * *
21834659 TAAAATGGTAATTTTCGATGAAATAGGGGTTGTTAAAGACGGAATTTTAGTTAGAAGCTTCGGGG
1 TAAAATGGTAATTTTCGGTGAAAT-CGGG--GTTAAAAATGGAA--TT--TTAGAAGCTTCGGGG
21834724 TG
59 -G
* *
21834726 TAAAATGGTAATTTTTGTGTGAAATCGGGGTTTTAAAATGGAATTTTAGAAG
1 TAAAATGGTAATTTTCG-GTGAAATCGGGG-TTAAAAATGGAATTTTAGAAG
21834778 TTTTGGGGTA
Statistics
Matches: 148, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
59 75 0.51
60 3 0.02
62 18 0.12
64 4 0.03
65 1 0.01
66 21 0.14
67 20 0.14
68 6 0.04
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (59 bp):
TAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGG
Found at i:21834688 original size:29 final size:29
Alignment explanation
Indices: 21834541--21834688 Score: 97
Period size: 29 Copynumber: 5.0 Consensus size: 29
21834531 GGGTTAAAAT
* * *
21834541 TAAAATGGCAATTTTCGGTGAAATCGGGG
1 TAAAATGGTAATTTTAGATGAAATCGGGG
* **
21834570 TTAAGAATGG-AATTTTAGAAG-CTTCGGGGG
1 -TAA-AATGGTAATTTTAGATGAAATC-GGGG
* *
21834600 TAAAATGGTAATTTTTGGTGAAATCGGGG
1 TAAAATGGTAATTTTAGATGAAATCGGGG
* * *
21834629 TTAAAAATGG-AATTTTAAAAG-ATTCGAGGG
1 -T-AAAATGGTAATTTTAGATGAAATCG-GGG
* *
21834659 TAAAATGGTAATTTTCGATGAAATAGGGG
1 TAAAATGGTAATTTTAGATGAAATCGGGG
21834688 T
1 T
21834689 TGTTAAAGAC
Statistics
Matches: 89, Mismatches: 20, Indels: 19
0.70 0.16 0.15
Matches are distributed among these distances:
28 12 0.13
29 34 0.38
30 31 0.35
31 12 0.13
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.31
Consensus pattern (29 bp):
TAAAATGGTAATTTTAGATGAAATCGGGG
Found at i:21834918 original size:30 final size:30
Alignment explanation
Indices: 21834868--21834998 Score: 194
Period size: 30 Copynumber: 4.4 Consensus size: 30
21834858 GTAAAATGGT
*
21834868 AAAATGGTAATTTTTG-AAAGTTTTGGGGTC
1 AAAAT-GTAATTTTGGAAAAGTTTTGGGGTC
*
21834898 AAAATGTAATTTTGGAAAAGTTTTAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
* *
21834928 AAAATATAATTTTGGAAAAG-TTTGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
21834957 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTC
*
21834987 AAAATATAATTT
1 AAAATGTAATTT
21834999 GGATAATTTA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
29 35 0.38
30 56 0.62
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTC
Found at i:21834961 original size:59 final size:59
Alignment explanation
Indices: 21834875--21834998 Score: 205
Period size: 59 Copynumber: 2.1 Consensus size: 59
21834865 GGTAAAATGG
*
21834875 TAATTTTTGAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATA
1 TAATTTTGGAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATA
* *
21834934 TAATTTTGGAAAAG-TTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGG-AAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATA
21834993 TAATTT
1 TAATTT
21834999 GGATAATTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 57 0.93
60 4 0.07
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (59 bp):
TAATTTTGGAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATA
Found at i:21835396 original size:161 final size:163
Alignment explanation
Indices: 21835089--21835418 Score: 452
Period size: 161 Copynumber: 2.0 Consensus size: 163
21835079 ACTAATTTGA
* *
21835089 AAACCTTGAAAAATTTTTGGACCAATTTTGTAATTAAATAAAAGTTAATTCAAGGACTAAATGAA
1 AAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTTAATTCAAGGACTAAATGAA
* * *
21835154 AATAAATTAAAAATAGAAGGGACTAAATGCAGAGAAATAAGCCAAAAATTGACACGTGGCAACCT
66 AACAAATTAAAAATAAAAAGGACTAAATGCA-AGAAATAAGCCAAAAATTGACACGTGGCAACCT
* **
21835219 CTGGTGCAGTCAAACAGTCAAAGGACTAGTTTAT
130 CTGGTACAGTCAAACAGTCAAAGGACTAAATTAT
* * ** * *
21835253 AAACCTTGAAAAATTATTGGGCCAATTTCGTAATTAAA-ATAAAGTTGATT-TTGGATTAAATTA
1 AAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATA-AAAGTTAATTCAAGGACTAAATGA
* * *
21835316 AAACAAATTAAAAATAAAAAGGACTAAATGC-ATAAATAATCCAAAACA-TGACACGTGGCAATC
65 AAACAAATTAAAAATAAAAAGGACTAAATGCAAGAAATAAGCCAAAA-ATTGACACGTGGCAACC
21835379 TCTGGTACAGTCAAACAGTCAAAGGACTAAATTAT
129 TCTGGTACAGTCAAACAGTCAAAGGACTAAATTAT
21835414 AAACC
1 AAACC
21835419 AATTAAAATT
Statistics
Matches: 147, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
161 64 0.44
162 1 0.01
163 38 0.26
164 44 0.30
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (163 bp):
AAACCTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTTAATTCAAGGACTAAATGAA
AACAAATTAAAAATAAAAAGGACTAAATGCAAGAAATAAGCCAAAAATTGACACGTGGCAACCTC
TGGTACAGTCAAACAGTCAAAGGACTAAATTAT
Found at i:21836233 original size:17 final size:17
Alignment explanation
Indices: 21836213--21836246 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21836203 TAAAACGTTT
*
21836213 ATTATTATTATTAATAC
1 ATTAATATTATTAATAC
21836230 ATTAATATTATTAATAC
1 ATTAATATTATTAATAC
21836247 TGACATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAATATTATTAATAC
Found at i:21836301 original size:34 final size:35
Alignment explanation
Indices: 21836217--21836305 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 35
21836207 ACGTTTATTA
* *
21836217 TTATTATTAATACATTAATATTATTAATACTGACAT
1 TTATTATT-ATACATTAATATCATTAATACAGACAT
* *
21836253 TTATTA-TA-ACCATTACTATCATTAATA-AGATAT
1 TTATTATTATA-CATTAATATCATTAATACAGACAT
*
21836286 TTATTATTATGCATTAATAT
1 TTATTATTATACATTAATAT
21836306 ACATGGGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
33 11 0.25
34 26 0.59
35 1 0.02
36 6 0.14
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.47
Consensus pattern (35 bp):
TTATTATTATACATTAATATCATTAATACAGACAT
Found at i:21836829 original size:14 final size:14
Alignment explanation
Indices: 21836812--21836838 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21836802 ATTTGGACTA
21836812 TTGTAATTGGGCCT
1 TTGTAATTGGGCCT
21836826 TTGTAATTGGGCC
1 TTGTAATTGGGCC
21836839 CTGGGCCATG
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:0.15, C:0.15, G:0.30, T:0.41
Consensus pattern (14 bp):
TTGTAATTGGGCCT
Found at i:21836914 original size:6 final size:6
Alignment explanation
Indices: 21836874--21836981 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
21836864 CATTTGGACT
* * ** *
21836874 TTTAAA TGTTAAA TTTAATA TTTTAT TTTTTA TTTAAA TTTAAA TTCAAA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
21836924 -TTAAA TTTAAATA TTTAAT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
21836972 --TAAA TTTAAA
1 TTTAAA TTTAAA
21836982 ATCAATTTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 50 0.62
7 15 0.19
8 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:21836939 original size:31 final size:31
Alignment explanation
Indices: 21836904--21836966 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
21836894 TTTTATTTTT
* *
21836904 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
* *
21836935 TATTTAATTTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
21836966 T
1 T
21836967 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:21837417 original size:39 final size:39
Alignment explanation
Indices: 21837354--21837497 Score: 236
Period size: 39 Copynumber: 3.7 Consensus size: 39
21837344 CATTCAACTT
*
21837354 TACTTCAATTTCAAA-GGGACGACGTTGTGTTATCCACTC
1 TACTTCAATTT-AAAGGGGATGACGTTGTGTTATCCACTC
*
21837393 TACGTCAATTTAAAGGGGATGACGTTGTGTTATCCACTC
1 TACTTCAATTTAAAGGGGATGACGTTGTGTTATCCACTC
*
21837432 TACTTCAATTTCAAGGGGATGACGTTGTGTTATCCACTC
1 TACTTCAATTTAAAGGGGATGACGTTGTGTTATCCACTC
*
21837471 TACTTCAATTTCAAGGGGATGACGTTG
1 TACTTCAATTTAAAGGGGATGACGTTG
21837498 CTCTTACTTC
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 3 0.03
39 97 0.97
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (39 bp):
TACTTCAATTTAAAGGGGATGACGTTGTGTTATCCACTC
Found at i:21837506 original size:31 final size:31
Alignment explanation
Indices: 21837471--21837651 Score: 100
Period size: 31 Copynumber: 5.4 Consensus size: 31
21837461 TTATCCACTC
21837471 TACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TACTTCAATTTCAAGGGGATGACGTTGCTCT
* * *
21837502 TACTTCAATTTC--GGAGATAAAGACTTGATATCCAACT
1 TACTTCAATTTCAAGGGGAT---GAC--G-T-TGC-TCT
*
21837539 CTACTTCAATTTCAAGAGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGGGGATGACGTTGCTCT
* * *
21837571 TACTTCAATTTC--GGAGATAAAGACCTGATATCCAACT
1 TACTTCAATTTCAAGGGGAT---GA-C-G-T-TGC-TCT
*
21837608 CTACTTCAATTTCAAGAGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGGGGATGACGTTGCTCT
21837640 TACTTCAATTTC
1 TACTTCAATTTC
21837652 GGAGATAAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 44
0.66 0.09 0.26
Matches are distributed among these distances:
29 9 0.08
31 36 0.32
32 9 0.08
33 5 0.04
34 4 0.04
35 4 0.04
36 5 0.04
37 9 0.08
38 24 0.21
40 8 0.07
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGGGGATGACGTTGCTCT
Found at i:21837547 original size:69 final size:69
Alignment explanation
Indices: 21837462--21837683 Score: 419
Period size: 69 Copynumber: 3.2 Consensus size: 69
21837452 GACGTTGTGT
*
21837462 TATCC-ACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
*
21837526 TTGA
66 CTGA
21837530 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
21837595 CTGA
66 CTGA
21837599 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
1 TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
21837664 CTGA
66 CTGA
21837668 TATCCAACTCTACTTC
1 TATCCAACTCTACTTC
21837684 TGTAACACTC
Statistics
Matches: 151, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
68 5 0.03
69 146 0.97
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (69 bp):
TATCCAACTCTACTTCAATTTCAAGAGGATGACGTTGCTCTTACTTCAATTTCGGAGATAAAGAC
CTGA
Found at i:21838488 original size:21 final size:21
Alignment explanation
Indices: 21838462--21838517 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
21838452 ACATTCATTT
21838462 AACCAAACCCATTTAAAACCA
1 AACCAAACCCATTTAAAACCA
*
21838483 AACCAAACCCATTTAAAACCT
1 AACCAAACCCATTTAAAACCA
21838504 AACCAAACCCATTT
1 AACCAAACCCATTT
21838518 GACCCAAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (21 bp):
AACCAAACCCATTTAAAACCA
Found at i:21838612 original size:7 final size:7
Alignment explanation
Indices: 21838591--21838632 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
21838581 CCGTGACCGG
21838591 CCGTTGA
1 CCGTTGA
*
21838598 -CTTTGA
1 CCGTTGA
21838604 CCGTTGA
1 CCGTTGA
21838611 CCGTTGA
1 CCGTTGA
**
21838618 CTATTGA
1 CCGTTGA
21838625 CCGTTGA
1 CCGTTGA
21838632 C
1 C
21838633 TTTTTTCGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (7 bp):
CCGTTGA
Found at i:21838626 original size:21 final size:20
Alignment explanation
Indices: 21838591--21838632 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
21838581 CCGTGACCGG
21838591 CCGTTGACTTTGACCGTTGA
1 CCGTTGACTTTGACCGTTGA
21838611 CCGTTGACTATTGACCGTTGA
1 CCGTTGACT-TTGACCGTTGA
21838632 C
1 C
21838633 TTTTTTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (20 bp):
CCGTTGACTTTGACCGTTGA
Found at i:21839669 original size:3 final size:3
Alignment explanation
Indices: 21839661--21839701 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
21839651 TCTATTCTTT
21839661 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21839702 TTTGAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.